# HG changeset patch # User iuc # Date 1592300065 14400 # Node ID be7097d6e3ffd35ed5b7c9cd6dc7b53e6e6cf83d # Parent 01219a31c48e91967a96f5a28d61a0cc5bbd539d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit 7d31599a80c15f11ed00b2b3cbfb77ed6dfc8f3d" diff -r 01219a31c48e -r be7097d6e3ff hmmscan.xml --- a/hmmscan.xml Mon Jun 11 15:52:41 2018 -0400 +++ b/hmmscan.xml Tue Jun 16 05:34:25 2020 -0400 @@ -26,7 +26,7 @@ - + @@ -34,28 +34,27 @@ - - - oformat and 'tblout' in oformat - - - oformat and 'domtblout' in oformat - - - oformat and 'pfamtblout' in oformat - + - + - - - - + + + + + + + + + + + + - 3.2 + 3.3 @@ -114,83 +114,96 @@ - -#if 'tblout' in str($oformat): - --tblout '$tblout' -#end if - -#if 'domtblout' in str($oformat): - --domtblout '$domtblout' + +#if $oformat: + #for o in str($oformat).split(','): + --$o '$getVar($o, 'MISSING_OUTPUT'+$o)' + #end for #end if - -$acc $noali $notextw - - - - - - - - - - - - -#if 'tblout' in str($oformat): - --tblout '$tblout' -#end if - -#if 'domtblout' in str($oformat): - --domtblout '$domtblout' -#end if - -#if 'pfamtblout' in str($oformat): - --pfamtblout '$pfamtblout' -#end if - $acc $noali $notextw - - + + + + + + + + + + + + + + + + + + + + + + + + + + + oformat and 'tblout' in oformat + + + + + + + oformat and 'domtblout' in oformat + + + + + + + + oformat and 'pfamtblout' in oformat + + + + + + + oformat and 'dfamtblout' in oformat + + + oformat and 'aliscoresout' in oformat + + + + + + + + + + + + + + + + + + - - -#if 'tblout' in str($oformat): - --tblout '$tblout' -#end if - -#if 'dfamtblout' in str($oformat): - --dfamtblout '$dfamtblout' -#end if - -#if 'aliscoresout' in str($oformat): - --aliscoresout '$aliscoresout' -#end if - -$acc $noali $notextw - - - - - - - - - - - - #if $hssi.hssi_select == "singlemx": --popen $hssi.popen @@ -1077,7 +1090,7 @@ # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -The wrappers were written by Eric Rasche and is licensed under Apache2_. The +The wrappers were written by the IUC and are licensed under Apache2_. The documentation is copied from the HMMER3 documentation. .. _Apache2: http://www.apache.org/licenses/LICENSE-2.0 diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.hmm --- a/test-data/MADE1.hmm Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.hmm Tue Jun 16 05:34:25 2020 -0400 @@ -1,268 +1,268 @@ -HMMER3/f [3.2 | June 2018] +HMMER3/f [3.3 | Nov 2019] NAME MADE1 ACC DF0000629.2 DESC MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon LENG 80 -MAXL 369 +MAXL 190 ALPH DNA RF yes MM no CONS yes CS no MAP yes -DATE Fri Jun 8 12:16:29 2018 +DATE Thu May 14 18:28:16 2020 NSEQ 1997 -EFFN 3.911818 +EFFN 4.772646 CKSUM 3015610723 GA 15.98 TC 32.00 NC 15.90 -STATS LOCAL MSV -8.5408 0.71858 -STATS LOCAL VITERBI -9.6095 0.71858 -STATS LOCAL FORWARD -3.4185 0.71858 +STATS LOCAL MSV -8.5015 0.71857 +STATS LOCAL VITERBI -9.4437 0.71857 +STATS LOCAL FORWARD -3.3601 0.71857 HMM A C G T m->m m->i m->d i->m i->i d->m d->d - COMPO 1.24273 1.59618 1.63103 1.16152 + COMPO 1.26505 1.57847 1.62734 1.15507 1.38629 1.38629 1.38629 1.38629 - 0.03960 3.94183 3.94183 1.46634 0.26236 0.00000 * - 1 2.69765 2.44396 2.81521 0.24089 1 t x - - + 0.03610 4.03273 4.03273 1.46634 0.26236 0.00000 * + 1 2.88347 2.59729 3.00766 0.19823 1 t x - - 1.38629 1.38629 1.38629 1.38629 - 0.03960 3.94183 3.94183 1.46634 0.26236 1.09861 0.40547 - 2 2.72939 2.37873 2.85832 0.24244 2 t x - - + 0.03610 4.03273 4.03273 1.46634 0.26236 1.09861 0.40547 + 2 2.84764 2.33775 2.99223 0.22904 2 t x - - 1.38629 1.38629 1.38629 1.38629 - 0.03725 4.00179 4.00179 1.46634 0.26236 1.09861 0.40547 - 3 0.16099 3.16370 2.87328 2.99734 3 a x - - + 0.03318 4.11545 4.11545 1.46634 0.26236 1.09861 0.40547 + 3 0.23331 2.81609 2.55800 2.64795 3 a x - - 1.38629 1.38629 1.38629 1.38629 - 0.03604 4.03416 4.03416 1.46634 0.26236 1.09861 0.40547 - 4 1.98862 2.42132 0.42649 2.10770 4 g x - - + 0.03194 4.15297 4.15297 1.46634 0.26236 1.09861 0.40547 + 4 2.10142 2.78158 0.31096 2.48849 4 g x - - 1.38629 1.38629 1.38629 1.38629 - 0.03539 4.05203 4.05203 1.46634 0.26236 1.09861 0.40547 - 5 1.96369 2.69532 0.36534 2.32099 5 g x - - + 0.03116 4.17730 4.17730 1.46634 0.26236 1.09861 0.40547 + 5 2.03766 2.72525 0.33174 2.44801 5 g x - - 1.38629 1.38629 1.38629 1.38629 - 0.03764 4.06427 3.92372 1.46634 0.26236 1.09861 0.40547 - 6 2.56994 2.11239 2.71946 0.30571 6 t x - - - 1.37159 1.41129 1.39124 1.37159 - 0.03806 3.89715 4.07214 1.48830 0.25587 1.07889 0.41548 - 7 2.58388 2.10353 2.64646 0.31253 12 t x - - - 1.38764 1.38524 1.38764 1.38465 - 0.03494 4.03864 4.09125 1.43264 0.27270 1.09736 0.40609 - 8 2.18552 2.70201 0.28821 2.64645 14 g x - - + 0.03089 4.19229 4.17979 1.46634 0.26236 1.09861 0.40547 + 6 2.50266 2.06695 2.58843 0.33348 6 t x - - + 1.38538 1.38782 1.38660 1.38538 + 0.03244 4.19073 4.08723 1.46789 0.26190 1.09694 0.40630 + 7 2.60375 2.25725 2.67883 0.28406 12 t x - - + 1.38907 1.38673 1.38907 1.38033 + 0.03193 4.10189 4.20735 1.39886 0.28353 1.08252 0.41361 + 8 2.19186 2.93555 0.26232 2.71924 14 g x - - 1.38629 1.38629 1.38629 1.38629 - 0.03628 4.09157 3.96779 1.46634 0.26236 1.09861 0.40547 - 9 2.16916 2.82142 0.28427 2.60854 15 g x - - - 1.38091 1.39033 1.38365 1.39033 - 0.03566 4.00237 4.08886 1.42105 0.27636 1.08174 0.41401 - 10 2.45517 2.15232 2.42886 0.34277 18 t x - - - 1.39065 1.39065 1.39065 1.37335 - 0.03536 4.01212 4.09576 1.42916 0.27379 1.09844 0.40555 - 11 2.10260 2.95484 0.28160 2.64222 21 g x - - - 1.36740 1.40555 1.40555 1.36740 - 0.03843 3.92069 4.02468 1.45555 0.26562 1.09860 0.40547 - 12 2.54740 0.30185 2.61355 2.21647 26 c x - - - 1.38748 1.38276 1.38748 1.38748 - 0.03457 4.05446 4.09623 1.43672 0.27142 1.08954 0.41003 - 13 0.28443 2.72003 2.32214 2.48149 28 a x - - - 1.38740 1.38740 1.38298 1.38740 - 0.03441 4.05976 4.10001 1.43856 0.27085 1.09845 0.40555 - 14 0.29412 2.55413 2.49679 2.35701 30 a x - - - 1.38194 1.39067 1.38194 1.39067 - 0.03505 4.02482 4.10005 1.42899 0.27385 1.09875 0.40540 - 15 0.18837 2.99710 2.82270 2.77556 33 a x - - - 1.39015 1.39472 1.37503 1.38539 - 0.03725 3.97815 4.02618 1.41936 0.27690 1.09910 0.40522 - 16 0.50816 2.05151 2.22111 1.82407 37 a x - - - 1.36727 1.38730 1.39683 1.39405 - 0.04830 3.89881 3.61610 1.36783 0.29391 1.08909 0.41026 - 17 2.11260 2.73141 0.29747 2.64152 41 g x - - - 1.36913 1.40376 1.40376 1.36913 - 0.03705 3.93681 4.08299 1.45644 0.26535 1.09300 0.40828 - 18 2.24459 1.90539 2.34054 0.43234 46 t x - - - 1.33632 1.42493 1.39937 1.38665 - 0.04427 3.64574 4.06297 1.63077 0.21788 1.12291 0.39354 - 19 0.44322 2.17202 2.18055 2.03175 57 a x - - - 1.41047 1.41471 1.36338 1.35797 - 0.03970 3.81957 4.07540 1.58572 0.22916 1.12604 0.39203 - 20 0.33340 2.42691 2.40824 2.25160 66 a x - - - 1.29389 1.44615 1.37917 1.43324 - 0.04223 3.70146 4.09459 1.52224 0.24619 1.08955 0.41003 - 21 2.50563 1.98543 2.69600 0.33746 74 t x - - - 1.39462 1.39462 1.42862 1.32990 - 0.04184 3.80216 3.98177 1.68754 0.20454 1.07729 0.41630 - 22 2.54484 1.97505 2.66483 0.33806 84 t x - - - 1.39134 1.39489 1.38662 1.37246 - 0.03877 3.97504 3.95038 1.41745 0.27751 1.10706 0.40127 - 23 2.10159 2.83856 0.29282 2.61635 88 g x - - - 1.39682 1.39682 1.35536 1.39682 - 0.05046 3.75402 3.65808 1.24245 0.34063 1.10542 0.40208 - 24 2.25298 0.61854 2.50691 1.29221 90 c x - - - 1.35803 1.49605 1.46737 1.24379 - 0.06091 3.28322 3.83564 1.80825 0.17906 1.14129 0.38479 - 25 1.27819 2.23285 0.76242 1.91259 106 g x - - - 1.29024 1.67349 1.68279 1.04597 - 0.05752 3.44263 3.73311 2.37512 0.09762 1.13899 0.38587 - 26 1.86925 2.58352 0.39466 2.33986 131 g x - - - 1.31084 1.49412 1.46666 1.29002 - 0.04698 3.54257 4.07715 2.06694 0.13533 1.02968 0.44180 - 27 2.38297 1.93394 2.39162 0.39800 151 t x - - - 1.33582 1.47359 1.44163 1.30411 - 0.04951 3.48445 4.03783 2.00196 0.14511 1.12431 0.39286 - 28 2.41717 2.17810 2.62774 0.32113 170 t x - - - 1.36805 1.48060 1.37439 1.32840 - 0.04849 3.50958 4.05014 2.35966 0.09922 1.12592 0.39208 - 29 2.57764 2.35132 2.56552 0.28512 194 t x - - - 1.43829 1.43458 1.24787 1.43829 - 0.04667 3.56670 4.05428 2.27140 0.10889 1.12876 0.39073 - 30 2.47248 2.07688 2.62257 0.33172 215 t x - - - 1.25120 1.52623 1.70635 1.15531 - 0.08932 3.31524 3.01336 2.61336 0.07611 1.12714 0.39150 - 31 2.25937 2.13157 2.02027 0.43957 248 t x - - - 1.18172 1.43522 1.72841 1.28150 - 0.07936 2.93117 3.77395 2.34189 0.10109 0.91545 0.51138 - 32 2.04508 2.84981 0.30490 2.58263 280 g x - - - 1.17665 1.66785 1.66218 1.16056 - 0.05998 3.23615 3.96853 2.64545 0.07362 1.07884 0.41550 - 33 2.45103 0.38098 2.56776 1.87147 317 c x - - - 1.24153 1.52524 1.60663 1.22783 - 0.05538 3.39046 3.90294 2.52486 0.08346 1.11838 0.39573 - 34 2.22082 0.36258 2.75077 2.02704 347 c x - - - 1.15008 1.62014 1.86511 1.10673 - 0.06086 3.18178 4.04341 2.75736 0.06556 1.13451 0.38799 - 35 0.27033 2.66664 2.52541 2.43767 388 a x - - - 1.24951 1.47565 1.41392 1.42074 - 0.07123 3.00373 3.95552 2.97118 0.05260 1.13905 0.38584 - 36 2.83107 2.41670 2.97197 0.22235 439 t x - - - 1.37071 1.57683 1.38637 1.23972 - 0.05293 3.45216 3.91807 2.33621 0.10169 1.11003 0.39980 - 37 2.52322 2.25084 2.45909 0.31611 465 t x - - - 1.26335 1.55077 1.59008 1.19965 - 0.07504 3.13329 3.55006 2.90286 0.05643 1.10636 0.40161 - 38 0.45807 2.30687 1.98940 2.03143 512 a x - - - 1.15472 1.67511 1.53797 1.26320 - 0.09820 3.13076 2.99876 2.62156 0.07547 1.16981 0.37168 - 39 2.37471 0.42180 2.44763 1.80427 550 c x - - - 1.23785 1.49058 1.48364 1.35502 - 0.06081 3.19472 4.01643 2.26388 0.10975 1.04403 0.43391 - 40 2.32826 1.95481 2.36781 0.40458 578 t x - - - 1.36586 1.46001 1.43000 1.29720 - 0.05257 3.39673 4.03256 1.75730 0.18936 1.17882 0.36765 - 41 2.68669 2.13935 2.81520 0.28200 592 t x - - - 1.34965 1.42793 1.45781 1.31633 - 0.04735 3.57826 3.99988 1.93109 0.15664 1.13176 0.38929 - 42 2.55904 2.16444 2.70859 0.29952 609 t x - - - 1.12072 1.61936 1.63578 1.26895 - 0.07346 3.25910 3.42962 2.65714 0.07273 1.16768 0.37264 - 43 1.99923 1.61027 2.26343 0.57851 646 t x - - - 1.32290 1.58747 1.61095 1.11018 - 0.06656 3.08568 3.97944 2.30872 0.10468 0.98144 0.46964 - 44 0.23887 2.79899 2.55209 2.60783 675 a x - - - 1.18557 1.50323 1.59070 1.31590 - 0.05597 3.38637 3.88222 2.28298 0.10756 1.13989 0.38545 - 45 0.29593 2.53488 2.53903 2.32335 701 a x - - - 1.08710 1.54222 1.59276 1.40430 - 0.07539 2.94521 3.91062 1.84934 0.17119 1.12860 0.39080 - 46 2.58352 2.40524 2.76700 0.25955 725 t x - - - 1.19685 1.58503 1.74852 1.14293 - 0.06124 3.18279 4.02089 2.64816 0.07341 1.08734 0.41115 - 47 2.13251 2.88788 0.29508 2.50964 764 g x - - - 1.20891 1.55463 1.68206 1.19000 - 0.06526 3.12574 3.94910 2.27651 0.10830 1.09988 0.40483 - 48 2.23841 2.99164 0.25118 2.72900 792 g x - - - 1.26330 1.55339 1.52606 1.24355 - 0.05464 3.34968 4.01313 2.57858 0.07891 1.11066 0.39949 - 49 2.57533 0.32900 2.64632 2.01501 824 c x - - - 1.35118 1.39828 1.40141 1.39516 - 0.04340 3.79297 3.91506 1.54788 0.23914 1.12122 0.39435 - 50 0.46433 2.04127 2.23437 2.00605 833 a x - - - 1.23062 1.36903 1.62282 1.36182 - 0.05764 3.31530 3.92762 2.13660 0.12563 1.09396 0.40780 - 51 0.27513 2.77017 2.28518 2.57549 853 a x - - - 1.27958 1.58726 1.46109 1.25394 - 0.05750 3.30072 3.96214 2.42368 0.09277 1.13333 0.38855 - 52 0.20149 2.86434 2.84551 2.69770 883 a x - - - 1.23645 1.62259 1.71174 1.10368 - 0.05756 3.26729 4.02702 2.37267 0.09787 1.13770 0.38648 - 53 0.26982 2.65833 2.50477 2.46835 911 a x - - - 1.36005 1.50358 1.48100 1.22550 - 0.06921 3.37553 3.42118 2.19529 0.11802 1.13826 0.38622 - 54 0.40022 2.19284 2.22687 2.20396 934 a x - - - 1.12070 1.60472 1.53213 1.35895 - 0.05523 3.36752 3.94966 2.24890 0.11151 1.02145 0.44640 - 55 2.11356 0.46400 2.46442 1.79955 960 c x - - - 1.23932 1.35913 1.50478 1.46331 - 0.05187 3.47055 3.94022 2.17140 0.12106 1.10399 0.40279 - 56 1.85868 0.79440 2.22069 1.25971 983 c x - - - 1.21951 1.50212 1.51138 1.34185 - 0.06404 3.29054 3.69705 1.69351 0.20318 1.11833 0.39575 - 57 1.33272 2.32720 0.71452 1.90215 999 g x - - - 1.12229 1.49343 1.56653 1.42255 - 0.04920 3.46654 4.08749 2.02027 0.14228 1.15003 0.38072 - 58 2.48337 0.43652 2.46331 1.68683 1017 c x - - - 1.34704 1.55461 1.38112 1.28222 - 0.04823 3.61532 3.90311 2.01908 0.14246 1.07530 0.41733 - 59 0.41659 2.44509 1.93972 2.20507 1034 a x - - - 1.38198 1.38198 1.39194 1.38932 - 0.03641 3.98130 4.06929 1.40885 0.28028 1.14581 0.38268 - 60 0.41612 2.39160 1.97116 2.21075 1037 a x - - - 1.03649 1.46430 1.57421 1.57557 - 0.04769 3.52580 4.06641 2.13225 0.12621 1.03124 0.44093 - 61 2.66264 2.12302 2.82746 0.28581 1056 t x - - - 1.36925 1.39635 1.38930 1.39048 - 0.04097 3.97400 3.84718 1.42709 0.27444 1.10349 0.40304 - 62 2.26510 2.13196 2.42551 0.37231 1060 t x - - - 1.37965 1.39147 1.39147 1.38264 - 0.04082 3.91610 3.90805 1.34598 0.30149 1.06394 0.42326 - 63 0.41244 2.25761 2.16787 2.12907 1062 a x - - - 1.34515 1.41203 1.41203 1.37753 - 0.04054 3.77835 4.08203 1.36896 0.29353 1.10284 0.40336 - 64 2.51464 0.37905 2.62296 1.82008 1068 c x - - - 1.39543 1.38753 1.39233 1.37008 - 0.03854 3.90584 4.03535 1.40940 0.28010 1.10667 0.40146 - 65 2.16380 2.11332 2.18714 0.42765 1073 t x - - - 1.38764 1.38471 1.38519 1.38764 - 0.03575 4.05376 4.03073 1.43270 0.27268 1.08530 0.41219 - 66 2.79349 2.39141 2.87271 0.23478 1075 t x - - - 1.37227 1.39101 1.39101 1.39101 - 0.03597 4.01447 4.05827 1.42619 0.27473 1.09128 0.40915 - 67 2.82488 2.47749 2.93179 0.21887 1078 t x - - - 1.38141 1.39112 1.38915 1.38353 - 0.03661 3.99477 4.04370 1.40962 0.28003 1.10594 0.40182 - 68 2.77679 2.30433 2.90694 0.24425 1081 t x - - - 1.37593 1.38989 1.45520 1.32825 - 0.04447 3.68736 3.99242 1.66809 0.20900 1.07378 0.41811 - 69 2.47698 3.17398 0.19595 2.95437 1093 g x - - - 1.38264 1.38264 1.39734 1.38264 - 0.05358 3.96553 3.40487 1.43194 0.27292 1.08430 0.41270 - 70 2.84327 0.27906 2.97336 2.00890 1097 c x - - + 0.03142 4.21107 4.12859 1.46634 0.26236 1.09861 0.40547 + 9 2.07901 2.78051 0.30613 2.56850 15 g x - - + 1.38350 1.38805 1.38560 1.38805 + 0.03149 4.16813 4.16598 1.44243 0.26965 1.09240 0.40859 + 10 2.57980 2.23058 2.70339 0.28799 18 t x - - + 1.38730 1.38730 1.38730 1.38328 + 0.03029 4.19523 4.21518 1.45741 0.26506 1.09679 0.40638 + 11 2.09819 2.95912 0.27277 2.74586 21 g x - - + 1.38506 1.38753 1.38753 1.38506 + 0.03438 4.20499 3.96976 1.46555 0.26260 1.09847 0.40554 + 12 2.73996 0.25202 2.91136 2.26531 26 c x - - + 1.38701 1.38416 1.38701 1.38701 + 0.03125 4.18883 4.16044 1.44829 0.26784 1.07539 0.41728 + 13 0.27970 2.57147 2.50665 2.45312 28 a x - - + 1.38695 1.38695 1.38433 1.38695 + 0.03063 4.20139 4.18737 1.44978 0.26739 1.09652 0.40651 + 14 0.27532 2.53583 2.54819 2.48584 30 a x - - + 1.38514 1.38745 1.38514 1.38745 + 0.03161 4.20713 4.12095 1.45611 0.26545 1.10038 0.40458 + 15 0.22434 2.72071 2.78113 2.61512 33 a x - - + 1.38788 1.38927 1.38318 1.38486 + 0.03686 4.17327 3.87329 1.44180 0.26984 1.10484 0.40236 + 16 0.43251 2.24579 2.21906 1.99092 37 a x - - + 1.36200 1.39388 1.39592 1.39378 + 0.04715 3.92767 3.63579 1.28473 0.32397 1.06747 0.42141 + 17 2.14020 2.88555 0.27611 2.69098 41 g x - - + 1.38394 1.38865 1.38865 1.38394 + 0.03184 4.19737 4.11610 1.46485 0.26281 1.06375 0.42336 + 18 2.54908 2.09631 2.66371 0.31574 46 t x - - + 1.38086 1.39134 1.39054 1.38248 + 0.03937 4.05640 3.84942 1.45345 0.26626 1.11413 0.39779 + 19 0.45711 2.16557 2.17736 1.97423 57 a x - - + 1.38787 1.39103 1.38646 1.37985 + 0.03547 4.14271 3.96510 1.44704 0.26823 1.13642 0.38708 + 20 0.30358 2.53734 2.46922 2.32172 66 a x - - + 1.37069 1.39228 1.38994 1.39244 + 0.03311 4.09596 4.13961 1.41439 0.27849 1.11423 0.39775 + 21 2.54370 2.06068 2.71024 0.31809 74 t x - - + 1.38671 1.38671 1.38837 1.38339 + 0.04565 4.21460 3.51159 1.48099 0.25801 1.14016 0.38532 + 22 2.44416 2.09512 2.52049 0.34288 84 t x - - + 1.38754 1.39327 1.39136 1.37313 + 0.04852 4.04797 3.50981 1.37593 0.29116 1.16476 0.37396 + 23 2.14524 2.93015 0.27618 2.64656 88 g x - - + 1.38759 1.38759 1.38243 1.38759 + 0.04319 4.15548 3.62703 1.43407 0.27225 1.21251 0.35304 + 24 2.08998 0.74813 2.30247 1.19387 90 c x - - + 1.35915 1.41488 1.41633 1.35650 + 0.06422 3.83546 3.20373 1.48098 0.25801 1.22299 0.34863 + 25 1.44195 2.34602 0.62507 2.02072 106 g x - - + 1.38116 1.39439 1.39704 1.37279 + 0.03982 4.11042 3.78798 1.50090 0.25222 1.29946 0.31839 + 26 1.95347 2.71204 0.35652 2.38912 131 g x - - + 1.38844 1.40499 1.38340 1.36868 + 0.03816 3.94046 4.01750 1.48202 0.25771 1.28081 0.32547 + 27 2.17428 2.00153 2.08197 0.46761 151 t x - - + 1.36950 1.40138 1.38862 1.38593 + 0.04163 3.96008 3.82973 1.45086 0.26705 1.29520 0.31999 + 28 2.63064 2.24524 2.71112 0.28024 170 t x - - + 1.38160 1.39124 1.38588 1.38648 + 0.03869 4.04846 3.88745 1.48176 0.25778 1.28474 0.32396 + 29 2.65193 2.29047 2.74924 0.26881 194 t x - - + 1.39316 1.38635 1.37265 1.39316 + 0.04182 4.06311 3.73956 1.56525 0.23450 1.32387 0.30939 + 30 2.64289 2.22300 2.73001 0.28059 215 t x - - + 1.35772 1.41144 1.43663 1.34234 + 0.10242 3.97751 2.54313 1.79643 0.18139 1.29085 0.32163 + 31 2.26891 2.04957 2.21838 0.41703 248 t x - - + 1.39765 1.43259 1.44535 1.27844 + 0.06955 3.31830 3.47470 1.22082 0.34954 0.95096 0.48836 + 32 2.04470 2.73226 0.32260 2.51028 280 g x - - + 1.35741 1.43081 1.42275 1.33747 + 0.04193 3.93063 3.84295 1.76710 0.18733 1.24156 0.34099 + 33 2.35858 0.41780 2.53493 1.78566 317 c x - - + 1.34456 1.41326 1.41477 1.37431 + 0.04602 4.01126 3.61681 1.74585 0.19176 1.18563 0.36464 + 34 2.12811 0.44070 2.57012 1.82744 347 c x - - + 1.37758 1.40714 1.42610 1.33665 + 0.04358 3.89440 3.80370 1.68702 0.20465 1.25818 0.33431 + 35 0.38054 2.35727 2.22578 2.17289 388 a x - - + 1.36892 1.40148 1.39605 1.37907 + 0.04697 3.84843 3.70605 1.58712 0.22880 1.27648 0.32714 + 36 2.58167 2.15098 2.67474 0.30238 439 t x - - + 1.37521 1.39677 1.39678 1.37663 + 0.04670 4.02923 3.58127 1.57528 0.23187 1.30572 0.31605 + 37 2.40504 2.10297 2.45806 0.35376 465 t x - - + 1.38174 1.43412 1.44016 1.29592 + 0.06954 3.75273 3.12982 1.87321 0.16680 1.18134 0.36653 + 38 0.51842 2.13748 1.95630 1.92958 512 a x - - + 1.26062 1.52617 1.46618 1.31546 + 0.06473 3.52691 3.40282 2.11494 0.12856 1.27426 0.32800 + 39 2.41476 0.39430 2.59943 1.81929 550 c x - - + 1.36465 1.40696 1.41230 1.36233 + 0.04348 3.90556 3.79796 1.69053 0.20386 1.30248 0.31726 + 40 2.38183 2.12623 2.50765 0.34690 578 t x - - + 1.38409 1.39798 1.39794 1.36553 + 0.04109 3.97130 3.84392 1.60521 0.22420 1.32862 0.30767 + 41 2.66873 2.32268 2.69641 0.26762 592 t x - - + 1.34240 1.42173 1.41470 1.36850 + 0.04353 3.85338 3.84491 1.60301 0.22476 1.25846 0.33420 + 42 2.53515 2.23303 2.60748 0.30134 609 t x - - + 1.31567 1.43403 1.44808 1.35349 + 0.06381 3.89678 3.18177 1.81251 0.17822 1.30796 0.31522 + 43 2.08517 1.18879 2.27981 0.75753 646 t x - - + 1.35645 1.49693 1.51284 1.20957 + 0.05829 3.38638 3.78127 1.66667 0.20933 1.14206 0.38443 + 44 0.34996 2.35638 2.35834 2.24486 675 a x - - + 1.34533 1.40942 1.43949 1.35397 + 0.04988 3.81123 3.62941 1.63911 0.21586 1.24598 0.33920 + 45 0.39888 2.38014 2.11983 2.15126 701 a x - - + 1.20139 1.47163 1.46073 1.43714 + 0.07468 3.08583 3.63931 1.15859 0.37677 1.23926 0.34193 + 46 2.25489 2.11327 2.45245 0.37369 725 t x - - + 1.34460 1.45056 1.47624 1.28582 + 0.05008 3.62316 3.80979 1.80369 0.17995 1.13293 0.38874 + 47 2.07249 2.78660 0.33175 2.35570 764 g x - - + 1.34151 1.44243 1.46346 1.30651 + 0.05116 3.79082 3.60105 1.78406 0.18387 1.19531 0.36041 + 48 2.02574 2.75520 0.32599 2.49262 792 g x - - + 1.37939 1.40455 1.39773 1.36401 + 0.04184 3.99754 3.78911 1.65229 0.21271 1.21129 0.35355 + 49 2.51376 0.34589 2.65910 1.95593 824 c x - - + 1.37735 1.38944 1.38564 1.39283 + 0.04250 4.03019 3.73634 1.43891 0.27074 1.20591 0.35585 + 50 0.37929 2.28294 2.29219 2.18368 833 a x - - + 1.38032 1.40070 1.41036 1.35471 + 0.03672 4.01292 4.01873 1.58321 0.22981 1.13819 0.38625 + 51 0.30179 2.55721 2.37379 2.40954 853 a x - - + 1.37181 1.42012 1.41076 1.34435 + 0.05016 3.87151 3.57224 1.63505 0.21684 1.18702 0.36403 + 52 0.27218 2.56723 2.58756 2.44958 883 a x - - + 1.36720 1.41773 1.41688 1.34536 + 0.04378 3.95507 3.74330 1.55207 0.23802 1.23311 0.34444 + 53 0.32594 2.44712 2.41620 2.27938 911 a x - - + 1.38564 1.39969 1.39229 1.36784 + 0.08580 4.05257 2.73572 1.54044 0.24116 1.21220 0.35317 + 54 0.53092 2.03055 1.99429 1.93403 934 a x - - + 1.25719 1.43671 1.43475 1.42851 + 0.05952 3.35434 3.77879 1.21135 0.35353 0.94763 0.49046 + 55 2.32427 0.37751 2.63253 1.93323 960 c x - - + 1.34734 1.38792 1.40168 1.40939 + 0.04222 3.98345 3.78472 1.53373 0.24300 1.17391 0.36984 + 56 1.96472 0.77648 2.21308 1.23643 983 c x - - + 1.36239 1.39842 1.41816 1.36725 + 0.04192 3.86418 3.90814 1.48437 0.25702 1.16188 0.37527 + 57 1.38762 2.43385 0.61520 2.10291 999 g x - - + 1.35012 1.39777 1.40329 1.39491 + 0.03407 4.06641 4.11297 1.52565 0.24524 1.14553 0.38281 + 58 2.65508 0.31503 2.81411 1.96622 1017 c x - - + 1.38281 1.41126 1.38498 1.36664 + 0.03307 4.10220 4.13567 1.57966 0.23073 1.16105 0.37565 + 59 0.41196 2.32035 2.07858 2.16890 1034 a x - - + 1.38554 1.38554 1.38819 1.38590 + 0.03358 4.16772 4.04381 1.44043 0.27027 1.19285 0.36148 + 60 0.37748 2.45865 2.09636 2.24468 1037 a x - - + 1.35351 1.39510 1.39860 1.39870 + 0.03659 4.01117 4.02751 1.42256 0.27588 1.02829 0.44257 + 61 2.57329 2.25117 2.74231 0.28234 1056 t x - - + 1.37970 1.38988 1.38806 1.38757 + 0.03371 4.16660 4.03717 1.44400 0.26916 1.07669 0.41661 + 62 2.22816 2.19022 2.37918 0.37432 1060 t x - - + 1.38622 1.38744 1.38744 1.38408 + 0.03436 4.18286 3.98860 1.43760 0.27115 1.07924 0.41529 + 63 0.34842 2.45717 2.22920 2.29357 1062 a x - - + 1.37325 1.39303 1.39303 1.38599 + 0.03680 4.05488 3.97426 1.37157 0.29264 1.10504 0.40227 + 64 2.56440 0.33133 2.70657 1.97833 1068 c x - - + 1.38051 1.39022 1.38613 1.38834 + 0.03425 4.07396 4.09452 1.40426 0.28176 1.06834 0.42095 + 65 2.22725 2.12689 2.33973 0.39065 1073 t x - - + 1.38749 1.38362 1.38658 1.38749 + 0.03106 4.17886 4.18240 1.43637 0.27153 1.10614 0.40172 + 66 2.70567 2.38427 2.77207 0.25041 1075 t x - - + 1.38263 1.38752 1.38752 1.38752 + 0.03104 4.20005 4.16238 1.45551 0.26564 1.08260 0.41357 + 67 2.77703 2.37312 2.82282 0.24188 1078 t x - - + 1.38348 1.39069 1.38333 1.38769 + 0.03659 4.08849 3.95478 1.38473 0.28821 1.09815 0.40570 + 68 2.75338 2.37589 2.82611 0.24320 1081 t x - - + 1.39439 1.40072 1.40186 1.34916 + 0.04141 3.82736 3.97406 1.27797 0.32657 1.05169 0.42978 + 69 2.30274 2.95739 0.24176 2.76754 1093 g x - - + 1.38591 1.38591 1.38745 1.38591 + 0.03131 4.20335 4.14281 1.46244 0.26354 1.07083 0.41965 + 70 2.79994 0.28200 2.99446 2.00361 1097 c x - - 1.38629 1.38629 1.38629 1.38629 - 0.03412 4.08811 4.08811 1.46634 0.26236 0.97936 0.47089 - 71 0.21870 2.83638 2.69251 2.65798 1098 a x - - - 1.37446 1.37942 1.39640 1.39509 - 0.03670 3.93983 4.09935 1.43996 0.27041 1.09889 0.40532 - 72 2.35233 0.46085 2.23804 1.78715 1103 c x - - - 1.38536 1.38781 1.38781 1.38421 - 0.03493 4.03822 4.09272 1.42863 0.27396 1.09816 0.40569 - 73 2.57111 0.32543 2.74124 1.98892 1105 c x - - + 0.02990 4.21806 4.21806 1.46634 0.26236 1.08730 0.41117 + 71 0.32186 2.49114 2.38278 2.30165 1098 a x - - + 1.38095 1.38549 1.38906 1.38970 + 0.03114 4.15948 4.19672 1.44935 0.26752 1.10226 0.40364 + 72 2.53966 0.34721 2.53815 1.99924 1103 c x - - + 1.38409 1.38783 1.38783 1.38544 + 0.03178 4.15601 4.15995 1.42823 0.27409 1.09282 0.40837 + 73 2.68662 0.27379 2.88246 2.15931 1105 c x - - 1.38629 1.38629 1.38629 1.38629 - 0.03381 4.09688 4.09688 1.46634 0.26236 1.09814 0.40570 - 74 0.27014 2.61416 2.53262 2.47636 1106 a x - - + 0.03005 4.21307 4.21307 1.46634 0.26236 1.09252 0.40852 + 74 0.31501 2.49904 2.40066 2.32899 1106 a x - - 1.38629 1.38629 1.38629 1.38629 - 0.03461 4.09267 4.05587 1.46634 0.26236 1.09839 0.40558 - 75 0.52873 2.16549 1.91736 1.90409 1107 a x - - + 0.03236 4.20966 4.07504 1.46634 0.26236 1.09567 0.40694 + 75 0.36972 2.41288 2.17350 2.24680 1107 a x - - 1.38629 1.38629 1.38629 1.38629 - 0.03426 4.08396 4.08396 1.46634 0.26236 1.09364 0.40796 - 76 2.33134 0.38082 2.65861 1.90055 1108 c x - - + 0.03061 4.19489 4.19489 1.46634 0.26236 1.07976 0.41503 + 76 2.42454 0.36916 2.67422 1.88910 1108 c x - - 1.38629 1.38629 1.38629 1.38629 - 0.03466 4.07266 4.07266 1.46634 0.26236 1.09861 0.40547 - 77 2.20588 0.45134 2.35553 1.84373 1109 c x - - + 0.03111 4.17876 4.17876 1.46634 0.26236 1.09861 0.40547 + 77 2.40209 0.35459 2.62494 1.99827 1109 c x - - 1.38629 1.38629 1.38629 1.38629 - 0.03550 4.04912 4.04912 1.46634 0.26236 1.09861 0.40547 - 78 2.69018 2.22054 2.82311 0.26898 1110 t x - - + 0.03189 4.15446 4.15446 1.46634 0.26236 1.09861 0.40547 + 78 2.61838 2.21121 2.70403 0.28691 1110 t x - - 1.38629 1.38629 1.38629 1.38629 - 0.03711 4.00561 4.00561 1.46634 0.26236 1.09861 0.40547 - 79 0.16248 3.15867 2.86159 2.98963 1111 a x - - + 0.03345 4.10748 4.10748 1.46634 0.26236 1.09861 0.40547 + 79 0.16677 3.16394 2.79540 2.99064 1111 a x - - 1.38629 1.38629 1.38629 1.38629 - 0.04048 3.92018 3.92018 1.46634 0.26236 1.09861 0.40547 - 80 0.17484 3.04770 2.86638 2.88183 1112 a x - - + 0.03607 4.03354 4.03354 1.46634 0.26236 1.09861 0.40547 + 80 0.12738 3.34162 3.14941 3.18577 1112 a x - - 1.38629 1.38629 1.38629 1.38629 - 0.02045 3.90014 * 1.46634 0.26236 0.00000 * + 0.01820 4.01567 * 1.46634 0.26236 0.00000 * // diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.nhmmscan_out --- a/test-data/MADE1.nhmmscan_out Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.nhmmscan_out Tue Jun 16 05:34:25 2020 -0400 @@ -1,12 +1,12 @@ # nhmmscan :: search DNA sequence(s) against a DNA profile database -# HMMER 3.2 (June 2018); http://hmmer.org/ -# Copyright (C) 2018 Howard Hughes Medical Institute. +# HMMER 3.3 (Nov 2019); http://hmmer.org/ +# Copyright (C) 2019 Howard Hughes Medical Institute. # Freely distributed under the BSD open source license. # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -# query sequence file: /tmp/tmpp4O0Ju/files/000/dataset_41.dat +# query sequence file: /tmp/tmpqydies2m/files/f/a/5/dataset_fa559c91-0436-48cb-a47d-20062d4af284.dat # target HMM database: localref.hmm -# per-seq hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_43.dat -# hits output in Dfam format: /tmp/tmpp4O0Ju/files/000/dataset_44.dat +# per-seq hits tabular output: /tmp/tmpqydies2m/files/4/7/2/dataset_4723128d-8711-4edb-8afe-a68476a6c127.dat +# hits output in Dfam format: /tmp/tmpqydies2m/files/1/a/e/dataset_1aeea50b-1263-4750-8237-4fc3f10c0999.dat # max ASCII text line length: unlimited # Vit filter P threshold: <= 0.001 # Fwd filter P threshold: <= 1e-05 @@ -18,79 +18,79 @@ Scores for complete hit: E-value score bias Model start end Description ------- ------ ----- -------- ----- ----- ----------- - 8.7e-11 39.2 7.4 MADE1 302390 302466 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon - 6.4e-08 30.0 8.3 MADE1 174456 174498 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon - 9.3e-08 29.5 6.1 MADE1 302466 302390 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon - 6.3e-06 23.7 7.0 MADE1 174493 174456 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 4e-11 41.3 7.5 MADE1 302390 302466 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 1.9e-08 32.8 8.3 MADE1 174456 174498 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 6.3e-08 31.0 6.7 MADE1 302466 302389 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 4.9e-06 25.0 7.0 MADE1 174493 174456 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon ------ inclusion threshold ------ - 1.4 6.5 7.0 MADE1 304073 304104 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 2.2 6.9 7.2 MADE1 304073 304103 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon Annotation for each hit (and alignments): >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to mod len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 39.2 7.4 8.7e-11 4 80 .] 