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 19 of 145
Found at i:7062675 original size:21 final size:21
Alignment explanation
Indices: 7062649--7062696 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7062639 AGGCTGAGAT
*
7062649 TATTTTGAGTGAT-TTTATAAA
1 TATTTTGA-TGATAATTATAAA
*
7062670 TATTTTGATTATAATTATAAA
1 TATTTTGATGATAATTATAAA
7062691 TATTTT
1 TATTTT
7062697 TAGGGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
TATTTTGATGATAATTATAAA
Found at i:7062751 original size:31 final size:29
Alignment explanation
Indices: 7062716--7062785 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
7062706 ATCTCAAAAT
*
7062716 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* * *
7062747 TATACATGAATTTTGATTTTGTGCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
7062776 TATACATGAA
1 TATACATGAA
7062786 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:7062770 original size:29 final size:30
Alignment explanation
Indices: 7062737--7062795 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
7062727 TATGGTTTAA
7062737 TGTGCAATTGTATACATG-AATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
7062766 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
7062796 GATCAAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:7063307 original size:14 final size:14
Alignment explanation
Indices: 7063270--7063313 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7063260 ACAAGTCAAC
*
7063270 TTAATATTTAATTT
1 TTAATATTAAATTT
7063284 ATT-ATAATTAAATTT
1 -TTAAT-ATTAAATTT
7063299 TTAATATTAAATTT
1 TTAATATTAAATTT
7063313 T
1 T
7063314 CCTTTTCACC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATATTAAATTT
Found at i:7064850 original size:44 final size:45
Alignment explanation
Indices: 7064800--7064895 Score: 176
Period size: 44 Copynumber: 2.2 Consensus size: 45
7064790 CAAGTATAAT
7064800 ATTACAATACGGATTGTTCTAGTAATCATAAAGTA-GAACAAACA
1 ATTACAATACGGATTGTTCTAGTAATCATAAAGTAGGAACAAACA
*
7064844 ATTACAATACGGATTGTTCTAGTAATCATAAAGTAGGATCAAACA
1 ATTACAATACGGATTGTTCTAGTAATCATAAAGTAGGAACAAACA
7064889 ATTACAA
1 ATTACAA
7064896 GCACAAACAG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 35 0.70
45 15 0.30
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (45 bp):
ATTACAATACGGATTGTTCTAGTAATCATAAAGTAGGAACAAACA
Found at i:7068099 original size:40 final size:36
Alignment explanation
Indices: 7068030--7068102 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 36
7068020 GTACGGCTTG
*
7068030 AATTTAATTTAAATAAAAAAATATTTTTAAAATTTA
1 AATTTAATTTAAATAAAAAAATATATTTAAAATTTA
*
7068066 AATTTAATTATAAAGTATAAAAATATCAATTTAAAAT
1 AATTTAATT-TAAA-TAAAAAAATAT--ATTTAAAAT
7068103 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.29
37 4 0.13
38 10 0.32
40 8 0.26
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (36 bp):
AATTTAATTTAAATAAAAAAATATATTTAAAATTTA
Found at i:7069182 original size:57 final size:56
Alignment explanation
Indices: 7069066--7069203 Score: 152
Period size: 57 Copynumber: 2.4 Consensus size: 56
7069056 AATAAGATTA
* * *
7069066 TTAATAAAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAAT-AAAATAATATATAATTTAATAAAATTTTAACATAATTATTATT-AATATAAT
* *
7069124 TTAATAAAATAATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATATATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AAT
*
7069181 TTACTAAATTCATAATATATAAT
1 TTAATAAA---ATAATATATAAT
7069204 ACTATAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
56 4 0.06
57 33 0.48
58 20 0.29
60 12 0.17
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
TTAATAAAATAATATATAATTTAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:7072033 original size:7 final size:7
Alignment explanation
Indices: 7072021--7072050 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
7072011 GTTTTGCATA
7072021 AAAATCT
1 AAAATCT
7072028 AAAATCT
1 AAAATCT
7072035 AAAATCT
1 AAAATCT
7072042 AAAATCT
1 AAAATCT
7072049 AA
1 AA
7072051 TCATTAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATCT
Found at i:7072128 original size:34 final size:34
Alignment explanation
Indices: 7072089--7072156 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
7072079 GATGGCACCC
*
7072089 AATGTAAGTAAGAACCAACTCGCAATTGTACACA
1 AATGTAAGTAAGAACCAACTCACAATTGTACACA
7072123 AATGTAAGTAAGAACCAACTCACAATTGTACACA
1 AATGTAAGTAAGAACCAACTCACAATTGTACACA
7072157 TTTGCAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (34 bp):
AATGTAAGTAAGAACCAACTCACAATTGTACACA
Found at i:7073719 original size:16 final size:16
Alignment explanation
Indices: 7073695--7073727 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7073685 GGGAATAACC
7073695 CAGAGCACAATCTAAA
1 CAGAGCACAATCTAAA
*
7073711 CAGATCACAATCTAAA
1 CAGAGCACAATCTAAA
7073727 C
1 C
7073728 TTCATGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.27, G:0.09, T:0.15
Consensus pattern (16 bp):
CAGAGCACAATCTAAA
Found at i:7078463 original size:50 final size:50
Alignment explanation
Indices: 7078332--7078667 Score: 221
Period size: 50 Copynumber: 6.7 Consensus size: 50
7078322 ACCATAGATT
* * * *
7078332 TTACTTCATTAGTAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
*** * * * * * * *
7078382 TGGTTTCCCT-GATATTGCAAT-TAACAAGATTGAAGCCACAACGACGAATC
1 TTACTTCCTTAG-CAGTGCAGTGGAAC-AGATTGAAGCCACAACGGCGGATC
* * *
7078432 TTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGGCGGATC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
*** * * * * ** * *
7078482 TGGTTTCCCT-GATATTGCAATTAAAAAGATTGAAGCCGCAACGGCGGATC
1 TTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
* * * *
7078532 TTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGACGGATC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
* * * * * * ** * *
7078582 TGATTTCCCT-GATATTGCAATTAAAAAGATTGAAGTCACAACGGCGGATC
1 TTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
*
7078632 TTACTTCCTTAGCAGTGCAGTGGAACAGATGGAAGC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
7078668 TACGATGACG
Statistics
Matches: 199, Mismatches: 79, Indels: 16
0.68 0.27 0.05
Matches are distributed among these distances:
49 6 0.03
50 187 0.94
51 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCCACAACGGCGGATC
Found at i:7078505 original size:100 final size:100
Alignment explanation
Indices: 7078332--7078749 Score: 651
Period size: 100 Copynumber: 4.2 Consensus size: 100
7078322 ACCATAGATT
* * *
7078332 TTACTTCATTAGTAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
7078397 TGCAATTAACAAGATTGAAGCCACAACGACGAATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
* *
7078432 TTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
7078497 TGCAATTAAAAAGATTGAAGCCGCAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
* *
7078532 TTACTTCCTTAGCAGTGCAGTGGAACGGATTGAAGCTACGACGACGGATCTGATTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
7078597 TGCAATTAAAAAGATTGAAGTCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
* * * *
7078632 TTACTTCCTTAGCAGTGCAGTGGAACAGATGGAAGCTACGATGACGGATTTGGTGTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
7078697 TGCAATTAAAAAGATTGAAGCCACAACGGCGGAA-C
66 TGCAATTAAAAAGATTGAAGCCACAACGGC-GAATC
7078732 TTACCTTCCTTA-CAGTGC
1 TTA-CTTCCTTAGCAGTGC
7078750 CGGGGCAAAG
Statistics
Matches: 297, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
100 287 0.97
101 10 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGAATC
Found at i:7092314 original size:115 final size:115
Alignment explanation
Indices: 7092112--7092348 Score: 440
Period size: 115 Copynumber: 2.1 Consensus size: 115
7092102 AATTACCGAA
* *
7092112 ATGTAGTGCCATAGACGGTGGCATACTAAGCAAGGACGTACCCCAAATCTTGTCCTCATTTTCCC
1 ATGTAGTGCCATAGACAGCGGCATACTAAGCAAGGACGTACCCCAAATCTTGTCCTCATTTTCCC
*
7092177 ACCAATCATTGTAGAATCAAAATTAAGATAAATAGCAAGGTTGCTTACTT
66 ACCAATCATTGTAGAATCAAAATTAAGATAAATAACAAGGTTGCTTACTT
7092227 ATGTAGTGCCATAGACAGCGGCATACTAAGCAAGGACGTACCCCAAATCTTGTCCTCATTTTCCC
1 ATGTAGTGCCATAGACAGCGGCATACTAAGCAAGGACGTACCCCAAATCTTGTCCTCATTTTCCC
7092292 ACCAATCATTGTAGAATCAAAATTAAGATAAATAACAAGGTTGCTTACTT
