Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 192 of 196
Found at i:57193530 original size:15 final size:15
Alignment explanation
Indices: 57193510--57193540 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57193500 AAAATTCTAT
57193510 TTTTTAATATTAAAA
1 TTTTTAATATTAAAA
*
57193525 TTTTTAATTTTAAAA
1 TTTTTAATATTAAAA
57193540 T
1 T
57193541 ATCAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTAATATTAAAA
Found at i:57199136 original size:14 final size:15
Alignment explanation
Indices: 57199117--57199145 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
57199107 ACCTATAATG
57199117 AAATTATTTT-AAAA
1 AAATTATTTTGAAAA
57199131 AAATTATTTTGAAAA
1 AAATTATTTTGAAAA
57199146 TTTATAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAATTATTTTGAAAA
Found at i:57200369 original size:39 final size:33
Alignment explanation
Indices: 57200290--57200369 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 33
57200280 AAAAATAAAT
57200290 ATTAATAATTATATTACGAATAAAAAATTTTAA
1 ATTAATAATTATATTACGAATAAAAAATTTTAA
**
57200323 AAAAATAATTATATAATAATCGAACTAAATAAATTTTAA
1 ATTAATAATTATAT--T-A-CGAA-TAAA-AAATTTTAA
57200362 ATTAATAA
1 ATTAATAA
57200370 ATAAGAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
33 12 0.32
35 1 0.03
36 1 0.03
37 4 0.11
38 4 0.11
39 15 0.41
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (33 bp):
ATTAATAATTATATTACGAATAAAAAATTTTAA
Found at i:57205018 original size:21 final size:19
Alignment explanation
Indices: 57204994--57205033 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
57204984 TTAAAAAGTA
57204994 TATATTAAAATAAATATATTT
1 TATATT-AAA-AAATATATTT
*
57205015 TATATTATAAAATATATTT
1 TATATTAAAAAATATATTT
57205034 AAAATAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATTAAAAAATATATTT
Found at i:57207593 original size:25 final size:26
Alignment explanation
Indices: 57207563--57207622 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
57207553 AATCATTTCA
*
57207563 ATTTGGATTTT-AAAA-TTTAATGGAT
1 ATTTGG-TTTTAAAAATTTTAATGCAT
57207588 ATTTGGTTTTAAAAATTTTAATGCAT
1 ATTTGGTTTTAAAAATTTTAATGCAT
57207614 -TTTGGTTTT
1 ATTTGGTTTT
57207623 CAAGAGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.12
25 19 0.59
26 9 0.28
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.53
Consensus pattern (26 bp):
ATTTGGTTTTAAAAATTTTAATGCAT
Found at i:57211921 original size:32 final size:32
Alignment explanation
Indices: 57211880--57211944 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57211870 GTTGGAAGTA
57211880 TGAAATTAGCTTATTATGTCAATAGAAACCTT
1 TGAAATTAGCTTATTATGTCAATAGAAACCTT
57211912 TGAAATTAGCTTATTATGTCAATAGAAACCTT
1 TGAAATTAGCTTATTATGTCAATAGAAACCTT
57211944 T
1 T
57211945 CTATTAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
TGAAATTAGCTTATTATGTCAATAGAAACCTT
Found at i:57221269 original size:10 final size:10
Alignment explanation
Indices: 57221254--57221278 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57221244 CTGCTTGCTT
57221254 GCTGAAAGAC
1 GCTGAAAGAC
57221264 GCTGAAAGAC
1 GCTGAAAGAC
57221274 GCTGA
1 GCTGA
57221279 GACGACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (10 bp):
GCTGAAAGAC
Found at i:57240576 original size:31 final size:31
Alignment explanation
Indices: 57240530--57240606 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
57240520 TTTTGAAATC
* * *
57240530 AAAAAAATAGAGACTAAATTTTAATTTTATG
1 AAAAATATAAAGACTAAATTTCAATTTTATG
*
57240561 AAAAATATAAGGACTAAATTTCAATTTTATG
1 AAAAATATAAAGACTAAATTTCAATTTTATG
57240592 AAAAATATAAAGACT
1 AAAAATATAAAGACT
57240607 TATTGCATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.32
Consensus pattern (31 bp):
AAAAATATAAAGACTAAATTTCAATTTTATG
Found at i:57240619 original size:31 final size:31
Alignment explanation
Indices: 57240530--57240620 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 31
57240520 TTTTGAAATC
* * **
57240530 AAAAAAATAGAGACTAAATTTTAATTTTATG
1 AAAAATATAAAGACTAAATTGCAATTTTATG
* *
57240561 AAAAATATAAGGACTAAATTTCAATTTTATG
1 AAAAATATAAAGACTAAATTGCAATTTTATG
*
57240592 AAAAATATAAAGACT-TATTGCATATTTTA
1 AAAAATATAAAGACTAAATTGCA-ATTTTA
57240621 ACCTATTTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.36
Consensus pattern (31 bp):
AAAAATATAAAGACTAAATTGCAATTTTATG
Found at i:57241220 original size:11 final size:11
Alignment explanation
Indices: 57241204--57241247 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
57241194 ATTGGCTCTT
57241204 ATTTTAAATTA
1 ATTTTAAATTA
57241215 ATTTTAAATT-
1 ATTTTAAATTA
57241225 ATTTT-AATTA
1 ATTTTAAATTA
57241235 CATTTTTAAATTA
1 -A-TTTTAAATTA
57241248 TCAATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.14
10 5 0.17
11 11 0.38
12 4 0.14
13 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:57241226 original size:21 final size:22
Alignment explanation
Indices: 57241202--57241248 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
57241192 TTATTGGCTC
57241202 TTATTTTAAATTA-A-TTTTAAA
1 TTATTTT-AATTACATTTTTAAA
57241223 TTATTTTAATTACATTTTTAAA
1 TTATTTTAATTACATTTTTAAA
57241245 TTAT
1 TTAT
57241249 CAATATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATTTTAATTACATTTTTAAA
Found at i:57241710 original size:4 final size:4
Alignment explanation
Indices: 57241703--57241729 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
57241693 AAATATATAT
57241703 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
57241730 TACAGAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:57249424 original size:28 final size:28
Alignment explanation
Indices: 57249359--57249427 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
57249349 TTTTGGTAAA
57249359 TTCAAAATTTAATTCTTATACTTTGATT
1 TTCAAAATTTAATTCTTATACTTTGATT
* * *
57249387 TTTAAGAATTTAA-TCTCTA-CCTTTTATAT
1 TTCAA-AATTTAATTCT-TATACTTTGAT-T
57249416 TTCAAAATTTAA
1 TTCAAAATTTAA
57249428 GTTCAAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.51
Consensus pattern (28 bp):
TTCAAAATTTAATTCTTATACTTTGATT
Found at i:57253064 original size:24 final size:24
Alignment explanation
Indices: 57253032--57253079 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
57253022 CCGCATTTAA
57253032 ATCCATGAGAATTCTGACTAGCAT
1 ATCCATGAGAATTCTGACTAGCAT
57253056 ATCCATGAGAATTCTGACTAGCAT
1 ATCCATGAGAATTCTGACTAGCAT
57253080 GGAAATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (24 bp):
ATCCATGAGAATTCTGACTAGCAT
Found at i:57266278 original size:22 final size:20
Alignment explanation
Indices: 57266239--57266292 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
57266229 ATTAGTTATT
*
57266239 ATAAAAAAATTATTAGCATG
1 ATAAAAAAATTATAAGCATG
*
57266259 ATAAAAATAATTTATAAGCAAG
1 ATAAAAA-AA-TTATAAGCATG
57266281 -TAATAAAAATTA
1 ATAA-AAAAATTA
57266293 AAATCAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 10 0.34
21 7 0.24
22 12 0.41
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAAAAAAATTATAAGCATG
Found at i:57267751 original size:31 final size:30
Alignment explanation
Indices: 57267687--57267752 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
57267677 ATTTTTTTAG
* *
57267687 TCAAATTAGATACCTGAACTTGACTTTTGGT
1 TCAAATTAGATA-CTGAACTTGACTTATAGT
57267718 TCAAATTAGTATA-TGAACTTGACTTCATAGT
1 TCAAATTAG-ATACTGAACTTGACTT-ATAGT
57267749 TCAA
1 TCAA
57267753 TTAAGTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 12 0.39
31 16 0.52
32 3 0.10
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (30 bp):
TCAAATTAGATACTGAACTTGACTTATAGT
Found at i:57276774 original size:12 final size:12
Alignment explanation
Indices: 57276753--57276789 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
57276743 CTTAGGAAAA
57276753 CTGA-ATACCTT
1 CTGAGATACCTT
57276764 CTGAGATACCTT
1 CTGAGATACCTT