302390 302466 .. 302387 302466 .. 80 0.87 + ! 41.3 7.5 4e-11 4 80 .] 302390 302466 .. 302387 302466 .. 80 0.88 Alignment: - score: 39.2 bits + score: 41.3 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 4 ggttggtgcaaaagtaattgcggtttttgccattacttttaatggc....aaaaaccgcaattacttttgcaccaacctaa 80 - ggt ggtgcaaaa aattg ggtttttgccatt cttttaat gc a aaa g a t ctttt caccaa ctaa - humanchr1/239220001-239550000 302390 GGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCttttA-AAA--GT-AATGCTTTTACACCAATCTAA 302466 - 899******************************************955533.443..33.44689************9986 PP + ggt ggtgcaaaa aattg ggtttttgccatt cttttaat gc aaaa g a t ctttt caccaa ctaa + humanchr1/239220001-239550000 302390 GGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCttttAAAA---GT-AATGCTTTTACACCAATCTAA 302466 + 89*******************************************966644554...34.4578**************997 PP >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to mod len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 30.0 8.3 6.4e-08 1 43 [. 174456 174498 .. 174456 174518 .. 80 0.92 + ! 32.8 8.3 1.9e-08 1 43 [. 174456 174498 .. 174456 174518 .. 80 0.91 Alignment: - score: 30.0 bits + score: 32.8 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 1 ttaggttggtgcaaaagtaattgcggtttttgccattactttt 43 ttaggtt gtgcaaaagtaattg ggtttttg cattactttt humanchr1/239220001-239550000 174456 TTAGGTTAGTGCAAAAGTAATTGTGGTTTTTGTCATTACTTTT 174498 - 589************************************9975 PP + 589************************************9986 PP >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to mod len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 29.5 6.1 9.3e-08 1 77 [. 302466 302390 .. 302466 302387 .. 80 0.74 + ! 31.0 6.7 6.3e-08 1 78 [. 302466 302389 .. 302466 302387 .. 80 0.80 Alignment: - score: 29.5 bits - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 1 ttaggttggtgcaaaagtaattgcggtttttgccattactttt................aatggcaaaaaccgcaattacttttgcaccaacc 77 - ttag ttggtg aaaag cattactttt aatggcaaaaacc caatt ttttgcacc acc - humanchr1/239220001-239550000 302466 TTAGATTGGTGTAAAAG----------------CATTACTTTTaaaagcaattaaaagcAATGGCAAAAACCACAATTGATTTTGCACCGACC 302390 - 68999999999999998................4666777765222222222222222268****************************9998 PP + score: 31.0 bits + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 1 ttaggttggtgcaaaagtaattgcggttttt....gccattacttttaatggcaaaaaccgcaattacttttgcaccaacct 78 + ttag ttggtg aaaag a t tttt gc atta +aatggcaaaaacc caatt ttttgcacc acc + humanchr1/239220001-239550000 302466 TTAGATTGGTGTAAAAGCATT-A---CTTTTaaaaGCAATTAAAAGCAATGGCAAAAACCACAATTGATTTTGCACCGACCA 302389 + 6899************97543.2...23333455566666666666799*****************************9985 PP >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to mod len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 23.7 7.0 6.3e-06 43 80 .] 174493 174456 .. 174513 174456 .. 80 0.91 + ! 25.0 7.0 4.9e-06 43 80 .] 174493 174456 .. 174513 174456 .. 80 0.94 Alignment: - score: 23.7 bits + score: 25.0 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 43 taatggcaaaaaccgcaattacttttgcaccaacctaa 80 taatg caaaaacc caattacttttgcac aacctaa humanchr1/239220001-239550000 174493 TAATGACAAAAACCACAATTACTTTTGCACTAACCTAA 174456 - 689********************************986 PP + 5899*******************************986 PP >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to mod len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ? 6.5 7.0 1.4 41 72 .. 304073 304104 .. 304053 304109 .. 80 0.85 + ? 6.9 7.2 2.2 41 71 .. 304073 304103 .. 304053 304109 .. 80 0.85 Alignment: - score: 6.5 bits - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 41 tttaatggcaaaaaccgcaattacttttgcac 72 - tt a tgg aaaaa ca tta ttttgca - humanchr1/239220001-239550000 304073 TTAAGTGGGAAAAAATACACTTATTTTTGCAT 304104 - 455779************************86 PP + score: 6.9 bits + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 41 tttaatggcaaaaaccgcaattacttttgca 71 + tt a tgg aaaaa ca tta ttttgca + humanchr1/239220001-239550000 304073 TTAAGTGGGAAAAAATACACTTATTTTTGCA 304103 + 456789************************8 PP @@ -98,12 +98,12 @@ ------------------------------------- Query sequence(s): 1 (660000 residues searched) Target model(s): 1 (80 nodes) -Residues passing SSV filter: 63737 (0.0966); expected (0.02) -Residues passing bias filter: 44695 (0.0677); expected (0.02) -Residues passing Vit filter: 2309 (0.0035); expected (0.001) -Residues passing Fwd filter: 2041 (0.00309); expected (1e-05) +Residues passing SSV filter: 60770 (0.0921); expected (0.02) +Residues passing bias filter: 35792 (0.0542); expected (0.02) +Residues passing Vit filter: 1612 (0.00244); expected (0.001) +Residues passing Fwd filter: 1194 (0.00181); expected (1e-05) Total number of hits: 5 (0.000405) # CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.02 -# Mc/sec: 2407.09 +# Mc/sec: 2289.06 // [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.nhmmscan_out.dfamtblout --- a/test-data/MADE1.nhmmscan_out.dfamtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.nhmmscan_out.dfamtblout Tue Jun 16 05:34:25 2020 -0400 @@ -3,8 +3,8 @@ # # target name acc query name bits e-value bias hmm-st hmm-en strand ali-st ali-en env-st env-en modlen description of target # ------------------- ------------------- ------------------- ------ --------- ----- ------- ------- ------ ------- ------- ------- ------- ------- --------------------- -MADE1 DF0000629.2 humanchr1/239220001-239550000 39.2 8.7e-11 7.4 4 80 + 302390 302466 302387 302466 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 30.0 6.4e-08 8.3 1 43 + 174456 174498 174456 174518 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 29.5 9.3e-08 6.1 1 77 - 302466 302390 302466 302387 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 23.7 6.3e-06 7.0 43 80 - 174493 174456 174513 174456 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 6.5 1.4 7.0 41 72 + 304073 304104 304053 304109 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 41.3 4e-11 7.5 4 80 + 302390 302466 302387 302466 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 32.8 1.9e-08 8.3 1 43 + 174456 174498 174456 174518 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 31.0 6.3e-08 6.7 1 78 - 302466 302389 302466 302387 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 25.0 4.9e-06 7.0 43 80 - 174493 174456 174513 174456 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 6.9 2.2 7.2 41 71 + 304073 304103 304053 304109 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.nhmmscan_out.tblout --- a/test-data/MADE1.nhmmscan_out.tblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.nhmmscan_out.tblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,17 +1,17 @@ # target name accession query name accession hmmfrom hmm to alifrom ali to envfrom env to modlen strand E-value score bias description of target #------------------- ---------- -------------------- ---------- ------- ------- ------- ------- ------- ------- ------- ------ --------- ------ ----- --------------------- -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 4 80 302390 302466 302387 302466 80 + 8.7e-11 39.2 7.4 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 1 43 174456 174498 174456 174518 80 + 6.4e-08 30.0 8.3 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 1 77 302466 302390 302466 302387 80 - 9.3e-08 29.5 6.1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 43 80 174493 174456 174513 174456 80 - 6.3e-06 23.7 7.0 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 41 72 304073 304104 304053 304109 80 + 1.4 6.5 7.0 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 4 80 302390 302466 302387 302466 80 + 4e-11 41.3 7.5 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 1 43 174456 174498 174456 174518 80 + 1.9e-08 32.8 8.3 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 1 78 302466 302389 302466 302387 80 - 6.3e-08 31.0 6.7 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 43 80 174493 174456 174513 174456 80 - 4.9e-06 25.0 7.0 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 41 71 304073 304103 304053 304109 80 + 2.2 6.9 7.2 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # # Program: hmmscan -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SCAN -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_41.dat +# Query file: /tmp/tmpqydies2m/files/f/a/5/dataset_fa559c91-0436-48cb-a47d-20062d4af284.dat # Target file: localref.hmm -# Option settings: nhmmscan --tblout /tmp/tmpp4O0Ju/files/000/dataset_43.dat --dfamtblout /tmp/tmpp4O0Ju/files/000/dataset_44.dat --notextw -E 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --B1 110 --B2 240 --B3 1000 --cpu 1 localref.hmm /tmp/tmpp4O0Ju/files/000/dataset_41.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/33/working -# Date: Fri Jun 8 12:19:16 2018 +# Option settings: nhmmscan --tblout /tmp/tmpqydies2m/files/4/7/2/dataset_4723128d-8711-4edb-8afe-a68476a6c127.dat --dfamtblout /tmp/tmpqydies2m/files/1/a/e/dataset_1aeea50b-1263-4750-8237-4fc3f10c0999.dat --notextw -E 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --B1 110 --B2 240 --B3 1000 --cpu 1 localref.hmm /tmp/tmpqydies2m/files/f/a/5/dataset_fa559c91-0436-48cb-a47d-20062d4af284.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/20/working +# Date: Thu May 14 18:55:28 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.out --- a/test-data/MADE1.out Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.out Tue Jun 16 05:34:25 2020 -0400 @@ -1,13 +1,13 @@ # hmmscan :: search sequence(s) against a profile database -# HMMER 3.2 (June 2018); http://hmmer.org/ -# Copyright (C) 2018 Howard Hughes Medical Institute. +# HMMER 3.3 (Nov 2019); http://hmmer.org/ +# Copyright (C) 2019 Howard Hughes Medical Institute. # Freely distributed under the BSD open source license. # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -# query sequence file: /tmp/tmpp4O0Ju/files/000/dataset_20.dat +# query sequence file: /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat # target HMM database: localref.hmm -# per-seq hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_22.dat -# per-dom hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_23.dat -# pfam-style tabular hit output: /tmp/tmpp4O0Ju/files/000/dataset_24.dat +# per-seq hits tabular output: /tmp/tmpqydies2m/files/1/d/a/dataset_1da10e33-3e1c-48fc-abfb-7e3c263ec0df.dat +# per-dom hits tabular output: /tmp/tmpqydies2m/files/7/2/3/dataset_723f3cf1-e0de-4616-aec7-dd16680f3be3.dat +# pfam-style tabular hit output: /tmp/tmpqydies2m/files/7/3/4/dataset_734c7f25-0a22-431b-9a7a-58849fcd6009.dat # max ASCII text line length: unlimited # Vit filter P threshold: <= 0.001 # Fwd filter P threshold: <= 1e-05 @@ -20,54 +20,46 @@ --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- - 5.7e-18 51.8 27.9 2e-12 34.1 0.7 9.6 5 MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon + 9.3e-18 51.2 26.3 1.3e-12 34.8 0.7 8.6 4 MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon Domain annotation for each model (and alignments): >> MADE1 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ? -4.5 0.0 1 1 30 54 .. 80044 80068 .. 80033 80072 .. 0.81 - 2 ? -6.6 3.3 1 1 13 71 .. 154012 154072 .. 154011 154076 .. 0.75 - 3 ! 27.4 0.7 2.4e-10 2.4e-10 1 43 [. 174456 174498 .. 174456 174577 .. 0.66 - 4 ! 34.1 0.7 2e-12 2e-12 2 80 .] 302388 302466 .. 302387 302466 .. 0.86 - 5 ? 2.8 0.7 0.011 0.011 27 75 .. 304060 304107 .. 304022 304109 .. 0.62 + 1 ! 27.4 0.6 2.4e-10 2.4e-10 1 43 [. 174456 174498 .. 174456 174520 .. 0.93 + 2 ? -8.4 5.8 1 1 12 79 .. 197274 197341 .. 197272 197342 .. 0.86 + 3 ! 34.8 0.7 1.3e-12 1.3e-12 2 80 .] 302388 302466 .. 302387 302466 .. 0.87 + 4 ? 1.4 0.4 0.033 0.033 27 74 .. 304060 304106 .. 304029 304108 .. 0.71 Alignments for each domain: - == domain 1 score: -4.5 bits; conditional E-value: 1 - xxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 30 ttgccattacttttaatggcaaaaa 54 - t g catt ttt aatggcaaa a - humanchr1/239220001-239550000 80044 TAGTCATTCATTTCAATGGCAAATA 80068 - 457899***************9865 PP - - == domain 2 score: -6.6 bits; conditional E-value: 1 - xxxxxxxxxxxxxxxxxxxxxxxxx......xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 13 aaaagtaattgcggtttttgccatt......acttttaatggcaaaaaccgcaattacttttgca 71 - aaaagta tt + ttttgc att a tttaa gcaaa a + tta tttgca - humanchr1/239220001-239550000 154012 AAAAGTAGTTTTCAATTTTGCAATTtgaccaATATTTAAATGCAAATATT----TTATATTTGCA 154072 - 78999999999999999999999984444444457777777899988765....67777778776 PP - - == domain 3 score: 27.4 bits; conditional E-value: 2.4e-10 + == domain 1 score: 27.4 bits; conditional E-value: 2.4e-10 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 1 ttaggttggtgcaaaagtaattgcggtttttgccattactttt 43 ttaggtt gtgcaaaagtaattg+ggtttttg cattactttt humanchr1/239220001-239550000 174456 TTAGGTTAGTGCAAAAGTAATTGTGGTTTTTGTCATTACTTTT 174498 - 79**************************************996 PP + 79**************************************997 PP + + == domain 2 score: -8.4 bits; conditional E-value: 1 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 12 caaaagtaattgcggtttttgccattacttttaatggcaaaaaccgcaattacttttgcaccaaccta 79 + caa gtaatt + tttt c att ttt t c aaa c c tta tt t ac a cta + humanchr1/239220001-239550000 197274 CAATGGTAATTTTATTTTTAACTATTTTATTTTTTAACTAAACTCACTTTTATTTATTTACATATCTA 197341 + 567789*******************999999999999*****99999999999988877777776666 PP - == domain 4 score: 34.1 bits; conditional E-value: 2e-12 - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 2 taggttggtgcaaaagtaattgcggtttttgccattacttttaatggca...aaaaccgcaattacttttgcaccaacctaa 80 - t ggt ggtgcaaaa aattg+ggtttttgccatt cttttaat gc aaaa g a t ctttt caccaa ctaa - humanchr1/239220001-239550000 302388 TTGGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCTtttAAAA--G-TAATGCTTTTACACCAATCTAA 302466 - 56899******************************************962223333..3.45578**************997 PP + == domain 3 score: 34.8 bits; conditional E-value: 1.3e-12 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 2 taggttggtgcaaaagtaattgcggtttttgccattacttttaatggcaaaaaccgcaattacttttgcaccaacctaa 80 + t ggt ggtgcaaaa aattg+ggtttttgccatt cttttaat gc a a t ctttt caccaa ctaa + humanchr1/239220001-239550000 302388 TTGGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCTTTTAAAAGTAATGCTTTTACACCAATCTAA 302466 + 6799*****************************************99953333333345578**************997 PP - == domain 5 score: 2.8 bits; conditional E-value: 0.011 - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 27 tttttgccattacttttaatggcaaaaaccgcaattacttttgcaccaa 75 - tttt g c ta tt a tgg aaaaa ++ca tta ttttgca aa - humanchr1/239220001-239550000 304060 TTTTAGACTATA-GTTAAGTGGGAAAAAATACACTTATTTTTGCATTAA 304107 - 222223222222.3556779************************98765 PP + == domain 4 score: 1.4 bits; conditional E-value: 0.033 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 27 tttttgccattacttttaatggcaaaaaccgcaattacttttgcacca 74 + tttt g c ta tt a tgg aaaaa + ca tta ttttgca a + humanchr1/239220001-239550000 304060 TTTTAGACTATA-GTTAAGTGGGAAAAAATACACTTATTTTTGCATTA 304106 + 334444443333.356788*************************9766 PP @@ -81,7 +73,7 @@ Passed Fwd filter: 1 (1); expected 0.0 (1e-05) Initial search space (Z): 1 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] -# CPU time: 0.14u 0.01s 00:00:00.15 Elapsed: 00:00:00.14 -# Mc/sec: 177.58 +# CPU time: 0.21u 0.01s 00:00:00.22 Elapsed: 00:00:00.22 +# Mc/sec: 117.29 // [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.out.domtblout --- a/test-data/MADE1.out.domtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.out.domtblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,18 +1,17 @@ # --- full sequence --- -------------- this domain ------------- hmm coord ali coord env coord # target name accession tlen query name accession qlen E-value score bias # of c-Evalue i-Evalue score bias from to from to from to acc description of target #------------------- ---------- ----- -------------------- ---------- ----- --------- ------ ----- --- --- --------- --------- ------ ----- ----- ----- ----- ----- ----- ----- ---- --------------------- -MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 5.7e-18 51.8 27.9 1 5 1 1 -4.5 0.0 30 54 80044 80068 80033 80072 0.81 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 5.7e-18 51.8 27.9 2 5 1 1 -6.6 3.3 13 71 154012 154072 154011 154076 0.75 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 5.7e-18 51.8 27.9 3 5 2.4e-10 2.4e-10 27.4 0.7 1 43 174456 174498 174456 174577 0.66 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 5.7e-18 51.8 27.9 4 5 2e-12 2e-12 34.1 0.7 2 80 302388 302466 302387 302466 0.86 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 5.7e-18 51.8 27.9 5 5 0.011 0.011 2.8 0.7 27 75 304060 304107 304022 304109 0.62 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 9.3e-18 51.2 26.3 1 4 2.4e-10 2.4e-10 27.4 0.6 1 43 174456 174498 174456 174520 0.93 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 9.3e-18 51.2 26.3 2 4 1 1 -8.4 5.8 12 79 197274 197341 197272 197342 0.86 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 9.3e-18 51.2 26.3 3 4 1.3e-12 1.3e-12 34.8 0.7 2 80 302388 302466 302387 302466 0.87 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 80 humanchr1/239220001-239550000 - 330000 9.3e-18 51.2 26.3 4 4 0.033 0.033 1.4 0.4 27 74 304060 304106 304029 304108 0.71 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # # Program: hmmscan -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SCAN -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_20.dat +# Query file: /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat # Target file: localref.hmm -# Option settings: hmmscan --tblout /tmp/tmpp4O0Ju/files/000/dataset_22.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_23.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_24.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpp4O0Ju/files/000/dataset_20.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/21/working -# Date: Fri Jun 8 12:17:53 2018 +# Option settings: hmmscan --tblout /tmp/tmpqydies2m/files/1/d/a/dataset_1da10e33-3e1c-48fc-abfb-7e3c263ec0df.dat --domtblout /tmp/tmpqydies2m/files/7/2/3/dataset_723f3cf1-e0de-4616-aec7-dd16680f3be3.dat --pfamtblout /tmp/tmpqydies2m/files/7/3/4/dataset_734c7f25-0a22-431b-9a7a-58849fcd6009.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/8/working +# Date: Thu May 14 18:53:22 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.out.pfamtblout --- a/test-data/MADE1.out.pfamtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.out.pfamtblout Tue Jun 16 05:34:25 2020 -0400 @@ -3,25 +3,24 @@ # # name bits E-value n exp bias description # ------------------- ------ --------- --- ----- ----- --------------------- -MADE1 51.8 5.7e-18 5 9.6 27.9 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 51.2 9.3e-18 4 8.6 26.3 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # Domain scores # ------------- # # name bits E-value hit bias env-st env-en ali-st ali-en hmm-st hmm-en description # ------------------- ------ --------- ----- ----- ------ ------ ------ ------ ------ ------ --------------------- -MADE1 34.1 2e-12 4 0.7 302387 302466 302388 302466 2 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 27.4 2.4e-10 3 0.7 174456 174577 174456 174498 1 43 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 2.8 0.011 5 0.7 304022 304109 304060 304107 27 75 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 -4.5 1 1 0.0 80033 80072 80044 80068 30 54 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon -MADE1 -6.6 1 2 3.3 154011 154076 154012 154072 13 71 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 34.8 1.3e-12 3 0.7 302387 302466 302388 302466 2 80 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 27.4 2.4e-10 1 0.6 174456 174520 174456 174498 1 43 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 1.4 0.033 4 0.4 304029 304108 304060 304106 27 74 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 -8.4 1 2 5.8 197272 197342 197274 197341 12 79 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # # Program: hmmscan -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_20.dat +# Query file: /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat # Target file: localref.hmm -# Option settings: hmmscan --tblout /tmp/tmpp4O0Ju/files/000/dataset_22.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_23.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_24.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpp4O0Ju/files/000/dataset_20.