view ITSx_db/HMMs/Q.hmm @ 5:c711ca9a7f4c draft

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date Fri, 05 Jun 2015 11:10:49 -0400
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HMMER3/b [3.0 | March 2010]
NAME  3_End_Raphidophyceae_58S_end_one_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Thu Jan 19 22:28:09 2012
NSEQ  29
EFFN  3.345337
CKSUM 2540392139
STATS LOCAL MSV       -8.0627  0.71933
STATS LOCAL VITERBI   -7.5685  0.71933
STATS LOCAL FORWARD   -3.8000  0.71933
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.72491  1.59887  1.25392  1.09570
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  0.00000        *
      1   3.44143  0.12922  3.49054  2.83505      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      2   0.14094  3.38749  2.80662  3.28984      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      3   3.44143  0.12922  3.49054  2.83505      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      4   3.09591  2.59978  3.14378  0.17750      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      5   3.09591  2.59978  3.14378  0.17750      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      6   3.44143  0.12922  3.49054  2.83505      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      7   3.44143  0.12922  3.49054  2.83505      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      8   2.95256  3.59508  0.11636  3.50051      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
      9   2.95256  3.59508  0.11636  3.50051      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     10   2.95256  3.59508  0.11636  3.50051     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     11   0.14094  3.38749  2.80662  3.28984     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     12   3.09591  2.59978  3.14378  0.17750     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     13   0.14094  3.38749  2.80662  3.28984     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     14   3.09591  2.59978  3.14378  0.17750     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     15   3.09591  2.59978  3.14378  0.17750     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     16   3.44143  0.12922  3.49054  2.83505     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     17   3.44143  0.12922  3.49054  2.83505     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     18   3.09591  2.59978  3.14378  0.17750     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     19   2.95256  3.59508  0.11636  3.50051     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     20   2.95256  3.59508  0.11636  3.50051     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     21   2.95256  3.59508  0.11636  3.50051     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     22   0.14094  3.38749  2.80662  3.28984     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     23   2.95256  3.59508  0.11636  3.50051     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     24   3.09591  2.59978  3.14378  0.17750     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     25   0.14094  3.38749  2.80662  3.28984     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     26   3.09591  2.59978  3.14378  0.17750     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     27   2.95256  3.59508  0.11636  3.50051     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     28   3.44143  0.12922  3.49054  2.83505     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     29   3.09591  2.59978  3.14378  0.17750     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     30   3.09591  2.59978  3.14378  0.17750     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     31   2.95256  3.59508  0.11636  3.50051     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     32   3.09591  2.59978  3.14378  0.17750     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     33   3.09591  2.59978  3.14378  0.17750     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     34   0.17548  3.26091  2.52535  3.15686     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     35   2.95256  3.59508  0.11636  3.50051     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     36   0.14094  3.38749  2.80662  3.28984     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     37   2.95256  3.59508  0.11636  3.50051     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     38   3.09591  2.59978  3.14378  0.17750     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     39   2.95256  3.59508  0.11636  3.50051     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     40   3.09591  2.59978  3.14378  0.17750     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     41   3.44143  0.12922  3.49054  2.83505     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     42   3.09591  2.59978  3.14378  0.17750     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     43   2.95256  3.59508  0.11636  3.50051     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     44   3.09591  2.59978  3.14378  0.17750     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.03673  4.01554  4.01554  1.46634  0.26236  1.09861  0.40547
     45   3.09591  2.59978  3.14378  0.17750     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.01854  3.99734        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  3_End_Raphidophyceae_58S_end_three_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Thu Jan 19 22:28:25 2012
NSEQ  22
EFFN  3.348877
CKSUM 1842339946
STATS LOCAL MSV       -7.9914  0.71933
STATS LOCAL VITERBI   -7.6624  0.71933
STATS LOCAL FORWARD   -3.8281  0.71933
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.72163  1.59833  1.25283  1.09872
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  0.00000        *
