Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 107 of 126
Found at i:32559361 original size:41 final size:41
Alignment explanation
Indices: 32559284--32559361 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32559274 TTTGTATCTC
* * *
32559284 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32559325 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32559362 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32567082 original size:40 final size:40
Alignment explanation
Indices: 32567034--32567181 Score: 269
Period size: 40 Copynumber: 3.7 Consensus size: 40
32567024 GCAAACACAT
* * *
32567034 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
32567074 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
32567114 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
32567154 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
32567182 TCCAATGCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:32575886 original size:31 final size:31
Alignment explanation
Indices: 32575851--32575916 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
32575841 CTATTTATGT
* * * *
32575851 AGGTTGGCCGAATGTGGGGGTTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
32575882 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
32575913 AGGT
1 AGGT
32575917 GCATGCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (31 bp):
AGGTTAGCCGAATGTGGAGATCCATTTAGCA
Found at i:32577174 original size:21 final size:20
Alignment explanation
Indices: 32577114--32577174 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
32577104 ATATATATGA
*
32577114 AATTAAAAAAAAGTGAATTG-A
1 AATTAAAAAAAAGTG--TTGTG
*
32577135 AATTAAAAAAAA-T-TCGTG
1 AATTAAAAAAAAGTGTTGTG
32577153 AATTAAAAAAAAGGTGTTGTG
1 AATTAAAAAAAA-GTGTTGTG
32577174 A
1 A
32577175 TTCAAGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 2 0.06
18 12 0.36
20 2 0.06
21 17 0.52
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.26
Consensus pattern (20 bp):
AATTAAAAAAAAGTGTTGTG
Found at i:32579277 original size:20 final size:20
Alignment explanation
Indices: 32579254--32579298 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
32579244 GTGAAAATAC
*
32579254 AAAAGAAAAGAACAA-TGAAA
1 AAAAGAAAAGAA-AACTCAAA
32579274 AAAAG-AAAGAAAACTCAAA
1 AAAAGAAAAGAAAACTCAAA
32579293 AAAAGA
1 AAAAGA
32579299 GAGTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.09
19 15 0.68
20 5 0.23
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAGAAAACTCAAA
Found at i:32579312 original size:15 final size:14
Alignment explanation
Indices: 32579290--32579339 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
32579280 AAGAAAACTC
32579290 AAAA-AAAGAGAGTG
1 AAAAGAAAGAGA-TG
*
32579304 AAAAGAAAGCGA-G
1 AAAAGAAAGAGATG
*
32579317 AAAAGAAAAAGATG
1 AAAAGAAAGAGATG
32579331 AAAAAGAAA
1 -AAAAGAAA
32579340 AAGTGAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 11 0.37
14 5 0.17
15 14 0.47
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (14 bp):
AAAAGAAAGAGATG
Found at i:32584872 original size:20 final size:20
Alignment explanation
Indices: 32584849--32584900 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
32584839 AATCAAGTGC
*
32584849 AAATAATTTTAACCAAGTCA
1 AAATAATTTTAACAAAGTCA
* * * *
32584869 AAATGATTTCAATAAAGTTA
1 AAATAATTTTAACAAAGTCA
*
32584889 AAATCATTTTAA
1 AAATAATTTTAA
32584901 AATGATTTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (20 bp):
AAATAATTTTAACAAAGTCA
Found at i:32587617 original size:20 final size:20
Alignment explanation
Indices: 32587592--32587642 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
32587582 GGTAATTTGG
**
32587592 TATCGATACCAGTTTAAAAA
1 TATCGATACCAGTGGAAAAA
*
32587612 TATCGACACTC-GTGGAAAAA
1 TATCGATAC-CAGTGGAAAAA
32587632 TATCGATACCA
1 TATCGATACCA
32587643 CTGAGGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (20 bp):
TATCGATACCAGTGGAAAAA
Found at i:32589123 original size:15 final size:16
Alignment explanation
Indices: 32589103--32589132 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32589093 CTTACCCTTT
32589103 ATTTTCAT-ACATTTC
1 ATTTTCATAACATTTC
32589118 ATTTTCATAACATTT