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/21/working -# Date: Fri Jun 8 12:17:53 2018 +# Option settings: hmmscan --tblout /tmp/tmpqydies2m/files/1/d/a/dataset_1da10e33-3e1c-48fc-abfb-7e3c263ec0df.dat --domtblout /tmp/tmpqydies2m/files/7/2/3/dataset_723f3cf1-e0de-4616-aec7-dd16680f3be3.dat --pfamtblout /tmp/tmpqydies2m/files/7/3/4/dataset_734c7f25-0a22-431b-9a7a-58849fcd6009.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/8/working +# Date: Thu May 14 18:53:22 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/MADE1.out.tblout --- a/test-data/MADE1.out.tblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/MADE1.out.tblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,14 +1,14 @@ # --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- # target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target #------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- -MADE1 DF0000629.2 humanchr1/239220001-239550000 - 5.7e-18 51.8 27.9 2e-12 34.1 0.7 9.6 5 0 0 5 5 5 2 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon +MADE1 DF0000629.2 humanchr1/239220001-239550000 - 9.3e-18 51.2 26.3 1.3e-12 34.8 0.7 8.6 4 0 0 4 4 4 2 MADE1 (MAriner Derived Element 1), a TcMar-Mariner DNA transposon # # Program: hmmscan -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SCAN -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_20.dat +# Query file: /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat # Target file: localref.hmm -# Option settings: hmmscan --tblout /tmp/tmpp4O0Ju/files/000/dataset_22.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_23.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_24.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpp4O0Ju/files/000/dataset_20.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/21/working -# Date: Fri Jun 8 12:17:53 2018 +# Option settings: hmmscan --tblout /tmp/tmpqydies2m/files/1/d/a/dataset_1da10e33-3e1c-48fc-abfb-7e3c263ec0df.dat --domtblout /tmp/tmpqydies2m/files/7/2/3/dataset_723f3cf1-e0de-4616-aec7-dd16680f3be3.dat --pfamtblout /tmp/tmpqydies2m/files/7/3/4/dataset_734c7f25-0a22-431b-9a7a-58849fcd6009.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 localref.hmm /tmp/tmpqydies2m/files/5/d/3/dataset_5d34ccc7-9920-470e-9f13-678ab2ecd29d.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/8/working +# Date: Thu May 14 18:53:22 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/globins-45-align.sto --- a/test-data/globins-45-align.sto Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins-45-align.sto Tue Jun 16 05:34:25 2020 -0400 @@ -13,47 +13,47 @@ MYG_MOUSE g--LSDGEWQLVLNVWGKVEADLAGHGQEVLIGLFKTHPETLDKFDKFKNLKSEEDMKGSEDLKKHGCTVLTALGTILKK-KGQHAAEIQPLAQSHATKHKIPVKYLEFISEIIIEVLKKRHSGDFGADAQGAMSKALELFRNDIAAKYKelgfqg #=GR MYG_MOUSE PP 8..89***************************************************************************.99******************************************************************7****** MYG_MUSAN v------DWEKVNSVWSAVESDLTAIGQNILLRLFEQYPESQNHFPKFKNKS-LGELKDTADIKAQADTVLSALGNIVKK-KGSHSQPVKALAATHITTHKIPPHYFTKITTIAVDVLSEMYPSEMNAQVQAAFSGAFKIICSDIEKEYKaanfqg -#=GR MYG_MUSAN PP 7......89***************************************9877.89*************************.99****************************************************************997****** +#=GR MYG_MUSAN PP 7......89***************************************9877.99*************************.99****************************************************************997****** HBA_AILME .-VLSPADKTNVKATWDKIGGHAGEYGGEALERTFASFPTTKTYFPHF-DLS-----PGSAQVKAHGKKVADALTTAVGHLD-DLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLASHHPAEFTPAVHASLDKFFSAVSTVLTSKYR...... -#=GR HBA_AILME PP ..69********************************************.9**.....9***********************9.******************************************************************7...... +#=GR HBA_AILME PP ..69********************************************.***.....9************************.******************************************************************7...... HBA_PROLO .-VLSPADKANIKATWDKIGGHAGEYGGEALERTFASFPTTKTYFPHF-DLS-----PGSAQVKAHGKKVADALTLAVGHLD-DLPGALSALSDLHAYKLRVDPVNFKLLSHCLLVTLACHHPAEFTPAVHASLDKFFTSVSTVLTSKYR...... -#=GR HBA_PROLO PP ..69********************************************.9**.....9***********************9.******************************************************************7...... +#=GR HBA_PROLO PP ..69********************************************.***.....9************************.******************************************************************7...... HBA_PAGLA .-VLSSADKNNIKATWDKIGSHAGEYGAEALERTFISFPTTKTYFPHF-DLS-----HGSAQVKAHGKKVADALTLAVGHLE-DLPNALSALSDLHAYKLRVDPVNFKLLSHCLLVTLACHHPAEFTPAVHSALDKFFSAVSTVLTSKYR...... #=GR HBA_PAGLA PP ..69********************************************.***.....***********************98.9*****************************************************************7...... HBA_MACFA .-VLSPADKTNVKAAWGKVGGHAGEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGKKVADALTLAVGHVD-DMPQALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR...... -#=GR HBA_MACFA PP ..69********************************************.***.....************************9.******************************************************************7...... +#=GR HBA_MACFA PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_MACSI .-VLSPADKTNVKDAWGKVGGHAGEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGKKVADALTLAVGHVD-DMPQALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR...... -#=GR HBA_MACSI PP ..69********************************************.***.....************************9.******************************************************************7...... +#=GR HBA_MACSI PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_PONPY .-VLSPADKTNVKTAWGKVGAHAGDYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKDHGKKVADALTNAVAHVD-DMPNALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR...... -#=GR HBA_PONPY PP ..69********************************************.***.....************************9.******************************************************************7...... +#=GR HBA_PONPY PP ..69********************************************.***.....*************************.******************************************************************7...... HBA2_GALCR .-VLSPTDKSNVKAAWEKVGAHAGDYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSTQVKGHGKKVADALTNAVLHVD-DMPSALSALSDLHAHKLRVDPVNFKLLRHCLLVTLACHHPAEFTPAVHASLDKFMASVSTVLTSKYR...... -#=GR HBA2_GALCR PP ..69********************************************.***.....************************9.******************************************************************7...... +#=GR HBA2_GALCR PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_MESAU .-VLSAKDKTNISEAWGKIGGHAGEYGAEALERMFFVYPTTKTYFPHF-DVS-----HGSAQVKGHGKKVADALTNAVGHLD-DLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLANHHPADFTPAVHASLDKFFASVSTVLTSKYR...... -#=GR HBA_MESAU PP ..69********************************************.888.....************************9.******************************************************************7...... +#=GR HBA_MESAU PP ..69********************************************.888.....*************************.******************************************************************7...... HBA2_BOSMU .-VLSAADKGNVKAAWGKVGGHAAEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGAKVAAALTKAVGHLD-DLPGALSELSDLHAHKLRVDPVNFKLLSHSLLVTLASHLPSDFTPAVHASLDKFLANVSTVLTSKYR...... -#=GR HBA2_BOSMU PP ..69********************************************.***.....************************9.******************************************************************7...... +#=GR HBA2_BOSMU PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_ERIEU .-VLSATDKANVKTFWGKLGGHGGEYGGEALDRMFQAHPTTKTYFPHF-DLN-----PGSAQVKGHGKKVADALTTAVNNLD-DVPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLALHHPADFTPAVHASLDKFLATVATVLTSKYR...... -#=GR HBA_ERIEU PP ..69********************************************.999.....9***********************9.9*****************************************************************7...... +#=GR HBA_ERIEU PP ..69********************************************.999.....9************************.******************************************************************7...... HBA_FRAPO .-VLSAADKNNVKGIFGKISSHAEDYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQVKGHGKKVVAALIEAANHID-DIAGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGNVLTAKYR...... -#=GR HBA_FRAPO PP ..69********************************************.***.....************************9.9*****************************************************************7...... +#=GR HBA_FRAPO PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_PHACO .-VLSAADKNNVKGIFTKIAGHAEEYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQIKGHGKKVVAALIEAVNHID-DITGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGTVLTAKYR...... -#=GR HBA_PHACO PP ..69********************************************.***.....************************9.9*****************************************************************7...... +#=GR HBA_PHACO PP ..69********************************************.***.....*************************.******************************************************************7...... HBA_TRIOC .-VLSANDKTNVKTVFTKITGHAEDYGAETLERMFITYPPTKTYFPHF-DLH-----HGSAQIKAHGKKVVGALIEAVNHID-DIAGALSKLSDLHAQKLRVDPVNFKLLGQCFLVVVAIHHPSVLTPEVHASLDKFLCAVGNVLSAKYR...... -#=GR HBA_TRIOC PP ..69********************************************.999.....************************9.9*****************************************************************7...... +#=GR HBA_TRIOC PP ..69********************************************.999.....*************************.******************************************************************7...... HBA_ANSSE .-VLSAADKGNVKTVFGKIGGHAEEYGAETLQRMFQTFPQTKTYFPHF-DLQ-----PGSAQIKAHGKKVAAALVEAANHID-DIAGALSKLSDLHAQKLRVDPVNFKFLGHCFLVVLAIHHPSLLTPEVHASMDKFLCAVATVLTAKYR...... -#=GR HBA_ANSSE PP ..69********************************************.999.....9***********************9.9*****************************************************************7...... +#=GR HBA_ANSSE PP ..69********************************************.999.....9************************.******************************************************************7...... HBA_COLLI .-VLSANDKSNVKAVFAKIGGQAGDLGGEALERLFITYPQTKTYFPHF-DLS-----HGSAQIKGHGKKVAEALVEAANHID-DIAGALSKLSDLHAQKLRVDPVNFKLLGHCFLVVVAVHFPSLLTPEVHASLDKFVLAVGTVLTAKYR...... -#=GR HBA_COLLI PP ..69********************************************.***.....************************9.9*****************************************************************7...... +#=GR HBA_COLLI PP ..69********************************************.***.....*************************.******************************************************************7...... HBAD_CHLME m--LTADDKKLLTQLWEKVAGHQEEFGSEALQRMFLTYPQTKTYFPHF-DLH-----PGSEQVRGHGKKVAAALGNAVKSLD-NLSQALSELSNLHAYNLRVDPANFKLLAQCFQVVLATHLGKDYSPEMHAAFDKFLSAVAAVLAEKYR...... #=GR HBAD_CHLME PP 6..89*******************************************.999.....9************************.******************************************************************7...... HBAD_PASMO m--LTAEDKKLIQQIWGKLGGAEEEIGADALWRMFHSYPSTKTYFPHF-DLS-----QGSDQIRGHGKKVVAALSNAIKNLD-NLSQALSELSNLHAYNLRVDPVNFKFLSQCLQVSLATRLGKEYSPEVHSAVDKFMSAVASVLAEKYR...... -#=GR HBAD_PASMO PP 6..99*******************************************.9**.....9************************.******************************************************************7...... +#=GR HBAD_PASMO PP 6..99*******************************************.***.....9************************.******************************************************************7...... HBAZ_HORSE s--LTKAERTMVVSIWGKISMQADAVGTEALQRLFSSYPQTKTYFPHF-DLH-----EGSPQLRAHGSKVAAAVGDAVKSID-NVAGALAKLSELHAYILRVDPVNFKFLSHCLLVTLASRLPADFTADAHAAWDKFLSIVSSVLTEKYR...... #=GR HBAZ_HORSE PP 6..89*******************************************.999.....9************************.******************************************************************7...... HBA4_SALIR s--LSAKDKANVKAIWGKILPKSDEIGEQALSRMLVVYPQTKAYFSHWASVA-----PGSAPVKKHGITIMNQIDDCVGHMD-DLFGFLTKLSELHATKLRVDPTNFKILAHNLIVVIAAYFPAEFTPEIHLSVDKFLQQLALALAEKYR...... -#=GR HBA4_SALIR PP 6..9********************************************7776.....9************************.9*****************************************************************7...... +#=GR HBA4_SALIR PP 6..9********************************************7777.....9************************.9*****************************************************************7...... HBB_ORNAN .VHLSGGEKSAVTNLWGKV--NINELGGEALGRLLVVYPWTQRFFEAFGDLSSAGAVMGNPKVKAHGAKVLTSFGDALKNLD-DLKGTFAKLSELHCDKLHVDPENFNRLGNVLIVVLARHFSKDFSPEVQAAWQKLVSGVAHALGHKYH...... -#=GR HBB_ORNAN PP .69****************..************************************************************9.******************************************************************7...... +#=GR HBB_ORNAN PP .69****************..*************************************************************.******************************************************************7...... HBB_TACAC .VHLSGSEKTAVTNLWGHV--NVNELGGEALGRLLVVYPWTQRFFESFGDLSSADAVMGNAKVKAHGAKVLTSFGDALKNLD-NLKGTFAKLSELHCDKLHVDPENFNRLGNVLVVVLARHFSKEFTPEAQAAWQKLVSGVSHALAHKYH...... #=GR HBB_TACAC PP .69****************..*************************************************************.******************************************************************7...... HBE_PONPY .VHFTAEEKAAVTSLWSKM--NVEEAGGEALGRLLVVYPWTQRFFDSFGNLSSPSAILGNPKVKAHGKKVLTSFGDAIKNMD-NLKTTFAKLSELHCDKLHVDPENFKLLGNVMVIILATHFGKEFTPEVQAAWQKLVSAVAIALAHKYH...... @@ -67,11 +67,11 @@ HBB_SUNMU .VHLSGEEKACVTGLWGKV--NEDEVGAEALGRLLVVYPWTQRFFDSFGDLSSASAVMGNPKVKAHGKKVLHSLGEGVANLD-NLKGTFAKLSELHCDKLHVDPENFRLLGNVLVVVLASKFGKEFTPPVQAAFQKVVAGVANALAHKYH...... #=GR HBB_SUNMU PP .69****************..99***********************************************************.******************************************************************7...... HBB_CALAR .VHLTGEEKSAVTALWGKV--NVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMNNPKVKAHGKKVLGAFSDGLTHLD-NLKGTFAHLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPVVQAAYQKVVAGVANALAHKYH...... -#=GR HBB_CALAR PP .689***************..*************************************************************.******************************************************************7...... +#=GR HBB_CALAR PP .69****************..*************************************************************.******************************************************************7...... HBB_MANSP .VHLTPEEKTAVTTLWGKV--NVDEVGGEALGRLLVVYPWTQRFFDSFGDLSSPDAVMGNPKVKAHGKKVLGAFSDGLNHLD-NLKGTFAQLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPQVQAAYQKVVAGVANALAHKYH...... #=GR HBB_MANSP PP .69****************..*************************************************************.******************************************************************7...... HBB_URSMA .VHLTGEEKSLVTGLWGKV--NVDEVGGEALGRLLVVYPWTQRFFDSFGDLSSADAIMNNPKVKAHGKKVLNSFSDGLKNLD-NLKGTFAKLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPQVQAAYQKVVAGVANALAHKYH...... -#=GR HBB_URSMA PP .689***************..*************************************************************.******************************************************************7...... +#=GR HBB_URSMA PP .69****************..*************************************************************.******************************************************************7...... HBB_RABIT .VHLSSEEKSAVTALWGKV--NVEEVGGEALGRLLVVYPWTQRFFESFGDLSSANAVMNNPKVKAHGKKVLAAFSEGLSHLD-NLKGTFAKLSELHCDKLHVDPENFRLLGNVLVIVLSHHFGKEFTPQVQAAYQKVVAGVANALAHKYH...... #=GR HBB_RABIT PP .69****************..*************************************************************.******************************************************************7...... HBB_TUPGL .VHLSGEEKAAVTGLWGKV--DLEKVGGQSLGSLLIVYPWTQRFFDSFGDLSSPSAVMSNPKVKAHGKKVLTSFSDGLNHLD-NLKGTFAKLSELHCDKLHVDPENFRLLGNVLVRVLACNFGPEFTPQVQAAFQKVVAGVANALAHKYH...... @@ -79,15 +79,15 @@ HBB_TRIIN .VHLTPEEKALVIGLWAKV--NVKEYGGEALGRLLVVYPWTQRFFEHFGDLSSASAIMNNPKVKAHGEKVFTSFGDGLKHLE-DLKGAFAELSELHCDKLHVDPENFRLLGNVLVCVLARHFGKEFSPEAQAAYQKVVAGVANALAHKYH...... #=GR HBB_TRIIN PP .69****************..***********************************************************98.9*****************************************************************7...... HBB_COLLI v-HWSAEEKQLITSIWGKV--NVADCGAEALARLLIVYPWTQRFFSSFGNLSSATAISGNPNVKAHGKKVLTSFGDAVKNLD-NIKGTFAQLSELHCDKLHVDPENFRLLGDILVIILAAHFGKDFTPECQAAWQKLVRVVAHALARKYH...... -#=GR HBB_COLLI PP 5.779**************..*************************************************************.******************************************************************7...... +#=GR HBB_COLLI PP 5.789**************..*************************************************************.******************************************************************7...... HBB_LARRI v-HWSAEEKQLITGLWGKV--NVADCGAEALARLLIVYPWTQRFFASFGNLSSPTAINGNPMVRAHGKKVLTSFGEAVKNLD-NIKNTFAQLSELHCDKLHVDPENFRLLGDILIIVLAAHFAKDFTPDSQAAWQKLVRVVAHALARKYH...... -#=GR HBB_LARRI PP 5.779**************..*************************************************************.******************************************************************7...... +#=GR HBB_LARRI PP 5.789**************..*************************************************************.******************************************************************7...... HBB1_VAREX v-HWTAEEKQLICSLWGKI--DVGLIGGETLAGLLVIYPWTQRQFSHFGNLSSPTAIAGNPRVKAHGKKVLTSFGDAIKNLD-NIKDTFAKLSELHCDKLHVDPTNFKLLGNVLVIVLADHHGKEFTPAHHAAYQKLVNVVSHSLARRYH...... #=GR HBB1_VAREX PP 6.6799*************..*************************************************************.******************************************************************7...... HBB2_XENTR v-HWTAEEKATIASVWGKV--DIEQDGHDALSRLLVVYPWTQRYFSSFGNLSNVSAVSGNVKVKAHGNKVLSAVGSAIQHLD-DVKSHLKGLSKSHAEDLHVDPENFKRLADVLVIVLAAKLGSAFTPQVQAVWEKLNATLVAALSHGY-f..... -#=GR HBB2_XENTR PP 6.6799*************..************************************************************9.9*************************************************************9988.9..... +#=GR HBB2_XENTR PP 6.6799*************..*************************************************************.**************************************************************9988.9..... HBBL_RANCA v-HWTAEEKAVINSVWQKV--DVEQDGHEALTRLFIVYPWTQRYFSTFGDLSSPAAIAGNPKVHAHGKKILGAIDNAIHNLD-DVKGTLHDLSEEHANELHVDPENFRRLGEVLIVVLGAKLGKAFSPQVQHVWEKFIAVLVDALSHSYH...... -#=GR HBBL_RANCA PP 6.6799*************..************************************************************9.9*****************************************************************7...... +#=GR HBBL_RANCA PP 6.6799*************..*************************************************************.******************************************************************7...... HBB2_TRICR .VHLTAEDRKEIAAILGKV--NVDSLGGQCLARLIVVNPWSRRYFHDFGDLSSCDAICRNPKVLAHGAKVMRSIVEATKHLD-NLREYYADLSVTHSLKFYVDPENFKLFSGIVIVCLALTLQTDFSCHKQLAFEKLMKGVSHALGHGY-...... #=GR HBB2_TRICR PP .69****************..*************************************************************.**************************************************************9988....... #=GC PP_cons .679*****************************************************************************99******************************************************************7...... diff -r 01219a31c48e -r be7097d6e3ff test-data/globins-masked.sto --- a/test-data/globins-masked.sto Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins-masked.sto Tue Jun 16 05:34:25 2020 -0400 @@ -1,9 +1,9 @@ # STOCKHOLM 1.0 -#=GS HBB_HUMAN WT 0.91 -#=GS HBA_HUMAN WT 0.82 -#=GS MYG_PHYCA WT 1.13 -#=GS GLB5_PETMA WT 1.14 +#=GS HBB_HUMAN WT 0.97 +#=GS HBA_HUMAN WT 0.89 +#=GS MYG_PHYCA WT 1.11 +#=GS GLB5_PETMA WT 1.03 HBB_HUMAN --------VHLTPEEKSAVTALWGKV----NVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHL---D--NLKGTFATLSELHCDKL--HVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH------ HBA_HUMAN ---------VLSPADKTNVKAAWGKVGA--HAGEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGKKVADALTNAVAHV---D--DMPNALSALSDLHAHKL--RVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR------ diff -r 01219a31c48e -r be7097d6e3ff test-data/globins.domtblout --- a/test-data/globins.domtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins.domtblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,15 +1,15 @@ -# --- full sequence --- -------------- this domain ------------- hmm coord ali coord env coord -# target name accession tlen query name accession qlen E-value score bias # of c-Evalue i-Evalue score bias from to from to from to acc description of target -#------------------- ---------- ----- -------------------- ---------- ----- --------- ------ ----- --- --- --------- --------- ------ ----- ----- ----- ----- ----- ----- ----- ---- --------------------- -sp|P02185|MYG_PHYCD - 154 dataset_x - 149 1.8e-70 222.7 3.2 1 1 2e-70 2e-70 222.6 3.2 2 149 2 148 1 148 0.99 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 -sp|P02024|HBB_GORGO - 147 dataset_x - 149 9.2e-69 217.2 0.1 1 1 1e-68 1e-68 217.0 0.1 1 149 2 147 2 147 0.99 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +# --- full sequence --- -------------- this domain ------------- hmm coord ali coord env coord +# target name accession tlen query name accession qlen E-value score bias # of c-Evalue i-Evalue score bias from to from to from to acc description of target +#------------------- ---------- ----- -------------------- ---------- ----- --------- ------ ----- --- --- --------- --------- ------ ----- ----- ----- ----- ----- ----- ----- ---- --------------------- +sp|P02024|HBB_GORGO - 147 dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 - 149 1.3e-70 223.2 0.1 1 1 1.4e-70 1.4e-70 223.0 0.1 1 149 2 147 2 147 0.99 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02185|MYG_PHYCD - 154 dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 - 149 5.8e-70 221.1 3.3 1 1 6.4e-70 6.4e-70 220.9 3.3 2 149 2 148 1 148 0.99 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 # # Program: hmmsearch -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_25.dat -# Target file: /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Option settings: hmmsearch --tblout /tmp/tmpp4O0Ju/files/000/dataset_28.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_29.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_30.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpp4O0Ju/files/000/dataset_25.dat /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/24/working -# Date: Fri Jun 8 12:18:13 2018 +# Query file: /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat +# Target file: /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Option settings: hmmsearch --tblout /tmp/tmpqydies2m/files/4/6/b/dataset_46bff7ad-a6de-481d-adb4-50ccab8aacb8.dat --domtblout /tmp/tmpqydies2m/files/b/2/5/dataset_b258e52b-de8c-4e23-86d8-c69ebf229c95.dat --pfamtblout /tmp/tmpqydies2m/files/f/b/8/dataset_fb8cde04-dee0-4b38-9125-bf4766986c0c.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/11/working +# Date: Thu May 14 18:54:00 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/globins.pfamtblout --- a/test-data/globins.pfamtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins.pfamtblout Tue Jun 16 05:34:25 2020 -0400 @@ -3,23 +3,23 @@ # # name bits E-value n exp bias description # ------------------- ------ --------- --- ----- ----- --------------------- -sp|P02185|MYG_PHYCD 222.7 1.8e-70 1 1.0 3.2 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 -sp|P02024|HBB_GORGO 217.2 9.2e-69 1 1.0 0.1 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02024|HBB_GORGO 223.2 1.3e-70 1 1.0 0.1 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02185|MYG_PHYCD 221.1 5.8e-70 1 1.0 3.3 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 # Domain scores # ------------- # # name bits E-value hit bias env-st env-en ali-st ali-en hmm-st hmm-en description # ------------------- ------ --------- ----- ----- ------ ------ ------ ------ ------ ------ --------------------- -sp|P02185|MYG_PHYCD 222.6 2e-70 1 3.2 1 148 2 148 2 149 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 -sp|P02024|HBB_GORGO 217.0 1e-68 1 0.1 2 147 2 147 1 149 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02024|HBB_GORGO 223.0 1.4e-70 1 0.1 2 147 2 147 1 149 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02185|MYG_PHYCD 220.9 6.4e-70 1 3.3 1 148 2 148 2 149 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 # # Program: hmmsearch -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_25.dat -# Target file: /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Option settings: hmmsearch --tblout /tmp/tmpp4O0Ju/files/000/dataset_28.