      1   2.95334  3.59622  0.11624  3.50177      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      2   3.44273  0.12907  3.49178  2.83600      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      3   0.14080  3.38861  2.80735  3.29107      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      4   3.44273  0.12907  3.49178  2.83600      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      5   3.09705  2.60051  3.14488  0.17732      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      6   3.09705  2.60051  3.14488  0.17732      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      7   3.44273  0.12907  3.49178  2.83600      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      8   3.44273  0.12907  3.49178  2.83600      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
      9   2.95334  3.59622  0.11624  3.50177      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     10   2.95334  3.59622  0.11624  3.50177     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     11   2.95334  3.59622  0.11624  3.50177     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     12   2.96194  2.28365  3.01466  0.22652     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     13   0.14080  3.38861  2.80735  3.29107     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     14   3.09705  2.60051  3.14488  0.17732     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     15   3.09705  2.60051  3.14488  0.17732     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     16   3.44273  0.12907  3.49178  2.83600     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     17   3.44273  0.12907  3.49178  2.83600     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     18   3.09705  2.60051  3.14488  0.17732     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     19   2.95334  3.59622  0.11624  3.50177     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     20   2.95334  3.59622  0.11624  3.50177     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     21   2.95334  3.59622  0.11624  3.50177     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     22   0.14080  3.38861  2.80735  3.29107     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     23   2.95334  3.59622  0.11624  3.50177     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     24   3.09705  2.60051  3.14488  0.17732     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     25   0.14080  3.38861  2.80735  3.29107     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     26   3.09705  2.60051  3.14488  0.17732     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     27   2.95334  3.59622  0.11624  3.50177     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     28   3.44273  0.12907  3.49178  2.83600     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     29   3.09705  2.60051  3.14488  0.17732     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     30   3.09705  2.60051  3.14488  0.17732     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     31   3.09705  2.60051  3.14488  0.17732     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     32   0.14080  3.38861  2.80735  3.29107     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     33   3.09705  2.60051  3.14488  0.17732     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     34   0.14080  3.38861  2.80735  3.29107     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     35   2.95334  3.59622  0.11624  3.50177     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     36   0.14080  3.38861  2.80735  3.29107     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     37   2.95334  3.59622  0.11624  3.50177     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     38   3.09705  2.60051  3.14488  0.17732     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     39   2.95334  3.59622  0.11624  3.50177     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     40   3.09705  2.60051  3.14488  0.17732     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     41   3.44273  0.12907  3.49178  2.83600     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     42   3.09705  2.60051  3.14488  0.17732     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     43   2.95334  3.59622  0.11624  3.50177     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     44   3.09705  2.60051  3.14488  0.17732     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.03671  4.01618  4.01618  1.46634  0.26236  1.09861  0.40547
     45   3.09705  2.60051  3.14488  0.17732     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.01852  3.99799        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  3_End_Raphidophyceae_58S_end_two_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Thu Jan 19 22:28:17 2012
NSEQ  2
EFFN  2.000000
CKSUM 3536786290
STATS LOCAL MSV       -7.4659  0.72801
STATS LOCAL VITERBI   -8.3758  0.72801
STATS LOCAL FORWARD   -3.4843  0.72801
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.92192  1.27826  1.22095  1.27224
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  0.00000        *
      1   2.81865  0.23582  2.88868  2.35662      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      2   2.53331  3.02441  0.20344  2.88069      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      3   2.81865  0.23582  2.88868  2.35662      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      4   2.57915  2.25909  2.64442  0.28946      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      5   2.57915  2.25909  2.64442  0.28946      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      6   2.81865  0.23582  2.88868  2.35662      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      7   2.81865  0.23582  2.88868  2.35662      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      8   2.53331  3.02441  0.20344  2.88069      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      9   2.53331  3.02441  0.20344  2.88069      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     10   2.53331  3.02441  0.20344  2.88069     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     11   2.81865  0.23582  2.88868  2.35662     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     12   0.23862  2.84929  2.43386  2.70756     