Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 183 of 199
Found at i:53265511 original size:6 final size:6
Alignment explanation
Indices: 53265500--53265535 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
53265490 TTAGTTATGT
53265500 AATATA AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
53265536 TATAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:53265953 original size:92 final size:89
Alignment explanation
Indices: 53265849--53266019 Score: 243
Period size: 92 Copynumber: 1.9 Consensus size: 89
53265839 TTGAAAAAAA
*
53265849 TTTGAGAGTCTTTTTTATGCATTTTGAAAGTTCAAATACCCAATTAAGTAAAAAAAAAAAGCAGG
1 TTTGAGAGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCAATTAAGT--AAAAAAAAAG-AGG
53265914 GGCTCAATTGCTTTTTTATTGAAGAAG
63 GGCTCAATTGCTTTTTTATTGAAGAAG
* * * * * *
53265941 TTTGAGGGTCTTTTTTATGCATTTTAAAAGTTCAAGTGCCCAATTGAGTGAAAAAAAAGAGGGGT
1 TTTGAGAGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCAATTAAGTAAAAAAAAAGAGGGGC
*
53266006 TTAATTGCTTTTTT
66 TCAATTGCTTTTTT
53266020 TAAAAAAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 18 0.25
90 9 0.13
92 44 0.62
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (89 bp):
TTTGAGAGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCAATTAAGTAAAAAAAAAGAGGGGC
TCAATTGCTTTTTTATTGAAGAAG
Found at i:53267362 original size:18 final size:17
Alignment explanation
Indices: 53267328--53267368 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
53267318 TTTACTGTTC
53267328 ACTTTTTTTTCAGTTTT
1 ACTTTTTTTTCAGTTTT
* *
53267345 ACTTTATTTTTTATTTTT
1 ACTTT-TTTTTCAGTTTT
53267363 ACTTTT
1 ACTTTT
53267369 AAAAGTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.73
Consensus pattern (17 bp):
ACTTTTTTTTCAGTTTT
Found at i:53269663 original size:18 final size:19
Alignment explanation
Indices: 53269640--53269676 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
53269630 TAAAAAAATA
53269640 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
53269658 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
53269677 GAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:53269716 original size:20 final size:20
Alignment explanation
Indices: 53269645--53269717 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
53269635 AAATATATAA
53269645 ATTTTGGAATTTTT-ATAAA-T
1 ATTTT-GAATTTTTGA-AAATT
53269665 ATTTTGAA-TTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
*
53269684 ATTTTGATTTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
*
53269704 ATTTTTAATTTTTG
1 ATTTTGAATTTTTG
53269718 TTGAAAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.15
19 12 0.26
20 28 0.60
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:53270620 original size:17 final size:18
Alignment explanation
Indices: 53270587--53270621 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
53270577 ATTAAATCAA
53270587 TTTAACCGATTAATTTAAT
1 TTTAACCGA-TAATTTAAT
53270606 TTTAACCGA-AATTTAA
1 TTTAACCGATAATTTAA
53270622 ACACCGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTAACCGATAATTTAAT
Found at i:53272745 original size:20 final size:20
Alignment explanation
Indices: 53272725--53272760 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
53272715 TTTAATAATT
53272725 TTTTTAT-ATT-TTTAAATA
1 TTTTTATAATTATTTAAATA
53272743 TTTTTATAATTATTTAAA
1 TTTTTATAATTATTTAAA
53272761 AAAATCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 3 0.19
20 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATAATTATTTAAATA
Found at i:53279878 original size:3 final size:3
Alignment explanation
Indices: 53279872--53279904 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
53279862 AGGAGAGATC
53279872 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
53279905 CGCCAGAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:53280377 original size:8 final size:8
Alignment explanation
Indices: 53280358--53280387 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
53280348 AAACTGGGAG
53280358 GTGAGTTAA
1 GTGAG-TAA
53280367 GTGAGTAA
1 GTGAGTAA
53280375 GTGAGTAA
1 GTGAGTAA
53280383 GTGAG
1 GTGAG
53280388 AGCGTGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (8 bp):
GTGAGTAA
Found at i:53280751 original size:86 final size:84
Alignment explanation
Indices: 53280661--53280828 Score: 212
Period size: 86 Copynumber: 2.0 Consensus size: 84
53280651 AATTAAGTCT
* * * * **
53280661 CTTTTTTCACTCAATTGAGCACTTAAATTTTTAAAATATATCAAAAAGACTTTC-AAATTTCTTC
1 CTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTT-TTC
*
53280725 AAAAAACGCAATTAAGCCCCCG
65 -AAAAA-GCAATCAAGCCCCCG
* * *
53280747 CTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTTTTCA
1 CTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTTTTCA
53280812 AAAAGCAATCAAGCCCC
66 AAAAGCAATCAAGCCCC
53280829 TGCTCTTATT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
84 12 0.17
85 5 0.07
86 48 0.68
87 6 0.08
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (84 bp):
CTTTTTTCACTCAATTGAGCACTTAAACTTTCAAAATACATAAAAAAGACCCTCAAAATTTTTCA
AAAAGCAATCAAGCCCCCG
Found at i:53280915 original size:15 final size:16
Alignment explanation
Indices: 53280897--53280929 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53280887 CTAATAAAAA
53280897 TTAA-AAAAATAGAAT
1 TTAATAAAAATAGAAT
*
53280912 TTAATAAAATTAGAAT
1 TTAATAAAAATAGAAT
53280928 TT
1 TT
53280930 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TTAATAAAAATAGAAT
Found at i:53281238 original size:19 final size:18
Alignment explanation
Indices: 53281216--53281270 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
53281206 ATTATAAAAA
53281216 TTTATATTTTTTATATTTT
1 TTTA-ATTTTTTATATTTT
53281235 TTTACGA-TTTTTATATTTT
1 TTTA--ATTTTTTATATTTT
*
53281254 TTCTAATTTTTAATATT
1 TT-TAATTTTTTATATT
53281271 CGAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 27 0.87
20 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTAATTTTTTATATTTT
Found at i:53281457 original size:85 final size:86
Alignment explanation
Indices: 53281362--53281525 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 86
53281352 AAACCAGGGA
* * * * * * *
53281362 CTTAATTACTTATTTTT-TAAA-GTTTGAGGATCTTTTTTATGCATTTTTAAAGTTCAAGTACTC
1 CTTAATTACTT-TTTTTGAAAAGGTTTGAGGATATTTTTGATACATTTTAAAAATTCAAGTACCC
*
53281425 AATTGAGTACAAAAAGTAGAGG
65 AAATGAGTACAAAAAGTAGAGG
*
53281447 CTTAATTACTTTTTTTGAAAAGGTTTGAGGGTATTTTTGATACATTTTAAAAATTCAAGTACCCA
1 CTTAATTACTTTTTTTGAAAAGGTTTGAGGATATTTTTGATACATTTTAAAAATTCAAGTACCCA
*
53281512 AATGAGTGCAAAAA
66 AATGAGTACAAAAA
53281526 AAAGCAGGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 5 0.07
85 14 0.21
86 48 0.72
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (86 bp):
CTTAATTACTTTTTTTGAAAAGGTTTGAGGATATTTTTGATACATTTTAAAAATTCAAGTACCCA
AATGAGTACAAAAAGTAGAGG
Found at i:53281966 original size:16 final size:18
Alignment explanation
Indices: 53281945--53281980 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53281935 TTTCATATAG
53281945 TATAAAT-TAA-ATAATA
1 TATAAATATAATATAATA
53281961 TATAAATATAATATAATA
1 TATAAATATAATATAATA
53281979 TA
1 TA
53281981 ATATAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAATATAATATAATA
Found at i:53281973 original size:5 final size:5
Alignment explanation
Indices: 53281955--53281986 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
53281945 TATAAATTAA
53281955 ATAAT AT-AT A-AAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
53281987 ACTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 6 0.24
5 19 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:53282993 original size:23 final size:22
Alignment explanation
Indices: 53282967--53283011 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
53282957 AGATATAATC
* *
53282967 AAAACCTATAATGAGATTATTAA
1 AAAACATATAAT-AAATTATTAA
*
53282990 AAAATATATAATAAATTATTAA
1 AAAACATATAATAAATTATTAA
53283012 TTTAGATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAACATATAATAAATTATTAA
Found at i:53288995 original size:141 final size:141
Alignment explanation
Indices: 53288737--53289018 Score: 361
Period size: 141 Copynumber: 2.0 Consensus size: 141
53288727 GTGACTCGTA
** *
53288737 TACTTTGATGTAAGTAAAAGTTCGAGTTCAAATAGATAAACAGCCAAAAGTTGATGCGTCGGGTA
1 TACTTTGATGTAAGTAAAACCTCGAGTTCAAATAGATAAACAACCAAAAGTTGATGCGTCGGGTA
* * * * *
53288802 TACAACTTCTGAAGTATGTAGAGTCATTCATAATAGTAGAATTTATAGCCCGAGACATGATTAAA
66 TACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGACATGAGTAAA
53288867 TGATATCCTTT
131 TGATATCCTTT
** * * *
53288878 TACTTTGATGTAAGTAAAAACCT-GAGTTCAAATAGATAAGGAACCGAAAA-TTGGTGTGTTGGG
1 TACTTTGATGTAAGT-AAAACCTCGAGTTCAAATAGATAAACAACC-AAAAGTTGATGCGTCGGG
** * * * *
53288941 TATATGACTTCTGCAGTATGTAGTGTCATTCACAACAGTGGAATTCATAACCCGAGACATGGGTA
