Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 42 of 145
Found at i:14943689 original size:30 final size:30
Alignment explanation
Indices: 14943633--14943692 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
14943623 TTAATATACC
*
14943633 ATCATATTAATTAATATTACTTTTATTATT
1 ATCATATTAATTAATATTACTATTATTATT
14943663 ATCATA-TAA-TAATATTAACTAATTATTATT
1 ATCATATTAATTAATATT-ACT-ATTATTATT
14943693 TTAATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 7 0.26
29 6 0.22
30 14 0.52
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.52
Consensus pattern (30 bp):
ATCATATTAATTAATATTACTATTATTATT
Found at i:14947724 original size:17 final size:18
Alignment explanation
Indices: 14947691--14947725 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14947681 ATATTACAAC
14947691 GTGATAACATAAGTGACT
1 GTGATAACATAAGTGACT
14947709 GTGATAACAT-AGTGACT
1 GTGATAACATAAGTGACT
14947726 AAAACGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (18 bp):
GTGATAACATAAGTGACT
Found at i:14954607 original size:23 final size:23
Alignment explanation
Indices: 14954577--14954621 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14954567 TTTGATATGA
*
14954577 ATTTTT-AATAGCATGTGAATTTT
1 ATTTTTAAATA-CATGTAAATTTT
14954600 ATTTTTAAATACATGTAAATTT
1 ATTTTTAAATACATGTAAATTT
14954622 AAGTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (23 bp):
ATTTTTAAATACATGTAAATTTT
Found at i:14954622 original size:22 final size:24
Alignment explanation
Indices: 14954577--14954632 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
14954567 TTTGATATGA
*
14954577 ATTTTT-AATAGCATGTGAATTTT
1 ATTTTTAAATAGCATGTGAAATTT
14954600 ATTTTTAAATA-CATGT-AAATTT
1 ATTTTTAAATAGCATGTGAAATTT
**
14954622 AAGTTTAAATA
1 ATTTTTAAATA
14954633 AAATAATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.48
23 11 0.38
24 4 0.14
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTTTAAATAGCATGTGAAATTT
Found at i:14955752 original size:7 final size:6
Alignment explanation
Indices: 14955738--14955767 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14955728 TTACACTTTA
*
14955738 TTTATT TTTATT TTTATT TTTAAT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
14955768 GTGAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:14957608 original size:2 final size:2
Alignment explanation
Indices: 14957601--14957637 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14957591 ACCTACACCA
*
14957601 TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14957638 AATTAACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.03, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14970173 original size:21 final size:19
Alignment explanation
Indices: 14970127--14970201 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
14970117 AACTTTTGAG
*
14970127 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
14970146 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14970165 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
14970186 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
14970202 ATATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14975579 original size:30 final size:30
Alignment explanation
Indices: 14975543--14975643 Score: 87
Period size: 30 Copynumber: 3.2 Consensus size: 30
14975533 CAGAGTACTG
14975543 TGGATCTCCTAAACACATGTCAAACTCAGA
1 TGGATCTCCTAAACACATGTCAAACTCAGA
** * * * * *
14975573 TGGATCTTCAAAAAAAAGCATTGGCAGAGTACTG-
1 TGGATC-TC-CTAAACA-CA-TGTCAAACT-CAGA
14975607 TGGATCTCCTAAACACATGTCAAACTCAGA
1 TGGATCTCCTAAACACATGTCAAACTCAGA
14975637 TGGATCT
1 TGGATCT
14975644 TCAAAAAAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
29 2 0.04
30 19 0.37
31 4 0.08
32 8 0.16
33 4 0.08
34 12 0.24
35 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (30 bp):
TGGATCTCCTAAACACATGTCAAACTCAGA
Found at i:14975595 original size:64 final size:64
Alignment explanation
Indices: 14975526--14975653 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
14975516 ACATCTTGGG
14975526 GCATTGGCAGAGTACTGTGGATCTCCTAAACACATGTCAAACTCAGATGGATCTTCAAAAAAAA
1 GCATTGGCAGAGTACTGTGGATCTCCTAAACACATGTCAAACTCAGATGGATCTTCAAAAAAAA
14975590 GCATTGGCAGAGTACTGTGGATCTCCTAAACACATGTCAAACTCAGATGGATCTTCAAAAAAAA
1 GCATTGGCAGAGTACTGTGGATCTCCTAAACACATGTCAAACTCAGATGGATCTTCAAAAAAAA
14975654 AGTTTGTACA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (64 bp):
GCATTGGCAGAGTACTGTGGATCTCCTAAACACATGTCAAACTCAGATGGATCTTCAAAAAAAA
Found at i:14985048 original size:21 final size:21
Alignment explanation
Indices: 14985020--14985059 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14985010 ATAAAATATG
14985020 CATATAATTAGATT-TAAACC
1 CATATAATTAGATTGTAAACC
*
14985040 CATACTAATTGGATTGTAAA
1 CATA-TAATTAGATTGTAAA
14985060 AGCTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
CATATAATTAGATTGTAAACC
Found at i:14989510 original size:22 final size:22
Alignment explanation
Indices: 14989484--14989528 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14989474 AATATTGGAT
*
14989484 ATAAACTGTATTTTT-ATATTTA
1 ATAAAATG-ATTTTTAATATTTA
14989506 ATAAAATGATTTTTCAATATTTA
1 ATAAAATGATTTTT-AATATTTA
14989529 TAATTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATAAAATGATTTTTAATATTTA
Found at i:14995143 original size:29 final size:29
Alignment explanation
Indices: 14995118--14995172 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
14995108 TTTATGGACT
*
14995118 AAATTGT-AATGTTGTAAAATTCATGGAA
1 AAATTGTAAATGTTATAAAATTCATGGAA
* *
14995146 AAATTTTAAATTTTATAAAATTCATGG
1 AAATTGTAAATGTTATAAAATTCATGG
14995173 GCTGTAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (29 bp):
AAATTGTAAATGTTATAAAATTCATGGAA
Found at i:14995696 original size:24 final size:24
Alignment explanation
Indices: 14995669--14995725 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
14995659 CGAAAGAGTG
*
14995669 TCCCGTTATTAGCTCTCAT-GAGCA
1 TCCCGTTATTAGCCCTC-TCGAGCA
*
14995693 TCCCGTTATTAGCCCTCTCGAGCT
1 TCCCGTTATTAGCCCTCTCGAGCA
14995717 TCCCGTTAT
1 TCCCGTTAT
14995726 ATGGTTCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.35
Consensus pattern (24 bp):
TCCCGTTATTAGCCCTCTCGAGCA
Found at i:14995813 original size:25 final size:25
Alignment explanation
Indices: 14995785--14996035 Score: 151
Period size: 25 Copynumber: 10.2 Consensus size: 25
14995775 ACACACCACA
*
14995785 GCTCTTATGAGCGTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGTTATATG
* * *
14995810 GCTCTTCGTGAGCTTCTCGATTA-AAG
1 GCTCTT-ATGAGCTTCCCG-TTATATG
*
14995836 TCTCTTTATGAGCTTCCCG--ATATG
1 GCTC-TTATGAGCTTCCCGTTATATG
* *
14995860 GCTCGTT-TGAACTTCCCGATATATG
1 GCTC-TTATGAGCTTCCCGTTATATG
* *
14995885 GCTATCT-GGAGCTTCCCGTTA-ATG
1 GCTCT-TATGAGCTTCCCGTTATATG
** * *
14995909 GCTCTTCGGAGCTACCCGTTAT-TA
1 GCTCTTATGAGCTTCCCGTTATATG
* * * *
14995933 GCTCATATGAGCTTTCTGAT-TATG
1 GCTCTTATGAGCTTCCCGTTATATG
***
14995957 GCTCTTATGAGCTTCCCGTTATGCA
1 GCTCTTATGAGCTTCCCGTTATATG
* * * *
14995982 GCCCATATAAGCTTCCCGTTACATG
1 GCTCTTATGAGCTTCCCGTTATATG
**
14996007 GCTCACATGAGC-TCCACGTTATATG
1 GCTCTTATGAGCTTCC-CGTTATATG
14996032 GCTC
1 GCTC
14996036 GAAAGAGGAC
Statistics
Matches: 170, Mismatches: 44, Indels: 24
0.71 0.18 0.10
Matches are distributed among these distances:
23 13 0.08
24 62 0.36
25 66 0.39
26 24 0.14
27 5 0.03
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGTTATATG
Found at i:14995919 original size:24 final size:24
Alignment explanation
Indices: 14995793--14995929 Score: 82
Period size: 24 Copynumber: 5.5 Consensus size: 24
14995783 CAGCTCTTAT
*
14995793 GAGCGTCCCGTTATATGGCTCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
* * * **
14995818 TGAGCTTCTCGATTAAAGTCTCTTTAT
1 -GAGCTTCCCG-TTAATGGCTC-TTCG
* *
14995845 GAGCTTCCCGAT-ATGGCTCGTT-T
1 GAGCTTCCCGTTAATGGCTC-TTCG
* * *
14995868 GAACTTCCCGATATATGGCT-ATCTG
1 GAGCTTCCCGTTA-ATGGCTCTTC-G
14995893 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
*
14995917 GAGCTACCCGTTA
1 GAGCTTCCCGTTA
14995930 TTAGCTCATA
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 13 0.15
24 26 0.30
25 20 0.23
26 22 0.26
27 5 0.06
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:14995945 original size:48 final size:49
Alignment explanation
Indices: 14995784--14996010 Score: 153
Period size: 48 Copynumber: 4.6 Consensus size: 49
14995774 GACACACCAC
* * *
14995784 AGCTCTTATGAGCGTCCCGTTATATGGCTCTTCGTGAGCTTCTCGATTA-A-
1 AGCTCATATGAGCTTCCCGTTA-ATGGCTCTTCG-GAGCTTCCCG-TTATAT
* * * * *
14995834 AGTCTCTTTATGAGCTTCCCGAT-ATGGCTCGTT-TGAACTTCCCGATATAT
1 AG-CTC-ATATGAGCTTCCCGTTAATGGCTC-TTCGGAGCTTCCCGTTATAT
* * *
14995884 GGCT-ATCTGGAGCTTCCCGTTAATGGCTCTTCGGAGCTACCCGTTAT-T
1 AGCTCATAT-GAGCTTCCCGTTAATGGCTCTTCGGAGCTTCCCGTTATAT
* * ** **
14995932 AGCTCATATGAGCTTTCTGATT-ATGGCTCTTATGAGCTTCCCGTTATGC
1 AGCTCATATGAGCTTCCCG-TTAATGGCTCTTCGGAGCTTCCCGTTATAT
* *
14995981 AGCCCATATAAGCTTCCCGTTACATGGCTC
1 AGCTCATATGAGCTTCCCGTTA-ATGGCTC
14996011 ACATGAGCTC
Statistics
Matches: 138, Mismatches: 26, Indels: 26
0.73 0.14 0.14
Matches are distributed among these distances:
47 2 0.01
48 51 0.37
49 49 0.36
50 17 0.12
51 5 0.04
52 14 0.10
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (49 bp):
AGCTCATATGAGCTTCCCGTTAATGGCTCTTCGGAGCTTCCCGTTATAT
Found at i:14996336 original size:13 final size:13
Alignment explanation
Indices: 14996318--14996342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14996308 TGATTTATAT
14996318 GTGTGAAAATTTC
1 GTGTGAAAATTTC
14996331 GTGTGAAAATTT
1 GTGTGAAAATTT
14996343 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:14997071 original size:21 final size:20
Alignment explanation
Indices: 14997028--14997071 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
14997018 GTTTTATTTT
* *
14997028 AAAATAGGGACTAAATTGTA
1 AAAATAGGGACTAAAATGCA
*
14997048 AAAATTAGGGGCTAAAATGCA
1 AAAA-TAGGGACTAAAATGCA
14997069 AAA
1 AAA
14997072 TACCCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
AAAATAGGGACTAAAATGCA
Found at i:15009005 original size:35 final size:35
Alignment explanation
Indices: 15008959--15009028 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15008949 GGTGTCAGTC
15008959 CATTCATGAGGTGAACCACGGGTTTGATAGTATTA
1 CATTCATGAGGTGAACCACGGGTTTGATAGTATTA
*
15008994 CATTCATGAGGTGAACCATGGGTTTGATAGTATTA
1 CATTCATGAGGTGAACCACGGGTTTGATAGTATTA
15009029 TATAATACGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (35 bp):
CATTCATGAGGTGAACCACGGGTTTGATAGTATTA
Found at i:15019793 original size:6 final size:6
Alignment explanation