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     13   2.57915  2.25909  2.64442  0.28946     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     14   2.81865  0.23582  2.88868  2.35662     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     15   2.81865  0.23582  2.88868  2.35662     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     16   2.81865  0.23582  2.88868  2.35662     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     17   2.81865  0.23582  2.88868  2.35662     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     18   2.57915  2.25909  2.64442  0.28946     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     19   2.53331  3.02441  0.20344  2.88069     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     20   2.53331  3.02441  0.20344  2.88069     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     21   2.53331  3.02441  0.20344  2.88069     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     22   0.23862  2.84929  2.43386  2.70756     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     23   2.53331  3.02441  0.20344  2.88069     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     24   2.81865  0.23582  2.88868  2.35662     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     25   0.23862  2.84929  2.43386  2.70756     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     26   2.57915  2.25909  2.64442  0.28946     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     27   2.53331  3.02441  0.20344  2.88069     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     28   2.81865  0.23582  2.88868  2.35662     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     29   2.57915  2.25909  2.64442  0.28946     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     30   2.57915  2.25909  2.64442  0.28946     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     31   2.53331  3.02441  0.20344  2.88069     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     32   2.57915  2.25909  2.64442  0.28946     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     33   2.57915  2.25909  2.64442  0.28946     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     34   2.57915  2.25909  2.64442  0.28946     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     35   2.53331  3.02441  0.20344  2.88069     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     36   0.23862  2.84929  2.43386  2.70756     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     37   2.53331  3.02441  0.20344  2.88069     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     38   2.57915  2.25909  2.64442  0.28946     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     39   2.53331  3.02441  0.20344  2.88069     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     40   2.57915  2.25909  2.64442  0.28946     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     41   2.81865  0.23582  2.88868  2.35662     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     42   2.81865  0.23582  2.88868  2.35662     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     43   2.53331  3.02441  0.20344  2.88069     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     44   2.57915  2.25909  2.64442  0.28946     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     45   2.57915  2.25909  2.64442  0.28946     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.02469  3.71357        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  2_5.8_Raphidophyceae_58S_start_one_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Thu Jan 19 22:20:20 2012
NSEQ  55
EFFN  3.481140
CKSUM 1990027650
STATS LOCAL MSV       -7.4661  0.71933
STATS LOCAL VITERBI   -7.6976  0.71933
STATS LOCAL FORWARD   -4.3165  0.71933
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.41421  1.31471  1.35031  1.47329
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  0.00000        *
      1   3.48996  0.12363  3.53697  2.87020      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      2   2.98169  3.63765  0.11184  3.54756      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      3   0.13554  3.42968  2.83393  3.33606      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      4   3.48996  0.12363  3.53697  2.87020      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      5   3.13877  2.62701  3.18500  0.17080      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      6   3.13877  2.62701  3.18500  0.17080      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      7   3.13877  2.62701  3.18500  0.17080      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      8   3.48996  0.12363  3.53697  2.87020      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
      9   0.13554  3.42968  2.83393  3.33606      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     10   2.98169  3.63765  0.11184  3.54756     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     11   3.48996  0.12363  3.53697  2.87020     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     12   0.83378  2.54150  0.92669  2.39705     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     13   2.98169  3.63765  0.11184  3.54756     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     14   3.48996  0.12363  3.53697  2.87020     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     15   2.98169  3.63765  0.11184  3.54756     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     16   2.98169  3.63765  0.11184  3.54756     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     17   0.13554  3.42968  2.83393  3.33606     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     18   3.13877  2.62701  3.18500  0.17080     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     19   2.98169  3.63765  0.11184  3.54756     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     20   3.13877  2.62701  3.18500  0.17080     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     21   3.48996  0.12363  3.53697  2.87020     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     22   3.13877  2.62701  