64 TATACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGACATGAGTA
53289006 AATGATATCCTTT
129 AATGATATCCTTT
53289019 CATTAGCATT
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 111 0.93
142 9 0.08
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (141 bp):
TACTTTGATGTAAGTAAAACCTCGAGTTCAAATAGATAAACAACCAAAAGTTGATGCGTCGGGTA
TACAACTTCTGAAGTATGTAGAGTCATTCACAACAGTAGAATTCATAACCCGAGACATGAGTAAA
TGATATCCTTT
Found at i:53290897 original size:17 final size:18
Alignment explanation
Indices: 53290877--53290926 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
53290867 AACTAGAACT
53290877 AATGAT-TTGAAATAGAA
1 AATGATATTGAAATAGAA
* *
53290894 AATGGTATTGAAAT-GAC
1 AATGATATTGAAATAGAA
*
53290911 AATGCTATTGAAATAG
1 AATGATATTGAAATAG
53290927 CAAGTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (18 bp):
AATGATATTGAAATAGAA
Found at i:53292003 original size:54 final size:55
Alignment explanation
Indices: 53291917--53292047 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 55
53291907 TCAAGTTGTA
* * *
53291917 ACACGGCCGTGTGACCCTATTTTAAATCACACATGGTTTGGCACACGA-TCT-GCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACA-GAGTCTGGCG
* * *
53291971 ACACGGCCGTGTGACCCTATTTCAAATTACACACGGTTGGGCATATAGTCTGGCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACAGAGTCTGGCG
*
53292026 ATACGGCCGTGTGACCCTATTT
1 ACACGGCCGTGTGACCCTATTT
53292048 TTGAATTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 43 0.63
55 24 0.35
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (55 bp):
ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACAGAGTCTGGCG
Found at i:53294546 original size:25 final size:25
Alignment explanation
Indices: 53294518--53294721 Score: 136
Period size: 25 Copynumber: 8.3 Consensus size: 25
53294508 ATCTTGTTAT
53294518 ATGGCTCTCATGAGCTTCCCGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
** * * * *
53294543 ATGGCTCTTTTAAGCTTTCTG-TTT
1 ATGGCTCTCATGAGCTTCCCGATTA
* *
53294567 ATGGCTCGT-ATGAGCTTTCTGA-TA
1 ATGGCTC-TCATGAGCTTCCCGATTA
* * *
53294591 ATTGGCTCTTC-GGAGCTTCTCGATAA
1 A-TGGCTC-TCATGAGCTTCCCGATTA
*
53294617 ATGGCTCTCATGAGCTTCCTGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
53294642 ATGGCTCTCCA-GAGCTTCCCGA-TA
1 ATGGCTCT-CATGAGCTTCCCGATTA
* * * *
53294666 TTGGCTCGCATGAGCTTTCTGATT-
1 ATGGCTCTCATGAGCTTCCCGATTA
* * *
53294690 ATGGCTTTTATGAACTTCCCG-TTA
1 ATGGCTCTCATGAGCTTCCCGATTA
53294714 CATGGCTC
1 -ATGGCTC
53294722 ATATGAGTTT
Statistics
Matches: 136, Mismatches: 32, Indels: 22
0.72 0.17 0.12
Matches are distributed among these distances:
23 4 0.03
24 54 0.40
25 74 0.54
26 4 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
ATGGCTCTCATGAGCTTCCCGATTA
Found at i:53294632 original size:50 final size:48
Alignment explanation
Indices: 53294518--53294695 Score: 153
Period size: 49 Copynumber: 3.6 Consensus size: 48
53294508 ATCTTGTTAT
* * ** * * * *
53294518 ATGGCTCTCATGAGCTTCCCGATTAATGGCTCTTTTA-AGCTTTCTGTTT
1 ATGGCTCTCATGAGCTTTCTGA-TAATGGCTC-TCCAGAGCTTCCCGATA
* * *
53294567 ATGGCTCGT-ATGAGCTTTCTGATAATTGGCTCTTCGGAGCTTCTCGATAA
1 ATGGCTC-TCATGAGCTTTCTGATAA-TGGCTCTCCAGAGCTTCCCGAT-A
*
53294617 ATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATA
1 ATGGCTCTCATGAGCTTTCTGA-TAATGGCTCTCCAGAGCTTCCCGATA
* * *
53294666 TTGGCTCGCATGAGCTTTCTGATTATGGCT
1 ATGGCTCTCATGAGCTTTCTGATAATGGCT
53294696 TTTATGAACT
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
48 12 0.11
49 52 0.49
50 39 0.37
51 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (48 bp):
ATGGCTCTCATGAGCTTTCTGATAATGGCTCTCCAGAGCTTCCCGATA
Found at i:53294720 original size:49 final size:47
Alignment explanation
Indices: 53294518--53294721 Score: 140
Period size: 49 Copynumber: 4.1 Consensus size: 47
53294508 ATCTTGTTAT
* * * * * * *
53294518 ATGGCTCTCATGAGCTTCCCGATTAATGGCTCTTTTA-AGCTTTCTGTTT
1 ATGGCTCGCATGAGCTTTCTGATT-ATGG--CTTTTAGAGCTTCCCGATA
* * ** *
53294567 ATGGCTCGTATGAGCTTTCTGATAATTGGCTCTTCGGAGCTTCTCGATAA
1 ATGGCTCGCATGAGCTTTCTGATTA-TGGCT-TTTAGAGCTTCCCGAT-A
* * **
53294617 ATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATA
1 ATGGCTCGCATGAGCTTTCTGATT-ATGGCT-TTTAGAGCTTCCCGATA
* * *
53294666 TTGGCTCGCATGAGCTTTCTGATTATGGCTTTTATGAACTTCCCGTTA
1 ATGGCTCGCATGAGCTTTCTGATTATGGCTTTTA-GAGCTTCCCGATA
53294714 CATGGCTC
1 -ATGGCTC
53294722 ATATGAGTTT
Statistics
Matches: 121, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
47 4 0.03
48 20 0.17
49 57 0.47
50 39 0.32
51 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (47 bp):
ATGGCTCGCATGAGCTTTCTGATTATGGCTTTTAGAGCTTCCCGATA
Found at i:53296029 original size:39 final size:39
Alignment explanation
Indices: 53295973--53296072 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
53295963 TTTTTACAAG
* * *
53295973 TTAAGCTTAGACAAGCAACCTGATGTGATGTGTTGTAGT
1 TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
* * *
53296012 TTAAGCTTTGATGAGCAACTTGATGTGATGTGTTATAGT
1 TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
53296051 TTAAGCTTGGACGAGCAACCTG
1 TTAAGCTTGGACGAGCAACCTG
53296073 GTGTAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (39 bp):
TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
Found at i:53299894 original size:5 final size:5
Alignment explanation
Indices: 53299884--53299917 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
53299874 ATATATCTAT
53299884 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
53299918 TAACCTTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:53302323 original size:13 final size:14
Alignment explanation
Indices: 53302305--53302341 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
53302295 ATTTTAAATT
53302305 TTTAAATTTTA-TA
1 TTTAAATTTTATTA
53302318 TTTAAA-TTTATTA
1 TTTAAATTTTATTA
53302331 TTTAATATTTT
1 TTTAA-ATTTT
53302342 TTTTCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 1 0.05
15 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAATTTTATTA
Found at i:53302333 original size:20 final size:20
Alignment explanation
Indices: 53302293--53302340 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
53302283 CAGTTCACAA
53302293 TTAT-TTTAAATTTTTAAATT
1 TTATATTTAAATTTTT-AATT
53302313 TTATATTTAAATTTATT-ATT
1 TTATATTTAAATTT-TTAATT
*
53302333 TAATATTT
1 TTATATTT
53302341 TTTTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATTTAAATTTTTAATT
Found at i:53304291 original size:14 final size:14
Alignment explanation
Indices: 53304272--53304301 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
53304262 TGAGTCTTTC
53304272 TATTTTGATCAATT
1 TATTTTGATCAATT
53304286 TATTTTGATCAATT
1 TATTTTGATCAATT
53304300 TA
1 TA
53304302 GGTATCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTTTGATCAATT
Found at i:53307839 original size:20 final size:21
Alignment explanation
Indices: 53307810--53307870 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
53307800 ACACACCATT
*
53307810 AATATATATTTTATTGATATA
1 AATATATATTATATTGATATA
* *
53307831 AAT-TATATTGTATT-ATTTA
1 AATATATATTATATTGATATA
53307850 AATATATATTATATTGTATAT
1 AATATATATTATATTG-ATAT
53307871 CATATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 3 0.09
22 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
AATATATATTATATTGATATA
Found at i:53308065 original size:12 final size:14
Alignment explanation
Indices: 53308033--53308070 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
53308023 TGGTAAGTGG
53308033 TAATATATATAATA
1 TAATATATATAATA
53308047 TAATATATATAA-A
1 TAATATATATAATA
*
53308060 T-TTATATATAA
1 TAATATATATAA
53308071 GCCAAAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATATATATAATA
Found at i:53308340 original size:23 final size:23
Alignment explanation
Indices: 53308306--53308350 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
53308296 AGCACATGCA
53308306 AGCTAATACTAGAGATGATGATG
1 AGCTAATACTAGAGATGATGATG
*
53308329 AGCTAATGCTAGAGATGATGAT
1 AGCTAATACTAGAGATGATGAT
53308351 TACTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (23 bp):
AGCTAATACTAGAGATGATGATG
Found at i:53313849 original size:8 final size:8
Alignment explanation
Indices: 53313836--53313916 Score: 57
Period size: 8 Copynumber: 10.5 Consensus size: 8
53313826 AATTTTAATT
53313836 TAATTTTA
1 TAATTTTA
53313844 TAATTTT-
1 TAATTTTA
*
53313851 T--TTTAA
1 TAATTTTA
*
53313857 TAAATTTA
1 TAATTTTA
53313865 TTAATTTTTA
1 -TAA-TTTTA
* *
53313875 TATTTTTT
1 TAATTTTA
53313883 TAATATTTA
1 TAAT-TTTA
53313892 TAATTTTA
1 TAATTTTA
53313900 -AATTTT-
1 TAATTTTA
53313906 TAATTTT-
1 TAATTTTA
53313913 TAAT
1 TAAT
53313917 AAAAAATTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
5 3 0.05
6 1 0.02
7 17 0.29
8 21 0.36
9 12 0.21
10 4 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TAATTTTA