Indices: 15019784--15019814 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
15019774 CTCAAAATAG
15019784 AAATGA AAATGA AAATGA AAATGA GAAATGA
1 AAATGA AAATGA AAATGA AAATGA -AAATGA
15019815 TTCATTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:15019799 original size:12 final size:13
Alignment explanation
Indices: 15019777--15019814 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
15019767 TGGTTTCCTC
15019777 AAAAT-AGAAATG
1 AAAATGAGAAATG
15019789 AAAATGA-AAATG
1 AAAATGAGAAATG
15019801 AAAATGAGAAATG
1 AAAATGAGAAATG
15019814 A
1 A
15019815 TTCATTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (13 bp):
AAAATGAGAAATG
Found at i:15028138 original size:89 final size:88
Alignment explanation
Indices: 15028027--15028352 Score: 352
Period size: 89 Copynumber: 3.7 Consensus size: 88
15028017 ATGGATTGAA
* * *
15028027 GAAGATAGCAGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCGAAGACACCAGCCTGATCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAATACACCAGCCTGACCTC
*
15028092 CTTGAGTTTGTAGCGGAGCAGACT
66 CCTGAGTTT-TAGCGGAGCAGACT
* * *
15028116 GAAGATAGTAGATCTTGCCTTCCTGTATTGGCAGCGAAGTAGATCGAATACACCAGCCTTG-CCT
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAATACACCAGCC-TGACCT
*
15028180 CCCTGAG-TTTACGACGGAGCAAACT
65 CCCTGAGTTTTA-G-CGGAGCAGACT
* ** * *
15028205 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATCAAATACACCAGCCTTACCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAATACACCAGCCTGACCTC
* ** *
15028270 CCTGAGTTTACAGTAGAGCAGAAT
66 CCTGAGTTT-TAGCGGAGCAGACT
* * * * * * * *
15028294 GAA-AGCAGTAGATCTTGTCTTCCTATACTAGCAGTGAAGTAGTTTGAAAACACCAGCCT
1 GAAGA-TAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAATACACCAGCCT
15028353 TATCTCACTG
Statistics
Matches: 201, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
87 2 0.01
88 5 0.02
89 188 0.94
90 5 0.02
91 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAATACACCAGCCTGACCTC
CCTGAGTTTTAGCGGAGCAGACT
Found at i:15028335 original size:178 final size:178
Alignment explanation
Indices: 15028027--15028353 Score: 431
Period size: 178 Copynumber: 1.8 Consensus size: 178
15028017 ATGGATTGAA
* * * *
15028027 GAAGATAGCAGATCTTGTCTTCCTGTACTGGTAGCGAAGTAGATCGAAGACACCAGCCTGATCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCAAAGACACCAGCCTGACCTC
* ** * * * * * *
15028092 CTTGAGTTTGTAGCGGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTATTGGCAGCGAAGTA
66 CCTGAGTTTACAGCAGAGCAGAATGAAGACAGTAGATCTTGCCTTCCTATACTAGCAGCGAAGTA
*
15028157 GATCGAATACACCAGCCTTGCCTCCCTGAGTTTACGACGGAGCAAACT
131 GATCGAAAACACCAGCCTTGCCTCCCTGAGTTTACGACGGAGCAAACT
* * * *
15028205 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAGATCAAATACACCAGCCTTACCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCAAAGACACCAGCCTGACCTC
* * *
15028270 CCTGAGTTTACAGTAGAGCAGAATGAA-AGCAGTAGATCTTGTCTTCCTATACTAGCAGTGAAGT
66 CCTGAGTTTACAGCAGAGCAGAATGAAGA-CAGTAGATCTTGCCTTCCTATACTAGCAGCGAAGT
* *
15028334 AGTTTGAAAACACCAGCCTT
130 AGATCGAAAACACCAGCCTT
15028354 ATCTCACTGA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
177 1 0.01
178 124 0.99
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (178 bp):
GAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCAAAGACACCAGCCTGACCTC
CCTGAGTTTACAGCAGAGCAGAATGAAGACAGTAGATCTTGCCTTCCTATACTAGCAGCGAAGTA
GATCGAAAACACCAGCCTTGCCTCCCTGAGTTTACGACGGAGCAAACT
Found at i:15028508 original size:133 final size:133
Alignment explanation
Indices: 15028344--15028786 Score: 696
Period size: 133 Copynumber: 3.3 Consensus size: 133
15028334 AGTTTGAAAA
* * *
15028344 CACCAG-CCTTATCTCACTGAGCAGCAGTGGAGTAGGTTAAAGATTGAAGGTCCTGTCTCCCTAA
1 CACCAGTCC-TATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGAAGATCCTGTCTCCCTAA
*
15028408 GCAGTAGTGGAGTAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
65 GCAGTAGTGGAGCAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
15028473 AAGC
130 AAGC
* *
15028477 CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGAAGATCCTGTCTCCCTAAG
15028542 CAGTAGTGGAGCAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
66 CAGTAGTGGAGCAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
15028607 AGC
131 AGC
* * * * *
15028610 CACCAGTCCTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAATATT-ATAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGA-AGATCCTGTCTCCCTAA
*
15028674 GCATTAGTGGAGCAGATCAA-AGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
65 GCAGTAGTGGAGCAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTT
15028738 AAGC
130 AAGC
**
15028742 CACCAGTCCTATCTCCCTGAAGTTGCAGAT-GAGTAGGTTAAAGAT
1 CACCAGTCCTATCTCCCTG-AGCAGCA-ATGGAGTAGGTTAAAGAT
15028787 ACCAACTTTA
Statistics
Matches: 287, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
132 66 0.23
133 218 0.76
134 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (133 bp):
CACCAGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTAAAGATTGAAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAGAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
AGC
Found at i:15029328 original size:15 final size:16
Alignment explanation
Indices: 15029299--15029331 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15029289 AAGTACAAAT
15029299 AAAAAACCCTAAGCCC
1 AAAAAACCCTAAGCCC
*
15029315 AAAACACCCT-AGCCC
1 AAAAAACCCTAAGCCC
15029330 AA
1 AA
15029332 GACTAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.39, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAAACCCTAAGCCC
Found at i:15032252 original size:32 final size:32
Alignment explanation
Indices: 15032216--15032282 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
15032206 GGTTTCAACA
* * *
15032216 GATGCAATCTGCTTCAAGGGTTGTTGAGACTT
1 GATGCAATCTGCTTAAAAGATTGTTGAGACTT
* *
15032248 GATGCAATTTGCTTAAAAGATTGTTTAGACTT
1 GATGCAATCTGCTTAAAAGATTGTTGAGACTT
15032280 GAT
1 GAT
15032283 CTTAAAAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (32 bp):
GATGCAATCTGCTTAAAAGATTGTTGAGACTT
Found at i:15035955 original size:23 final size:24
Alignment explanation
Indices: 15035904--15035955 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15035894 TAAGCCTTCT
* *
15035904 CGAGCTTCCCAGTTATGGTTCTTG
1 CGAGCTTCCCAGTTATAGCTCTTG
15035928 CGAGCTTCCC-GTTAATAGCTCTTG
1 CGAGCTTCCCAGTT-ATAGCTCTTG
15035952 -GAGC
1 CGAGC
15035956 ATCCTGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (24 bp):
CGAGCTTCCCAGTTATAGCTCTTG
Found at i:15040192 original size:161 final size:161
Alignment explanation
Indices: 15039927--15040236 Score: 602
Period size: 161 Copynumber: 1.9 Consensus size: 161
15039917 CAACTTTCAG
15039927 AACTAGGTACGGACATTATGAATTTCTTGTAATGTCGTTTGGCTTGACAATTGCACCTGCAATGT
1 AACTAGGTACGGACATTATGAATTTCTTGTAATGTCGTTTGGCTTGACAATTGCACCTGCAATGT
*
15039992 TCATGGATTTAATGAATAGAATTTTCAGACTGTATCTAGATAGATTTGTGGTGGTATTCATTGAT
66 TCATGGATTTAATGAATAGAATTTTCAGAATGTATCTAGATAGATTTGTGGTGGTATTCATTGAT
15040057 GATATTTTGGTATATTCCCGAGATGAAAATA
131 GATATTTTGGTATATTCCCGAGATGAAAATA
15040088 AACTAGGTACGGACATTATGAATTTCTTGTAATGTCGTTTGGCTTGACAATTGCACCTGCAATGT
1 AACTAGGTACGGACATTATGAATTTCTTGTAATGTCGTTTGGCTTGACAATTGCACCTGCAATGT
15040153 TCATGGATTTAATGAATAGAATTTTCAGAATGTATCTAGATAGATTTGTGGTGGTATTCATTGAT
66 TCATGGATTTAATGAATAGAATTTTCAGAATGTATCTAGATAGATTTGTGGTGGTATTCATTGAT
*
15040218 GATATTTTGGTATCTTCCC
131 GATATTTTGGTATATTCCC
15040237 AAGCATCCTA
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 147 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (161 bp):
AACTAGGTACGGACATTATGAATTTCTTGTAATGTCGTTTGGCTTGACAATTGCACCTGCAATGT
TCATGGATTTAATGAATAGAATTTTCAGAATGTATCTAGATAGATTTGTGGTGGTATTCATTGAT
GATATTTTGGTATATTCCCGAGATGAAAATA
Found at i:15046076 original size:36 final size:36
Alignment explanation
Indices: 15046029--15046112 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
15046019 AACTTAGGTT
* * *
15046029 GTGATCGTAAATCAACTAGCCTTAATAATATTAGTC
1 GTGATCGTAAATCAACGAGCCTTAATAACATCAGTC
*
15046065 GTGATCGTAAATCAACGAGCCTTAATAGCATCAGTC
1 GTGATCGTAAATCAACGAGCCTTAATAACATCAGTC
15046101 GTGATCGTAAAT
1 GTGATCGTAAAT
15046113 TAGTGAACTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (36 bp):
GTGATCGTAAATCAACGAGCCTTAATAACATCAGTC
Found at i:15046212 original size:134 final size:134
Alignment explanation
Indices: 15046065--15046665 Score: 618
Period size: 134 Copynumber: 4.5 Consensus size: 134
15046055 AATATTAGTC
* ** * ** *
15046065 GTGATCGTAAATCAACGAGCCTTAATAGCATCAGTCGTGATCGTAAATTAGTGAACTGTTTGAAC
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
* * * ** *
15046130 AGAGTTGAGATTGTAAAT-AAGCTTACTCAGAAGAACTTGTTCATGATTGTTAATCAATGAACTT
66 AGAGTTGCGATCGTAAATCAA-CTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTT
15046194 AGGTT
130 AGGTT
** ** * * * * *
15046199 GTGATTGTAAATCAATAAGCCTTAATAATATTAGTCATGATCATAAATTAGCAAACTGTTTAAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
* * * * *
15046264 -GAAGTTCCGATCGTAAATCAACTAACTTAAAAGAACTTGTTCATGGTCAAAAATCAATGAACTT
66 AG-AGTTGCGATCGTAAATCAACTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTT
*
15046328 AGGCT
130 AGGTT
* * * * * * * * *
15046333 GTGACCATAAATTAGCGAGCTTTAACAATATCAGTCGTAATCGTAAATCAACAAACTATTGGAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
* * * * * * *
15046398 GGAGTTGCGATCATAAATCAATTAATTCAGAAGAACTTGTTCATAATTATAAATAAATGAACTTA
66 AGAGTTGCGATCGTAAATCAACTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTTA
15046463 GGTT
131 GGTT
* * * *
15046467 GTGATCATAAATCAACGAGCCTTAATAATATTAGTTGTGATCATAAATCAGCGAACTGTTTGAAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
* * * * * *
15046532 GGAGTTGTGATTGTAAATCAACTAACTCAGATA-AAATTGTTTATGATCGTAAATCAAT-ACACT
66 AGAGTTGCGATCGTAAATCAACTAACTCAGA-AGAACTTGTTCATGATCATAAATCAATGA-ACT
15046595 TAGGTT
129 TAGGTT
* * *
15046601 GTAATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGCAAATCAACAAACTGTTT-AAT
1 GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
15046665 A
66 A
15046666 TATTTCCTAT
Statistics
Matches: 376, Mismatches: 86, Indels: 11
0.79 0.18 0.02
Matches are distributed among these distances:
133 5 0.01
134 367 0.98
135 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (134 bp):
GTGATCATAAATCAACGAGCCTTAATAATATCAGTCGTGATCGTAAATCAGCAAACTGTTTGAAT
AGAGTTGCGATCGTAAATCAACTAACTCAGAAGAACTTGTTCATGATCATAAATCAATGAACTTA
GGTT
Found at i:15050607 original size:19 final size:19
Alignment explanation
Indices: 15050583--15050620 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15050573 CTATCAATTA
15050583 AGGGTAAATGAAAACTATC