3.18500  0.17080     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     23   3.13877  2.62701  3.18500  0.17080     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     24   2.98169  3.63765  0.11184  3.54756     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     25   2.98169  3.63765  0.11184  3.54756     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     26   3.13877  2.62701  3.18500  0.17080     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     27   3.13877  2.62701  3.18500  0.17080     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     28   3.48996  0.12363  3.53697  2.87020     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     29   3.48996  0.12363  3.53697  2.87020     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     30   3.48996  0.12363  3.53697  2.87020     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     31   0.13554  3.42968  2.83393  3.33606     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     32   3.48996  0.12363  3.53697  2.87020     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     33   0.13554  3.42968  2.83393  3.33606     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     34   0.91891  2.17063  2.17690  0.98471     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     35   3.48996  0.12363  3.53697  2.87020     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     36   2.98169  3.63765  0.11184  3.54756     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     37   0.13554  3.42968  2.83393  3.33606     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     38   3.13877  2.62701  3.18500  0.17080     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     39   2.98169  3.63765  0.11184  3.54756     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     40   0.13554  3.42968  2.83393  3.33606     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     41   0.13554  3.42968  2.83393  3.33606     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     42   2.98169  3.63765  0.11184  3.54756     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     43   0.13554  3.42968  2.83393  3.33606     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     44   0.13554  3.42968  2.83393  3.33606     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.03584  4.03974  4.03974  1.46634  0.26236  1.09861  0.40547
     45   3.48996  0.12363  3.53697  2.87020     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.01808  4.02198        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  2_5.8_Raphidophyceae_58S_start_two_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Sat Oct  8 23:41:06 2011
NSEQ  2
EFFN  2.000000
CKSUM 4228921988
STATS LOCAL MSV       -7.5411  0.72814
STATS LOCAL VITERBI   -8.1860  0.72814
STATS LOCAL FORWARD   -3.8575  0.72814
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.23782  1.40044  1.49697  1.42842
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  0.00000        *
      1   2.57915  2.25909  2.64442  0.28946      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      2   0.23862  2.84929  2.43386  2.70756      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      3   0.23862  2.84929  2.43386  2.70756      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      4   2.81865  0.23582  2.88868  2.35662      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      5   2.57915  2.25909  2.64442  0.28946      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      6   2.57915  2.25909  2.64442  0.28946      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      7   2.57915  2.25909  2.64442  0.28946      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      8   2.81865  0.23582  2.88868  2.35662      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
      9   0.23862  2.84929  2.43386  2.70756      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     10   2.53331  3.02441  0.20344  2.88069     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     11   2.81865  0.23582  2.88868  2.35662     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     12   0.23862  2.84929  2.43386  2.70756     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     13   0.23862  2.84929  2.43386  2.70756     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     14   2.57915  2.25909  2.64442  0.28946     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     15   2.53331  3.02441  0.20344  2.88069     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     16   2.53331  3.02441  0.20344  2.88069     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     17   0.23862  2.84929  2.43386  2.70756     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     18   2.57915  2.25909  2.64442  0.28946     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     19   2.53331  3.02441  0.20344  2.88069     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     20   2.57915  2.25909  2.64442  0.28946     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     21   2.81865  0.23582  2.88868  2.35662     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     22   2.57915  2.25909  2.64442  0.28946     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     23   2.57915  2.25909  2.64442  0.28946     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     24   2.53331  3.02441  0.20344  2.88069     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     25   2.53331  3.02441  0.20344  2.88069     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     26   2.81865  0.23582  2.88868  2.35662     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     27   2.57915  2.25909  2.64442  0.28946     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     28   2.81865  0.23582  2.88868  2.35662     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     29   2.81865  0.23582  2.88868  2.35662     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     30   2.81865  0.23582  2.88868  2.35662     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     31   0.23862  2.84929  2.43386  