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_29.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_30.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpp4O0Ju/files/000/dataset_25.dat /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/24/working -# Date: Fri Jun 8 12:18:13 2018 +# Query file: /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat +# Target file: /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Option settings: hmmsearch --tblout /tmp/tmpqydies2m/files/4/6/b/dataset_46bff7ad-a6de-481d-adb4-50ccab8aacb8.dat --domtblout /tmp/tmpqydies2m/files/b/2/5/dataset_b258e52b-de8c-4e23-86d8-c69ebf229c95.dat --pfamtblout /tmp/tmpqydies2m/files/f/b/8/dataset_fb8cde04-dee0-4b38-9125-bf4766986c0c.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/11/working +# Date: Thu May 14 18:54:00 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/globins.tblout --- a/test-data/globins.tblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins.tblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,15 +1,15 @@ -# --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- -# target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target -#------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- -sp|P02185|MYG_PHYCD - dataset_x - 1.8e-70 222.7 3.2 2e-70 222.6 3.2 1.0 1 0 0 1 1 1 1 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 -sp|P02024|HBB_GORGO - dataset_x - 9.2e-69 217.2 0.1 1e-68 217.0 0.1 1.0 1 0 0 1 1 1 1 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +# --- full sequence ---- --- best 1 domain ---- --- domain number estimation ---- +# target name accession query name accession E-value score bias E-value score bias exp reg clu ov env dom rep inc description of target +#------------------- ---------- -------------------- ---------- --------- ------ ----- --------- ------ ----- --- --- --- --- --- --- --- --- --------------------- +sp|P02024|HBB_GORGO - dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 - 1.3e-70 223.2 0.1 1.4e-70 223.0 0.1 1.0 1 0 0 1 1 1 1 Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 +sp|P02185|MYG_PHYCD - dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 - 5.8e-70 221.1 3.3 6.4e-70 220.9 3.3 1.0 1 0 0 1 1 1 1 Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 # # Program: hmmsearch -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_25.dat -# Target file: /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Option settings: hmmsearch --tblout /tmp/tmpp4O0Ju/files/000/dataset_28.dat --domtblout /tmp/tmpp4O0Ju/files/000/dataset_29.dat --pfamtblout /tmp/tmpp4O0Ju/files/000/dataset_30.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpp4O0Ju/files/000/dataset_25.dat /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/24/working -# Date: Fri Jun 8 12:18:13 2018 +# Query file: /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat +# Target file: /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Option settings: hmmsearch --tblout /tmp/tmpqydies2m/files/4/6/b/dataset_46bff7ad-a6de-481d-adb4-50ccab8aacb8.dat --domtblout /tmp/tmpqydies2m/files/b/2/5/dataset_b258e52b-de8c-4e23-86d8-c69ebf229c95.dat --pfamtblout /tmp/tmpqydies2m/files/f/b/8/dataset_fb8cde04-dee0-4b38-9125-bf4766986c0c.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --seed 4 --cpu 1 /tmp/tmpqydies2m/files/6/d/6/dataset_6d69e63c-e7d8-450d-b7f8-3e08a51472f0.dat /tmp/tmpqydies2m/files/8/2/8/dataset_8282288a-91ea-4a46-89c2-d1f3b4e67c52.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/11/working +# Date: Thu May 14 18:54:00 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/globins4.hmm --- a/test-data/globins4.hmm Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins4.hmm Tue Jun 16 05:34:25 2020 -0400 @@ -1,5 +1,5 @@ -HMMER3/f [3.2 | June 2018] -NAME dataset_6 +HMMER3/f [3.3 | Nov 2019] +NAME dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 LENG 149 ALPH amino RF no @@ -7,463 +7,463 @@ CONS yes CS no MAP yes -DATE Fri Jun 8 12:16:18 2018 +DATE Thu May 14 18:27:55 2020 NSEQ 4 EFFN 0.964844 CKSUM 2027839109 -STATS LOCAL MSV -9.7726 0.70957 -STATS LOCAL VITERBI -10.7883 0.70957 -STATS LOCAL FORWARD -4.5789 0.70957 +STATS LOCAL MSV -9.7384 0.70955 +STATS LOCAL VITERBI -10.7806 0.70955 +STATS LOCAL FORWARD -4.5807 0.70955 HMM A C D E F G H I K L M N P Q R S T V W Y m->m m->i m->d i->m i->i d->m d->d - COMPO 2.36553 4.52577 2.96709 2.70473 3.20818 3.02239 3.41069 2.90041 2.55332 2.35210 3.67329 3.19812 3.45595 3.16091 3.07934 2.66722 2.85475 2.56965 4.55393 3.62921 - 2.68640 4.42247 2.77497 2.73145 3.46376 2.40504 3.72516 3.29302 2.67763 2.69377 4.24712 2.90369 2.73719 3.18168 2.89823 2.37879 2.77497 2.98431 4.58499 3.61525 - 0.57544 1.78073 1.31293 1.75577 0.18968 0.00000 * - 1 1.70038 4.17733 3.76164 3.36686 3.72281 3.29583 4.27570 2.40482 3.29230 2.54324 3.63799 3.55099 3.93183 3.61602 3.56580 2.71897 2.84104 1.67328 5.32720 4.10031 9 v - - - + COMPO 2.36800 4.52198 2.96929 2.70577 3.20715 3.01836 3.40293 2.90711 2.55482 2.34699 3.67768 3.19591 3.45289 3.16361 3.08198 2.67062 2.85417 2.56574 4.55599 3.63079 + 2.68638 4.42245 2.77499 2.73143 3.46374 2.40505 3.72514 3.29307 2.67761 2.69375 4.24709 2.90366 2.73721 3.18166 2.89820 2.37880 2.77499 2.98440 4.58497 3.61523 + 0.55970 1.87270 1.29132 1.73023 0.19509 0.00000 * + 1 1.75819 4.17850 3.77264 3.37715 3.71018 3.31297 4.28273 2.37054 3.30099 2.52201 3.62331 3.56321 3.94404 3.62536 3.57311 2.73559 2.84831 1.62714 5.32308 4.09587 9 v - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 - 0.03156 3.86736 4.58970 0.61958 0.77255 0.34406 1.23405 - 2 2.62748 4.47174 3.31917 2.82619 3.63815 3.49607 2.75382 3.03401 2.75280 2.74783 3.65114 3.24714 2.62341 3.12082 3.11124 2.79244 2.89355 1.88003 5.06315 3.77128 10 v - - - + 0.03182 3.85936 4.58171 0.61958 0.77255 0.34183 1.23951 + 2 2.62833 4.47006 3.32205 2.82847 3.63376 3.49826 2.70724 3.02941 2.75408 2.74418 3.64789 3.24903 2.69825 3.12221 3.11180 2.79427 2.89380 1.86602 5.05970 3.76787 10 v - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 3 3.50771 4.88753 4.66754 4.31907 3.27776 4.35743 4.88268 2.50779 4.08449 0.57907 3.22569 4.56607 4.74802 4.37991 4.20749 3.97946 3.79191 2.62059 5.25407 4.04279 11 L - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 4 2.34080 4.28719 3.51550 3.22063 4.37406 3.06195 4.29366 3.74891 3.24370 3.47337 4.31943 3.39310 3.80273 3.56072 3.55390 1.08280 2.00280 3.23325 5.72380 4.49519 12 s - - - + 4 2.34111 4.28748 3.51587 3.21760 4.36970 3.06332 4.28987 3.74396 3.23937 3.46805 4.31385 3.39181 3.80269 3.55639 3.55063 1.10193 1.96408 3.23023 5.71943 4.49082 12 s - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 5 2.04218 4.87966 2.77126 1.92448 4.32563 3.33660 3.78415 3.73388 2.61886 3.34029 4.16568 2.96714 2.18012 2.94561 3.07633 2.70238 2.96803 3.36068 5.56791 4.21854 13 e - - - + 5 2.08645 4.88226 2.76555 1.92911 4.33063 3.33581 3.78790 3.73824 2.62367 3.34530 4.17189 2.96745 2.11202 2.95012 3.08047 2.70587 2.97273 3.36490 5.57314 4.22372 13 e - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 6 1.67844 4.79514 2.78469 2.00544 4.34945 2.26719 3.85010 3.76260 2.72087 3.37961 4.20641 2.99947 3.85561 3.02442 3.17766 2.68798 2.96575 3.36703 5.60901 4.27005 14 a - - - + 6 1.69820 4.80882 2.77457 1.97347 4.35553 2.28499 3.84394 3.77021 2.71313 3.38434 4.21011 2.99279 3.85574 3.01647 3.17214 2.68980 2.96833 3.37473 5.61184 4.27002 14 a - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 7 3.05756 5.63998 1.78612 1.06702 4.93093 3.31407 3.86695 4.45859 2.89031 3.95237 4.80915 2.77798 3.94091 3.03432 3.48933 2.93505 3.34810 4.02575 6.09427 4.58708 15 e - - - + 7 3.05815 5.64500 1.75615 1.08114 4.93520 3.31311 3.86643 4.46388 2.89134 3.95611 4.81252 2.77604 3.94039 3.03362 3.49220 2.93470 3.34872 4.02986 6.09818 4.58893 15 e - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 8 2.98085 4.92154 3.50401 2.91209 3.76425 3.70161 3.75301 3.57060 1.24921 3.12012 4.04714 3.32210 4.09411 3.00014 2.54951 3.05147 3.18982 3.31354 2.52964 3.70813 16 k - - - + 8 2.98084 4.92305 3.50304 2.91079 3.76817 3.70127 3.75255 3.57273 1.24388 3.12185 4.04849 3.32111 4.09367 2.99876 2.54782 3.05093 3.18969 3.31532 2.54895 3.71130 16 k - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 9 2.59353 4.69451 3.03503 2.60972 4.18917 3.33498 3.80536 3.60013 2.58953 3.21847 4.04944 3.07115 3.85428 2.20828 2.99231 2.14672 1.84753 3.23346 5.45458 4.14691 17 t - - - + 9 2.59187 4.69352 3.03542 2.60921 4.18953 3.33387 3.80518 3.60091 2.59041 3.21897 4.04940 3.07064 3.85329 2.21950 2.99414 2.11686 1.86252 3.23358 5.45493 4.14699 17 t - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 10 2.23880 4.76665 3.06952 2.55248 4.02235 3.47005 3.69787 3.40277 2.01551 2.36330 3.87991 2.51243 3.88223 2.86967 2.84293 2.72413 2.90300 3.10205 5.29826 3.99496 18 k - - - + 10 2.21227 4.76092 3.06677 2.55175 4.01617 3.46762 3.69935 3.39674 2.05599 2.37194 3.87558 2.48019 3.88084 2.87212 2.85345 2.72184 2.90041 3.09636 5.29556 3.99185 18 k - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 11 3.19694 4.48391 4.99800 4.51340 3.70437 4.59686 5.22508 1.39091 4.40799 2.19554 3.49619 4.71017 4.90059 4.67186 4.59646 3.99910 3.46528 0.94853 5.69937 4.48740 19 v - - - + 11 3.19383 4.48397 4.98743 4.50352 3.70321 4.58732 5.21681 1.42259 4.39685 2.19636 3.49675 4.70095 4.89463 4.66259 4.58654 3.98970 3.46303 0.93155 5.69592 4.48270 19 v - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 12 2.75048 4.80166 3.26496 2.66512 4.05387 3.56143 3.69034 3.41974 1.98979 2.32315 3.89028 3.13074 3.94179 2.86188 2.09152 2.81637 2.39268 3.13531 5.28085 4.01795 20 k - - - + 12 2.74610 4.80085 3.25703 2.65906 4.05287 3.55766 3.68936 3.41986 1.97345 2.33661 3.88949 3.12628 3.93857 2.86049 2.13869 2.81127 2.36178 3.13448 5.28126 4.01650 20 k - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 13 1.76333 4.59630 3.10164 2.67897 4.07335 3.31056 2.49445 3.52561 2.68943 3.16162 4.00001 3.11582 3.85067 3.04885 3.09407 2.02147 2.87931 3.16321 5.39081 4.07911 21 a - - - + 13 1.71929 4.59123 3.10596 2.68473 4.06886 3.30991 2.50703 3.52077 2.69469 3.15834 3.99776 3.11967 3.85157 3.05420 3.09780 2.06624 2.87954 3.15913 5.38849 4.07779 21 a - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 14 1.74676 4.33104 4.10096 3.58029 3.53459 3.81128 4.36357 2.24459 3.48183 1.89076 3.43717 3.84444 4.26434 3.77047 3.74451 3.15389 3.06390 1.66791 5.19600 3.98969 22 v - - - + 14 1.76390 4.33130 4.10750 3.58573 3.52683 3.81846 4.36480 2.24251 3.48664 1.85945 3.42896 3.84970 4.26825 3.77393 3.74771 3.16019 3.06625 1.67518 5.19096 3.98585 22 v - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 15 3.87954 5.13867 4.57762 4.36488 3.03765 4.09084 4.31854 3.92859 4.08791 3.26710 4.54641 4.45726 4.63521 4.45940 4.15994 4.08011 4.19741 3.82655 0.45161 3.02591 23 W - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 16 1.17729 4.26198 3.57130 3.34611 4.48932 1.56793 4.42455 3.86761 3.45066 3.59704 4.43496 3.45644 3.80449 3.71634 3.74017 2.51428 2.83714 3.30004 5.82592 4.64145 24 a - - - + 16 1.21758 4.26323 3.56733 3.34415 4.49299 1.50946 4.42509 3.87218 3.45113 3.60103 4.43877 3.45554 3.80466 3.71655 3.74092 2.51469 2.83811 3.30317 5.82878 4.64423 24 a - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 17 2.88817 5.04467 3.10563 2.67545 4.50902 3.51529 3.78021 3.92264 1.24585 3.45270 4.30607 3.14138 2.36832 2.93193 2.59730 2.90680 3.14272 3.56445 5.56837 4.31000 25 k - - - + 17 2.89335 5.04952 3.11104 2.67901 4.51478 3.51898 3.77961 3.92766 1.21705 3.45592 4.30983 3.14407 2.44760 2.93100 2.58885 2.91140 3.14684 3.56974 5.56941 4.31279 25 k - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 18 3.05146 4.52367 4.53075 4.21316 3.78794 4.02425 4.96997 2.08597 4.08612 2.42902 3.71686 4.35272 4.57557 4.42900 4.26873 3.55467 3.41034 0.71672 5.61943 4.36559 26 v - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 - 0.15590 4.17053 2.04864 0.61958 0.77255 0.48576 0.95510 - 19 2.68479 4.81315 2.78148 1.93235 3.94110 2.58636 3.69416 3.47083 2.55190 3.09021 3.94228 2.95115 3.85408 2.89111 2.99210 2.72265 2.93521 3.16412 5.27296 2.55092 27 e - - - + 0.16639 4.17053 1.98168 0.61958 0.77255 0.48576 0.95510 + 19 2.68036 4.81371 2.77445 1.93512 3.95213 2.53904 3.69035 3.47422 2.54567 3.09272 3.94349 2.94486 3.84898 2.88490 2.98681 2.71697 2.93107 3.16595 5.27949 2.62603 27 e - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 - 0.02646 4.04109 4.76344 0.61958 0.77255 0.62497 0.76632 - 20 1.24956 4.17178 3.49549 3.21559 4.28754 2.96447 4.26633 3.63846 3.25854 3.38649 4.23557 3.34723 3.71824 3.55069 3.55664 1.64035 2.73156 3.12303 5.65279 4.43774 28 a - - - + 0.02674 4.03088 4.75323 0.61958 0.77255 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2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 24 2.69793 4.94558 2.70258 1.69825 4.39821 2.33192 3.78049 3.82467 2.62191 3.41144 4.22851 2.93775 3.85955 2.93694 3.09150 2.71026 2.18745 3.43624 5.62101 4.25627 34 e - - - + 24 2.70432 4.96033 2.68957 1.65394 4.41171 2.34197 3.77989 3.83988 2.62211 3.42387 4.24040 2.93251 3.86048 2.93552 3.09355 2.71342 2.24291 3.44970 5.63107 4.26330 34 e - - - 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510 - 25 2.64091 4.46648 3.34374 2.80311 3.42902 3.55272 2.66869 3.00952 2.74944 2.69246 3.58308 3.23558 3.94921 3.08558 3.12525 2.23223 2.87915 2.30384 4.88555 2.76524 35 s - - - + 25 2.64235 4.45141 3.36509 2.82394 3.40445 3.56012 2.68084 2.98885 2.76805 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a/test-data/globins4.hmm2 Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/globins4.hmm2 Tue Jun 16 05:34:25 2020 -0400 @@ -1,463 +1,463 @@ -HMMER2.0 [converted from 3.2] -NAME dataset_x +HMMER2.0 [converted from 3.3] +NAME dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 LENG 149 ALPH Amino RF no CS no MAP yes NSEQ 4 -DATE Fri Jun 8 12:14:52 2018 +DATE Thu May 14 18:27:55 2020 XT -8455 -4 -1000 -1000 -8455 -4 -8455 -4 NULT -4 -8455 NULE 656 -1722 98 419 -333 475 -1125 239 250 947 -1073 -271 -50 -338 114 451 113 430 -2131 -717 HMM A C D E F G H I K L M N P Q R S T V W Y m->m m->i m->d i->m i->i d->m d->d b->m m->e - -452 * -1894 - 1 1213 17 -1203 -954 -716 -908 -721 613 -677 -294 146 -530 -1300 -557 -936 -51 110 1478 -1232 -876 9 + -464 * -1863 + 1 1129 15 -1219 -969 -698 -933 -731 663 -690 -263 167 -548 -1318 -571 -947 -75 100 1545 -1226 -870 9 - -210 -336 220 -37 -342 377 73 -669 210 -511 -732 404 423 70 27 439 205 -414 -161 -176 - - -46 -5579 -6622 -894 -1115 -496 -1780 -830 * - 2 -125 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a/test-data/jackhmmer.domtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/jackhmmer.domtblout Tue Jun 16 05:34:25 2020 -0400 @@ -46,58 +46,58 @@ HBA4_SALIR - 142 sp|P02185|MYG_PHYCD - 154 5.3e-56 180.0 0.1 1 1 5.9e-56 5.9e-56 179.9 0.1 3 148 2 142 1 142 0.99 - MYG_MUSAN - 148 sp|P02185|MYG_PHYCD - 154 2.5e-54 174.6 0.4 1 1 2.8e-54 2.8e-54 174.5 0.4 7 154 2 148 1 148 0.99 - HBB2_TRICR - 145 sp|P02185|MYG_PHYCD - 154 2e-52 168.4 0.0 1 1 2.2e-52 2.2e-52 168.3 0.0 3 147 3 145 1 145 0.99 - -HBB_MANSP - 146 sp|P02024|HBB_GORGO - 147 3.6e-74 238.9 0.1 1 1 4e-74 4e-74 238.8 0.1 2 147 1 146 1 146 1.00 - -HBB_URSMA - 146 sp|P02024|HBB_GORGO - 147 1.7e-73 236.7 0.3 1 1 1.9e-73 1.9e-73 236.6 0.3 2 147 1 146 1 146 1.00 - -HBB_RABIT - 146 sp|P02024|HBB_GORGO - 147 2.2e-72 233.1 0.8 1 1 2.4e-72 2.4e-72 233.0 0.8 2 147 1 146 1 146 1.00 - -HBB_SUNMU - 146 sp|P02024|HBB_GORGO - 147 5.4e-72 231.8 0.1 1 1 6e-72 6e-72 231.7 0.1 2 147 1 146 1 146 1.00 - -HBB_CALAR - 146 sp|P02024|HBB_GORGO - 147 7e-72 231.5 0.2 1 1 7.7e-72 7.7e-72 231.3 0.2 2 147 1 146 1 146 1.00 - -HBB_COLLI - 146 sp|P02024|HBB_GORGO - 147 9.6e-72 231.0 0.0 1 1 1.1e-71 1.1e-71 230.9 0.0 2 147 1 146 1 146 1.00 - -HBB_TACAC - 146 sp|P02024|HBB_GORGO - 147 2.5e-71 229.7 0.4 1 1 2.8e-71 2.8e-71 229.6 0.4 2 147 1 146 1 146 1.00 - -HBE_PONPY - 146 sp|P02024|HBB_GORGO - 147 4.8e-71 228.8 0.4 1 1 5.3e-71 5.3e-71 228.6 0.4 2 147 1 146 1 146 1.00 - -HBB_EQUHE - 146 sp|P02024|HBB_GORGO - 147 5.1e-71 228.7 0.2 1 1 5.7e-71 5.7e-71 228.5 0.2 2 147 1 146 1 146 0.99 - -HBB_SPECI - 146 sp|P02024|HBB_GORGO - 147 1.3e-70 227.3 1.0 1 1 1.5e-70 1.5e-70 227.2 1.0 2 147 1 146 1 146 1.00 - -HBB_SPETO - 146 sp|P02024|HBB_GORGO - 147 2e-70 226.8 0.6 1 1 2.2e-70 2.2e-70 226.6 0.6 2 147 1 146 1 146 1.00 - -HBB_TRIIN - 146 sp|P02024|HBB_GORGO - 147 3.7e-70 225.9 0.1 1 1 4.1e-70 4.1e-70 225.8 0.1 2 147 1 146 1 146 1.00 - -HBB_ORNAN - 146 sp|P02024|HBB_GORGO - 147 4.1e-70 225.7 0.0 1 1 4.6e-70 4.6e-70 225.6 0.0 2 147 1 146 1 146 1.00 - -HBB_LARRI - 146 sp|P02024|HBB_GORGO - 147 5.7e-70 225.3 0.0 1 1 6.4e-70 6.4e-70 225.1 0.0 2 147 1 146 1 146 1.00 - -HBB_TUPGL - 146 sp|P02024|HBB_GORGO - 147 1.8e-68 220.5 0.0 1 1 1.9e-68 1.9e-68 220.3 0.0 2 147 1 146 1 146 1.00 - -HBB1_VAREX - 146 sp|P02024|HBB_GORGO - 147 1.5e-67 217.4 0.1 1 1 1.7e-67 1.7e-67 217.3 0.1 2 147 1 146 1 146 1.00 - -HBBL_RANCA - 146 sp|P02024|HBB_GORGO - 147 7.8e-64 205.4 0.3 1 1 8.7e-64 8.7e-64 205.2 0.3 2 147 1 146 1 146 1.00 - -HBA_MESAU - 141 sp|P02024|HBB_GORGO - 147 4.5e-63 202.9 0.3 1 1 5e-63 5e-63 202.8 0.3 4 146 2 140 1 141 0.99 - -HBB2_XENTR - 146 sp|P02024|HBB_GORGO - 147 2e-62 200.8 0.8 1 1 2.3e-62 2.3e-62 200.6 0.8 2 146 1 145 1 146 1.00 - -HBA_PONPY - 141 sp|P02024|HBB_GORGO - 147 4.6e-62 199.6 0.7 1 1 5e-62 5e-62 199.5 0.7 4 146 2 140 1 141 0.98 - -HBA_MACFA - 141 sp|P02024|HBB_GORGO - 147 8.7e-62 198.7 0.3 1 1 9.6e-62 9.6e-62 198.6 0.3 4 146 2 140 1 141 0.99 - -HBA_MACSI - 141 sp|P02024|HBB_GORGO - 147 1.3e-61 198.2 0.3 1 1 1.4e-61 1.4e-61 198.1 0.3 4 146 2 140 1 141 0.99 - -HBA_AILME - 141 sp|P02024|HBB_GORGO - 147 2.1e-61 197.5 0.1 1 1 2.4e-61 2.4e-61 197.3 0.1 4 146 2 140 1 141 0.99 - -HBA2_GALCR - 141 sp|P02024|HBB_GORGO - 147 6.6e-61 195.9 0.6 1 1 7.3e-61 7.3e-61 195.7 0.6 4 146 2 140 1 141 0.98 - -HBA_FRAPO - 141 sp|P02024|HBB_GORGO - 147 7.1e-61 195.8 0.4 1 1 7.8e-61 7.8e-61 195.7 0.4 4 146 2 140 1 141 0.98 - -HBA_PHACO - 141 sp|P02024|HBB_GORGO - 147 7.3e-61 195.7 0.4 1 1 8e-61 8e-61 195.6 0.4 4 146 2 140 1 141 0.99 - -HBA2_BOSMU - 141 sp|P02024|HBB_GORGO - 147 7.6e-61 195.7 0.4 1 1 8.3e-61 8.3e-61 195.6 0.4 4 146 2 140 1 141 0.99 - -HBA_ERIEU - 141 sp|P02024|HBB_GORGO - 147 2.4e-60 194.0 0.1 1 1 2.7e-60 2.7e-60 193.9 0.1 4 146 2 140 1 141 0.98 - -HBA_PROLO - 141 sp|P02024|HBB_GORGO - 147 3.3e-60 193.6 0.0 1 1 3.6e-60 3.6e-60 193.5 0.0 4 146 2 140 1 141 0.99 - -HBA_ANSSE - 141 sp|P02024|HBB_GORGO - 147 3.9e-60 193.4 0.4 1 1 4.3e-60 4.3e-60 193.2 0.4 4 146 2 140 1 141 0.99 - -HBA_PAGLA - 141 sp|P02024|HBB_GORGO - 147 4.1e-60 193.3 0.5 1 1 4.5e-60 4.5e-60 193.2 0.5 4 146 2 140 1 141 0.98 - -HBA_TRIOC - 141 sp|P02024|HBB_GORGO - 147 2.7e-59 190.7 0.5 1 1 2.9e-59 2.9e-59 190.5 0.5 4 146 2 140 1 141 0.98 - -HBAD_CHLME - 141 sp|P02024|HBB_GORGO - 147 6.3e-59 189.4 0.5 1 1 7e-59 7e-59 189.3 0.5 4 146 2 140 1 141 0.98 - -HBAZ_HORSE - 141 sp|P02024|HBB_GORGO - 147 7.5e-59 189.2 0.1 1 1 8.2e-59 8.2e-59 189.1 0.1 4 146 2 140 1 141 0.98 - -HBA_COLLI - 141 sp|P02024|HBB_GORGO - 147 1.6e-58 188.1 0.2 1 1 1.8e-58 1.8e-58 188.0 0.2 4 146 2 140 1 141 0.98 - -HBAD_PASMO - 141 sp|P02024|HBB_GORGO - 147 2e-58 187.8 0.1 1 1 2.2e-58 2.2e-58 187.7 0.1 4 146 2 140 1 141 0.98 - -MYG_SAISC - 153 sp|P02024|HBB_GORGO - 147 2.9e-57 184.1 1.0 1 1 3.2e-57 3.2e-57 183.9 1.0 4 146 2 146 1 147 0.98 - -MYG_LYCPI - 153 sp|P02024|HBB_GORGO - 147 3e-57 184.0 1.9 1 1 3.3e-57 3.3e-57 183.9 1.9 4 146 2 146 1 147 0.97 - -MYG_PROGU - 153 sp|P02024|HBB_GORGO - 147 8.3e-57 182.6 0.2 1 1 9.2e-57 9.2e-57 182.4 0.2 4 146 2 146 1 147 0.97 - -MYG_ESCGI - 153 sp|P02024|HBB_GORGO - 147 8.8e-57 182.5 2.3 1 1 9.7e-57 9.7e-57 182.4 2.3 4 146 2 146 1 147 0.97 - -MYG_HORSE - 153 sp|P02024|HBB_GORGO - 147 2.5e-56 181.0 1.0 1 1 2.7e-56 2.7e-56 180.9 1.0 4 146 2 146 1 147 0.97 - -MYG_MOUSE - 153 sp|P02024|HBB_GORGO - 147 4.7e-56 180.1 0.3 1 1 5.2e-56 5.2e-56 180.0 0.3 4 146 2 146 1 147 0.97 - -HBA4_SALIR - 142 sp|P02024|HBB_GORGO - 147 7.5e-56 179.5 0.1 1 1 8.3e-56 8.3e-56 179.3 0.1 4 146 2 141 1 142 0.98 - -HBB2_TRICR - 145 sp|P02024|HBB_GORGO - 147 2.7e-55 177.7 0.0 1 1 3e-55 3e-55 177.5 0.0 2 146 1 145 1 145 1.00 - -MYG_MUSAN - 148 sp|P02024|HBB_GORGO - 147 4.6e-45 144.5 0.3 1 1 5.1e-45 5.1e-45 144.3 0.3 8 146 2 141 1 142 0.96 - +HBB_MANSP - 146 sp|P02024|HBB_GORGO - 147 2.3e-75 242.8 0.1 1 1 2.6e-75 2.6e-75 242.6 0.1 2 147 1 146 1 146 1.00 - +HBB_URSMA - 146 sp|P02024|HBB_GORGO - 147 1.1e-74 240.6 0.3 1 1 1.2e-74 1.2e-74 240.5 0.3 2 147 1 146 1 146 1.00 - +HBB_RABIT - 146 sp|P02024|HBB_GORGO - 147 1.4e-73 237.0 0.9 1 1 1.5e-73 1.5e-73 236.9 0.9 2 147 1 146 1 146 1.00 - +HBB_CALAR - 146 sp|P02024|HBB_GORGO - 147 4.1e-73 235.5 0.2 1 1 4.5e-73 4.5e-73 235.4 0.2 2 147 1 146 1 146 1.00 - +HBB_SUNMU - 146 sp|P02024|HBB_GORGO - 147 4.2e-73 235.4 0.1 1 1 4.7e-73 4.7e-73 235.3 0.1 2 147 1 146 1 146 1.00 - +HBB_COLLI - 146 sp|P02024|HBB_GORGO - 147 7.8e-73 234.6 0.0 1 1 8.7e-73 8.7e-73 234.4 0.0 2 147 1 146 1 146 1.00 - +HBB_TACAC - 146 sp|P02024|HBB_GORGO - 147 1.9e-72 233.3 0.4 1 1 2.1e-72 2.1e-72 233.2 0.4 2 147 1 146 1 146 1.00 - +HBE_PONPY - 146 sp|P02024|HBB_GORGO - 147 3.1e-72 232.6 0.4 1 1 3.4e-72 3.4e-72 232.5 0.4 2 147 1 146 1 146 1.00 - +HBB_EQUHE - 146 sp|P02024|HBB_GORGO - 147 3.5e-72 232.5 0.2 1 1 3.8e-72 3.8e-72 232.3 0.2 2 147 1 146 1 146 0.99 - +HBB_SPECI - 146 sp|P02024|HBB_GORGO - 147 1.1e-71 230.8 1.0 1 1 1.3e-71 1.3e-71 230.7 1.0 2 147 1 146 1 146 1.00 - +HBB_SPETO - 146 sp|P02024|HBB_GORGO - 147 1.6e-71 230.3 0.6 1 1 1.7e-71 1.7e-71 230.2 0.6 2 147 1 146 1 146 1.00 - +HBB_TRIIN - 146 sp|P02024|HBB_GORGO - 147 2.6e-71 229.6 0.1 1 1 2.9e-71 2.9e-71 229.5 0.1 2 147 1 146 1 146 1.00 - +HBB_ORNAN - 146 sp|P02024|HBB_GORGO - 147 2.9e-71 229.5 0.0 1 1 3.2e-71 3.2e-71 229.4 0.0 2 147 1 146 1 146 1.00 - +HBB_LARRI - 146 sp|P02024|HBB_GORGO - 147 5.2e-71 228.7 0.0 1 1 5.7e-71 5.7e-71 228.5 0.0 2 147 1 146 1 146 1.00 - +HBB_TUPGL - 146 sp|P02024|HBB_GORGO - 147 1.1e-69 224.3 0.0 1 1 1.3e-69 1.3e-69 224.2 0.0 2 147 1 146 1 146 1.00 - +HBB1_VAREX - 146 sp|P02024|HBB_GORGO - 147 1.5e-68 220.7 0.1 1 1 1.6e-68 1.6e-68 220.5 0.1 2 147 1 146 1 146 1.00 - +HBBL_RANCA - 146 sp|P02024|HBB_GORGO - 147 7.6e-65 208.7 0.3 1 1 8.5e-65 8.5e-65 208.5 0.3 2 147 1 146 1 146 1.00 - +HBB2_XENTR - 146 sp|P02024|HBB_GORGO - 147 2.5e-63 203.7 0.9 1 1 2.8e-63 2.8e-63 203.6 0.9 2 146 1 145 1 146 1.00 - +HBA_MESAU - 141 sp|P02024|HBB_GORGO - 147 6.9e-63 202.3 0.3 1 1 7.5e-63 7.5e-63 202.2 0.3 4 146 2 140 1 141 0.99 - +HBA_PONPY - 141 sp|P02024|HBB_GORGO - 147 1.1e-61 198.4 0.7 1 1 1.2e-61 1.2e-61 198.3 0.7 4 146 2 140 1 141 0.98 - +HBA_MACFA - 141 sp|P02024|HBB_GORGO - 147 1.8e-61 197.7 0.3 1 1 1.9e-61 1.9e-61 197.6 0.3 4 146 2 140 1 141 0.99 - +HBA_MACSI - 141 sp|P02024|HBB_GORGO - 147 2.6e-61 197.2 0.3 1 1 2.8e-61 2.8e-61 197.1 0.3 4 146 2 140 1 141 0.99 - +HBA_AILME - 141 sp|P02024|HBB_GORGO - 147 3.6e-61 196.8 0.1 1 1 3.9e-61 3.9e-61 196.6 0.1 4 146 2 140 1 141 0.99 - +HBA_PHACO - 141 sp|P02024|HBB_GORGO - 147 1.2e-60 195.1 0.4 1 1 1.3e-60 1.3e-60 194.9 0.4 4 146 2 140 1 141 0.99 - +HBA2_BOSMU - 141 sp|P02024|HBB_GORGO - 147 1.2e-60 195.1 0.4 1 1 1.3e-60 1.3e-60 194.9 0.4 4 146 2 140 1 141 0.99 - +HBA_FRAPO - 141 sp|P02024|HBB_GORGO - 147 1.2e-60 195.0 0.4 1 1 1.4e-60 1.4e-60 194.9 0.4 4 146 2 140 1 141 0.98 - +HBA2_GALCR - 141 sp|P02024|HBB_GORGO - 147 1.4e-60 194.8 0.6 1 1 1.6e-60 1.6e-60 194.7 0.6 4 146 2 140 1 141 0.98 - +HBA_ERIEU - 141 sp|P02024|HBB_GORGO - 147 4.5e-60 193.2 0.1 1 1 4.9e-60 4.9e-60 193.1 0.1 4 146 2 140 1 141 0.98 - +HBA_PROLO - 141 sp|P02024|HBB_GORGO - 147 5.1e-60 193.0 0.0 1 1 5.6e-60 5.6e-60 192.9 0.0 4 146 2 140 1 141 0.99 - +HBA_ANSSE - 141 sp|P02024|HBB_GORGO - 147 7.4e-60 192.5 0.4 1 1 8.1e-60 8.1e-60 192.3 0.4 4 146 2 140 1 141 0.99 - +HBA_PAGLA - 141 sp|P02024|HBB_GORGO - 147 7.4e-60 192.5 0.5 1 1 8.1e-60 8.1e-60 192.3 0.5 4 146 2 140 1 141 0.98 - +HBA_TRIOC - 141 sp|P02024|HBB_GORGO - 147 4.5e-59 189.9 0.5 1 1 5e-59 5e-59 189.8 0.5 4 146 2 140 1 141 0.98 - +HBAD_CHLME - 141 sp|P02024|HBB_GORGO - 147 6e-59 189.5 0.5 1 1 6.6e-59 6.6e-59 189.4 0.5 4 146 2 140 1 141 0.98 - +HBAZ_HORSE - 141 sp|P02024|HBB_GORGO - 147 2.2e-58 187.7 0.1 1 1 2.5e-58 2.5e-58 187.5 0.1 4 146 2 140 1 141 0.98 - +HBAD_PASMO - 141 sp|P02024|HBB_GORGO - 147 2.4e-58 187.6 0.1 1 1 2.7e-58 2.7e-58 187.4 0.1 4 146 2 140 1 141 0.98 - +HBA_COLLI - 141 sp|P02024|HBB_GORGO - 147 2.5e-58 187.5 0.2 1 1 2.8e-58 2.8e-58 187.4 0.2 4 146 2 140 1 141 0.98 - +HBB2_TRICR - 145 sp|P02024|HBB_GORGO - 147 1.9e-56 181.4 0.0 1 1 2.2e-56 2.2e-56 181.2 0.0 2 146 1 145 1 145 1.00 - +HBA4_SALIR - 142 sp|P02024|HBB_GORGO - 147 5.3e-56 180.0 0.1 1 1 5.8e-56 5.8e-56 179.8 0.1 4 146 2 141 1 142 0.98 - +MYG_LYCPI - 153 sp|P02024|HBB_GORGO - 147 9.5e-56 179.1 1.8 1 1 1.1e-55 1.1e-55 179.0 1.8 4 146 2 146 1 147 0.97 - +MYG_SAISC - 153 sp|P02024|HBB_GORGO - 147 1.3e-55 178.7 1.0 1 1 1.4e-55 1.4e-55 178.6 1.0 4 146 2 146 1 147 0.98 - +MYG_ESCGI - 153 sp|P02024|HBB_GORGO - 147 3.1e-55 177.5 2.2 1 1 3.4e-55 3.4e-55 177.3 2.2 4 146 2 146 1 147 0.97 - +MYG_PROGU - 153 sp|P02024|HBB_GORGO - 147 5.1e-55 176.8 0.2 1 1 5.7e-55 5.7e-55 176.6 0.2 4 146 2 146 1 147 0.97 - +MYG_HORSE - 153 sp|P02024|HBB_GORGO - 147 9.3e-55 175.9 1.0 1 1 1e-54 1e-54 175.8 1.0 4 146 2 146 1 147 0.97 - +MYG_MOUSE - 153 sp|P02024|HBB_GORGO - 147 1.4e-54 175.3 0.3 1 1 1.6e-54 1.6e-54 175.2 0.3 4 146 2 146 1 147 0.97 - +MYG_MUSAN - 148 sp|P02024|HBB_GORGO - 147 1.6e-44 142.7 0.3 1 1 1.8e-44 1.8e-44 142.6 0.3 8 146 2 141 1 142 0.96 - # # Program: jackhmmer -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpw5_nj0/files/000/dataset_1.dat -# Target file: /tmp/tmpw5_nj0/files/000/dataset_2.dat -# Option settings: jackhmmer -N 5 --tblout /tmp/tmpw5_nj0/files/000/dataset_4.dat --domtblout /tmp/tmpw5_nj0/files/000/dataset_5.