1 AGGGTAAATGAAAACTATC
15050602 AGGGTAAATGAAAACTATC
1 AGGGTAAATGAAAACTATC
15050621 TTTTGAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGGTAAATGAAAACTATC
Found at i:15058353 original size:24 final size:24
Alignment explanation
Indices: 15058321--15058387 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
15058311 GACTAAATTG
15058321 TAATAGAAGGACCAGTTCACTTTT
1 TAATAGAAGGACCAGTTCACTTTT
15058345 TAATAGAAGG---A--T---TTTT
1 TAATAGAAGGACCAGTTCACTTTT
15058361 TAATAGAAGGACCAGTTCACTTTT
1 TAATAGAAGGACCAGTTCACTTTT
15058385 TAA
1 TAA
15058388 ATCTAACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
16 14 0.40
19 2 0.06
21 2 0.06
24 17 0.49
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (24 bp):
TAATAGAAGGACCAGTTCACTTTT
Found at i:15058362 original size:16 final size:16
Alignment explanation
Indices: 15058341--15058371 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15058331 ACCAGTTCAC
15058341 TTTTTAATAGAAGGAT
1 TTTTTAATAGAAGGAT
15058357 TTTTTAATAGAAGGA
1 TTTTTAATAGAAGGA
15058372 CCAGTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTTTAATAGAAGGAT
Found at i:15061730 original size:129 final size:122
Alignment explanation
Indices: 15061508--15061753 Score: 296
Period size: 129 Copynumber: 2.0 Consensus size: 122
15061498 TAAAAAATAA
* *
15061508 ATAATAATTACGGCATTATTTATATAAAAATAAATGATTACATATACAATAAGAATAAAATATTA
1 ATAATAATTACAGCATTATTTATATAAAAATAAATGATTACATATACAATAAAAATAAAATATTA
*
15061573 TACATATTATTATTTTATTACTGAAATTATA-CTTAACAGATTTTTAGTAATGTTAT
66 TACATATTATTATTTTATTACTGAAATTATATCTTAACAGATTTTTAATAATGTTAT
* * * *
15061629 ATAATAATTACATCATTATTTATATAGACAATAAATGATTGCATATGCAATAAAAATAAATTTAA
1 ATAATAATTACAGCATTATTTATATA-AAAATAAATGATTACATATACAAT---AA-AAA--T-A
* * * * * *
15061694 AAATATTGTACATATTGTTGTTTTATTATTGAAATTATATTTTAACATATTTTTAATAAT
58 AAATATTATACATATTATTATTTTATTACTGAAATTATATCTTAACAGATTTTTAATAAT
15061754 TTCGTAAATA
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
121 24 0.23
122 21 0.20
125 2 0.02
126 2 0.02
128 1 0.01
129 36 0.35
130 17 0.17
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.43
Consensus pattern (122 bp):
ATAATAATTACAGCATTATTTATATAAAAATAAATGATTACATATACAATAAAAATAAAATATTA
TACATATTATTATTTTATTACTGAAATTATATCTTAACAGATTTTTAATAATGTTAT
Found at i:15063782 original size:38 final size:37
Alignment explanation
Indices: 15063675--15063790 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
15063665 AGTTTCACTC
* * *
15063675 AGTATAATAGTAAGATTTTCCCTATTGAGCTTCATTT
1 AGTATAATAGTAAGATTTGCTCGATTGAGCTTCATTT
*
15063712 AGTATAATGGTAAGATTTGCTCGATTGAGCTTCATTT
1 AGTATAATAGTAAGATTTGCTCGATTGAGCTTCATTT
*
15063749 AGTACAATAGTAAGATTTGACTCGATTGAGCTTCATTT
1 AGTATAATAGTAAGATTTG-CTCGATTGAGCTTCATTT
15063787 AGTA
1 AGTA
15063791 GGATCAATAG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
37 50 0.69
38 22 0.31
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (37 bp):
AGTATAATAGTAAGATTTGCTCGATTGAGCTTCATTT
Found at i:15068048 original size:16 final size:16
Alignment explanation
Indices: 15068027--15068064 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
15068017 TAATGTTGTT
15068027 AAAATTTCATATCAAG
1 AAAATTTCATATCAAG
15068043 AAAATTTCATATCAAG
1 AAAATTTCATATCAAG
15068059 AGAAAT
1 A-AAAT
15068065 AGTGGAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (16 bp):
AAAATTTCATATCAAG
Found at i:15073709 original size:16 final size:16
Alignment explanation
Indices: 15073684--15073715 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15073674 AAAATATTTT
*
15073684 TTTTATATTTTTTAAA
1 TTTTAAATTTTTTAAA
15073700 TTTTAAATTTTTTAAA
1 TTTTAAATTTTTTAAA
15073716 AATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:15073756 original size:12 final size:11
Alignment explanation
Indices: 15073704--15073753 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
15073694 TTTAAATTTT
15073704 AAATTTTTTAA
1 AAATTTTTTAA
15073715 AAATATTTTTAA
1 AAAT-TTTTTAA
15073727 AATACTGTTTTT-A
1 AA-A-T-TTTTTAA
15073740 AAATTTTTTAA
1 AAATTTTTTAA
15073751 AAA
1 AAA
15073754 ATTGGTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 5 0.15
11 9 0.26
12 10 0.29
13 4 0.12
14 6 0.18
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (11 bp):
AAATTTTTTAA
Found at i:15073764 original size:25 final size:25
Alignment explanation
Indices: 15073714--15073764 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
15073704 AAATTTTTTA
* *
15073714 AAAATATTTTTAAAATACTGTTTTT
1 AAAATATTTTTAAAAAACTGTGTTT
*
15073739 AAAAT-TTTTTAAAAAATTGGTGTTT
1 AAAATATTTTTAAAAAACT-GTGTTT
15073764 A
1 A
15073765 TTTTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (25 bp):
AAAATATTTTTAAAAAACTGTGTTT
Found at i:15074732 original size:43 final size:43
Alignment explanation
Indices: 15074667--15074757 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
15074657 CTCTTTGGAC
15074667 CATCCAATGTTGGTTTCATTATCATGATAGGTGCTTCCAATCA
1 CATCCAATGTTGGTTTCATTATCATGATAGGTGCTTCCAATCA
* *
15074710 CATCCAATGTTGGTTTCCTTATCATGATAGGTGCTTGCAATCA
1 CATCCAATGTTGGTTTCATTATCATGATAGGTGCTTCCAATCA
15074753 C-TCCA
1 CATCCA
15074758 GATATGTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (43 bp):
CATCCAATGTTGGTTTCATTATCATGATAGGTGCTTCCAATCA
Found at i:15083866 original size:17 final size:19
Alignment explanation
Indices: 15083830--15083866 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15083820 TATTAATGTC
15083830 ATTTCACATAGTTGTATTT
1 ATTTCACATAGTTGTATTT
*
15083849 ATTTCATAT-GTTGT-TTT
1 ATTTCACATAGTTGTATTT
15083866 A
1 A
15083867 CCTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 8 0.47
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (19 bp):
ATTTCACATAGTTGTATTT
Found at i:15086390 original size:5 final size:5
Alignment explanation
Indices: 15086380--15086407 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15086370 GTTAATATAT
15086380 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
15086408 ATAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:15086413 original size:15 final size:15
Alignment explanation
Indices: 15086371--15086413 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
15086361 CATCTCAAAG
15086371 TTAATATATAATTAAA
1 TTAA-ATATAATTAAA
15086387 TTAAAT-TAAATTAAA
1 TTAAATAT-AATTAAA
15086402 TTAAATATAATT
1 TTAAATATAATT
15086414 TTAGAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.04
15 19 0.76
16 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAATATAATTAAA
Found at i:15092156 original size:20 final size:19
Alignment explanation
Indices: 15092104--15092163 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
15092094 TTTTAAAAAA
*
15092104 TTAAAATTTTATAAATT-TT
1 TTAAAA-TTTAAAAATTATT
*
15092123 TTGAAATTTAAAAATTATT
1 TTAAAATTTAAAAATTATT
*
15092142 TTAAAATCTTGAAAATTATT
1 TTAAAAT-TTAAAAATTATT
15092162 TT
1 TT
15092164 GATTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.26
19 13 0.37
20 13 0.37
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
TTAAAATTTAAAAATTATT
Found at i:15094975 original size:26 final size:26
Alignment explanation
Indices: 15094946--15095013 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
15094936 ATCCTCTCTC
15094946 AAGCCATATAAT-AGGAAGCTCACAAA
1 AAGCCAT-TAATCAGGAAGCTCACAAA
*
15094972 AAGCCATTAATCGGGAAGCTCACAAA
1 AAGCCATTAATCAGGAAGCTCACAAA
*
15094998 GAGCC--T-ATCAGGAAGC
1 AAGCCATTAATCAGGAAGC
15095014 CTATTCGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 9 0.24
24 1 0.03
25 4 0.11
26 24 0.63
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.15
Consensus pattern (26 bp):
AAGCCATTAATCAGGAAGCTCACAAA
Found at i:15095092 original size:26 final size:26
Alignment explanation
Indices: 15095043--15095141 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 26
15095033 GGAAGCACAT
* ** *
15095043 AAGAGCC-ATAATCAGGAATTTCACA
1 AAGAGCCTTTAATCAGGAAGCTCACG
* *
15095068 AAGAACTTTTAATCAGGAAGCTCACG
1 AAGAGCCTTTAATCAGGAAGCTCACG
* *
15095094 AAGAGCCTTTAAACATGAAGCTCACG
1 AAGAGCCTTTAATCAGGAAGCTCACG
*
15095120 AAGAGCCATTAATCAGG-AGCTC
1 AAGAGCCTTTAATCAGGAAGCTC
15095142 CGGATAGCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 10 0.17
26 50 0.83
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (26 bp):
AAGAGCCTTTAATCAGGAAGCTCACG
Found at i:15099068 original size:13 final size:13
Alignment explanation
Indices: 15099050--15099074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15099040 TTGAAATAAA
15099050 TAAAATATAAAAT
1 TAAAATATAAAAT
15099063 TAAAATATAAAA
1 TAAAATATAAAA
15099075 AAACTTGAGA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAATATAAAAT
Found at i:15100487 original size:44 final size:43
Alignment explanation
Indices: 15100436--15100633 Score: 138
Period size: 44 Copynumber: 4.6 Consensus size: 43
15100426 GTTTTAATCC
* * *
15100436 GCTCCACTGCAACTTCAGGAAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATTGGTTTCTTTCGTCT
* * * * *
15100480 GCTCCACTATAGCTTAGGGAGATAAGACTGG---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGGTTTCTTTCG-TCT
** * ** *
15100520 GCTCCACTACTGCTTAGGGAGATAAGATCT-GTGGT-TTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGT-TTCTTTCGTCT
* * *
15100563 GCTCCACTGCAACTCCAGGGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTACAACT-TAGGGAGATAAGATTGGTTTCTTTCGTCT
* *
15100607 GCTCCACTATAGCTTAGGGAGATAAGA
1 GCTCCACTACAACTTAGGGAGATAAGA
15100634 CTGGATGTGA
Statistics
Matches: 116, Mismatches: 28, Indels: 21
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.01
40 31 0.27
41 1 0.01
43 41 0.35
44 42 0.36
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (43 bp):
GCTCCACTACAACTTAGGGAGATAAGATTGGTTTCTTTCGTCT
Found at i:15100524 original size:40 final size:40
Alignment explanation
Indices: 15100477--15100668 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
15100467 GTTTCTTTCG
15100477 TCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGA
* * *
15100517 TCTGCTCCACTACT-GCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTA-TAGCTTAGGGAGATAAGA-C--TGGATGTGA
* ** * * * * * *
15100560 TCCGCTCCACTGCAACTCCAGGGAGATAGGATTGGTTTCTTTCG-
1 TCTGCTCCACTATAGCT-TAGGGAGATAAGACTGG---ATGT-GA
15100604 TCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGA
15100644 TCTGCTCCACTACT-GCTTAGGGAGA
1 TCTGCTCCACTA-TAGCTTAGGGAGA
15100669 AGTGAGATTC
Statistics
Matches: 119, Mismatches: 21, Indels: 24
0.73 0.13 0.15
Matches are distributed among these distances:
39 1 0.01
40 53 0.45
41 6 0.05
43 32 0.27
44 27 0.23
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGA
Found at i:15100621 original size:127 final size:127
Alignment explanation
Indices: 15100409--15100668 Score: 477
Period size: 127 Copynumber: 2.1 Consensus size: 127
15100399 CTGTGCCTTC
* * *
15100409 AGGG-GATGAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGGTTTCT
1 AGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTCCAGGAAGATAGGATTGGTTTCT
15100473 TTCGTCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTT
66 TTCGTCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTT
*
15100535 AGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTCCAGGGAGATAGGATTGGTTTCT
1 AGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTCCAGGAAGATAGGATTGGTTTCT
15100600 TTCGTCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTT
66 TTCGTCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTT
15100662 AGGGAGA
1 AGGGAGA
15100669 AGTGAGATTC
Statistics
Matches: 129, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
126 4 0.03
127 125 0.97
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (127 bp):
AGGGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTCCAGGAAGATAGGATTGGTTTCT
TTCGTCTGCTCCACTATAGCTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTGCTT
Found at i:15100888 original size:50 final size:48
Alignment explanation
Indices: 15100826--15101187 Score: 206
Period size: 50 Copynumber: 7.3 Consensus size: 48
15100816 ATTTGTCGTC
* *
15100826 GTAGCTTTAATCTGCTCCACTGCATCACCAGACAAGTAAGATTTGCCGTT
1 GTAGCTTCAATCTGCTCCACTGCAT-ACCAGA-AAGTAAGATTCGCCGTT
* ** ** * * * * *
15100876 GCAGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCATC
1 GTAGCTTCAATCTGCTCCACTGC-ATACCA-GAAAGTAAGATTCGCCGTT
* * * *
15100926 GTAGCTTTAATCTGCTCCACTGTATTGCCAGAGAAGTGAGATTCGCCGTT
1 GTAGCTTCAATCTGCTCCACTGCA-TACCAGA-AAGTAAGATTCGCCGTT
* ** * * ** * *
15100976 GTGGCTTCAATCT-CTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTT
1 GTAGCTTCAATCTGC-TCCACTGC-AT-ACCAGAAAGTAAGATTCGCCGTT
* *
15101025 GTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTT
1 GTAGCTTCAATCTGCTCCACTGCAT-ACCA-GAAAGTAAGATTCGCCGTT
** ** ** * * * *
15101075 GCGGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCGTC
1 GTAGCTTCAATCTGCTCCACTGC-ATACCA-GAAAGTAAGATTCGCCGTT
* * *
15101125 GTAGCTTTAATCTGCTCCACTGCACTACCAGAGAAGTGAGATTTGCCGTT
1 GTAGCTTCAATCTGCTCCACTGCA-TACCAGA-AAGTAAGATTCGCCGTT
*
15101175 GTGGCTTCAATCT
1 GTAGCTTCAATCT
15101188 CTTTAATTGC
Statistics
Matches: 224, Mismatches: 75, Indels: 26
0.69 0.23 0.08
Matches are distributed among these distances:
48 3 0.01
49 39 0.17
50 173 0.77
51 9 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (48 bp):
GTAGCTTCAATCTGCTCCACTGCATACCAGAAAGTAAGATTCGCCGTT
Found at i:15100915 original size:100 final size:100
Alignment explanation
Indices: 15100742--15101247 Score: 628
Period size: 100 Copynumber: 5.1 Consensus size: 100
15100732 GTCGTAAGTC
* * * * *
15100742 CCACTGCACCACCA-AGGAAGTAAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATGTCG
1 CCACTGCATCACCAGA-GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCA
* * *
15100806 GGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCT
65 GGAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
* * * *
15100842 CCACTGCATCACCAGACAAGTAAGATTTGCCGTTGCAGCTTCAATCTTTTTAATTGCAATATCAG
1 CCACTGCATCACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
*
15100907 GAAAGCAAGATTCGCCATCGTAGCTTTAATCTGCT
66 GAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
* ** * * * *
15100942 CCACTGTATTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGG
1 CCACTGCATCACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
* * * *
15101007 GGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGAT
66 GAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
* *
15101041 CCACTGCATCGCCAG-GAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATATCA
1 CCACTGCATCACCAGAG-AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCA
15101105 GGAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
65 GGAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
* * * * *
15101141 CCACTGCA-CTACCAGAGAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGT-T
1 CCACTGCATC-ACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCA
* * *
15101204 GGAGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGAT
65 GGA-AAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
15101240 CCACTGCA
1 CCACTGCA
15101248 CTGCCAGGGA
Statistics
Matches: 350, Mismatches: 50, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
98 1 0.00
99 124 0.35
100 223 0.64
101 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
CCACTGCATCACCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCAG
GAAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT
Found at i:15101066 original size:199 final size:200
Alignment explanation
Indices: 15100742--15101255 Score: 777
Period size: 199 Copynumber: 2.6 Consensus size: 200
15100732 GTCGTAAGTC
* * * * *
15100742 CCACTGCACCACCA-AGGAAGTAAGATTCACCGTTGCGGCTTCAATAT-TTTAAATTGCAATGTC
1 CCACTGCACTACCAGA-GAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGTC
* * * * * *
15100805 GGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCACCA-GACAAGTAAGATT
64 GGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGACAAGTAAGATT
*
15100869 TGCCGTTGCAGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCATCGTAGCTTT
128 CGCCGTTGCAGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCATCGTAGCTTT
15100934 AATCTGCT
193 AATCTGCT
* * *
15100942 CCACTGTATTGCCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGG
1 CCACTGCACTACCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGG
15101007 GGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA-AAGTAAGATTCGC
66 GGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGACAAGTAAGATTCGC
* *
15101071 CGTTGCGGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCGTCGTAGCTTTAAT
131 CGTTGCAGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCATCGTAGCTTTAAT
15101136 CTGCT
196 CTGCT
* *
15101141 CCACTGCACTACCAGAGAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTTGG
1 CCACTGCACTACCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGG
*
15101206 AGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCA-CTGCCAGG
66 GGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATC-GCCAGG
15101256 GAAGGTAACT
Statistics
Matches: 287, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
198 1 0.00
199 225 0.78
200 57 0.20
201 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (200 bp):
CCACTGCACTACCAGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGG
GGAACAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGACAAGTAAGATTCGC
CGTTGCAGCTTCAATCTTTTTAATTGCAATATCAGGAAAGCAAGATTCGCCATCGTAGCTTTAAT
CTGCT
Found at i:15101209 original size:50 final size:50
Alignment explanation
Indices: 15100863--15101236 Score: 228
Period size: 50 Copynumber: 7.5 Consensus size: 50
15100853 CCAGACAAGT
* * * *
15100863 AAGATTTGCCGTTGCAGCTTCAATCTTTTTAATTGCAATATCAGGA-AAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATGT-AGGAGAAGC
* * * ** * * * * *
15100913 AAGATTCGCCATCGTAGCTTTAATCTGC-TCCACTGTATTGCCA-GAGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCAATG-TAGGAGAAGC
* * * *
15100963 GAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATGTAGGAGAAGC
** ** * * *
15101012 AAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGC-ATCGCCAGGA-AAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAAT-G-TAGGAGAAGC
** * *
15101062 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATATCAGGA-AAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATGT-AGGAGAAGC
* * ** * * ** *
15101112 AAGATTCGCCGTCGTAGCTTTAATCTGC-TCCACTGCACTACCA-GAGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCT-CTTTAATTGCAAT-GTAGGAGAAGC
* * * *
15101162 GAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTTGGAGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATGTAGGAGAAGC
15101211 AAGATTCGCCGTTGTAGCTTCAATCT
1 AAGATTCGCCGTTGTAGCTTCAATCT
15101237 GATCCACTGC
Statistics
Matches: 232, Mismatches: 77, Indels: 31
0.68 0.23 0.09
Matches are distributed among these distances:
48 2 0.01
49 61 0.26
50 167 0.72
51 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTCTTTAATTGCAATGTAGGAGAAGC
Found at i:15102191 original size:47 final size:46
Alignment explanation
Indices: 15102112--15102216 Score: 113
Period size: 47 Copynumber: 2.3 Consensus size: 46
15102102 AGCAAAGCTC
* * *
15102112 AAAATGAATGAATCAATCAAGATAGCAAA-TTTTGCTAGAATAAAA
1 AAAATGAATAAATCAATCAAGATAGCAAATTTTTGCAAAAATAAAA
* *** *
15102157 AAAATAAGAATAAATTAATCAAGATAGTGTATTTTTTCAAAAATAAAA
1 AAAAT--GAATAAATCAATCAAGATAGCAAATTTTTGCAAAAATAAAA
15102205 AAAATGAATAAA
1 AAAATGAATAAA
15102217 ATGGAAATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
45 5 0.10
46 7 0.14
47 19 0.39
48 18 0.37
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (46 bp):
AAAATGAATAAATCAATCAAGATAGCAAATTTTTGCAAAAATAAAA
Found at i:15102508 original size:15 final size:15
Alignment explanation
Indices: 15102488--15102520 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15102478 TGGCCTCTCC
15102488 TTTTTCTTTTTCATT
1 TTTTTCTTTTTCATT
15102503 TTTTTCTTTTTCATT
1 TTTTTCTTTTTCATT
15102518 TTT
1 TTT
15102521 GTTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTCATT
Found at i:15108365 original size:29 final size:30
Alignment explanation
Indices: 15108317--15108373 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
15108307 NNTATCCTTC
*
15108317 TTTCCTTCTTTCTTTAATTTGGCCCAATTG
1 TTTCCTTCTTTCTTTAATTTAGCCCAATTG
15108347 TTTCCTT-TTTCTTCT-ATTTAGCCCAAT
1 TTTCCTTCTTTCTT-TAATTTAGCCCAAT
15108374 ATTGCATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTCCTTCTTTCTTTAATTTAGCCCAATTG
Found at i:15111309 original size:18 final size:19
Alignment explanation
Indices: 15111278--15111315 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15111268 TTTGTTTTAA
15111278 TTTTTTATGTATTT-ATTT
1 TTTTTTATGTATTTAATTT
15111296 TTTTATTATG-ATTTAATTT
1 TTTT-TTATGTATTTAATTT
15111315 T
1 T
15111316 ACATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTTATGTATTTAATTT
Found at i:15111335 original size:26 final size:26
Alignment explanation
Indices: 15111292--15111342 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
15111282 TTATGTATTT
* **
15111292 ATTTTTTTATTATGATTTAATTTTAC
1 ATTTATTTATTAACATTTAATTTTAC
*
15111318 ATTTATTTATTAACATTTTATTTTA
