Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 52 of 295
Found at i:15479950 original size:13 final size:12
Alignment explanation
Indices: 15479915--15479967 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 12
15479905 TTATTTTAAA
15479915 TTTTTAAAAGAAT
1 TTTTTAAAA-AAT
15479928 TTAATTTAAAAAAT
1 TT--TTTAAAAAAT
15479942 TGTTTT-AAAAAT
1 T-TTTTAAAAAAT
15479954 ATTTTTAAAAAAT
1 -TTTTTAAAAAAT
15479967 T
1 T
15479968 ATTAAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.31
13 12 0.34
14 4 0.11
15 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (12 bp):
TTTTTAAAAAAT
Found at i:15479958 original size:11 final size:11
Alignment explanation
Indices: 15479912--15479984 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 11
15479902 TTTTTATTTT
15479912 AAATTTTTAAA
1 AAATTTTTAAA
15479923 AGAATTTAATTTAAA
1 A-AA-TT--TTTAAA
15479938 AAATTGTTTTAAA
1 AAA-T-TTTTAAA
15479951 AATATTTTTAAA
1 AA-ATTTTTAAA
*
15479963 AAATTATTAAA
1 AAATTTTTAAA
*
15479974 ACAATATTTAA
1 A-AATTTTTAA
15479985 TGTATTATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
11 10 0.19
12 18 0.35
13 11 0.21
14 5 0.10
15 8 0.15
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
AAATTTTTAAA
Found at i:15479979 original size:25 final size:25
Alignment explanation
Indices: 15479932--15479982 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
15479922 AAGAATTTAA
* *
15479932 TTTAAAAAATTGTTTTAAAAATATT
1 TTTAAAAAATTGATTAAAAAATATT
15479957 TTTAAAAAATT-ATTAAAACAATATT
1 TTTAAAAAATTGATTAAAA-AATATT
15479982 T
1 T
15479983 AATGTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTAAAAAATTGATTAAAAAATATT
Found at i:15487013 original size:43 final size:43
Alignment explanation
Indices: 15486949--15487095 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 43
15486939 ATCAAGATAT
*
15486949 GATTACATGTAAGA-CACTGTGTGGGACAGTGGCATTGTATTGC
1 GATTACATGTAAGACCA-TGTGTGGGACAGTGGCATCGTATTGC
* *
15486992 GATTACATGTAAGACCATGTGTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTGTGGGACAGTGGCATCG-TATTGC
* * *
15487035 GACTT-CGTGTAAGACCGTGTGTGGGACAGTGGCATCG-ATATGT
1 GA-TTACATGTAAGACCATGTGTGGGACAGTGGCATCGTAT-TGC
*
15487078 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
15487096 ATCTAGGATA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 77 0.89
44 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTGTGGGACAGTGGCATCGTATTGC
Found at i:15489878 original size:2 final size:2
Alignment explanation
Indices: 15489871--15489901 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15489861 TACAATATTT
15489871 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
15489902 TCTCTCTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15489906 original size:2 final size:2
Alignment explanation
Indices: 15489901--15489932 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15489891 CACACACACA
15489901 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15489933 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15492639 original size:31 final size:31
Alignment explanation
Indices: 15492578--15492639 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
15492568 TTACAATTTT
* * * *
15492578 GTCATTAAACTATTCAAAAGTTTTCGTTTAA
1 GTCACTAAACTATTAAAAAATTTTCATTTAA
15492609 GTCACTAAACTATTTAAAAAATTTT-ATTTAA
1 GTCACTAAACTA-TTAAAAAATTTTCATTTAA
15492640 ATTACTGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.42
Consensus pattern (31 bp):
GTCACTAAACTATTAAAAAATTTTCATTTAA
Found at i:15515683 original size:17 final size:17
Alignment explanation
Indices: 15515663--15515697 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15515653 AATTTTAATT
**
15515663 ATAATAAAGTAAATAAA
1 ATAATAAAACAAATAAA
15515680 ATAATAAAACAAATAAA
1 ATAATAAAACAAATAAA
15515697 A
1 A
15515698 GGAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAATAAAACAAATAAA
Found at i:15521685 original size:488 final size:488
Alignment explanation
Indices: 15520762--15521740 Score: 1602
Period size: 488 Copynumber: 2.0 Consensus size: 488
15520752 TCTGCCAAGG
*
15520762 TAACTCTGTGTTAACTCTCACTAAGTTCTTTTGAACTTAGTGTTATGTTTATGATTATGTTTCAG
1 TAACTCTATGTTAACTCTCACTAAGTTCTTTTGAACTTAGTGTTATGTTTATGATTATGTTTCAG
* *
15520827 GAAGTATAGTATGAGTTTGCGCCAAGAGGGACGACGCCAAAACTATGCCAATGAGGCGACAAATT
66 GAAGTATAGTACGAGTTTGCGCCAAGAGGGACGACGCCAAAACTATGCCAAGGAGGCGACAAATT
* *
15520892 GGGTTACTATACATATAATGGAAAAGTGGCGTATTGTAGGACTTTACCTTAAAAGTCAATTTTTA
131 GGGTTACTATACATACAATGAAAAAGTGGCGTATTGTAGGACTTTACCTTAAAAGTCAATTTTTA
*
15520957 GTAAATGTTTGTATTTTAATGAATTGTAATTGGTCCGATGTAATATTTTATTTCTAAAATACTTT
196 GTAAATGTTTGTATTGTAATGAATTGTAATTGGTCCGATGTAATATTTTATTTCTAAAATACTTT
* *
15521022 CTGTTGTTTCTTTAATATTAAGTTTTTAAATGAAATAATAATGAAAAATGTTTTAAGTATAGAAT
261 CTATTGTGTCTTTAATATTAAGTTTTTAAATGAAATAATAATGAAAAATGTTTTAAGTATAGAAT
* * * *
15521087 GTCTGTTAACTGTTTTGAAACTTTGTTATATATTGTTTGTGTAACACCCAAGATCCGAACTTGAT
326 GTCTATCAACTATTTTGAAACTTTGTTATATATTGTTTGTATAACACCCAAGATCCGAACTTGAT
* * *
15521152 GAATCGGGTCGAATTGAGGGCGTTACAAAGACTACCTCATATGAAGAATACACAAAAGCTCAATT
391 GAATCGGGTCGAATTAAGGGCGTCACAAAGACTACCTCATATGAAGAATACACAAAAGCTCAACT
* * *
15521217 AGACCAATAAGTAGGAGAGCCTTT-TCAAACTCA
456 AGACCAACAAGCAAGAGAG-CTTTCTCAAACTCA
* *
15521250 TAACTCTATGTTAACTCTCACTAAGTTCTTTTGAACTTAGTGTTATGTTTTTGTTTATGTTTCAG
1 TAACTCTATGTTAACTCTCACTAAGTTCTTTTGAACTTAGTGTTATGTTTATGATTATGTTTCAG
* * *
15521315 GAAGTATAGTACGAGTTTGCGCTAAGAGGGACGACGTCAAGACTATGCCAAGGAGGCGACAAATT
66 GAAGTATAGTACGAGTTTGCGCCAAGAGGGACGACGCCAAAACTATGCCAAGGAGGCGACAAATT
* * *
15521380 GGGTTATTATACATACAATGAAAAAGTGGCGTATTGTAGGACTTTACCTTAAGAGTCAGTTTTTA
131 GGGTTACTATACATACAATGAAAAAGTGGCGTATTGTAGGACTTTACCTTAAAAGTCAATTTTTA
*
15521445 GTAAATGTTTGTATTGTAATGAATTGTAATTGGTCTGATGTAATATTTTATTTCTAAAATACTTT
196 GTAAATGTTTGTATTGTAATGAATTGTAATTGGTCCGATGTAATATTTTATTTCTAAAATACTTT
*
15521510 CTATTGTGTCTTTGATATTAAGTTTTTAAATGAAATAATAATGAAAAATGTTTTAAGTATAGAAT
261 CTATTGTGTCTTTAATATTAAGTTTTTAAATGAAATAATAATGAAAAATGTTTTAAGTATAGAAT
* *
15521575 GTCTATCAACTATTTTGAAATTTTGTTATATATTGTTTGTATAACACCCGAGATCCGAACTTGAT
326 GTCTATCAACTATTTTGAAACTTTGTTATATATTGTTTGTATAACACCCAAGATCCGAACTTGAT
* * * ** *
15521640 GAATCGGGTC-AGATTAAGGGTGTCATAAAGACTACCTCTTATGAAGAATACATGAAAGCTTAAC
391 GAATCGGGTCGA-ATTAAGGGCGTCACAAAGACTACCTCATATGAAGAATACACAAAAGCTCAAC
15521704 TAGACCAACAAGCAAGAGAGCTTTCTCAAACTCA
455 TAGACCAACAAGCAAGAGAGCTTTCTCAAACTCA
15521738 TAA
1 TAA
15521741 ACCTTCTTTT
Statistics
Matches: 453, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
487 5 0.01
488 448 0.99
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (488 bp):
TAACTCTATGTTAACTCTCACTAAGTTCTTTTGAACTTAGTGTTATGTTTATGATTATGTTTCAG
GAAGTATAGTACGAGTTTGCGCCAAGAGGGACGACGCCAAAACTATGCCAAGGAGGCGACAAATT
GGGTTACTATACATACAATGAAAAAGTGGCGTATTGTAGGACTTTACCTTAAAAGTCAATTTTTA
GTAAATGTTTGTATTGTAATGAATTGTAATTGGTCCGATGTAATATTTTATTTCTAAAATACTTT
CTATTGTGTCTTTAATATTAAGTTTTTAAATGAAATAATAATGAAAAATGTTTTAAGTATAGAAT
GTCTATCAACTATTTTGAAACTTTGTTATATATTGTTTGTATAACACCCAAGATCCGAACTTGAT
GAATCGGGTCGAATTAAGGGCGTCACAAAGACTACCTCATATGAAGAATACACAAAAGCTCAACT
AGACCAACAAGCAAGAGAGCTTTCTCAAACTCA
Found at i:15522631 original size:17 final size:17
Alignment explanation
Indices: 15522598--15522631 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15522588 TAAAGTTTCA
**
15522598 TGTCATTTTTATTTAAT
1 TGTCATTTTTAACTAAT
15522615 TGTCATTTTTAACTAAT
1 TGTCATTTTTAACTAAT
15522632 ATGGTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (17 bp):
TGTCATTTTTAACTAAT
Found at i:15529274 original size:11 final size:11
Alignment explanation
Indices: 15529200--15529283 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
15529190 TTTCTAAATA
*
15529200 TAATATTATTT
1 TAATATTAATT
15529211 TAATAAATTTAATCT
1 TAAT--A-TTAAT-T
15529226 TAA-ATTAAATT
1 TAATATT-AATT
* *
15529237 AAATATTTATT
1 TAATATTAATT
*
15529248 TAGATAATAA-T
1 TA-ATATTAATT
15529259 T--TATTAATT
1 TAATATTAATT
15529268 TAATATTAATT
1 TAATATTAATT
15529279 TAATA
1 TAATA
15529284 CCAATTTAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
8 5 0.09
9 2 0.04
11 28 0.50
12 12 0.21
13 1 0.02
14 4 0.07
15 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (11 bp):
TAATATTAATT
Found at i:15529279 original size:19 final size:20
Alignment explanation
Indices: 15529240--15529280 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15529230 TTAAATTAAA
*
15529240 TATTTATTTAGATAATAATT
1 TATTAATTTAGATAATAATT
*
15529260 TATTAATTTA-ATATTAATT
1 TATTAATTTAGATAATAATT
15529279 TA
1 TA
15529281 ATACCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTAATTTAGATAATAATT
Found at i:15533933 original size:19 final size:19
Alignment explanation
Indices: 15533887--15533934 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
15533877 GTATATATTT
*
15533887 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
15533905 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
15533924 TAAATTTTATT
1 TAAATTTTATT
15533935 CAGATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:15536549 original size:24 final size:24
Alignment explanation
Indices: 15536522--15536649 Score: 211
Period size: 24 Copynumber: 5.2 Consensus size: 24
15536512 AAAGGCAATG
*
15536522 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15536546 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15536570 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
15536594 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
15536618 CTTTTTTTAATAACTGGGGCATAAGCC
1 C---TTTTAATAACTGGGGCATAAGCC
15536645 CTTTT
1 CTTTT
15536650 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 3, Indels: 6
0.92 0.03 0.06
Matches are distributed among these distances:
24 75 0.77
27 23 0.23
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:15536713 original size:11 final size:11
Alignment explanation
Indices: 15536697--15536754 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
15536687 ATTTATGAAT
15536697 ATATCATGTGC
1 ATATCATGTGC
*
15536708 ATATCA--TAC
1 ATATCATGTGC
15536717 ATATCATGTGC
1 ATATCATGTGC
*
15536728 ATATCA--TAC
1 ATATCATGTGC
*
15536737 ATGTCATGTGC
1 ATATCATGTGC
15536748 ATATCAT
1 ATATCAT
15536755 ACATACCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 15 0.41
11 22 0.59
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
ATATCATGTGC
Found at i:15536722 original size:20 final size:20
Alignment explanation
Indices: 15536697--15536765 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
15536687 ATTTATGAAT
15536697 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
15536717 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