66 ACCAATCATTGTAGAATCAAAATTAAGATAAATAACAAGGTTGCTTACTT
7092342 AT-TAGTG
1 ATGTAGTG
7092349 AATAATGCAT
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
114 5 0.04
115 114 0.96
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (115 bp):
ATGTAGTGCCATAGACAGCGGCATACTAAGCAAGGACGTACCCCAAATCTTGTCCTCATTTTCCC
ACCAATCATTGTAGAATCAAAATTAAGATAAATAACAAGGTTGCTTACTT
Found at i:7099720 original size:24 final size:22
Alignment explanation
Indices: 7099672--7099720 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
7099662 TAAAGCAGAT
* *
7099672 ATATTTAGTTAAAATTCAATAA
1 ATATTTAGGTAAAATTCAAAAA
*
7099694 ATATTTAAGGTAAAATTTAAAATA
1 ATATTT-AGGTAAAATTCAAAA-A
7099718 ATA
1 ATA
7099721 GTAGAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (22 bp):
ATATTTAGGTAAAATTCAAAAA
Found at i:7100694 original size:2 final size:2
Alignment explanation
Indices: 7100687--7100722 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7100677 TCACTCCCAA
7100687 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7100723 ACACACACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7102715 original size:2 final size:2
Alignment explanation
Indices: 7102708--7102736 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7102698 ACAAAGGACA
7102708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7102737 GATTATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7103740 original size:2 final size:2
Alignment explanation
Indices: 7103733--7103757 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7103723 ATTTTACTAC
7103733 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7103758 TATTGGCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7110467 original size:8 final size:7
Alignment explanation
Indices: 7110453--7110496 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
7110443 GAGGGTTGAG
7110453 TTTTCTT
1 TTTTCTT
7110460 TCTTTCTT
1 T-TTTCTT
7110468 TCTTTCTT
1 T-TTTCTT
*
7110476 TTTTTTT
1 TTTTCTT
*
7110483 TTTTTTT
1 TTTTCTT
7110490 TTTTCTT
1 TTTTCTT
7110497 CTCCTCTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 19 0.56
8 15 0.44
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:7110471 original size:12 final size:11
Alignment explanation
Indices: 7110453--7110496 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 11
7110443 GAGGGTTGAG
7110453 TTTTCTTTCTT
1 TTTTCTTTCTT
7110464 TCTTTCTTTCTT
1 T-TTTCTTTCTT
*
7110476 TTTT-TTTTTT
1 TTTTCTTTCTT
*
7110486 TTTTTTTTCTT
1 TTTTCTTTCTT
7110497 CTCCTCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
11 9 0.31
12 11 0.38
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:7112338 original size:25 final size:25
Alignment explanation
Indices: 7112308--7112365 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
7112298 CCCATTTTTT
* *
7112308 AATAAACATTAAAAAATATTTTAAA
1 AATAAAAAATAAAAAATATTTTAAA
7112333 AATAAAAAAATAAAAAATATTTTAAA
1 AAT-AAAAAATAAAAAATATTTTAAA
7112359 AATAAAA
1 AATAAAA
7112366 TATATATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAAAAAATAAAAAATATTTTAAA
Found at i:7128465 original size:22 final size:23
Alignment explanation
Indices: 7128428--7128471 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7128418 TACAAAAATG
*
7128428 TATTAAATTTGTATAAAATTAAT
1 TATTAAATGTGTATAAAATTAAT
*
7128451 TATT-AATGTGTATAAATTTAA
1 TATTAAATGTGTATAAAATTAA
7128472 ATAAATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
TATTAAATGTGTATAAAATTAAT
Found at i:7131649 original size:13 final size:13
Alignment explanation
Indices: 7131631--7131671 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
7131621 AATAATAATT
7131631 AAAAATTTATAAA
1 AAAAATTTATAAA
7131644 AAAAATTTA-AAA
1 AAAAATTTATAAA
7131656 ATAAAA--TATAAA
1 A-AAAATTTATAAA
7131668 AAAA
1 AAAA
7131672 TTATTAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTTATAAA
Found at i:7132646 original size:2 final size:2
Alignment explanation
Indices: 7132639--7132671 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7132629 TCATTTATGA
*
7132639 CT CT CT CT CT CT CT CT CT CG CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7132672 ACACACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.03, T:0.45
Consensus pattern (2 bp):
CT
Found at i:7135566 original size:1 final size:1
Alignment explanation
Indices: 7135523--7135550 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
7135513 TTACATATTC
7135523 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
7135551 GTTTATGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7143223 original size:54 final size:54
Alignment explanation
Indices: 7143141--7143243 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
7143131 TAAGGGTTAG
7143141 CAACAAGGATCCGCCAGGTTGCCCACTTGACAACGAAAATTCTCCGACGTGAAC
1 CAACAAGGATCCGCCAGGTTGCCCACTTGACAACGAAAATTCTCCGACGTGAAC
*
7143195 CAACAAGGATCCGCCAGGTTGCCCACTTGGCAACGAAAATTCTCCGACG
1 CAACAAGGATCCGCCAGGTTGCCCACTTGACAACGAAAATTCTCCGACG
7143244 ATGTTCACGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (54 bp):
CAACAAGGATCCGCCAGGTTGCCCACTTGACAACGAAAATTCTCCGACGTGAAC
Found at i:7147621 original size:3 final size:3
Alignment explanation
Indices: 7147615--7147661 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7147605 TTAAAAACGC
7147615 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7147662 GTTGATACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7174990 original size:126 final size:126
Alignment explanation
Indices: 7174747--7174994 Score: 383
Period size: 127 Copynumber: 2.0 Consensus size: 126
7174737 AAATAAGGGT
*
7174747 TGAGAGATATTCATACTTTTTTCAAAAGATTGAAGATAACTTATTTTCTTGTTTTTAATAATAAT
1 TGAGAGATATTCATACTTTTTTCAAAAAATTGAAGATAACTTATTTTCTTGTTTTTAATAATAAT
* *
7174812 TTTAAAGAACGTTTATTTTTTTTCTATTTTTAATTTTTATTTGAATATTTTATTTTTGACA
66 TTTAAAGAACGCTTATTTTTTTTCTATTTTTAATTTTTATTTAAATATTTTATTTTTGACA
** * *
7174873 TGAGAGATAGTTCATTTTTTTTTCAAAAAATTGAAGATGATTTATTTTCTCT-TTTTTAATAATA
1 TGAGAGATA-TTCATACTTTTTTCAAAAAATTGAAGATAACTTATTTTCT-TGTTTTTAATAATA
* *
7174937 ATTTTAAAGAATGCTTA-TTTTTTTCTATTTTTAATTTTTATTTAAATTTTTTATTTTT
64 ATTTTAAAGAACGCTTATTTTTTTTCTATTTTTAATTTTTATTTAAATATTTTATTTTT
7174995 AAATTATTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
126 48 0.43
127 62 0.56
128 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (126 bp):
TGAGAGATATTCATACTTTTTTCAAAAAATTGAAGATAACTTATTTTCTTGTTTTTAATAATAAT
TTTAAAGAACGCTTATTTTTTTTCTATTTTTAATTTTTATTTAAATATTTTATTTTTGACA
Found at i:7175006 original size:16 final size:15
Alignment explanation
Indices: 7174956--7175007 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 15
7174946 AATGCTTATT
7174956 TTTTTCTATTTTT-AA
1 TTTTT-TATTTTTAAA
7174971 -TTTTTA--TTTAAA
1 TTTTTTATTTTTAAA
7174983 TTTTTTATTTTTAAA
1 TTTTTTATTTTTAAA
7174998 TTATTTTATT
1 TT-TTTTATT
7175008 GACATGACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.09
12 2 0.06
13 8 0.25
14 4 0.12
15 8 0.25
16 7 0.22
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTATTTTTAAA
Found at i:7176663 original size:19 final size:17
Alignment explanation
Indices: 7176623--7176673 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
7176613 TAATTTTAAT
*
7176623 TTTAA-TTATAAAATATA
1 TTTAAGTTATAAAA-AAA
7176640 TTTAAAGTTATAAAAAAA
1 TTT-AAGTTATAAAAAAA
*
7176658 TGTTAAGTTAGAAAAA
1 T-TTAAGTTATAAAAA
7176674 GATCTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (17 bp):
TTTAAGTTATAAAAAAA
Found at i:7178727 original size:4 final size:4
Alignment explanation
Indices: 7178718--7178980 Score: 508
Period size: 4 Copynumber: 65.8 Consensus size: 4
7178708 TACAATTCAA
* *
7178718 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7178766 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7178814 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7178862 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7178910 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
7178958 ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
7178981 TAACACTCAT
Statistics