1 ATTTATTTATTAACATTTAATTTTA
15111343 TTTTTATCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTATTTATTAACATTTAATTTTAC
Found at i:15111349 original size:26 final size:25
Alignment explanation
Indices: 15111289--15111346 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
15111279 TTTTTATGTA
**
15111289 TTTATTTT-TTTATTATGATTTAAT
1 TTTATTTTATTTATTAACATTTAAT
* *
15111313 TTTACATTTATTTATTAACATTTTAT
1 TTTA-TTTTATTTATTAACATTTAAT
15111339 TTTATTTT
1 TTTATTTT
15111347 TATCTATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 4 0.15
25 6 0.22
26 17 0.63
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTTATTAACATTTAAT
Found at i:15114849 original size:43 final size:43
Alignment explanation
Indices: 15114724--15114850 Score: 109
Period size: 42 Copynumber: 3.0 Consensus size: 43
15114714 ATAGGATTCT
* * * * **
15114724 GATATGTGATTACATGTCAGACCATGTCTGGGACATCAGCATC
1 GATATATGATTTCATGTAAGACCATGTCTGGGACGTTGGCATC
* * *
15114767 G-TATAGGAGTTT-GTGTAAGACCCTGTC-GGGAACAG-TGGCATC
1 GATATATGA-TTTCATGTAAGACCATGTCTGGG-AC-GTTGGCATC
*
15114809 GATATTTGATTTCATGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATATGATTTCATGTAAGACCATGTCTGGGACGTTGGCAT
15114851 TGAATGAGCT
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
41 3 0.05
42 29 0.45
43 29 0.45
44 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GATATATGATTTCATGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:15125278 original size:30 final size:32
Alignment explanation
Indices: 15125244--15125335 Score: 93
Period size: 30 Copynumber: 3.0 Consensus size: 32
15125234 CTGTGTCTAA
*
15125244 TTCTATATCTGCATTTGTGTCTGAAT-T-TAT
1 TTCTATATCTGCATCTGTGTCTGAATCTGTAT
* *
15125274 TTCTATTTTTGCATCTGTGTCTGAATCTGTAT
1 TTCTATATCTGCATCTGTGTCTGAATCTGTAT
* * * *
15125306 TTGTATA--TACATCTGTGTCTAAATTTGTAT
1 TTCTATATCTGCATCTGTGTCTGAATCTGTAT
15125336 CTGTATTTGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
30 43 0.83
31 1 0.02
32 8 0.15
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (32 bp):
TTCTATATCTGCATCTGTGTCTGAATCTGTAT
Found at i:15125341 original size:30 final size:30
Alignment explanation
Indices: 15125285--15125341 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15125275 TCTATTTTTG
* *
15125285 CATCTGTGTCTGAATCTGTATTTGTATATA
1 CATCTGTGTCTAAATCTGTATCTGTATATA
*
15125315 CATCTGTGTCTAAATTTGTATCTGTAT
1 CATCTGTGTCTAAATCTGTATCTGTAT
15125342 TTGCTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (30 bp):
CATCTGTGTCTAAATCTGTATCTGTATATA
Found at i:15130090 original size:21 final size:21
Alignment explanation
Indices: 15130064--15130108 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
15130054 AACTTCAAAC
15130064 ATAAACAAATATTCAAATTAA
1 ATAAACAAATATTCAAATTAA
15130085 ATAAACAAATATTCAAATTAA
1 ATAAACAAATATTCAAATTAA
15130106 ATA
1 ATA
15130109 CTAACATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAACAAATATTCAAATTAA
Found at i:15131954 original size:24 final size:24
Alignment explanation
Indices: 15131922--15132005 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
15131912 GATGAGATAC
*
15131922 CAACCTTTTCATTGCTATTCTTTT
1 CAACCTTTTCATTGATATTCTTTT
*
15131946 CAACCTTTTCATTGATATCCTTTT
1 CAACCTTTTCATTGATATTCTTTT
* * *
15131970 CGATCTTTTCATTGATA-TATTTT
1 CAACCTTTTCATTGATATTCTTTT
15131993 CAACCTTTTCATT
1 CAACCTTTTCATT
15132006 TGTTATCCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 15 0.29
24 37 0.71
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.52
Consensus pattern (24 bp):
CAACCTTTTCATTGATATTCTTTT
Found at i:15131998 original size:47 final size:49
Alignment explanation
Indices: 15131926--15132020 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
15131916 AGATACCAAC
* *
15131926 CTTTTCATTGCTATTCTTTTCAACCTTTTCA-TTGATATCCTTTTCGAT
1 CTTTTCATTGATATTATTTTCAACCTTTTCATTTGATATCCTTTTCGAT
*
15131974 CTTTTCATTGATA-TATTTTCAACCTTTTCATTTGTTATCCTTTTCGA
1 CTTTTCATTGATATTATTTTCAACCTTTTCATTTGATATCCTTTTCGA
15132021 ATAACATCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 16 0.37
48 27 0.63
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.55
Consensus pattern (49 bp):
CTTTTCATTGATATTATTTTCAACCTTTTCATTTGATATCCTTTTCGAT
Found at i:15132035 original size:41 final size:41
Alignment explanation
Indices: 15131989--15132123 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
15131979 CATTGATATA
* *
15131989 TTTTCAACCTTTTCATTTGTTATCCTTTTCGAATAACATCC
1 TTTTCAACCTTTTCATTTGTTATCCTTTTCGGATAACTTCC
*
15132030 TTTTCAACCTTTTCATTTGTTATCCTTTTTGGATAACTTCC
1 TTTTCAACCTTTTCATTTGTTATCCTTTTCGGATAACTTCC
* * *
15132071 TTTTCAACATTTTCATTTGTTATCTTTTTCGGATAACTTTC
1 TTTTCAACCTTTTCATTTGTTATCCTTTTCGGATAACTTCC
15132112 TTTTCAACCTTT
1 TTTTCAACCTTT
15132124 CATAGATTCG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.19, C:0.21, G:0.06, T:0.53
Consensus pattern (41 bp):
TTTTCAACCTTTTCATTTGTTATCCTTTTCGGATAACTTCC
Found at i:15153671 original size:7 final size:7
Alignment explanation
Indices: 15153659--15153689 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15153649 CCTAATGATG
15153659 AAAAGAA
1 AAAAGAA
15153666 AAAAGAA
1 AAAAGAA
15153673 AAAAGAA
1 AAAAGAA
*
15153680 CAAAGAA
1 AAAAGAA
15153687 AAA
1 AAA
15153690 CAAAAGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:15156123 original size:3 final size:3
Alignment explanation
Indices: 15156115--15156321 Score: 414
Period size: 3 Copynumber: 69.0 Consensus size: 3
15156105 CTTAATAAAT
15156115 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15156163 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15156211 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15156259 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15156307 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
15156322 CATATCATTG
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 204 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15156513 original size:16 final size:16
Alignment explanation
Indices: 15156492--15156527 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15156482 ATACTTTTTT
15156492 TATATATGTATATCTA
1 TATATATGTATATCTA
*
15156508 TATATATGTATATGTA
1 TATATATGTATATCTA
15156524 TATA
1 TATA
15156528 CTTTCCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (16 bp):
TATATATGTATATCTA
Found at i:15156684 original size:8 final size:10
Alignment explanation
Indices: 15156648--15156686 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
15156638 TGCACATTTT
*
15156648 TATATATTATA
1 TATATA-TATG
15156659 TATATATATG
1 TATATATATG
15156669 TATATATATG
1 TATATATATG
*
15156679 TTTATATA
1 TATATATA
15156687 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (10 bp):
TATATATATG
Found at i:15162216 original size:15 final size:14
Alignment explanation
Indices: 15162190--15162228 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
15162180 GAGTTCCGAC
*
15162190 TCAAGAAAAAAAAA
1 TCAAAAAAAAAAAA
15162204 TCAAAATAAAAAAAA
1 TCAAAA-AAAAAAAA
15162219 TCAAAAAAAA
1 TCAAAAAAAA
15162229 TCAAAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:15162224 original size:10 final size:10
Alignment explanation
Indices: 15162206--15162236 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
15162196 AAAAAAAATC
15162206 AAAAT-AAAA
1 AAAATCAAAA
15162215 AAAATCAAAA
1 AAAATCAAAA
15162225 AAAATCAAAA
1 AAAATCAAAA
15162235 AA
1 AA
15162237 TCAAAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.84, C:0.06, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAATCAAAA
Found at i:15163093 original size:12 final size:12
Alignment explanation
Indices: 15163076--15163135 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
15163066 TGACTCAAAC
15163076 AAAAAATGAAAA
1 AAAAAATGAAAA
*
15163088 AAAAAA-GAGAA
1 AAAAAATGAAAA
*
15163099 GAAAAATGAAAA
1 AAAAAATGAAAA
**
15163111 AATGAATGAAAA
1 AAAAAATGAAAA
**
15163123 AAATGATGAAAA
1 AAAAAATGAAAA
15163135 A
1 A
15163136 TGAAAAAGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:15163114 original size:31 final size:31
Alignment explanation
Indices: 15163076--15163142 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
15163066 TGACTCAAAC
15163076 AAAAAATGAA-AAAAAAAAGAGAAGAAAAATG
1 AAAAAATGAATAAAAAAAA-AGAAGAAAAATG
* * *
15163107 AAAAAATGAATGAAAAAAATGATGAAAAATG
1 AAAAAATGAATAAAAAAAAAGAAGAAAAATG
15163138 AAAAA
1 AAAAA
15163143 GTAAAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (31 bp):
AAAAAATGAATAAAAAAAAAGAAGAAAAATG
Found at i:15164591 original size:86 final size:86
Alignment explanation
Indices: 15164369--15164583 Score: 263
Period size: 86 Copynumber: 2.5 Consensus size: 86
15164359 AATGAAGTTT
* *
15164369 CAAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCAT
1 CAAAACCTTGCCTTCATTGGTT-CAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCAT
* * **
15164434 TGACAGCGAAGCAGGTCGAAGT
65 TAACAGCGAAGCAGATCGAAAA
* * ** * * *
15164456 C-AAACCTTACCTCTC-TCGGTTGTGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCG
1 CAAAACCTTGCCT-TCATTGGTTCAG-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCA
15164519 TTAACAGCGAAGCAGATCGAAAA
64 TTAACAGCGAAGCAGATCGAAAA
15164542 CAAAACCTTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGA
1 CAAAACCTTGCCTTCATTGGTT-CAGTGGAGCTGGTTAAAGA
15164584 AGCAGATCGA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
85 1 0.01
86 71 0.67
87 33 0.31
88 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (86 bp):
CAAAACCTTGCCTTCATTGGTTCAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATT
AACAGCGAAGCAGATCGAAAA
Found at i:15164731 original size:43 final size:41
Alignment explanation
Indices: 15164595--15164735 Score: 117
Period size: 42 Copynumber: 3.4 Consensus size: 41
15164585 GCAGATCGAA
15164595 AAAG-TCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG
1 AAAGATCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG
* * * * * * * * *
15164635 AAAGATCTTGCCTTC-CTGCATTAACAGCGAAGCAGATCGAAAAC
1 AAAGATCTTGCCTTCATTG-GTT-GCAGTGGAGCTGGT--TAAAG
*
15164679 AAAG-CCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG
1 AAAGATCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG
15164719 AAGTAGATCTTGCCTTC
1 AA--AGATCTTGCCTTC
15164736 CTACATTAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 15
0.67 0.19 0.14
Matches are distributed among these distances:
40 11 0.15
41 12 0.17
42 20 0.28
43 20 0.28
44 9 0.12
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
AAAGATCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG
Found at i:15164766 original size:222 final size:224