1 ATTTTCATAACATTT
32589133 ACACCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTCATAACATTTC
Found at i:32598894 original size:20 final size:20
Alignment explanation
Indices: 32598828--32598897 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
32598818 GCCAATAACA
32598828 CACCAGT-TTGTGGACAAGC
1 CACCAGTATTGTGGACAAGC
* * *
32598847 CACCAGAATTGTAGACAAGT
1 CACCAGTATTGTGGACAAGC
** * *
32598867 TGCTAGTATTATGGACAAGC
1 CACCAGTATTGTGGACAAGC
32598887 CACCAGTATTG
1 CACCAGTATTG
32598898 CAGATATACT
Statistics
Matches: 36, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (20 bp):
CACCAGTATTGTGGACAAGC
Found at i:32598911 original size:40 final size:40
Alignment explanation
Indices: 32598838--32598954 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
32598828 CACCAGTTTG
* *
32598838 TGGACAAGCCACCAGAATTGTAGACAAGTTGCTAGTATTA
1 TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTATTA
* * *
32598878 TGGACAAGCCACCAGTATTGCAGATATA-CTGCTAGTATTG
1 TGGACAAGCCACCAGAATTGCAGACA-AGCTGCTAGTATTA
** * * *
32598918 CAGACAAGCCACCAGAATTGCAAACAAACTGCCAGTA
1 TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTA
32598955 CTTCTGTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 62 0.97
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
TGGACAAGCCACCAGAATTGCAGACAAGCTGCTAGTATTA
Found at i:32599098 original size:38 final size:38
Alignment explanation
Indices: 32599022--32599111 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
32599012 CAGAAACAAT
* * *
32599022 ATAGTATGCATGATTAAAAATACGCGATCAGTGGCAGAA
1 ATAGTAGGCATGATTAAAAATA-GAGATCAATGGCAGAA
32599061 ATAGTAGGCATGATTAAAACAT-GAGATCAATGGCAGAA
1 ATAGTAGGCATGATTAAAA-ATAGAGATCAATGGCAGAA
*
32599099 ATAGTAGACATGA
1 ATAGTAGGCATGA
32599112 ATTGTCATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 26 0.57
39 18 0.39
40 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.22
Consensus pattern (38 bp):
ATAGTAGGCATGATTAAAAATAGAGATCAATGGCAGAA
Found at i:32600705 original size:35 final size:35
Alignment explanation
Indices: 32600666--32600751 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
32600656 GTGACTATGA
32600666 TATATAGGTCCTTCGAGGCAAAACCATGTAAATAG-
1 TATATAGGTCCTTCGAGGCAAAACCATGTAAAT-GT
* * ** * *
32600701 TATATAGGTTCTTCGGGGTGACACCTTGTAAATGT
1 TATATAGGTCCTTCGAGGCAAAACCATGTAAATGT
*
32600736 TATATAGTTCCTTCGA
1 TATATAGGTCCTTCGA
32600752 AGTGACACCA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.02
35 40 0.98
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (35 bp):
TATATAGGTCCTTCGAGGCAAAACCATGTAAATGT
Found at i:32600757 original size:35 final size:35
Alignment explanation
Indices: 32600688--32600766 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
32600678 TCGAGGCAAA
**
32600688 ACCATGTAAATAGTATATAGGTTCTTCGGGGTGAC
1 ACCATGTAAATAGTATATAGGTTCTTCGAAGTGAC
*
32600723 ACCTTGTAAAT-GTTATATA-GTTCCTTCGAAGTGAC
1 ACCATGTAAATAG-TATATAGGTT-CTTCGAAGTGAC
32600758 ACCATGTAA
1 ACCATGTAA
32600767 GCGGTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.11
35 34 0.89
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (35 bp):
ACCATGTAAATAGTATATAGGTTCTTCGAAGTGAC
Found at i:32600775 original size:35 final size:35
Alignment explanation
Indices: 32600688--32600776 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
32600678 TCGAGGCAAA
** **
32600688 ACCATGTAAATAGTATATAGGTTCTTCGGGGTGAC
1 ACCATGTAAACGGTATATAGGTTCTTCGAAGTGAC
* * *
32600723 ACCTTGTAAATGTTATATA-GTTCCTTCGAAGTGAC
1 ACCATGTAAACGGTATATAGGTT-CTTCGAAGTGAC
*
32600758 ACCATGTAAGCGGTATATA
1 ACCATGTAAACGGTATATA
32600777 AGTCCTACAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.07
35 41 0.93
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (35 bp):
ACCATGTAAACGGTATATAGGTTCTTCGAAGTGAC
Found at i:32602689 original size:26 final size:26
Alignment explanation
Indices: 32602660--32602721 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
32602650 ACATATTTTC
*
32602660 TCAAAATTTTACCAATGGCAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
* * * *
32602686 TCAAAATTTTACTAGGGGTAAATTCA
1 TCAAAATTTTACCAAGGGCAAAATCA
32602712 TCAAAATTTT
1 TCAAAATTTT