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --wpb --EmL 200 --EmN 200 --EvL 200 --EvN 200 --EfL 100 --EfN 200 --Eft 0.04 --seed 4 --cpu 1 /tmp/tmpw5_nj0/files/000/dataset_1.dat /tmp/tmpw5_nj0/files/000/dataset_2.dat -# Current dir: /tmp/tmpw5_nj0/job_working_directory/000/3/working -# Date: Mon Jun 11 17:59:06 2018 +# Query file: /tmp/tmpfvu1k4r6/files/e/a/d/dataset_ead1ef79-dd40-459b-b072-01fc401e229a.dat +# Target file: /tmp/tmpfvu1k4r6/files/c/9/e/dataset_c9eb6990-14c2-41da-9304-1bdf155f29e9.dat +# Option settings: jackhmmer -N 5 --tblout /tmp/tmpfvu1k4r6/files/c/c/a/dataset_cca87e56-6fd4-49f3-b29f-dca9b665fb4e.dat --domtblout /tmp/tmpfvu1k4r6/files/a/9/3/dataset_a93530ef-2a8d-4611-9764-b317aa42a6b4.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --wpb --EmL 200 --EmN 200 --EvL 200 --EvN 200 --EfL 100 --EfN 200 --Eft 0.04 --seed 4 --cpu 1 /tmp/tmpfvu1k4r6/files/e/a/d/dataset_ead1ef79-dd40-459b-b072-01fc401e229a.dat /tmp/tmpfvu1k4r6/files/c/9/e/dataset_c9eb6990-14c2-41da-9304-1bdf155f29e9.dat +# Current dir: /tmp/tmpfvu1k4r6/job_working_directory/000/3/working +# Date: Thu May 14 18:30:01 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/jackhmmer.out --- a/test-data/jackhmmer.out Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/jackhmmer.out Tue Jun 16 05:34:25 2020 -0400 @@ -1,12 +1,10 @@ # jackhmmer :: iteratively search a protein sequence against a protein database -# HMMER 3.2 (June 2018); http://hmmer.org/ -# Copyright (C) 2018 Howard Hughes Medical Institute. +# HMMER 3.3 (Nov 2019); http://hmmer.org/ +# Copyright (C) 2019 Howard Hughes Medical Institute. # Freely distributed under the BSD open source license. # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -# query sequence file: /tmp/tmpw5_nj0/files/000/dataset_1.dat -# target sequence database: /tmp/tmpw5_nj0/files/000/dataset_2.dat -# per-seq hits tabular output: /tmp/tmpw5_nj0/files/000/dataset_4.dat -# per-dom hits tabular output: /tmp/tmpw5_nj0/files/000/dataset_5.dat +# query sequence file: /tmp/tmpfvu1k4r6/files/5/c/1/dataset_5c1435bb-ab6c-4203-863c-578c4a331ea1.dat +# target sequence database: /tmp/tmpfvu1k4r6/files/0/c/2/dataset_0c23de62-c430-473e-92ee-a18da9f58231.dat # max ASCII text line length: unlimited # Vit filter P threshold: <= 0.001 # Fwd filter P threshold: <= 1e-05 @@ -608,8 +606,8 @@ Passed Fwd filter: 44 (0.977778); expected 0.0 (1e-05) Initial search space (Z): 45 [actual number of targets] Domain search space (domZ): 44 [number of targets reported over threshold] -# CPU time: 0.03u 0.00s 00:00:00.03 Elapsed: 00:00:00.03 -# Mc/sec: 31.40 +# CPU time: 0.04u 0.00s 00:00:00.04 Elapsed: 00:00:00.04 +# Mc/sec: 20.54 @@ New targets included: 44 @@ New alignment includes: 45 subseqs (was 1), including original query @@ -1270,8 +1268,8 @@ Passed Fwd filter: 45 (1); expected 0.0 (1e-05) Initial search space (Z): 45 [actual number of targets] Domain search space (domZ): 45 [number of targets reported over threshold] -# CPU time: 0.19u 0.00s 00:00:00.19 Elapsed: 00:00:00.20 -# Mc/sec: 5.00 +# CPU time: 0.22u 0.00s 00:00:00.22 Elapsed: 00:00:00.22 +# Mc/sec: 4.45 @@ New targets included: 1 @@ New alignment includes: 46 subseqs (was 45), including original query @@ -1932,8 +1930,8 @@ Passed Fwd filter: 45 (1); expected 0.0 (1e-05) Initial search space (Z): 45 [actual number of targets] Domain search space (domZ): 45 [number of targets reported over threshold] -# CPU time: 0.19u 0.00s 00:00:00.19 Elapsed: 00:00:00.18 -# Mc/sec: 5.41 +# CPU time: 0.20u 0.00s 00:00:00.20 Elapsed: 00:00:00.20 +# Mc/sec: 5.00 @@ New targets included: 0 @@ New alignment includes: 46 subseqs (was 46), including original query @@ -2549,8 +2547,8 @@ Passed Fwd filter: 45 (1); expected 0.0 (1e-05) Initial search space (Z): 45 [actual number of targets] Domain search space (domZ): 45 [number of targets reported over threshold] -# CPU time: 0.03u 0.00s 00:00:00.03 Elapsed: 00:00:00.03 -# Mc/sec: 31.81 +# CPU time: 0.05u 0.00s 00:00:00.05 Elapsed: 00:00:00.04 +# Mc/sec: 20.84 @@ New targets included: 45 @@ New alignment includes: 46 subseqs (was 1), including original query @@ -2566,638 +2564,638 @@ --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- - 3.6e-74 238.9 0.1 4e-74 238.8 0.1 1.0 1 HBB_MANSP - 1.7e-73 236.7 0.3 1.9e-73 236.6 0.3 1.0 1 HBB_URSMA - 2.2e-72 233.1 0.8 2.4e-72 233.0 0.8 1.0 1 HBB_RABIT - 5.4e-72 231.8 0.1 6e-72 231.7 0.1 1.0 1 HBB_SUNMU - 7e-72 231.5 0.2 7.7e-72 231.3 0.2 1.0 1 HBB_CALAR - 9.6e-72 231.0 0.0 1.1e-71 230.9 0.0 1.0 1 HBB_COLLI - 2.5e-71 229.7 0.4 2.8e-71 229.6 0.4 1.0 1 HBB_TACAC - 4.8e-71 228.8 0.4 5.3e-71 228.6 0.4 1.0 1 HBE_PONPY - 5.1e-71 228.7 0.2 5.7e-71 228.5 0.2 1.0 1 HBB_EQUHE - 1.3e-70 227.3 1.0 1.5e-70 227.2 1.0 1.0 1 HBB_SPECI - 2e-70 226.8 0.6 2.2e-70 226.6 0.6 1.0 1 HBB_SPETO - 3.7e-70 225.9 0.1 4.1e-70 225.8 0.1 1.0 1 HBB_TRIIN - 4.1e-70 225.7 0.0 4.6e-70 225.6 0.0 1.0 1 HBB_ORNAN - 5.7e-70 225.3 0.0 6.4e-70 225.1 0.0 1.0 1 HBB_LARRI - 1.8e-68 220.5 0.0 1.9e-68 220.3 0.0 1.0 1 HBB_TUPGL - 1.5e-67 217.4 0.1 1.7e-67 217.3 0.1 1.0 1 HBB1_VAREX - 7.8e-64 205.4 0.3 8.7e-64 205.2 0.3 1.0 1 HBBL_RANCA - 4.5e-63 202.9 0.3 5e-63 202.8 0.3 1.0 1 HBA_MESAU - 2e-62 200.8 0.8 2.3e-62 200.6 0.8 1.0 1 HBB2_XENTR - 4.6e-62 199.6 0.7 5e-62 199.5 0.7 1.0 1 HBA_PONPY - 8.7e-62 198.7 0.3 9.6e-62 198.6 0.3 1.0 1 HBA_MACFA - 1.3e-61 198.2 0.3 1.4e-61 198.1 0.3 1.0 1 HBA_MACSI - 2.1e-61 197.5 0.1 2.4e-61 197.3 0.1 1.0 1 HBA_AILME - 6.6e-61 195.9 0.6 7.3e-61 195.7 0.6 1.0 1 HBA2_GALCR - 7.1e-61 195.8 0.4 7.8e-61 195.7 0.4 1.0 1 HBA_FRAPO - 7.3e-61 195.7 0.4 8e-61 195.6 0.4 1.0 1 HBA_PHACO - 7.6e-61 195.7 0.4 8.3e-61 195.6 0.4 1.0 1 HBA2_BOSMU - 2.4e-60 194.0 0.1 2.7e-60 193.9 0.1 1.0 1 HBA_ERIEU - 3.3e-60 193.6 0.0 3.6e-60 193.5 0.0 1.0 1 HBA_PROLO - 3.9e-60 193.4 0.4 4.3e-60 193.2 0.4 1.0 1 HBA_ANSSE - 4.1e-60 193.3 0.5 4.5e-60 193.2 0.5 1.0 1 HBA_PAGLA - 2.7e-59 190.7 0.5 2.9e-59 190.5 0.5 1.0 1 HBA_TRIOC - 6.3e-59 189.4 0.5 7e-59 189.3 0.5 1.0 1 HBAD_CHLME - 7.5e-59 189.2 0.1 8.2e-59 189.1 0.1 1.0 1 HBAZ_HORSE - 1.6e-58 188.1 0.2 1.8e-58 188.0 0.2 1.0 1 HBA_COLLI - 2e-58 187.8 0.1 2.2e-58 187.7 0.1 1.0 1 HBAD_PASMO - 2.9e-57 184.1 1.0 3.2e-57 183.9 1.0 1.0 1 MYG_SAISC - 3e-57 184.0 1.9 3.3e-57 183.9 1.9 1.0 1 MYG_LYCPI - 8.3e-57 182.6 0.2 9.2e-57 182.4 0.2 1.0 1 MYG_PROGU - 8.8e-57 182.5 2.3 9.7e-57 182.4 2.3 1.0 1 MYG_ESCGI - 2.5e-56 181.0 1.0 2.7e-56 180.9 1.0 1.0 1 MYG_HORSE - 4.7e-56 180.1 0.3 5.2e-56 180.0 0.3 1.0 1 MYG_MOUSE - 7.5e-56 179.5 0.1 8.3e-56 179.3 0.1 1.0 1 HBA4_SALIR - 2.7e-55 177.7 0.0 3e-55 177.5 0.0 1.0 1 HBB2_TRICR - 4.6e-45 144.5 0.3 5.1e-45 144.3 0.3 1.0 1 MYG_MUSAN + 2.3e-75 242.8 0.1 2.6e-75 242.6 0.1 1.0 1 HBB_MANSP + 1.1e-74 240.6 0.3 1.2e-74 240.5 0.3 1.0 1 HBB_URSMA + 1.4e-73 237.0 0.9 1.5e-73 236.9 0.9 1.0 1 HBB_RABIT + 4.1e-73 235.5 0.2 4.5e-73 235.4 0.2 1.0 1 HBB_CALAR + 4.2e-73 235.4 0.1 4.7e-73 235.3 0.1 1.0 1 HBB_SUNMU + 7.8e-73 234.6 0.0 8.7e-73 234.4 0.0 1.0 1 HBB_COLLI + 1.9e-72 233.3 0.4 2.1e-72 233.2 0.4 1.0 1 HBB_TACAC + 3.1e-72 232.6 0.4 3.4e-72 232.5 0.4 1.0 1 HBE_PONPY + 3.5e-72 232.5 0.2 3.8e-72 232.3 0.2 1.0 1 HBB_EQUHE + 1.1e-71 230.8 1.0 1.3e-71 230.7 1.0 1.0 1 HBB_SPECI + 1.6e-71 230.3 0.6 1.7e-71 230.2 0.6 1.0 1 HBB_SPETO + 2.6e-71 229.6 0.1 2.9e-71 229.5 0.1 1.0 1 HBB_TRIIN + 2.9e-71 229.5 0.0 3.2e-71 229.4 0.0 1.0 1 HBB_ORNAN + 5.2e-71 228.7 0.0 5.7e-71 228.5 0.0 1.0 1 HBB_LARRI + 1.1e-69 224.3 0.0 1.3e-69 224.2 0.0 1.0 1 HBB_TUPGL + 1.5e-68 220.7 0.1 1.6e-68 220.5 0.1 1.0 1 HBB1_VAREX + 7.6e-65 208.7 0.3 8.5e-65 208.5 0.3 1.0 1 HBBL_RANCA + 2.5e-63 203.7 0.9 2.8e-63 203.6 0.9 1.0 1 HBB2_XENTR + 6.9e-63 202.3 0.3 7.5e-63 202.2 0.3 1.0 1 HBA_MESAU + 1.1e-61 198.4 0.7 1.2e-61 198.3 0.7 1.0 1 HBA_PONPY + 1.8e-61 197.7 0.3 1.9e-61 197.6 0.3 1.0 1 HBA_MACFA + 2.6e-61 197.2 0.3 2.8e-61 197.1 0.3 1.0 1 HBA_MACSI + 3.6e-61 196.8 0.1 3.9e-61 196.6 0.1 1.0 1 HBA_AILME + 1.2e-60 195.1 0.4 1.3e-60 194.9 0.4 1.0 1 HBA_PHACO + 1.2e-60 195.1 0.4 1.3e-60 194.9 0.4 1.0 1 HBA2_BOSMU + 1.2e-60 195.0 0.4 1.4e-60 194.9 0.4 1.0 1 HBA_FRAPO + 1.4e-60 194.8 0.6 1.6e-60 194.7 0.6 1.0 1 HBA2_GALCR + 4.5e-60 193.2 0.1 4.9e-60 193.1 0.1 1.0 1 HBA_ERIEU + 5.1e-60 193.0 0.0 5.6e-60 192.9 0.0 1.0 1 HBA_PROLO + 7.4e-60 192.5 0.4 8.1e-60 192.3 0.4 1.0 1 HBA_ANSSE + 7.4e-60 192.5 0.5 8.1e-60 192.3 0.5 1.0 1 HBA_PAGLA + 4.5e-59 189.9 0.5 5e-59 189.8 0.5 1.0 1 HBA_TRIOC + 6e-59 189.5 0.5 6.6e-59 189.4 0.5 1.0 1 HBAD_CHLME + 2.2e-58 187.7 0.1 2.5e-58 187.5 0.1 1.0 1 HBAZ_HORSE + 2.4e-58 187.6 0.1 2.7e-58 187.4 0.1 1.0 1 HBAD_PASMO + 2.5e-58 187.5 0.2 2.8e-58 187.4 0.2 1.0 1 HBA_COLLI + 1.9e-56 181.4 0.0 2.2e-56 181.2 0.0 1.0 1 HBB2_TRICR + 5.3e-56 180.0 0.1 5.8e-56 179.8 0.1 1.0 1 HBA4_SALIR + 9.5e-56 179.1 1.8 1.1e-55 179.0 1.8 1.0 1 MYG_LYCPI + 1.3e-55 178.7 1.0 1.4e-55 178.6 1.0 1.0 1 MYG_SAISC + 3.1e-55 177.5 2.2 3.4e-55 177.3 2.2 1.0 1 MYG_ESCGI + 5.1e-55 176.8 0.2 5.7e-55 176.6 0.2 1.0 1 MYG_PROGU + 9.3e-55 175.9 1.0 1e-54 175.8 1.0 1.0 1 MYG_HORSE + 1.4e-54 175.3 0.3 1.6e-54 175.2 0.3 1.0 1 MYG_MOUSE + 1.6e-44 142.7 0.3 1.8e-44 142.6 0.3 1.0 1 MYG_MUSAN Domain annotation for each sequence (and alignments): >> HBB_MANSP # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 238.8 0.1 4e-74 4e-74 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 242.6 0.1 2.6e-75 2.6e-75 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 238.8 bits; conditional E-value: 4e-74 + == domain 1 score: 242.6 bits; conditional E-value: 2.6e-75 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhl++eek++v+++wgkv++devG+eaL rllvvyP+t+r+Fd+F+dlss+dav+g++kvkahGkkvl a+++++++ld+lkg++a+LselH++kl+vdpenfkll++vlv+vLa++f+keftp+vqaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhl++eek++v+++wgkv++devG+eaL rllvvyP+t+r+Fd+Fgdlss+dav+g++kvkahgkkvl a+++++++ld+lkg++a+LselH++kl+vdpenfkll++vlv+vLa++f+keftp+vqaa++k++a+vanala+kYh HBB_MANSP 1 VHLTPEEKTAVTTLWGKVNVDEVGGEALGRLLVVYPWTQRFFDSFGDLSSPDAVMGNPKVKAHGKKVLGAFSDGLNHLDNLKGTFAQLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPQVQAAYQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_URSMA # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 236.6 0.3 1.9e-73 1.9e-73 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 240.5 0.3 1.2e-74 1.2e-74 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 236.6 bits; conditional E-value: 1.9e-73 + == domain 1 score: 240.5 bits; conditional E-value: 1.2e-74 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhl+ eek+lv+ +wgkv++devG+eaL rllvvyP+t+r+Fd+F+dlss+da+++++kvkahGkkvl+++++++k+ld+lkg++akLselH++kl+vdpenfkll++vlv+vLa++f+keftp+vqaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhl+ eek+lv+ +wgkv++devG+eaL rllvvyP+t+r+Fd+Fgdlss+da+++++kvkahgkkvl+++++++k+ld+lkg++akLselH++kl+vdpenfkll++vlv+vLa++f+keftp+vqaa++k++a+vanala+kYh HBB_URSMA 1 VHLTGEEKSLVTGLWGKVNVDEVGGEALGRLLVVYPWTQRFFDSFGDLSSADAIMNNPKVKAHGKKVLNSFSDGLKNLDNLKGTFAKLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPQVQAAYQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_RABIT # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 233.0 0.8 2.4e-72 2.4e-72 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 236.9 0.9 1.5e-73 1.5e-73 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 233.0 bits; conditional E-value: 2.4e-72 + == domain 1 score: 236.9 bits; conditional E-value: 1.5e-73 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls+eek++v+a+wgkv+++evG+eaL rllvvyP+t+r+F++F+dlss++av++++kvkahGkkvl+a++e++++ld+lkg++akLselH++kl+vdpenf+ll++vlv+vL+++f+keftp+vqaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls+eek++v+a+wgkv+++evG+eaL rllvvyP+t+r+F++Fgdlss++av++++kvkahgkkvl+a++e++++ld+lkg++akLselH++kl+vdpenf+ll++vlv+vL+++f+keftp+vqaa++k++a+vanala+kYh HBB_RABIT 1 VHLSSEEKSAVTALWGKVNVEEVGGEALGRLLVVYPWTQRFFESFGDLSSANAVMNNPKVKAHGKKVLAAFSEGLSHLDNLKGTFAKLSELHCDKLHVDPENFRLLGNVLVIVLSHHFGKEFTPQVQAAYQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP +>> HBB_CALAR + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 235.4 0.2 4.5e-73 4.5e-73 2 147 .] 1 146 [] 1 146 [] 1.00 + + Alignments for each domain: + == domain 1 score: 235.4 bits; conditional E-value: 4.5e-73 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhl+ eek++v+a+wgkv++devG+eaL rllvvyP+t+r+F++Fgdls++dav++++kvkahgkkvl a+++++++ld+lkg++a+LselH++kl+vdpenf+ll++vlv+vLa++f+keftp vqaa++k++a+vanala+kYh + HBB_CALAR 1 VHLTGEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMNNPKVKAHGKKVLGAFSDGLTHLDNLKGTFAHLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPVVQAAYQKVVAGVANALAHKYH 146 + 8************************************************************************************************************************************************8 PP + >> HBB_SUNMU # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 231.7 0.1 6e-72 6e-72 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 235.3 0.1 4.7e-73 4.7e-73 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 231.7 bits; conditional E-value: 6e-72 + == domain 1 score: 235.3 bits; conditional E-value: 4.7e-73 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls eeka v+ +wgkv++devGaeaL rllvvyP+t+r+Fd+F+dlss++av+g++kvkahGkkvl++lge+v +ld+lkg++akLselH++kl+vdpenf+ll++vlvvvLa+kf+keftp vqaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls eeka v+ +wgkv++devGaeaL rllvvyP+t+r+Fd+Fgdlss++av+g++kvkahgkkvl++lge+v +ld+lkg++akLselH++kl+vdpenf+ll++vlvvvLa+kf+keftp vqaa++k++a+vanala+kYh HBB_SUNMU 1 VHLSGEEKACVTGLWGKVNEDEVGAEALGRLLVVYPWTQRFFDSFGDLSSASAVMGNPKVKAHGKKVLHSLGEGVANLDNLKGTFAKLSELHCDKLHVDPENFRLLGNVLVVVLASKFGKEFTPPVQAAFQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP ->> HBB_CALAR - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 231.3 0.2 7.7e-72 7.7e-72 2 147 .] 1 146 [] 1 146 [] 1.00 - - Alignments for each domain: - == domain 1 score: 231.3 bits; conditional E-value: 7.7e-72 - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhl+ eek++v+a+wgkv++devG+eaL rllvvyP+t+r+F++F+dls++dav++++kvkahGkkvl a+++++++ld+lkg++a+LselH++kl+vdpenf+ll++vlv+vLa++f+keftp vqaa++k++a+vanala+kYh - HBB_CALAR 1 VHLTGEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMNNPKVKAHGKKVLGAFSDGLTHLDNLKGTFAHLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPVVQAAYQKVVAGVANALAHKYH 146 - 8************************************************************************************************************************************************8 PP - >> HBB_COLLI # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 230.9 0.0 1.1e-71 1.1e-71 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 234.4 0.0 8.7e-73 8.7e-73 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 230.9 bits; conditional E-value: 1.1e-71 + == domain 1 score: 234.4 bits; conditional E-value: 8.7e-73 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vh+saeek+l++++wgkv++ ++GaeaL+rll+vyP+t+r+F++F++lss++a++g+++vkahGkkvlt++g+avk+ld++kg++a+LselH++kl+vdpenf+ll+++lv++Laa+f+k+ftpe+qaa++kl+++va+ala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vh+saeek+l++++wgkv++ ++GaeaL+rll+vyP+t+r+F++Fg+lss++a++g+++vkahgkkvlt++g+avk+ld++kg++a+LselH++kl+vdpenf+ll+++lv++Laa+f+k+ftpe+qaa++kl+++va+ala+kYh HBB_COLLI 1 VHWSAEEKQLITSIWGKVNVADCGAEALARLLIVYPWTQRFFSSFGNLSSATAISGNPNVKAHGKKVLTSFGDAVKNLDNIKGTFAQLSELHCDKLHVDPENFRLLGDILVIILAAHFGKDFTPECQAAWQKLVRVVAHALARKYH 146 8************************************************************************************************************************************************8 PP >> HBB_TACAC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 229.6 0.4 2.8e-71 2.8e-71 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 233.2 0.4 2.1e-72 2.1e-72 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 229.6 bits; conditional E-value: 2.8e-71 + == domain 1 score: 233.2 bits; conditional E-value: 2.1e-72 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls +ek++v+++wg+v+++e+G+eaL rllvvyP+t+r+F++F+dlss+dav+g+akvkahG+kvlt++g+a+k+ld+lkg++akLselH++kl+vdpenf+ l++vlvvvLa++f+keftpe+qaa++kl+++v++ala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls +ek++v+++wg+v+++e+G+eaL rllvvyP+t+r+F++Fgdlss+dav+g+akvkahg+kvlt++g+a+k+ld+lkg++akLselH++kl+vdpenf+ l++vlvvvLa++f+keftpe+qaa++kl+++v++ala+kYh HBB_TACAC 1 VHLSGSEKTAVTNLWGHVNVNELGGEALGRLLVVYPWTQRFFESFGDLSSADAVMGNAKVKAHGAKVLTSFGDALKNLDNLKGTFAKLSELHCDKLHVDPENFNRLGNVLVVVLARHFSKEFTPEAQAAWQKLVSGVSHALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBE_PONPY # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 228.6 0.4 5.3e-71 5.3e-71 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 232.5 0.4 3.4e-72 3.4e-72 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 228.6 bits; conditional E-value: 5.3e-71 + == domain 1 score: 232.5 bits; conditional E-value: 3.4e-72 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vh++aeeka+v+++w+k++++e+G+eaL rllvvyP+t+r+Fd+F++lss++a+ g++kvkahGkkvlt++g+a+k++d+lk+++akLselH++kl+vdpenfkll++v+v++La++f+keftpevqaa++kl++ava ala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vh++aeeka+v+++w+k++++e+G+eaL rllvvyP+t+r+Fd+Fg+lss++a+ g++kvkahgkkvlt++g+a+k++d+lk+++akLselH++kl+vdpenfkll++v+v++La++f+keftpevqaa++kl++ava ala+kYh HBE_PONPY 1 VHFTAEEKAAVTSLWSKMNVEEAGGEALGRLLVVYPWTQRFFDSFGNLSSPSAILGNPKVKAHGKKVLTSFGDAIKNMDNLKTTFAKLSELHCDKLHVDPENFKLLGNVMVIILATHFGKEFTPEVQAAWQKLVSAVAIALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_EQUHE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 228.5 0.2 5.7e-71 5.7e-71 2 147 .] 1 146 [] 1 146 [] 0.99 + 1 ! 232.3 0.2 3.8e-72 3.8e-72 2 147 .] 1 146 [] 1 146 [] 0.99 Alignments for each domain: - == domain 1 score: 228.5 bits; conditional E-value: 5.7e-71 + == domain 1 score: 232.3 bits; conditional E-value: 3.8e-72 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - v+ls eeka+v a+w+kv+++evG+eaL rllvvyP+t+r+Fd+F+dls+++av+g++kvkahGkkvl+++ge+v++ld+lkg++a+LselH++kl+vdpenf+ll++vlvvvLa++f+k+ftpe qa+++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + v+ls eeka+v a+w+kv+++evG+eaL rllvvyP+t+r+Fd+Fgdls+++av+g++kvkahgkkvl+++ge+v++ld+lkg++a+LselH++kl+vdpenf+ll++vlvvvLa++f+k+ftpe qa+++k++a+vanala+kYh HBB_EQUHE 1 VQLSGEEKAAVLALWDKVNEEEVGGEALGRLLVVYPWTQRFFDSFGDLSNPAAVMGNPKVKAHGKKVLHSFGEGVHHLDNLKGTFAQLSELHCDKLHVDPENFRLLGNVLVVVLARHFGKDFTPELQASYQKVVAGVANALAHKYH 146 789**********************************************************************************************************************************************8 PP >> HBB_SPECI # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 227.2 1.0 1.5e-70 1.5e-70 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 230.7 1.0 1.3e-71 1.3e-71 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 227.2 bits; conditional E-value: 1.5e-70 + == domain 1 score: 230.7 bits; conditional E-value: 1.3e-71 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls+ ek++++++wgkv+a evGaeaL rllvvyP+t+r+Fd+F+dlss++av+g+akvkahGkkv++++++++k+ld+lkg++a+LselH++kl+vdpenfkll++++v+v+a++++k+ftpe+qaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls+ ek++++++wgkv+a evGaeaL rllvvyP+t+r+Fd+Fgdlss++av+g+akvkahgkkv++++++++k+ld+lkg++a+LselH++kl+vdpenfkll++++v+v+a++++k+ftpe+qaa++k++a+vanala+kYh HBB_SPECI 1 VHLSDGEKNAISTAWGKVHAAEVGAEALGRLLVVYPWTQRFFDSFGDLSSASAVMGNAKVKAHGKKVIDSFSNGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPEAQAAFQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_SPETO # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 226.6 0.6 2.2e-70 2.2e-70 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 230.2 0.6 1.7e-71 1.7e-71 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 226.6 bits; conditional E-value: 2.2e-70 + == domain 1 score: 230.2 bits; conditional E-value: 1.7e-71 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhl++ ek++++++wgkv+a e+GaeaL rllvvyP+t+r+Fd+F+dlss++av+g+akvkahGkkv++++++++k+ld+lkg++a+LselH++kl+vdpenfkll++++v+v+a++++k+ftpe+qaa++k++a+vanal++kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhl++ ek++++++wgkv+a e+GaeaL rllvvyP+t+r+Fd+Fgdlss++av+g+akvkahgkkv++++++++k+ld+lkg++a+LselH++kl+vdpenfkll++++v+v+a++++k+ftpe+qaa++k++a+vanal++kYh HBB_SPETO 1 VHLTDGEKNAISTAWGKVNAAEIGAEALGRLLVVYPWTQRFFDSFGDLSSASAVMGNAKVKAHGKKVIDSFSNGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPEAQAAFQKVVAGVANALSHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_TRIIN # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 225.8 0.1 4.1e-70 4.1e-70 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 229.5 0.1 2.9e-71 2.9e-71 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 225.8 bits; conditional E-value: 4.1e-70 + == domain 1 score: 229.5 bits; conditional E-value: 2.9e-71 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhl++eekalv +w kv+++e+G+eaL rllvvyP+t+r+F++F+dlss++a+++++kvkahG+kv+t++g+++k+l+dlkga+a+LselH++kl+vdpenf+ll++vlv+vLa++f+kef+pe+qaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhl++eekalv +w kv+++e+G+eaL rllvvyP+t+r+F++Fgdlss++a+++++kvkahg+kv+t++g+++k+l+dlkga+a+LselH++kl+vdpenf+ll++vlv+vLa++f+kef+pe+qaa++k++a+vanala+kYh HBB_TRIIN 1 VHLTPEEKALVIGLWAKVNVKEYGGEALGRLLVVYPWTQRFFEHFGDLSSASAIMNNPKVKAHGEKVFTSFGDGLKHLEDLKGAFAELSELHCDKLHVDPENFRLLGNVLVCVLARHFGKEFSPEAQAAYQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_ORNAN # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 225.6 0.0 4.6e-70 4.6e-70 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 229.4 0.0 3.2e-71 3.2e-71 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 225.6 bits; conditional E-value: 4.6e-70 + == domain 1 score: 229.4 bits; conditional E-value: 3.2e-71 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls ek++v+++wgkv+++e+G+eaL rllvvyP+t+r+F+ F+dlss+ av+g++kvkahG+kvlt++g+a+k+lddlkg++akLselH++kl+vdpenf+ l++vl+vvLa++f+k+f+pevqaa++kl+++va+al++kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls ek++v+++wgkv+++e+G+eaL rllvvyP+t+r+F+ Fgdlss+ av+g++kvkahg+kvlt++g+a+k+lddlkg++akLselH++kl+vdpenf+ l++vl+vvLa++f+k+f+pevqaa++kl+++va+al++kYh HBB_ORNAN 1 VHLSGGEKSAVTNLWGKVNINELGGEALGRLLVVYPWTQRFFEAFGDLSSAGAVMGNPKVKAHGAKVLTSFGDALKNLDDLKGTFAKLSELHCDKLHVDPENFNRLGNVLIVVLARHFSKDFSPEVQAAWQKLVSGVAHALGHKYH 146 8************************************************************************************************************************************************8 PP >> HBB_LARRI # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 225.1 0.0 6.4e-70 6.4e-70 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 228.5 0.0 5.7e-71 5.7e-71 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 225.1 bits; conditional E-value: 6.4e-70 + == domain 1 score: 228.5 bits; conditional E-value: 5.7e-71 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vh+saeek+l++ +wgkv++ ++GaeaL+rll+vyP+t+r+F +F++lss++a++g++ v+ahGkkvlt++geavk+ld++k+++a+LselH++kl+vdpenf+ll+++l++vLaa+f k+ftp+ qaa++kl+++va+ala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vh+saeek+l++ +wgkv++ ++GaeaL+rll+vyP+t+r+F +Fg+lss++a++g++ v+ahgkkvlt++geavk+ld++k+++a+LselH++kl+vdpenf+ll+++l++vLaa+f k+ftp+ qaa++kl+++va+ala+kYh HBB_LARRI 1 VHWSAEEKQLITGLWGKVNVADCGAEALARLLIVYPWTQRFFASFGNLSSPTAINGNPMVRAHGKKVLTSFGEAVKNLDNIKNTFAQLSELHCDKLHVDPENFRLLGDILIIVLAAHFAKDFTPDSQAAWQKLVRVVAHALARKYH 146 8************************************************************************************************************************************************8 PP >> HBB_TUPGL # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 220.3 0.0 1.9e-68 1.9e-68 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 224.2 0.0 1.3e-69 1.3e-69 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 220.3 bits; conditional E-value: 1.9e-68 + == domain 1 score: 224.2 bits; conditional E-value: 1.3e-69 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vhls eeka+v+ +wgkv+ ++vG++ L ll+vyP+t+r+Fd+F+dlss++av++++kvkahGkkvlt++++++++ld+lkg++akLselH++kl+vdpenf+ll++vlv vLa++f+ eftp+vqaa++k++a+vanala+kYh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vhls eeka+v+ +wgkv+ ++vG++ L ll+vyP+t+r+Fd+Fgdlss++av++++kvkahgkkvlt++++++++ld+lkg++akLselH++kl+vdpenf+ll++vlv vLa++f+ eftp+vqaa++k++a+vanala+kYh HBB_TUPGL 1 VHLSGEEKAAVTGLWGKVDLEKVGGQSLGSLLIVYPWTQRFFDSFGDLSSPSAVMSNPKVKAHGKKVLTSFSDGLNHLDNLKGTFAKLSELHCDKLHVDPENFRLLGNVLVRVLACNFGPEFTPQVQAAFQKVVAGVANALAHKYH 146 8************************************************************************************************************************************************8 PP >> HBB1_VAREX # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 217.3 0.1 1.7e-67 1.7e-67 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 220.5 0.1 1.6e-68 1.6e-68 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 217.3 bits; conditional E-value: 1.7e-67 + == domain 1 score: 220.5 bits; conditional E-value: 1.6e-68 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vh++aeek+l+ ++wgk++++ +G+e+L+ llv yP+t+r+F++F++lss++a++g+++vkahGkkvlt++g+a+k+ld++k+++akLselH++kl+vdp+nfkll++vlv+vLa +++keftp+++aa++kl+++v+++la++Yh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vh++aeek+l+ ++wgk++++ +G+e+L+ llv yP+t+r+F++Fg+lss++a++g+++vkahgkkvlt++g+a+k+ld++k+++akLselH++kl+vdp+nfkll++vlv+vLa +++keftp+++aa++kl+++v+++la++Yh HBB1_VAREX 1 VHWTAEEKQLICSLWGKIDVGLIGGETLAGLLVIYPWTQRQFSHFGNLSSPTAIAGNPRVKAHGKKVLTSFGDAIKNLDNIKDTFAKLSELHCDKLHVDPTNFKLLGNVLVIVLADHHGKEFTPAHHAAYQKLVNVVSHSLARRYH 146 8************************************************************************************************************************************************8 PP >> HBBL_RANCA # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 205.2 0.3 8.7e-64 8.7e-64 2 147 .] 