Alignment explanation
Indices: 15164370--15164814 Score: 621
Period size: 222 Copynumber: 2.0 Consensus size: 224
15164360 ATGAAGTTTC
*
15164370 AAAGCCTTGCCTTCATTGGTTGTAGTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATT
1 AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG--AAAAGATCTTGCCTTCCTGCATT
* * ** * *
15164435 GACAGCGAAGCAGGTCGAAGTCAAACCTTACCTCTCTCGGTTGTGATGGAGCTGGTTGAAGATAA
64 AACAGCGAAGCAGATCGAAAACAAACCTTACCTCTCTCGGTTGAGATGGAGCTGGTTAAAGATAA
* * * * *
15164500 AAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTTCATTGGTTA
129 AAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCCATCGGTTA
15164565 CAGTGGAGCTGGTTAAAGA-AGCAGATCGAA
194 CAGTGGAGCTGGTTAAAGATAGCAGATCGAA
*
15164595 AAAGTCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAG-AAAGATCTTGCCTTCCTGCATTAA
1 AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTGCATTAA
* *
15164659 CAGCGAAGCAGATCGAAAACAAAGCCTTGCCT-TCATTGGTTGCAG-TGGAGCTGGTTAAAGA-A
66 CAGCGAAGCAGATCGAAAACAAA-CCTTACCTCTC-TCGGTTG-AGATGGAGCTGGTTAAAGATA
** * *
15164721 GTAGATCTTGCCTTCCTACATTAACAGTGAAGCAGATCAAAAACAAATCCTTGCCTCCATCGGTT
128 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCCATCGGTT
* *
15164786 GCAGTGGAGCTGGTTGAAGATAGCAGATC
193 ACAGTGGAGCTGGTTAAAGATAGCAGATC
15164815 TTGCCTTCCT
Statistics
Matches: 195, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
222 120 0.62
223 36 0.18
224 1 0.01
225 38 0.19
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (224 bp):
AAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTGCATTAA
CAGCGAAGCAGATCGAAAACAAACCTTACCTCTCTCGGTTGAGATGGAGCTGGTTAAAGATAAAA
GATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCCATCGGTTACA
GTGGAGCTGGTTAAAGATAGCAGATCGAA
Found at i:15164774 original size:43 final size:43
Alignment explanation
Indices: 15164641--15164776 Score: 105
Period size: 43 Copynumber: 3.2 Consensus size: 43
15164631 AAAGAAAGAT
* * * *
15164641 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTACATTAACAGTGAAGCAGATCAAAAACAAATC
* *** * * * * * * *
15164684 CTTGCCTTCATTGGTT-GCAGTGGAGCTGGTTAAAGAAGTAGAT-
1 CTTGCCTTCCTACATTAACAGTGAAGCAGATCAAA-AA-CAAATC
15164727 CTTGCCTTCCTACATTAACAGTGAAGCAGATCAAAAACAAATC
1 CTTGCCTTCCTACATTAACAGTGAAGCAGATCAAAAACAAATC
15164770 CTTGCCT
1 CTTGCCT
15164777 CCATCGGTTG
Statistics
Matches: 64, Mismatches: 25, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
42 14 0.22
43 35 0.55
44 15 0.23
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
CTTGCCTTCCTACATTAACAGTGAAGCAGATCAAAAACAAATC
Found at i:15164854 original size:87 final size:85
Alignment explanation
Indices: 15164582--15164863 Score: 394
Period size: 86 Copynumber: 3.3 Consensus size: 85
15164572 GCTGGTTAAA
* *
15164582 GAAGCAGATCG-AAA-AAGT-CTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAA-AGATCT
1 GAAGCAGATCGAAAACAAATCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAAGAGATCT
*
15164643 TGCCTTCCTGCATTAACAGC
66 TGCCTTCCTGCATTAACAGT
* *
15164663 GAAGCAGATCGAAAACAAAGCCTTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATC
1 GAAGCAGATCGAAAACAAATCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAAG-AGATC
*
15164728 TTGCCTTCCTACATTAACAGT
65 TTGCCTTCCTGCATTAACAGT
* * *
15164749 GAAGCAGATCAAAAACAAATCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGAT
1 GAAGCAGATCGAAAACAAATCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGA-AG-AGAT
*
15164814 CTTGCCTTCCTGCGTTAACAGT
64 CTTGCCTTCCTGCATTAACAGT
* *
15164836 GAAGTAGATCGAACACAAAT-CTTGCCTC
1 GAAGCAGATCGAAAACAAATCCTTGCCTC
15164864 TCTAGGTAGT
Statistics
Matches: 180, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
81 11 0.06
82 3 0.02
83 2 0.01
84 37 0.21
86 84 0.47
87 43 0.24
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (85 bp):
GAAGCAGATCGAAAACAAATCCTTGCCTCCATTGGTTGCAGTGGAGCTGGTTAAAGAAGAGATCT
TGCCTTCCTGCATTAACAGT
Found at i:15164900 original size:87 final size:88
Alignment explanation
Indices: 15164582--15164903 Score: 355
Period size: 86 Copynumber: 3.8 Consensus size: 88
15164572 GCTGGTTAAA
* * *
15164582 GAAGCAGATCG-AAA-AAGTCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAG-A-A--AGA
1 GAAGCAGATCGAAAACAAATCTTGCCTCTCATAGGTTGCAGTGGAGCTGGTTGAAGAATATCAGA
*
15164640 TCTTGCCTTCCTGCATTAACAGC
66 TCTTGCCTTCCTGCATTAACAGT
* * * *
15164663 GAAGCAGATCGAAAACAAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGAA-GT-AG
1 GAAGCAGATCGAAAACAAA-TCTTGCCTCTCATAGGTTGCAGTGGAGCTGGTTGAAGAATATCAG
*
15164725 ATCTTGCCTTCCTACATTAACAGT
65 ATCTTGCCTTCCTGCATTAACAGT
* * *
15164749 GAAGCAGATCAAAAACAAATCCTTGCCTC-CATCGGTTGCAGTGGAGCTGGTTGAAG-ATAGCAG
1 GAAGCAGATCGAAAACAAAT-CTTGCCTCTCATAGGTTGCAGTGGAGCTGGTTGAAGAATATCAG
*
15164812 ATCTTGCCTTCCTGCGTTAACAGT
65 ATCTTGCCTTCCTGCATTAACAGT
* * * * ** *
15164836 GAAGTAGATCGAACACAAATCTTGCCTCTC-TAGGTAGTAACGGAGCTGGTTGAAGAATTTCAGA
1 GAAGCAGATCGAAAACAAATCTTGCCTCTCATAGGTTGCAGTGGAGCTGGTTGAAGAATATCAGA
15164900 TCTT
66 TCTT
15164904 ATCTCCCTGA
Statistics
Matches: 207, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
81 11 0.05
82 3 0.01
83 2 0.01
84 35 0.17
85 2 0.01
86 102 0.49
87 52 0.25
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (88 bp):
GAAGCAGATCGAAAACAAATCTTGCCTCTCATAGGTTGCAGTGGAGCTGGTTGAAGAATATCAGA
TCTTGCCTTCCTGCATTAACAGT
Found at i:15165086 original size:44 final size:44
Alignment explanation
Indices: 15165036--15165234 Score: 167
Period size: 44 Copynumber: 4.6 Consensus size: 44
15165026 AGGTTTTATT
*
15165036 TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATC
1 TCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAAATCCTATC
* * ** *
15165080 TCCCTGATATTACAGTGGAGCGGATT-AAAATA-AAGGATCTTATC
1 TCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAA--ATCCTATC
** * * * * * * *
15165124 TCTTTGA-AGTTACAGTAGAGAAGATCGTATC-AG--GTCTTATC
1 TCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGAAATCCTATC
*
15165165 TCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATC
1 TCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAAATCCTATC
* *
15165209 TCCCTGATATTACAGTGGAGCGGATT
1 TCCCTGAGATTACAGTGGAGCAGATT
15165235 AAACAAAGGA
Statistics
Matches: 117, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
41 28 0.24
42 5 0.04
43 5 0.04
44 78 0.67
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGAAATCCTATC
Found at i:15165137 original size:129 final size:129
Alignment explanation
Indices: 15164902--15165342 Score: 636
Period size: 129 Copynumber: 3.4 Consensus size: 129
15164892 ATTTCAGATC
* * * *
15164902 TTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAATCCTATCTCCTTGATATTACAG
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-GCTAGAAATCCTATCTCCCTGATATTACAG
* * * * *
15164966 TGGAGTGGATTAAAATGAAGGACCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTT
65 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
*
15165031 TTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
* * * *
15165096 GGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGAAGATCGTATCAGGTC
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
15165160 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
*
15165225 GGAGCGGATT-AAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
* * * * * * * *
15165288 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC-CGATAATTCTATCTCCCTG
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA-AATCCTATCTCCCTG
15165343 GTTGGCAGTG
Statistics
Matches: 282, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
127 2 0.01
128 92 0.33
129 185 0.66
130 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGAAATCCTATCTCCCTGATATTACAGT
GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTT
Found at i:15165449 original size:95 final size:95
Alignment explanation
Indices: 15165286--15165463 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 95
15165276 TCGCATCAGG
* * *
15165286 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGGCAG
1 TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGATAATGCTATCTCCCTGGTTGGCAG
*
15165351 TGGAATAGATTGAAGATTGAAAATGGCAGA
66 TGGAATAGATTAAAGATTGAAAATGGCAGA
* * *
15165381 TTTTACTTCCCTGTGATTATAGTGGAGTATAGTGAAGCC-AGTAATGCTATCTCCCTGGTTGGCA
1 TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGA-TAATGCTATCTCCCTGGTTGGCA
15165445 GTGGAATAGATTAAAGATT
65 GTGGAATAGATTAAAGATT
15165464 CTAGATTCTG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 74 0.99
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (95 bp):
TTTTACCTCCCTGTGATTACAGTGGAGTACAGTGAAGCCGATAATGCTATCTCCCTGGTTGGCAG
TGGAATAGATTAAAGATTGAAAATGGCAGA
Found at i:15169848 original size:87 final size:87
Alignment explanation
Indices: 15169702--15169865 Score: 328
Period size: 87 Copynumber: 1.9 Consensus size: 87
15169692 TAAGGTACGC
15169702 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
1 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
15169767 TCACTAAATTTCCCTTGTACCT
66 TCACTAAATTTCCCTTGTACCT
15169789 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
1 TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
15169854 TCACTAAATTTC
66 TCACTAAATTTC
15169866 TCTTCCTATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.39
Consensus pattern (87 bp):
TGTTGCAAGCCCAATTAATTTCTCCTCCCTTTCGACCCACCTTCAATTTTTGTCTTTAAGGCCCT
TCACTAAATTTCCCTTGTACCT
Found at i:15170893 original size:14 final size:14
Alignment explanation
Indices: 15170874--15170910 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
15170864 TTATTTATCT
15170874 TTTTCTTTCTTTTA
1 TTTTCTTTCTTTTA
*
15170888 TTTTCTTTGTTTTA
1 TTTTCTTTCTTTTA
15170902 TTATTCTTT
1 TT-TTCTTT
15170911 TAATATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTCTTTCTTTTA
Found at i:15175652 original size:41 final size:41
Alignment explanation
Indices: 15175595--15175678 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
15175585 TTCGCATTGA
15175595 ATTAATAAATTTTTAATTAAATTATAAAGT-AAATCTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAAT-TTTTGG
15175636 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
1 ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
15175677 AT
1 AT
15175679 GAATGGGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 38 0.90
42 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (41 bp):
ATTAATAAATTTTTAATTAAATTATAAAGTAAAATTTTTGG
Found at i:15177149 original size:23 final size:23
Alignment explanation
Indices: 15177123--15177176 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
15177113 TCAAGCCATC