32602722 TCTGGAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:32602734 original size:26 final size:26
Alignment explanation
Indices: 32602679--32602734 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
32602669 TACCAATGGC
*
32602679 AAAA-TCATCAAAATTTTACTAGGGG
1 AAAATTCATCAAAATTTTACTAGGAG
* *
32602704 TAAATTCATCAAAATTTTTCT-GGAAG
1 AAAATTCATCAAAATTTTACTAGG-AG
32602730 AAAAT
1 AAAAT
32602735 AGGGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (26 bp):
AAAATTCATCAAAATTTTACTAGGAG
Found at i:32603124 original size:36 final size:36
Alignment explanation
Indices: 32603077--32603149 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
32603067 GAGAGATTGT
32603077 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
1 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
32603113 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
1 TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
32603149 T
1 T
32603150 ATTATATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (36 bp):
TTTTTTATCGAAAAATAGAGAGAATTTATTCTCAAC
Found at i:32606724 original size:23 final size:23
Alignment explanation
Indices: 32606693--32606743 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
32606683 ACCTACTTTC
* * *
32606693 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
32606716 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
32606739 TTACA
1 TTACA
32606744 ACATACTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:32607434 original size:40 final size:40
Alignment explanation
Indices: 32607379--32607469 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
32607369 ATATTAAATA
** *
32607379 TCTTACTGTTATACCTATGGGCACGTCTCGTACTTCCTAG
1 TCTTACTGTTATACCTATGCACACGTCTCGTACTTACTAG
*
32607419 TCTTAGTGTTATACCTATGCACACGTCTCGTACTTACTAG
1 TCTTACTGTTATACCTATGCACACGTCTCGTACTTACTAG
*
32607459 TCTTACCGTTA
1 TCTTACTGTTA
32607470 GCTTTTAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.38
Consensus pattern (40 bp):
TCTTACTGTTATACCTATGCACACGTCTCGTACTTACTAG
Found at i:32607876 original size:26 final size:26
Alignment explanation
Indices: 32607844--32607913 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
32607834 TTAGAAAATG
*
32607844 CCACAAAGGCTTCCATTTCAGATACA
1 CCACAAAGGCTTCCATTTCAAATACA
**
32607870 CCACAAAGGCTTCCATTTCAAATATG
1 CCACAAAGGCTTCCATTTCAAATACA
* *
32607896 CCACAAATGCTTTCATTT
1 CCACAAAGGCTTCCATTT
32607914 TCTAGCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (26 bp):
CCACAAAGGCTTCCATTTCAAATACA
Found at i:32613393 original size:31 final size:31
Alignment explanation
Indices: 32613358--32613423 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
32613348 CTATTTATGT
* * * *
32613358 AGGTTGGCCGAATGTGGGGGTTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
32613389 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATCCATTTAGCA
32613420 AGGT
1 AGGT
32613424 GCATGCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (31 bp):
AGGTTAGCCGAATGTGGAGATCCATTTAGCA
Found at i:32616037 original size:94 final size:95
Alignment explanation
Indices: 32615863--32616037 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 95
32615853 ATTCTCATGC
* * *
32615863 CACACTTATCTTATAAATAAATGTCAATTTCTTCATTATTTTTATTTAAAAAGTTCATTTTAATC
1 CACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTAAAAAGTTAATTTTAATC
* *
32615928 CCAGATTGACTAAAGAGCACTCTTATATCT
66 CCACATTGACCAAAGAGCACTCTTATATCT
* * *
32615958 CACATTTACCTTATAAATAAGTGTCAATTTCTTCGTTAGTTTTA-TTAAAAAGTTAATTTTAATC
1 CACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTAAAAAGTTAATTTTAATC
*
32616022 CTACATTGACCAAAGA
66 CCACATTGACCAAAGA
32616038 ATACTCTCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 32 0.45
95 39 0.55
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (95 bp):
CACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTAAAAAGTTAATTTTAATC
CCACATTGACCAAAGAGCACTCTTATATCT
Found at i:32616044 original size:94 final size:95
Alignment explanation
Indices: 32615848--32616053 Score: 265
Period size: 94 Copynumber: 2.2 Consensus size: 95
32615838 CAATGGCTAG
* * *
32615848 AGAACATTCTCAT-GC-CACACTTATCTTATAAATAAATGTCAATTTCTTCATTATTTTTATTTA
1 AGAACACTCTCATAGCTCACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTA
* * *
32615911 AAAAGTTCATTTTAATCCCAGATTGACTAA
66 AAAAGTTAATTTTAATCCCACATTGACCAA
* * * * * *
32615941 AGAGCACTCTTATATCTCACATTTACCTTATAAATAAGTGTCAATTTCTTCGTTAGTTTTA-TTA
1 AGAACACTCTCATAGCTCACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTA
*
32616005 AAAAGTTAATTTTAATCCTACATTGACCAA
66 AAAAGTTAATTTTAATCCCACATTGACCAA
*
32616035 AGAATACTCTCATAGCTCA
1 AGAACACTCTCATAGCTCA
32616054 ATTATTCACT
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
93 10 0.11
94 45 0.48
95 39 0.41
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (95 bp):
AGAACACTCTCATAGCTCACACTTACCTTATAAATAAATGTCAATTTCTTCATTAGTTTTATTTA
AAAAGTTAATTTTAATCCCACATTGACCAA
Found at i:32616624 original size:67 final size:69
Alignment explanation
Indices: 32616505--32616659 Score: 165
Period size: 67 Copynumber: 2.3 Consensus size: 69
32616495 TGTCAATTTC
* * * *
32616505 TTCATTATTTTCACTAAAAAATTAATTTTAATCCCACATTGAATAGAGAATACTCGAATAGCTCA
1 TTCAATATTTTTAATAAAAAATTAATTTTAATCCCACATTGAATAGACAATACTCGAATAGCTCA
32616570 CTT-
66 CTTA
* * * * ***
32616573 TTCACTATTTTTAATAAAAAA-TAATTTTGATCTCGCATT-AACTAGACAATACTTTCATAGCTC
1 TTCAATATTTTTAATAAAAAATTAATTTTAATCCCACATTGAA-TAGACAATACTCGAATAGCTC
32616636 ACTTA
65 ACTTA
*
32616641 TTCAATA-TTTTCATAAAAA
1 TTCAATATTTTTAATAAAAA
32616660 TAAGTTTAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
66 2 0.03
67 47 0.64
68 24 0.33
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (69 bp):
TTCAATATTTTTAATAAAAAATTAATTTTAATCCCACATTGAATAGACAATACTCGAATAGCTCA
CTTA
Found at i:32616759 original size:249 final size:250
Alignment explanation
Indices: 32616286--32616832 Score: 624
Period size: 249 Copynumber: 2.2 Consensus size: 250
32616276 TATAAATAAG
** * * **
32616286 CACATTGACGAGAGGATACTCTAATAGTTCATCTTTTCACTATTTTTATTATAAAAGTTAATTTT
1 CACATTGAATAGAGAATACTCTAATAGCTCA-CTTTTCACTATTTTTA-TATAAAAAATAATTTT
* * * *
32616351 AATCCCACATTGACTAGAAAGTACTCTCAGAGCTCACTTCTTCACTGTTTTCATTAAAAATTAAT
64 AATCCCACATTAACTAGAAAGTACTCTCAGAGCTCACTTATTCAATATTTTCATTAAAAATTAAT
* ** ** *
32616416 TTTAACTCCTTAAAAAGTTAATCTTAATATTACATTGGTTAGAGAACACTCTCCTACTCACACTT
129 TTAAACTCCTTAAAAAGTTAATCTTAATACCACATTGACTAGAGAACACTCTCATACTCACACTT
*
32616481 ACTGTAAAAATAACTGTCAATTTCTTCATTATTTTCACTAAAAAATTAATTTTAATCC
194 ACTCTAAAAATAAC-GTCAATTTCTTCATTATTTTCACTAAAAAATTAATTTTAATCC
* *
32616539 CACATTGAATAGAGAATACTCGAATAGCTCACTTTTCACTATTTTTA-ATAAAAAATAATTTTGA
1 CACATTGAATAGAGAATACTCTAATAGCTCACTTTTCACTATTTTTATATAAAAAATAATTTTAA
* * * *
32616603 TCTCGCATTAACTAGACAA-TACTTTCATAGCTCACTTATTCAATATTTTCA-TAAAAA-TAAGT
66 TCCCACATTAACTAGA-AAGTACTCTCAGAGCTCACTTATTCAATATTTTCATTAAAAATTAA-T
* * * *
32616665 TTAAAC-CCTTAAAAAATTTAATTTTAATCCCACATTTACTAGAGAACACTCTCATACTCACACT
129 TTAAACTCCTT-AAAAAGTTAATCTTAATACCACATTGACTAGAGAACACTCTCATACTCACACT
* * * *
32616729 TA-TCCTATAAATAA-GTACTAATTTCTTCATTGTTTTCATTAAAAAGTTAATTTTAATCC
193 TACT-CTAAAAATAACGT-C-AATTTCTTCATTATTTTCACTAAAAAATTAATTTTAATCC
* * * *
32616788 CACATT-AACTAGAAAATACTCTCATGGCTCACTTCTTTACTATTT
1 CACATTGAA-TAGAGAATACTCTAATAGCTCACTT-TTCACTATTT
32616833 CCATTAAGAG
Statistics
Matches: 250, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
247 2 0.01
248 11 0.04
249 130 0.52
250 63 0.25
251 2 0.01
252 16 0.06
253 26 0.10
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (250 bp):
CACATTGAATAGAGAATACTCTAATAGCTCACTTTTCACTATTTTTATATAAAAAATAATTTTAA
TCCCACATTAACTAGAAAGTACTCTCAGAGCTCACTTATTCAATATTTTCATTAAAAATTAATTT
AAACTCCTTAAAAAGTTAATCTTAATACCACATTGACTAGAGAACACTCTCATACTCACACTTAC
TCTAAAAATAACGTCAATTTCTTCATTATTTTCACTAAAAAATTAATTTTAATCC
Found at i:32618856 original size:3 final size:3
Alignment explanation
Indices: 32618848--32618875 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32618838 CACCAGGTAT
32618848 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32618876 CTGTAACCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32627197 original size:20 final size:21
Alignment explanation
Indices: 32627172--32627217 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
32627162 TGCATAATAG