Found at i:53313859 original size:32 final size:31
Alignment explanation
Indices: 53313812--53313913 Score: 104
Period size: 32 Copynumber: 3.2 Consensus size: 31
53313802 TAGTTTATTA
*
53313812 AATTATTTTTAAATAATTTTAATTTAATTTTAT
1 AATT-TTTTTTAATAATTTTAATTTAATTTT-T
*
53313845 AATTTTTTTTAATAAATTT-A-TTAATTTTT
1 AATTTTTTTTAATAATTTTAATTTAATTTTT
53313874 -ATATTTTTTTAAT-ATTTATAATTTTAAATTTTT
1 AAT-TTTTTTTAATAATTT-TAA-TTT-AATTTTT
53313907 AATTTTT
1 AATTTTT
53313914 AATAAAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
28 5 0.08
29 12 0.20
30 9 0.15
31 1 0.02
32 15 0.25
33 15 0.25
34 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
AATTTTTTTTAATAATTTTAATTTAATTTTT
Found at i:53313862 original size:22 final size:23
Alignment explanation
Indices: 53313828--53313873 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
53313818 TTTTAAATAA
*
53313828 TTTTAATTTAATTT-TATAATTTT
1 TTTTAATTAAATTTAT-TAATTTT
53313851 TTTTAA-TAAATTTATTAATTTT
1 TTTTAATTAAATTTATTAATTTT
53313873 T
1 T
53313874 ATATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTAATTAAATTTATTAATTTT
Found at i:53313862 original size:27 final size:26
Alignment explanation
Indices: 53313831--53313906 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 26
53313821 TAAATAATTT
53313831 TAATTTAATTTTATAATTTTTTTTAA
1 TAATTTAATTTTATAATTTTTTTTAA
53313857 TAAATTTATTAATTTT-T-ATATTTTTTTAA
1 T-AA--T-TTAATTTTATAAT-TTTTTTTAA
*
53313886 TATTTATAATTTTA-AATTTTT
1 TAATT-TAATTTTATAATTTTT
53313907 AATTTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 16
0.71 0.02 0.28
Matches are distributed among these distances:
25 1 0.02
26 13 0.32
27 4 0.10
28 3 0.07
29 12 0.29
30 8 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TAATTTAATTTTATAATTTTTTTTAA
Found at i:53313863 original size:33 final size:32
Alignment explanation
Indices: 53313812--53313913 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 32
53313802 TAGTTTATTA
*
53313812 AATTATTTTTAAAT-AATTTTAATTTAATTTTAT
1 AATT-TTTTTTAATAAATTTTAATTTAATTTT-T
53313845 AATTTTTTTTAATAAA-TTT-A-TTAATTTTT
1 AATTTTTTTTAATAAATTTTAATTTAATTTTT
53313874 -ATATTTTTTTAAT--ATTTATAATTTTAAATTTTT
1 AAT-TTTTTTTAATAAATTT-TAA-TTT-AATTTTT
53313907 AATTTTT
1 AATTTTT
53313914 AATAAAAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
27 1 0.02
28 4 0.07
29 12 0.20
30 9 0.15
31 1 0.02
32 13 0.22
33 17 0.29
34 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
AATTTTTTTTAATAAATTTTAATTTAATTTTT
Found at i:53313891 original size:17 final size:18
Alignment explanation
Indices: 53313824--53313898 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 18
53313814 TTATTTTTAA
53313824 ATAATTTTAATTTAAT-TTT
1 ATAATTTT--TTTAATATTT
53313843 ATAATTTTTTT--TA---
1 ATAATTTTTTTAATATTT
* * *
53313856 ATAAATTTATTAATTTTT
1 ATAATTTTTTTAATATTT
53313874 AT-ATTTTTTTAATATTT
1 ATAATTTTTTTAATATTT
53313891 ATAATTTT
1 ATAATTTT
53313899 AAATTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
13 9 0.21
15 2 0.05
17 17 0.40
18 7 0.16
19 8 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATAATTTTTTTAATATTT
Found at i:53313897 original size:7 final size:7
Alignment explanation
Indices: 53313859--53313916 Score: 53
Period size: 7 Copynumber: 7.4 Consensus size: 7
53313849 TTTTTTAATA
53313859 AATTTATT
1 AATTT-TT
53313867 AATTTTT
1 AATTTTT
53313874 ATATTTTTTT
1 A-A--TTTTT
53313884 AATATTTAT
1 AAT-TTT-T
*
53313893 AATTTTA
1 AATTTTT
53313900 AATTTTT
1 AATTTTT
53313907 AATTTTT
1 AATTTTT
53313914 AAT
1 AAT
53313917 AAAAAATTAG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
7 20 0.47
8 12 0.28
9 5 0.12
10 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
AATTTTT
Found at i:53313900 original size:15 final size:16
Alignment explanation
Indices: 53313834--53313917 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 16
53313824 ATAATTTTAA
53313834 TTTAAT-TTTATAATT
1 TTTAATATTTATAATT
*
53313849 TTT--T-TTAATAAATT
1 TTTAATATTTAT-AATT
* *
53313863 TATTAATTTTTATATTTT
1 T-TTAATATTTATA-ATT
53313881 TTTAATATTTATAA-T
1 TTTAATATTTATAATT
*
53313896 TTTAA-ATTTTTAATT
1 TTTAATATTTATAATT
53313911 TTTAATA
1 TTTAATA
53313918 AAAAATTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 5 0.09
14 12 0.22
15 17 0.31
16 1 0.02
17 13 0.24
18 7 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTTATAATT
Found at i:53326425 original size:1 final size:1
Alignment explanation
Indices: 53326419--53326458 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
53326409 ATTTTATTTG
53326419 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
53326459 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:53328293 original size:16 final size:16
Alignment explanation
Indices: 53328250--53328294 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
53328240 ACTAATGATT
*
53328250 TGAAATAGAAAATGTA
1 TGAAATAGACAATGTA
53328266 TGAAAT-GACAATGCTA
1 TGAAATAGACAATG-TA
53328282 TGAAATAG-CAATG
1 TGAAATAGACAATG
53328295 AGATGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
16 19 0.73
17 1 0.04
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (16 bp):
TGAAATAGACAATGTA
Found at i:53329362 original size:54 final size:55
Alignment explanation
Indices: 53329276--53329406 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 55
53329266 TCAAGTTGTA
* * *
53329276 ACACGGCCGTGTGACCCTATTTTAAATCACACATGGTTTGGCACACGA-TCT-GCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACA-GAGTCTGGCG
* * *
53329330 ACACGGCCGTGTGACCCTATTTCAAATTACACACGGTTGGGCATATAGTCTGGCG
1 ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACAGAGTCTGGCG
*
53329385 ATACGGCCGTGTGACCCTATTT
1 ACACGGCCGTGTGACCCTATTT
53329407 TTGAATTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 43 0.63
55 24 0.35
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (55 bp):
ACACGGCCGTGTGACCCTATTTCAAATCACACACGGTTGGGCACAGAGTCTGGCG
Found at i:53331907 original size:25 final size:25
Alignment explanation
Indices: 53331879--53332082 Score: 136
Period size: 25 Copynumber: 8.3 Consensus size: 25
53331869 ATCTTGTTAT
53331879 ATGGCTCTCATGAGCTTCCCGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
** * * * *
53331904 ATGGCTCTTTTAAGCTTTCTG-TTT
1 ATGGCTCTCATGAGCTTCCCGATTA
* *
53331928 ATGGCTCGT-ATGAGCTTTCTGA-TA
1 ATGGCTC-TCATGAGCTTCCCGATTA
* * *
53331952 ATTGGCTCTTC-GGAGCTTCTCGATAA
1 A-TGGCTC-TCATGAGCTTCCCGATTA
*
53331978 ATGGCTCTCATGAGCTTCCTGATTA
1 ATGGCTCTCATGAGCTTCCCGATTA
53332003 ATGGCTCTCCA-GAGCTTCCCGA-TA
1 ATGGCTCT-CATGAGCTTCCCGATTA
* * * *
53332027 TTGGCTCGCATGAGCTTTCTGATT-
1 ATGGCTCTCATGAGCTTCCCGATTA
* * *
53332051 ATGGCTTTTATGAACTTCCCG-TTA
1 ATGGCTCTCATGAGCTTCCCGATTA
53332075 CATGGCTC
1 -ATGGCTC
53332083 ATATGAGTTT
Statistics
Matches: 136, Mismatches: 32, Indels: 22
0.72 0.17 0.12
Matches are distributed among these distances:
23 4 0.03
24 54 0.40
25 74 0.54
26 4 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
ATGGCTCTCATGAGCTTCCCGATTA
Found at i:53331993 original size:50 final size:48
Alignment explanation
Indices: 53331879--53332056 Score: 153
Period size: 49 Copynumber: 3.6 Consensus size: 48
53331869 ATCTTGTTAT
* * ** * * * *
53331879 ATGGCTCTCATGAGCTTCCCGATTAATGGCTCTTTTA-AGCTTTCTGTTT
1 ATGGCTCTCATGAGCTTTCTGA-TAATGGCTC-TCCAGAGCTTCCCGATA
* * *
53331928 ATGGCTCGT-ATGAGCTTTCTGATAATTGGCTCTTCGGAGCTTCTCGATAA
1 ATGGCTC-TCATGAGCTTTCTGATAA-TGGCTCTCCAGAGCTTCCCGAT-A
*
53331978 ATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATA
1 ATGGCTCTCATGAGCTTTCTGA-TAATGGCTCTCCAGAGCTTCCCGATA
* * *
53332027 TTGGCTCGCATGAGCTTTCTGATTATGGCT
1 ATGGCTCTCATGAGCTTTCTGATAATGGCT
53332057 TTTATGAACT
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
48 12 0.11
49 52 0.49
50 39 0.37
51 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (48 bp):
ATGGCTCTCATGAGCTTTCTGATAATGGCTCTCCAGAGCTTCCCGATA
Found at i:53332081 original size:49 final size:47
Alignment explanation
Indices: 53331879--53332082 Score: 140
Period size: 49 Copynumber: 4.1 Consensus size: 47
53331869 ATCTTGTTAT
* * * * * * *
53331879 ATGGCTCTCATGAGCTTCCCGATTAATGGCTCTTTTA-AGCTTTCTGTTT
1 ATGGCTCGCATGAGCTTTCTGATT-ATGG--CTTTTAGAGCTTCCCGATA
* * ** *
53331928 ATGGCTCGTATGAGCTTTCTGATAATTGGCTCTTCGGAGCTTCTCGATAA
1 ATGGCTCGCATGAGCTTTCTGATTA-TGGCT-TTTAGAGCTTCCCGAT-A
* * **
53331978 ATGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATA
1 ATGGCTCGCATGAGCTTTCTGATT-ATGGCT-TTTAGAGCTTCCCGATA
* * *
53332027 TTGGCTCGCATGAGCTTTCTGATTATGGCTTTTATGAACTTCCCGTTA
1 ATGGCTCGCATGAGCTTTCTGATTATGGCTTTTA-GAGCTTCCCGATA
53332075 CATGGCTC
1 -ATGGCTC
53332083 ATATGAGTTT
Statistics
Matches: 121, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
47 4 0.03
48 20 0.17
49 57 0.47
50 39 0.32
51 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (47 bp):