Matches: 257, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 257 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:7183330 original size:8 final size:8
Alignment explanation
Indices: 7183317--7183341 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7183307 ATCAACACTT
7183317 TTTCTTGC
1 TTTCTTGC
7183325 TTTCTTGC
1 TTTCTTGC
7183333 TTTCTTGC
1 TTTCTTGC
7183341 T
1 T
7183342 AGGTTGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.12, T:0.64
Consensus pattern (8 bp):
TTTCTTGC
Found at i:7184572 original size:2 final size:2
Alignment explanation
Indices: 7184565--7184598 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7184555 GCTTTATGTT
7184565 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7184599 GAAGGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7196294 original size:10 final size:9
Alignment explanation
Indices: 7196279--7196374 Score: 51
Period size: 10 Copynumber: 10.8 Consensus size: 9
7196269 AGAAACCATA
7196279 AAAAATACTT
1 AAAAATA-TT
7196289 AAAAATATAT
1 AAAAATAT-T
7196299 AAAAATTATT
1 AAAAA-TATT
7196309 AAAAA-ATT
1 AAAAATATT
* * *
7196317 TAGATTATT
1 AAAAATATT
*
7196326 AAAAA-AAT
1 AAAAATATT
7196334 -AAAAT-TGT
1 AAAAATAT-T
7196342 AAAAA-ATT
1 AAAAATATT
*
7196350 GAAAATTATT
1 -AAAAATATT
7196360 AAAAA-ATT
1 AAAAATATT
*
7196368 GAAAATA
1 AAAAATA
7196375 ATTATTAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
7 4 0.06
8 16 0.25
9 20 0.31
10 22 0.34
11 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:7196362 original size:18 final size:18
Alignment explanation
Indices: 7196300--7196393 Score: 95
Period size: 17 Copynumber: 5.2 Consensus size: 18
7196290 AAAATATATA
7196300 AAAATTATTAAAAAATT-
1 AAAATTATTAAAAAATTG
* * *
7196317 TAGATTATTAAAAAAAT-
1 AAAATTATTAAAAAATTG
*
7196334 AAAATT-GTAAAAAATTG
1 AAAATTATTAAAAAATTG
7196351 AAAATTATTAAAAAATTG
1 AAAATTATTAAAAAATTG
*
7196369 AAAATAATTATTAAAAATTG
1 AAAATTATTA--AAAAATTG
7196389 TAAAA
1 -AAAA
7196394 ACTATGAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
16 8 0.13
17 24 0.38
18 19 0.30
20 8 0.13
21 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATTATTAAAAAATTG
Found at i:7196379 original size:21 final size:20
Alignment explanation
Indices: 7196341--7196394 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
7196331 AATAAAATTG
7196341 TAAAAAATTG--AAAATTAT
1 TAAAAAATTGAAAAAATTAT
7196359 TAAAAAATTGAAAATAATTAT
1 TAAAAAATTGAAAA-AATTAT
7196380 T-AAAAATTGTAAAAA
1 TAAAAAATTG-AAAAA
7196395 CTATGAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.31
20 11 0.34
21 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
TAAAAAATTGAAAAAATTAT
Found at i:7196619 original size:22 final size:21
Alignment explanation
Indices: 7196593--7196716 Score: 73
Period size: 21 Copynumber: 6.0 Consensus size: 21
7196583 TTGTTAACTA
7196593 TTTACAATTTTTTAATAATTAT
1 TTTACAA-TTTTTAATAATTAT
*
7196615 TTTACGATTTTTAATAATT-T
1 TTTACAATTTTTAATAATTAT
* ** * *
7196635 TATA-AAAATTAAATAA-TGT
1 TTTACAATTTTTAATAATTAT
* *
7196654 TTTATAACTTTTAATAACTT-T
1 TTTACAATTTTTAATAA-TTAT
*
7196675 TTTA-AAATTTTAA-AA-TAT
1 TTTACAATTTTTAATAATTAT
*
7196693 TTTAAACAATATTTAATAATTAT
1 TTT--ACAATTTTTAATAATTAT
7196716 T
1 T
7196717 ATAATATTTA
Statistics
Matches: 79, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
17 1 0.01
18 5 0.06
19 14 0.18
20 22 0.28
21 24 0.30
22 9 0.11
23 4 0.05
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTACAATTTTTAATAATTAT
Found at i:7196666 original size:39 final size:38
Alignment explanation
Indices: 7196623--7196720 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 38
7196613 ATTTTACGAT
*
7196623 TTTTAATAATTTTATAAAAATTAAATAATGTTTTATAAC-
1 TTTTAATAATTTTATAAAAATTAAA-AATATTTTA-AACA
* * *
7196662 TTTTAATAACTTTTTTAAAATTTTAAAATATTTTAAACAA
1 TTTTAATAA-TTTTATAAAAATTAAAAATATTTTAAAC-A
7196702 TATTTAATAATTATTATAA
1 T-TTTAATAATT-TTATAA
7196721 TATTTATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.06
39 17 0.35
40 16 0.33
41 13 0.27
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (38 bp):
TTTTAATAATTTTATAAAAATTAAAAATATTTTAAACA
Found at i:7196685 original size:20 final size:19
Alignment explanation
Indices: 7196602--7196713 Score: 82
Period size: 20 Copynumber: 5.6 Consensus size: 19
7196592 ATTTACAATT
* *
7196602 TTTTAATAATTATTTTACGAT
1 TTTTAATAATT-TTTTA-AAA
*
7196623 TTTTAATAATTTTATAAAA
1 TTTTAATAATTTTTTAAAA
* * * *
7196642 ATTAAATAATGTTTTATAAC
1 TTTTAATAATTTTTTA-AAA
7196662 TTTTAATAACTTTTTTAAAA
1 TTTTAATAA-TTTTTTAAAA
*
7196682 TTTTAA-AATATTTTAAACAA
1 TTTTAATAAT-TTTTTAA-AA
7196702 TATTTAATAATT
1 T-TTTAATAATT
7196714 ATTATAATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
18 1 0.01
19 21 0.29
20 24 0.33
21 23 0.32
22 3 0.04
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTAATAATTTTTTAAAA
Found at i:7202106 original size:2 final size:2
Alignment explanation
Indices: 7202099--7202123 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7202089 CCCCTGCTCA
7202099 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7202124 AATCTGGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7203644 original size:11 final size:11
Alignment explanation
Indices: 7203628--7203652 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7203618 AAAAGGATAT
7203628 ATAAATAAATA
1 ATAAATAAATA
7203639 ATAAATAAATA
1 ATAAATAAATA
7203650 ATA
1 ATA
7203653 TATTGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:7210401 original size:18 final size:19
Alignment explanation
Indices: 7210375--7210411 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7210365 GAGCAAAGGT
7210375 AAATATAATATT-ATAAAA
1 AAATATAATATTAATAAAA
*
7210393 AAATTTAATATTAATAAAA
1 AAATATAATATTAATAAAA
7210412 TTAACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATAATATTAATAAAA
Found at i:7210463 original size:40 final size:39
Alignment explanation
Indices: 7210419--7210498 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 39
7210409 AAATTAACAT
* *
7210419 TAACATAAATTAATTTAACAATAACTTATAAA-AATATTAA
1 TAACATAAATTAAATT-ACAATAAATTA-AAATAATATTAA
* *
7210459 TAACATTATTTAAATTACAATAAATTAAAATTAATATTAA
1 TAACATAAATTAAATTACAATAAATTAAAA-TAATATTAA
7210499 AGCCATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 3 0.09
39 10 0.29
40 21 0.62
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (39 bp):
TAACATAAATTAAATTACAATAAATTAAAATAATATTAA
Found at i:7230756 original size:18 final size:18
Alignment explanation
Indices: 7230730--7230764 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7230720 TCTTTATTTT
*
7230730 CATTTTCTCTCTATCTCC
1 CATTCTCTCTCTATCTCC
*
7230748 CATTCTCTCTCTCTCTC
1 CATTCTCTCTCTATCTC
7230765 TCTCTTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.43, G:0.00, T:0.49
Consensus pattern (18 bp):
CATTCTCTCTCTATCTCC
Found at i:7244526 original size:29 final size:28
Alignment explanation
Indices: 7244450--7244529 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
7244440 TAGATTTTTA
* * *
7244450 TAAT-TTTTTTATAATGTTTAATCAATTT
1 TAATATTTTTTATAAT-TTTATTAAAATT
7244478 TAA-ATATTTTTATATATTTTATTAAAATT
1 TAATAT-TTTTTATA-ATTTTATTAAAATT
7244507 TAATATTTTTTATAACTTTTATT
1 TAATATTTTTTATAA-TTTTATT
7244530 GATTTTTATC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 5 0.11
29 35 0.80
30 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (28 bp):
TAATATTTTTTATAATTTTATTAAAATT
Found at i:7244537 original size:29 final size:28
Alignment explanation
Indices: 7244445--7244537 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 28
7244435 CCGGGTAGAT
* *
7244445 TTTTATAATTTTTTTATA-ATGTTTAATCAA
1 TTTT-TAATATTTTTATATAT-TTT-ATTAA
*
7244475 TTTTAAATATTTTTATATATTTTATTAA
1 TTTTTAATATTTTTATATATTTTATTAA
** *
7244503 AATTTAATATTTTT-TATAACTTTTATTGA
1 TTTTTAATATTTTTATAT-A-TTTTATTAA
7244532 TTTTTA
1 TTTTTA
7244538 TCCTTTATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
27 3 0.06
28 16 0.31
29 26 0.51
30 6 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTAATATTTTTATATATTTTATTAA
Found at i:7247105 original size:25 final size:25
Alignment explanation