32627172 AGGCACCAAAT-TGC-AGACAA
1 AGGCACCAAATGTGCAAG-CAA
32627192 AGGCA-CAAATGTGCAAGCAA
1 AGGCACCAAATGTGCAAGCAA
32627212 AGGCAC
1 AGGCAC
32627218 GAAGTGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.22
20 16 0.70
21 2 0.09
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.09
Consensus pattern (21 bp):
AGGCACCAAATGTGCAAGCAA
Found at i:32627274 original size:20 final size:20
Alignment explanation
Indices: 32627202--32627327 Score: 82
Period size: 20 Copynumber: 6.3 Consensus size: 20
32627192 AGGCACAAAT
* *
32627202 GTGCAAGCAAAGGCAC-GAA
1 GTGCAAACAGAGGCACTGAA
32627221 GTGCAAACAGAGGCA-TGAA
1 GTGCAAACAGAGGCACTGAA
* *
32627240 TGTGC-GACCGAAGGCACTGAA
1 -GTGCAAACAG-AGGCACTGAA
32627261 GTGCAAACAGAGGCAC-GAA
1 GTGCAAACAGAGGCACTGAA
* ** * *
32627280 TATGTGATCAGAGGCA-TCAAA
1 -GTGCAAACAGAGGCACT-GAA
* *
32627301 GTGCAAACAGTGGCACCGAA
1 GTGCAAACAGAGGCACTGAA
32627321 GTGCAAA
1 GTGCAAA
32627328 TCTCATACAA
Statistics
Matches: 80, Mismatches: 18, Indels: 17
0.70 0.16 0.15
Matches are distributed among these distances:
19 22 0.28
20 49 0.61
21 9 0.11
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
GTGCAAACAGAGGCACTGAA
Found at i:32627295 original size:40 final size:40
Alignment explanation
Indices: 32627211--32627316 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
32627201 TGTGCAAGCA
* * *
32627211 AAGGCAC-GAAGTGCAAACAGAGGCATGAATGTGCGACCG
1 AAGGCACTGAAGTGCAAACAGAGGCACGAATATGCGACAG
*
32627250 AAGGCACTGAAGTGCAAACAGAGGCACGAATATGTGATCAG
1 AAGGCACTGAAGTGCAAACAGAGGCACGAATATGCGA-CAG
* *
32627291 -AGGCA-TCAAAGTGCAAACAGTGGCAC
1 AAGGCACT-GAAGTGCAAACAGAGGCAC
32627317 CGAAGTGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 8 0.14
40 48 0.83
41 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (40 bp):
AAGGCACTGAAGTGCAAACAGAGGCACGAATATGCGACAG
Found at i:32630247 original size:34 final size:36
Alignment explanation
Indices: 32630162--32630250 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
32630152 ATTATACCGA
* *
32630162 TAATCCAACCGAAAGACACCAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAGATGCTCATAAGAGC
*
32630198 TAATCCATCCAAAACACACCA-ATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAGATGCTCATAAGAGC
32630233 T-ATCCATCCGAAACACAC
1 TAATCCATCCGAAACACAC
32630251 AAAAATAGAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 16 0.33
35 15 0.31
36 18 0.37
ACGTcount: A:0.42, C:0.31, G:0.11, T:0.16
Consensus pattern (36 bp):
TAATCCATCCGAAACACACCAGATGCTCATAAGAGC
Found at i:32633650 original size:18 final size:18
Alignment explanation
Indices: 32633627--32633664 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32633617 CAATTTCAAG
*
32633627 TTGAGTTAAAACTGGAGC
1 TTGAGTCAAAACTGGAGC
*
32633645 TTGAGTCAAAATTGGAGC
1 TTGAGTCAAAACTGGAGC
32633663 TT
1 TT
32633665 CGATTAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (18 bp):
TTGAGTCAAAACTGGAGC
Found at i:32637989 original size:29 final size:30
Alignment explanation
Indices: 32637930--32637987 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
32637920 TCCGAGCCTT
*
32637930 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
32637960 GGGGC-AAAATCGTAATTTTGAAAAAGTT
1 GGGGCAAAAAT-GTAATTATGAAAAAGTT
32637988 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:32638401 original size:50 final size:50
Alignment explanation
Indices: 32638324--32638466 Score: 214
Period size: 50 Copynumber: 2.8 Consensus size: 50
32638314 ATTTGGGTAA
*
32638324 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
32638374 AGAGGTCCCATGTAAGACCATGCCTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** * *
32638424 AGTACATCCCATGCAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32638467 TGTTATGATC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 49 0.59
51 34 0.41
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:32642398 original size:15 final size:15
Alignment explanation
Indices: 32642369--32642411 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
32642359 CCTTAAAAGA
*
32642369 GATAAC-TATTTTAT
1 GATAACATATTATAT
32642383 GATAACATATTATAT
1 GATAACATATTATAT
32642398 GATAACATATTATA
1 GATAACATATTATA