1 146 [] 1 146 [] 1.00 + 1 ! 208.5 0.3 8.5e-65 8.5e-65 2 147 .] 1 146 [] 1 146 [] 1.00 Alignments for each domain: - == domain 1 score: 205.2 bits; conditional E-value: 8.7e-64 + == domain 1 score: 208.5 bits; conditional E-value: 8.5e-65 xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 - vh++aeeka +++vw+kv++++ G+eaL+rl++vyP+t+ryF++F+dlss++a++g++kv+ahGkk+l a+++a+++ldd+kg+l++Lse Ha++l+vdpenf+ l+evl+vvL ak++k+f+p+vq+ ++k++a++ +al++ Yh + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakYh 147 + vh++aeeka +++vw+kv++++ G+eaL+rl++vyP+t+ryF++Fgdlss++a++g++kv+ahgkk+l a+++a+++ldd+kg+l++Lse Ha++l+vdpenf+ l+evl+vvL ak++k+f+p+vq++++k++a++ +al++ Yh HBBL_RANCA 1 VHWTAEEKAVINSVWQKVDVEQDGHEALTRLFIVYPWTQRYFSTFGDLSSPAAIAGNPKVHAHGKKILGAIDNAIHNLDDVKGTLHDLSEEHANELHVDPENFRRLGEVLIVVLGAKLGKAFSPQVQHVWEKFIAVLVDALSHSYH 146 8************************************************************************************************************************************************8 PP +>> HBB2_XENTR + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 203.6 0.9 2.8e-63 2.8e-63 2 146 .. 1 145 [. 1 146 [] 1.00 + + Alignments for each domain: + == domain 1 score: 203.6 bits; conditional E-value: 2.8e-63 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + vh++aeeka++++vwgkv++++ G++aL+rllvvyP+t+ryF++Fg+ls+ +av+g+ kvkahg+kvl+a+g+a+++ldd+k++l+ Ls++Ha++l+vdpenfk l++vlv+vLaak++++ftp+vqa+++kl a++ +al++ Y + HBB2_XENTR 1 VHWTAEEKATIASVWGKVDIEQDGHDALSRLLVVYPWTQRYFSSFGNLSNVSAVSGNVKVKAHGNKVLSAVGSAIQHLDDVKSHLKGLSKSHAEDLHVDPENFKRLADVLVIVLAAKLGSAFTPQVQAVWEKLNATLVAALSHGY 145 + 8***********************************************************************************************************************************************9 PP + >> HBA_MESAU # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 202.8 0.3 5e-63 5e-63 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 202.2 0.3 7.5e-63 7.5e-63 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 202.8 bits; conditional E-value: 5e-63 + == domain 1 score: 202.2 bits; conditional E-value: 7.5e-63 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k++++++wgk+ +a+e+GaeaLer++ vyP+tk+yF++F d+s +gsa+vk+hGkkv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p++ftp+v+a+ldk++a+v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k++++++wgk+ +a+e+GaeaLer++ vyP+tk+yF++F d+s +gsa+vk+hgkkv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p++ftp+v+a+ldk++a+v+++l++kY HBA_MESAU 2 LSAKDKTNISEAWGKIggHAGEYGAEALERMFFVYPTTKTYFPHF-DVS-----HGSAQVKGHGKKVADALTNAVGHLDDLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLANHHPADFTPAVHASLDKFFASVSTVLTSKY 140 - 89**************8889*************************.999.....******************************************************************************************* PP - ->> HBB2_XENTR - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 200.6 0.8 2.3e-62 2.3e-62 2 146 .. 1 145 [. 1 146 [] 1.00 - - Alignments for each domain: - == domain 1 score: 200.6 bits; conditional E-value: 2.3e-62 - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - vh++aeeka++++vwgkv++++ G++aL+rllvvyP+t+ryF++F++ls+ +av+g+ kvkahG+kvl+a+g+a+++ldd+k++l+ Ls++Ha++l+vdpenfk l++vlv+vLaak++++ftp+vqa ++kl a++ +al++ Y - HBB2_XENTR 1 VHWTAEEKATIASVWGKVDIEQDGHDALSRLLVVYPWTQRYFSSFGNLSNVSAVSGNVKVKAHGNKVLSAVGSAIQHLDDVKSHLKGLSKSHAEDLHVDPENFKRLADVLVIVLAAKLGSAFTPQVQAVWEKLNATLVAALSHGY 145 - 8***********************************************************************************************************************************************9 PP + 89**************9889*************************.999.....******************************************************************************************* PP >> HBA_PONPY # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 199.5 0.7 5e-62 5e-62 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 198.3 0.7 1.2e-61 1.2e-61 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 199.5 bits; conditional E-value: 5e-62 + == domain 1 score: 198.3 bits; conditional E-value: 1.2e-61 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k++vk++wgkv +a+++GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hGkkv++al++av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k++vk++wgkv +a+++GaeaLer++ ++P+tk+yF++F dls +gsa+vk hgkkv++al++av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY HBA_PONPY 2 LSPADKTNVKTAWGKVgaHAGDYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKDHGKKVADALTNAVAHVDDMPNALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKY 140 - 799*************77789************************.**9.....******************************************************************************************* PP + 799*************87789************************.**9.....******************************************************************************************* PP >> HBA_MACFA # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 198.6 0.3 9.6e-62 9.6e-62 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 197.6 0.3 1.9e-61 1.9e-61 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 198.6 bits; conditional E-value: 9.6e-62 + == domain 1 score: 197.6 bits; conditional E-value: 1.9e-61 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k++vka+wgkv +a+e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hGkkv++al+ av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k++vka+wgkv +a+e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hgkkv++al+ av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY HBA_MACFA 2 LSPADKTNVKAAWGKVggHAGEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGKKVADALTLAVGHVDDMPQALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKY 140 - 799*************8889*************************.**9.....******************************************************************************************* PP + 799*************9889*************************.**9.....******************************************************************************************* PP >> HBA_MACSI # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 198.1 0.3 1.4e-61 1.4e-61 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 197.1 0.3 2.8e-61 2.8e-61 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 198.1 bits; conditional E-value: 1.4e-61 + == domain 1 score: 197.1 bits; conditional E-value: 2.8e-61 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k++vk++wgkv +a+e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hGkkv++al+ av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k++vk++wgkv +a+e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hgkkv++al+ av ++dd+ +al++Ls+lHa+kl+vdp+nfklls++l+v+Laa++p+eftp+v+a+ldk+la+v+++l++kY HBA_MACSI 2 LSPADKTNVKDAWGKVggHAGEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGKKVADALTLAVGHVDDMPQALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKY 140 - 799*************8889*************************.**9.....******************************************************************************************* PP + 799*************9889*************************.**9.....******************************************************************************************* PP >> HBA_AILME # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 197.3 0.1 2.4e-61 2.4e-61 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 196.6 0.1 3.9e-61 3.9e-61 4 146 .. 2 140 .. 1 141 [] 0.99 + + Alignments for each domain: + == domain 1 score: 196.6 bits; conditional E-value: 3.9e-61 + xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k++vka w+k+ +a+e+G+eaLer + ++P+tk+yF++F dls gsa+vkahgkkv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v+a+ldk+++av+++l++kY + HBA_AILME 2 LSPADKTNVKATWDKIggHAGEYGGEALERTFASFPTTKTYFPHF-DLS-----PGSAQVKAHGKKVADALTTAVGHLDDLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLASHHPAEFTPAVHASLDKFFSAVSTVLTSKY 140 + 799*************9889*************************.**9.....9****************************************************************************************** PP + +>> HBA_PHACO + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 194.9 0.4 1.3e-60 1.3e-60 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 197.3 bits; conditional E-value: 2.4e-61 + == domain 1 score: 194.9 bits; conditional E-value: 1.3e-60 + xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k++vk +++k+ +a+e+GaeaLer++++yP+tk+yF++F dls +gsa++k+hgkkv++al eav+++dd++g+l+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+++tpev+a+ldk+l+av ++l+akY + HBA_PHACO 2 LSAADKNNVKGIFTKIagHAEEYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQIKGHGKKVVAALIEAVNHIDDITGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGTVLTAKY 140 + 89**************988**************************.**9.....******************************************************************************************* PP + +>> HBA2_BOSMU + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 194.9 0.4 1.3e-60 1.3e-60 4 146 .. 2 140 .. 1 141 [] 0.99 + + Alignments for each domain: + == domain 1 score: 194.9 bits; conditional E-value: 1.3e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k++vka w+k+ +a+e+G+eaLer + ++P+tk+yF++F dls gsa+vkahGkkv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v+a+ldk+++av+++l++kY - HBA_AILME 2 LSPADKTNVKATWDKIggHAGEYGGEALERTFASFPTTKTYFPHF-DLS-----PGSAQVKAHGKKVADALTTAVGHLDDLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLASHHPAEFTPAVHASLDKFFSAVSTVLTSKY 140 - 799*************8889*************************.**9.....9****************************************************************************************** PP + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k +vka+wgkv +a e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hg+kv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls+ l+v+La+++p++ftp+v+a+ldk+la+v+++l++kY + HBA2_BOSMU 2 LSAADKGNVKAAWGKVggHAAEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGAKVAAALTKAVGHLDDLPGALSELSDLHAHKLRVDPVNFKLLSHSLLVTLASHLPSDFTPAVHASLDKFLANVSTVLTSKY 140 + 79**************88899************************.**9.....******************************************************************************************* PP + +>> HBA_FRAPO + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 194.9 0.4 1.4e-60 1.4e-60 4 146 .. 2 140 .. 1 141 [] 0.98 + + Alignments for each domain: + == domain 1 score: 194.9 bits; conditional E-value: 1.4e-60 + xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k++vk ++gk+ +a+++GaeaLer++++yP+tk+yF++F dls +gsa+vk+hgkkv++al ea +++dd++g+l+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+++tpev+a+ldk+l+av n+l+akY + HBA_FRAPO 2 LSAADKNNVKGIFGKIssHAEDYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQVKGHGKKVVAALIEAANHIDDIAGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGNVLTAKY 140 + 89**************87799************************.**9.....******************************************************************************************* PP >> HBA2_GALCR # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 195.7 0.6 7.3e-61 7.3e-61 4 146 .. 2 140 .. 1 141 [] 0.98 - - Alignments for each domain: - == domain 1 score: 195.7 bits; conditional E-value: 7.3e-61 - xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k++vka+w+kv +a+++GaeaLer++ ++P+tk+yF++F dls +gs++vk+hGkkv++al++av ++dd+ +al++Ls+lHa+kl+vdp+nfkll ++l+v+La+++p+eftp+v+a+ldk++a+v+++l++kY - HBA2_GALCR 2 LSPTDKSNVKAAWEKVgaHAGDYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSTQVKGHGKKVADALTNAVLHVDDMPSALSALSDLHAHKLRVDPVNFKLLRHCLLVTLACHHPAEFTPAVHASLDKFMASVSTVLTSKY 140 - 799*************77789************************.**9.....******************************************************************************************* PP - ->> HBA_FRAPO - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 195.7 0.4 7.8e-61 7.8e-61 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 194.7 0.6 1.6e-60 1.6e-60 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 195.7 bits; conditional E-value: 7.8e-61 - xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k++vk ++gk+ +a+++GaeaLer++++yP+tk+yF++F dls +gsa+vk+hGkkv++al ea +++dd++g+l+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+++tpev+a+ldk+l+av n+l+akY - HBA_FRAPO 2 LSAADKNNVKGIFGKIssHAEDYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQVKGHGKKVVAALIEAANHIDDIAGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGNVLTAKY 140 - 79**************87799************************.**9.....******************************************************************************************* PP - ->> HBA_PHACO - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 195.6 0.4 8e-61 8e-61 4 146 .. 2 140 .. 1 141 [] 0.99 - - Alignments for each domain: - == domain 1 score: 195.6 bits; conditional E-value: 8e-61 + == domain 1 score: 194.7 bits; conditional E-value: 1.6e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k++vk +++k+ +a+e+GaeaLer++++yP+tk+yF++F dls +gsa++k+hGkkv++al eav+++dd++g+l+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+++tpev+a+ldk+l+av ++l+akY - HBA_PHACO 2 LSAADKNNVKGIFTKIagHAEEYGAEALERMFITYPSTKTYFPHF-DLS-----HGSAQIKGHGKKVVAALIEAVNHIDDITGTLSKLSDLHAHKLRVDPVNFKLLGQCFLVVVAIHHPSALTPEVHASLDKFLCAVGTVLTAKY 140 - 79**************8889*************************.**9.....******************************************************************************************* PP - ->> HBA2_BOSMU - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 195.6 0.4 8.3e-61 8.3e-61 4 146 .. 2 140 .. 1 141 [] 0.99 - - Alignments for each domain: - == domain 1 score: 195.6 bits; conditional E-value: 8.3e-61 - xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k +vka+wgkv +a e+GaeaLer++ ++P+tk+yF++F dls +gsa+vk+hG+kv++al++av +lddl gal++Ls+lHa+kl+vdp+nfklls+ l+v+La+++p++ftp+v+a+ldk+la+v+++l++kY - HBA2_BOSMU 2 LSAADKGNVKAAWGKVggHAAEYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSAQVKGHGAKVAAALTKAVGHLDDLPGALSELSDLHAHKLRVDPVNFKLLSHSLLVTLASHLPSDFTPAVHASLDKFLANVSTVLTSKY 140 - 79**************88899************************.**9.....******************************************************************************************* PP + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k++vka+w+kv +a+++GaeaLer++ ++P+tk+yF++F dls +gs++vk+hgkkv++al++av ++dd+ +al++Ls+lHa+kl+vdp+nfkll ++l+v+La+++p+eftp+v+a+ldk++a+v+++l++kY + HBA2_GALCR 2 LSPTDKSNVKAAWEKVgaHAGDYGAEALERMFLSFPTTKTYFPHF-DLS-----HGSTQVKGHGKKVADALTNAVLHVDDMPSALSALSDLHAHKLRVDPVNFKLLRHCLLVTLACHHPAEFTPAVHASLDKFMASVSTVLTSKY 140 + 799*************87789************************.**9.....******************************************************************************************* PP >> HBA_ERIEU # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 193.9 0.1 2.7e-60 2.7e-60 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 193.1 0.1 4.9e-60 4.9e-60 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 193.9 bits; conditional E-value: 2.7e-60 + == domain 1 score: 193.1 bits; conditional E-value: 4.9e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++ka+vk+ wgk+ + +e+G+eaL r+++ +P+tk+yF++F dl+ gsa+vk+hGkkv++al++av++ldd+ gal++Ls+lHa+kl+vdp+nfklls++l+v+La ++p++ftp+v+a+ldk+la+va++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++ka+vk+ wgk+ + +e+G+eaL r+++ +P+tk+yF++F dl+ gsa+vk+hgkkv++al++av++ldd+ gal++Ls+lHa+kl+vdp+nfklls++l+v+La ++p++ftp+v+a+ldk+la+va++l++kY HBA_ERIEU 2 LSATDKANVKTFWGKLggHGGEYGGEALDRMFQAHPTTKTYFPHF-DLN-----PGSAQVKGHGKKVADALTTAVNNLDDVPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLALHHPADFTPAVHASLDKFLATVATVLTSKY 140 - 79**************77789************************.998.....9****************************************************************************************** PP + 79**************87789************************.998.....9****************************************************************************************** PP >> HBA_PROLO # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 193.5 0.0 3.6e-60 3.6e-60 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 192.9 0.0 5.6e-60 5.6e-60 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 193.5 bits; conditional E-value: 3.6e-60 + == domain 1 score: 192.9 bits; conditional E-value: 5.6e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++ka++ka w+k+ +a+e+G+eaLer + ++P+tk+yF++F dls gsa+vkahGkkv++al+ av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v+a+ldk++++v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++ka++ka w+k+ +a+e+G+eaLer + ++P+tk+yF++F dls gsa+vkahgkkv++al+ av +lddl gal++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v+a+ldk++++v+++l++kY HBA_PROLO 2 LSPADKANIKATWDKIggHAGEYGGEALERTFASFPTTKTYFPHF-DLS-----PGSAQVKAHGKKVADALTLAVGHLDDLPGALSALSDLHAYKLRVDPVNFKLLSHCLLVTLACHHPAEFTPAVHASLDKFFTSVSTVLTSKY 140 - 799*************8889*************************.**9.....9****************************************************************************************** PP + 799*************9889*************************.**9.....9****************************************************************************************** PP >> HBA_ANSSE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 193.2 0.4 4.3e-60 4.3e-60 4 146 .. 2 140 .. 1 141 [] 0.99 + 1 ! 192.3 0.4 8.1e-60 8.1e-60 4 146 .. 2 140 .. 1 141 [] 0.99 Alignments for each domain: - == domain 1 score: 193.2 bits; conditional E-value: 4.3e-60 + == domain 1 score: 192.3 bits; conditional E-value: 8.1e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k +vk+v+gk+ +a+e+Gae+L+r+++++P+tk+yF++F dl+ gsa++kahGkkv++al ea +++dd++gal+kLs+lHa+kl+vdp+nfk+l+++++vvLa ++p+ +tpev+a++dk+l+ava++l+akY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k +vk+v+gk+ +a+e+Gae+L+r+++++P+tk+yF++F dl+ gsa++kahgkkv++al ea +++dd++gal+kLs+lHa+kl+vdp+nfk+l+++++vvLa ++p+ +tpev+a++dk+l+ava++l+akY HBA_ANSSE 2 LSAADKGNVKTVFGKIggHAEEYGAETLQRMFQTFPQTKTYFPHF-DLQ-----PGSAQIKAHGKKVAAALVEAANHIDDIAGALSKLSDLHAQKLRVDPVNFKFLGHCFLVVLAIHHPSLLTPEVHASMDKFLCAVATVLTAKY 140 - 79**************8889*************************.998.....9****************************************************************************************** PP + 79**************988**************************.998.....9****************************************************************************************** PP >> HBA_PAGLA # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 193.2 0.5 4.5e-60 4.5e-60 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 192.3 0.5 8.1e-60 8.1e-60 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 193.2 bits; conditional E-value: 4.5e-60 + == domain 1 score: 192.3 bits; conditional E-value: 8.1e-60 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+++k+++ka w+k+ +a+e+GaeaLer ++++P+tk+yF++F dls +gsa+vkahGkkv++al+ av +l+dl +al++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v++aldk+++av+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+++k+++ka w+k+ +a+e+GaeaLer ++++P+tk+yF++F dls +gsa+vkahgkkv++al+ av +l+dl +al++Ls+lHa+kl+vdp+nfklls++l+v+La+++p+eftp+v++aldk+++av+++l++kY HBA_PAGLA 2 LSSADKNNIKATWDKIgsHAGEYGAEALERTFISFPTTKTYFPHF-DLS-----HGSAQVKAHGKKVADALTLAVGHLEDLPNALSALSDLHAYKLRVDPVNFKLLSHCLLVTLACHHPAEFTPAVHSALDKFFSAVSTVLTSKY 140 - 799*************87799************************.**9.....******************************************************************************************* PP + 799*************88899************************.**9.....******************************************************************************************* PP >> HBA_TRIOC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 190.5 0.5 2.9e-59 2.9e-59 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 189.8 0.5 5e-59 5e-59 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 190.5 bits; conditional E-value: 2.9e-59 + == domain 1 score: 189.8 bits; conditional E-value: 5e-59 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k++vk+v++k+ +a+++Gae+Ler++++yP tk+yF++F dl +gsa++kahGkkv+ al eav+++dd++gal+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+ +tpev+a+ldk+l+av n+l+akY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k++vk+v++k+ +a+++Gae+Ler++++yP tk+yF++F dl +gsa++kahgkkv+ al eav+++dd++gal+kLs+lHa+kl+vdp+nfkll+++++vv+a ++p+ +tpev+a+ldk+l+av n+l+akY HBA_TRIOC 2 LSANDKTNVKTVFTKItgHAEDYGAETLERMFITYPPTKTYFPHF-DLH-----HGSAQIKAHGKKVVGALIEAVNHIDDIAGALSKLSDLHAQKLRVDPVNFKLLGQCFLVVVAIHHPSVLTPEVHASLDKFLCAVGNVLSAKY 140 89**************8889*************************.996.....******************************************************************************************* PP >> HBAD_CHLME # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 189.3 0.5 7e-59 7e-59 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 189.4 0.5 6.6e-59 6.6e-59 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 189.3 bits; conditional E-value: 7e-59 + == domain 1 score: 189.4 bits; conditional E-value: 6.6e-59 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - l+a++k+l++++w+kv +++e+G+eaL+r++ +yP+tk+yF++F dl gs++v++hGkkv++alg+avk+ld+l++al++Ls+lHa++l+vdp nfkll++++ vvLa++++k+++pe++aa+dk+l+ava++la+kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + l+a++k+l++++w+kv +++e+G+eaL+r++ +yP+tk+yF++F dl gs++v++hgkkv++alg+avk+ld+l++al++Ls+lHa++l+vdp nfkll++++ vvLa++++k+++pe++aa+dk+l+ava++la+kY HBAD_CHLME 2 LTADDKKLLTQLWEKVagHQEEFGSEALQRMFLTYPQTKTYFPHF-DLH-----PGSEQVRGHGKKVAAALGNAVKSLDNLSQALSELSNLHAYNLRVDPANFKLLAQCFQVVLATHLGKDYSPEMHAAFDKFLSAVAAVLAEKY 140 89**************8889*************************.996.....9****************************************************************************************** PP >> HBAZ_HORSE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 189.1 0.1 8.2e-59 8.2e-59 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 187.5 0.1 2.5e-58 2.5e-58 4 146 .. 