ATGGCTCGCATGAGCTTTCTGATTATGGCTTTTAGAGCTTCCCGATA
Found at i:53333391 original size:39 final size:39
Alignment explanation
Indices: 53333335--53333434 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
53333325 TTTTTACAAG
* * *
53333335 TTAAGCTTAGACAAGCAACCTGATGTGATGTGTTGTAGT
1 TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
* * *
53333374 TTAAGCTTTGATGAGCAACTTGATGTGATGTGTTATAGT
1 TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
53333413 TTAAGCTTGGACGAGCAACCTG
1 TTAAGCTTGGACGAGCAACCTG
53333435 GTGTAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (39 bp):
TTAAGCTTGGACGAGCAACCTGATGTGATGTGTTATAGT
Found at i:53337274 original size:15 final size:16
Alignment explanation
Indices: 53337251--53337290 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
53337241 AAAATATATC
53337251 TATTTTTATTTTATTT
1 TATTTTTATTTTATTT
53337267 TA-TTTTATTTTATTTT
1 TATTTTTATTTTA-TTT
53337283 TATTTTTA
1 TATTTTTA
53337291 ACCTTCGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 7 0.32
17 5 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:53337290 original size:6 final size:5
Alignment explanation
Indices: 53337254--53337288 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
53337244 ATATATCTAT
53337254 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
53337289 TAACCTTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:53339703 original size:13 final size:14
Alignment explanation
Indices: 53339685--53339721 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
53339675 ATTTTAAATT
53339685 TTTAAATTTTA-TA
1 TTTAAATTTTATTA
53339698 TTTAAA-TTTATTA
1 TTTAAATTTTATTA
53339711 TTTAATATTTT
1 TTTAA-ATTTT
53339722 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 1 0.05
15 3 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAATTTTATTA
Found at i:53339713 original size:20 final size:20
Alignment explanation
Indices: 53339673--53339720 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
53339663 CAGTTCACAA
53339673 TTAT-TTTAAATTTTTAAATT
1 TTATATTTAAATTTTT-AATT
53339693 TTATATTTAAATTTATT-ATT
1 TTATATTTAAATTT-TTAATT
*
53339713 TAATATTT
1 TTATATTT
53339721 TTTTTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATTTAAATTTTTAATT
Found at i:53341681 original size:14 final size:14
Alignment explanation
Indices: 53341662--53341691 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
53341652 TGAGTCTTTC
53341662 TATTTTGATCAATT
1 TATTTTGATCAATT
53341676 TATTTTGATCAATT
1 TATTTTGATCAATT
53341690 TA
1 TA
53341692 GGTATCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
TATTTTGATCAATT
Found at i:53345498 original size:5 final size:5
Alignment explanation
Indices: 53345488--53345520 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
53345478 TGGTAAGTGG
53345488 TAATA TAATA TAATA TAATA TAATA TAATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAA
53345521 ATTTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:53345797 original size:23 final size:23
Alignment explanation
Indices: 53345771--53345815 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
53345761 AGCACATGCA
53345771 AGCTAATACTAGAGATGATGATG
1 AGCTAATACTAGAGATGATGATG
*
53345794 AGCTAATGCTAGAGATGATGAT
1 AGCTAATACTAGAGATGATGAT
53345816 TACTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (23 bp):
AGCTAATACTAGAGATGATGATG
Found at i:53351937 original size:29 final size:27
Alignment explanation
Indices: 53351897--53351991 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 27
53351887 TACCTAATAG
*
53351897 TTTA-AATATTTTAAATAAGTTTAATTAAT
1 TTTATAAT-TTTTTAATAA-TTT-ATTAAT
53351926 TTTATAATTTTTTTAATAATTTATTAGATT
1 TTTATAA-TTTTTTAATAATTTATTA-A-T
*
53351956 TTTATATTTTTTTAAT-ATTTA-TAAT
1 TTTATAATTTTTTAATAATTTATTAAT
53351981 TTTAATAATTT
1 TTT-ATAATTT
53351992 AAAATTTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
25 4 0.07
26 7 0.12
27 2 0.03
28 9 0.16
29 17 0.29
30 18 0.31
31 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTATAATTTTTTAATAATTTATTAAT
Found at i:53351951 original size:28 final size:27
Alignment explanation
Indices: 53351920--53351991 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 27
53351910 AATAAGTTTA
53351920 ATTAATTTTATAATTTTTTTAATAATTT
1 ATTAATTTTATAATTTTTTTAAT-ATTT
53351948 ATTAGATTTT-TATATTTTTTTAATATTT
1 ATTA-ATTTTATA-ATTTTTTTAATATTT
53351976 A-TAATTTTAATAATTT
1 ATTAATTTT-ATAATTT
53351992 AAAATTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
26 5 0.12
27 6 0.15
28 13 0.32
29 16 0.40
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (27 bp):
ATTAATTTTATAATTTTTTTAATATTT
Found at i:53351985 original size:15 final size:16
Alignment explanation
Indices: 53351965--53352000 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
53351955 TTTTATATTT
*
53351965 TTTTAAT-ATTTATAA
1 TTTTAATAATTTAAAA
53351980 TTTTAATAATTTAAAA
1 TTTTAATAATTTAAAA
53351996 TTTTA
1 TTTTA
53352001 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATAATTTAAAA
Found at i:53363521 original size:31 final size:28
Alignment explanation
Indices: 53363464--53363527 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
53363454 TTTCAAAAAA
* *
53363464 AAATTATAAAATTATTTTTAAAAATTTG
1 AAATTATAAAAATATTCTTAAAAATTTG
*
53363492 AAATTATAAAAAAATATTCTTAAATAATTTT
1 AAATTAT--AAAAATATTCTTAAA-AATTTG
53363523 AAATT
1 AAATT
53363528 CTTTTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
30 13 0.43
31 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATAAAAATATTCTTAAAAATTTG
Found at i:53363522 original size:41 final size:41
Alignment explanation
Indices: 53363434--53363522 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
53363424 GGCATCTAAT
*
53363434 TAATTTTTTAAAATTTAAAATTTCAAAAAAAAATTATAAAA
1 TAATTTTTAAAAATTTAAAATTTCAAAAAAAAATTATAAAA
* * * * *
53363475 TTATTTTTAAAAATTTGAAATTAT-AAAAAAATATTCTTAAA
1 TAATTTTTAAAAATTTAAAATT-TCAAAAAAAAATTATAAAA
53363516 TAATTTT
1 TAATTTT
53363523 AAATTCTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 39 0.98
42 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (41 bp):
TAATTTTTAAAAATTTAAAATTTCAAAAAAAAATTATAAAA
Found at i:53364290 original size:15 final size:14
Alignment explanation
Indices: 53364264--53364305 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
53364254 AAATTTTAGT
53364264 TTTTGATATTTAAGG
1 TTTTGAT-TTTAAGG
53364279 TTTGTGATTTTAAGG
1 TTT-TGATTTTAAGG
*
53364294 TTTAGATTTTAA
1 TTTTGATTTTAA
53364306 AATTCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 13 0.52
16 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (14 bp):
TTTTGATTTTAAGG
Found at i:53364453 original size:29 final size:32
Alignment explanation
Indices: 53364410--53364483 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 32
53364400 GAAGAATTTA
*
53364410 AGATTTT-GGTTTTTAAGG-CTTAAG-TCTTAT
1 AGATTTTAGG-TTTTAAGGACTTAAGATCATAT
* *
53364440 -GATTTTAGGTTTTAAGGATTTATGATCATAT
1 AGATTTTAGGTTTTAAGGACTTAAGATCATAT
53364471 AGATTTTAGGTTT
1 AGATTTTAGGTTT
53364484 AGGGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.38
30 6 0.16
31 5 0.14
32 12 0.32
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (32 bp):
AGATTTTAGGTTTTAAGGACTTAAGATCATAT
Found at i:53367265 original size:26 final size:26
Alignment explanation
Indices: 53367236--53367299 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
53367226 TGATTTGTCC
*
53367236 TTTTTTTATTTTTCTTTCATTTTAAGT
1 TTTTTTTATTTTACTTT-ATTTTAAGT
*
53367263 TTTTATTTA-TTTACTTTTTTTTAAGT
1 TTTT-TTTATTTTACTTTATTTTAAGT
53367289 TTTTTTTATTT
1 TTTTTTTATTT
53367300 CTCCTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 4 0.12
26 14 0.42
27 11 0.33
28 4 0.12
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTTTATTTTACTTTATTTTAAGT
Found at i:53367368 original size:23 final size:23
Alignment explanation
Indices: 53367342--53367403 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
53367332 GGTTTTGAAA
*
53367342 ATTTTTAAATGTTTTATAATAT-T
1 ATTTTTAAATATTTTA-AATATAT
*
53367365 ATTTTTTAAA-ATTTTAATTATAT
1 A-TTTTTAAATATTTTAAATATAT
53367388 ATTTTTAAATTATTTT
1 ATTTTTAAA-TATTTT
53367404 TTAAAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 12 0.36
23 8 0.24
24 13 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTTTAAATATTTTAAATATAT
Found at i:53367402 original size:24 final size:22
Alignment explanation
Indices: 53367342--53367403 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 22
53367332 GGTTTTGAAA
53367342 ATTTTTAAATGT-TTTATAATATT
1 ATTTTTAAAT-TATTT-TAATATT
53367365 ATTTTTTAAA--ATTTTAATTATAT
1 A-TTTTTAAATTATTTTAA-TAT-T
53367388 ATTTTTAAATTATTTT
1 ATTTTTAAATTATTTT
53367404 TTAAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
21 3 0.09
22 14 0.42
23 3 0.09