Indices: 7247071--7247121 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7247061 CCACTTAAGG
7247071 TTGTGTTGTTGGTGAGTGGAGATTT
1 TTGTGTTGTTGGTGAGTGGAGATTT
7247096 TTGTGTTGTTGGTGAGTGGAGATTT
1 TTGTGTTGTTGGTGAGTGGAGATTT
7247121 T
1 T
7247122 CATTTCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.49
Consensus pattern (25 bp):
TTGTGTTGTTGGTGAGTGGAGATTT
Found at i:7253836 original size:24 final size:24
Alignment explanation
Indices: 7253803--7253852 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
7253793 TTTATTTATA
*
7253803 TATTTTTATATAAGAAATTAATAT
1 TATTTATATATAAGAAATTAATAT
** *
7253827 TATTTATATATTTGTAATTAATAT
1 TATTTATATATAAGAAATTAATAT
7253851 TA
1 TA
7253853 GCAATGTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
TATTTATATATAAGAAATTAATAT
Found at i:7257382 original size:48 final size:49
Alignment explanation
Indices: 7257310--7257407 Score: 189
Period size: 48 Copynumber: 2.0 Consensus size: 49
7257300 TGTGAACCCA
7257310 TGATATATTATTGTGATAGCCCGAAATAGGGCCTAATCGGAATAGTGGT
1 TGATATATTATTGTGATAGCCCGAAATAGGGCCTAATCGGAATAGTGGT
7257359 TGATATATTA-TGTGATAGCCCGAAATAGGGCCTAATCGGAATAGTGGT
1 TGATATATTATTGTGATAGCCCGAAATAGGGCCTAATCGGAATAGTGGT
7257407 T
1 T
7257408 TCGTAACCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 39 0.80
49 10 0.20
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (49 bp):
TGATATATTATTGTGATAGCCCGAAATAGGGCCTAATCGGAATAGTGGT
Found at i:7263894 original size:13 final size:13
Alignment explanation
Indices: 7263878--7263928 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
7263868 TTTAAACCAA
7263878 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
7263891 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
7263904 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
7263917 ACTTTTCAAAAG
1 ACTTTTCAAAAG
7263929 TAATGAAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7263917 original size:26 final size:26
Alignment explanation
Indices: 7263878--7263930 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7263868 TTTAAACCAA
7263878 ACTTTTCAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* * *
7263904 ACTTTTCCACAGCACTTTTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
7263930 A
1 A
7263931 ATGAAGAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:7264369 original size:23 final size:23
Alignment explanation
Indices: 7264321--7264371 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7264311 TAAGTTTAAT
** *
7264321 ATTTAATATTTATTTTTTTATCA
1 ATTTAATATTTATTTTTAAATAA
7264344 ATTTAATATTTA-TTTTAAACTAA
1 ATTTAATATTTATTTTTAAA-TAA
7264367 ATTTA
1 ATTTA
7264372 GTTATTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTAATATTTATTTTTAAATAA
Found at i:7268075 original size:163 final size:163
Alignment explanation
Indices: 7267805--7268104 Score: 600
Period size: 163 Copynumber: 1.8 Consensus size: 163
7267795 GGTCGTACTT
7267805 AATGAAACCTAGAAATGATGATCTTCTCTAGTTGATGTTGTTTTTCGTCACCAGCTTGTCACTTA
1 AATGAAACCTAGAAATGATGATCTTCTCTAGTTGATGTTGTTTTTCGTCACCAGCTTGTCACTTA
7267870 TTGAAACCAAGGATTACAATATCGAATGCTTTGTGGCTAATTACTCTTGACTTTGTCAAGCCTGA
66 TTGAAACCAAGGATTACAATATCGAATGCTTTGTGGCTAATTACTCTTGACTTTGTCAAGCCTGA
7267935 GTGACTATTTAGTTAATTTCATAATTGATCACG
131 GTGACTATTTAGTTAATTTCATAATTGATCACG
7267968 AATGAAACCTAGAAATGATGATCTTCTCTAGTTGATGTTGTTTTTCGTCACCAGCTTGTCACTTA
1 AATGAAACCTAGAAATGATGATCTTCTCTAGTTGATGTTGTTTTTCGTCACCAGCTTGTCACTTA
7268033 TTGAAACCAAGGATTACAATATCGAATGCTTTGTGGCTAATTACTCTTGACTTTGTCAAGCCTGA
66 TTGAAACCAAGGATTACAATATCGAATGCTTTGTGGCTAATTACTCTTGACTTTGTCAAGCCTGA
7268098 GTGACTA
131 GTGACTA
7268105 ATTGATCACG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 137 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (163 bp):
AATGAAACCTAGAAATGATGATCTTCTCTAGTTGATGTTGTTTTTCGTCACCAGCTTGTCACTTA
TTGAAACCAAGGATTACAATATCGAATGCTTTGTGGCTAATTACTCTTGACTTTGTCAAGCCTGA
GTGACTATTTAGTTAATTTCATAATTGATCACG
Found at i:7270938 original size:29 final size:29
Alignment explanation
Indices: 7270879--7270937 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
7270869 TTTGGTTTAC
* *
7270879 TGTGCAGTTTTATATATAAACTTTAATTT
1 TGTGCAATTTTATATAGAAACTTTAATTT
* *
7270908 TGTGCAATTTTATATAAGAAATTTTGATTT
1 TGTGCAATTTTATAT-AGAAACTTTAATTT
7270938 GATCTAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (29 bp):
TGTGCAATTTTATATAGAAACTTTAATTT
Found at i:7276141 original size:15 final size:16
Alignment explanation
Indices: 7276123--7276162 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
7276113 TCAAAGTCCT
7276123 AAAACAAAAAGAAA-A
1 AAAACAAAAAGAAAGA
*
7276138 AAAAAAAAAAGAAAGA
1 AAAACAAAAAGAAAGA
7276154 AAGAACAAA
1 AA-AACAAA
7276163 TCTGAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAGAAAGA
Found at i:7276677 original size:16 final size:15
Alignment explanation
Indices: 7276651--7276680 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7276641 AATTATCACT
7276651 CCTTTCCTTGCCTTG
1 CCTTTCCTTGCCTTG
7276666 CCTTTGCCTTGCCTT
1 CCTTT-CCTTGCCTT
7276681 TCATTATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.40, G:0.13, T:0.47
Consensus pattern (15 bp):
CCTTTCCTTGCCTTG
Found at i:7278469 original size:28 final size:30
Alignment explanation
Indices: 7278399--7278469 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 30
7278389 TTTTTAAAAT
* *
7278399 TAAAAAATTAATAAAAAATGTACAAATTATTT
1 TAAAAAATT-A-AAAAAATGTAAAAATTATTA
*
7278431 TAAAAAA-TAAAAATAT-TAAAAATTA-TA
1 TAAAAAATTAAAAAAATGTAAAAATTATTA
7278458 TAAAAAATTAAA
1 TAAAAAATTAAA
7278470 TACTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
28 12 0.34
29 6 0.17
30 1 0.03
31 1 0.03
32 7 0.20
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (30 bp):
TAAAAAATTAAAAAAATGTAAAAATTATTA
Found at i:7291581 original size:23 final size:23
Alignment explanation
Indices: 7291529--7291611 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
7291519 TCTGATTAGT
*
7291529 ATACGATACAT-AAGTGCCTG-A
1 ATACGACACATAAAGTGCCTGAA
*
7291550 A-ACGACACACAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
7291572 ATACGACACATAAAGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
*
7291595 ATATGACACATAAAGTG
1 ATACGACACATAAAGTG
7291612 TTTGATCGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 7 0.13
21 10 0.19
22 2 0.04
23 35 0.65
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:7291789 original size:17 final size:17
Alignment explanation
Indices: 7291769--7291801 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7291759 TCATATTTTT
*
7291769 CATTTGATTCAATTTCA
1 CATTTCATTCAATTTCA
7291786 CATTTCATTCAATTTC
1 CATTTCATTCAATTTC
7291802 GATAAGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.03, T:0.48
Consensus pattern (17 bp):
CATTTCATTCAATTTCA
Found at i:7293090 original size:33 final size:33
Alignment explanation
Indices: 7293053--7293196 Score: 105
Period size: 33 Copynumber: 4.3 Consensus size: 33
7293043 ATAATCCAGT
*
7293053 TATGGTGTTATCATCAAAATGCCATAGCCCATC
1 TATGGTCTTATCATCAAAATGCCATAGCCCATC
* * * * *
7293086 TATGGTCTTAT-ATATAAACACTGCCATGGTCTAAC
1 TATGGTCTTATCAT-CAAA-A-TGCCATAGCCCATC
* * * * *
7293121 CATGGTCTTA-CGTTCATAGTGCCATAACCCAGT-
1 TATGGTCTTATC-ATCAAAATGCCATAGCCCA-TC
* *
7293154 TATGGTCTTATCATCAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATCAAAATGCCATAGCCCATC
7293187 TATGGTCTTA
1 TATGGTCTTA
7293197 CATATAAACA
Statistics
Matches: 81, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
32 2 0.02
33 55 0.68
34 2 0.02
35 21 0.26
36 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (33 bp):
TATGGTCTTATCATCAAAATGCCATAGCCCATC
Found at i:7293215 original size:101 final size:101
Alignment explanation
Indices: 7293027--7293266 Score: 356
Period size: 101 Copynumber: 2.4 Consensus size: 101
7293017 AATTAATCCT
* * * * *
7293027 TTACATTCGTAGTGCCATAATCCAGTTATGGTGTTATCATCAAAATGCCATAGCCCATCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
* *
7293092 CTTATATATAAACACTGCCATGG-TCTAACCATGGTC
66 CTTACATATAAACACCGCCATGGTTC-AACCATGGTC
*
7293128 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
* *