2 140 .. 1 141 [] 0.98 Alignments for each domain: - == domain 1 score: 189.1 bits; conditional E-value: 8.2e-59 + == domain 1 score: 187.5 bits; conditional E-value: 2.5e-58 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - l+++e+++v ++wgk+ +ad+vG+eaL+rl+ +yP+tk+yF++F dl +gs++++ahG+kv++a+g+avk++d+++galakLselHa+ l+vdp+nfk+ls++l+v+La+++p++ft++++aa+dk+l+ v+++l++kY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + l+++e+++v ++wgk+ +ad+vG+eaL+rl+ +yP+tk+yF++F dl +gs++++ahg+kv++a+g+avk++d+++galakLselHa+ l+vdp+nfk+ls++l+v+La+++p++ft++++aa+dk+l+ v+++l++kY HBAZ_HORSE 2 LTKAERTMVVSIWGKIsmQADAVGTEALQRLFSSYPQTKTYFPHF-DLH-----EGSPQLRAHGSKVAAAVGDAVKSIDNVAGALAKLSELHAYILRVDPVNFKFLSHCLLVTLASRLPADFTADAHAAWDKFLSIVSSVLTEKY 140 899*************66689************************.996.....9****************************************************************************************** PP ->> HBA_COLLI - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 188.0 0.2 1.8e-58 1.8e-58 4 146 .. 2 140 .. 1 141 [] 0.98 - - Alignments for each domain: - == domain 1 score: 188.0 bits; conditional E-value: 1.8e-58 - xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++k++vkav+ k+ +a+++G+eaLerl+++yP+tk+yF++F dls +gsa++k+hGkkv++al ea +++dd++gal+kLs+lHa+kl+vdp+nfkll+++++vv+a +fp+ +tpev+a+ldk++ av ++l+akY - HBA_COLLI 2 LSANDKSNVKAVFAKIggQAGDLGGEALERLFITYPQTKTYFPHF-DLS-----HGSAQIKGHGKKVAEALVEAANHIDDIAGALSKLSDLHAQKLRVDPVNFKLLGHCFLVVVAVHFPSLLTPEVHASLDKFVLAVGTVLTAKY 140 - 89**************77789************************.**9.....******************************************************************************************* PP - >> HBAD_PASMO # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 187.7 0.1 2.2e-58 2.2e-58 4 146 .. 2 140 .. 1 141 [] 0.98 + 1 ! 187.4 0.1 2.7e-58 2.7e-58 4 146 .. 2 140 .. 1 141 [] 0.98 + + Alignments for each domain: + == domain 1 score: 187.4 bits; conditional E-value: 2.7e-58 + xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + l+ae+k+l++++wgk+ ++e+Ga+aL r++++yP+tk+yF++F dls +gs+++++hgkkv++al++a+k+ld+l++al++Ls+lHa++l+vdp+nfk+ls++l v La++++ke++pev++a+dk+++ava++la+kY + HBAD_PASMO 2 LTAEDKKLIQQIWGKLggAEEEIGADALWRMFHSYPSTKTYFPHF-DLS-----QGSDQIRGHGKKVVAALSNAIKNLDNLSQALSELSNLHAYNLRVDPVNFKFLSQCLQVSLATRLGKEYSPEVHSAVDKFMSAVASVLAEKY 140 + 89**************65578************************.**9.....9****************************************************************************************** PP + +>> HBA_COLLI + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 187.4 0.2 2.8e-58 2.8e-58 4 146 .. 2 140 .. 1 141 [] 0.98 + + Alignments for each domain: + == domain 1 score: 187.4 bits; conditional E-value: 2.8e-58 + xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++k++vkav+ k+ +a+++G+eaLerl+++yP+tk+yF++F dls +gsa++k+hgkkv++al ea +++dd++gal+kLs+lHa+kl+vdp+nfkll+++++vv+a +fp+ +tpev+a+ldk++ av ++l+akY + HBA_COLLI 2 LSANDKSNVKAVFAKIggQAGDLGGEALERLFITYPQTKTYFPHF-DLS-----HGSAQIKGHGKKVAEALVEAANHIDDIAGALSKLSDLHAQKLRVDPVNFKLLGHCFLVVVAVHFPSLLTPEVHASLDKFVLAVGTVLTAKY 140 + 89**************77799************************.**9.....******************************************************************************************* PP + +>> HBB2_TRICR + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 181.2 0.0 2.2e-56 2.2e-56 2 146 .. 1 145 [] 1 145 [] 1.00 Alignments for each domain: - == domain 1 score: 187.7 bits; conditional E-value: 2.2e-58 + == domain 1 score: 181.2 bits; conditional E-value: 2.2e-56 + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + vhl+ae++++++a++gkv++d++G+++L+rl+vv+P+++ryF++Fgdlss+da+++++kv ahg+kv++++ ea+k+ld+l++ +a+Ls +H+ k+ vdpenfkl+s +++v+La +++++f+++ q a++kl+++v++al++ Y + HBB2_TRICR 1 VHLTAEDRKEIAAILGKVNVDSLGGQCLARLIVVNPWSRRYFHDFGDLSSCDAICRNPKVLAHGAKVMRSIVEATKHLDNLREYYADLSVTHSLKFYVDPENFKLFSGIVIVCLALTLQTDFSCHKQLAFEKLMKGVSHALGHGY 145 + 8**********************************************************************************************************************************************99 PP + +>> HBA4_SALIR + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 179.8 0.1 5.8e-56 5.8e-56 4 146 .. 2 141 .. 1 142 [] 0.98 + + Alignments for each domain: + == domain 1 score: 179.8 bits; conditional E-value: 5.8e-56 xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - l+ae+k+l++++wgk+ ++e+Ga+aL r++++yP+tk+yF++F dls +gs+++++hGkkv++al++a+k+ld+l++al++Ls+lHa++l+vdp+nfk+ls++l v La++++ke++pev++a+dk+++ava++la+kY - HBAD_PASMO 2 LTAEDKKLIQQIWGKLggAEEEIGADALWRMFHSYPSTKTYFPHF-DLS-----QGSDQIRGHGKKVVAALSNAIKNLDNLSQALSELSNLHAYNLRVDPVNFKFLSQCLQVSLATRLGKEYSPEVHSAVDKFMSAVASVLAEKY 140 - 89**************65478************************.**9.....9****************************************************************************************** PP + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + lsa++ka+vka+wgk+ ++de+G++aL+r+lvvyP+tk yF+++++++ gsa vk+hg +++++++++v ++ddl g l+kLselHatkl+vdp+nfk+l++ l+vv+aa fp+eftpe++ ++dk+l+++a ala+kY + HBA4_SALIR 2 LSAKDKANVKAIWGKIlpKSDEIGEQALSRMLVVYPQTKAYFSHWASVA-----PGSAPVKKHGITIMNQIDDCVGHMDDLFGFLTKLSELHATKLRVDPTNFKILAHNLIVVIAAYFPAEFTPEIHLSVDKFLQQLALALAEKY 141 + 89**************999**************************7765.....9****************************************************************************************** PP + +>> MYG_LYCPI + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 179.0 1.8 1.1e-55 1.1e-55 4 146 .. 2 146 .. 1 147 [. 0.97 + + Alignments for each domain: + == domain 1 score: 179.0 bits; conditional E-value: 1.1e-55 + xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+ e++ v ++wgkve+d +G +e+L+rl++++Pet ++FdkF++l++ed++kgs+++k+hg++vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++k++++f+++++aa++k+l++++n++aakY + MYG_LYCPI 2 LSDGEWQIVLNIWGKVETDLAGhgQEVLIRLFKNHPETLDKFDKFKHLKTEDEMKGSEDLKKHGNTVLTALGGILKKKGHHEAELKPLAQSHATKHKIPVKYLEFISDAIIQVLQNKHSGDFHADTEAAMKKALELFRNDIAAKY 146 + 7889************99966544************************************************************************************************************************* PP >> MYG_SAISC # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 183.9 1.0 3.2e-57 3.2e-57 4 146 .. 2 146 .. 1 147 [. 0.98 + 1 ! 178.6 1.0 1.4e-55 1.4e-55 4 146 .. 2 146 .. 1 147 [. 0.98 Alignments for each domain: - == domain 1 score: 183.9 bits; conditional E-value: 3.2e-57 + == domain 1 score: 178.6 bits; conditional E-value: 1.4e-55 xxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+ e++lv ++wgkvead ++G+e+L+ l++ +Pet ++FdkFk+l+sed++k+s+++k+hG++vltalg ++kk+++++++l++L+++Hatk+k+++++++l+s+++v+vL++k+p++f++++q a++k+l++++n++aakY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+ e++lv ++wgkvead ++G+e+L+ l++ +Pet ++FdkF++l+sed++k+s+++k+hg++vltalg ++kk+++++++l++L+++Hatk+k+++++++l+s+++v+vL++k+p++f++++q a++k+l++++n++aakY MYG_SAISC 2 LSDGEWQLVLNIWGKVEADipSHGQEVLISLFKGHPETLEKFDKFKHLKSEDEMKASEELKKHGTTVLTALGGILKKKGQHEAELKPLAQSHATKHKIPVKYLELISDAIVHVLQKKHPGDFGADAQGAMKKALELFRNDMAAKY 146 - 7889************9998899************************************************************************************************************************** PP - ->> MYG_LYCPI + 7899************9998899************************************************************************************************************************** PP + +>> MYG_ESCGI # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 183.9 1.9 3.3e-57 3.3e-57 4 146 .. 2 146 .. 1 147 [. 0.97 + 1 ! 177.3 2.2 3.4e-55 3.4e-55 4 146 .. 2 146 .. 1 147 [. 0.97 Alignments for each domain: - == domain 1 score: 183.9 bits; conditional E-value: 3.3e-57 + == domain 1 score: 177.3 bits; conditional E-value: 3.4e-55 xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+ e++ v ++wgkve+d +G +e+L+rl++++Pet ++FdkFk+l++ed++kgs+++k+hG++vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++k++++f+++++aa++k+l++++n++aakY - MYG_LYCPI 2 LSDGEWQIVLNIWGKVETDLAGhgQEVLIRLFKNHPETLDKFDKFKHLKTEDEMKGSEDLKKHGNTVLTALGGILKKKGHHEAELKPLAQSHATKHKIPVKYLEFISDAIIQVLQNKHSGDFHADTEAAMKKALELFRNDIAAKY 146 - 7889************99966444************************************************************************************************************************* PP + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls++e++lv ++w kvead +G +++L+rl++ +Pet ++FdkF++l++e+++k+s+++k+hg++vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++++p++f++++qaa++k+l+++++++aakY + MYG_ESCGI 2 LSDAEWQLVLNIWAKVEADVAGhgQDILIRLFKGHPETLEKFDKFKHLKTEAEMKASEDLKKHGNTVLTALGGILKKKGHHEAELKPLAQSHATKHKIPIKYLEFISDAIIHVLHSRHPGDFGADAQAAMNKALELFRKDIAAKY 146 + 7999************99866444************************************************************************************************************************* PP >> MYG_PROGU # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 182.4 0.2 9.2e-57 9.2e-57 4 146 .. 2 146 .. 1 147 [. 0.97 + 1 ! 176.6 0.2 5.7e-55 5.7e-55 4 146 .. 2 146 .. 1 147 [. 0.97 Alignments for each domain: - == domain 1 score: 182.4 bits; conditional E-value: 9.2e-57 + == domain 1 score: 176.6 bits; conditional E-value: 5.7e-55 xxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+ e++lv +vwgkve d +G+e+L+rl++ +Pet ++FdkFk+l++ed++++s+++k+hG++vltalg ++kk+++++++la+L+++Hatk+k+++++++++se++++vL++k+p++f++++q a++k+l++++n++aakY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+ e++lv +vwgkve d +G+e+L+rl++ +Pet ++FdkF++l++ed++++s+++k+hg++vltalg ++kk+++++++la+L+++Hatk+k+++++++++se++++vL++k+p++f++++q a++k+l++++n++aakY MYG_PROGU 2 LSDGEWQLVLNVWGKVEGDlsGHGQEVLIRLFKGHPETLEKFDKFKHLKAEDEMRASEELKKHGTTVLTALGGILKKKGQHAAELAPLAQSHATKHKIPVKYLEFISEAIIQVLQSKHPGDFGADAQGAMSKALELFRNDIAAKY 146 - 7889************98833557************************************************************************************************************************* PP - ->> MYG_ESCGI - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 182.4 2.3 9.7e-57 9.7e-57 4 146 .. 2 146 .. 1 147 [. 0.97 - - Alignments for each domain: - == domain 1 score: 182.4 bits; conditional E-value: 9.7e-57 - xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls++e++lv ++w kvead +G +++L+rl++ +Pet ++FdkFk+l++e+++k+s+++k+hG++vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++++p++f++++qaa++k+l+++++++aakY - MYG_ESCGI 2 LSDAEWQLVLNIWAKVEADVAGhgQDILIRLFKGHPETLEKFDKFKHLKTEAEMKASEDLKKHGNTVLTALGGILKKKGHHEAELKPLAQSHATKHKIPIKYLEFISDAIIHVLHSRHPGDFGADAQAAMNKALELFRKDIAAKY 146 - 7999************99966444************************************************************************************************************************* PP + 7899************98833567************************************************************************************************************************* PP >> MYG_HORSE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 180.9 1.0 2.7e-56 2.7e-56 4 146 .. 2 146 .. 1 147 [. 0.97 + 1 ! 175.8 1.0 1e-54 1e-54 4 146 .. 2 146 .. 1 147 [. 0.97 Alignments for each domain: - == domain 1 score: 180.9 bits; conditional E-value: 2.7e-56 + == domain 1 score: 175.8 bits; conditional E-value: 1e-54 xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+ e+++v +vwgkvead +G +e+L+rl++ +Pet ++FdkFk+l++e+++k+s+++k+hG+ vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++k+p++f++++q a++k+l++++n++aakY + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+ e+++v +vwgkvead +G +e+L+rl++ +Pet ++FdkF++l++e+++k+s+++k+hg+ vltalg ++kk+++++++l++L+++Hatk+k+++++++++s+++++vL++k+p++f++++q a++k+l++++n++aakY MYG_HORSE 2 LSDGEWQQVLNVWGKVEADIAGhgQEVLIRLFTGHPETLEKFDKFKHLKTEAEMKASEDLKKHGTVVLTALGGILKKKGHHEAELKPLAQSHATKHKIPIKYLEFISDAIIHVLHSKHPGNFGADAQGAMTKALELFRNDIAAKY 146 - 7889************99965444************************************************************************************************************************* PP + 7899************99965444************************************************************************************************************************* PP >> MYG_MOUSE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 180.0 0.3 5.2e-56 5.2e-56 4 146 .. 2 146 .. 1 147 [. 0.97 - - Alignments for each domain: - == domain 1 score: 180.0 bits; conditional E-value: 5.2e-56 - xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ls+ e++lv +vwgkvead +G +e+L+ l++++Pet ++FdkFk+l+se+++kgs+++k+hG +vltalg+++kk++++++++++L+++Hatk+k+++++++++se+++ vL+++++++f++++q a++k+l++++n++aakY - MYG_MOUSE 2 LSDGEWQLVLNVWGKVEADLAGhgQEVLIGLFKTHPETLDKFDKFKNLKSEEDMKGSEDLKKHGCTVLTALGTILKKKGQHAAEIQPLAQSHATKHKIPVKYLEFISEIIIEVLKKRHSGDFGADAQGAMSKALELFRNDIAAKY 146 - 7889*************9976544************************************************************************************************************************* PP - ->> HBA4_SALIR - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 179.3 0.1 8.3e-56 8.3e-56 4 146 .. 2 141 .. 1 142 [] 0.98 + 1 ! 175.2 0.3 1.6e-54 1.6e-54 4 146 .. 2 146 .. 1 147 [. 0.97 Alignments for each domain: - == domain 1 score: 179.3 bits; conditional E-value: 8.3e-56 - xxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkv..eadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - lsa++ka+vka+wgk+ ++de+G++aL+r+lvvyP+tk yF+++++++ gsa vk+hG +++++++++v ++ddl g l+kLselHatkl+vdp+nfk+l++ l+vv+aa fp+eftpe++ ++dk+l+++a ala+kY - HBA4_SALIR 2 LSAKDKANVKAIWGKIlpKSDEIGEQALSRMLVVYPQTKAYFSHWASVA-----PGSAPVKKHGITIMNQIDDCVGHMDDLFGFLTKLSELHATKLRVDPTNFKILAHNLIVVIAAYFPAEFTPEIHLSVDKFLQQLALALAEKY 141 - 89**************999**************************7765.....9****************************************************************************************** PP - ->> HBB2_TRICR - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 177.5 0.0 3e-55 3e-55 2 146 .. 1 145 [] 1 145 [] 1.00 - - Alignments for each domain: - == domain 1 score: 177.5 bits; conditional E-value: 3e-55 - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 2 vhlsaeekalvkavwgkveadevGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - vhl+ae++++++a++gkv++d++G+++L+rl+vv P+++ryF++F+dlss+da+++++kv ahG+kv++++ ea k+ld+l++ +a+Ls +H+ k+ vdpenfkl+s +++v+La +++++f+++ q a++kl+++v++al++ Y - HBB2_TRICR 1 VHLTAEDRKEIAAILGKVNVDSLGGQCLARLIVVNPWSRRYFHDFGDLSSCDAICRNPKVLAHGAKVMRSIVEATKHLDNLREYYADLSVTHSLKFYVDPENFKLFSGIVIVCLALTLQTDFSCHKQLAFEKLMKGVSHALGHGY 145 - 8**********************************************************************************************************************************************99 PP + == domain 1 score: 175.2 bits; conditional E-value: 1.6e-54 + xxxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + sp|P02024|HBB_GORGO-i1 4 lsaeekalvkavwgkveadevG..aeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ls+ e++lv +vwgkvead +G +e+L+ l++++Pet ++FdkF++l+se+++kgs+++k+hg +vltalg+++kk++++++++++L+++Hatk+k+++++++++se+++ vL+++++++f++++q a++k+l++++n++aakY + MYG_MOUSE 2 LSDGEWQLVLNVWGKVEADLAGhgQEVLIGLFKTHPETLDKFDKFKNLKSEEDMKGSEDLKKHGCTVLTALGTILKKKGQHAAEIQPLAQSHATKHKIPVKYLEFISEIIIEVLKKRHSGDFGADAQGAMSKALELFRNDIAAKY 146 + 7899*************9966544************************************************************************************************************************* PP >> MYG_MUSAN # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 144.3 0.3 5.1e-45 5.1e-45 8 146 .. 2 141 .. 1 142 [. 0.96 + 1 ! 142.6 0.3 1.8e-44 1.8e-44 8 146 .. 2 141 .. 1 142 [. 0.96 Alignments for each domain: - == domain 1 score: 144.3 bits; conditional E-value: 5.1e-45 + == domain 1 score: 142.6 bits; conditional E-value: 1.8e-44 xxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - sp|P02024|HBB_GORGO-i1 8 ekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFkdlssedavkgsakvkahGkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 - ++++v++vw+ ve+d ++G+++L rl+++yPe++++F+kFk++s ++k++a++ka++++vl+alg++vkk++++++ +++L+++H+t++k++p++f+ ++++ v vL++++p+e++++vqaa++ +++ + +++ ++Y + sp|P02024|HBB_GORGO-i1 8 ekalvkavwgkvead..evGaeaLerllvvyPetkryFdkFgdlssedavkgsakvkahgkkvltalgeavkklddlkgalakLselHatklkvdpenfkllsevlvvvLaakfpkeftpevqaaldkllaavanalaakY 146 + ++++v++vw+ ve+d ++G+++L rl+++yPe++++F+kF+++s ++k++a++ka++++vl+alg++vkk++++++ +++L+++H+t++k++p++f+ ++++ v vL++++p+e++++vqaa++ +++ + +++ ++Y MYG_MUSAN 2 DWEKVNSVWSAVESDltAIGQNILLRLFEQYPESQNHFPKFKNKS-LGELKDTADIKAQADTVLSALGNIVKKKGSHSQPVKALAATHITTHKIPPHYFTKITTIAVDVLSEMYPSEMNAQVQAAFSGAFKIICSDIEKEY 141 - 7899********9886689**********************9998.667****************************************************************************************9999 PP + 7899********9886699**********************9998.667****************************************************************************************9999 PP @@ -3211,8 +3209,8 @@ Passed Fwd filter: 45 (1); expected 0.0 (1e-05) Initial search space (Z): 45 [actual number of targets] Domain search space (domZ): 45 [number of targets reported over threshold] -# CPU time: 0.17u 0.00s 00:00:00.17 Elapsed: 00:00:00.17 -# Mc/sec: 5.33 +# CPU time: 0.22u 0.00s 00:00:00.22 Elapsed: 00:00:00.24 +# Mc/sec: 3.96 @@ New targets included: 0 @@ New alignment includes: 46 subseqs (was 46), including original query diff -r 01219a31c48e -r be7097d6e3ff test-data/jackhmmer.tblout --- a/test-data/jackhmmer.tblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/jackhmmer.tblout Tue Jun 16 05:34:25 2020 -0400 @@ -46,58 +46,58 @@ HBA4_SALIR - sp|P02185|MYG_PHYCD - 5.3e-56 180.0 0.1 5.9e-56 179.9 0.1 1.0 1 0 0 1 1 1 1 - MYG_MUSAN - sp|P02185|MYG_PHYCD - 2.5e-54 174.6 0.4 2.8e-54 174.5 0.4 1.0 1 0 0 1 1 1 1 - HBB2_TRICR - sp|P02185|MYG_PHYCD - 2e-52 168.4 0.0 2.2e-52 168.3 0.0 1.0 1 0 0 1 1 1 1 - -HBB_MANSP - sp|P02024|HBB_GORGO - 3.6e-74 238.9 0.1 4e-74 238.8 0.1 1.0 1 0 0 1 1 1 1 - -HBB_URSMA - sp|P02024|HBB_GORGO - 1.7e-73 236.7 0.3 1.9e-73 236.6 0.3 1.0 1 0 0 1 1 1 1 - -HBB_RABIT - sp|P02024|HBB_GORGO - 2.2e-72 233.1 0.8 2.4e-72 233.0 0.8 1.0 1 0 0 1 1 1 1 - -HBB_SUNMU - sp|P02024|HBB_GORGO - 5.4e-72 231.8 0.1 6e-72 231.7 0.1 1.0 1 0 0 1 1 1 1 - -HBB_CALAR - sp|P02024|HBB_GORGO - 7e-72 231.5 0.2 7.7e-72 231.3 0.2 1.0 1 0 0 1 1 1 1 - -HBB_COLLI - sp|P02024|HBB_GORGO - 9.6e-72 231.0 0.0 1.1e-71 230.9 0.0 1.0 1 0 0 1 1 1 1 - -HBB_TACAC - sp|P02024|HBB_GORGO - 2.5e-71 229.7 0.4 2.8e-71 229.6 0.4 1.0 1 0 0 1 1 1 1 - -HBE_PONPY - sp|P02024|HBB_GORGO - 4.8e-71 228.8 0.4 5.3e-71 228.6 0.4 1.0 1 0 0 1 1 1 1 - -HBB_EQUHE - sp|P02024|HBB_GORGO - 5.1e-71 228.7 0.2 5.7e-71 228.5 0.2 1.0 1 0 0 1 1 1 1 - -HBB_SPECI - sp|P02024|HBB_GORGO - 1.3e-70 227.3 1.0 1.5e-70 227.2 1.0 1.0 1 0 0 1 1 1 1 - -HBB_SPETO - sp|P02024|HBB_GORGO - 2e-70 226.8 0.6 2.2e-70 226.6 0.6 1.0 1 0 0 1 1 1 1 - -HBB_TRIIN - sp|P02024|HBB_GORGO - 3.7e-70 225.9 0.1 4.1e-70 225.8 0.1 1.0 1 0 0 1 1 1 1 - -HBB_ORNAN - sp|P02024|HBB_GORGO - 4.1e-70 225.7 0.0 4.6e-70 225.6 0.0 1.0 1 0 0 1 1 1 1 - -HBB_LARRI - sp|P02024|HBB_GORGO - 5.7e-70 225.3 0.0 6.4e-70 225.1 0.0 1.0 1 0 0 1 1 1 1 - -HBB_TUPGL - sp|P02024|HBB_GORGO - 1.8e-68 220.5 0.0 1.9e-68 220.3 0.0 1.0 1 0 0 1 1 1 1 - -HBB1_VAREX - sp|P02024|HBB_GORGO - 1.5e-67 217.4 0.1 1.7e-67 217.3 0.1 1.0 1 0 0 1 1 1 1 - -HBBL_RANCA - sp|P02024|HBB_GORGO - 7.8e-64 205.4 0.3 8.7e-64 205.2 0.3 1.0 1 0 0 1 1 1 1 - -HBA_MESAU - sp|P02024|HBB_GORGO - 4.5e-63 202.9 0.3 5e-63 202.8 0.3 1.0 1 0 0 1 1 1 1 - -HBB2_XENTR - sp|P02024|HBB_GORGO - 2e-62 200.8 0.8 2.3e-62 200.6 0.8 1.0 1 0 0 1 1 1 1 - -HBA_PONPY - sp|P02024|HBB_GORGO - 4.6e-62 199.6 0.7 5e-62 199.5 0.7 1.0 1 0 0 1 1 1 1 - -HBA_MACFA - sp|P02024|HBB_GORGO - 8.7e-62 198.7 0.3 9.6e-62 198.6 0.3 1.0 1 0 0 1 1 1 1 - -HBA_MACSI - sp|P02024|HBB_GORGO - 1.3e-61 198.2 0.3 1.4e-61 198.1 0.3 1.0 1 0 0 1 1 1 1 - -HBA_AILME - sp|P02024|HBB_GORGO - 2.1e-61 197.5 0.1 2.4e-61 197.3 0.1 1.0 1 0 0 1 1 1 1 - -HBA2_GALCR - sp|P02024|HBB_GORGO - 6.6e-61 195.9 0.6 7.3e-61 195.7 0.6 1.0 1 0 0 1 1 1 1 - -HBA_FRAPO - sp|P02024|HBB_GORGO - 7.1e-61 195.8 0.4 7.8e-61 195.7 0.4 1.0 1 0 0 1 1 1 1 - -HBA_PHACO - sp|P02024|HBB_GORGO - 7.3e-61 195.7 0.4 8e-61 195.6 0.4 1.0 1 0 0 1 1 1 1 - -HBA2_BOSMU - sp|P02024|HBB_GORGO - 7.6e-61 195.7 0.4 8.3e-61 195.6 0.4 1.0 1 0 0 1 1 1 1 - -HBA_ERIEU - sp|P02024|HBB_GORGO - 2.4e-60 194.0 0.1 2.7e-60 193.9 0.1 1.0 1 0 0 1 1 1 1 - -HBA_PROLO - sp|P02024|HBB_GORGO - 3.3e-60 193.6 0.0 3.6e-60 193.5 0.0 1.0 1 0 0 1 1 1 1 - -HBA_ANSSE - sp|P02024|HBB_GORGO - 3.9e-60 193.4 0.4 4.3e-60 193.2 0.4 1.0 1 0 0 1 1 1 1 - -HBA_PAGLA - sp|P02024|HBB_GORGO - 4.1e-60 193.3 0.5 4.5e-60 193.2 0.5 1.0 1 0 0 1 1 1 1 - -HBA_TRIOC - sp|P02024|HBB_GORGO - 2.7e-59 190.7 0.5 2.9e-59 190.5 0.5 1.0 1 0 0 1 1 1 1 - -HBAD_CHLME - sp|P02024|HBB_GORGO - 6.3e-59 189.4 0.5 7e-59 189.3 0.5 1.0 1 0 0 1 1 1 1 - -HBAZ_HORSE - sp|P02024|HBB_GORGO - 7.5e-59 189.2 0.1 8.2e-59 189.1 0.1 1.0 1 0 0 1 1 1 1 - -HBA_COLLI - sp|P02024|HBB_GORGO - 1.6e-58 188.1 0.2 1.8e-58 188.0 0.2 1.0 1 0 0 1 1 1 1 - -HBAD_PASMO - sp|P02024|HBB_GORGO - 2e-58 187.8 0.1 2.2e-58 187.7 0.1 1.0 1 0 0 1 1 1 1 - -MYG_SAISC - sp|P02024|HBB_GORGO - 2.9e-57 184.1 1.0 3.2e-57 183.9 1.0 1.0 1 0 0 1 1 1 1 - -MYG_LYCPI - sp|P02024|HBB_GORGO - 3e-57 184.0 1.9 3.3e-57 183.9 1.9 1.0 1 0 0 1 1 1 1 - -MYG_PROGU - sp|P02024|HBB_GORGO - 8.3e-57 182.6 0.2 9.2e-57 182.4 0.2 1.0 1 0 0 1 1 1 1 - -MYG_ESCGI - sp|P02024|HBB_GORGO - 8.8e-57 182.5 2.3 9.7e-57 182.4 2.3 1.0 1 0 0 1 1 1 1 - -MYG_HORSE - sp|P02024|HBB_GORGO - 2.5e-56 181.0 1.0 2.7e-56 180.9 1.0 1.0 1 0 0 1 1 1 1 - -MYG_MOUSE - sp|P02024|HBB_GORGO - 4.7e-56 180.1 0.3 5.2e-56 180.0 0.3 1.0 1 0 0 1 1 1 1 - -HBA4_SALIR - sp|P02024|HBB_GORGO - 7.5e-56 179.5 0.1 8.3e-56 179.3 0.1 1.0 1 0 0 1 1 1 1 - -HBB2_TRICR - sp|P02024|HBB_GORGO - 2.7e-55 177.7 0.0 3e-55 177.5 0.0 1.0 1 0 0 1 1 1 1 - -MYG_MUSAN - sp|P02024|HBB_GORGO - 4.6e-45 144.5 0.3 5.1e-45 144.3 0.3 1.0 1 0 0 1 1 1 1 - +HBB_MANSP - sp|P02024|HBB_GORGO - 2.3e-75 242.8 0.1 2.6e-75 242.6 0.1 1.0 1 0 0 1 1 1 1 - +HBB_URSMA - sp|P02024|HBB_GORGO - 1.1e-74 240.6 0.3 1.2e-74 240.5 0.3 1.0 1 0 0 1 1 1 1 - +HBB_RABIT - sp|P02024|HBB_GORGO - 1.4e-73 237.0 0.9 1.5e-73 236.9 0.9 1.0 1 0 0 1 1 1 1 - +HBB_CALAR - sp|P02024|HBB_GORGO - 4.1e-73 235.5 0.2 4.5e-73 235.4 0.2 1.0 1 0 0 1 1 1 1 - +HBB_SUNMU - sp|P02024|HBB_GORGO - 4.2e-73 235.4 0.1 4.7e-73 235.3 0.1 1.0 1 0 0 1 1 1 1 - +HBB_COLLI - sp|P02024|HBB_GORGO - 7.8e-73 234.6 0.0 8.7e-73 234.4 0.0 1.0 1 0 0 1 1 1 1 - +HBB_TACAC - sp|P02024|HBB_GORGO - 1.9e-72 233.3 0.4 2.1e-72 233.2 0.4 1.0 1 0 0 1 1 1 1 - +HBE_PONPY - sp|P02024|HBB_GORGO - 3.1e-72 232.6 0.4 3.4e-72 232.5 0.4 1.0 1 0 0 1 1 1 1 - +HBB_EQUHE - sp|P02024|HBB_GORGO - 3.5e-72 232.5 0.2 3.8e-72 232.3 0.2 1.0 1 0 0 1 1 1 1 - +HBB_SPECI - sp|P02024|HBB_GORGO - 1.1e-71 230.8 1.0 1.3e-71 230.7 1.0 1.0 1 0 0 1 1 1 1 - +HBB_SPETO - sp|P02024|HBB_GORGO - 1.6e-71 230.3 0.6 1.7e-71 230.2 0.6 1.0 1 0 0 1 1 1 1 - +HBB_TRIIN - sp|P02024|HBB_GORGO - 2.6e-71 229.6 0.1 2.9e-71 229.5 0.1 1.0 1 0 0 1 1 1 1 - +HBB_ORNAN - sp|P02024|HBB_GORGO - 2.9e-71 229.5 0.0 3.2e-71 229.4 0.0 1.0 1 0 0 1 1 1 1 - +HBB_LARRI - sp|P02024|HBB_GORGO - 5.2e-71 228.7 0.0 5.7e-71 228.5 0.0 1.0 1 0 0 1 1 1 1 - +HBB_TUPGL - sp|P02024|HBB_GORGO - 1.1e-69 224.3 0.0 1.3e-69 224.2 0.0 1.0 1 0 0 1 1 1 1 - +HBB1_VAREX - sp|P02024|HBB_GORGO - 1.5e-68 220.7 0.1 1.6e-68 220.5 0.1 1.0 1 0 0 1 1 1 1 - +HBBL_RANCA - sp|P02024|HBB_GORGO - 7.6e-65 208.7 0.3 8.5e-65 208.5 0.3 1.0 1 0 0 1 1 1 1 - +HBB2_XENTR - sp|P02024|HBB_GORGO - 2.5e-63 203.7 0.9 2.8e-63 203.6 0.9 1.0 1 0 0 1 1 1 1 - +HBA_MESAU - sp|P02024|HBB_GORGO - 6.9e-63 202.3 0.3 7.5e-63 202.2 0.3 1.0 1 0 0 1 1 1 1 - +HBA_PONPY - sp|P02024|HBB_GORGO - 1.1e-61 198.4 0.7 1.2e-61 198.3 0.7 1.0 1 0 0 1 1 1 1 - +HBA_MACFA - sp|P02024|HBB_GORGO - 1.8e-61 197.7 0.3 1.9e-61 197.6 0.3 1.0 1 0 0 1 1 1 1 - +HBA_MACSI - sp|P02024|HBB_GORGO - 2.6e-61 197.2 0.3 2.8e-61 197.1 0.3 1.0 1 0 0 1 1 1 1 - +HBA_AILME - sp|P02024|HBB_GORGO - 3.6e-61 196.8 0.1 3.9e-61 196.6 0.1 1.0 1 0 0 1 1 1 1 - +HBA_PHACO - sp|P02024|HBB_GORGO - 1.2e-60 195.1 0.4 1.3e-60 194.9 0.4 1.0 1 0 0 1 1 1 1 - +HBA2_BOSMU - sp|P02024|HBB_GORGO - 1.2e-60 195.1 0.4 1.3e-60 194.9 0.4 1.0 1 0 0 1 1 1 1 - +HBA_FRAPO - sp|P02024|HBB_GORGO - 1.2e-60 195.0 0.4 1.4e-60 194.9 0.4 1.0 1 0 0 1 1 1 1 - +HBA2_GALCR - sp|P02024|HBB_GORGO - 1.4e-60 194.8 0.6 1.6e-60 194.7 0.6 1.0 1 0 0 1 1 1 1 - +HBA_ERIEU - sp|P02024|HBB_GORGO - 4.5e-60 193.2 0.1 4.9e-60 193.1 0.1 1.0 1 0 0 1 1 1 1 - +HBA_PROLO - sp|P02024|HBB_GORGO - 5.1e-60 193.0 0.0 5.6e-60 192.9 0.0 1.0 1 0 0 1 1 1 1 - +HBA_ANSSE - sp|P02024|HBB_GORGO - 7.4e-60 192.5 0.4 8.1e-60 192.3 0.4 1.0 1 0 0 1 1 1 1 - +HBA_PAGLA - sp|P02024|HBB_GORGO - 7.4e-60 192.5 0.5 8.1e-60 192.3 0.5 1.0 1 0 0 1 1 1 1 - +HBA_TRIOC - sp|P02024|HBB_GORGO - 4.5e-59 189.9 0.5 5e-59 189.8 0.5 1.0 1 0 0 1 1 1 1 - +HBAD_CHLME - sp|P02024|HBB_GORGO - 6e-59 189.5 0.5 6.6e-59 189.4 0.5 1.0 1 0 0 1 1 1 1 - +HBAZ_HORSE - sp|P02024|HBB_GORGO - 2.2e-58 187.7 0.1 2.5e-58 187.5 0.1 1.0 1 0 0 1 1 1 1 - +HBAD_PASMO - sp|P02024|HBB_GORGO - 2.4e-58 187.6 0.1 2.7e-58 187.4 0.1 1.0 1 0 0 1 1 1 1 - +HBA_COLLI - sp|P02024|HBB_GORGO - 2.5e-58 187.5 0.2 2.8e-58 187.4 0.2 1.0 1 0 0 1 1 1 1 - +HBB2_TRICR - sp|P02024|HBB_GORGO - 1.9e-56 181.4 0.0 2.2e-56 181.2 0.0 1.0 1 0 0 1 1 1 1 - +HBA4_SALIR - sp|P02024|HBB_GORGO - 5.3e-56 180.0 0.1 5.8e-56 179.8 0.1 1.0 1 0 0 1 1 1 1 - +MYG_LYCPI - sp|P02024|HBB_GORGO - 9.5e-56 179.1 1.8 1.1e-55 179.0 1.8 1.0 1 0 0 1 1 1 1 - +MYG_SAISC - sp|P02024|HBB_GORGO - 1.3e-55 178.7 1.0 1.4e-55 178.6 1.0 1.0 1 0 0 1 1 1 1 - +MYG_ESCGI - sp|P02024|HBB_GORGO - 3.1e-55 177.5 2.2 3.4e-55 177.3 2.2 1.0 1 0 0 1 1 1 1 - +MYG_PROGU - sp|P02024|HBB_GORGO - 5.1e-55 176.8 0.2 5.7e-55 176.6 0.2 1.0 1 0 0 1 1 1 1 - +MYG_HORSE - sp|P02024|HBB_GORGO - 9.3e-55 175.9 1.0 1e-54 175.8 1.0 1.0 1 0 0 1 1 1 1 - +MYG_MOUSE - sp|P02024|HBB_GORGO - 1.4e-54 175.3 0.3 1.6e-54 175.2 0.3 1.0 1 0 0 1 1 1 1 - +MYG_MUSAN - sp|P02024|HBB_GORGO - 1.6e-44 142.7 0.3 1.8e-44 142.6 0.3 1.0 1 0 0 1 1 1 1 - # # Program: jackhmmer -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpw5_nj0/files/000/dataset_1.dat -# Target file: /tmp/tmpw5_nj0/files/000/dataset_2.dat -# Option settings: jackhmmer -N 5 --tblout /tmp/tmpw5_nj0/files/000/dataset_4.dat --domtblout /tmp/tmpw5_nj0/files/000/dataset_5.