15536737 ATGTCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
15536757 ATACCATGT
1 ATATCATGT
15536766 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
ATATCATGTGCATATCATAC
Found at i:15544809 original size:24 final size:24
Alignment explanation
Indices: 15544759--15544905 Score: 206
Period size: 24 Copynumber: 6.0 Consensus size: 24
15544749 ACTTTATCAT
*
15544759 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
15544784 ATAACTGGGGCAAAATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
15544808 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
15544832 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
15544856 ATAACTGGGGCATAAGCCCTTTTTTTA
1 ATAACTGGGGCATAAGCCC---TTTTA
15544883 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
15544906 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
24 77 0.69
25 11 0.10
27 23 0.21
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:15544980 original size:20 final size:20
Alignment explanation
Indices: 15544955--15545021 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
15544945 TTATGAATAC
*
15544955 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
15544975 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15544995 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
15545015 ACCATGT
1 ATCATGT
15545022 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:15551272 original size:30 final size:30
Alignment explanation
Indices: 15551238--15551298 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
15551228 TCCTTAACTC
15551238 AAACTTTTGCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* * * *
15551268 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
15551298 A
1 A
15551299 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:15554696 original size:19 final size:19
Alignment explanation
Indices: 15554668--15554726 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
15554658 ATAAAAATAT
15554668 AAAA-TATAAAAATTCAAA
1 AAAATTATAAAAATTCAAA
15554686 AAAATTATAAAAA-TCATAA
1 AAAATTATAAAAATTCA-AA
*
15554705 AAAATTAT-TAAATT-AAA
1 AAAATTATAAAAATTCAAA
15554722 AAAAT
1 AAAAT
15554727 CAAAACTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 7 0.19
18 11 0.30
19 19 0.51
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATTATAAAAATTCAAA
Found at i:15554697 original size:9 final size:9
Alignment explanation
Indices: 15554658--15554726 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 9
15554648 ATCCTGTCAA
15554658 ATAAAAA-T
1 ATAAAAATT
15554666 AT-AAAA-T
1 ATAAAAATT
15554673 ATAAAAATT
1 ATAAAAATT
*
15554682 CAAAAAAATT
1 -ATAAAAATT
*
15554692 ATAAAAATC
1 ATAAAAATT
15554701 ATAAAAAATT
1 AT-AAAAATT
*
15554711 AT-TAAATT
1 ATAAAAATT
*
15554719 AAAAAAAT
1 ATAAAAAT
15554727 CAAAACTTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.14
8 12 0.24
9 14 0.29
10 16 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15574363 original size:120 final size:119
Alignment explanation
Indices: 15574104--15574365 Score: 434
Period size: 120 Copynumber: 2.2 Consensus size: 119
15574094 ATCTAACCTT
* * *
15574104 CAGATTTGACTCTCAGACGTTCTTAGATATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCA
1 CAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCA
* * *
15574169 GATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACACATCGAGGACATAG
66 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAG
*
15574223 CAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCA
1 CAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGC-
15574288 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAG
65 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAG
* *
15574343 CAGATTTGACTTTCAAATGTTCT
1 CAGATTTGACTCTCAGATGTTCT
15574366 AAAACAGACT
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 60 0.45
120 73 0.55
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (119 bp):
CAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTAGACTGAAGCA
GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAG
Found at i:15576418 original size:13 final size:13
Alignment explanation
Indices: 15576331--15576449 Score: 72
Period size: 13 Copynumber: 9.1 Consensus size: 13
15576321 ATTATATAAA
15576331 ATTATT-TTATAT
1 ATTATTATTATAT
15576343 ATGTATTATT-TAT
1 AT-TATTATTATAT
15576356 ATTATCTATTAT-T
1 ATTAT-TATTATAT
* *
15576369 TTTCATAAATTAT-T
1 ATT-AT-TATTATAT
*
15576383 ATTATT-TTACAT
1 ATTATTATTATAT
15576395 CATTATT-TTATAT
1 -ATTATTATTATAT
15576408 ATTATTATTATAT
1 ATTATTATTATAT
* *
15576421 CTTTACTTGTTATAT
1 -ATTA-TTATTATAT
15576436 ATTAATTATT-TAT
1 ATT-ATTATTATAT
15576449 A
1 A
15576450 CACATTGTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.04
12 12 0.14
13 39 0.46
14 22 0.26
15 9 0.11
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (13 bp):
ATTATTATTATAT
Found at i:15579614 original size:48 final size:48
Alignment explanation
Indices: 15579554--15579650 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
15579544 ATAGTGTATT
15579554 GGTTCTTCACTTTTGGTTTACTTGACCCATCAGTACAAT-TAACTTCGG
1 GGTTCTTCACTTTTGGTTTACTTGACCCATCAGTAC-ATGTAACTTCGG
15579602 GGTTCTTCACTTTTGGTTTACTTGACCCATCAGTACATGTAACTTCGG
1 GGTTCTTCACTTTTGGTTTACTTGACCCATCAGTACATGTAACTTCGG
15579650 G
1 G
15579651 CTTGGTCCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 2 0.04
48 46 0.96
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (48 bp):
GGTTCTTCACTTTTGGTTTACTTGACCCATCAGTACATGTAACTTCGG
Found at i:15579676 original size:15 final size:15
Alignment explanation
Indices: 15579656--15579685 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15579646 TCGGGCTTGG
15579656 TCCAACCTTCCTCAA
1 TCCAACCTTCCTCAA
15579671 TCCAACCTTCCTCAA
1 TCCAACCTTCCTCAA
15579686 CTACTTCCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
TCCAACCTTCCTCAA
Found at i:15582998 original size:12 final size:12
Alignment explanation
Indices: 15582981--15583005 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15582971 ATTAATGTAA
15582981 AATTATTTTGTT
1 AATTATTTTGTT
15582993 AATTATTTTGTT
1 AATTATTTTGTT
15583005 A
1 A
15583006 GTAATTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:15583007 original size:59 final size:63
Alignment explanation
Indices: 15582929--15583071 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 63
15582919 TTTTTATAAA
* **
15582929 TTTT-TAGTTATTTTTTTAG-TGT-T-TT-GTGTTTTGTAATTTTTTATTAATGTAAAATTATT
1 TTTTATAGTTATTTTGTTAGATGTATGTTAGTGTTTTGTAATTTTTTAGCAATGTAAAA-TATT
* *
15582988 TTGTTA-A-TTATTTTGTTAGTAATTTATGTTAGTGTTTTGTGATTTTTTAGCAATGTAAAATAT
1 TT-TTATAGTTATTTTGTTAG--ATGTATGTTAGTGTTTTGTAATTTTTTAGCAATGTAAAATAT
15583051 T
63 T
15583052 TTTTATAGTTATTTTGTTAG
1 TTTTATAGTTATTTTGTTAG
15583072 CAATTTATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
59 13 0.19
60 3 0.04
62 2 0.03
63 4 0.06
64 9 0.13
65 38 0.55
ACGTcount: A:0.24, C:0.01, G:0.14, T:0.62
Consensus pattern (63 bp):
TTTTATAGTTATTTTGTTAGATGTATGTTAGTGTTTTGTAATTTTTTAGCAATGTAAAATATT
Found at i:15583034 original size:65 final size:66
Alignment explanation
Indices: 15582954--15583086 Score: 191
Period size: 65 Copynumber: 2.0 Consensus size: 66
15582944 TTAGTGTTTT
** *
15582954 GTGTTTTGTAATTTTTTATTAATGTAAAATTATTTTGTTA-A-TTATTTTGTTAGTAATTTATG-
1 GTGTTTTGTAATTTTTTAGCAATGTAAAA-TATTTT-TTATAGTTATTTTGTTAGCAATTTATGA
15583016 TTA
64 TTA
*
15583019 GTGTTTTGTGATTTTTTAGCAATGTAAAATATTTTTTATAGTTATTTTGTTAGCAATTTATGATT
1 GTGTTTTGTAATTTTTTAGCAATGTAAAATATTTTTTATAGTTATTTTGTTAGCAATTTATGATT
15583084 A
66 A
15583085 GT
1 GT
15583087 TTATAAATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
63 3 0.05
64 7 0.11
65 46 0.75
66 5 0.08
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (66 bp):
GTGTTTTGTAATTTTTTAGCAATGTAAAATATTTTTTATAGTTATTTTGTTAGCAATTTATGATT
A
Found at i:15583119 original size:88 final size:91
Alignment explanation
Indices: 15583019--15583210 Score: 237
Period size: 98 Copynumber: 2.1 Consensus size: 91
15583009 ATTTATGTTA
* *
15583019 GTGTTTTGTGATTTTTTAGCAATGTAAA-ATATTT-T-TTATAGTTATTTTGTTAGCAATTTATG
1 GTGTTTCGTGATTTATTAGCAATGTAAATATATTTATGTTATAGTTATTTTGTTAGCAATTTATG
*
15583081 ATTAGTTTATAAATTGTTGGTGTTTT
66 ATTAGTTTATAAATTGTTAGTGTTTT
* * * *
15583107 GTGTTTCGTGATTTATTAGTAATGTAAATTCTTTTTAAAAAAATGTTATAGTTATTTTGTTAGTA
1 GTGTTTCGTGATTTATTAGCAATGTAAA-TATATTT------ATGTTATAGTTATTTTGTTAGCA
15583172 ATTTATGATTAGTTTATAAATTGTTAGTGTTTT
59 ATTTATGATTAGTTTATAAATTGTTAGTGTTTT
15583205 GTGTTT
1 GTGTTT
15583211 TGTTGTAATA
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
88 25 0.29
90 4 0.05
97 1 0.01
98 57 0.66
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.55
Consensus pattern (91 bp):
GTGTTTCGTGATTTATTAGCAATGTAAATATATTTATGTTATAGTTATTTTGTTAGCAATTTATG
ATTAGTTTATAAATTGTTAGTGTTTT
Found at i:15584803 original size:21 final size:22
Alignment explanation
Indices: 15584771--15584824 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
15584761 ATTATTTTAT
* *
15584771 TATTAT-TATATTT-TTACTTG
1 TATTATATATATTTATTAATTA
15584791 TATTATATATATTTATTAATTA
1 TATTATATATATTTATTAATTA
15584813 T-TTATATATATT
1 TATTATATATATT
15584825 GTTTTTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 6 0.20
21 18 0.60
22 6 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATATATATTTATTAATTA
Found at i:15584936 original size:31 final size:30
Alignment explanation
Indices: 15584894--15584971 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
15584884 TATATTTAAA
*
15584894 TTATATTTTATTATATAACATTTATTATATTT
1 TTAT-TTTTATTATATAACACTTATTAT-TTT
* **
15584926 TTATTTTTATTCTATATTACTTATTATTTT
1 TTATTTTTATTATATAACACTTATTATTTT
*
15584956 TCT-TTTTTTTTATATA
1 T-TATTTTTATTATATA
15584972 TGTTATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 15 0.38
31 20 0.51
32 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (30 bp):
TTATTTTTATTATATAACACTTATTATTTT
Found at i:15585029 original size:12 final size:12
Alignment explanation
Indices: 15585014--15585038 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15585004 TTATTTATGT
15585014 TTATATTATTCA
1 TTATATTATTCA
15585026 TTATATTATTCA
1 TTATATTATTCA
15585038 T
1 T
15585039 AAATTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:15588950 original size:14 final size:14
Alignment explanation
Indices: 15588931--15588957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15588921 AAGATATTCT
15588931 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
15588945 TTTTCTAAATAAA
1 TTTTCTAAATAAA
15588958 GTTGAACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:15589000 original size:14 final size:16