15177123 AAATATA-GTTGACCAATCTTTTT
1 AAATATATGTTGACCAAT-TTTTT
15177146 AAATATATTGTTGACCAATTTTTT
1 AAATATA-TGTTGACCAATTTTTT
15177170 AAATATA
1 AAATATA
15177177 AATAAGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.24
24 12 0.41
25 10 0.34
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (23 bp):
AAATATATGTTGACCAATTTTTT
Found at i:15177173 original size:24 final size:25
Alignment explanation
Indices: 15177125--15177176 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
15177115 AAGCCATCAA
15177125 ATATAGTTGACCAATCTTTTTAAAT
1 ATATAGTTGACCAATCTTTTTAAAT
*
15177150 ATATTGTTGACCAAT-TTTTTAAAT
1 ATATAGTTGACCAATCTTTTTAAAT
15177174 ATA
1 ATA
15177177 AATAAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
ATATAGTTGACCAATCTTTTTAAAT
Found at i:15179807 original size:2 final size:2
Alignment explanation
Indices: 15179802--15179829 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15179792 AGGAAGAATA
15179802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15179830 GAATGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15179817 original size:75 final size:75
Alignment explanation
Indices: 15179753--15179954 Score: 404
Period size: 75 Copynumber: 2.7 Consensus size: 75
15179743 GCTATAGGGA
15179753 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATATATATATATATAT
1 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATATATATATATATAT
15179818 ATATATATAT
66 ATATATATAT
15179828 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATATATATATATATAT
1 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATATATATATATATAT
15179893 ATATATATAT
66 ATATATATAT
15179903 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATA
1 ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATA
15179955 AAACGGAAAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 127 1.00
ACGTcount: A:0.50, C:0.01, G:0.12, T:0.37
Consensus pattern (75 bp):
ATGAATGTATATTTTAGAATATGTATGTATAAAAAAATCAGGAAGAATAATATATATATATATAT
ATATATATAT
Found at i:15179882 original size:2 final size:2
Alignment explanation
Indices: 15179877--15179904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15179867 AGGAAGAATA
15179877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15179905 GAATGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15181359 original size:44 final size:45
Alignment explanation
Indices: 15181280--15181756 Score: 197
Period size: 44 Copynumber: 10.8 Consensus size: 45
15181270 GAATAAAATT
* * * * *
15181280 TGCTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * *
15181324 TGCTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * *
15181369 TTCTATCTTCGATCTACTCCACTACT-ACCT-AGGGAGATAAGATC
1 TGCTAGCTTCAATCTACTCCACT-GTAACCTCAGGGAGATAAGATC
* * **
15181413 TG-TAATCTTCAATCTATTCCACTGTTGCC-CAGGGAGAT-AGAAT-
1 TGCT-AGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAG-ATC
** * * * *
15181456 TATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
* * * * * * *
15181501 CGCCATCTTCGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATT
1 TGCTAGCTTCAATCTACTCCACTGTAAC--CTCAGGGAGATAAGATC
* * * * *
15181545 TG-TAATCTTTAATCTA-TCCCACTGCT--GCACAGGAAGAT-AGAGT-
1 TGCT-AGCTTCAATCTACT-CCACTG-TAACCTCAGGGAGATAAGA-TC
* * * *
15181588 TACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
** * * ** * * *
15181633 CACCAACTTTGATCTGCTCCACTACT-A-CTTAGGGAGATAAGATC
1 TGCTAGCTTCAATCTACTCCACT-GTAACCTCAGGGAGATAAGATC
* * **
15181677 TG-TAATCTTCAATCTATTCCACTGTTGCC-CAGGGAGAT-AGAAT-
1 TGCT-AGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAG-ATC
* * *
15181720 TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
1 TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAG
15181757 GTAAAATCCA
Statistics
Matches: 311, Mismatches: 91, Indels: 62
0.67 0.20 0.13
Matches are distributed among these distances:
42 3 0.01
43 68 0.22
44 180 0.58
45 57 0.18
46 2 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TGCTAGCTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATC
Found at i:15181549 original size:132 final size:132
Alignment explanation
Indices: 15181326--15181815 Score: 800
Period size: 132 Copynumber: 3.7 Consensus size: 132
15181316 GATAAGACTG
** * * *
15181326 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTTCTATCTTCGATCTACTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTCGATCTGCTCCAC
*
15181391 TACTACCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
66 TACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
15181456 TA
131 TA
* * *
15181458 TTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTCGATCTGCTCCAC
* * * * * * * *
15181523 TACTGCTTAGGGAGATAAGATTTGTAATCTTTAATCTATCCCACTGCTGCACAGGAAGATAGAGT
66 TACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
15181588 TA
131 TA
* *
15181590 CTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTTGATCTGCTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTCGATCTGCTCCAC
15181655 TACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
66 TACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
15181720 TA
131 TA
*
15181722 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTTGATCTGCTCCAC
1 CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTCGATCTGCTCCAC
15181787 TACTACTTAGGGAGATAAGATCTGTAATC
66 TACTACTTAGGGAGATAAGATCTGTAATC
15181816 CTGCTTCACG
Statistics
Matches: 330, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 330 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAACTTCGATCTGCTCCAC
TACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT
TA
Found at i:15181978 original size:89 final size:89
Alignment explanation
Indices: 15181819--15182737 Score: 1489
Period size: 89 Copynumber: 10.3 Consensus size: 89
15181809 TGTAATCCTG
* * *
15181819 CTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTGCTTCACCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15181884 GCAAGATCTGTTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
* *
15181908 CTCCACGCCAGTACATGAAGACAAGATCTGCTTTCTCCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15181973 ACAAGATCTGTTATCTTTGATATA
66 ACAAGATCTGTTATCTTTGATCTA
* * * *
15181997 CTCCACGCCAGTAAATGAAGACAAGATCTACTTTCTCCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182062 ACAAGATCTGGTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
* * *
15182086 CTTCACGCCATTACATGAAGACAAGATATGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182151 ACAAGATCTGGTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
* * *
15182175 CTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTTGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182240 ACAAGATCTGGTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
* *
15182264 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTCCGATCTACTTCACCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
15182329 ACAAGATCTGTTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
* *
15182353 CTTTACTCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182418 ACAAGATCTATTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
*
15182442 CTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182507 ACAAGATCTATTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
*
15182531 CTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
*
15182596 ACAAGATCTATTATCTTTGATCTA
66 ACAAGATCTGTTATCTTTGATCTA
*
15182620 CTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
* * *
15182685 ACAAGATCTATTGTAC-TCGATCTA
66 ACAAGATCTGTTAT-CTTTGATCTA
* * * *
15182709 CTTCATGTCAATACATAAAGACAAGATCT
1 CTTCACGCCAGTACATGAAGACAAGATCT
15182738 ACTGCTTTTC
Statistics
Matches: 789, Mismatches: 40, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
89 788 1.00
90 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (89 bp):
CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
ACAAGATCTGTTATCTTTGATCTA
Found at i:15183636 original size:13 final size:13
Alignment explanation
Indices: 15183618--15183642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15183608 AAATTGTCGA
15183618 GGATAATAAAGAT
1 GGATAATAAAGAT
15183631 GGATAATAAAGA
1 GGATAATAAAGA
15183643 AATTGATTTA
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:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
GGATAATAAAGAT
Found at i:15185013 original size:18 final size:18
Alignment explanation
Indices: 15184987--15185028 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15184977 TAGTTTGGCA
*
15184987 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
15185005 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
15185023 GAAAGA
1 GAAAGA
15185029 GCATTTGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.19, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:15186933 original size:19 final size:19
Alignment explanation
Indices: 15186893--15186934 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15186883 ATAATCCTTG
* *
15186893 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
15186912 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
15186931 ATGC
1 ATGC
15186935 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:15186982 original size:13 final size:13
Alignment explanation
Indices: 15186964--15186989 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15186954 TGTTCAATTT
15186964 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15186977 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15186990 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:15197819 original size:62 final size:59
Alignment explanation
Indices: 15197747--15197863 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
15197737 AATGATTATC
* * * *
15197747 TTAATATTAAAATTAATTTAATGTTTATCTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAAATTAATTTAATATTTA--TT-AAGATAAATATTATATTAATTTAATAAGAT
*
15197809 TTAATATTAAATTTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
1 TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATA
15197864 TTAAAGTGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
60 2 0.04
62 25 0.50
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAAATTAATTTAATATTTATTAAGATAAATATTATATTAATTTAATAAGAT
Found at i:15204954 original size:14 final size:15
Alignment explanation
Indices: 15204935--15204967 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
15204925 TTTACTTTGT
15204935 TTTTTATTT-GTTTA
1 TTTTTATTTAGTTTA
15204949 TTTTTATTTAGTTTA
1 TTTTTATTTAGTTTA
15204964 TTTT
1 TTTT
