Mercurial > repos > greg > call_insertions

comparison test-data/dnadiff_report.txt @ 0:5626dc2d0ef2 draft default tip

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author greg
date Tue, 07 Feb 2023 21:43:42 +0000
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1 /home/galaxies/lrn/galaxy/database/files/000/dataset_17.dat /home/galaxies/lrn/galaxy/database/files/002/dataset_2176.dat
2 NUCMER
3
4 [REF] [QRY]
5 [Sequences]
6 TotalSeqs 34305 6
7 AlignedSeqs 697(2.0318%) 3(50.0000%)
8 UnalignedSeqs 33608(97.9682%) 3(50.0000%)
9
10 [Bases]
11 TotalBases 2077959494 11421968
12 AlignedBases 3025775(0.1456%) 228614(2.0015%)
13 UnalignedBases 2074933719(99.8544%) 11193354(97.9985%)
14
15 [Alignments]
16 1-to-1 78 78
17 TotalLength 187128 187163
18 AvgLength 2399.0769 2399.5256
19 AvgIdentity 94.7915 94.7915
20
21 M-to-M 3246 3246
22 TotalLength 4521754 4532531
23 AvgLength 1393.0234 1396.3435
24 AvgIdentity 90.0308 90.0308
25
26 [Feature Estimates]
27 Breakpoints 6288 6480
28 Relocations 10 2
29 Translocations 1 67
30 Inversions 2 0
31
32 Insertions 5794 200
33 InsertionSum 41691366 11221715
34 InsertionAvg 7195.6103 56108.5750
35
36 TandemIns 0 0
37 TandemInsSum 0 0
38 TandemInsAvg 0.0000 0.0000
39
40 [SNPs]
41 TotalSNPs 6547 6547
42 TG 351(5.3612%) 323(4.9336%)
43 TC 967(14.7701%) 933(14.2508%)
44 TA 453(6.9192%) 435(6.6443%)
45 GC 232(3.5436%) 202(3.0854%)
46 GA 989(15.1062%) 986(15.0603%)
47 GT 323(4.9336%) 351(5.3612%)
48 AG 986(15.0603%) 989(15.1062%)
49 AC 352(5.3765%) 324(4.9488%)
50 AT 435(6.6443%) 453(6.9192%)
51 CG 202(3.0854%) 232(3.5436%)
52 CA 324(4.9488%) 352(5.3765%)
53 CT 933(14.2508%) 967(14.7701%)
54
55 TotalGSNPs 366 366
56 TC 75(20.4918%) 59(16.1202%)
57 TA 15(4.0984%) 15(4.0984%)
58 TG 12(3.2787%) 13(3.5519%)
59 AC 13(3.5519%) 12(3.2787%)
60 AG 71(19.3989%) 73(19.9454%)
61 AT 15(4.0984%) 15(4.0984%)
62 CT 59(16.1202%) 75(20.4918%)
63 CG 4(1.0929%) 4(1.0929%)
64 CA 12(3.2787%) 13(3.5519%)
65 GT 13(3.5519%) 12(3.2787%)
66 GC 4(1.0929%) 4(1.0929%)
67 GA 73(19.9454%) 71(19.3989%)
68
69 TotalIndels 874 874
70 T. 133(15.2174%) 156(17.8490%)
71 G. 60(6.8650%) 89(10.1831%)
72 A. 119(13.6156%) 138(15.7895%)
73 C. 80(9.1533%) 99(11.3272%)
74 .A 138(15.7895%) 119(13.6156%)
75 .C 99(11.3272%) 80(9.1533%)
76 .G 89(10.1831%) 60(6.8650%)
77 .T 156(17.8490%) 133(15.2174%)
78
79 TotalGIndels 34 34
80 T. 1(2.9412%) 8(23.5294%)
81 A. 0(0.0000%) 15(44.1176%)
82 C. 0(0.0000%) 7(20.5882%)
83 G. 0(0.0000%) 3(8.8235%)
84 .G 3(8.8235%) 0(0.0000%)
85 .A 15(44.1176%) 0(0.0000%)
86 .C 7(20.5882%) 0(0.0000%)
87 .T 8(23.5294%) 1(2.9412%)