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --wpb --EmL 200 --EmN 200 --EvL 200 --EvN 200 --EfL 100 --EfN 200 --Eft 0.04 --seed 4 --cpu 1 /tmp/tmpw5_nj0/files/000/dataset_1.dat /tmp/tmpw5_nj0/files/000/dataset_2.dat -# Current dir: /tmp/tmpw5_nj0/job_working_directory/000/3/working -# Date: Mon Jun 11 17:59:06 2018 +# Query file: /tmp/tmpfvu1k4r6/files/e/a/d/dataset_ead1ef79-dd40-459b-b072-01fc401e229a.dat +# Target file: /tmp/tmpfvu1k4r6/files/c/9/e/dataset_c9eb6990-14c2-41da-9304-1bdf155f29e9.dat +# Option settings: jackhmmer -N 5 --tblout /tmp/tmpfvu1k4r6/files/c/c/a/dataset_cca87e56-6fd4-49f3-b29f-dca9b665fb4e.dat --domtblout /tmp/tmpfvu1k4r6/files/a/9/3/dataset_a93530ef-2a8d-4611-9764-b317aa42a6b4.dat --notextw -E 10.0 --domE 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --wpb --EmL 200 --EmN 200 --EvL 200 --EvN 200 --EfL 100 --EfN 200 --Eft 0.04 --seed 4 --cpu 1 /tmp/tmpfvu1k4r6/files/e/a/d/dataset_ead1ef79-dd40-459b-b072-01fc401e229a.dat /tmp/tmpfvu1k4r6/files/c/9/e/dataset_c9eb6990-14c2-41da-9304-1bdf155f29e9.dat +# Current dir: /tmp/tmpfvu1k4r6/job_working_directory/000/3/working +# Date: Thu May 14 18:30:01 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/nhmmer.out --- a/test-data/nhmmer.out Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/nhmmer.out Tue Jun 16 05:34:25 2020 -0400 @@ -1,12 +1,13 @@ # nhmmer :: search a DNA model, alignment, or sequence against a DNA database -# HMMER 3.2 (June 2018); http://hmmer.org/ -# Copyright (C) 2018 Howard Hughes Medical Institute. +# HMMER 3.3 (Nov 2019); http://hmmer.org/ +# Copyright (C) 2019 Howard Hughes Medical Institute. # Freely distributed under the BSD open source license. # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -# query file: /tmp/tmpp4O0Ju/files/000/dataset_36.dat -# target sequence database: /tmp/tmpp4O0Ju/files/000/dataset_37.dat -# hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_39.dat -# hits output in Dfam format: None +# query file: /tmp/tmpqydies2m/files/c/4/e/dataset_c4e67f40-cb86-438e-8bc0-6020ada9fc86.dat +# target sequence database: /tmp/tmpqydies2m/files/a/1/b/dataset_a1b4364c-0e9a-4709-b4ef-ab7e5661d9e9.dat +# hits tabular output: /tmp/tmpqydies2m/files/b/d/d/dataset_bdd87d82-1ce1-4051-8d5f-f7251bf7fd18.dat +# hits output in Dfam format: /tmp/tmpqydies2m/files/d/8/e/dataset_d8ee0d50-d171-4e8a-9c7d-1cbd4394296f.dat +# alignment scores output: /tmp/tmpqydies2m/files/5/1/3/dataset_5139892f-c507-40c4-b43d-f73023c634f4.dat # max ASCII text line length: unlimited # SSV filter P threshold: <= 0.02 # Vit filter P threshold: <= 0.001 @@ -22,79 +23,79 @@ Scores for complete hits: E-value score bias Sequence start end Description ------- ------ ----- -------- ----- ----- ----------- - 8.7e-11 39.2 7.4 humanchr1/239220001-239550000 302390 302466 - 6.4e-08 30.0 8.3 humanchr1/239220001-239550000 174456 174498 - 9.3e-08 29.5 6.1 humanchr1/239220001-239550000 302466 302390 - 6.3e-06 23.7 7.0 humanchr1/239220001-239550000 174493 174456 + 4e-11 41.3 7.5 humanchr1/239220001-239550000 302390 302466 + 1.9e-08 32.8 8.3 humanchr1/239220001-239550000 174456 174498 + 6.3e-08 31.0 6.7 humanchr1/239220001-239550000 302466 302389 + 4.9e-06 25.0 7.0 humanchr1/239220001-239550000 174493 174456 ------ inclusion threshold ------ - 1.4 6.5 7.0 humanchr1/239220001-239550000 304073 304104 + 2.2 6.9 7.2 humanchr1/239220001-239550000 304073 304103 Annotation for each hit (and alignments): >> humanchr1/239220001-239550000 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 39.2 7.4 8.7e-11 4 80 .] 302390 302466 .. 302387 302466 .. 330000 0.87 + ! 41.3 7.5 4e-11 4 80 .] 302390 302466 .. 302387 302466 .. 330000 0.88 Alignment: - score: 39.2 bits + score: 41.3 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 4 ggttggtgcaaaagtaattgcggtttttgccattacttttaatggc....aaaaaccgcaattacttttgcaccaacctaa 80 - ggt ggtgcaaaa aattg ggtttttgccatt cttttaat gc a aaa g a t ctttt caccaa ctaa - humanchr1/239220001-239550000 302390 GGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCttttA-AAA--GT-AATGCTTTTACACCAATCTAA 302466 - 899******************************************955533.443..33.44689************9986 PP + ggt ggtgcaaaa aattg ggtttttgccatt cttttaat gc aaaa g a t ctttt caccaa ctaa + humanchr1/239220001-239550000 302390 GGTCGGTGCAAAATCAATTGTGGTTTTTGCCATTGCTTTTAATTGCttttAAAA---GT-AATGCTTTTACACCAATCTAA 302466 + 89*******************************************966644554...34.4578**************997 PP >> humanchr1/239220001-239550000 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 30.0 8.3 6.4e-08 1 43 [. 174456 174498 .. 174456 174518 .. 330000 0.92 + ! 32.8 8.3 1.9e-08 1 43 [. 174456 174498 .. 174456 174518 .. 330000 0.91 Alignment: - score: 30.0 bits + score: 32.8 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 1 ttaggttggtgcaaaagtaattgcggtttttgccattactttt 43 ttaggtt gtgcaaaagtaattg ggtttttg cattactttt humanchr1/239220001-239550000 174456 TTAGGTTAGTGCAAAAGTAATTGTGGTTTTTGTCATTACTTTT 174498 - 589************************************9975 PP + 589************************************9986 PP >> humanchr1/239220001-239550000 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 29.5 6.1 9.3e-08 1 77 [. 302466 302390 .. 302466 302387 .. 330000 0.74 + ! 31.0 6.7 6.3e-08 1 78 [. 302466 302389 .. 302466 302387 .. 330000 0.80 Alignment: - score: 29.5 bits - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 1 ttaggttggtgcaaaagtaattgcggtttttgccattactttt................aatggcaaaaaccgcaattacttttgcaccaacc 77 - ttag ttggtg aaaag cattactttt aatggcaaaaacc caatt ttttgcacc acc - humanchr1/239220001-239550000 302466 TTAGATTGGTGTAAAAG----------------CATTACTTTTaaaagcaattaaaagcAATGGCAAAAACCACAATTGATTTTGCACCGACC 302390 - 68999999999999998................4666777765222222222222222268****************************9998 PP + score: 31.0 bits + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx....xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 1 ttaggttggtgcaaaagtaattgcggttttt....gccattacttttaatggcaaaaaccgcaattacttttgcaccaacct 78 + ttag ttggtg aaaag a t tttt gc atta +aatggcaaaaacc caatt ttttgcacc acc + humanchr1/239220001-239550000 302466 TTAGATTGGTGTAAAAGCATT-A---CTTTTaaaaGCAATTAAAAGCAATGGCAAAAACCACAATTGATTTTGCACCGACCA 302389 + 6899************97543.2...23333455566666666666799*****************************9985 PP >> humanchr1/239220001-239550000 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ! 23.7 7.0 6.3e-06 43 80 .] 174493 174456 .. 174513 174456 .. 330000 0.91 + ! 25.0 7.0 4.9e-06 43 80 .] 174493 174456 .. 174513 174456 .. 330000 0.94 Alignment: - score: 23.7 bits + score: 25.0 bits xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF MADE1 43 taatggcaaaaaccgcaattacttttgcaccaacctaa 80 taatg caaaaacc caattacttttgcac aacctaa humanchr1/239220001-239550000 174493 TAATGACAAAAACCACAATTACTTTTGCACTAACCTAA 174456 - 689********************************986 PP + 5899*******************************986 PP >> humanchr1/239220001-239550000 score bias Evalue hmmfrom hmm to alifrom ali to envfrom env to sq len acc ------ ----- --------- ------- ------- --------- --------- --------- --------- --------- ---- - ? 6.5 7.0 1.4 41 72 .. 304073 304104 .. 304053 304109 .. 330000 0.85 + ? 6.9 7.2 2.2 41 71 .. 304073 304103 .. 304053 304109 .. 330000 0.85 Alignment: - score: 6.5 bits - xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF - MADE1 41 tttaatggcaaaaaccgcaattacttttgcac 72 - tt a tgg aaaaa ca tta ttttgca - humanchr1/239220001-239550000 304073 TTAAGTGGGAAAAAATACACTTATTTTTGCAT 304104 - 455779************************86 PP + score: 6.9 bits + xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF + MADE1 41 tttaatggcaaaaaccgcaattacttttgca 71 + tt a tgg aaaaa ca tta ttttgca + humanchr1/239220001-239550000 304073 TTAAGTGGGAAAAAATACACTTATTTTTGCA 304103 + 456789************************8 PP @@ -102,12 +103,12 @@ ------------------------------------- Query model(s): 1 (80 nodes) Target sequences: 1 (660000 residues searched) -Residues passing SSV filter: 63737 (0.0966); expected (0.02) -Residues passing bias filter: 44695 (0.0677); expected (0.02) -Residues passing Vit filter: 2309 (0.0035); expected (0.001) -Residues passing Fwd filter: 2041 (0.00309); expected (1e-05) +Residues passing SSV filter: 60770 (0.0921); expected (0.02) +Residues passing bias filter: 35792 (0.0542); expected (0.02) +Residues passing Vit filter: 1612 (0.00244); expected (0.001) +Residues passing Fwd filter: 1194 (0.00181); expected (1e-05) Total number of hits: 5 (0.000405) -# CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.02 -# Mc/sec: 1854.66 +# CPU time: 0.04u 0.00s 00:00:00.04 Elapsed: 00:00:00.05 +# Mc/sec: 1031.54 // [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/nhmmer.out.aliscoresout --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/nhmmer.out.aliscoresout Tue Jun 16 05:34:25 2020 -0400 @@ -0,0 +1,5 @@ +MADE1 humanchr1/239220001-239550000 302390 302466 : 1.505 1.476 1.474 -1.303 1.575 1.513 1.539 1.563 1.587 1.551 1.559 1.631 1.323 -1.950 -1.070 1.284 1.511 1.493 1.439 1.532 0.215 1.006 1.428 1.270 1.536 1.556 1.535 1.251 1.434 1.337 1.298 1.388 1.496 1.422 -0.923 1.338 1.437 1.555 1.502 0.815 1.411 1.353 1.353 -1.471 1.456 1.441 > > > -9.001 1.391 1.512 1.535 1.467 > > -6.804 1.052 -0.886 -7.639 1.407 -1.765 1.411 -1.266 1.469 1.387 1.594 1.606 1.596 -1.382 1.548 1.493 1.454 1.559 1.502 1.420 -0.770 1.444 1.540 1.711 1.764 +MADE1 humanchr1/239220001-239550000 174456 174498 : 1.714 1.617 1.616 1.505 1.476 1.474 1.543 -1.208 1.513 1.539 1.563 1.587 1.551 1.559 1.631 1.323 1.534 1.499 1.284 1.511 1.493 1.439 1.532 0.215 1.006 1.428 1.270 1.536 1.556 1.535 1.251 1.434 -0.637 1.298 1.388 1.496 1.422 1.152 1.338 1.437 1.555 1.502 0.815 +MADE1 humanchr1/239220001-239550000 302466 302389 : 1.714 1.617 1.616 1.505 -0.985 1.474 1.543 1.575 1.513 1.539 1.563 -1.318 1.551 1.559 1.631 1.323 1.534 -1.070 1.284 -1.401 1.493 -6.677 -1.165 > > -7.988 -0.943 1.536 1.556 1.535 1.251 > > > -7.961 1.434 1.337 -1.137 1.388 1.496 1.422 1.152 -1.577 -1.499 -1.909 -1.825 0.193 1.411 1.353 1.353 1.449 1.456 1.441 1.391 1.512 1.535 1.467 1.110 1.369 0.819 -0.062 1.496 1.358 1.407 1.540 1.411 -1.266 -1.753 1.387 1.594 1.606 1.596 1.591 1.548 1.493 1.454 1.559 -1.507 1.420 1.423 1.444 -1.824 +MADE1 humanchr1/239220001-239550000 174493 174456 : 0.815 1.411 1.353 1.353 1.449 -0.996 1.441 1.391 1.512 1.535 1.467 1.110 1.369 0.819 -0.062 1.496 1.358 1.407 1.540 1.411 1.448 1.469 1.387 1.594 1.606 1.596 1.591 1.548 1.493 1.454 -1.161 1.502 1.420 1.423 1.444 1.540 1.711 1.764 +MADE1 humanchr1/239220001-239550000 304073 304103 : 1.555 1.502 -1.100 1.411 -1.130 1.353 1.449 1.456 -1.897 1.391 1.512 1.535 1.467 1.110 -1.439 0.155 -0.062 1.496 1.358 -1.596 1.540 1.411 1.448 -0.907 1.387 1.594 1.606 1.596 1.591 1.548 1.493 diff -r 01219a31c48e -r be7097d6e3ff test-data/nhmmer.out.dfamtblout --- a/test-data/nhmmer.out.dfamtblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/nhmmer.out.dfamtblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,17 +1,10 @@ -# target name accession query name accession hmmfrom hmm to alifrom ali to envfrom env to sq len strand E-value score bias description of target -# ------------------- ---------- -------------------- ---------- ------- ------- ------- ------- ------- ------- ------- ------ --------- ------ ----- --------------------- -humanchr1/239220001-239550000 - MADE1 DF0000629.2 4 80 302390 302466 302387 302466 330000 + 8.7e-11 39.2 7.4 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 43 174456 174498 174456 174518 330000 + 6.4e-08 30.0 8.3 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 77 302466 302390 302466 302387 330000 - 9.3e-08 29.5 6.1 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 43 80 174493 174456 174513 174456 330000 - 6.3e-06 23.7 7.0 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 41 72 304073 304104 304053 304109 330000 + 1.4 6.5 7.0 - +# hit scores +# ---------- # -# Program: nhmmer -# Version: 3.2 (June 2018) -# Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_36.dat -# Target file: /tmp/tmpp4O0Ju/files/000/dataset_37.dat -# Option settings: nhmmer --tblout /tmp/tmpp4O0Ju/files/000/dataset_39.dat --dfamtblout None --notextw -E 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --dna --seed 4 --cpu 1 /tmp/tmpp4O0Ju/files/000/dataset_36.dat /tmp/tmpp4O0Ju/files/000/dataset_37.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/30/working -# Date: Fri Jun 8 12:18:56 2018 -# [ok] +# target name acc query name bits e-value bias hmm-st hmm-en strand ali-st ali-en env-st env-en sq-len description of target +# ------------------- ------------------- ------------------- ------ --------- ----- ------- ------- ------ ------- ------- ------- ------- ------- --------------------- +humanchr1/239220001-239550000 DF0000629.2 MADE1 41.3 4e-11 7.5 4 80 + 302390 302466 302387 302466 330000 - +humanchr1/239220001-239550000 DF0000629.2 MADE1 32.8 1.9e-08 8.3 1 43 + 174456 174498 174456 174518 330000 - +humanchr1/239220001-239550000 DF0000629.2 MADE1 31.0 6.3e-08 6.7 1 78 - 302466 302389 302466 302387 330000 - +humanchr1/239220001-239550000 DF0000629.2 MADE1 25.0 4.9e-06 7.0 43 80 - 174493 174456 174513 174456 330000 - +humanchr1/239220001-239550000 DF0000629.2 MADE1 6.9 2.2 7.2 41 71 + 304073 304103 304053 304109 330000 - diff -r 01219a31c48e -r be7097d6e3ff test-data/nhmmer.out.tblout --- a/test-data/nhmmer.out.tblout Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/nhmmer.out.tblout Tue Jun 16 05:34:25 2020 -0400 @@ -1,17 +1,17 @@ # target name accession query name accession hmmfrom hmm to alifrom ali to envfrom env to sq len strand E-value score bias description of target # ------------------- ---------- -------------------- ---------- ------- ------- ------- ------- ------- ------- ------- ------ --------- ------ ----- --------------------- -humanchr1/239220001-239550000 - MADE1 DF0000629.2 4 80 302390 302466 302387 302466 330000 + 8.7e-11 39.2 7.4 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 43 174456 174498 174456 174518 330000 + 6.4e-08 30.0 8.3 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 77 302466 302390 302466 302387 330000 - 9.3e-08 29.5 6.1 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 43 80 174493 174456 174513 174456 330000 - 6.3e-06 23.7 7.0 - -humanchr1/239220001-239550000 - MADE1 DF0000629.2 41 72 304073 304104 304053 304109 330000 + 1.4 6.5 7.0 - +humanchr1/239220001-239550000 - MADE1 DF0000629.2 4 80 302390 302466 302387 302466 330000 + 4e-11 41.3 7.5 - +humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 43 174456 174498 174456 174518 330000 + 1.9e-08 32.8 8.3 - +humanchr1/239220001-239550000 - MADE1 DF0000629.2 1 78 302466 302389 302466 302387 330000 - 6.3e-08 31.0 6.7 - +humanchr1/239220001-239550000 - MADE1 DF0000629.2 43 80 174493 174456 174513 174456 330000 - 4.9e-06 25.0 7.0 - +humanchr1/239220001-239550000 - MADE1 DF0000629.2 41 71 304073 304103 304053 304109 330000 + 2.2 6.9 7.2 - # # Program: nhmmer -# Version: 3.2 (June 2018) +# Version: 3.3 (Nov 2019) # Pipeline mode: SEARCH -# Query file: /tmp/tmpp4O0Ju/files/000/dataset_36.dat -# Target file: /tmp/tmpp4O0Ju/files/000/dataset_37.dat -# Option settings: nhmmer --tblout /tmp/tmpp4O0Ju/files/000/dataset_39.dat --dfamtblout None --notextw -E 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --dna --seed 4 --cpu 1 /tmp/tmpp4O0Ju/files/000/dataset_36.dat /tmp/tmpp4O0Ju/files/000/dataset_37.dat -# Current dir: /tmp/tmpp4O0Ju/job_working_directory/000/30/working -# Date: Fri Jun 8 12:18:56 2018 +# Query file: /tmp/tmpqydies2m/files/c/4/e/dataset_c4e67f40-cb86-438e-8bc0-6020ada9fc86.dat +# Target file: /tmp/tmpqydies2m/files/a/1/b/dataset_a1b4364c-0e9a-4709-b4ef-ab7e5661d9e9.dat +# Option settings: nhmmer --tblout /tmp/tmpqydies2m/files/b/d/d/dataset_bdd87d82-1ce1-4051-8d5f-f7251bf7fd18.dat --dfamtblout /tmp/tmpqydies2m/files/d/8/e/dataset_d8ee0d50-d171-4e8a-9c7d-1cbd4394296f.dat --aliscoresout /tmp/tmpqydies2m/files/5/1/3/dataset_5139892f-c507-40c4-b43d-f73023c634f4.dat --notextw -E 10.0 --F1 0.02 --F2 0.001 --F3 1e-05 --dna --seed 4 --cpu 1 /tmp/tmpqydies2m/files/c/4/e/dataset_c4e67f40-cb86-438e-8bc0-6020ada9fc86.dat /tmp/tmpqydies2m/files/a/1/b/dataset_a1b4364c-0e9a-4709-b4ef-ab7e5661d9e9.dat +# Current dir: /tmp/tmpqydies2m/job_working_directory/000/17/working +# Date: Thu May 14 18:54:51 2020 # [ok] diff -r 01219a31c48e -r be7097d6e3ff test-data/uniprot_globins_match.out --- a/test-data/uniprot_globins_match.out Mon Jun 11 15:52:41 2018 -0400 +++ b/test-data/uniprot_globins_match.out Tue Jun 16 05:34:25 2020 -0400 @@ -1,13 +1,10 @@ # hmmsearch :: search profile(s) against a sequence database -# HMMER 3.2 (June 2018); http://hmmer.org/ -# Copyright (C) 2018 Howard Hughes Medical Institute. +# HMMER 3.3 (Nov 2019); http://hmmer.org/ +# Copyright (C) 2019 Howard Hughes Medical Institute. # Freely distributed under the BSD open source license. # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -# query HMM file: /tmp/tmpp4O0Ju/files/000/dataset_25.dat -# target sequence database: /tmp/tmpp4O0Ju/files/000/dataset_26.dat -# per-seq hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_28.dat -# per-dom hits tabular output: /tmp/tmpp4O0Ju/files/000/dataset_29.dat -# pfam-style tabular hit output: /tmp/tmpp4O0Ju/files/000/dataset_30.dat +# query HMM file: /tmp/tmpqydies2m/files/1/e/c/dataset_1eca2f81-02d4-4cd0-9081-3ea0f7eb36d7.dat +# target sequence database: /tmp/tmpqydies2m/files/a/4/d/dataset_a4d3f992-2c56-4231-9590-fe0ab1f6413b.dat # max ASCII text line length: unlimited # Vit filter P threshold: <= 0.001 # Fwd filter P threshold: <= 1e-05 @@ -15,39 +12,39 @@ # number of worker threads: 1 # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -Query: dataset_x [M=149] +Query: dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 [M=149] Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- - 1.8e-70 222.7 3.2 2e-70 222.6 3.2 1.0 1 sp|P02185|MYG_PHYCD Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 - 9.2e-69 217.2 0.1 1e-68 217.0 0.1 1.0 1 sp|P02024|HBB_GORGO Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 + 1.3e-70 223.2 0.1 1.4e-70 223.0 0.1 1.0 1 sp|P02024|HBB_GORGO Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 + 5.8e-70 221.1 3.3 6.4e-70 220.9 3.3 1.0 1 sp|P02185|MYG_PHYCD Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 Domain annotation for each sequence (and alignments): +>> sp|P02024|HBB_GORGO Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 + # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc + --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- + 1 ! 223.0 0.1 1.4e-70 1.4e-70 1 149 [] 2 147 .] 2 147 .] 0.99 + + Alignments for each domain: + == domain 1 score: 223.0 bits; conditional E-value: 1.4e-70 + dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 1 vvLseaektkvkavWakveadveevGadiLvrlfvsyPetqefFekFkdLstedelkgsadvkkHgkkvldAlsdalakldekleaelkaLselHakklkvdpkyfkllsevlvvvlaarlpkeftadvqaaleKllalvakalaskYk 149 + v+L+++ek++v+a+W+kv +v+evG+++L rl+v+yP+tq+fFe+F+dLst+d+++g+++vk+Hgkkvl+A+sd+la+ld +l++++++LselH++kl+vdp++fkll++vlv+vla++++keft++vqaa++K++a+va+ala+kY+ + sp|P02024|HBB_GORGO 2 VHLTPEEKSAVTALWGKV--NVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLD-NLKGTFATLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH 147 + 69****************..*************************************************************.******************************************************************7 PP + >> sp|P02185|MYG_PHYCD Myoglobin OS=Physeter catodon GN=MB PE=1 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 222.6 3.2 2e-70 2e-70 2 149 .] 2 148 .. 1 148 [. 0.99 + 1 ! 220.9 3.3 6.4e-70 6.4e-70 2 149 .] 2 148 .. 1 148 [. 0.99 Alignments for each domain: - == domain 1 score: 222.6 bits; conditional E-value: 2e-70 - dataset_x 2 vLseaektkvkavWakveadveesGadiLvrlfkstPatqefFekFkdLstedelkksadvkkHgkkvldAlsdalakldekleaklkdLselHakklkvdpkyfkllsevlvdvlaarlpkeftadvqaaleKllalvakllaskYk 149 - vLse+e++ v++vWakveadv+++G+diL+rlfks+P+t+e+F++Fk+L+te+e+k+s+d+kkHg++vl+Al+++l+k ++++ea+lk+L+++Ha+k+k+++ky++++se++++vl++r+p++f+ad+q+a++K+l+l++k++a+kYk - sp|P02185|MYG_PHYCD 2 VLSEGEWQLVLHVWAKVEADVAGHGQDILIRLFKSHPETLEKFDRFKHLKTEAEMKASEDLKKHGVTVLTALGAILKK-KGHHEAELKPLAQSHATKHKIPIKYLEFISEAIIHVLHSRHPGDFGADAQGAMNKALELFRKDIAAKYK 148 - 8*****************************************************************************.99******************************************************************7 PP - ->> sp|P02024|HBB_GORGO Hemoglobin subunit beta OS=Gorilla gorilla gorilla GN=HBB PE=1 SV=2 - # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc - --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- - 1 ! 217.0 0.1 1e-68 1e-68 1 149 [] 2 147 .] 2 147 .] 0.99 - - Alignments for each domain: - == domain 1 score: 217.0 bits; conditional E-value: 1e-68 - dataset_x 1 vvLseaektkvkavWakveadveesGadiLvrlfkstPatqefFekFkdLstedelkksadvkkHgkkvldAlsdalakldekleaklkdLselHakklkvdpkyfkllsevlvdvlaarlpkeftadvqaaleKllalvakllaskYk 149 - v+L+++ek++v+a+W+kv +v+e+G+++L rl++++P+tq+fFe+F+dLst+d+++++++vk+Hgkkvl+A+sd+la+ld +l++++++LselH++kl+vdp++fkll++vlv+vla++++keft++vqaa++K++a va++la+kY+ - sp|P02024|HBB_GORGO 2 VHLTPEEKSAVTALWGKV--NVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLD-NLKGTFATLSELHCDKLHVDPENFKLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH 147 - 69****************..*************************************************************.******************************************************************7 PP + == domain 1 score: 220.9 bits; conditional E-value: 6.4e-70 + dataset_a435d3bd-3e95-4c54-859f-736e9bc413b2 2 vLseaektkvkavWakveadveevGadiLvrlfvsyPetqefFekFkdLstedelkgsadvkkHgkkvldAlsdalakldekleaelkaLselHakklkvdpkyfkllsevlvvvlaarlpkeftadvqaaleKllalvakalaskYk 149 + vLse+e++ v++vWakveadv+++G+diL+rlf+s+Pet+e+F++Fk+L+te+e+k+s+d+kkHg++vl+Al+++l+k ++++eaelk+L+++Ha+k+k+++ky++++se++++vl++r+p++f+ad+q+a++K+l+l++k++a+kYk + sp|P02185|MYG_PHYCD 2 VLSEGEWQLVLHVWAKVEADVAGHGQDILIRLFKSHPETLEKFDRFKHLKTEAEMKASEDLKKHGVTVLTALGAILKK-KGHHEAELKPLAQSHATKHKIPIKYLEFISEAIIHVLHSRHPGDFGADAQGAMNKALELFRKDIAAKYK 148 + 8*****************************************************************************.99******************************************************************7 PP @@ -62,6 +59,6 @@ Initial search space (Z): 2 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.00u 0.00s 00:00:00.00 Elapsed: 00:00:00.00 -# Mc/sec: 20.02 +# Mc/sec: 18.86 // [ok]