7293193 CTTACATATAAACACCGTCATGGTTCAATCATGGTC
66 CTTACATATAAACACCGCCATGGTTCAACCATGGTC
* *
7293229 TTACGTTCATAGTGTCATAACCTAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
7293267 CGTCAATTTA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
101 124 0.98
102 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACCGCCATGGTTCAACCATGGTC
Found at i:7297728 original size:58 final size:58
Alignment explanation
Indices: 7297638--7297756 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
7297628 AATAGGGGTT
* *
7297638 GAGTACTAGTAATAGAAAAAAGGAGGCTAATCGAATCAGGAAATGCTTAACCGAAAAA
1 GAGTACCAGAAATAGAAAAAAGGAGGCTAATCGAATCAGGAAATGCTTAACCGAAAAA
* *
7297696 GAGTACCAGAAATAGCAGAAAGGAGGCTAATCGAATCAGGAAATGCTTAACCGAAAAA
1 GAGTACCAGAAATAGAAAAAAGGAGGCTAATCGAATCAGGAAATGCTTAACCGAAAAA
7297754 GAG
1 GAG
7297757 AGGCGATTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.15
Consensus pattern (58 bp):
GAGTACCAGAAATAGAAAAAAGGAGGCTAATCGAATCAGGAAATGCTTAACCGAAAAA
Found at i:7303582 original size:101 final size:101
Alignment explanation
Indices: 7303402--7303592 Score: 256
Period size: 101 Copynumber: 1.9 Consensus size: 101
7303392 GAATTGATGG
* * * * * * * * *
7303402 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTACGGCCATAGTTGGGCTATGGCATTTTA
1 ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
*
7303467 ATGAAAAGATCATAACTAAGTTATGGCACCTTGAGC
66 ATGAAAAGACCATAACTAAGTTATGGCACCTTGAGC
*
7303503 ATAAGACCATGGTTGGACCATGACAATATATATATGTAAGACCATAGCTGAGCTATGACATTCTA
1 ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
* * *
7303568 ATGATAAGACCATAATTAGGTTATG
66 ATGAAAAGACCATAACTAAGTTATG
7303593 ACACTACAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
ATGAAAAGACCATAACTAAGTTATGGCACCTTGAGC
Found at i:7303609 original size:101 final size:101
Alignment explanation
Indices: 7303402--7303614 Score: 232
Period size: 101 Copynumber: 2.1 Consensus size: 101
7303392 GAATTGATGG
* * * * * * * * *
7303402 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTACGGCCATAGTTGGGCTATGGCATTTTA
1 ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
* * ** *
7303467 ATGAAAAGATCATAACTAAGTTATGGCACCTTGAGC
66 ATGAAAAGACCATAACTAAGTTATGACACCTACAGA
*
7303503 ATAAGACCATGGTTGGACCATGACAATATATATATGTAAGACCATAGCTGAGCTATGACATTCTA
1 ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
* * *
7303568 ATGATAAGACCATAATTAGGTTATGACA-CTACA-A
66 ATGAAAAGACCATAACTAAGTTATGACACCTACAGA
7303602 ATGTAAGACCATG
1 A--TAAGACCATG
7303615 ACAGGGACAT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
99 1 0.01
100 3 0.03
101 88 0.96
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGACAATATATAAATGTAAGACCATAGCTGAGCTATGACATTCTA
ATGAAAAGACCATAACTAAGTTATGACACCTACAGA
Found at i:7316133 original size:28 final size:26
Alignment explanation
Indices: 7316074--7316143 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
7316064 ATTTATTAAT
*
7316074 TATTTATAATGTTAATCATTTAAACAA
1 TATTTATAAT-TTAATAATTTAAACAA
* *
7316101 GATTTATTAATTTAATAATTTAAAACTA
1 TATTTA-TAATTTAATAATTT-AAACAA
*
7316129 TATTTACAAATTTAA
1 TATTTA-TAATTTAA
7316144 AAGATAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (26 bp):
TATTTATAATTTAATAATTTAAACAA
Found at i:7319222 original size:64 final size:64
Alignment explanation
Indices: 7319121--7319249 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
7319111 GGGCGGTGTA
* *
7319121 TACTCCAACTGATCTAATAGTCACTCTATTGTTTCTAGGCAATTCTCAGCAATTTCGGGTTCTG
1 TACTCCAACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTG
*
7319185 TACTCTAACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTG
1 TACTCCAACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTG
7319249 T
1 T
7319250 GCCTTTCATG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (64 bp):
TACTCCAACTGATCTAATAGTCACTCTACTGTTTCTAGGCAATACTCAGCAATTTCGGGTTCTG
Found at i:7329316 original size:5 final size:5
Alignment explanation
Indices: 7329300--7329336 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
7329290 TGCACCATAG
*
7329300 AACAT AATAT AACAT AACAT AACAT AACAT AACAT AA
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AA
7329337 AGTAGCTCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (5 bp):
AACAT
Found at i:7330576 original size:7 final size:7
Alignment explanation
Indices: 7330564--7330588 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7330554 AATCAATATA
7330564 ACATAAT
1 ACATAAT
7330571 ACATAAT
1 ACATAAT
7330578 ACATAAT
1 ACATAAT
7330585 ACAT
1 ACAT
7330589 TTATTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ACATAAT
Found at i:7331479 original size:13 final size:13
Alignment explanation
Indices: 7331461--7331487 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7331451 TAAGCTTTTG
7331461 CAGCTTAGTAAGT
1 CAGCTTAGTAAGT
7331474 CAGCTTAGTAAGT
1 CAGCTTAGTAAGT
7331487 C
1 C
7331488 GTAAACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CAGCTTAGTAAGT
Found at i:7332358 original size:50 final size:50
Alignment explanation
Indices: 7332301--7332454 Score: 126
Period size: 50 Copynumber: 3.1 Consensus size: 50
7332291 TCCGTTCTTG
7332301 ATCTAAATAAGTTCAAATTTAACTAATTTAACACACATTCACTCAATTTA
1 ATCTAAATAAGTTCAAATTTAACTAATTTAACACACATTCACTCAATTTA
* * **** ** *
7332351 ATCTAAAT---TTCGACTTCTCGAACTAA-TT--C-TGTTTTC-CTCCGTTCTTG
1 ATCTAAATAAGTTCAAATT-T--AACTAATTTAACACACATTCACT-CAAT-TTA
7332398 ATCTAAATAAGTTCAAATTTAACTAATTTAACACACATTCACTCAATTTA
1 ATCTAAATAAGTTCAAATTTAACTAATTTAACACACATTCACTCAATTTA
7332448 ATCTAAA
1 ATCTAAA
7332455 AACACATAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 26
0.62 0.15 0.22
Matches are distributed among these distances:
45 2 0.03
46 5 0.07
47 23 0.32
48 3 0.04
49 3 0.04
50 30 0.41
51 5 0.07
52 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (50 bp):
ATCTAAATAAGTTCAAATTTAACTAATTTAACACACATTCACTCAATTTA
Found at i:7332435 original size:97 final size:98
Alignment explanation
Indices: 7332259--7332454 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 98
7332249 ACTCGACTAC
7332259 TTTCGACTTCCCTCGAACTAATTCTGTTTTCCTCCGTTCTTGATCTAAATAAGTTCAAATTTAAC
1 TTTCGACTT-CCTCGAACTAATTCTGTTTTCCTCCGTTCTTGATCTAAATAAGTTCAAATTTAAC
7332324 TAATTTAACACACATTCACTCAATTTAATCTAAA
65 TAATTTAACACACATTCACTCAATTTAATCTAAA
7332358 TTTCGACTT-CTCGAACTAATTCTGTTTTCCTCCGTTCTTGATCTAAATAAGTTCAAATTTAACT
1 TTTCGACTTCCTCGAACTAATTCTGTTTTCCTCCGTTCTTGATCTAAATAAGTTCAAATTTAACT
7332422 AATTTAACACACATTCACTCAATTTAATCTAAA
66 AATTTAACACACATTCACTCAATTTAATCTAAA
7332455 AACACATAAA
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
97 88 0.91
99 9 0.09
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (98 bp):
TTTCGACTTCCTCGAACTAATTCTGTTTTCCTCCGTTCTTGATCTAAATAAGTTCAAATTTAACT
AATTTAACACACATTCACTCAATTTAATCTAAA
Found at i:7338223 original size:22 final size:22
Alignment explanation
Indices: 7338190--7338254 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
7338180 CTCCAATTAT
*
7338190 TAGCACATTAGTGCTCTCTGTA
1 TAGCACTTTAGTGCTCTCTGTA
* * *
7338212 TAGTACTTTAGTGTTCTTTGTA
1 TAGCACTTTAGTGCTCTCTGTA
7338234 TAGCACTTTAGTGCTCTCTGT
1 TAGCACTTTAGTGCTCTCTGT
7338255 TTAATAGTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTCTGTA
Found at i:7341973 original size:22 final size:21
Alignment explanation
Indices: 7341938--7341978 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7341928 ACGACGGATA
7341938 CGGGTTAGAGGTGTTACAAAC
1 CGGGTTAGAGGTGTTACAAAC
*
7341959 CGGGTATAGGGGTGTTACAA
1 CGGGT-TAGAGGTGTTACAA
7341979 CGCCATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (21 bp):
CGGGTTAGAGGTGTTACAAAC
Found at i:7346082 original size:50 final size:51
Alignment explanation
Indices: 7346018--7346158 Score: 203
Period size: 50 Copynumber: 2.8 Consensus size: 51
7346008 TGATACCGGG
* *
7346018 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-T
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA
* * *
7346068 AGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA
** *
7346119 ACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
7346159 TGTTATGATC