32642412 ATTTCCTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (15 bp):
GATAACATATTATAT
Found at i:32647740 original size:8 final size:8
Alignment explanation
Indices: 32647729--32647755 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
32647719 AGTTAGCAAC
32647729 TTAGTTAA
1 TTAGTTAA
32647737 TTAGTTAA
1 TTAGTTAA
32647745 TTAGTTAA
1 TTAGTTAA
32647753 TTA
1 TTA
32647756 AGTTTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
TTAGTTAA
Found at i:32649422 original size:17 final size:17
Alignment explanation
Indices: 32649400--32649432 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32649390 GAAAAAAAAG
32649400 AAAAAAATTGAAATTAA
1 AAAAAAATTGAAATTAA
*
32649417 AAAAAAATTGCAATTA
1 AAAAAAATTGAAATTA
32649433 CAATTCTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAAAATTGAAATTAA
Found at i:32649422 original size:19 final size:18
Alignment explanation
Indices: 32649380--32649423 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
32649370 CTAGGATTGT
*
32649380 AAAAAATATTGAAAAAAA
1 AAAAAAAATTGAAAAAAA
*
32649398 AGAAAAAAATTGAAATTAAA
1 A-AAAAAAATTGAAA-AAAA
32649418 AAAAAA
1 AAAAAA
32649424 TTGCAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 17 0.77
20 4 0.18
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (18 bp):
AAAAAAAATTGAAAAAAA
Found at i:32657375 original size:114 final size:114
Alignment explanation
Indices: 32657234--32657455 Score: 417
Period size: 114 Copynumber: 1.9 Consensus size: 114
32657224 ATTATTTATC
* *
32657234 TTTATCTAACATTAACGAAAATTTGCCTAGTGTGTTTTAGTCTCTTTTGCAGGATTATGAGGATG
1 TTTATCTAACATTAACGAAAATTTGCCTAGTGTGTTTCAATCTCTTTTGCAGGATTATGAGGATG
*
32657299 TTTTTAGTGAGGCCCCTAAAGGTTTACCATCTTTACGAGGGATTGAGCT
66 TTTTTAGTGAGGCCCCTAAAGGTTTACCACCTTTACGAGGGATTGAGCT
32657348 TTTATCTAACATTAACGAAAATTTGCCTAGTGTGTTTCAATCTCTTTTGCAGGATTATGAGGATG
1 TTTATCTAACATTAACGAAAATTTGCCTAGTGTGTTTCAATCTCTTTTGCAGGATTATGAGGATG
32657413 TTTTTAGTGAGGCCCCTAAAGGTTTACCACCTTTACGAGGGAT
66 TTTTTAGTGAGGCCCCTAAAGGTTTACCACCTTTACGAGGGAT
32657456 AGAACATCAA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (114 bp):
TTTATCTAACATTAACGAAAATTTGCCTAGTGTGTTTCAATCTCTTTTGCAGGATTATGAGGATG
TTTTTAGTGAGGCCCCTAAAGGTTTACCACCTTTACGAGGGATTGAGCT
Found at i:32665756 original size:5 final size:5
Alignment explanation
Indices: 32665746--32665780 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
32665736 CACCGGCCTC
*
32665746 TCCCT TCCCT TCCCT TCCTT TCCCT TCCCT TCCCT
1 TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT
32665781 CTATTTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (5 bp):
TCCCT
Found at i:32665918 original size:6 final size:6
Alignment explanation
Indices: 32665909--32665997 Score: 55
Period size: 6 Copynumber: 15.3 Consensus size: 6
32665899 CATTTTTAGT
* *
32665909 TTTTTC TTTTTA -TTTTA -TTTTA -TTTTA -TTTTA CTTTATTA TTCTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTT-TTA TTTTTA
* * * *
32665955 TTATT- TTTTTA TTGTTA TTTTGTA -TTTTA TATTTA TTCTTA TT
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TT
32665998 ATAATTATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
5 26 0.38
6 33 0.49
7 6 0.09
8 3 0.04
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:32665931 original size:10 final size:10
Alignment explanation
Indices: 32665916--32665997 Score: 69
Period size: 10 Copynumber: 7.7 Consensus size: 10
32665906 AGTTTTTTCT
32665916 TTTTATTTTA
1 TTTTATTTTA
32665926 TTTTATTTTA
1 TTTTATTTTA
*
32665936 TTTTACTTTA
1 TTTTATTTTA
32665946 --TTATTCTTA
1 TTTTATT-TTA
*
32665955 TTATTTTTTTA
1 TT-TTATTTTA
32665966 TTGTTATTTTGTA
1 TT-TTA-TTT-TA
32665979 TTTTATATTTA
1 TTTTAT-TTTA
32665990 TTCTTATT
1 TT-TTATT
32665998 ATAATTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 19 0.32
11 13 0.22
12 16 0.27
13 4 0.07
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:32665991 original size:41 final size:40
Alignment explanation
Indices: 32665921--32665999 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 40
32665911 TTTCTTTTTA
*
32665921 TTTTATTTTATTTTATTTTACTTTATTATTCTTATTATTT
1 TTTTATTTTATTTTATTTTACTATATTATTCTTATTATTT
32665961 TTTTATTGTTATTTTGTATTTTA-TAT-TTATTCTTATTAT