57276776 CTGAGATACCTT
1 CTGAGATACCTT
57276788 CT
1 CT
57276790 TAGGTTTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (12 bp):
CTGAGATACCTT
Found at i:57282613 original size:31 final size:31
Alignment explanation
Indices: 57282560--57282618 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
57282550 ATGATTATTC
**
57282560 AACTATTTGAAAGCTTTCATTTAAGTCACTA
1 AACTATTCAAAAGCTTTCATTTAAGTCACTA
* *
57282591 AACTATTCAAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAGCTTTCATTTAAGTCA
57282619 TTAGATTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGCTTTCATTTAAGTCACTA
Found at i:57288276 original size:31 final size:32
Alignment explanation
Indices: 57288235--57288301 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
57288225 ATTTGTTTGG
*
57288235 AAATGCAT-AAAT-TAATTTATCTATTTTAATAA
1 AAATGCATAAAATATAATTT-T-TATTCTAATAA
*
57288267 AAATG-ATAAAATATAATTTTTCTTCTAATAA
1 AAATGCATAAAATATAATTTTTATTCTAATAA
57288298 AAAT
1 AAAT
57288302 TTTTTATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 15 0.48
32 10 0.32
33 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (32 bp):
AAATGCATAAAATATAATTTTTATTCTAATAA
Found at i:57301810 original size:86 final size:85
Alignment explanation
Indices: 57301703--57301873 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 85
57301693 AATCCATGCA
57301703 ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
1 ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
57301768 TAGCTAGATCAAGGAAAAGT
66 TAGCTAGATCAAGGAAAAGT
57301788 ACCTGCGAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCA
1 ACCTGC-AAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCA
57301853 GTAGCTAGATCAAGGAAAAGT
65 GTAGCTAGATCAAGGAAAAGT
57301874 GAAGTAAAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 6 0.07
86 79 0.93
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (85 bp):
ACCTGCAAACGATTACACCAAACAAAATCTATTAAAATACGTAATTAAAACAGGAGAAACATCAG
TAGCTAGATCAAGGAAAAGT
Found at i:57303452 original size:17 final size:17
Alignment explanation
Indices: 57303430--57303463 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57303420 GTTTTAGCAT
*
57303430 ATTTTTTGTATTTTTAA
1 ATTTTTTATATTTTTAA
*
57303447 ATTTTTTATGTTTTTAA
1 ATTTTTTATATTTTTAA
57303464 TTATTATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTTTTTATATTTTTAA
Found at i:57305107 original size:15 final size:15
Alignment explanation
Indices: 57305087--57305116 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57305077 TGCTTGGTTG
*
57305087 AGAAAGAAAGTAAGA
1 AGAAAGAAAATAAGA
57305102 AGAAAGAAAATAAGA
1 AGAAAGAAAATAAGA
57305117 GAGATTATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
AGAAAGAAAATAAGA
Found at i:57311986 original size:6 final size:6
Alignment explanation
Indices: 57311975--57312021 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
57311965 TAAAAGCTAA
57311975 ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGC
1 ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGCC ATCGC
57312022 ATACGTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.49, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCGCC
Found at i:57312723 original size:28 final size:28
Alignment explanation
Indices: 57312665--57312736 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
57312655 TTATATTAAT
* *
57312665 AATTTA-TA-AAAATTAGATCAAATTAG
1 AATTTATTATAAAATTAGATCAAAATAA
*
57312691 AATTTCATTATAAAATTATA-CAAAATAA
1 AATTT-ATTATAAAATTAGATCAAAATAA
*
57312719 AATTTATATATATAATTA
1 AATTTAT-TATAAAATTA
57312737 CGCATTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 5 0.13
27 3 0.08
28 22 0.58
29 8 0.21
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (28 bp):
AATTTATTATAAAATTAGATCAAAATAA
Found at i:57315479 original size:25 final size:25
Alignment explanation
Indices: 57315445--57315494 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57315435 CATATTCCAC
57315445 CACCTACTTAAAAATAACAAATTAA
1 CACCTACTTAAAAATAACAAATTAA
57315470 CACCTACTTAAAAATAACAAATTAA
1 CACCTACTTAAAAATAACAAATTAA
57315495 TCTTGTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (25 bp):
CACCTACTTAAAAATAACAAATTAA
Found at i:57325549 original size:20 final size:20
Alignment explanation
Indices: 57325526--57325676 Score: 71
Period size: 20 Copynumber: 7.5 Consensus size: 20
57325516 TATGTACATA
*
57325526 TATATATATATTATACTTTC
1 TATATATATATTATAATTTC
* *
57325546 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
*
57325566 TCTATATATA-TATAA--TC
1 TATATATATATTATAATTTC
* * * *
57325583 -AT-TATCT-TTATGATCTA
1 TATATATATATTATAATTTC
* * *
57325600 TATATTTATTACCTTATATATATG
1 TATATATA-TA--TTATA-ATTTC
*
57325624 TACGTATATATATTATACTTTC
1 TA--TATATATATTATAATTTC
* * *
57325646 TTTACATATTTTATAATTTC
1 TATATATATATTATAATTTC
57325666 TATATATATAT
1 TATATATATAT
57325677 GTAATCATTA
Statistics
Matches: 93, Mismatches: 26, Indels: 24
0.65 0.18 0.17
Matches are distributed among these distances:
15 8 0.09
16 1 0.01
17 3 0.03
18 2 0.02
19 7 0.08
20 48 0.52
22 3 0.03
23 9 0.10
24 5 0.05
25 2 0.02
26 5 0.05
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:57325676 original size:104 final size:100
Alignment explanation
Indices: 57325466--57325776 Score: 496
Period size: 100 Copynumber: 3.1 Consensus size: 100
57325456 TTTTTAAGTT
* * * *
57325466 TATATATGTAATTATTATTTTTATGATTTATATATTTATTACCTTATATATATGTACATATATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTAC----GTAT
*
57325531 ATATATTATACTTTCTATACATATTTTATAATTTCTCTA
62 ATATATTATACTTTCTATACATATTTTATAATTTCTATA
*
57325570 TATATATATAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACGTATATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACGTATATAT
*
57325635 ATTATACTTTCTTTACATATTTTATAATTTCTATA
66 ATTATACTTTCTATACATATTTTATAATTTCTATA
*
57325670 TATATATGTAATCATTATCTTTATGATCTATATATTTATTAACTTATATATATGTACGTATATAT
1 TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACGTATATAT
*
57325735 ATTATACTTTCTATCCATATTTTATAATTTCTATA
66 ATTATACTTTCTATACATATTTTATAATTTCTATA
*
57325770 TGTATAT
1 TATATAT
57325777 TTTTCTTTAT
Statistics
Matches: 195, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
100 142 0.73
104 53 0.27
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (100 bp):
TATATATGTAATCATTATCTTTATGATCTATATATTTATTACCTTATATATATGTACGTATATAT
ATTATACTTTCTATACATATTTTATAATTTCTATA
Found at i:57325759 original size:20 final size:20
Alignment explanation
Indices: 57325731--57325768 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57325721 ATGTACGTAT
*
57325731 ATATATTATACTTTCTATCC
1 ATATATTATAATTTCTATCC
*
57325751 ATATTTTATAATTTCTAT
1 ATATATTATAATTTCTAT
57325769 ATGTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATAATTTCTATCC
Found at i:57325770 original size:50 final size:50
Alignment explanation
Indices: 57325528--57325775 Score: 222
Period size: 50 Copynumber: 5.0 Consensus size: 50
57325518 TGTACATATA
* *
57325528 TATATATATTATACTTTCTATACATATTTTATAATTTCTCTATATATA--
1 TATATATATTATACTTTCTATCCATATTTTATAATTTCTATATATATACG
* * ** * *
57325576 TATA-ATCATTAT-CTTTATGATCTATATATTTATTACCTTATATATATGTACG
1 TATATAT-ATTATACTTTCT-ATCCATAT-TTTA-TAATTTCTATATATATACG
* * *
57325628 TATATATATTATACTTTCTTTACATATTTTATAATTTCTATATATATATG
1 TATATATATTATACTTTCTATCCATATTTTATAATTTCTATATATATACG
* * * * * *
57325678 TA-AT-CATTAT-CTTTATGATCTATATATTTATTAACTTATATATATGTACG
1 TATATATATTATACTTTCT-ATCCATAT-TTTA-TAATTTCTATATATATACG
*
57325728 TATATATATTATACTTTCTATCCATATTTTATAATTTCTATATGTATA
1 TATATATATTATACTTTCTATCCATATTTTATAATTTCTATATATATA
57325776 TTTTTCTTTA
Statistics
Matches: 153, Mismatches: 33, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
47 12 0.08
48 25 0.16
49 10 0.07
50 58 0.38
51 10 0.07