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 45 0.57
51 34 0.43
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (51 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA
Found at i:7348737 original size:26 final size:27
Alignment explanation
Indices: 7348708--7348771 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
7348698 AACTAGGTCT
7348708 AACTATAAATTTTTCTAAA-T-TCACCC
1 AACTATAAATTTTT-TAAATTATCACCC
*
7348734 AACTATGAATTTTTTAAATTAGTCACCC
1 AACTATAAATTTTTTAAATTA-TCACCC
*
7348762 AATTATAAAT
1 AACTATAAAT
7348772 ATACTTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 4 0.12
26 14 0.44
28 14 0.44
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (27 bp):
AACTATAAATTTTTTAAATTATCACCC
Found at i:7367195 original size:2 final size:2
Alignment explanation
Indices: 7367188--7367216 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7367178 TAATATCTCC
7367188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7367217 TGGTTAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7367949 original size:21 final size:22
Alignment explanation
Indices: 7367902--7367949 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
7367892 GCTTTAATGG
* * *
7367902 TTTTTTTTTTGTGTTAATTTTA
1 TTTTTTTTTAGTGTAAATTTGA
*
7367924 CTTTTTTTTAGT-TAAATTTGA
1 TTTTTTTTTAGTGTAAATTTGA
7367945 TTTTT
1 TTTTT
7367950 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTTTTTTAGTGTAAATTTGA
Found at i:7368108 original size:17 final size:19
Alignment explanation
Indices: 7368075--7368111 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
7368065 ATGCTAATTT
7368075 AAATTTATAAAATATTAAA
1 AAATTTATAAAATATTAAA
7368094 AAATTTA-AAAA-ATTAAA
1 AAATTTATAAAATATTAAA
7368111 A
1 A
7368112 TTAAGTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTATAAAATATTAAA
Found at i:7370507 original size:2 final size:2
Alignment explanation
Indices: 7370500--7370525 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7370490 ATTTCTCATG
7370500 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
7370526 GGTTGATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7376229 original size:18 final size:19
Alignment explanation
Indices: 7376202--7376240 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7376192 TTTGGATTCT
* *
7376202 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTAGAA
7376220 TTTTAAAAATTATTTAGAA
1 TTTTAAAAATTATTTAGAA
7376239 TT
1 TT
7376241 ATTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATTTAGAA
Found at i:7380222 original size:13 final size:13
Alignment explanation
Indices: 7380204--7380229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7380194 TTTTATTTGT
7380204 TTATTCCCACCGG
1 TTATTCCCACCGG
7380217 TTATTCCCACCGG
1 TTATTCCCACCGG
7380230 CCGAATGTTG
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:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:7380833 original size:22 final size:21
Alignment explanation
Indices: 7380802--7380842 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7380792 CATGGCTTGC
*
7380802 ATTTGGATGTGTTCTTATTTAA
1 ATTTGAATGTGTTC-TATTTAA
7380824 ATTTGAATGTGTTCTATTT
1 ATTTGAATGTGTTCTATTT
7380843 TGACATGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.05, G:0.17, T:0.56
Consensus pattern (21 bp):
ATTTGAATGTGTTCTATTTAA
Found at i:7386897 original size:12 final size:12
Alignment explanation
Indices: 7386880--7386906 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7386870 AGAAAATTTT
7386880 AACAATATGATA
1 AACAATATGATA
7386892 AACAATATGATA
1 AACAATATGATA
7386904 AAC
1 AAC
7386907 CTTGTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (12 bp):
AACAATATGATA
Found at i:7389199 original size:49 final size:49
Alignment explanation
Indices: 7389142--7389245 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
7389132 TCATGTGTTA
* * ** *
7389142 TAATTTTATACAGTGTTGAGTTTTTTATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTTATTCATGATATTAAACTCAATTT
* *
7389191 TAATTTTATAAAGTGTTCCCCTTTTTATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTTATTCATGATATTAAACTCAATTT
7389240 TAATTT
1 TAATTT
7389246 ATTTTTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTTATTCATGATATTAAACTCAATTT
Found at i:7390809 original size:39 final size:43
Alignment explanation
Indices: 7390760--7390859 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
7390750 TCCTTATGCT
* *
7390760 ATTACACCTCTATTC-T-ATTCAACCAAACACAAGAA-TA-CC
1 ATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTATCC
*
7390799 ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTATCT
1 ATTACGCCTCTATT-CA-T-CATTCAACCAAACAAAAGAATTATCC
*
7390845 ATTACGCATCTATTC
1 ATTACGCCTCTATTC
7390860 CATTACACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
39 13 0.26
40 1 0.02
42 1 0.02
44 18 0.36
45 3 0.06
46 14 0.28
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.30
Consensus pattern (43 bp):
ATTACGCCTCTATTCATCATTCAACCAAACAAAAGAATTATCC
Found at i:7390826 original size:44 final size:46
Alignment explanation
Indices: 7390771--7390863 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
7390761 TTACACCTCT
* * *
7390771 ATTCTATTCAACCAAACACAAGAA-TA-CCATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCATCTATTCC
*
7390815 ATTCCATTCAACCAAACAAAAGAATTATCTATTACGCATCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCATCTATTCC
7390861 ATT
1 ATT
7390864 ACACTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 2 0.05
46 19 0.44
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTATCCATTACGCATCTATTCC
Found at i:7391821 original size:21 final size:21
Alignment explanation
Indices: 7391775--7391821 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7391765 GGTTTTCTAG
7391775 GATTTTTTATTTTAGTGTTTA
1 GATTTTTTATTTTAGTGTTTA
* *
7391796 CATTTTTTAATTTTA-TTTTTA
1 GATTTTTT-ATTTTAGTGTTTA
7391817 GATTT
1 GATTT
7391822 AAAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (21 bp):
GATTTTTTATTTTAGTGTTTA
Found at i:7394298 original size:11 final size:11
Alignment explanation
Indices: 7394281--7394318 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7394271 TTTTTAATCA
7394281 AATATATATTT
1 AATATATATTT
* *
7394292 TATATATATTA
1 AATATATATTT
7394303 AATATATATTT
1 AATATATATTT
7394314 AATAT
1 AATAT
7394319 GGTTCGGGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATATATTT
Found at i:7395052 original size:11 final size:11
Alignment explanation
Indices: 7395035--7395072 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7395025 TTTTTAATCA
7395035 AATATATATTT
1 AATATATATTT
* *
7395046 TATATATATTA
1 AATATATATTT
7395057 AATATATATTT
1 AATATATATTT
7395068 AATAT
1 AATAT
7395073 GGTTCGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATATATTT
Found at i:7395243 original size:25 final size:25
Alignment explanation
Indices: 7395209--7395258 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7395199 ATCACCTCTA
*
7395209 GTGAGAGCCAAGTATCGGGAAGCTC
1 GTGAGAGCCAAATATCGGGAAGCTC
*
7395234 GTGAGAGCCAAATATCGGGACGCTC
1 GTGAGAGCCAAATATCGGGAAGCTC
7395259 ATAAAAACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.34, T:0.16
Consensus pattern (25 bp):
GTGAGAGCCAAATATCGGGAAGCTC
Found at i:7403096 original size:19 final size:20
Alignment explanation
Indices: 7403057--7403097 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7403047 AATAAAAATG
*
7403057 ATTAAATGTAAATTAACTTA
1 ATTAAATGTAAATTAAATTA
*
7403077 ATTAAA-GTAGATTAAATTA
1 ATTAAATGTAAATTAAATTA
7403096 AT
1 AT
7403098 CTTAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTAAATGTAAATTAAATTA
Found at i:7426591 original size:23 final size:23
Alignment explanation
Indices: 7426541--7426585 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
7426531 AAATTAATTA
7426541 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
7426564 TGTAATATCCCGAAAATTACTA
1 TGTAATATCCCGAAAATTACTA
7426586 TAGTAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:7428275 original size:46 final size:46
Alignment explanation
Indices: 7428208--7428301 Score: 163
Period size: 46 Copynumber: 2.0 Consensus size: 46