2.70756     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     32   2.81865  0.23582  2.88868  2.35662     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     33   0.23862  2.84929  2.43386  2.70756     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     34   0.23862  2.84929  2.43386  2.70756     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     35   2.81865  0.23582  2.88868  2.35662     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     36   2.53331  3.02441  0.20344  2.88069     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     37   0.23862  2.84929  2.43386  2.70756     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     38   2.57915  2.25909  2.64442  0.28946     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     39   2.53331  3.02441  0.20344  2.88069     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     40   0.23862  2.84929  2.43386  2.70756     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     41   0.23862  2.84929  2.43386  2.70756     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     42   2.53331  3.02441  0.20344  2.88069     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     43   0.23862  2.84929  2.43386  2.70756     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     44   0.23862  2.84929  2.43386  2.70756     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.04879  3.73767  3.73767  1.46634  0.26236  1.09861  0.40547
     45   2.81865  0.23582  2.88868  2.35662     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.02469  3.71357        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  4_LSU_Raphidophyceae_4_LSU_start_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Sat Oct  8 23:57:11 2011
NSEQ  23
EFFN  3.293335
CKSUM 2676057667
STATS LOCAL MSV       -8.1976  0.71932
STATS LOCAL VITERBI   -7.6482  0.71932
STATS LOCAL FORWARD   -3.7861  0.71932
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.06153  1.46136  1.69261  1.43500
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  0.00000        *
      1   3.07909  2.58908  3.12761  0.18022      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      2   3.07909  2.58908  3.12761  0.18022      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      3   3.42223  0.13151  3.47214  2.82107      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      4   0.14315  3.37082  2.79579  3.27159      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      5   2.94093  3.57817  0.11821  3.48184      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      6   0.14315  3.37082  2.79579  3.27159      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      7   3.07909  2.58908  3.12761  0.18022      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      8   3.42223  0.13151  3.47214  2.82107      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
      9   3.07909  2.58908  3.12761  0.18022      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     10   3.42223  0.13151  3.47214  2.82107     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     11   3.07909  2.58908  3.12761  0.18022     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     12   0.14315  3.37082  2.79579  3.27159     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     13   0.14315  3.37082  2.79579  3.27159     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     14   3.07909  2.58908  3.12761  0.18022     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     15   3.42223  0.13151  3.47214  2.82107     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     16   0.14315  3.37082  2.79579  3.27159     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     17   0.14315  3.37082  2.79579  3.27159     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     18   2.94093  3.57817  0.11821  3.48184     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     19   3.42223  0.13151  3.47214  2.82107     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     20   0.14315  3.37082  2.79579  3.27159     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     21   0.14315  3.37082  2.79579  3.27159     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     22   2.94093  3.57817  0.11821  3.48184     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     23   0.14315  3.37082  2.79579  3.27159     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     24   0.14315  3.37082  2.79579  3.27159     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     25   2.94093  3.57817  0.11821  3.48184     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     26   0.14315  3.37082  2.79579  3.27159     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     27   3.42223  0.13151  3.47214  2.82107     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     28   3.42223  0.13151  3.47214  2.82107     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     29   3.42223  0.13151  3.47214  2.82107     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     30   2.94093  3.57817  0.11821  3.48184     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     31   3.42223  0.13151  3.47214  2.82107     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     32   3.07909  2.58908  3.12761  0.18022     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     33   2.94093  3.57817  0.11821  3.48184     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     34   0.14315  3.37082  2.79579  3.27159     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     35   0.14315  3.37082  2.79579  3.27159     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     36   3.07909  2.58908  3.12761  0.18022     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     37   3.07909  2.58908  3.12761  0.18022     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     38   3.07909  2.58908  3.12761  0.18022     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     39   0.14315  3.37082  2.79579  3.27159     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     40   0.14315  3.37082  2.79579  3.27159     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     41   2.94093  3.57817  0.11821  3.48184     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     42   3.42223  0.13151  3.47214  2.82107     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     43   0.14315  3.37082  2.79579  3.27159     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     44   3.07909  2.58908  3.12761  0.18022     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.03709  4.00612  4.00612  1.46634  0.26236  1.09861  0.40547