Alignment explanation
Indices: 15588981--15589017 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
15588971 CGATATCCTT
15588981 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
15588995 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
15589011 TTT-CATC
1 TTTGCATC
15589018 ACATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:15589017 original size:15 final size:15
Alignment explanation
Indices: 15588981--15589030 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
15588971 CGATATCCTT
15588981 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
15588995 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
15589011 TTT-CATCACAT-CG
1 TTTGCATCTCATGCA
15589024 TTTGCAT
1 TTTGCAT
15589031 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:15597496 original size:204 final size:205
Alignment explanation
Indices: 15596935--15597636 Score: 1065
Period size: 204 Copynumber: 3.4 Consensus size: 205
15596925 TAGGCCACAG
* * *
15596935 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAGGATGGTTTGGTATCCTTGTA
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
*
15597000 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * * **
15597065 AAGATGATTTGTCATCTCTGAATTGTCAGAGAATAAATCGAAGTCTGGCATCTCCACTTCAATGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAATAAATCGAAGTCTGGCATCTTCACTTTGAT-G
15597130 AA-AGCAGATA
195 AAGAGCAGATA
* * * * * * * *
15597140 CATAGCAGATCTGACCTTTAGACGATTA-GATTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
1 CATAGCAGATCTCACCTTCAGATGTTTATG-CTGAAGC-AGATCCAAGATGGTTTGGTACCCTTG
* * *
15597204 TGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
64 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
* *
15597269 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAATGAATCGAAGTCTGGCATATTCACTTTGAT
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAATAAATCGAAGTCTGGCATCTTCACTTTGAT
15597334 GAAGAGCAGATA
194 GAAGAGCAGATA
* *
15597346 CATAGCAGATCTCGCCTTCGGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
15597411 CTTACAAGGAAC-AATCGAAGACATAG-TAGATTTGGCTTTCACGTGTTTAC-ACTGAAGCAAAT
66 CTTACAAGGAACAAATCGAAGACATAGCT-GATTTGGCTTTCACGTGTTTACGA-TGAAGCAAAT
* *
15597473 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCTTCTTCACTTTGAT
129 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAATAAATCGAAGTCTGGCATCTTCACTTTGAT
15597538 -AGAGAGCAGATA
194 GA-AGAGCAGATA
*
15597550 CATAGCAGATCTCACCTTCAGATGTTTATGCCGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
15597615 CTTACAAGGAACAAATCGAAGA
66 CTTACAAGGAACAAATCGAAGA
15597637 AACAGATTTG
Statistics
Matches: 449, Mismatches: 40, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
203 3 0.01
204 190 0.42
205 78 0.17
206 177 0.39
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAATAAATCGAAGTCTGGCATCTTCACTTTGATGA
AGAGCAGATA
Found at i:15599675 original size:12 final size:12
Alignment explanation
Indices: 15599622--15599677 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 12
15599612 GTTATGTATA
15599622 TCATATATATTA-
1 TCAT-TATATTAT
15599634 TCTATTATATTAT
1 TC-ATTATATTAT
*
15599647 TTATGTTTATATTAT
1 TCA---TTATATTAT
15599662 TCATTATATTAT
1 TCATTATATTAT
15599674 TCAT
1 TCAT
15599678 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 23 0.62
13 3 0.08
15 11 0.30
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (12 bp):
TCATTATATTAT
Found at i:15601089 original size:97 final size:95
Alignment explanation
Indices: 15600912--15601092 Score: 292
Period size: 97 Copynumber: 1.9 Consensus size: 95
15600902 TTTAAAAATG
* *
15600912 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTAGTTTAGGGTTTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTAATGTAGGGTTTT
15600977 GTGATTTTTTATAATGTAATTTAAAAAAAA
66 GTGATTTTTTATAATGTAATTTAAAAAAAA
* *
15601007 TTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATGTAGTGTT
1 TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTATTTAATGTAGGGTT
15601072 TTGTGA-TTTTTATTAATGTAA
64 TTGTGATTTTTTA-TAATGTAA
15601093 ATTTTTTATA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
95 31 0.39
96 9 0.11
97 39 0.49
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (95 bp):
TTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTATTTAATGTAGGGTTTT
GTGATTTTTTATAATGTAATTTAAAAAAAA
Found at i:15601179 original size:27 final size:27
Alignment explanation
Indices: 15601136--15601195 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
15601126 AATTTTAATT
** * *
15601136 GATAGGAGTCATTAGTGGCGCCTATCA
1 GATAGGAGTCACCAGTGGCACCTACCA
15601163 GATAGGAGTCACCAGTGGCACCTACCA
1 GATAGGAGTCACCAGTGGCACCTACCA
*
15601190 AATAGG
1 GATAGG
15601196 CACCACCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (27 bp):
GATAGGAGTCACCAGTGGCACCTACCA
Found at i:15602350 original size:39 final size:42
Alignment explanation
Indices: 15602270--15602358 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 42
15602260 CAGGTTTTTC
* *
15602270 GCGGCGTTTGTACAAAAAAACGCTGCTATAGATTGAACATTA
1 GCGGCGTTTGTACAAAAAAACGCTGCTAAAGATCGAACATTA
*
15602312 GCGGCGTTT-T-C-AAAAAACG-TAGCTAAAGATCGAGCATTA
1 GCGGCGTTTGTACAAAAAAACGCT-GCTAAAGATCGAACATTA
15602351 GCGGCGTT
1 GCGGCGTT
15602359 AGAATGTCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 31 0.72
40 1 0.02
41 1 0.02
42 9 0.21
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (42 bp):
GCGGCGTTTGTACAAAAAAACGCTGCTAAAGATCGAACATTA
Found at i:15602647 original size:116 final size:115
Alignment explanation
Indices: 15602478--15602690 Score: 300
Period size: 116 Copynumber: 1.8 Consensus size: 115
15602468 TTATAAAAAT
* ** *
15602478 GCCGTAAAATAATTCATCAACACGTTGTCTTTTTTTGTTGTGCCTTAGAGGCATTTAACGGCGCT
1 GCCGCAAAATAATTCATCAACACGACGTCTTTTTTTGTTGAGCCTTAGAGGCA-TTAACGGCGCT
** * *
15602543 TTTTGACCAACGCCGCTATAGGTCGAGCATTAGCGGCATTTTTTTAGAAGC
65 TTTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCATTTTTTTAGAAGC
* * *
15602594 GCCGCAAAATATTTCATCAACACGACGTCTTTTTTTGTTGAGCCTTAGTGGCATTAGCGGCGCTT
1 GCCGCAAAATAATTCATCAACACGACGTCTTTTTTTGTTGAGCCTTAGAGGCATTAACGGCGCTT
* *
15602659 TTTGAAAAACATCGCTATAGATCGAGCTTTAG
66 TTTGAAAAACACCGCTATAGATCGAGCATTAG
15602691 ATTACTGATA
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
115 37 0.44
116 47 0.56
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (115 bp):
GCCGCAAAATAATTCATCAACACGACGTCTTTTTTTGTTGAGCCTTAGAGGCATTAACGGCGCTT
TTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCATTTTTTTAGAAGC
Found at i:15605491 original size:50 final size:51
Alignment explanation
Indices: 15605424--15605552 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
15605414 GACCATGGAA
*
15605424 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAA-AAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GAACAAATG
*
15605475 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATAACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* * *
15605525 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
15605553 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
49 2 0.03
50 45 0.63
51 24 0.34
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:15605707 original size:31 final size:31
Alignment explanation
Indices: 15605528--15605699 Score: 272
Period size: 31 Copynumber: 5.5 Consensus size: 31
15605518 ACAAATGACA
* *
15605528 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
***
15605559 AGTGAAAAGTGGTAGCTTTTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
15605590 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
15605621 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
15605652 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
15605683 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
15605700 TCAGCTACAA
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:15605801 original size:46 final size:46
Alignment explanation
Indices: 15605734--15605854 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
15605724 GTGATTTCCT
* * *
15605734 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTAT-G
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGAT-TCG
*
15605780 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATTCG
* * *
15605826 TGTAAGACCATAGCTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
15605855 TTATGTGAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 66 0.99
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATTCG
Found at i:15607769 original size:13 final size:14
Alignment explanation
Indices: 15607753--15607781 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15607743 TTATAAATAT
15607753 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
15607766 TTATAATGGTTTAA
1 TTATAATGGTTTAA
15607780 TT
1 TT
15607782 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:15608231 original size:21 final size:21
Alignment explanation
Indices: 15608205--15608254 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
15608195 CAGCAGCGAT
15608205 GGAGGCAGCAGCAACAACGAG
1 GGAGGCAGCAGCAACAACGAG
15608226 GGAGGCAGCAGCAACAACGAG
1 GGAGGCAGCAGCAACAACGAG
15608247 GGAGGCAG
1 GGAGGCAG
15608255 AGGCAGCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.42, T:0.00
Consensus pattern (21 bp):
GGAGGCAGCAGCAACAACGAG
Found at i:15608555 original size:31 final size:31
Alignment explanation
Indices: 15608519--15608584 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
15608509 TTTATTTTTT
15608519 ATGCTACATTTGTTGTTTTTGGTTGGATTCA
1 ATGCTACATTTGTTGTTTTTGGTTGGATTCA
* * *
15608550 ATGCTATATTTGTTGTTTTTTGTTGGATTTA
1 ATGCTACATTTGTTGTTTTTGGTTGGATTCA
15608581 ATGC
1 ATGC
15608585 AGGAAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.55
Consensus pattern (31 bp):
ATGCTACATTTGTTGTTTTTGGTTGGATTCA
Found at i:15623009 original size:131 final size:130
Alignment explanation
Indices: 15622820--15623065 Score: 350
Period size: 131 Copynumber: 1.9 Consensus size: 130
15622810 AAATTTTATT
* * *
15622820 AAAACGAAGGTAATACTCGGTGCTTGGCAATTCGGGAATCGTGCCCCATCGTGTTGGGTTGCGAT
1 AAAACGAAGGTAATACTCGATGCTTGCCAATTCGGGAATCGTGCCCCATCGTGCTGGGTTGCGAT
* * * *
15622885 TT-CTCGTTTGTTCAAAATAATCAAATATTCGTTTGGAATTTCACTCATGTCTTTAAAAATTCTT
66 TTCCT-GTTTATTCAAAATAATCAAATATTCCTCTAGAATTTCACTCATGTCTTTAAAAATTCTT
15622949 C
130 C
** * * *
15622950 AAAACGAAGGTAATGTTCGATGTTTGCCCATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGA
1 AAAACGAAGGTAATACTCGATGCTTGCCAATTC-GGGAATCGTGCCCCATCGTGCTGGGTTGCGA
*
15623015 TTTCCTGTTTATTCAAAATAATCGAATATTCCTCTAGAATTTCACTCATGT
65 TTTCCTGTTTATTCAAAATAATCAAATATTCCTCTAGAATTTCACTCATGT