52 26 0.17
53 12 0.08
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (50 bp):
TATATATATTATACTTTCTATCCATATTTTATAATTTCTATATATATACG
Found at i:57325827 original size:19 final size:19
Alignment explanation
Indices: 57325803--57325842 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
57325793 GAATGTATTA
57325803 TATATATAAA-TATATTTTT
1 TATATA-AAATTATATTTTT
57325822 TATATAAAATTTATATTTTT
1 TATATAAAA-TTATATTTTT
57325842 T
1 T
57325843 TCCATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 6 0.32
20 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATAAAATTATATTTTT
Found at i:57335427 original size:31 final size:31
Alignment explanation
Indices: 57335362--57335427 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
57335352 TGAAAACAAC
* *
57335362 AATTCTACTTTTTTTAAAAAGTTGATGGTTA
1 AATTCGACTTTTTTTAAAAAGTTGATGGTCA
57335393 AATTCGACTATTTTTT-AAAAGTTGA-GGATCA
1 AATTCGACT-TTTTTTAAAAAGTTGATGG-TCA
57335424 AATT
1 AATT
57335428 TAGCTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 23 0.74
32 6 0.19
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (31 bp):
AATTCGACTTTTTTTAAAAAGTTGATGGTCA
Found at i:57336712 original size:25 final size:25
Alignment explanation
Indices: 57336665--57336712 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
57336655 TAACTGGAAC
*
57336665 AAAAATTCAAGTATCAAATTGAAAA
1 AAAAATTCAAGTATCAAAGTGAAAA
*
57336690 AAAAATTC-AGATATTAAAGTGAA
1 AAAAATTCAAG-TATCAAAGTGAA
57336713 CATTAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (25 bp):
AAAAATTCAAGTATCAAAGTGAAAA
Found at i:57342719 original size:55 final size:55
Alignment explanation
Indices: 57342645--57342755 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
57342635 AAAATCCAAT
57342645 TATGAACCCAGTTTTCCAAGCCTATTCCTAGTGCAGGTGGAGAGCTCCAAAGGGA
1 TATGAACCCAGTTTTCCAAGCCTATTCCTAGTGCAGGTGGAGAGCTCCAAAGGGA
57342700 TATGAACCCAGTTTTCCAAGCCTATTCCTAGTGCAGGTGGAGAGCTCCAAAGGGA
1 TATGAACCCAGTTTTCCAAGCCTATTCCTAGTGCAGGTGGAGAGCTCCAAAGGGA
57342755 T
1 T
57342756 CGCATTGATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (55 bp):
TATGAACCCAGTTTTCCAAGCCTATTCCTAGTGCAGGTGGAGAGCTCCAAAGGGA
Found at i:57349778 original size:20 final size:20
Alignment explanation
Indices: 57349750--57349788 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57349740 AATGGATTGA
57349750 TTTTAAAAAATTTATTTTAT
1 TTTTAAAAAATTTATTTTAT
*
57349770 TTTTTAAAAATTTATTTTA
1 TTTTAAAAAATTTATTTTA
57349789 AATGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTAAAAAATTTATTTTAT
Found at i:57353757 original size:34 final size:35
Alignment explanation
Indices: 57353699--57353765 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
57353689 CAAACACCAG
* * *
57353699 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
57353734 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
57353766 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:57355576 original size:18 final size:18
Alignment explanation
Indices: 57355555--57355589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57355545 TAAAACATTA
57355555 TAAAATAAAAAAATTAAT
1 TAAAATAAAAAAATTAAT
* *
57355573 TAAAATGATAAAATTAA
1 TAAAATAAAAAAATTAA
57355590 AGTTTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAATAAAAAAATTAAT
Found at i:57357794 original size:12 final size:12
Alignment explanation
Indices: 57357777--57357803 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57357767 ATAATATAAC
57357777 AGTCCGTTTTTT
1 AGTCCGTTTTTT
57357789 AGTCCGTTTTTT
1 AGTCCGTTTTTT
57357801 AGT
1 AGT
57357804 GGTGTCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.56
Consensus pattern (12 bp):
AGTCCGTTTTTT
Found at i:57358791 original size:7 final size:7
Alignment explanation
Indices: 57358779--57358806 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
57358769 CTCCATAATC
57358779 GTGGGAA
1 GTGGGAA
57358786 GTGGGAA
1 GTGGGAA
57358793 GTGGGAA
1 GTGGGAA
57358800 GTGGGAA
1 GTGGGAA
57358807 CTACAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (7 bp):
GTGGGAA
Found at i:57359612 original size:11 final size:11
Alignment explanation
Indices: 57359596--57359620 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57359586 AATATTTATG
57359596 ATAAAAAAGTT
1 ATAAAAAAGTT
57359607 ATAAAAAAGTT
1 ATAAAAAAGTT
57359618 ATA
1 ATA
57359621 TGACAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (11 bp):
ATAAAAAAGTT
Found at i:57362050 original size:12 final size:12
Alignment explanation
Indices: 57362035--57362062 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57362025 AATTGAGCCG
57362035 TAAATATTTTTA
1 TAAATATTTTTA
57362047 TAAATATTTTTA
1 TAAATATTTTTA
57362059 TAAA
1 TAAA
57362063 CGTCCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:57366228 original size:23 final size:23
Alignment explanation
Indices: 57366202--57366247 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
57366192 AATTCATTGC
57366202 TTCTTAATTGAATTTGATTCTAA
1 TTCTTAATTGAATTTGATTCTAA
57366225 TTCTTAATTGAATTTGATTCTAA
1 TTCTTAATTGAATTTGATTCTAA
57366248 CTTTGTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (23 bp):
TTCTTAATTGAATTTGATTCTAA
Found at i:57377752 original size:29 final size:30
Alignment explanation
Indices: 57377704--57377760 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
57377694 AAATTGAAAC
57377704 AAATCAAAATTTCATATATAAAAATACACA
1 AAATCAAAATTTCATATATAAAAATACACA
* * *
57377734 AAATCAAAGTTT-ATGTATAAAATTACA
1 AAATCAAAATTTCATATATAAAAATACA
57377761 TATTTGACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (30 bp):
AAATCAAAATTTCATATATAAAAATACACA
Found at i:57378976 original size:30 final size:29
Alignment explanation
Indices: 57378949--57379009 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
57378939 AAAGGCCGGT
57378949 TTTTTTCAAAT-TTTACCGAAATGGGCCGA
1 TTTTTT-AAATATTTACCGAAATGGGCCGA
* *
57378978 TTTTTTAATTATTTACCGGAATGGGCC-A
1 TTTTTTAAATATTTACCGAAATGGGCCGA
57379006 TTTT
1 TTTT
57379010 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (29 bp):
TTTTTTAAATATTTACCGAAATGGGCCGA
Found at i:57381530 original size:26 final size:26
Alignment explanation
Indices: 57381501--57381553 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
57381491 ATTAACACTC
* *
57381501 ATCAAATTTACCCTATAACTCGAATT
1 ATCAAATCTACCCTATAACTCAAATT
*
57381527 ATCAAATCTACCCTATAGCTCAAATT
1 ATCAAATCTACCCTATAACTCAAATT
57381553 A
1 A
57381554 AATCATGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (26 bp):
ATCAAATCTACCCTATAACTCAAATT
Found at i:57382772 original size:24 final size:22
Alignment explanation
Indices: 57382745--57382788 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
57382735 TAATTTTGTT
*
57382745 AAAAGTAATTATATGTTTTTTTGG
1 AAAAATAATT-TAT-TTTTTTTGG
57382769 AAAAATAATTTATTTTTTTT
1 AAAAATAATTTATTTTTTTT
57382789 ATGTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
AAAAATAATTTATTTTTTTTGG
Found at i:57382944 original size:21 final size:22
Alignment explanation
Indices: 57382918--57382959 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57382908 CTTGAGGGTC
* *
57382918 AAAGTGATA-AAAATTAAAATT
1 AAAGTGACAGAAAATAAAAATT
57382939 AAAGTGACAGAAAATAAAAAT
1 AAAGTGACAGAAAATAAAAAT
57382960 AAACATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (22 bp):
AAAGTGACAGAAAATAAAAATT
Found at i:57382962 original size:21 final size:21
Alignment explanation
Indices: 57382918--57382962 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57382908 CTTGAGGGTC
* *
57382918 AAAGTGATAAAAATTAAAATT
1 AAAGTGACAAAAATTAAAAAT
57382939 AAAGTGACAGAAAA-TAAAAAT
1 AAAGTGACA-AAAATTAAAAAT
57382960 AAA
1 AAA
57382963 CATTAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAGTGACAAAAATTAAAAAT
Found at i:57383418 original size:33 final size:35
Alignment explanation
Indices: 57383355--57383427 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 35
57383345 ATCATGTTTT
*
57383355 ATATTAAAAATATTTTCTTGTAATATTTATT-AA-
1 ATATTAAAAATATTTTATTGTAATATTTATTGAAC
* *
57383388 ATATTAAAAGTATTTGTATTTTAATA-TTATTGAAC
1 ATATTAAAAATATTT-TATTGTAATATTTATTGAAC
57383423 ATATT
1 ATATT
57383428 GGATTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 19 0.56
34 10 0.29
35 5 0.15
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (35 bp):
ATATTAAAAATATTTTATTGTAATATTTATTGAAC
Found at i:57392122 original size:12 final size:12
Alignment explanation
Indices: 57392102--57392224 Score: 149
Period size: 12 Copynumber: 10.2 Consensus size: 12
57392092 AGGACCTGCT
57392102 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
57392114 AAGGAAGAAAA-
1 AAAGAAGAAAAG
57392125 AAAGGAAGAAAAG
1 AAA-GAAGAAAAG
*
57392138 AAAGAGGAAAAG
1 AAAGAAGAAAAG
* *
57392150 AAAGAGGAGAAG
1 AAAGAAGAAAAG
*
57392162 AAAGAAGAGAAG
1 AAAGAAGAAAAG
* *
57392174 AAGGAAGAGAAG
1 AAAGAAGAAAAG
*
57392186 AAAGAGGAAAAG
1 AAAGAAGAAAAG
57392198 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
57392210 AAGGAAGAAAAG
1 AAAGAAGAAAAG
57392222 AAA
1 AAA
57392225 TAAATTAAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
11 2 0.02
12 92 0.95
13 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:57392899 original size:14 final size:14
Alignment explanation
Indices: 57392882--57392908 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57392872 TAAAATTTCT
57392882 TATTGAAAAGAAAC
1 TATTGAAAAGAAAC
57392896 TATTGAAAAGAAA
1 TATTGAAAAGAAA
57392909 GGAAAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (14 bp):
TATTGAAAAGAAAC
Found at i:57393400 original size:29 final size:28
Alignment explanation
Indices: 57393367--57393428 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
57393357 TATACTTTAT
57393367 TTAAACAAA-TCATTATATTATTTTTATAA
1 TTAAACAAATTC-TTA-ATTATTTTTATAA
* *
57393396 TTAAATAAATTCTTAATTATTTTTGTAA
1 TTAAACAAATTCTTAATTATTTTTATAA
57393424 TTAAA
1 TTAAA
57393429 TAAACCCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 17 0.57
29 11 0.37
30 2 0.07
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAAACAAATTCTTAATTATTTTTATAA
Found at i:57393440 original size:28 final size:28
Alignment explanation
Indices: 57393383--57393441 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
57393373 AAATCATTAT
** *
57393383 ATTATTTTTATAATTAAATAAATTCTTA
1 ATTATTTTTATAATTAAATAAACCCCTA
*
57393411 ATTATTTTTGTAATTAAATAAACCCCTA
1 ATTATTTTTATAATTAAATAAACCCCTA
57393439 ATT
1 ATT
57393442 TATTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTATTTTTATAATTAAATAAACCCCTA
Found at i:57397825 original size:49 final size:49
Alignment explanation
Indices: 57397753--57397851 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
57397743 TAATGAGTCA
57397753 TTGACTTAGAGTGAATTTGAATAGGCGGTGTGTTTACCTGTAGTTAGTG
1 TTGACTTAGAGTGAATTTGAATAGGCGGTGTGTTTACCTGTAGTTAGTG
*
57397802 TTGACTTAGAGTGAATTTGAATAGGCGGTGTGTTTACCTGTGGTTAGTG
1 TTGACTTAGAGTGAATTTGAATAGGCGGTGTGTTTACCTGTAGTTAGTG
57397851 T
1 T
57397852 AAAAACAGCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.39
Consensus pattern (49 bp):
TTGACTTAGAGTGAATTTGAATAGGCGGTGTGTTTACCTGTAGTTAGTG
Found at i:57405785 original size:156 final size:154
Alignment explanation
Indices: 57405333--57405799 Score: 630
Period size: 156 Copynumber: 3.0 Consensus size: 154
57405323 TCAAGACTAT
* *
57405333 GTCACAATTCAATGATCTTGCTTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAAATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAG-AAATGCTG
* * * * *
57405398 GACCTGAGGCCATGTCTTCCAATCCAAAGGCTGAGTTACCGAATGTTTCATCTGGTCGTTCAGTT
65 GACCTGCGGCCATGTCTT-CAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
* *
57405463 GAAGCATGTGAATCCGCTGGTCTACA
129 GAAGCATGTGCATCCACTGGTCTACA
* ** *
57405489 GTCACAAGTCAATGGTCCAGATTTTTTCTTGAATCCCCAGAAAAGTAGTGCTAGAGAAGATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAA-ATGCTG
* * * * *
57405554 CACCTGCGGCCAGGTCTTTTAACCGAAAGGCTGAATCACCCAATGGTTT-ATCTGGTCATTCAGT
65 GACCTGCGGCCATGTC-TTCAACCCAAAGGCTGAATTACCCAAT-GTTTCATCTGGTCATTCAGT
* * *
57405618 TGAAGCATGTGCTTACACTGGTCTACC
128 TGAAGCATGTGCATCCACTGGTCTACA
* *
57405645 GTTACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCACTAGAGATAATGCTG
1 GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGA-AATGCTG
*
57405710 GACCTGCGGCCATGTCATTCAACCCAAGGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
65 GACCTGCGGCCATGTC-TTCAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTT
* *
57405775 GAAGCATGTGCGTCCACGGGTCTAC
129 GAAGCATGTGCATCCACTGGTCTAC
57405800 TATTGCAGCA
Statistics
Matches: 269, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
155 6 0.02
156 256 0.95
157 7 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (154 bp):
GTCACAAGTCAATGATCTTGATTTTTTCTTGAATCCCCAGAAAAGTAGCGCTAGAGAAATGCTGG
ACCTGCGGCCATGTCTTCAACCCAAAGGCTGAATTACCCAATGTTTCATCTGGTCATTCAGTTGA
AGCATGTGCATCCACTGGTCTACA
Found at i:57427273 original size:4 final size:4
Alignment explanation
Indices: 57427264--57427329 Score: 132
Period size: 4 Copynumber: 16.5 Consensus size: 4
57427254 TCATTAGTTC
57427264 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
57427312 CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CA
57427330 GTGTTGTTGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:57428835 original size:31 final size:32
Alignment explanation
Indices: 57428776--57428837 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
57428766 TTAATAACCA
57428776 AATGACTTAAATAAAAAACTATTAAATAGTTC
1 AATGACTTAAATAAAAAACTATTAAATAGTTC
* * * *
57428808 AATGATTTAAAT-GAAAACTTTTGAATAGTT
1 AATGACTTAAATAAAAAACTATTAAATAGTT
57428838 TAATAATCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (32 bp):
AATGACTTAAATAAAAAACTATTAAATAGTTC
Found at i:57452728 original size:122 final size:124
Alignment explanation
Indices: 57452533--57452759 Score: 316
Period size: 122 Copynumber: 1.8 Consensus size: 124
57452523 TTAGTTTTTC
* * * *
57452533 TCTTTAAGCTTCTTTGTGTTTTTTTGAGTTTGATAGTTTATTAAAATTTGGTGTATAATGTCAAA
1 TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGTCAAA
* *
57452598 AGGCAATCAACTAGCATAGTTTTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
66 AGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
* *
57452657 TCTTTAAGCTTCTTTGTG-CTTCTT-AGTTTGGTAGTTTATT-AAACTTGCTTTATAATGTCAGA
1 TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGTCA-A
* * * *
57452719 ACGGTAATCAACCAGCGTAGTTCTAGAGTAATTTGCATTGT
65 AAGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGT
57452760 AAGTGGCTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 17 0.19
122 51 0.57
123 4 0.04
124 18 0.20
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (124 bp):
TCTTTAAGCTTCTTTGTGTCTTCTTGAGTTTGATAGTTTATTAAAACTTGCTGTATAATGTCAAA
AGGCAATCAACCAGCATAGTTCTAGAGTAAATTGCATTGTTTGTTAAAAATTTTCATAT
Found at i:57455074 original size:25 final size:25
Alignment explanation
Indices: 57455046--57455095 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
57455036 TTGATTTAAG
*
57455046 TTAATTTTTATATAAAAGTAAAATT
1 TTAATTTTTAAATAAAAGTAAAATT
57455071 TTAATTTTTAAATAAAAGTAAAATT
1 TTAATTTTTAAATAAAAGTAAAATT
57455096 ATCTATTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAATTTTTAAATAAAAGTAAAATT
Found at i:57463648 original size:33 final size:35
Alignment explanation
Indices: 57463610--57463707 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
57463600 ATGGTTATAT
57463610 TTAAATATTTAAAATATAATTCATATATT-C-TAA
1 TTAAATATTTAAAATATAATTCATATATTACTTAA
* *
57463643 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATTCATA--TATTACTTAA