24 13 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTAAATTATTTTAATATT
Found at i:53367412 original size:35 final size:34
Alignment explanation
Indices: 53367353--53367433 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 34
53367343 TTTTTAAATG
* *
53367353 TTTTATAATATTATTTTTTAAAATTTTAATTA-TA
1 TTTTTTAA-ATTATTTTTTAAAATTTTAAATATTA
53367387 TATTTTTAAATTATTTTTTAAAAATTTTAAATATTA
1 T-TTTTTAAATTATTTTTT-AAAATTTTAAATATTA
53367423 TTTTTTAAATT
1 TTTTTTAAATT
53367434 TTAAATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
34 11 0.26
35 28 0.67
36 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTTTAAATTATTTTTTAAAATTTTAAATATTA
Found at i:53367440 original size:21 final size:22
Alignment explanation
Indices: 53367388--53367447 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
53367378 TTAATTATAT
*
53367388 ATTTTTAA-ATTATTTTTTAAAA
1 ATTTTAAATATTATTTTTT-AAA
53367410 ATTTTAAATATTATTTTTT-AA
1 ATTTTAAATATTATTTTTTAAA
*
53367431 ATTTTAAATATAATTTT
1 ATTTTAAATATTATTTT
53367448 AATAATATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 18 0.51
22 7 0.20
23 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTAAATATTATTTTTTAAA
Found at i:53367726 original size:17 final size:17
Alignment explanation
Indices: 53367687--53367739 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
53367677 AAAATAAAAT
* *
53367687 AATTTGTTAAAAAAGATT
1 AATTTGTT-AAAAATATA
*
53367705 TATTTGTTAAAAATATA
1 AATTTGTTAAAAATATA
*
53367722 AATTTATTTAAAAATATA
1 AATTT-GTTAAAAATATA
53367740 TATTAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (17 bp):
AATTTGTTAAAAATATA
Found at i:53367747 original size:13 final size:13
Alignment explanation
Indices: 53367729--53367771 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
53367719 ATAAATTTAT
53367729 TTAAAAATATATA
1 TTAAAAATATATA
* *
53367742 TTAAAAATAAAAAA
1 TTAAAAAT-ATATA
*
53367756 TTTAAAATATATA
1 TTAAAAATATATA
53367769 TTA
1 TTA
53367772 TAACTGGTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TTAAAAATATATA
Found at i:53370420 original size:30 final size:30
Alignment explanation
Indices: 53370384--53370516 Score: 144
Period size: 30 Copynumber: 4.4 Consensus size: 30
53370374 GTCGCAGAGC
* *
53370384 AGTTCATATCACCTAGACATGGGTGGTTCA
1 AGTTCATATCACCTGGACATGGGTGGTTCG
* * *
53370414 AGTTCATATCACCCGGACATGAGCTGCTT-G
1 AGTTCATATCACCTGGACATG-GGTGGTTCG
53370444 AGTTCATATCACCTGGACATGGGTGGTTCG
1 AGTTCATATCACCTGGACATGGGTGGTTCG
* * *
53370474 AGTTCATATCA-CTCGGACATAGGCGGTTTG
1 AGTTCATATCACCT-GGACATGGGTGGTTCG
* *
53370504 AGTTTATTTCACC
1 AGTTCATATCACC
53370517 CAGAGCAACC
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
29 7 0.08
30 73 0.85
31 6 0.07
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGGTGGTTCG
Found at i:53370505 original size:60 final size:60
Alignment explanation
Indices: 53370384--53370516 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
53370374 GTCGCAGAGC
*
53370384 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGGACATGAGCTGCTTG
1 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGGACATGAGCGGCTTG
* * * *
53370444 AGTTCATATCACCTGGACATGGGTGGTTCGAGTTCATATCACTCGGACAT-AGGCGGTTTG
1 AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGGACATGA-GCGGCTTG
* *
53370504 AGTTTATTTCACC
1 AGTTCATATCACC
53370517 CAGAGCAACC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 1 0.02
60 64 0.98
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (60 bp):
AGTTCATATCACCTAGACATGGGTGGTTCAAGTTCATATCACCCGGACATGAGCGGCTTG
Found at i:53373877 original size:32 final size:31
Alignment explanation
Indices: 53373831--53373890 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
53373821 AAATATTAAT
*
53373831 TTTTAAAATTTTAAATTTAATTTAAAAAACG
1 TTTTAAAATTTTAAAATTAATTTAAAAAACG
* *
53373862 TTTTAATATCTTTAAAATTGATTTAAAAA
1 TTTTAAAAT-TTTAAAATTAATTTAAAAA
53373891 TTAATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTAAAATTTTAAAATTAATTTAAAAAACG
Found at i:53374026 original size:6 final size:7
Alignment explanation
Indices: 53374009--53374043 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
53373999 ATATTTTTAA
53374009 AAAAATT
1 AAAAATT
53374016 AAAAATT
1 AAAAATT
53374023 AAAAATT
1 AAAAATT
53374030 AAAATATT
1 AAAA-ATT
53374038 ATAAAA
1 A-AAAA
53374044 CTAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 18 0.69
8 5 0.19
9 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:53374124 original size:21 final size:20
Alignment explanation
Indices: 53374099--53374150 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
53374089 TTTATATTAT
*
53374099 TAAAATATATATTTAAAATG
1 TAAAAAATATATTTAAAATG
* *
53374119 TAAAAAAATAATATTTAAATTT
1 T-AAAAAAT-ATATTTAAAATG
53374141 TAAAAAATAT
1 TAAAAAATAT
53374151 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAAATATATTTAAAATG
Found at i:53374132 original size:22 final size:23
Alignment explanation
Indices: 53374100--53374147 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
53374090 TTATATTATT
53374100 AAAATATATATTTAAAATGTAAA
1 AAAATATATATTTAAAATGTAAA
* *
53374123 AAAATA-ATATTTAAATTTTAAA
1 AAAATATATATTTAAAATGTAAA
53374145 AAA
1 AAA
53374148 TATTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAAATATATATTTAAAATGTAAA
Found at i:53374204 original size:32 final size:32
Alignment explanation
Indices: 53374131--53374206 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
53374121 AAAAAATAAT
* * * *
53374131 ATTTAAATTTTAAAAAATATTTTTTTAAATAT
1 ATTTAAATTTTAAAAAATAATATTATAAATAC
53374163 ATTTAAAATTTTAAAAAATAATATTATAAA-AC
1 ATTT-AAATTTTAAAAAATAATATTATAAATAC
53374195 ATTTCAAATTTT
1 ATTT-AAATTTT
53374207 TTAAAATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 16 0.42
33 22 0.58
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
ATTTAAATTTTAAAAAATAATATTATAAATAC
Found at i:53374308 original size:25 final size:24
Alignment explanation
Indices: 53374255--53374309 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
53374245 GACAAATAAA
*
53374255 AAAAACTTAAAAAAAGTAAATAAAT
1 AAAAACTTAAAAAAAG-AAAAAAAT
53374280 AAAAACTTAAAAAGAA-AAAAAAAT
1 AAAAACTTAAAAA-AAGAAAAAAAT
53374304 GAAAAA
1 -AAAAA
53374310 GGACAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 18 0.67
26 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (24 bp):
AAAAACTTAAAAAAAGAAAAAAAT
Found at i:53380081 original size:3 final size:3
Alignment explanation
Indices: 53380073--53380105 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
53380063 TATATTTCAA
53380073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
53380106 GCAAATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53388683 original size:28 final size:28
Alignment explanation
Indices: 53388586--53388681 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
53388576 AAAAATAAAA
53388586 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
53388614 ATTTACCAAAATATTACAAC--TTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
53388640 ATTTACCAAAATATATA-AACTTTTTTTT
1 ATTTACCAAAATAT-TACAACTTTTTTTT
53388668 ATTTACCAAAATAT
1 ATTTACCAAAATAT
53388682 ATCAAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.35
27 2 0.03
28 40 0.62
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:53388894 original size:19 final size:18
Alignment explanation
Indices: 53388872--53388941 Score: 86
Period size: 19 Copynumber: 3.8 Consensus size: 18
53388862 TTCAACTCAT
*
53388872 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACT-TA
*
53388891 TTTTAATTTAATAAATTA
1 TTTTAATTTAATAACTTA
* *
53388909 TTCTCATTTAATAACTTTA
1 TTTTAATTTAATAAC-TTA
53388928 TTTTAATTTAATAA
1 TTTTAATTTAATAA
53388942 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 14 0.33
19 29 0.67
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATTTAATAACTTA
Found at i:53388921 original size:37 final size:37
Alignment explanation
Indices: 53388877--53388947 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
53388867 CTCATTTTTT
*
53388877 ATTTAATAACTCTATTTTAATTTAATAAATTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
53388914 ATTTAATAACTTTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
53388948 AAGTAATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.52
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:53389554 original size:37 final size:37
Alignment explanation
Indices: 53389505--53389575 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
53389495 AGTATTACTT
53389505 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
*
53389542 AATATTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
53389576 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:53389563 original size:18 final size:18
Alignment explanation
Indices: 53389505--53389579 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