15204968 AATTCCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTTATTTAGTTTA
Found at i:15210933 original size:29 final size:29
Alignment explanation
Indices: 15210883--15210942 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
15210873 TAGTAATAGG
* *
15210883 AAATTCCATTAGGATTTCTTAGGTTAGTT
1 AAATTCCACTAGGATTTCTTAGGTTAATT
*
15210912 AAATTCCACTAGG-TTATTTTAGGTTAATT
1 AAATTCCACTAGGATT-TCTTAGGTTAATT
15210941 AA
1 AA
15210943 TTTAATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (29 bp):
AAATTCCACTAGGATTTCTTAGGTTAATT
Found at i:15214075 original size:18 final size:18
Alignment explanation
Indices: 15214052--15214101 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
15214042 TCATCTGCTC
15214052 TTCATCTTCCTCATCACA
1 TTCATCTTCCTCATCACA
* *
15214070 TTCATCCTCCTC--CTCA
1 TTCATCTTCCTCATCACA
*
15214086 -TCCTCTTCCTCATCAC
1 TTCATCTTCCTCATCAC
15214102 TTGAACCTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
15 9 0.36
16 3 0.12
17 2 0.08
18 11 0.44
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCATCTTCCTCATCACA
Found at i:15227999 original size:59 final size:59
Alignment explanation
Indices: 15227897--15228017 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
15227887 ATTGATTTAT
* *
15227897 TTTTGAATATTTTTGTACAAATTATTTTTATATTGCTTCATTTAATAAAATA-GAAGTTA
1 TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATG-AGTTA
* * * * *
15227956 TTTTGAATATGTTTGTTCAATTTATTTTTAAATTGTTTTATTTAATAAATTATGAGTTA
1 TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATGAGTTA
15228015 TTT
1 TTT
15228018 CGATGTGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 53 0.98
60 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (59 bp):
TTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATTTAATAAAATATGAGTTA
Found at i:15229246 original size:30 final size:30
Alignment explanation
Indices: 15229206--15229266 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15229196 CAGATTTTAG
*
15229206 GAGCCACATGGGCTGGGCACACGCCCATGT
1 GAGCCACATGGGCTGAGCACACGCCCATGT
* *
15229236 GAGCCTCATGGGCTGAGCACATGCCCATGT
1 GAGCCACATGGGCTGAGCACACGCCCATGT
15229266 G
1 G
15229267 CCAACCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (30 bp):
GAGCCACATGGGCTGAGCACACGCCCATGT
Found at i:15235100 original size:6 final size:6
Alignment explanation
Indices: 15235085--15235138 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
15235075 AGTTTATTTC
* * *
15235085 TTTTCT TTTTAG TTTTAT TTTTCT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
15235133 TTTTAT
1 TTTTAT
15235139 GTTCTTAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:15235108 original size:18 final size:18
Alignment explanation
Indices: 15235085--15235138 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
15235075 AGTTTATTTC
*
15235085 TTTTCTTTTTAGTTTTAT
1 TTTTCTTTTTATTTTTAT
15235103 TTTTCTTTTTATTTTTAT
1 TTTTCTTTTTATTTTTAT
*
15235121 TTTTATTTTTATTTTTAT
1 TTTTCTTTTTATTTTTAT
15235139 GTTCTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTATTTTTAT
Found at i:15236118 original size:9 final size:9
Alignment explanation
Indices: 15236104--15236128 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15236094 TTGTTCAGAA
15236104 AAAAAAATC
1 AAAAAAATC
15236113 AAAAAAATC
1 AAAAAAATC
15236122 AAAAAAA
1 AAAAAAA
15236129 AATGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATC
Found at i:15236992 original size:30 final size:30
Alignment explanation
Indices: 15236952--15237009 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
15236942 TTTCAGGAGC
* *
15236952 CACACGGGCTGGGCACATGCCCATGTGAGA
1 CACACAGGCTGGACACATGCCCATGTGAGA
15236982 CACACAGGCTGGACACATGCCCATGTGA
1 CACACAGGCTGGACACATGCCCATGTGA
15237010 TAGCCAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (30 bp):
CACACAGGCTGGACACATGCCCATGTGAGA
Found at i:15243017 original size:41 final size:41
Alignment explanation
Indices: 15242969--15243046 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
15242959 CTGTCTAACC
* *
15242969 TAATTGACAAATTCTATTATTTAACTTTTGTTTTACACCCA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACCCA
* * *
15243010 TAATTGACGAATTTTGTTATTCAACTTCTGTTTTACA
1 TAATTGACAAATTCTATTATTCAACTTCTGTTTTACA
15243047 TGATAAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (41 bp):
TAATTGACAAATTCTATTATTCAACTTCTGTTTTACACCCA
Found at i:15246513 original size:19 final size:19
Alignment explanation
Indices: 15246489--15246527 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15246479 TTTAGCTCTA
*
15246489 TTTAATTTATTTTTTAATT
1 TTTAATATATTTTTTAATT
15246508 TTTAATATATTTTTTAATT
1 TTTAATATATTTTTTAATT
15246527 T
1 T
15246528 ATATTATNNN
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTAATATATTTTTTAATT
Found at i:15250561 original size:107 final size:108
Alignment explanation
Indices: 15250433--15250647 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
15250423 TGGTATGTAT
15250433 AAATTAATTTATTTTATTATTTATTTATACATTTTAAAATTTTAGATATAAATTTAAAAAATAAT
1 AAATTAATTTATTTTATTATTTATTTATACATTTTAAAATTTTAGATATAAATTTAAAAAATAAT
15250498 GTAAATTGAGAAGGATAATTTTTTTTGTTAGAGACTTATTTAG
66 GTAAATTGAGAAGGATAATTTTTTTTGTTAGAGACTTATTTAG
15250541 AAATTAATTT-TTTTATTATTTATTTATACATTTTAAAATTTTAGATATAAATTTAAAAAATAAT
1 AAATTAATTTATTTTATTATTTATTTATACATTTTAAAATTTTAGATATAAATTTAAAAAATAAT
15250605 GTAAATTGAGAAGGATAATTTTTTTTGTTAGAGACTTATTTAG
66 GTAAATTGAGAAGGATAATTTTTTTTGTTAGAGACTTATTTAG
15250648 TGATGAATAT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 97 0.91
108 10 0.09
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.48
Consensus pattern (108 bp):
AAATTAATTTATTTTATTATTTATTTATACATTTTAAAATTTTAGATATAAATTTAAAAAATAAT
GTAAATTGAGAAGGATAATTTTTTTTGTTAGAGACTTATTTAG
Found at i:15251800 original size:24 final size:24
Alignment explanation
Indices: 15251771--15251819 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15251761 AAAATCAAAA
15251771 TTTAGAGGCAAAAAAGGATCTTTT
1 TTTAGAGGCAAAAAAGGATCTTTT
15251795 TTTAGAGGCAAAAAAGGATCTTTT
1 TTTAGAGGCAAAAAAGGATCTTTT
15251819 T
1 T
15251820 CGACGAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (24 bp):
TTTAGAGGCAAAAAAGGATCTTTT
Found at i:15254089 original size:58 final size:59
Alignment explanation
Indices: 15254027--15254143 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 59
15254017 GTAAGTTTCT
*
15254027 TTATAATTGAATAACAGAAAAAATTTACCAATAATTAGATGACTACC-AAAAAAGAAAG
1 TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
* *
15254085 TTATAATTGAGTAACAGAAAAAAATTATCAATAATTAGATGACTACCAAAAAAAGAAAG
1 TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
15254144 AATTTAAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 44 0.80
59 11 0.20
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (59 bp):
TTATAATTGAATAACAGAAAAAAATTACCAATAATTAGATGACTACCAAAAAAAGAAAG
Found at i:15254091 original size:30 final size:32
Alignment explanation
Indices: 15254056--15254143 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 32
15254046 AAAATTTACC
15254056 AATAATTAGATGACTACCAAAAAAGAAAGT-T
1 AATAATTAGATGACTACCAAAAAAGAAAGTAT
* * *
15254087 -ATAATT-GA-G--TAACAGAAAA-AAATTAT
1 AATAATTAGATGACTACCAAAAAAGAAAGTAT
15254113 CAATAATTAGATGACTACCAAAAAAAGAAAG
1 -AATAATTAGATGACTACC-AAAAAAGAAAG
15254144 AATTTAAAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
25 4 0.10
26 9 0.21
28 7 0.17
29 4 0.10
30 7 0.17
32 3 0.07
33 5 0.12
34 3 0.07
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.22
Consensus pattern (32 bp):
AATAATTAGATGACTACCAAAAAAGAAAGTAT
Found at i:15257637 original size:61 final size:61
Alignment explanation
Indices: 15257563--15257693 Score: 147
Period size: 61 Copynumber: 2.1 Consensus size: 61
15257553 ACTTTTAAGA
* * * * * ** *
15257563 GCTTAATGGGAA-TTTCTAAAAATTTTGGAAATCTAATTAGAATTTTTAAAAATTTTGAAAG
1 GCTTAATGAGAATTTTCTAAAAA-TTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
* **
15257624 GCTTAATGAGAATTTTTTAAAAATTTAGAGCCCTAATTAAAATTATTAAAAAAATTAAAAG
1 GCTTAATGAGAATTTTCTAAAAATTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
15257685 GCTTAATGA
1 GCTTAATGA
15257694 CAAATTTCCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 49 0.84
62 9 0.16
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (61 bp):
GCTTAATGAGAATTTTCTAAAAATTTAGAAACCTAATTAAAATTATTAAAAAAATTAAAAG
Found at i:15257639 original size:31 final size:31
Alignment explanation
Indices: 15257562--15257649 Score: 108
Period size: 30 Copynumber: 2.8 Consensus size: 31
15257552 AACTTTTAAG
* *
15257562 AGCTTAATGGGAATTTCTAAAAATTTTGGAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
* *
15257593 ATC-TAATTAGAATTTTTAAAAATTTT-GAA
1 AGCTTAATGAGAATTTTTAAAAATTTTGGAA
15257622 AGGCTTAATGAGAATTTTTTAAAAATTT
1 A-GCTTAATGAGAA-TTTTTAAAAATTT
15257650 AGAGCCCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
29 4 0.08
30 21 0.44
31 10 0.21
32 13 0.27
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (31 bp):
AGCTTAATGAGAATTTTTAAAAATTTTGGAA
Found at i:15260040 original size:24 final size:25
Alignment explanation
Indices: 15260013--15260066 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
15260003 TTTAATTAGC
15260013 AAATATA-TATTTTAAAAA-ATTTAA
1 AAATATATTA-TTTAAAAATATTTAA
*
15260037 AAATATATTATTTAAAAATTTTTAA
1 AAATATATTATTTAAAAATATTTAA
15260062 AAATA
1 AAATA
15260067 AATACGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AAATATATTATTTAAAAATATTTAA
Found at i:15260054 original size:25 final size:24
Alignment explanation
Indices: 15260013--15260066 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
15260003 TTTAATTAGC
*
15260013 AAATATATATTTTAAAAAATTTAA
1 AAATATATATTTAAAAAAATTTAA
**
15260037 AAATATATTATTTAAAAATTTTTAA
1 AAATATA-TATTTAAAAAAATTTAA
15260062 AAATA
1 AAATA
15260067 AATACGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATATATTTAAAAAAATTTAA
Found at i:15263062 original size:46 final size:45
Alignment explanation
Indices: 15262995--15263124 Score: 201
Period size: 46 Copynumber: 2.9 Consensus size: 45
15262985 NNNNNNNNNN
15262995 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG
15263040 TTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG
1 -TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG
** * *
15263086 CCTAACTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
15263125 ATCATACGTA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
43 12 0.15
44 5 0.06
45 18 0.22
46 45 0.56
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (45 bp):
TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG
Done.