1 TTTTATT-TTA-TTT-TATTTTACTATATTATTCTTATTAT
32666000 AATTATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
40 7 0.20
41 16 0.46
42 5 0.14
43 7 0.20
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (40 bp):
TTTTATTTTATTTTATTTTACTATATTATTCTTATTATTT
Found at i:32665997 original size:50 final size:45
Alignment explanation
Indices: 32665915--32666009 Score: 118
Period size: 50 Copynumber: 2.0 Consensus size: 45
32665905 TAGTTTTTTC
**
32665915 TTTTTATTTTATTTTATTTTATTTTACTTTATTATTCTTATTATT
1 TTTTTATTTTATTTTATTTTATTTTACTTTATTATAATTATTATT
*
32665960 TTTTTATTGTTATTTTGTATTTTATATTTATTCTTATTATAATTATTATT
1 TTTTTATT-TTA-TTT-TATTTTAT-TTTACT-TTATTATAATTATTATT
32666010 GTCTTTAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 8 0.19
46 3 0.07
47 3 0.07
48 8 0.19
49 5 0.12
50 15 0.36
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (45 bp):
TTTTTATTTTATTTTATTTTATTTTACTTTATTATAATTATTATT
Found at i:32667097 original size:24 final size:23
Alignment explanation
Indices: 32667065--32667110 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
32667055 TTTATTTGTT
* *
32667065 TTATTTTTATTTTTATGTTTCTTC
1 TTATGTTTATTGTTAT-TTTCTTC
32667089 TTATGTTTATTGTTATTTTCTT
1 TTATGTTTATTGTTATTTTCTT
32667111 AGACTCGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.74
Consensus pattern (23 bp):
TTATGTTTATTGTTATTTTCTTC
Found at i:32676115 original size:26 final size:26
Alignment explanation
Indices: 32676084--32676136 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
32676074 GTGGTATTGA
*
32676084 ATTACCTGATTTCTAAAATGATGAAT
1 ATTACCTGATTTCGAAAATGATGAAT
32676110 ATTACCTGATTTCGAAAATGATGAAT
1 ATTACCTGATTTCGAAAATGATGAAT
32676136 A
1 A
32676137 CTGTTCCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (26 bp):
ATTACCTGATTTCGAAAATGATGAAT
Found at i:32680688 original size:25 final size:25
Alignment explanation
Indices: 32680631--32680693 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
32680621 TGAGTTGTAG
*
32680631 ATCGGTACGCTCTCATAAGCTATAA
1 ATCGGTATGCTCTCATAAGCTATAA
* * *
32680656 GTCAGTATGCTCTCATGAGCTATAA
1 ATCGGTATGCTCTCATAAGCTATAA
*
32680681 ATTGGTATGCTCT
1 ATCGGTATGCTCT
32680694 AACAAGTGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (25 bp):
ATCGGTATGCTCTCATAAGCTATAA
Found at i:32691364 original size:48 final size:48
Alignment explanation
Indices: 32691308--32691408 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
32691298 CTATTTGTGA
* *
32691308 ACAAGCCACCACACAGATA-CTGATAAATAGTCAAATAACACATCGTGG
1 ACAAGCCACCACACAGATATC-GATAAACAGTCAAATAACACATCGCGG
* * **
32691356 ACAAGCCACCACATAGATATCGATAAACGGTCGTATAACACATCGCGG
1 ACAAGCCACCACACAGATATCGATAAACAGTCAAATAACACATCGCGG
32691404 ACAAG
1 ACAAG
32691409 AAACCACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.16
Consensus pattern (48 bp):
ACAAGCCACCACACAGATATCGATAAACAGTCAAATAACACATCGCGG
Found at i:32697513 original size:41 final size:41
Alignment explanation
Indices: 32697467--32697547 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
32697457 AAAGAAAGAA
** * *
32697467 AAAAGACAATTTTTTGTGTTTAGTAGAAGAGAAAATAAAAC
1 AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAAC
* *
32697508 AAAAGAGAACATTTTGTGTTTACTAGGAGAGAAAACAAAA
1 AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAA
32697548 ATTGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (41 bp):
AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAAC
Found at i:32706208 original size:102 final size:100
Alignment explanation
Indices: 32706025--32706227 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 100
32706015 TTTCCCCTTG
32706025 GCCGAATGTTCTAAGGAAGAAAGAAAAACAAGTTGTGTTTTTTTTGGTTCTTCTTGGCCGGATTG
1 GCCGAATGTTCTAAGGAAGAAAGAAAAACAAGTTGTGTTTTTTTTGGTTCTTCTTGGCCGGATTG
32706090 AAAGAAAGAATTGGGGCAAAAACATTCGGTCACTT
66 AAAGAAAGAATTGGGGCAAAAACATTCGGTCACTT
32706125 GCCGAATGTTCTAAGGAAGAAAGAAAAACAAGTTGTGTTTTTTTTTTGGTTCTTCTTGGCCGGAT
1 GCCGAATGTTCTAAGGAAGAAAGAAAAACAAGTTGTG--TTTTTTTTGGTTCTTCTTGGCCGGAT
32706190 TGAAAGAAAGAATTGGGGCAAAAACATTCGGTCACTT
64 TGAAAGAAAGAATTGGGGCAAAAACATTCGGTCACTT
32706227 G
1 G