53389495 AGTATTACTT
*
53389505 AATAGTTTATTAAATTAA
1 AATAATTTATTAAATTAA
* * *
53389523 AATAGAGTTATTAAATGAG
1 AATA-ATTTATTAAATTAA
*
53389542 AATATTTTATTAAATTAA
1 AATAATTTATTAAATTAA
*
53389560 AATAGAGTTATTAAA-TAA
1 AATA-ATTTATTAAATTAA
53389578 AA
1 AA
53389580 AAATGAGTTG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 23 0.51
19 22 0.49
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (18 bp):
AATAATTTATTAAATTAA
Found at i:53389580 original size:19 final size:19
Alignment explanation
Indices: 53389511--53389579 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
53389501 ACTTAATAGT
53389511 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * **
53389530 TTATTAAATGAGAATA-TT
1 TTATTAAATTAAAATAGAG
53389548 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
53389567 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
53389580 AAATGAGTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:53389587 original size:20 final size:19
Alignment explanation
Indices: 53389511--53389588 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
53389501 ACTTAATAGT
* *
53389511 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
* * * **
53389530 TTATTAAATGAGAATA-TT
1 TTATTAAATAAAAAAAGAG
* *
53389548 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
53389567 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
53389587 TT
1 TT
53389589 GAAGGGGAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
18 14 0.30
19 28 0.60
20 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:53389730 original size:27 final size:26
Alignment explanation
Indices: 53389653--53389738 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
53389643 ATTTTTTTCC
*
53389653 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
53389678 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
53389706 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
53389733 ATTGGC
1 TTTGGC
53389739 TGGTGTCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:53389851 original size:26 final size:27
Alignment explanation
Indices: 53389771--53389866 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 27
53389761 TTTTTTTTAT
53389771 ATATTTTGGTAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAA-TTGTA
53389798 TATATTTTGGTAAATAAAAAAAAATTGTA
1 -ATATTTTGGTAAAT-AAAAAAAATTGTA
53389827 ATATTTTGGTAAAT-AAAAAAATTGTA
1 ATATTTTGGTAAATAAAAAAAATTGTA
*
53389853 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
53389867 TTTTATTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
26 25 0.38
28 30 0.46
29 10 0.15
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTGTA
Found at i:53389881 original size:17 final size:18
Alignment explanation
Indices: 53389856--53389890 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53389846 AATTGTAATA
53389856 TTTTGATAA-ATTTTTAT
1 TTTTGATAATATTTTTAT
*
53389873 TTTTTATAATATTTTTAT
1 TTTTGATAATATTTTTAT
53389891 AAAAAACTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTGATAATATTTTTAT
Found at i:53390702 original size:21 final size:21
Alignment explanation
Indices: 53390669--53390719 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
53390659 ACTTTGATAC
*
53390669 ATTA-ATTTATTTGTATTATT
1 ATTATATTTATTTGTATCATT
* * *
53390689 TTTATATTTTTTTGTGTCATT
1 ATTATATTTATTTGTATCATT
53390710 ATTATATTTA
1 ATTATATTTA
53390720 AAATATTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (21 bp):
ATTATATTTATTTGTATCATT
Found at i:53392380 original size:28 final size:29
Alignment explanation
Indices: 53392348--53392407 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
53392338 CTTTTCTATA
**
53392348 TTTTTAATAATTTTAATAAATTTTAA-AT
1 TTTTTAATAATGGTAATAAATTTTAATAT
* * *
53392376 TTTTTTATTATGGTAATAATTTTTAATAT
1 TTTTTAATAATGGTAATAAATTTTAATAT
53392405 TTT
1 TTT
53392408 CTGTAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTAATAATGGTAATAAATTTTAATAT
Found at i:53406717 original size:24 final size:25
Alignment explanation
Indices: 53406690--53406743 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
53406680 GTTATTAGGG
* *
53406690 TTACCGATTC-TAGCTCTTATGAGC
1 TTACCGATACTTAGCTCGTATGAGC
*
53406714 TTACCGATACTTAGCTCGTGTGAGC
1 TTACCGATACTTAGCTCGTATGAGC
53406739 TTACC
1 TTACC
53406744 ATTATTCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
TTACCGATACTTAGCTCGTATGAGC
Found at i:53409051 original size:25 final size:25
Alignment explanation
Indices: 53409023--53409078 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
53409013 GCATGTCATT
*
53409023 GGGAAGCT-TTGTCGAGCCATATAAC
1 GGGAAGCTCATGT-GAGCCATATAAC
* *
53409048 GGGAAACTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATATAAC
*
53409073 GAGAAG
1 GGGAAG
53409079 TTCAAGCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCCATATAAC
Found at i:53409153 original size:27 final size:26
Alignment explanation
Indices: 53409109--53409161 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
53409099 GAAGCTCCGG
* *
53409109 AGAGCCATTAATTAGGAATCTCATGAA
1 AGAGCCATTAATGAGGAAGCTC-TGAA
* *
53409136 AGAGCCTTTAATGGGGAAGCTCTGAA
1 AGAGCCATTAATGAGGAAGCTCTGAA
53409162 GAGTCATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (26 bp):
AGAGCCATTAATGAGGAAGCTCTGAA
Found at i:53411302 original size:39 final size:39
Alignment explanation
Indices: 53411258--53411332 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
53411248 GTAAAAAAGA
53411258 AAAGACCTTTTGAACGTTTTTT-CTTCTCTTCTCTCTACT
1 AAAGACCTTTTGAAC-TTTTTTGCTTCTCTTCTCTCTACT
53411297 AAAGACCTTTTGAACTTTTTTGCTTCTCTTCTCTCT
1 AAAGACCTTTTGAACTTTTTTGCTTCTCTTCTCTCT
53411333 GCTTTGTCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 6 0.17
39 29 0.83
ACGTcount: A:0.17, C:0.25, G:0.08, T:0.49
Consensus pattern (39 bp):
AAAGACCTTTTGAACTTTTTTGCTTCTCTTCTCTCTACT
Found at i:53413127 original size:53 final size:54
Alignment explanation
Indices: 53413065--53413293 Score: 202
Period size: 53 Copynumber: 4.3 Consensus size: 54
53413055 ACTGGCCACA
* * *
53413065 ACCCTAAATTTTTTTTATCT-GATGAAG-GGTTGTCAGCCATCAGTGTCCCAAT
1 ACCCCAAATTTTTTTTATCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * * *
53413117 ACCCCCAAATTTTTTTAATTCTGGA-AAAGAGGTTCT-AGCCATCAGTGTCCCAGC
1 A-CCCCAAATTTTTTTTA-TCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * ** * *
53413171 ACCCAAAATTTTTTTTAAT-TAGATAAAGACG-TGTTGGCCATTAGTGTCCTAAC
1 ACCCCAAATTTTTTTT-ATCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
* * * * * *
53413224 ACCCCAAAATTTTTTTATTTAGATAAAG-GGGTGCCGGCCATCAGTGTCACAAC
1 ACCCCAAATTTTTTTTATCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
*
53413277 ACCCCAATTTTTTTTTA
1 ACCCCAAATTTTTTTTA
53413294 AATATACCAG
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
52 9 0.06
53 103 0.72
54 24 0.17
55 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
ACCCCAAATTTTTTTTATCTAGATAAAGAGGTTGTCAGCCATCAGTGTCCCAAC
Found at i:53413229 original size:106 final size:107
Alignment explanation
Indices: 53413100--53413294 Score: 243
Period size: 106 Copynumber: 1.8 Consensus size: 107
53413090 AGGGTTGTCA
* * * *
53413100 GCCATCAGTGTCCCAATACCCCC-AAATTTTTTTAATTCTGGA-AAAGAGGTTCTAGCCATCAGT
1 GCCATCAGTGTCCCAACACCCCCAAAATTTTTTT-ATT-TAGATAAAGAGGTGCCAGCCATCAGT
* *
53413163 GTCCCAGCACCCAAAATTTTTTTTAATTAGATAAAGACGTGTTG
64 GTCACAACACCCAAAATTTTTTTTAATTAGATAAAGACGTGTTG
* * * *
53413207 GCCATTAGTGTCCTAACA-CCCCAAAATTTTTTTATTTAGATAAAGGGGTGCCGGCCATCAGTGT
1 GCCATCAGTGTCCCAACACCCCCAAAATTTTTTTATTTAGATAAAGAGGTGCCAGCCATCAGTGT
* *
53413271 CACAACACCCCAATTTTTTTTTAA
66 CACAACACCCAAAATTTTTTTTAA
53413295 ATATACCAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
106 46 0.62
107 25 0.34
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (107 bp):
GCCATCAGTGTCCCAACACCCCCAAAATTTTTTTATTTAGATAAAGAGGTGCCAGCCATCAGTGT
CACAACACCCAAAATTTTTTTTAATTAGATAAAGACGTGTTG
Found at i:53415463 original size:109 final size:109
Alignment explanation
Indices: 53415272--53415579 Score: 496
Period size: 109 Copynumber: 2.9 Consensus size: 109
53415262 TTTTTTAAAG
* *
53415272 TAAGGCAATATTTTGCGTTTGGAAATTCAAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
**
53415337 CTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATTTCAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
* *
53415381 TAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCGATTTTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
*
53415446 CTCGTTCAACCAAATAGCTAAATATTCTTCCAAAAATTTCAAAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
* *
53415490 TAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGTTTTCGA--TTT
1 TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
* *
53415552 CTCGTTTAACCAAATAGCCAAATATCCT