7428198 ACAATGCTAT
7428208 AACTCAGTATGGTTTCATTCACTGAAACACCATACCTAATTTTCAC
1 AACTCAGTATGGTTTCATTCACTGAAACACCATACCTAATTTTCAC
*
7428254 AACTCAGTATGGTTTTC-TTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTCATTCACTGAAACACCATACCTAATTTTCAC
7428300 AA
1 AA
7428302 TTTGCCATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 42 0.91
47 4 0.09
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (46 bp):
AACTCAGTATGGTTTCATTCACTGAAACACCATACCTAATTTTCAC
Found at i:7431676 original size:24 final size:25
Alignment explanation
Indices: 7431644--7431695 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
7431634 TGATCGAGAT
* *
7431644 GCTCCGAAGAGCA-TTTAACGGGAA
1 GCTCCGAAGAACACTATAACGGGAA
*
7431668 GCTCGGAAGAACACTATAACGGGAA
1 GCTCCGAAGAACACTATAACGGGAA
7431693 GCT
1 GCT
7431696 TGAAAAGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (25 bp):
GCTCCGAAGAACACTATAACGGGAA
Found at i:7432585 original size:46 final size:46
Alignment explanation
Indices: 7432486--7432647 Score: 240
Period size: 46 Copynumber: 3.6 Consensus size: 46
7432476 TACTTATGAT
* *
7432486 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
*
7432529 CACTTATCACTTTGTCACTTGATCAGATAAGTGTATCTAAAACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
* * **
7432575 CACTTATCACTATATCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
7432621 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7432648 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
43 10 0.09
44 5 0.05
45 19 0.18
46 72 0.68
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACTAC
Found at i:7436351 original size:17 final size:17
Alignment explanation
Indices: 7436331--7436368 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7436321 AATAATTTAA
7436331 AATATA-AACATTAATAT
1 AATATACAA-ATTAATAT
*
7436348 AATATACAAATTATTAT
1 AATATACAAATTAATAT
7436365 AATA
1 AATA
7436369 AATAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATATACAAATTAATAT
Found at i:7437249 original size:16 final size:15
Alignment explanation
Indices: 7437224--7437254 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7437214 AATTATTAAA
7437224 ATAATAATTATAATT
1 ATAATAATTATAATT
7437239 ATAAGTAATTATAATT
1 ATAA-TAATTATAATT
7437255 CTTTGCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATAATAATTATAATT
Found at i:7437653 original size:20 final size:19
Alignment explanation
Indices: 7437608--7437656 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
7437598 ATTTAGTTAA
7437608 AATT-AATATAAATAATTT
1 AATTAAATATAAATAATTT
* *
7437626 ATAATAAATACTAAGTAATTT
1 A-ATTAAATA-TAAATAATTT
7437647 AATTAAATAT
1 AATTAAATAT
7437657 TTAGTAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 11 0.44
21 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AATTAAATATAAATAATTT
Found at i:7437655 original size:24 final size:23
Alignment explanation
Indices: 7437595--7437655 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
7437585 TAAATAATTT
* *
7437595 GTAATTTAGTTAAAATTAATATAA
1 GTAATTTAATT-AAATAAATATAA
*
7437619 ATAATTT-A-T-AATAAATACTAA
1 GTAATTTAATTAAATAAATA-TAA
7437640 GTAATTTAATTAAATA
1 GTAATTTAATTAAATA
7437656 TTTAGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
20 7 0.24
21 9 0.31
22 2 0.07
23 1 0.03
24 10 0.34
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (23 bp):
GTAATTTAATTAAATAAATATAA
Found at i:7437662 original size:20 final size:21
Alignment explanation
Indices: 7437612--7437655 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
7437602 AGTTAAAATT
*
7437612 AATA-TAAATAATTTATAATA
1 AATACTAAGTAATTTATAATA
*
7437632 AATACTAAGTAATTTA-ATTA
1 AATACTAAGTAATTTATAATA
7437652 AATA
1 AATA
7437656 TTTAGTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AATACTAAGTAATTTATAATA
Found at i:7445120 original size:25 final size:26
Alignment explanation
Indices: 7445086--7445134 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
7445076 AGTGGTAGTC
*
7445086 TCTAGGCATA-TTTGTGAAAAGGAAT
1 TCTAGGCATATTTTGCGAAAAGGAAT
7445111 TCTAGGCATATTTTGCGAAAAGGA
1 TCTAGGCATATTTTGCGAAAAGGA
7445135 GTAAGTGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (26 bp):
TCTAGGCATATTTTGCGAAAAGGAAT
Found at i:7450985 original size:34 final size:34
Alignment explanation
Indices: 7450929--7450993 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
7450919 GATAGAATGA
* *
7450929 AAAATAAAATATAGTTCTTGACAGATAAGACAAC
1 AAAATAAAATATAGTCCATGACAGATAAGACAAC
* * *
7450963 AAAATGAAATGTAGTCCATGACAGGTAAGAC
1 AAAATAAAATATAGTCCATGACAGATAAGAC
7450994 TTTAATGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (34 bp):
AAAATAAAATATAGTCCATGACAGATAAGACAAC
Found at i:7461541 original size:100 final size:100
Alignment explanation
Indices: 7461368--7461569 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
7461358 TCCCGTAGTT
7461368 ATAAAATTTAGGTTTGTCCATCAGTAACTAGTATCTCTTATTGTGCTTTGTGTTTACCAATTATG
1 ATAAAATTTAGGTTTGTCCATCAGTAACTAGTATCTCTTATTGTGCTTTGTGTTTACCAATTATG
7461433 AATTAGTCTTTACCTGGTTCTCCTGTAATTATGCC
66 AATTAGTCTTTACCTGGTTCTCCTGTAATTATGCC
7461468 ATAAAATTTAGGTTTGTCCATCAGTAACTAGTATCTCTTATTGTGCTTTGTGTTTACCAATTATG
1 ATAAAATTTAGGTTTGTCCATCAGTAACTAGTATCTCTTATTGTGCTTTGTGTTTACCAATTATG
7461533 AATTAGTCTTTACCTGGTTCTCCTGTAATTATGCC
66 AATTAGTCTTTACCTGGTTCTCCTGTAATTATGCC
7461568 AT
1 AT
7461570 TGGTTTGATT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (100 bp):
ATAAAATTTAGGTTTGTCCATCAGTAACTAGTATCTCTTATTGTGCTTTGTGTTTACCAATTATG
AATTAGTCTTTACCTGGTTCTCCTGTAATTATGCC
Found at i:7467779 original size:21 final size:21
Alignment explanation
Indices: 7467734--7467774 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7467724 CACGACCAAC
7467734 AAATATATTAATATATAAACA
1 AAATATATTAATATATAAACA
*
7467755 AAATATAATTATTATATAAA
1 AAATAT-ATTAATATATAAA
7467775 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATATATTAATATATAAACA
Found at i:7471787 original size:17 final size:18
Alignment explanation
Indices: 7471767--7471801 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7471757 TTTATTAATT
*
7471767 TTAAAATTTTAAA-AAAA
1 TTAAAATATTAAATAAAA
7471784 TTAAAATATTAAATAAAA
1 TTAAAATATTAAATAAAA
7471802 AAAATTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAATATTAAATAAAA
Found at i:7483372 original size:43 final size:43
Alignment explanation
Indices: 7483324--7483405 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
7483314 TTAACCACGT
** * * *
7483324 TAAGGTTAAATTTTCATATTTATTCAAAATAATCACATTCTGA
1 TAAGGTTAAATTCCCACATTTATTAAAAAGAATCACATTCTGA
*
7483367 TAAGGTTAACTTCCCACATTTATTAAAAAGAATCACATT
1 TAAGGTTAAATTCCCACATTTATTAAAAAGAATCACATT
7483406 TTCTTATGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (43 bp):
TAAGGTTAAATTCCCACATTTATTAAAAAGAATCACATTCTGA
Found at i:7485575 original size:57 final size:57
Alignment explanation
Indices: 7485467--7485603 Score: 159
Period size: 57 Copynumber: 2.3 Consensus size: 57
7485457 CGGTAAAAAG
* *
7485467 GATCTAGCCCGGACGAGTGATCCTATCCTGATATATCCCTCCCGAAGAATATGTGTGAAAA-A
1 GATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTG-GAAAATA
* * *
7485529 GATCTAGCCTGGACGGGTGATCTTGATATAGCCCTCCCGAATAATATGTGGAAAATT
1 GATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAATA
*
7485586 GATTTAGCCCGGACGGGT
1 GATCTAGCCCGGACGGGT
7485604 AATCCGAATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
56 5 0.07
57 41 0.61
59 1 0.01
61 1 0.01
62 19 0.28
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (57 bp):
GATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGGAAAATA
Found at i:7492022 original size:43 final size:42
Alignment explanation
Indices: 7491975--7492106 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 42
7491965 GGTTGAAGGC
* *
7491975 TGAACAGAAGCACATAAGTGCTAAACAGAAACCCCATAAGGGT
1 TGAACAGAAGCACATAAGAGCTAAAC-GAAAACCCATAAGGGT
* * * *
7492018 TGAACGGAAGCTCATACGAGCTGAACGAAAACCCATAAGGGT
1 TGAACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGT
* * * * * * * *
7492060 TAAACTGAAGCTCAAAAGAGTTGAACGGAAA-CCATTAGGGT
1 TGAACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGT
*
7492101 TAAACA
1 TGAACA
7492107 AAAACTCATA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
41 14 0.19
42 40 0.53
43 21 0.28
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGT
Found at i:7492070 original size:42 final size:42
Alignment explanation
Indices: 7492002--7492105 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
7491992 GTGCTAAACA
* * * *
7492002 GAAACCCCATAAGGGTTGAACGGAAGCTCATACGAGCTGAAC
1 GAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAAC
* *
7492044 GAAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGTTGAAC
1 GAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAAC
* *
7492086 GGAAA-CCATTAGGGTTAAAC
1 GAAAACCCATAAGGGTTAAAC
7492106 AAAAACTCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
41 14 0.26
42 40 0.74
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.16
Consensus pattern (42 bp):
GAAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAAC
Found at i:7492122 original size:41 final size:42
Alignment explanation
Indices: 7492002--7492122 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 42
7491992 GTGCTAAACA
* * ** * * *
7492002 GAAACCCCATAAGGGTTGAACGGAAGCTCATACGAGCTGAAC
1 GAAAACCCATAAGGGTTAAACAAAAACTCATAAGAGTTGAAC
** * *
7492044 GAAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGTTGAAC
1 GAAAACCCATAAGGGTTAAACAAAAACTCATAAGAGTTGAAC
* * *
7492086 GGAAA-CCATTAGGGTTAAACAAAAACTCATATGAGTT
1 GAAAACCCATAAGGGTTAAACAAAAACTCATAAGAGTT
7492123 AACAGAAGCT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 26 0.39
42 40 0.61
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (42 bp):
GAAAACCCATAAGGGTTAAACAAAAACTCATAAGAGTTGAAC
Found at i:7493805 original size:31 final size:31
Alignment explanation
Indices: 7493743--7493806 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
7493733 CACATTCTAT
** *
7493743 ATATTTTAATTAAGTATTTTTTATTTTTATA
1 ATATTTTAATTAAGTAAATTTTATTTATATA
*
7493774 ATATTTT-ATTATGTAAATTTTATTTAATATA
1 ATATTTTAATTAAGTAAATTTTATTT-ATATA
7493805 AT
1 AT
7493807 TAAAATACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
ATATTTTAATTAAGTAAATTTTATTTATATA
Found at i:7494918 original size:46 final size:46
Alignment explanation
Indices: 7494866--7494989 Score: 221
Period size: 46 Copynumber: 2.7 Consensus size: 46
7494856 GGGAACGATT
7494866 ACTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
1 ACTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
*
7494912 ACTACCACTTATCACTTTGTCATTTGATCAGATAAGTGTAGCTAAA
1 ACTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
* *
7494958 GCTACCACTTATCACTTTGTCTCTTGATCAGA
1 ACTACCACTTATCACTTTGTCACTTGATCAGA
7494990 AGTACTCAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (46 bp):
ACTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
Found at i:7500685 original size:21 final size:20
Alignment explanation
Indices: 7500661--7500705 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
7500651 GTTCAATTAA
* *
7500661 TAAATTTTTAAAAATTTCGAT
1 TAAAATTTT-AAAATTTCAAT
7500682 TAAAAATTTTAAAATTTCAAT
1 T-AAAATTTTAAAATTTCAAT
7500703 TAA
1 TAA
7500706 TAATAATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.57
22 7 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATTTTAAAATTTCAAT
Found at i:7503236 original size:19 final size:20
Alignment explanation
Indices: 7503200--7503239 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7503190 GATTAATGGG
7503200 AAAAAAAGAAAACAATAATA
1 AAAAAAAGAAAACAATAATA
7503220 AAAAGAAAG-AAAC-ATAATA
1 AAAA-AAAGAAAACAATAATA
7503239 A
1 A
7503240 CAATAACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAAAGAAAACAATAATA
Found at i:7515960 original size:3 final size:3
Alignment explanation
Indices: 7515954--7515981 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7515944 GTGTAGGCAA
7515954 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
7515982 TTTGGCAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:7515961 original size:45 final size:45
Alignment explanation
Indices: 7515912--7516058 Score: 150
Period size: 45 Copynumber: 3.1 Consensus size: 45
7515902 GTGCAGGCAA
7515912 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTGGTGG
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAA---------TGG
7515966 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGG
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGG
** * * * * *
7516011 TGGTCTTGGTGGAGGCTTCGGCAGAGGGGGAGGTATAGGCAATGG
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGG
7516056 TGG
1 TGG
7516059 AACCGGGGCT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
45 44 0.51
54 42 0.49
ACGTcount: A:0.12, C:0.06, G:0.56, T:0.26
Consensus pattern (45 bp):
TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGG
Found at i:7515991 original size:54 final size:54
Alignment explanation
Indices: 7515912--7516014 Score: 206
Period size: 54 Copynumber: 1.9 Consensus size: 54
7515902 GTGCAGGCAA
7515912 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTGGTGG
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTGGTGG
7515966 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGT
1 TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGT
7516015 CTTGGTGGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.10, C:0.04, G:0.58, T:0.28
Consensus pattern (54 bp):
TGGTGGTGGTGGTGGTTTTGGCAGGGGGGGAGGTGTAGGCAATGGTGGTGGTGG
Found at i:7524151 original size:57 final size:58
Alignment explanation
Indices: 7524053--7524171 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 58
7524043 AAATCAATGT
*
7524053 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATTGCACAATTCAATTTGGATTTG
1 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCGCACAATTCAATTTGGATTTG
*
7524111 ATTT-ATTTGATTTTAGGTTGGTGTATTATTTAAATCGCACAATTCAATTTGGATTTG
1 ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCGCACAATTCAATTTGGATTTG
7524168 ATTT
1 ATTT
7524172 TTTCACATGG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 55 0.93
58 4 0.07
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (58 bp):
ATTTAATTTGATTTTAGGTTGGTATATTATTTAAATCGCACAATTCAATTTGGATTTG
Found at i:7532627 original size:20 final size:21
Alignment explanation
Indices: 7532597--7532645 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
7532587 TATATAAAAA
*
7532597 TATTATTGTAATAA-TATAATT
1 TATT-TTGTAAAAAGTATAATT
*
7532618 TATTTTGTAAAAAGTATGATT
1 TATTTTGTAAAAAGTATAATT
7532639 T-TTTTGT
1 TATTTTGT
7532646 CATTTTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TATTTTGTAAAAAGTATAATT
Found at i:7536239 original size:23 final size:24
Alignment explanation
Indices: 7536205--7536263 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
7536195 CTCACTTGAA
*
7536205 CTTCCCGATTACAT-CTCTTATGAG
1 CTTCCC-ATTACATACTCATATGAG
*
7536229 CTTCCTATTACATGACTCATATGAG
1 CTTCCCATTACAT-ACTCATATGAG
7536254 CTTCCCATTA
1 CTTCCCATTA
7536264 TATGGATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 5 0.17
25 18 0.60
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.37
Consensus pattern (24 bp):
CTTCCCATTACATACTCATATGAG
Found at i:7550632 original size:21 final size:21
Alignment explanation
Indices: 7550603--7550798 Score: 275
Period size: 21 Copynumber: 9.3 Consensus size: 21
7550593 GTGTTTTACT
* * *
7550603 TTCTATTCAACTCTTTCGAGC
1 TTCTGTTCAGCTCTTACGAGC
* ** *
7550624 TTCTGTTCAACTCTTATAAGT
1 TTCTGTTCAGCTCTTACGAGC
* * * *
7550645 TTCTGTTCAACTTTTATGAGT
1 TTCTGTTCAGCTCTTACGAGC
7550666 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
7550687 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
7550708 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
7550729 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
7550750 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
7550771 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTACGAGC
*
7550792 TTTTGTT
1 TTCTGTT
7550799 AACAATGTAC
Statistics
Matches: 162, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 162 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTACGAGC
Done.