15623066 TCTCTGAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
130 27 0.27
131 72 0.71
132 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
AAAACGAAGGTAATACTCGATGCTTGCCAATTCGGGAATCGTGCCCCATCGTGCTGGGTTGCGAT
TTCCTGTTTATTCAAAATAATCAAATATTCCTCTAGAATTTCACTCATGTCTTTAAAAATTCTTC
Found at i:15624020 original size:31 final size:31
Alignment explanation
Indices: 15623985--15624046 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15623975 TTAAATTAGA
15623985 AAATTTATTTTTTTATATTTTATTTTACATG
1 AAATTTATTTTTTTATATTTTATTTTACATG
15624016 AAATTTATTTTTTTATATTTTATTTTACATG
1 AAATTTATTTTTTTATATTTTATTTTACATG
15624047 CGTAATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (31 bp):
AAATTTATTTTTTTATATTTTATTTTACATG
Found at i:15626394 original size:132 final size:132
Alignment explanation
Indices: 15626157--15626396 Score: 336
Period size: 132 Copynumber: 1.8 Consensus size: 132
15626147 TCTCGCTTTG
* * * * * *
15626157 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTACAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
* * * *
15626222 ACACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAATTTTTTT
66 ACACGATAAGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTAAATTTTTTT
15626287 TA
131 TA
* ** *
15626289 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
* *
15626354 GCACGATAAGGCACGATTCCCCGAATTACTAAACATCGAACAT
66 ACACGATAAGGCACGATTCCCCGAATTACCAAACATCGAACAT
15626397 CGTCTCCGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 92 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTACAACCCA
ACACGATAAGGCACGATTCCCCGAATTACCAAACATCGAACATTTCCTTCGTTTTAAATTTTTTT
TA
Found at i:15627366 original size:3 final size:3
Alignment explanation
Indices: 15627358--15627397 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
15627348 ATATATTAGG
15627358 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15627398 GTAAAATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15628347 original size:27 final size:27
Alignment explanation
Indices: 15628308--15628376 Score: 113
Period size: 26 Copynumber: 2.6 Consensus size: 27
15628298 AAAAAAAAAA
*
15628308 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
15628335 AACTTTCCC-TTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
15628361 AACTTTTCCCTTTTTT
1 AAC-TTTCCCTTTTTT
15628377 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 20 0.51
27 14 0.36
28 5 0.13
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (27 bp):
AACTTTCCCTTTTTTTATTCCATTACC
Found at i:15628377 original size:27 final size:26
Alignment explanation
Indices: 15628308--15628379 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 26
15628298 AAAAAAAAAA
*
15628308 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCC-CTTTTTTATTCCATTACC
15628335 AACTTTCCCTTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTATTCCATTACC
15628361 AACTTTTCCCTTTTTTATT
1 AAC-TTTCCCTTTTTTATT
15628380 TTTTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (26 bp):
AACTTTCCCTTTTTTATTCCATTACC
Found at i:15629863 original size:22 final size:25
Alignment explanation
Indices: 15629820--15629864 Score: 69
Period size: 22 Copynumber: 1.9 Consensus size: 25
15629810 TTTTAGAAAT
15629820 TTTTTTATTCTTTAGAATTTTTAAC
1 TTTTTTATTCTTTAGAATTTTTAAC
15629845 TTTTTT-TT-TTTA-AATTTTTA
1 TTTTTTATTCTTTAGAATTTTTA
15629865 TAATTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 2 0.10
25 6 0.30
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTTATTCTTTAGAATTTTTAAC
Found at i:15630111 original size:30 final size:30
Alignment explanation
Indices: 15630012--15630111 Score: 83
Period size: 32 Copynumber: 3.2 Consensus size: 30
15630002 GAAGTTTACA
* * *
15630012 ATTTAATTTAACTATAACTAAAAATTCGAATT
1 ATTTAATTCAA-T-TAACTTAAAATTTGAATT
* * * * *
15630044 ACTTATTTGAATTAACTTAAAAAAATTGAATA
1 ATTTAATTCAATTAACTT--AAAATTTGAATT
15630076 ATTTAATTCAATTAACTTAAAATTTGAATT
1 ATTTAATTCAATTAACTTAAAATTTGAATT
*
15630106 TTTTAA
1 ATTTAA
15630112 AAAAAATTAA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 20 0.38
31 1 0.02
32 32 0.60
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (30 bp):
ATTTAATTCAATTAACTTAAAATTTGAATT
Found at i:15631191 original size:21 final size:21
Alignment explanation
Indices: 15631157--15631196 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15631147 TCATTAATTC
** *
15631157 TAATTTCATTGTTATAATATT
1 TAATTTCACCGTTACAATATT
15631178 TAATTTCACCGTTACAATA
1 TAATTTCACCGTTACAATA
15631197 ACTAATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (21 bp):
TAATTTCACCGTTACAATATT
Found at i:15631475 original size:23 final size:23
Alignment explanation
Indices: 15631449--15631495 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15631439 ATATAATAAA
* *
15631449 TATATATATTTTTTATTTTTAAT
1 TATATATATATTTTAATTTTAAT
*
15631472 TATATTTATATTTTAATTTTAAT
1 TATATATATATTTTAATTTTAAT
15631495 T
1 T
15631496 TTAATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TATATATATATTTTAATTTTAAT
Found at i:15631485 original size:18 final size:18
Alignment explanation
Indices: 15631462--15631526 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 18
15631452 ATATATTTTT
15631462 TATTTTTAATTATATTTA
1 TATTTTTAATTATATTTA
*
15631480 TA-TTTTAATTTTAATTT-
1 TATTTTTAATTAT-ATTTA
* * *
15631497 TAATTTTAA-TATAATCA
1 TATTTTTAATTATATTTA
15631514 -ATTTTT-ATTATAT
1 TATTTTTAATTATAT
15631527 ATTTTCAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
15 1 0.03
16 11 0.30
17 13 0.35
18 12 0.32
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTAATTATATTTA
Found at i:15631504 original size:6 final size:6
Alignment explanation
Indices: 15631459--15631506 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
15631449 TATATATATT
* *
15631459 TTTTAT TTTTAA TTAT-A -TTTATA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTA-A TTTTAA TTTTAA TTTTAA TTTTAA
15631506 T
1 T
15631507 ATAATCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 29 0.81
7 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:15631567 original size:40 final size:40
Alignment explanation
Indices: 15631523--15631603 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
15631513 AATTTTTATT
15631523 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
15631563 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
15631603 A
1 A
15631604 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:15634533 original size:131 final size:131
Alignment explanation
Indices: 15634314--15634682 Score: 316
Period size: 131 Copynumber: 2.8 Consensus size: 131
15634304 CGAAGGGATC
* * * * * * **
15634314 TTCGATTGTTTTGAGCAAAAGAGAAAGCGCAACCCAGCACGATAGGGC-TCGATTCTCAAATCGC
1 TTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAACACGATAGGGCAT-GATCCCCGAATTAC
* * *
15634378 CAAACATCGAATATCGCCTCCGTTTTGCAAGG-TTTTTA-ATAAACATGAATGAAAA-CCTAAAG
65 CAAACACCGAATATCGCCTCCGTTTT-AAAGGATTTTTAGA-AAACACGAAT-AAAATCCTAAAG
15634440 GAATA
127 GAATA
* * *
15634445 TTCGATTGTTTTGAACAAACGAGAAATCACAACCCAACACGATAGGGCATGATCCCCGAATTATC
1 TTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAACACGATAGGGCATGATCCCCGAATTACC
* * * * * ** * *
15634510 AAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGACACGAGTAAAATTTTGAAGGGAT
66 AAACACCGAATATCGCCTCCGTTTTAAAGGATTTTTAGAAAACACGAATAAAATCCTAAAGGAAT
15634575 A
131 A
* * * * * *
15634576 TTCGATTATTTTGAGCAAAC-ACGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTG
1 TTCGATTGTTTTGAGCAAACGA-GAAATCGCAACCCAACACGATAGGGCATGA-TCCCCGAATTA
* * * * * *
15634640 CCAAATATCAAATCTCGTCTTCGTTTTTTAAAGGATTTTTAGA
64 CCAAACACCGAATATCGCCTCCG--TTTTAAAGGATTTTTAGA
15634683 GAATTGTGAA
Statistics
Matches: 191, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
130 9 0.05
131 138 0.72
132 26 0.14
134 18 0.09
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (131 bp):
TTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAACACGATAGGGCATGATCCCCGAATTACC
AAACACCGAATATCGCCTCCGTTTTAAAGGATTTTTAGAAAACACGAATAAAATCCTAAAGGAAT
A
Found at i:15637321 original size:15 final size:15
Alignment explanation
Indices: 15637281--15637322 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15637271 TTTATTGGAC
*
15637281 TGTTAATGTATTTTT
1 TGTTTATGTATTTTT
15637296 TGTTTAT-TATTTTT
1 TGTTTATGTATTTTT
15637310 TGGTTT-TGTATTT
1 T-GTTTATGTATTT
15637323 ATACGGGCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (15 bp):
TGTTTATGTATTTTT
Found at i:15637678 original size:44 final size:44
Alignment explanation
Indices: 15637592--15638030 Score: 585
Period size: 44 Copynumber: 10.0 Consensus size: 44
15637582 AAGGTTCGTC
* * * *
15637592 ATCTTCGATTTGCTCTTTGTCAATCACAGAGACGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGCCAAT-ACAGAGATGCCAAATCTGCT
* *
15637636 CATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* *
15637681 ATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* * *
15637725 ATCTTTGATCTGCTCTCTGCCAATACAGAGACGCTAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* * * *
15637769 ATCTTTGATCTGCTCTCTGCCAATACAGAGACGCCAGATTTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
15637813 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* * *
15637857 ATCTTCGATCTGCCCTCTGCCAATATAGAGATGCCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* * * * *
15637901 ATCTTCGATCTGTTCCCCGCCAATATAGAGATGTCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
* *
15637945 ATCTTCGATCTGCCCTCTGCCAGTACAGAGATGCCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATG-CCAAATCTGCT
* * *
15637990 ATCTTC-ATCTACTCTCCGCTAATACAGAGATGCCAAATCTG
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG
15638031 TAGGATTCGC
Statistics
Matches: 355, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.03
44 309 0.87
45 37 0.10
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCT
Found at i:15652899 original size:44 final size:44
Alignment explanation
Indices: 15652806--15653288 Score: 628
Period size: 44 Copynumber: 11.0 Consensus size: 44
15652796 AAGGTTCGTC
* *
15652806 ATCTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGCCAAT-ACAGAGACGCCAAATCTGCT
*
15652850 CATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * *
15652895 ATCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
*
15652939 ATCTTTGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * * *
15652983 ATATTTGATCTGCTCTCTGCCAATACAGAGACGCCAGATTTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* **
15653027 ATCTTCGATCTGTTCTCTGCCAATACAGAGACGCTGAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
*
15653071 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTACT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * * *
15653115 ATTTTCGATCTGCCCTCTGCCAATATAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * * * *
15653159 ATCTTCGATCTGTTCCCCGCCAATACAGAGATGTCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
* * * * *
15653203 ATCGTCGATCTGCCCTCTGCCAGTACAGAAATGCCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACG-CCAAATCTGCT
* * * *
15653248 ATCTTC-ATCTACTCTCCGCTAATACAGAGATGCCAAATCTG
1 ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTG
15653289 TAGGATTCGC
Statistics
Matches: 388, Mismatches: 48, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
43 9 0.02
44 342 0.88
45 37 0.10
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT
Found at i:15659043 original size:16 final size:16
Alignment explanation
Indices: 15659022--15659056 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15659012 GCACTTTGAC
15659022 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
15659038 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
15659054 TAA
1 TAA
15659057 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:15673716 original size:11 final size:12
Alignment explanation
Indices: 15673700--15673741 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
15673690 CCTTCTTTGC
15673700 TTTGTA-TTGTT
1 TTTGTATTTGTT
*
15673711 TTTGTATTCTCTT
1 TTTGTATT-TGTT
15673724 TTTCGTATTTGTT
1 TTT-GTATTTGTT
15673737 TTTGT
1 TTTGT
15673742 TGCCTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.23
12 3 0.12
13 12 0.46
14 5 0.19
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.71
Consensus pattern (12 bp):
TTTGTATTTGTT
Found at i:15674332 original size:29 final size:30
Alignment explanation
Indices: 15674291--15674352 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
15674281 GTATTTATAG
*
15674291 TATTTTCTCATATTATA-ATCATGTTTAAAA
1 TATTTTATCATATTATATAT-ATGTTTAAAA
* *
15674321 TATTTTAT-ATATTTTATATTTGTTTAAAA
1 TATTTTATCATATTATATATATGTTTAAAA
15674350 TAT
1 TAT
15674353 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (30 bp):
TATTTTATCATATTATATATATGTTTAAAA
Found at i:15675547 original size:13 final size:12
Alignment explanation
Indices: 15675524--15675564 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
15675514 TCTAGTAGGA
15675524 TTTTAGTTAATT
1 TTTTAGTTAATT
15675536 TTTTAGGTTAA-T
1 TTTTA-GTTAATT
15675548 TTTTAG-TATATT
1 TTTTAGTTA-ATT
15675560 TTTTA
1 TTTTA
15675565 AGAATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 2 0.08
12 17 0.65
13 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (12 bp):
TTTTAGTTAATT
Found at i:15678686 original size:133 final size:132
Alignment explanation
Indices: 15678381--15678735 Score: 308
Period size: 133 Copynumber: 2.7 Consensus size: 132
15678371 CGGAAGATTG
* * * *
15678381 CAACCCAGCACGATAGGGCACT-ATTCCCCGAATTGTCAAACATCGAACCTTTCTTTCGCTTTT-
1 CAACCCAGCACGATAGGGCA-TGATT-CCCGAATTGTCAAACATTGAACATTACCTTCG-TTTTA
** ** * * **
15678444 AAGAGTTTTTTAGAAAATGTGAGTGAAATTCAAAAGGGATCTTCAATTGTTTCGAACCAATGAAA
63 AAGAGTTTTTTAGAAAACATGAGTGAAAACCAAAAGGAATATTCAATTGTTTCGAACCAAACAAA
*
15678509 AAGCG
128 AAGCA
* * * * * *
15678514 CAACCTAGCACGATAGGGCACGATTCTC-AGATCGCCAAACATTGAACATCACCTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCATGATTCCCGA-ATTGTCAAACATTGAACATTACCTTCGTTTTAAA
* * * *
15678578 GTGTTTTCTTA-AAGAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTG-ACCAAACAAG
65 GAGTTTT-TTAGAA-AACATGAGTGAAAACCAAAAGGAATATTCAATTGTTTCGAACCAAACAA-
* *
15678641 GAATCA
127 AAAGCA
* ** *
15678647 CAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACACTGAGTATTGCCTTCGTTTTAAAG
1 CAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACATTGAACATTACCTTCGTTTTAAAG
* * * *
15678712 A-ATCTTTAGAAGACACGAGTGAAA
66 AGTTTTTTAGAAAACATGAGTGAAA
15678736 TTTTGAAGGG
Statistics
Matches: 174, Mismatches: 40, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
131 19 0.11
132 43 0.25
133 111 0.64
134 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (132 bp):
CAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACATTGAACATTACCTTCGTTTTAAAG
AGTTTTTTAGAAAACATGAGTGAAAACCAAAAGGAATATTCAATTGTTTCGAACCAAACAAAAAG
CA
Found at i:15681141 original size:6 final size:6
Alignment explanation
Indices: 15681130--15681158 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15681120 AGAAAGAAGG
15681130 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
15681159 ATATACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:15683439 original size:19 final size:19
Alignment explanation
Indices: 15683371--15683458 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
15683361 AATCATATCT
15683371 TCTAAGATTGCA-AT--TA
1 TCTAAGATTGCATATCATA
15683387 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
15683405 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
15683422 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15683441 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
15683459 TGAAGATATA
Statistics
Matches: 67, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.21
17 16 0.24
18 12 0.18
19 25 0.37
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15683465 original size:36 final size:36
Alignment explanation
Indices: 15683364--15683458 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
15683354 ATTACAAAAT
* *
15683364 CATATC-T-TCTAAGATTGCA-ATTATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATAAGATTG
15683397 CA-ATCATATCTAAGATTG--TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATA--TAAGATTG
15683432 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTGCATATCAT
15683459 TGAAGATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
32 3 0.06
33 7 0.13
34 10 0.19
35 10 0.19
36 16 0.31
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (36 bp):
CATATCATATCTAAGATTGCATATCATATAAGATTG
Found at i:15683860 original size:45 final size:45
Alignment explanation
Indices: 15683805--15684004 Score: 249
Period size: 45 Copynumber: 4.5 Consensus size: 45
15683795 GGAAGGCGAT
* * * **
15683805 ATCTGCTATCTTTGATCTGCTTCAGGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
15683850 ATCTGTTATCTTCGATTTACTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
15683895 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
15683939 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
15683984 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
15684005 TCGATGTAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 38 0.29
45 94 0.71
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:15684150 original size:78 final size:78
Alignment explanation
Indices: 15684018--15684234 Score: 339
Period size: 78 Copynumber: 2.8 Consensus size: 78
15684008 ATGTAAACAC
* *
15684018 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCCTCGTCTAATACA-ATGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGA-GATGCCAAATCATC
15684082 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
15684096 ATGAAGGTCAGATCTGATGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
15684161 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* **
15684174 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGT-TGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATC
15684235 TATTTCTTCG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
77 1 0.01
78 126 0.98
79 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:15684444 original size:78 final size:78
Alignment explanation
Indices: 15684315--15684598 Score: 419
Period size: 78 Copynumber: 3.7 Consensus size: 78
15684305 GTGAAAGCCA
15684315 AATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
15684380 TCAATGAAGGTCC
66 TCAATGAAGGTCC
* * *
15684393 AATCTGTTATGTCTTCGATCTTCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
15684458 TCAATGAAGGTCA
66 TCAATGAAGGTCC
** *
15684471 AATCTATTGTATCTTC-ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
15684535 TCAATGAAGGT-C
66 TCAATGAAGGTCC
* * * * * **
15684547 AGATCTGCTATGTTTTCGATCTGCTCTCCATCAAATATGGAGATGCCAAATC
1 A-ATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
15684599 TGTTTCTTTG
Statistics
Matches: 185, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
76 1 0.01
77 68 0.37
78 116 0.63
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (78 bp):
AATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTCC
Found at i:15684688 original size:364 final size:365
Alignment explanation
Indices: 15683934--15684747 Score: 1189
Period size: 364 Copynumber: 2.2 Consensus size: 365
15683924 ATACAGAGAT
* *
15683934 GCCAAATCTG-T-TATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTG
1 GCCAAATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTG
*
15683997 GATCTGCTTCGATGTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCCTCGTCTAA
62 GATCTG---C--T-T---CA-ATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCCCCGTCTAA
* *
15684062 TACAATGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGATGTGTCTTCGATCT
117 TACAATGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGATGTATCTTCGATCT
15684127 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCT
182 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCT
* **
15684192 ATGTCTTCGATCTGCTCTCCGTTGAATATGGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTG
247 ATGTCTTCGATCTGCTCTCCATCAAATATGGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTG
* *
15684257 TCAGTACAGAGATACCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAA
312 ACAGTACAAAGATACCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAA
15684311 GCCAAATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
1 GCCAAATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
*
15684376 TGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCT-TCTCCCCGTCTAATACAGA-GATGC
66 TGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGT-TCCCCGTCTAATACA-ATGATGC
15684438 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCT-ATTGTATCTTC-ATCTGCTCCCCGTC
128 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGA-TGTATCTTCGATCTGCTCCCCGTC
*
15684501 TAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTTTTCGA
192 TAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGA
* * *
15684566 TCTGCTCTCCATCAAATATGGAGATGCCAAATCTGTTTCTTTGATTTGTTCTCTGACATTACAAA
257 TCTGCTCTCCATCAAATATGGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAGTACAAA
* *
15684631 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAA
322 GATACCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAA
* **
15684675 GCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTC-AATGTA-AG-GATGCCAAATCATCTTGGA