     45   0.14315  3.37082  2.79579  3.27159     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.01872  3.98775        *  1.46634  0.26236  0.00000        *
//
HMMER3/b [3.0 | March 2010]
NAME  1_SSU_Raphidophyceae_1_SSU_end_long
LENG  45
ALPH  DNA
RF    no
CS    no
MAP   yes
DATE  Sat Oct  8 23:33:58 2011
NSEQ  4
EFFN  3.230469
CKSUM 805615287
STATS LOCAL MSV       -8.0211  0.71931
STATS LOCAL VITERBI   -7.6818  0.71931
STATS LOCAL FORWARD   -4.1105  0.71931
HMM          A        C        G        T   
            m->m     m->i     m->d     i->m     i->i     d->m     d->d
  COMPO   1.27186  1.62653  1.24657  1.44566
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  0.00000        *
      1   0.14592  3.35028  2.78241  3.24912      1 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      2   2.92650  3.55724  0.12055  3.45877      2 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      3   3.05845  2.57594  3.10775  0.18362      3 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      4   3.39853  0.13441  3.44944  2.80375      4 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      5   2.92650  3.55724  0.12055  3.45877      5 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      6   3.05845  2.57594  3.10775  0.18362      6 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      7   0.14592  3.35028  2.78241  3.24912      7 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      8   0.14592  3.35028  2.78241  3.24912      8 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
      9   3.39853  0.13441  3.44944  2.80375      9 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     10   0.14592  3.35028  2.78241  3.24912     10 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     11   0.14592  3.35028  2.78241  3.24912     11 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     12   2.92650  3.55724  0.12055  3.45877     12 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     13   2.92650  3.55724  0.12055  3.45877     13 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     14   3.05845  2.57594  3.10775  0.18362     14 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     15   3.05845  2.57594  3.10775  0.18362     15 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     16   3.05845  2.57594  3.10775  0.18362     16 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     17   3.39853  0.13441  3.44944  2.80375     17 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     18   3.39853  0.13441  3.44944  2.80375     18 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     19   2.92650  3.55724  0.12055  3.45877     19 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     20   3.05845  2.57594  3.10775  0.18362     20 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     21   0.14592  3.35028  2.78241  3.24912     21 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     22   2.92650  3.55724  0.12055  3.45877     22 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     23   2.92650  3.55724  0.12055  3.45877     23 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     24   3.05845  2.57594  3.10775  0.18362     24 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     25   2.92650  3.55724  0.12055  3.45877     25 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     26   0.14592  3.35028  2.78241  3.24912     26 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     27   0.14592  3.35028  2.78241  3.24912     27 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     28   3.39853  0.13441  3.44944  2.80375     28 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     29   3.39853  0.13441  3.44944  2.80375     29 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     30   3.05845  2.57594  3.10775  0.18362     30 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     31   2.92650  3.55724  0.12055  3.45877     31 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     32   3.39853  0.13441  3.44944  2.80375     32 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     33   2.92650  3.55724  0.12055  3.45877     33 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     34   2.92650  3.55724  0.12055  3.45877     34 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     35   0.14592  3.35028  2.78241  3.24912     35 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     36   0.14592  3.35028  2.78241  3.24912     36 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     37   2.92650  3.55724  0.12055  3.45877     37 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     38   2.92650  3.55724  0.12055  3.45877     38 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     39   0.14592  3.35028  2.78241  3.24912     39 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     40   3.05845  2.57594  3.10775  0.18362     40 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     41   3.39853  0.13441  3.44944  2.80375     41 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     42   0.14592  3.35028  2.78241  3.24912     42 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     43   3.05845  2.57594  3.10775  0.18362     43 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     44   3.05845  2.57594  3.10775  0.18362     44 - -
          1.38629  1.38629  1.38629  1.38629
          0.03752  3.99461  3.99461  1.46634  0.26236  1.09861  0.40547
     45   0.14592  3.35028  2.78241  3.24912     45 - -
          1.38629  1.38629  1.38629  1.38629
          0.01894  3.97602        *  1.46634  0.26236  0.00000        *
//