*
57463678 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAA--TATAATTCATATATTA
57463708 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 9 0.17
32 6 0.12
33 14 0.27
34 7 0.13
35 8 0.15
37 8 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTCATATATTACTTAA
Found at i:57463697 original size:30 final size:30
Alignment explanation
Indices: 57463658--57463714 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
57463648 TTTTATAAAT
57463658 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
57463688 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
57463715 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:57463868 original size:13 final size:13
Alignment explanation
Indices: 57463852--57463878 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57463842 TTTAAACCAA
57463852 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
57463865 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
57463878 A
1 A
57463879 TTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:57470045 original size:17 final size:16
Alignment explanation
Indices: 57470003--57470045 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
57469993 TTAAATTAAA
*
57470003 AAAATTTAAAAAAATT
1 AAAATTTAAAAAAAAT
*
57470019 AAATTATTAAAAAAACAT
1 AAAAT-TTAAAAAAA-AT
57470037 AAAATTTAA
1 AAAATTTAA
57470046 TTGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTTAAAAAAAAT
Found at i:57470483 original size:29 final size:28
Alignment explanation
Indices: 57470414--57470483 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
57470404 AAGCTGTAAG
*
57470414 TAAAAAA-AATAATTATTTTATAATTTT
1 TAAAAAAGGATAATTATTTTATAATTTT
* ** *
57470441 TATAATTGGATAATTATTTATCTAATTTT
1 TAAAAAAGGATAATTATTT-TATAATTTT
*
57470470 TAAAAAAGGTTAAT
1 TAAAAAAGGATAAT
57470484 GAGTAAAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
27 4 0.12
28 10 0.31
29 18 0.56
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (28 bp):
TAAAAAAGGATAATTATTTTATAATTTT
Found at i:57481913 original size:22 final size:22
Alignment explanation
Indices: 57481885--57481939 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
57481875 TTGCCCATCG
57481885 ACCTTTAAAAATGTGACCTTCA
1 ACCTTTAAAAATGTGACCTTCA
*
57481907 ACCTTTAAAAATGTGACCTTTA
1 ACCTTTAAAAATGTGACCTTCA
57481929 ACCTTTAAAAA
1 ACCTTTAAAAA
57481940 ATATGCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (22 bp):
ACCTTTAAAAATGTGACCTTCA
Found at i:57490775 original size:16 final size:17
Alignment explanation
Indices: 57490751--57490792 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
57490741 TTCATATATA
* *
57490751 TATAGACAATCCT-CTT
1 TATAAACAATCATCCTT
57490767 TATAAACAATCATCCTT
1 TATAAACAATCATCCTT
57490784 TAT-AACAAT
1 TATAAACAAT
57490793 ATTTCATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.36
Consensus pattern (17 bp):
TATAAACAATCATCCTT
Found at i:57496021 original size:41 final size:41
Alignment explanation
Indices: 57495959--57496100 Score: 151
Period size: 41 Copynumber: 3.4 Consensus size: 41
57495949 CTTTGAATGT
*
57495959 AAGGGGTTGCTAAGTGTAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
* * *
57496000 AAGGGGTTGCTAAGTGCAGATTCCCC-AGATTATTGATTATA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA-ATCATTGATCAAA
* * * ***
57496041 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAA
57496085 AAGGGGTTGCTAAGTG
1 AAGGGGTTGCTAAGTG
57496101 TTGACTCCAC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 39 0.46
42 19 0.22
43 20 0.24
44 6 0.07
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
Found at i:57496138 original size:44 final size:44
Alignment explanation
Indices: 57496042--57496244 Score: 286
Period size: 44 Copynumber: 4.6 Consensus size: 44
57496032 TTGATTATAA
* ***
57496042 AGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGATTGTG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
* * *
57496084 AAAGG-GGTTGCTAAGTGTTGACTCCACCGAGATCCTTTGAACATG
1 --AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
*
57496129 AGGTGGTTGCTAAGTGCTGATTCCATCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
*
57496173 AGGTGGTTGCTAAATGCTGATTCCACCGGGATCCTTTGAACATG
1 AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
57496217 AGGTGGTTGCTAAGTGCTGATTCCACCG
1 AGGTGGTTGCTAAGTGCTGATTCCACCG
57496245 TGTAACGATT
Statistics
Matches: 142, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
43 24 0.17
44 112 0.79
45 6 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (44 bp):
AGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATG
Found at i:57502545 original size:56 final size:57
Alignment explanation
Indices: 57502455--57502574 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 57
57502445 ATATACAAAT
*
57502455 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGATTAA
1 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
* * *
57502512 TTATA-AAAATTATAATAGTTTTAGCTCAGTTTTTATCTAATCGCCTATTTGACTAA
1 TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
57502568 TTA-ACAA
1 TTATACAA
57502575 TTGTAGTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 1 0.02
56 52 0.90
57 5 0.09
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (57 bp):
TTATACAAAATTATAATAGCTTTAGCTCAATTTTTATCTAATCCCCTATTTGACTAA
Found at i:57508820 original size:23 final size:24
Alignment explanation
Indices: 57508793--57508860 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 24
57508783 AATGGATATT
* * *
57508793 AAAAATAAATTTCTAATTTTTATC
1 AAAAATAAATTCCTAATTTTCACC
57508817 AAAAATAAATTCCTAATTTTCACC
1 AAAAATAAATTCCTAATTTTCACC
57508841 AAAATAAATAAATTCCTAAT
1 --AA-AAATAAATTCCTAAT
57508861 GACTTATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.55
26 2 0.05
27 15 0.39
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAAATAAATTCCTAATTTTCACC
Found at i:57510881 original size:21 final size:20
Alignment explanation
Indices: 57510843--57510884 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
57510833 TTATTTTTAT
57510843 ATTATAAAAAATTAAAAATA
1 ATTATAAAAAATTAAAAATA
57510863 ATTATAAATTAAA-TAAAAATA
1 ATTATAAA--AAATTAAAAATA
57510884 A
1 A
57510885 AACCCGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 9 0.45
22 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTATAAAAAATTAAAAATA
Found at i:57511920 original size:16 final size:17
Alignment explanation
Indices: 57511881--57511921 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
57511871 ATAATAAAAA
57511881 TATAATTTTATTATTTT
1 TATAATTTTATTATTTT
*
57511898 AAT-ATTTTA-TATTTT
1 TATAATTTTATTATTTT
57511913 TATAATTTT
1 TATAATTTT
57511922 TAAATGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:57513413 original size:31 final size:32
Alignment explanation
Indices: 57513364--57513423 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
57513354 AGTTATAACG
*
57513364 TTTTAGGTAATTTCTATTTTAG-TCACTCATA
1 TTTTAGATAATTTCTATTTTAGATCACTCATA
* * *
57513395 TTTTAGATTATTTTTATTTTTGATCACTC
1 TTTTAGATAATTTCTATTTTAGATCACTC
57513424 TCTATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (32 bp):
TTTTAGATAATTTCTATTTTAGATCACTCATA
Found at i:57513633 original size:20 final size:20
Alignment explanation
Indices: 57513571--57513631 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
57513561 AAATTGATCC
57513571 TTAAACACATATAATTAAA-
1 TTAAACACATATAATTAAAT
* * *
57513590 -TATA-A-TTATAATTATAT
1 TTAAACACATATAATTAAAT
57513607 TTAAACACATATAATTAAAT
1 TTAAACACATATAATTAAAT
57513627 CTTAA
1 -TTAA
57513632 CAAACTTGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 9 0.29
17 1 0.03
18 6 0.19
19 1 0.03
20 10 0.32
21 4 0.13
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAACACATATAATTAAAT
Found at i:57513784 original size:31 final size:29
Alignment explanation
Indices: 57513746--57513815 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
57513736 ATCCCAAAAT
*
57513746 TATACATGAACTATGGTTTAATATGCAATTG
1 TATACATGAACTATGATTT--TATGCAATTG
* *
57513777 TATACATGAACTTTGATTTTATGCAATTT
1 TATACATGAACTATGATTTTATGCAATTG
57513806 TATACATGAA
1 TATACATGAA
57513816 AATTTGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 19 0.53
31 17 0.47
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTATGCAATTG
Found at i:57513834 original size:29 final size:29
Alignment explanation
Indices: 57513768--57513828 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
57513758 ATGGTTTAAT
* * *
57513768 ATGCAATTGTATACATGAACTTTGATTTT
1 ATGCAATTTTATACATGAAATTTGATTTG
57513797 ATGCAATTTTATACATGAAAATTTGATTTG
1 ATGCAATTTTATACATG-AAATTTGATTTG
57513827 AT
1 AT
57513829 CCATTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.44
Consensus pattern (29 bp):
ATGCAATTTTATACATGAAATTTGATTTG
Found at i:57513983 original size:33 final size:31
Alignment explanation
Indices: 57513946--57514013 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
57513936 TATTTATTTC
* *
57513946 TTTAAATATGTATGATTAAATCAAAATTAAAGT
1 TTTAAATATATAT--TTAAACCAAAATTAAAGT
* * *
57513979 TTTAAGTATATATTTAAACCACAATTAGAGT
1 TTTAAATATATATTTAAACCAAAATTAAAGT
57514010 TTTA
1 TTTA
57514014 CGTGTTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 19 0.63
33 11 0.37
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTAAATATATATTTAAACCAAAATTAAAGT
Found at i:57519921 original size:3 final size:3
Alignment explanation
Indices: 57519915--57519944 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57519905 TTGGTGTTCT
57519915 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
57519945 AGTATGGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:57521239 original size:23 final size:23
Alignment explanation
Indices: 57521194--57521240 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
57521184 CTTTAGGGTG
* *
57521194 AAAATTAATTATATCTTATTATT
1 AAAATTAATTATATCATAATATT
57521217 AAAATTAATTATAAT-ATAATATT
1 AAAATTAATTAT-ATCATAATATT
57521240 A
1 A
57521241 GTATATTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAATTAATTATATCATAATATT
Found at i:57526490 original size:16 final size:17
Alignment explanation
Indices: 57526469--57526512 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
57526459 TCTTATTCTC
57526469 CTGTTTTGTTTCTA-TT
1 CTGTTTTGTTTCTATTT
*
57526485 CTG-TTTCTTTCTATTT
1 CTGTTTTGTTTCTATTT
57526501 CT-TTTTGTTTCT
1 CTGTTTTGTTTCT
57526513 TTTATTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
CTGTTTTGTTTCTATTT
Found at i:57526507 original size:31 final size:34
Alignment explanation
Indices: 57526449--57526512 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 34
57526439 TTTTCCCTTT
57526449 TTCTTTTCTTTCTTATTCTCCTGTTTTGTTTCTA
1 TTCTTTTCTTTCTTATTCTCCTGTTTTGTTTCTA
57526483 TTCTGTTTCTTTC-TATT-T-CT-TTTTGTTTCT
1 TTCT-TTTCTTTCTTATTCTCCTGTTTTGTTTCT
57526513 TTTATTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 10 0.34
32 2 0.07
33 1 0.03
34 8 0.28
35 8 0.28
ACGTcount: A:0.05, C:0.19, G:0.06, T:0.70
Consensus pattern (34 bp):
TTCTTTTCTTTCTTATTCTCCTGTTTTGTTTCTA
Found at i:57526547 original size:7 final size:7
Alignment explanation
Indices: 57526535--57526600 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
57526525 ATTTACTTAT
57526535 TATAATA
1 TATAATA
57526542 TATAATA
1 TATAATA
57526549 TAATATATA
1 T-ATA-ATA
57526558 TACTTAATA
1 TA--TAATA
*
57526567 -ATTAAGA
1 TA-TAATA
57526574 TATAATA
1 TATAATA
57526581 TTATAATA
1 -TATAATA
57526589 TTATAATA
1 -TATAATA
57526597 TATA
1 TATA
57526601 TTTTAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:57526562 original size:30 final size:31
Alignment explanation
Indices: 57526522--57526600 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
57526512 TTTTATTTAG
*
57526522 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
57526552 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
57526579 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
57526601 TTTTAACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:57526587 original size:8 final size:8
Alignment explanation
Indices: 57526532--57526597 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
57526522 TATATTTACT
57526532 TATTATAA
1 TATTATAA
57526540 TA-TATAA
1 TATTATAA
*
57526547 TATAAT-A
1 TATTATAA
57526554 TATATACTTAA
1 TAT-TA--TAA
*
57526565 TAAT-TAA
1 TATTATAA
*
57526572 GA-TATAA
1 TATTATAA
57526579 TATTATAA
1 TATTATAA
57526587 TATTATAA
1 TATTATAA
57526595 TAT
1 TAT
57526598 ATATTTTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:57529322 original size:19 final size:20
Alignment explanation
Indices: 57529282--57529327 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
57529272 ATTAATTATT
*
57529282 TATAAAATTTAATTAGAATA
1 TATAAAATATAATTAGAATA
*
57529302 TATAAAATATATTTA-AATA
1 TATAAAATATAATTAGAATA
57529321 TA-AAAAT
1 TATAAAAT
57529328 TAAATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TATAAAATATAATTAGAATA
Found at i:57529660 original size:22 final size:21
Alignment explanation
Indices: 57529635--57529678 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
57529625 AAGCATATGA
*
57529635 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
57529657 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
57529678 A
1 A
57529679 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:57530625 original size:18 final size:20
Alignment explanation
Indices: 57530602--57530641 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
57530592 TACTTGTATT
*
57530602 TTCATTTTTAT-TTATT-TA
1 TTCATTATTATATTATTATA
57530620 TTCATTATTATATTATTATA
1 TTCATTATTATATTATTATA
57530640 TT
1 TT
57530642 ATACTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCATTATTATATTATTATA
Found at i:57530636 original size:3 final size:3
Alignment explanation
Indices: 57530617--57530681 Score: 64
Period size: 3 Copynumber: 21.7 Consensus size: 3
57530607 TTTTATTTAT
* *
57530617 TTA TTCA TTA TTA -TA TTA TTA -TA TTA -TA CTA TTA GTTC TGTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA
57530662 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
57530682 TACTCATTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
2 6 0.11
3 40 0.75
4 7 0.13
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:57533187 original size:39 final size:40
Alignment explanation
Indices: 57533107--57533282 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 40
57533097 ATTTGTCGGC
* * *
57533107 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
57533145 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
57533184 TTACTG-TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--C-A---GGCACTTTGTGTGTCGAATACTGTTACTG
*
57533229 TTACTG-TTACAGGTTCACCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATT-CAGG-----CACTTTGTGTGTCGAATACTGTTACTG
57533274 TTACTGATT
1 TTACTGATT
57533283 ACTGTATACT
Statistics
Matches: 118, Mismatches: 5, Indels: 22
0.81 0.03 0.15
Matches are distributed among these distances:
38 14 0.12
39 28 0.24
40 3 0.03
43 1 0.01
44 1 0.01
45 69 0.58
46 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:57533202 original size:45 final size:45
Alignment explanation
Indices: 57533134--57533284 Score: 230
Period size: 45 Copynumber: 3.3 Consensus size: 45
57533124 ATGTGCCGAC
*
57533134 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
57533179 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* ** *
57533224 TACTGTTACTGTTACAGGTTCACCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