1 GCCAAATCTGCTATATCTTCGATCTGCTCCCCGTCTAA--TACAGAGATGCCAAATCATCTTGGA
*
15684737 TCTACTTCAAT
64 TCTGCTTCAAT
15684748 ATGAAAACAT
Statistics
Matches: 408, Mismatches: 21, Indels: 30
0.89 0.05 0.07
Matches are distributed among these distances:
363 31 0.08
364 213 0.52
365 93 0.23
366 5 0.01
369 1 0.00
370 1 0.00
372 1 0.00
375 14 0.03
377 10 0.02
378 1 0.00
379 38 0.09
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (365 bp):
GCCAAATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
TGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGTTCCCCGTCTAATACAATGATGCCAA
ATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGATGTATCTTCGATCTGCTCCCCGTCTAAT
ACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTG
CTCTCCATCAAATATGGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAGTACAAAGATA
CCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAA
Found at i:15691335 original size:41 final size:41
Alignment explanation
Indices: 15691278--15691359 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
15691268 TAACATAAGC
*
15691278 CTTGTGACCCTGAATCCTCAGGCAACGCAGTAAAGTCGTAT
1 CTTGTAACCCTGAATCCTCAGGCAACGCAGTAAAGTCGTAT
* *
15691319 CTTGTAACCCTGAATCCTCGGGCAACGCAGTAAATTCGTAT
1 CTTGTAACCCTGAATCCTCAGGCAACGCAGTAAAGTCGTAT
15691360 ACTCCTCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTGTAACCCTGAATCCTCAGGCAACGCAGTAAAGTCGTAT
Found at i:15692952 original size:17 final size:17
Alignment explanation
Indices: 15692930--15692964 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15692920 GATATGATAC
15692930 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
15692947 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
15692964 T
1 T
15692965 CGGGAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:15693278 original size:19 final size:19
Alignment explanation
Indices: 15693254--15693344 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
15693244 AATCATATCT
*
15693254 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
15693273 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
15693291 TCTAAGATTGC--ATCATA
1 TCTAAGATTGCATATCATA
15693308 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15693327 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
15693345 TGAAGATAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
17 17 0.25
18 17 0.25
19 35 0.51
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15693323 original size:14 final size:15
Alignment explanation
Indices: 15693269--15693342 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 15
15693259 GATTGTATAT
15693269 CATATCTAAGATTGCAA
1 CATATCTAAGATTG--A
15693286 TCATATCTAAGATTGCA
1 -CATATCTAAGATTG-A
15693303 TCATATCTAAGATTGCATA
1 -CATATCTAAGATTG---A
15693322 TCATATCTAAGATTG-
1 -CATATCTAAGATTGA
15693337 CATATC
1 CATATC
15693343 ATTGAAGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.12
17 16 0.31
18 14 0.27
19 16 0.31
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (15 bp):
CATATCTAAGATTGA
Found at i:15693332 original size:36 final size:35
Alignment explanation
Indices: 15693267--15693339 Score: 137
Period size: 36 Copynumber: 2.1 Consensus size: 35
15693257 AAGATTGTAT
15693267 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
1 ATCATATCTAAGATTGCAATCATATCTAAGATTGC
15693302 ATCATATCTAAGATTGCATATCATATCTAAGATTGC
1 ATCATATCTAAGATTGCA-ATCATATCTAAGATTGC
15693338 AT
1 AT
15693340 ATCATTGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 18 0.49
36 19 0.51
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (35 bp):
ATCATATCTAAGATTGCAATCATATCTAAGATTGC
Found at i:15693500 original size:21 final size:20
Alignment explanation
Indices: 15693463--15693501 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15693453 TTGGACTTCG
**
15693463 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
15693483 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
15693502 TCTGAGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:15694138 original size:19 final size:19
Alignment explanation
Indices: 15694093--15694131 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15694083 AATAATTTAC
15694093 AAGAAATTTTTTAAATTTT
1 AAGAAATTTTTTAAATTTT
15694112 AAGAAATTTTTTAAATTTT
1 AAGAAATTTTTTAAATTTT
15694131 A
1 A
15694132 CGCAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AAGAAATTTTTTAAATTTT
Found at i:15694216 original size:19 final size:19
Alignment explanation
Indices: 15694194--15694292 Score: 62
Period size: 19 Copynumber: 5.0 Consensus size: 19
15694184 AAGGAATGAT
*
15694194 ATATATAGTAAAATATATA
1 ATATATAATAAAATATATA
*
15694213 ATATATAATAAAATTTATA
1 ATATATAATAAAATATATA
* *
15694232 A-ATAAAATGTATAATAATATAA
1 ATATATAA--TAAAAT-ATAT-A
15694254 ATAATATAATGAATAATATATA
1 AT-ATATAAT-AA-AATATATA
15694276 A-ATA-AA-AATAATATATA
1 ATATATAATAA-AATATATA
15694293 CACTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
17 11 0.17
18 5 0.08
19 20 0.31
20 8 0.12
21 3 0.05
22 5 0.08
23 5 0.08
24 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATATAATAAAATATATA
Found at i:15694252 original size:21 final size:20
Alignment explanation
Indices: 15694205--15694282 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
15694195 TATATAGTAA
*
15694205 AATATATAATATATAAT-AA-
1 AATATATAA-ATAAAATGAAT
* *
15694224 AATTTATAAATAAAATGTAT
1 AATATATAAATAAAATGAAT
15694244 AATAATATAAATAATATAATGAAT
1 AAT-ATATAAAT-A-A-AATGAAT
15694268 AATATATAAATAAAA
1 AATATATAAATAAAA
15694283 ATAATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 5 0.10
21 8 0.17
22 2 0.04
23 9 0.19
24 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATATATAAATAAAATGAAT
Found at i:15694286 original size:24 final size:25
Alignment explanation
Indices: 15694229--15694287 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
15694219 AATAAAATTT
*
15694229 ATAAATAA-AATGTATAATAATATAA
1 ATAAA-AATAATGAATAATAATATAA
*
15694254 AT-AATATAATGAATAAT-ATATAA
1 ATAAAAATAATGAATAATAATATAA
15694277 ATAAAAATAAT
1 ATAAAAATAAT
15694288 ATATACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATGAATAATAATATAA
Found at i:15695973 original size:44 final size:44
Alignment explanation
Indices: 15695912--15696359 Score: 587
Period size: 44 Copynumber: 10.2 Consensus size: 44
15695902 CAAATGTCAG
* * *
15695912 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAAAAGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
15695956 ATCTGCTATCTTTGATCTGCTCTCTGTCAATATAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
15696000 ATCTGCTATCTTCGATCTGCTCACTGACAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
15696044 ATCTGTTATCTTCAATCTGCTCTCTGACAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
15696088 ATCTGTTATCTTCAATCCGCTCTCTGACAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
*
15696132 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
15696176 ATCTGTTATCTTCGGTCTGCTCTCTGACAATACAGACACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
15696220 ATCTG-TCAT-TTTGATTTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
15696263 ATCTG-TCATCTTCGATCTGCTCTCTGTCAATACAGAGACACGAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
15696307 ATCTGTTATCTTCAATCTGCTCTTTGACAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
15696351 ATCTGCTAT
1 ATCTGCTAT
15696360 GGGTGATCTA
Statistics
Matches: 361, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
43 39 0.11
44 321 0.89
45 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
Found at i:15707717 original size:23 final size:23
Alignment explanation
Indices: 15707690--15707757 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
15707680 AAACCACACA
15707690 ATATACATTAACATTTCATGCAT
1 ATATACATTAACATTTCATGCAT
* * ** *
15707713 ATATA-ATCACAAATAACATGAAT
1 ATATACATTA-ACATTTCATGCAT
* *
15707736 ATACACATTATCATTTCATGCA
1 ATATACATTAACATTTCATGCA
15707758 AAATACAAAT
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATACATTAACATTTCATGCAT
Found at i:15708098 original size:22 final size:24
Alignment explanation
Indices: 15708046--15708101 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
15708036 ATTTTAAAAA
15708046 AATATTATTATATGATATAATAATT
1 AATA-TATTATATGATATAATAATT
15708071 AATATATTAT-T-ATATAAATAA-T
1 AATATATTATATGATAT-AATAATT
*
15708093 ACTATATTA
1 AATATATTA
15708102 AATAGGTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 13 0.45
23 6 0.21
24 6 0.21
25 4 0.14
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AATATATTATATGATATAATAATT
Found at i:15708208 original size:8 final size:8
Alignment explanation
Indices: 15708195--15708223 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15708185 AATTTACAAG
15708195 AAATTTTT
1 AAATTTTT
15708203 AAA-TTTT
1 AAATTTTT
15708210 AAATTTTT
1 AAATTTTT
15708218 AAATTT
1 AAATTT
15708224 ACATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
AAATTTTT
Found at i:15708215 original size:15 final size:15
Alignment explanation
Indices: 15708195--15708223 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15708185 AATTTACAAG
15708195 AAATTTTTAAATTTT
1 AAATTTTTAAATTTT
15708210 AAATTTTTAAATTT
1 AAATTTTTAAATTT
15708224 ACATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATTTTTAAATTTT
Found at i:15708253 original size:7 final size:7
Alignment explanation
Indices: 15708228--15708381 Score: 61
Period size: 7 Copynumber: 23.3 Consensus size: 7
15708218 AAATTTACAT
15708228 TAATA-A
1 TAATATA
*
15708234 TAATAAA
1 TAATATA
15708241 TAATATA
1 TAATATA
15708248 TAATATA
1 TAATATA
15708255 T-ATA-A
1 TAATATA
15708260 -AATA-A
1 TAATATA
* *
15708265 AAATGTAA
1 TAATAT-A
*
15708273 GGAATATA
1 -TAATATA
15708281 T-ATATA
1 TAATATA
15708287 TAGA-ATA
1 TA-ATATA
15708294 -AATATA
1 TAATATA
15708300 TAATATA
1 TAATATA
15708307 TAATA-A
1 TAATATA
*
15708313 -AATTTA
1 TAATATA
15708319 TAA-ATA
1 TAATATA
* *
15708325 AAATGTA
1 TAATATA
*
15708332 TAGTAATA
1 TAAT-ATA
15708340 TAATGAATA
1 TAAT--ATA
15708349 TAATGA-A
1 TAAT-ATA
15708356 TAATATA
1 TAATATA
15708363 TAA-ATA
1 TAATATA
15708369 -AA-A-A
1 TAATATA
15708373 TAATATA
1 TAATATA
15708380 TA
1 TA
15708382 CATTATTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 37
0.69 0.08 0.22
Matches are distributed among these distances:
4 1 0.01
5 14 0.12
6 32 0.28
7 47 0.41
8 9 0.08
9 12 0.10
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (7 bp):
TAATATA
Found at i:15708326 original size:13 final size:14
Alignment explanation
Indices: 15708303--15708371 Score: 61
Period size: 15 Copynumber: 4.9 Consensus size: 14
15708293 AAATATATAA
*
15708303 TATATAATAAAATT