66 CTCGTTCAACCAAATAGCTAAATATCCT
53415580 CTTGAATTTT
Statistics
Matches: 185, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
106 28 0.15
108 25 0.14
109 132 0.71
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (109 bp):
TAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTT
CTCGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAA
Found at i:53417161 original size:21 final size:21
Alignment explanation
Indices: 53417136--53417185 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
53417126 AATTTGCAAT
* * *
53417136 TGTTTTCTCTTTTTTTTTTGC
1 TGTTTTCTATTATTTTGTTGC
*
53417157 TGTTTTTTATTATTTTGTTGC
1 TGTTTTCTATTATTTTGTTGC
*
53417178 TATTTTCT
1 TGTTTTCT
53417186 TGGTTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.74
Consensus pattern (21 bp):
TGTTTTCTATTATTTTGTTGC
Found at i:53420449 original size:15 final size:14
Alignment explanation
Indices: 53420397--53420449 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
53420387 TCTTATCTTA
*
53420397 TTTTTAAATATATT
1 TTTTTAATTATATT
* *
53420411 TTTATAATTACATAT
1 TTTTTAATTATAT-T
*
53420426 TTATTAATTATATT
1 TTTTTAATTATATT
53420440 TTTTTGAATT
1 TTTTT-AATT
53420450 TTTAAAAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTTAATTATATT
Found at i:53423449 original size:16 final size:17
Alignment explanation
Indices: 53423407--53423470 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
53423397 ATGAGAAGTG
53423407 AATATGAG--ATGAGAA
1 AATATGAGAAATGAGAA
*
53423422 AATAT-TGAAATG-GAA
1 AATATGAGAAATGAGAA
* *
53423437 AATATGAGAAATGATTAT
1 AATATGAGAAATGA-GAA
*
53423455 GATATGAGAAATGAGA
1 AATATGAGAAATGAGA
53423471 TATGAAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.03
15 13 0.34
16 9 0.24
17 1 0.03
18 14 0.37
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (17 bp):
AATATGAGAAATGAGAA
Found at i:53424775 original size:49 final size:49
Alignment explanation
Indices: 53424696--53424789 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
53424686 TCAAGAAGGG
* * * **
53424696 ATAAATAATGATAAGAGTGTAGATATTGGAAGATTAAGTTTAGCAATGT
1 ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
*
53424745 ATAAATAGTGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCA
53424790 TTGCATAGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (49 bp):
ATAAATAATGATAAAAGTGTAGACAGTGGAAGACCAAGTTTAGCAATGT
Found at i:53425332 original size:23 final size:23
Alignment explanation
Indices: 53425283--53425404 Score: 136
Period size: 23 Copynumber: 5.2 Consensus size: 23
53425273 GGTCAGCTCT
* ** * *
53425283 TATACATCAAATCAGACAACATT
1 TATACACCAAATTGGACAGCATA
* *
53425306 TATACACCCAATTGGATAGCATATA
1 TATACACCAAATTGGACAGC--ATA
*
53425331 TATATACCAAATTGGACAGCATA
1 TATACACCAAATTGGACAGCATA
*
53425354 TATACACCAAATTGGACAGCATTT
1 TATACACCAAATTGGACAGCA-TA
53425378 TATACACCAAATTGGACAGCATA
1 TATACACCAAATTGGACAGCATA
53425401 TATA
1 TATA
53425405 TATACTCAAT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
23 42 0.51
24 22 0.27
25 19 0.23
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (23 bp):
TATACACCAAATTGGACAGCATA
Found at i:53425402 original size:47 final size:48
Alignment explanation
Indices: 53425282--53425404 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
53425272 TGGTCAGCTC
* ** * * * *
53425282 TTATACATCAAATCAGACAACATTTATACACCCAATTGGATAGCATAT
1 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATAT
* *
53425330 ATATATACCAAATTGGACAGCATATATACACCAAATTGGACAGCAT-T
1 TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATAT
53425377 TTATACACCAAATTGGACAGCATATATA
1 TTATACACCAAATTGGACAGCATATATA
53425405 TATACTCAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
47 27 0.42
48 37 0.58
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (48 bp):
TTATACACCAAATTGGACAGCATATATACACCAAATTGGACAGCATAT
Found at i:53428396 original size:42 final size:42
Alignment explanation
Indices: 53428335--53428519 Score: 191
Period size: 42 Copynumber: 4.5 Consensus size: 42
53428325 CAGTGCCTAT
* *
53428335 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* *
53428377 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCCAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * **
53428419 CAGGCTTAATGCCAGTGAAAC-ATTTCAGACTATATATCTAG
1 CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
* * * * *
53428460 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCAGTGAAAC-AATATCAGACTTTACGTCTAG
53428501 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCAGTGAA
53428520 TCTGTTTAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.04
41 56 0.47
42 59 0.49
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
CAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGTCTAG
Found at i:53430742 original size:13 final size:13
Alignment explanation
Indices: 53430724--53430748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53430714 CTCAAACAAT
53430724 AAATTTTCACACG
1 AAATTTTCACACG
53430737 AAATTTTCACAC
1 AAATTTTCACAC
53430749 ATATTGATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:53441672 original size:152 final size:153
Alignment explanation
Indices: 53441491--53442002 Score: 732
Period size: 152 Copynumber: 3.4 Consensus size: 153
53441481 TTTCAAAAAA
* *
53441491 ATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
*
53441556 TTTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
66 TTTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTA-
53441621 TTTTTCAATTT-T-TTTTTCAAAG
130 TTTTTCAATTTCTATTTTTCAAAG
* * * * *
53441643 ATCAACTCATAATCTGATAGGTGAGTTGAGCCTCGAGTCGCACGCTGAAGTATTTTTTCAATTT-
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
*
53441707 TTGTTTTTCAAAGATCAACTCATAA-TCTGAGAGGTGAGTTGAGCCTCGGGTTACACGCCGAGGT
66 TT-TTTTTCAAAGATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGT
*
53441771 GTTTTTCAATTTCTATTTTT-AAAG
129 ATTTTTCAATTTCTATTTTTCAAAG
* * * *
53441795 ATCAACTTATAATCCGAGAGGTGAGTTGAGTCTTGGGTTGCACGCCGAGGTA-TTTTT-AATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
* * * * *
53441858 TGTTTTTCAAAGGTCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAAGTAT
66 TTTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
*
53441923 TTTTCAATTTCTGTTTTTCAAAG
131 TTTTCAATTTCTATTTTTCAAAG
* * * *
53441946 ATCAACTCATAATCCGATAAGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTATTTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTT
53442003 AAATTTCAGT
Statistics
Matches: 317, Mismatches: 35, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
150 77 0.24
151 70 0.22
152 165 0.52
153 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (153 bp):
ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
TTTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
TTTTCAATTTCTATTTTTCAAAG
Found at i:53441696 original size:75 final size:77
Alignment explanation
Indices: 53441491--53442002 Score: 732
Period size: 75 Copynumber: 6.7 Consensus size: 77
53441481 TTTCAAAAAA
* *
53441491 ATCAACTCATAATCCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
*
53441556 TTTTTTTCAAAG
66 TGTTTTTCAAAG
* * *
53441568 ATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTCAATTT-
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
53441632 T-TTTTTCAAAG
66 TGTTTTTCAAAG
* * * * * *
53441643 ATCAACTCATAATCTGATAGGTGAGTTGAGCCTCGAGTCGCACGCTGAAGTATTTTTTCAATTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
53441708 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* ** *
53441720 ATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTTACACGCCGAGGT-GTTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
*
53441784 TATTTTT-AAAG
66 TGTTTTTCAAAG
* * * *
53441795 ATCAACTTATAATCCGAGAGGTGAGTTGAGTCTTGGGTTGCACGCCGAGGTA-TTTTT-AATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
53441858 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* *
53441870 GTCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAAGTA-TTTTTCAATTTC
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
53441934 TGTTTTTCAAAG
66 TGTTTTTCAAAG
* * * *
53441946 ATCAACTCATAATCCGATAAGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTATTTTT
1 ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTT
53442003 AAATTTCAGT
Statistics
Matches: 391, Mismatches: 38, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
74 12 0.03
75 176 0.45
76 83 0.21
77 120 0.31
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (77 bp):
ATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGGTATTTTTTCAATTTC
TGTTTTTCAAAG
Found at i:53442574 original size:29 final size:30
Alignment explanation
Indices: 53442536--53442636 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
53442526 AAAATTTACT
* *
53442536 AATTATATTTTG-GCTCTAACTTTTTCTAA
1 AATTACATTTTGACCTCTAACTTTTTCTAA