57533269 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
57533285 TGTATACTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
45 93 0.96
46 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:57539580 original size:11 final size:11
Alignment explanation
Indices: 57539564--57539589 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57539554 TAGAAGAGAC
57539564 GAAACAGGGGA
1 GAAACAGGGGA
57539575 GAAACAGGGGA
1 GAAACAGGGGA
57539586 GAAA
1 GAAA
57539590 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:57540352 original size:39 final size:40
Alignment explanation
Indices: 57540309--57540396 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
57540299 CGAATTATGG
*
57540309 AATACTGAATATTGTCT-TG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGT-TATGCA-TAATGCAGTGAATTGTGAA
*
57540348 AATACTGAATATTGTTATGCATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
*
57540388 ATTACTGAA
1 AATACTGAA
57540397 GTAAAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 21 0.49
40 21 0.49
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (40 bp):
AATACTGAATATTGTTATGCATAATGCAGTGAATTGTGAA
Found at i:57540650 original size:39 final size:40
Alignment explanation
Indices: 57540570--57540745 Score: 173
Period size: 45 Copynumber: 4.2 Consensus size: 40
57540560 ATTTGCCGGC
* * *
57540570 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
57540608 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
57540647 TTACTG-TTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--C-A---GGCACTTTGTGTGTCGAATACTGTTACTG
*
57540692 TTACTG-TTACAGGTTCACCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTGATT-CAGG-----CACTTTGTGTGTCGAATACTGTTACTG
57540737 TTACTGATT
1 TTACTGATT
57540746 ACTGTATACT
Statistics
Matches: 118, Mismatches: 5, Indels: 22
0.81 0.03 0.15
Matches are distributed among these distances:
38 14 0.12
39 28 0.24
40 3 0.03
43 1 0.01
44 1 0.01
45 69 0.58
46 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (40 bp):
TTACTGATTCAGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:57540665 original size:45 final size:45
Alignment explanation
Indices: 57540597--57540747 Score: 230
Period size: 45 Copynumber: 3.3 Consensus size: 45
57540587 ATGTGCCGAC
*
57540597 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
57540642 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* ** *
57540687 TACTGTTACTGTTACAGGTTCACCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
57540732 TACTGTTACTGATTAC
1 TACTGTTACTG-TTAC
57540748 TGTATACTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
45 93 0.96
46 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:57547291 original size:16 final size:16
Alignment explanation
Indices: 57547267--57547297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57547257 GCAAGCAAAA
57547267 ATACATACATACATAT
1 ATACATACATACATAT
*
57547283 ATACCTACATACATA
1 ATACATACATACATA
57547298 CAATCCCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACATACATACATAT
Found at i:57551149 original size:39 final size:39
Alignment explanation
Indices: 57551075--57551203 Score: 213
Period size: 39 Copynumber: 3.3 Consensus size: 39
57551065 TTAAAAATAT
*
57551075 TTATATTAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACGA--ATAAATATAATAAATATTTTA
57551116 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
*
57551155 TTATATTAAAAAACACGAATAAATATAATAAATATTTTT
1 TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
*
57551194 TTAAATTAAA
1 TTATATTAAA
57551204 TATTTTTTTA
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
39 68 0.80
41 17 0.20
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (39 bp):
TTATATTAAAAAACACGAATAAATATAATAAATATTTTA
Found at i:57551205 original size:17 final size:17
Alignment explanation
Indices: 57551183--57551215 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
57551173 ATAAATATAA
57551183 TAAATATTTTTTTAAAT
1 TAAATATTTTTTTAAAT
57551200 TAAATATTTTTTTAAA
1 TAAATATTTTTTTAAA
57551216 AAATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATATTTTTTTAAAT
Found at i:57554511 original size:21 final size:21
Alignment explanation
Indices: 57554485--57554525 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57554475 ATCTGCTCAA
* *
57554485 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57554506 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57554526 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57559612 original size:25 final size:25
Alignment explanation
Indices: 57559578--57559634 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
57559568 ATTATTATTG
57559578 TTATTTTTAGTTGTTGATTTACTAA
1 TTATTTTTAGTTGTTGATTTACTAA
57559603 TTATTTTTAGTTGTTGATTTACTAA
1 TTATTTTTAGTTGTTGATTTACTAA
*
57559628 TTGTTTT
1 TTATTTT
57559635 ATATGTCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (25 bp):
TTATTTTTAGTTGTTGATTTACTAA
Found at i:57559776 original size:9 final size:9
Alignment explanation
Indices: 57559757--57559809 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
57559747 TTAATTAAAT
57559757 AAATTATTAA
1 AAATTA-TAA
57559767 AAATTATAA
1 AAATTATAA
57559776 AAA-T-TAA
1 AAATTATAA
* *
57559783 AAACTAAAA
1 AAATTATAA
57559792 AAATTA-AA
1 AAATTATAA
57559800 AAA-TATAA
1 AAATTATAA
57559808 AA
1 AA
57559810 TCCCGATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.21
8 11 0.29
9 13 0.34
10 6 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
AAATTATAA
Found at i:57559781 original size:16 final size:16
Alignment explanation
Indices: 57559762--57559809 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
57559752 TAAATAAATT
*
57559762 ATTAAAAATTATAAAA
1 ATTAAAAAATATAAAA
* *
57559778 ATTAAAAACTAAAAAA
1 ATTAAAAAATATAAAA
57559794 ATTAAAAAATATAAAA
1 ATTAAAAAATATAAAA
57559810 TCCCGATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAAAAAATATAAAA
Found at i:57560604 original size:15 final size:15
Alignment explanation
Indices: 57560584--57560691 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
57560574 TTTATGGAAA
57560584 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
57560599 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
57560613 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
57560629 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
57560643 AGTCAAAGATATGAGT
1 A-TCAAAGATATGGGT
* **
57560659 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57560673 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
57560689 ATC
1 ATC
57560692 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:57560621 original size:30 final size:30
Alignment explanation
Indices: 57560578--57560701 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
57560568 TCCATATTTA
* *
57560578 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57560608 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57560638 TGGAAAGTCAAAGATATGAGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
57560668 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
57560699 TGG
1 TGG
57560702 CATAATAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 78 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:57565297 original size:15 final size:15
Alignment explanation
Indices: 57565277--57565384 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
57565267 TTTATGGAAA
57565277 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
57565292 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
57565306 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
57565322 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
57565336 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* ***
57565352 ATCAAATAT-TGAAA
1 ATCAAAGATATGGGT