1 TATATAATAAAATG
15708317 TATA-AATAAAATG
1 TATATAATAAAATG
*
15708330 TATAGTAATATAATG
1 TATA-TAATAAAATG
* *
15708345 AATATAATGAATAATA
1 TATATAAT-AA-AATG
15708361 TATA-AATAAAA
1 TATATAATAAAA
15708372 ATAATATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 14 0.31
14 10 0.22
15 15 0.33
16 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (14 bp):
TATATAATAAAATG
Found at i:15714048 original size:20 final size:20
Alignment explanation
Indices: 15714019--15714070 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
15714009 AATTAAATTC
15714019 TAAAAGATAAATACAA-ATAAA
1 TAAAA-ATAAATA-AAGATAAA
*
15714040 TAAAAATAATTAAAGATAAA
1 TAAAAATAAATAAAGATAAA
*
15714060 TGAAAATAAAT
1 TAAAAATAAAT
15714071 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (20 bp):
TAAAAATAAATAAAGATAAA
Found at i:15733210 original size:3 final size:3
Alignment explanation
Indices: 15733204--15733250 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
15733194 AATGTAATTG
15733204 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15733251 ATAAGGTAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:15733789 original size:15 final size:14
Alignment explanation
Indices: 15733768--15733805 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
15733758 AATTGCAAGT
15733768 ATAAATAATAATAA-
1 ATAAATAATAA-AAC
15733782 ATTAAATAATAAAAC
1 A-TAAATAATAAAAC
15733797 ATAAATAAT
1 ATAAATAAT
15733806 GACCAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATAATAAAAC
Found at i:15742437 original size:30 final size:30
Alignment explanation
Indices: 15742403--15742463 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
15742393 AAGCACAAAT
*
15742403 ATAATAACCATATATAAATAATA-ATGTAAA
1 ATAATAACAATATA-AAATAATATATGTAAA
* *
15742433 ATAATAATAATATAAAATAATATATTTAAA
1 ATAATAACAATATAAAATAATATATGTAAA
15742463 A
1 A
15742464 CGTAAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAACAATATAAAATAATATATGTAAA
Found at i:15742440 original size:16 final size:16
Alignment explanation
Indices: 15742419--15742454 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15742409 ACCATATATA
*
15742419 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
15742435 AATAATAATATAAAAT
1 AATAATAATATAAAAT
15742451 AATA
1 AATA
15742455 TATTTAAAAC
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:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:15757006 original size:59 final size:59
Alignment explanation
Indices: 15756914--15757032 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
15756904 TTTCTCGTCG
*
15756914 TGACGTCGAGCTTTATCTCGTCGGGATGTCACTTACTGTTTTGTCTGAAATGCGAGGCA
1 TGACGTCGAGCTTTATCTCATCGGGATGTCACTTACTGTTTTGTCTGAAATGCGAGGCA
15756973 TGACGTCGAGCTTTATCTCATCGGGATGTCACTTACTGTTTTGTCTGAAATGCGAGGCA
1 TGACGTCGAGCTTTATCTCATCGGGATGTCACTTACTGTTTTGTCTGAAATGCGAGGCA
15757032 T
1 T
15757033 ACTCCACAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (59 bp):
TGACGTCGAGCTTTATCTCATCGGGATGTCACTTACTGTTTTGTCTGAAATGCGAGGCA
Found at i:15761790 original size:39 final size:39
Alignment explanation
Indices: 15761736--15761813 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
15761726 TTAAATGCGA
15761736 GACATACTCCACATGTATATAGAGAGAGAAATATCTAAC
1 GACATACTCCACATGTATATAGAGAGAGAAATATCTAAC
15761775 GACATACTCCACATGTATATAGAGAGAGAAATATCTAAC
1 GACATACTCCACATGTATATAGAGAGAGAAATATCTAAC
15761814 TTGACTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (39 bp):
GACATACTCCACATGTATATAGAGAGAGAAATATCTAAC
Found at i:15764131 original size:20 final size:20
Alignment explanation
Indices: 15764106--15764143 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15764096 TTTTATTGCT
*
15764106 AAATTTTATTATTGGGTTGA
1 AAATTTTAGTATTGGGTTGA
15764126 AAATTTTAGTATTGGGTT
1 AAATTTTAGTATTGGGTT
15764144 TTATTGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
AAATTTTAGTATTGGGTTGA
Found at i:15764436 original size:20 final size:20
Alignment explanation
Indices: 15764411--15764450 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15764401 AATCAACTTA
15764411 ATATTTTCTACATTAAGTGT
1 ATATTTTCTACATTAAGTGT
15764431 ATATTTTCTACATTAAGTGT
1 ATATTTTCTACATTAAGTGT
15764451 TTTAACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
ATATTTTCTACATTAAGTGT
Found at i:15765422 original size:3 final size:3
Alignment explanation
Indices: 15765404--15765460 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
15765394 AAGAAAGATG
* *
15765404 ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15765452 ATA ATA ATA
1 ATA ATA ATA
15765461 GGGGCAAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15766991 original size:534 final size:533
Alignment explanation
Indices: 15765947--15767014 Score: 1696
Period size: 534 Copynumber: 2.0 Consensus size: 533
15765937 AACACCGGCC
15765947 AAAACGGCACCGTTCAGTCCTATCTATATAAATCAATTTTTTTATTTCAAAAACTTCATTCTACT
1 AAAACGGCACCGTTCAGTCCTATCTATATAAATCAATTTTTTTATTTCAAAAACTTCATTCTACT
*
15766012 TAGGTTATTAAAAAAACTTTAAAACCCTATATTTTTCTCTCAGCCTTTCTCTTAGTCTAGCCTTT
66 TAGGTTATTAAAAAAACTTTAAAACCCTATATTTTTCTCTCAGCCTCTCTCTTAGTCTAGCCTTT
* * *
15766077 GAGCCATTGTGGGCCACTGTGGTGGCCACCGGTCACCAGCAACGGCAGTCGCTGCCTCTGGTGGT
131 GAGCCAGTCTGGGCCACTGTGGTGGCCACCGGTCACCAGCAACGGCAGTCGCTACCTCTGGTGGT
* *
15766142 CGGAATCCAAAAAATCCTTTTTTTAGCCTCGTTTTAACCCTTTTTTTAACTTTTTAAAACCTTTT
196 CGAAATCCAAAAAATCCTCTTTTTAGCCTCGTTTTAACCCTTTTTTTAACTTTTTAAAACCTTTT
*
15766207 TCACCCTGATTTGAAGTAAAAATGAAGAAAAATCAAAAAATGTTTAAGAAATCTTTCGGTTTCTC
261 TCACCCTGATTTGAAGTAAAAATGAAGAAAAATCAAAAAATGTTTAAGAAACCTTTCGGTTTCTC
* *
15766272 CTCCACCAAAGATACTATCTGTAATAACCCAAAATTCATGGGCATCGAAAAAATACAATATCGGG
326 CTCCACCAAAGATACTATCTGTAATAACCCAAAATTCACGAGCATCGAAAAAATACAATATCGGG
** * *
15766337 CCTCTGTCTTAGTAAACCGAGTTCGTAAATAATTATTAGGAATAATTGTAAGTCTAGTAGTATGT
391 CCTCCATCTTAGTAAACCAAGTTCGTAAATAATTATTAGGAATAACTGTAAGTCTAGTAGTATGT
15766402 TTAATTAGGCTTTAATTAAGTGAAATTAGCTCAATTTAGAGAAAATAGTAAAAATGACTAAATTG
456 TTAATTAGGCTTTAATTAAGTGAAATTAGCTCAATTTAGAGAAAATAGTAAAAATGACTAAATTG
15766467 AATAAGGGGTAAA
521 AATAAGGGGTAAA
* * * **
15766480 AAAACGGCACCGTTCAGTCTTGTCTATATAAATCAATTTTTTTTTTTTGTAAAACTTCATTCTAC
1 AAAACGGCACCGTTCAGTCCTATCTATATAAATCAA-TTTTTTTATTTCAAAAACTTCATTCTAC
* * *
15766545 TTAGGTTTTTTAAAAAAAACTTTAAAACCTTATATTTTTCTCTCAGCCTCTCTCTTAGTCTGGCC
65 TTAGG-TTATT-AAAAAAACTTTAAAACCCTATATTTTTCTCTCAGCCTCTCTCTTAGTCTAGCC
* * * * *
15766610 TTTGAG-CAGTCTGGGCCACTGTGGTGGCCACTGGTCACCAGCGACGGTAGTCGTTACCTCTGTT
128 TTTGAGCCAGTCTGGGCCACTGTGGTGGCCACCGGTCACCAGCAACGGCAGTCGCTACCTCTGGT
15766674 GG-CTGAAATCCAAAAAATACC-CTTTTTAGCCTCGTTTTAACCC-TTTTTTAACTTTTTAAAAC
193 GGTC-GAAATCCAAAAAAT-CCTCTTTTTAGCCTCGTTTTAACCCTTTTTTTAACTTTTTAAAAC
* *
15766736 CTTTTTCACCCTGATTTGAAGTAAAAATGATGAAAAATCAGAAAATGTTTAAGAAACCTTTCGGT
256 CTTTTTCACCCTGATTTGAAGTAAAAATGAAGAAAAATCAAAAAATGTTTAAGAAACCTTTCGGT
* * * * * *
15766801 TTCTCCTCCTCCAACGATACTATCTGTAATGACCCAAAATTTACGAGTATCGAAAAAGTACAATA
321 TTCTCCTCCACCAAAGATACTATCTGTAATAACCCAAAATTCACGAGCATCGAAAAAATACAATA
* * *
15766866 TTGGGCCTCCATCTTAGTAAACCAAGTTCGTAAATCATTATTAGGAATAACTGTGAGTCTAGTAG
386 TCGGGCCTCCATCTTAGTAAACCAAGTTCGTAAATAATTATTAGGAATAACTGTAAGTCTAGTAG
* *
15766931 TGTGTTTAATTTA-GCTTTAATTAAGTGAAATTAGTTCAATTTAGAGAAAATAGTAAAAATGACT
451 TATGTTTAA-TTAGGCTTTAATTAAGTGAAATTAGCTCAATTTAGAGAAAATAGTAAAAATGACT
15766995 AAATTGAATAAGGGGTAAA
515 AAATTGAATAAGGGGTAAA
15767014 A
1 A
15767015 GTTGAATTAT
Statistics
Matches: 490, Mismatches: 39, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
533 34 0.07
534 305 0.62
535 93 0.19
536 58 0.12
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (533 bp):
AAAACGGCACCGTTCAGTCCTATCTATATAAATCAATTTTTTTATTTCAAAAACTTCATTCTACT
TAGGTTATTAAAAAAACTTTAAAACCCTATATTTTTCTCTCAGCCTCTCTCTTAGTCTAGCCTTT
GAGCCAGTCTGGGCCACTGTGGTGGCCACCGGTCACCAGCAACGGCAGTCGCTACCTCTGGTGGT
CGAAATCCAAAAAATCCTCTTTTTAGCCTCGTTTTAACCCTTTTTTTAACTTTTTAAAACCTTTT
TCACCCTGATTTGAAGTAAAAATGAAGAAAAATCAAAAAATGTTTAAGAAACCTTTCGGTTTCTC
CTCCACCAAAGATACTATCTGTAATAACCCAAAATTCACGAGCATCGAAAAAATACAATATCGGG
CCTCCATCTTAGTAAACCAAGTTCGTAAATAATTATTAGGAATAACTGTAAGTCTAGTAGTATGT
TTAATTAGGCTTTAATTAAGTGAAATTAGCTCAATTTAGAGAAAATAGTAAAAATGACTAAATTG
AATAAGGGGTAAA
Found at i:15767317 original size:29 final size:30
Alignment explanation
Indices: 15767283--15767341 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
15767273 ACTTATTTAC
* *
15767283 TTTTTATT-AAAGTAAATAGATATTTATTA
1 TTTTTATTAAAAGTAAAAAGATAGTTATTA
*
15767312 TTTTTATTAAAATTAAAAAGATAGTTATTA
1 TTTTTATTAAAAGTAAAAAGATAGTTATTA
15767342 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (30 bp):
TTTTTATTAAAAGTAAAAAGATAGTTATTA
Found at i:15768006 original size:20 final size:20
Alignment explanation
Indices: 15767981--15768026 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
15767971 GAAGAGAAAT
15767981 AAAGTATAAATTGAGTTAGA
1 AAAGTATAAATTGAGTTAGA
15768001 AAAGTATAAATTGAGTTAGA
1 AAAGTATAAATTGAGTTAGA
15768021 AAAGTA
1 AAAGTA
15768027 AATGAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (20 bp):
AAAGTATAAATTGAGTTAGA
Found at i:15768056 original size:17 final size:18
Alignment explanation
Indices: 15768034--15768069 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15768024 GTAAATGAGT
15768034 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
15768051 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
15768069 A
1 A
15768070 TAGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:15768243 original size:15 final size:14
Alignment explanation
Indices: 15768224--15768270 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
15768214 ATTATTATAA
15768224 TTTAAGTTATTTAT
1 TTTAAGTTATTTAT
*
15768238 TATTAAG-TATTAAT
1 T-TTAAGTTATTTAT
*
15768252 TTTAAATTTATTTAT
1 TTT-AAGTTATTTAT
15768267 TTTA
1 TTTA
15768271 TAGAAGCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 2 0.07
14 11 0.41
15 14 0.52
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTAAGTTATTTAT
Found at i:15780251 original size:44 final size:44
Alignment explanation
Indices: 15780203--15780794 Score: 189
Period size: 44 Copynumber: 12.9 Consensus size: 44
15780193 TGCAGGAACT
*
15780203 GTAGTTTCAATCTACTCCACTGGAACTTCAGGGAGATAAGATTC
1 GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
15780247 GTAGTTTCGATCTGCTCCACTGCTACTTCAGGGAGATAAGATTT
1 GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* ** * * * *
15780291 GTAGTTGTAGCTTGAATTTGTTCCACTGCAATTTTAGGAAAATAAGACTTGC
1 GTAGTT-T--C---AATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT-C
* * * *
15780343 TATGTTAGATTT-AATTCGAC-CCACTGCAACTTCAAAGG-TATAAGATTT
1 ---G-TAG-TTTCAA-TCTACTCCACTGCAACTTC-AGGGAGATAAGATTC