* * *
53442565 AATTACATTTTGTCCCCTAACTTTTCCTAA
1 AATTACATTTTGACCTCTAACTTTTTCTAA
*
53442595 AATTATATTTTGACCTCTAAC-TTTTCTTAA
1 AATTACATTTTGACCTCTAACTTTTTC-TAA
53442625 AATTACATTTTG
1 AATTACATTTTG
53442637 GCCCCGTGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 15 0.25
30 46 0.75
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.49
Consensus pattern (30 bp):
AATTACATTTTGACCTCTAACTTTTTCTAA
Found at i:53443224 original size:10 final size:10
Alignment explanation
Indices: 53443209--53443235 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53443199 CGGAGTTTTG
53443209 AAAAAAATAA
1 AAAAAAATAA
53443219 AAAAAAATAA
1 AAAAAAATAA
53443229 AAAAAAA
1 AAAAAAA
53443236 ATAAGGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:53443225 original size:11 final size:11
Alignment explanation
Indices: 53443209--53443239 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
53443199 CGGAGTTTTG
53443209 AAAAAAAT-AA
1 AAAAAAATAAA
53443219 AAAAAAATAAA
1 AAAAAAATAAA
53443230 AAAAAAATAA
1 AAAAAAATAA
53443240 GGAAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:53443252 original size:20 final size:19
Alignment explanation
Indices: 53443227--53443274 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
53443217 AAAAAAAAAT
53443227 AAAAAAAAAATAAGGAAAG
1 AAAAAAAAAATAAGGAAAG
*
53443246 AAGAAAAAAAATAAGGAATG
1 AA-AAAAAAAATAAGGAAAG
53443266 AAAAAAAAA
1 AAAAAAAAA
53443275 GGGGGGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAATAAGGAAAG
Found at i:53447643 original size:10 final size:9
Alignment explanation
Indices: 53447613--53447833 Score: 94
Period size: 10 Copynumber: 22.7 Consensus size: 9
53447603 TATTAAATTT
53447613 TTTTTATAA
1 TTTTTATAA
*
53447622 TATTTATAAA
1 TTTTTAT-AA
53447632 TTTTTATGAA
1 TTTTTAT-AA
53447642 TTTTTTTATAA
1 --TTTTTATAA
53447653 -TTTTATAA
1 TTTTTATAA
* *
53447661 GTTTATAGAAA
1 -TTTTTA-TAA
*
53447672 GTTTTA-AA
1 TTTTTATAA
53447680 TATTTTAATACA
1 T-TTTT-ATA-A
* *
53447692 CTTTTAT-T
1 TTTTTATAA
*
53447700 TTTTTAGAA
1 TTTTTATAA
53447709 TTTATTATAA
1 TTT-TTATAA
53447719 TTTTTATAAA
1 TTTTTAT-AA
*
53447729 CTTTTATTAA
1 TTTTTA-TAA
53447739 TTTTTTAATAA
1 -TTTTT-ATAA
53447750 TATTTTATAA
1 T-TTTTATAA
53447760 GTTTTTA-AA
1 -TTTTTATAA
*
53447769 TATTTAT-A
1 TTTTTATAA
*
53447777 TTTTTAATGA
1 TTTTT-ATAA
53447787 TTTTTATGAAATTA
1 TTTTTAT---A--A
53447801 TTTTTATAA
1 TTTTTATAA
*
53447810 TTTTTA-AT
1 TTTTTATAA
53447818 TTTTTAATAA
1 TTTTT-ATAA
53447828 TTTTTA
1 TTTTTA
53447834 AATAAAAAAT
Statistics
Matches: 163, Mismatches: 21, Indels: 56
0.68 0.09 0.23
Matches are distributed among these distances:
8 31 0.19
9 32 0.20
10 60 0.37
11 23 0.14
12 9 0.06
14 8 0.05
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:53447749 original size:22 final size:22
Alignment explanation
Indices: 53447709--53447833 Score: 62
Period size: 21 Copynumber: 6.2 Consensus size: 22
53447699 TTTTTTAGAA
53447709 TTTATTATAATTTTT-ATAA-ACT
1 TTTATTA-AATTTTTAATAATA-T
*
53447731 TTTATTAATTTTTTAATAATAT
1 TTTATTAAATTTTTAATAATAT
*
53447753 TTTA-TAAGTTTTT-A-AATA-
1 TTTATTAAATTTTTAATAATAT
*
53447771 TTTA-T--ATTTTTAATGAT-T
1 TTTATTAAATTTTTAATAATAT
* * *
53447789 TTTATGAAATTATTT--TTATAA
1 TTTATTAAATT-TTTAATAATAT
*
53447810 TTT-TTAATTTTTTAATAAT-T
1 TTTATTAAATTTTTAATAATAT
53447830 TTTA
1 TTTA
53447834 AATAAAAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
16 5 0.06
17 1 0.01
18 11 0.14
19 7 0.09
20 12 0.15
21 23 0.29
22 19 0.24
23 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTAAATTTTTAATAATAT
Found at i:53447758 original size:41 final size:38
Alignment explanation
Indices: 53447697--53447833 Score: 113
Period size: 41 Copynumber: 3.5 Consensus size: 38
53447687 ATACACTTTT
* *
53447697 ATTTTTTTAGAATTTATTATAATTTTTATAAACTTTTATTA
1 ATTTTTTAATAATTT-TTATAATTTTT-TAAA-TTTTATTA
*
53447738 ATTTTTTAATAATATTTTATAAGTTTTTAAATATTTA-T-
1 ATTTTTTAATAAT-TTTTATAATTTTTTAAAT-TTTATTA
*
53447776 A-TTTTTAATGATTTTTATGAAATTATTTTTATAA-TTT-TTA
1 ATTTTTTAATAATTTTTAT--AA-T-TTTTTA-AATTTTATTA
53447816 ATTTTTTAATAATTTTTA
1 ATTTTTTAATAATTTTTA
53447834 AATAAAAAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
36 6 0.08
37 10 0.12
38 3 0.04
39 6 0.08
40 15 0.19
41 38 0.47
42 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (38 bp):
ATTTTTTAATAATTTTTATAATTTTTTAAATTTTATTA
Found at i:53447834 original size:18 final size:18
Alignment explanation
Indices: 53447735--53447834 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 18
53447725 TAAACTTTTA
53447735 TTAATTTTTTAATAATATTT
1 TTAATTTTTTAAT-A-ATTT
* *
53447755 TATAAGTTTTT-A-AATAT
1 T-TAATTTTTTAATAATTT
*
53447772 TT-ATATTTTTAATGATTTT
1 TTAAT-TTTTTAAT-AATTT
*
53447791 TATGAAATTATTTTTATAATTT
1 T-T--AATT-TTTTAATAATTT
53447813 TTAATTTTTTAATAATTT
1 TTAATTTTTTAATAATTT
53447831 TTAA
1 TTAA
53447835 ATAAAAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
15 1 0.02
16 6 0.10
17 5 0.08
18 16 0.26
19 8 0.13
20 3 0.05
21 9 0.15
22 6 0.10
23 8 0.13
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTAATTTTTTAATAATTT
Found at i:53456354 original size:24 final size:24
Alignment explanation
Indices: 53456322--53456367 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
53456312 TAATCGACAC
* * *
53456322 TTATTTTCAAATATATTTTTATAT
1 TTATATTCAAATAAAATTTTATAT
53456346 TTATATTCAAATAAAATTTTAT
1 TTATATTCAAATAAAATTTTAT
53456368 TATCAATACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATATTCAAATAAAATTTTATAT
Found at i:53459626 original size:7 final size:7
Alignment explanation
Indices: 53459614--53459646 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
53459604 GTTATACACA
53459614 TATAAGG
1 TATAAGG
53459621 TATAAGG
1 TATAAGG
53459628 TATAAGG
1 TATAAGG
53459635 TATAAGG
1 TATAAGG
53459642 TATAA
1 TATAA
53459647 TATTATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.30
Consensus pattern (7 bp):
TATAAGG
Found at i:53460858 original size:20 final size:20
Alignment explanation
Indices: 53460835--53460894 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
53460825 ATGTACATGC
*
53460835 GTATATATTTACAAA-AAAAA
1 GTATATATATA-AAATAAAAA
*
53460855 GTATATATATAAAATATAAA
1 GTATATATATAAAATAAAAA
53460875 GTATATATA-AAAAGTAAAAA
1 GTATATATATAAAA-TAAAAA
53460895 ACAAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.20
20 28 0.80
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
GTATATATATAAAATAAAAA
Found at i:53460900 original size:13 final size:13
Alignment explanation
Indices: 53460883--53460913 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
53460873 AAGTATATAT
53460883 AAAAAGTAAAAAAC
1 AAAAA-TAAAAAAC
53460897 AAAAATAAAAAAC
1 AAAAATAAAAAAC
53460910 AAAA
1 AAAA
53460914 CATATGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (13 bp):
AAAAATAAAAAAC
Found at i:53461065 original size:3 final size:3
Alignment explanation
Indices: 53461044--53461112 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
53461034 AGAAAATATG
* * *
53461044 ATA ATA ATCA ATA ACA ATA ATAA ATA AT- ATA ATA AAA ATA ATTA ATT
1 ATA ATA AT-A ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA
*
53461091 TTA ATA ATA A-A ATA ATTA ATA A
1 ATA ATA ATA ATA ATA A-TA ATA A
53461113 CAAGGGACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
2 4 0.08
3 36 0.69
4 12 0.23
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53461077 original size:21 final size:21
Alignment explanation
Indices: 53461044--53461112 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
53461034 AGAAAATATG
*
53461044 ATAATAATCAATAACAATAATAA
1 ATAATAAT-AATAA-AATAATTA
53461067 ATAAT-ATAATAAAAATAATTA
1 ATAATAATAAT-AAAATAATTA
**
53461088 ATTTTAATAATAAAATAATTA
1 ATAATAATAATAAAATAATTA
53461109 ATAA
1 ATAA
53461113 CAAGGGACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 25 0.64
22 9 0.23
23 5 0.13
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATAATAAAATAATTA
Found at i:53461084 original size:34 final size:34
Alignment explanation
Indices: 53461046--53461112 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
53461036 AAAATATGAT
53461046 AATAATCAATAACAATAAT-AAATAATATAATAAA
1 AATAATCAATAACAATAATAAAATAAT-TAATAAA
* ***
53461080 AATAATTAATTTTAATAATAAAATAATTAATAA
1 AATAATCAATAACAATAATAAAATAATTAATAA
53461113 CAAGGGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (34 bp):
AATAATCAATAACAATAATAAAATAATTAATAAA
Found at i:53461682 original size:5 final size:5
Alignment explanation
Indices: 53461674--53461707 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
53461664 TCGTTATTTT
*
53461674 AAATA AAATA AAATGA AAATA AAAGA AAATA AAA
1 AAATA AAATA AAAT-A AAATA AAATA AAATA AAA
53461708 AATATGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (5 bp):
AAATA
Done.