57565366 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
57565382 ATC
1 ATC
57565385 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:57565314 original size:30 final size:30
Alignment explanation
Indices: 57565273--57565384 Score: 172
Period size: 30 Copynumber: 3.7 Consensus size: 30
57565263 CATATTTATG
*
57565273 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
57565303 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
57565333 GAAAGTCAAAGATATGGGTATCAAAT-ATT
1 GAAAGTCAAAGATATGGGTATCAAATAATA
57565362 GAAAAGTCAAAGATATGGGTATC
1 G-AAAGTCAAAGATATGGGTATC
57565385 GAGATATTGG
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 2 0.03
30 74 0.97
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:57565342 original size:60 final size:61
Alignment explanation
Indices: 57565271--57565394 Score: 198
Period size: 60 Copynumber: 2.0 Consensus size: 61
57565261 TCCATATTTA
57565271 TGGAAAATCAAAGATATGGGTATCAAATAATAG-AAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCAAAT-ATAGAAAAGTCAAAGATATGGGTATCGAAATAT
* * *
57565331 TGGAAAGTCAAAGATATGGGTATCAAATATTGAAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCAAATATAGAAAAGTCAAAGATATGGGTATCGAAATAT
57565392 TGG
1 TGG
57565395 CATAATAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
59 3 0.05
60 48 0.81
61 8 0.14
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.26
Consensus pattern (61 bp):
TGGAAAATCAAAGATATGGGTATCAAATATAGAAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:57566985 original size:20 final size:20
Alignment explanation
Indices: 57566960--57567000 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57566950 CTGTGAGGAA
57566960 GCTATTCAGCTTTCTTGGAT
1 GCTATTCAGCTTTCTTGGAT
57566980 GCTATTCAGCTTTCTTGGAT
1 GCTATTCAGCTTTCTTGGAT
57567000 G
1 G
57567001 GTTTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (20 bp):
GCTATTCAGCTTTCTTGGAT
Found at i:57569201 original size:18 final size:19
Alignment explanation
Indices: 57569161--57569201 Score: 50
Period size: 17 Copynumber: 2.2 Consensus size: 19
57569151 TTTGTTTAAA
*
57569161 TATTGTATAATTTTTATTT
1 TATTGTATAATTTTTATTC
57569180 TATTGT-TAA-TTTTATTAC
1 TATTGTATAATTTTTATT-C
57569198 TATT
1 TATT
57569202 TTAGAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 7 0.35
19 6 0.30
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (19 bp):
TATTGTATAATTTTTATTC
Found at i:57570218 original size:16 final size:16
Alignment explanation
Indices: 57570187--57570216 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57570177 TGTATCTCTC
57570187 TTTTTTTAAATATTTA
1 TTTTTTTAAATATTTA
57570203 TTTTTTT-AATATTT
1 TTTTTTTAAATATTT
57570217 TACTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAATATTTA
Found at i:57570766 original size:16 final size:16
Alignment explanation
Indices: 57570745--57570779 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57570735 TATAATCTCG
57570745 AATATAATCAAAATTT
1 AATATAATCAAAATTT
**
57570761 AATATAATCCGAATTT
1 AATATAATCAAAATTT
57570777 AAT
1 AAT
57570780 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (16 bp):
AATATAATCAAAATTT
Found at i:57582377 original size:21 final size:21
Alignment explanation
Indices: 57582353--57582394 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
57582343 CCTTTTATCA
57582353 AAAGTAAAGAGATTAATTTGC
1 AAAGTAAAGAGATTAATTTGC
57582374 AAAGTAAAGAGATTAATTTGC
1 AAAGTAAAGAGATTAATTTGC
57582395 TCATTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (21 bp):
AAAGTAAAGAGATTAATTTGC
Found at i:57591841 original size:34 final size:35
Alignment explanation
Indices: 57591786--57591852 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
57591776 CAAACACCAG
*
57591786 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
57591821 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
57591853 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:57592673 original size:22 final size:21
Alignment explanation
Indices: 57592627--57592666 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
57592617 ACCTTTGATG
57592627 ATAAAAAAAATCAATTTTTGT
1 ATAAAAAAAATCAATTTTTGT
57592648 ATAAAAAAAATCAATTTTT
1 ATAAAAAAAATCAATTTTT
57592667 TAAATAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
ATAAAAAAAATCAATTTTTGT
Found at i:57595521 original size:31 final size:31
Alignment explanation
Indices: 57595458--57595541 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
57595448 TTACTTATTT
* *
57595458 TTAAA-AAATAAATTTAACA-A-TTCAGTAAC
1 TTAAATAAAAAAATTTAA-ATAGTTCAATAAC
57595487 TTAAATAAAAAAATTTAAATAGTTCAATAAC
1 TTAAATAAAAAAATTTAAATAGTTCAATAAC
* **
57595518 TTAAATATAAATTTTTAAATAGTT
1 TTAAATAAAAAAATTTAAATAGTT
57595542 TAGTGACCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 6 0.13
30 12 0.26
31 29 0.62
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (31 bp):
TTAAATAAAAAAATTTAAATAGTTCAATAAC
Found at i:57598716 original size:16 final size:15
Alignment explanation
Indices: 57598696--57598732 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
57598686 GTATTTTGGT
57598696 TTTATAATTATTTTA
1 TTTATAATTATTTTA
*
57598711 TATTATAATTTTTTTA
1 T-TTATAATTATTTTA
57598727 TTTATA
1 TTTATA
57598733 TAATAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATAATTATTTTA
Found at i:57602901 original size:21 final size:23
Alignment explanation
Indices: 57602872--57602913 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57602862 AAATTATTTT
57602872 AAGAAATTT-T-TATTTTTTAGA
1 AAGAAATTTATATATTTTTTAGA
*
57602893 AAGAGATTTATATATTTTTTA
1 AAGAAATTTATATATTTTTTA
57602914 TAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (23 bp):
AAGAAATTTATATATTTTTTAGA
Found at i:57603615 original size:7 final size:8
Alignment explanation
Indices: 57603589--57603614 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57603579 TGACAAATGT
57603589 AAATTTTA
1 AAATTTTA
57603597 AAATTTTA
1 AAATTTTA
57603605 AAATTTTA
1 AAATTTTA
57603613 AA
1 AA
57603615 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAATTTTA
Found at i:57616613 original size:10 final size:10
Alignment explanation
Indices: 57616598--57616622 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57616588 ATACAAGGGC
57616598 ATATATAAAT
1 ATATATAAAT
57616608 ATATATAAAT
1 ATATATAAAT
57616618 ATATA
1 ATATA
57616623 GATTGTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATATAAAT
Found at i:57623025 original size:28 final size:28
Alignment explanation
Indices: 57622985--57623042 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
57622975 GTTGTCGAAA
57622985 ATTCTAGTTTTAGAAATGTAAGCTTGAT
1 ATTCTAGTTTTAGAAATGTAAGCTTGAT
57623013 ATTCTAGTTTTAGAAATGTAAGCTTGAT
1 ATTCTAGTTTTAGAAATGTAAGCTTGAT
57623041 AT
1 AT
57623043 CCATTGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (28 bp):
ATTCTAGTTTTAGAAATGTAAGCTTGAT
Found at i:57631844 original size:6 final size:6
Alignment explanation
Indices: 57631830--57631869 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
57631820 TATACAGCCA
* * *
57631830 GAGCTG GAGCAG GAGCAG GAGCGG GAGCTG GAGCAG GAGC
1 GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGCAG GAGC
57631870 TGGGGCAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.53, T:0.05
Consensus pattern (6 bp):
GAGCAG
Found at i:57631850 original size:12 final size:12
Alignment explanation
Indices: 57631830--57631877 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
57631820 TATACAGCCA
57631830 GAGCTGGAGCAG
1 GAGCTGGAGCAG
* *
57631842 GAGCAGGAGCGG
1 GAGCTGGAGCAG
57631854 GAGCTGGAGCAG
1 GAGCTGGAGCAG
*
57631866 GAGCTGGGGCAG
1 GAGCTGGAGCAG
57631878 TCATCACTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.54, T:0.06
Consensus pattern (12 bp):
GAGCTGGAGCAG
Done.