* * * ** *
15780391 GTCGCTTCAATCTGCTCCACTGCAACTTCAGTTAGATAAGATTT
1 GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
15780435 GTAGCTTCAATCTGCTTCA-TAGCAACTTCAGGGAGATAAGATTT
1 GTAGTTTCAATCTACTCCACT-GCAACTTCAGGGAGATAAGATTC
* * * * * * * * *
15780479 GTAACTTT-AATTTGCTCCACTGTAGCTTCAAGTAGGTAATATTTGTAAC
1 GT-AGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA--T-T--C
* ** *
15780528 TTGTAGCTTT-AATTTGTTCCACTGCAACTTCAGGGAAATAAGACTTGC
1 --GTAG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT-C
* * * * * *
15780576 TATGGTAGATTT-AATCTGAC-CTACTGCTACTTTAGAGG-TATAGGATTT
1 ----GTAG-TTTCAATCT-ACTCCACTGCAACTTCAG-GGAGATAAGATTC
* * * * * *
15780624 GTTGCTTCAATCTGCTCCACTGCAGCTTCAGCGAGATAAGATTT
1 GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * *
15780668 GTAGCTTT-AATCTGCTCTACTGCAACTTTAAGGAGATAAGATTT
1 GTAG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * * *
15780712 GTAGCTTGAATCTGCTCCACTACAACTTCAAGGAGATAAGATTT
1 GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
15780756 GTAGCTTT-AATATGCTCCACTGCAACTTTAAGGAGATAA
1 GTAG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
15780795 AATTTGTTAT
Statistics
Matches: 415, Mismatches: 94, Indels: 78
0.71 0.16 0.13
Matches are distributed among these distances:
43 13 0.03
44 264 0.64
45 10 0.02
46 1 0.00
47 2 0.00
48 1 0.00
49 5 0.01
50 75 0.18
51 37 0.09
55 1 0.00
56 4 0.01
57 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (44 bp):
GTAGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC
Found at i:15780477 original size:88 final size:89
Alignment explanation
Indices: 15780363--15780783 Score: 363
Period size: 88 Copynumber: 4.6 Consensus size: 89
15780353 TTAATTCGAC
* * * *
15780363 CCACTGCAACTTCAAAGG-TATAAGATTTGTCGCTTCAATCTGCTCCACTGCAACTTCAGTTA-G
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAG-TAGG
15780426 -ATAAGATTTGTAGCTTCAATCTGCT
64 TATAAGATTTGTAGCTTCAATCTGCT
* * * * *
15780451 TCA-TAGCAACTTCAGGGAGATAAGATTTGTAACTTTAATTTGCTCCACTGTAGCTTCAAGTAGG
1 CCACT-GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTC-AGTAGG
* * * * *
15780515 TAATATTTGTAACTTGTAGCTTTAATTTGTT
64 T-ATA--AG--ATTTGTAGCTTCAATCTGCT
* * * * *
15780546 CCACTGCAACTTCAGGGAAATAAGACTTGCTATGGTAGATTTAATCTGAC-CTACTGCTACTTTA
1 CCACTGCAACTTCAGGGAGATAAGA--T--T-T-GTAGCTTTAATCTG-CTCCACTGCAACTTCA
* *
15780610 G-AGGTATAGGATTTGTTGCTTCAATCTGCT
59 GTAGGTATAAGATTTGTAGCTTCAATCTGCT
* * * * *
15780640 CCACTGCAGCTTCAGCGAGATAAGATTTGTAGCTTTAATCTGCTCTACTGCAACTTTA--AGGAG
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGTAGG-T
*
15780703 ATAAGATTTGTAGCTTGAATCTGCT
65 ATAAGATTTGTAGCTTCAATCTGCT
* * *
15780728 CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTTAATATGCTCCACTGCAACTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTT
15780784 TAAGGAGATA
Statistics
Matches: 268, Mismatches: 45, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
87 8 0.03
88 142 0.53
89 4 0.01
90 1 0.00
91 3 0.01
92 1 0.00
93 1 0.00
94 37 0.14
95 37 0.14
96 2 0.01
97 1 0.00
98 3 0.01
99 5 0.02
100 3 0.01
101 19 0.07
102 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (89 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGTAGGTA
TAAGATTTGTAGCTTCAATCTGCT
Found at i:15780617 original size:233 final size:231
Alignment explanation
Indices: 15780202--15780758 Score: 708
Period size: 233 Copynumber: 2.4 Consensus size: 231
15780192 GTGCAGGAAC
* * * * * * *
15780202 TGTAGTTTCAATCTACTCCACTGGAACTTCAGGGAGATAAGATTCGT-AGTTTCGATCTGCTCCA
1 TGTAGCTTCAATCTGCTCTAC-GCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCTCCA
* * * *
15780266 CTGCTACTTCAGGGAGATAAGATTTGTAGTTGTAGCTTGAATTTGTTCCACTGCAATTTTAGGAA
64 CTGCTACTTCAAGGAGATAAGATTTGTACTTGTAGCTTGAATTTGTTCCACTGCAACTTCAGGAA
*
15780331 AATAAGACTTGCTATGTTAGATTTAATTCGACCCACTGCAACTTCAAAGGTATAAGATTTGTCGC
129 AATAAGACTTGCTATGGTAGATTTAATTCGACCCACTGCAACTTCAAAGGTATAAGATTTGTCGC
**
15780396 TTCAATCTGCTCCACTGCAACTTCAGTTAGATAAGATT
194 TTCAATCTGCTCCACTGCAACTTCAGCGAGATAAGATT
*
15780434 TGTAGCTTCAATCTGCTTCATA-GCAACTTCAGGGAGATAAGATTTGTAACTTTAATTTGCTCCA
1 TGTAGCTTCAATCTGC-TC-TACGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCCA
* * * *
15780498 CTG-TAGCTTCAAGTAGGTAATATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTTCAGG
64 CTGCTA-CTTCAAGGAGATAAGATTTGT-ACTTGTAGCTTGAATTTGTTCCACTGCAACTTCAGG
* * * * * *
15780562 GAAATAAGACTTGCTATGGTAGATTTAA-TCTGACCTACTGCTACTTTAGAGGTATAGGATTTGT
127 AAAATAAGACTTGCTATGGTAGATTTAATTC-GACCCACTGCAACTTCAAAGGTATAAGATTTGT
* *
15780626 TGCTTCAATCTGCTCCACTGCAGCTTCAGCGAGATAAGATT
191 CGCTTCAATCTGCTCCACTGCAACTTCAGCGAGATAAGATT
* * * * *
15780667 TGTAGCTTTAATCTGCTCTACTGCAACTTTAAGGAGATAAGATTTGTAGCTTGAATCTGCTCCAC
1 TGTAGCTTCAATCTGCTCTAC-GCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCCAC
* *
15780732 TACAACTTCAAGGAGATAAGATTTGTA
65 TGCTACTTCAAGGAGATAAGATTTGTA
15780759 GCTTTAATAT
Statistics
Matches: 278, Mismatches: 38, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
231 4 0.01
232 71 0.26
233 201 0.72
234 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (231 bp):
TGTAGCTTCAATCTGCTCTACGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCCACT
GCTACTTCAAGGAGATAAGATTTGTACTTGTAGCTTGAATTTGTTCCACTGCAACTTCAGGAAAA
TAAGACTTGCTATGGTAGATTTAATTCGACCCACTGCAACTTCAAAGGTATAAGATTTGTCGCTT
CAATCTGCTCCACTGCAACTTCAGCGAGATAAGATT
Found at i:15780800 original size:44 final size:44
Alignment explanation
Indices: 15780528--15780801 Score: 266
Period size: 44 Copynumber: 6.1 Consensus size: 44
15780518 TATTTGTAAC
* * * * *
15780528 TTGTAGCTTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGA--T
* * * * *
15780574 GCTATGGTAGATTTAATCTGAC-CTACTGCTACTTTAGAGG-TATAGGAT
1 --T-T-GTAGCTTTAATCTG-CTCCACTGCAACTTTA-AGGAGATAAGAT
* * * *
15780622 TTGTTGCTTCAATCTGCTCCACTGCAGC-TTCAGCGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAG-GAGATAAGAT
*
15780666 TTGTAGCTTTAATCTGCTCTACTGCAACTTTAAGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGAT
* * *
15780710 TTGTAGCTTGAATCTGCTCCACTACAACTTCAAGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGAT
* *
15780754 TTGTAGCTTTAATATGCTCCACTGCAACTTTAAGGAGATAAAAT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGAT
15780798 TTGT
1 TTGT
15780802 TATATCAAAT
Statistics
Matches: 186, Mismatches: 32, Indels: 20
0.78 0.13 0.08
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 141 0.76
45 5 0.03
46 1 0.01
48 2 0.01
49 1 0.01
50 28 0.15
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTTAAGGAGATAAGAT
Found at i:15788719 original size:55 final size:55
Alignment explanation
Indices: 15788655--15788784 Score: 172
Period size: 55 Copynumber: 2.4 Consensus size: 55
15788645 CCTGTGTTGT
* * * * *
15788655 TTTGGCAGGTTCGCCCACGGTTTCTTGGCACGGGCATGTCGCACGCTCGTGTTAA
1 TTTGGCAGGTTCGCCCACGGTTTCTAGGCACGCGCATGTCGCACGCCCATATTAA
* **
15788710 TTTGACAGGTTCAG-CCACGGTTTCTAGGCACGCGCATGTCGCACGCCCATATTGT
1 TTTGGCAGGTTC-GCCCACGGTTTCTAGGCACGCGCATGTCGCACGCCCATATTAA
15788765 TTTGGCAGGTTCGCCCACGG
1 TTTGGCAGGTTCGCCCACGG
15788785 CTATGTTGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 1 0.02
55 62 0.97
56 1 0.02
ACGTcount: A:0.15, C:0.28, G:0.29, T:0.28
Consensus pattern (55 bp):
TTTGGCAGGTTCGCCCACGGTTTCTAGGCACGCGCATGTCGCACGCCCATATTAA
Found at i:15797827 original size:6 final size:6
Alignment explanation
Indices: 15797816--15797878 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
15797806 AATCCTCCTA
* * *
15797816 TTTTAT TTTTAT TTTTAT TTATT-T ATTTTAT TCTTAT TTTTCT TTTGAT
1 TTTTAT TTTTAT TTTTAT TT-TTAT -TTTTAT TTTTAT TTTTAT TTTTAT
*
15797865 TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TT
15797879 CAATTTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
6 42 0.89
7 5 0.11
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:15800787 original size:13 final size:13
Alignment explanation
Indices: 15800766--15800798 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15800756 TTTACTTAAA
*
15800766 TTAGTTAATTAGT
1 TTAGATAATTAGT
15800779 TTAGATAATTAGT
1 TTAGATAATTAGT
15800792 TTA-ATAA
1 TTAGATAA
15800799 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:15801510 original size:12 final size:13
Alignment explanation
Indices: 15801485--15801513 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15801475 AGGGAAAAAG
15801485 AAAAATTAGTAAT
1 AAAAATTAGTAAT
15801498 AAAAATTAG-AAT
1 AAAAATTAGTAAT
15801510 AAAA
1 AAAA
15801514 TTAACTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAATTAGTAAT
Found at i:15806872 original size:23 final size:23
Alignment explanation
Indices: 15806842--15806900 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
15806832 TGTCCCGAGT
*
15806842 ACACGGGCGTGTGCCCTGCCTCC
1 ACACGGGCGTGTGCCCTACCTCC
15806865 ACACGGGCGTGTGCCCTACCTCC
1 ACACGGGCGTGTGCCCTACCTCC
* *
15806888 AAACGGGCATGTG
1 ACACGGGCGTGTG
15806901 AGGCTTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.15, C:0.37, G:0.31, T:0.17
Consensus pattern (23 bp):
ACACGGGCGTGTGCCCTACCTCC
Found at i:15807273 original size:25 final size:25
Alignment explanation
Indices: 15807245--15807295 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15807235 GATCATATCG
15807245 AGATTGGATCTATTCTACTTCATCT
1 AGATTGGATCTATTCTACTTCATCT
*
15807270 AGATTGGATCTATTCTGCTTCATCT
1 AGATTGGATCTATTCTACTTCATCT
15807295 A
1 A
15807296 ACTTCAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (25 bp):
AGATTGGATCTATTCTACTTCATCT
Found at i:15808752 original size:17 final size:16
Alignment explanation
Indices: 15808730--15808761 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15808720 ACATCATATT
15808730 CTCTAAAGCTCGTAATC
1 CTCTAAAGCTC-TAATC
15808747 CTCTAAAGCTCTAAT
1 CTCTAAAGCTCTAAT
15808762 GGCTAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (16 bp):
CTCTAAAGCTCTAATC
Found at i:15814706 original size:43 final size:43
Alignment explanation
Indices: 15814627--15814784 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
15814617 TAATGTCATA
* * * * *
15814627 TCCCAGATATGGTTTTACATGTTATCACATA-TCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACA-ACACGATGCCAATG
* *
15814670 TCCCAGACAGGGTCTTATATGTAATCA-ATTA-ACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACA--ACACGATGCCAATG
** *
15814713 TCCCAGACATGGTCTTACGCGTAATCACAACACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAACACGATGCCAATG
15814756 TCCCAGACATGGTCTTACATGTAATCACA
1 TCCCAGACATGGTCTTACATGTAATCACA
15814785 TCTCAATAAC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 95 0.97
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACAACACGATGCCAATG
Done.