32706228 AAGCTTGAGA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 37 0.37
102 64 0.63
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (100 bp):
GCCGAATGTTCTAAGGAAGAAAGAAAAACAAGTTGTGTTTTTTTTGGTTCTTCTTGGCCGGATTG
AAAGAAAGAATTGGGGCAAAAACATTCGGTCACTT
Found at i:32706312 original size:61 final size:61
Alignment explanation
Indices: 32706247--32706369 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
32706237 AAGGGGGGGG
*
32706247 ATGGGTGAAGAAAACTAAGTGTTCATTTTTGTTTCTTCTAAGCCGAAGGTGAAGGAAGAAT
1 ATGGGTGAAGAAAACTAAGTGTTCATCTTTGTTTCTTCTAAGCCGAAGGTGAAGGAAGAAT
32706308 ATGGGTGAAGAAAACTAAGTGTTCATCTTTGTTTCTTCTAAGCCGAAGGTGAAGGAAGAAT
1 ATGGGTGAAGAAAACTAAGTGTTCATCTTTGTTTCTTCTAAGCCGAAGGTGAAGGAAGAAT
32706369 A
1 A
32706370 GGGGAGAAAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (61 bp):
ATGGGTGAAGAAAACTAAGTGTTCATCTTTGTTTCTTCTAAGCCGAAGGTGAAGGAAGAAT
Found at i:32707523 original size:27 final size:27
Alignment explanation
Indices: 32707492--32707669 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
32707482 TAAATTGTAC
32707492 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
32707519 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32707545 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32707573 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32707601 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32707628 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32707655 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32707670 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32707633 original size:82 final size:81
Alignment explanation
Indices: 32707493--32707648 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
32707483 AAATTGTACA
* *
32707493 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
32707558 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
32707574 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
32707638 GTGCGAGTTGA
64 GTGCGAATTGA
32707649 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32707660 original size:82 final size:81
Alignment explanation
Indices: 32707489--32707669 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
32707479 GATTAAATTG
* *
32707489 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
32707554 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
32707570 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
32707634 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32707652 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32707670 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32712547 original size:22 final size:23
Alignment explanation
Indices: 32712513--32712557 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
32712503 CATATAAGCA
32712513 TTCAACTAAACAT-CATTATAAG
1 TTCAACTAAACATCCATTATAAG
* *
32712535 TTCACCTATACATGCCATTATAA
1 TTCAACTAAACAT-CCATTATAA
32712558 CCTTGGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
TTCAACTAAACATCCATTATAAG
Found at i:32713699 original size:17 final size:17
Alignment explanation
Indices: 32713677--32713731 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
32713667 TCTAATTGCC
32713677 AATTGATACCTTTAACT
1 AATTGATACCTTTAACT
*
32713694 AATTGA-A-CTTCATAGCT
1 AATTGATACCTT--TAACT
32713711 AATTGATACCTTTAACT
1 AATTGATACCTTTAACT
32713728 AATT
1 AATT
32713732 TTATGCCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 24 0.75
18 1 0.03
19 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.40
Consensus pattern (17 bp):
AATTGATACCTTTAACT
Found at i:32716716 original size:8 final size:8
Alignment explanation
Indices: 32716703--32716728 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32716693 AGGAAAGGTC
32716703 TTGATATT
1 TTGATATT
32716711 TTGATATT
1 TTGATATT
32716719 TTGATATT
1 TTGATATT
32716727 TT
1 TT
32716729 ATGCTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (8 bp):
TTGATATT
Found at i:32731730 original size:29 final size:29
Alignment explanation
Indices: 32731698--32731937 Score: 173
Period size: 29 Copynumber: 8.3 Consensus size: 29
32731688 GGTCGTCACC
32731698 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * ** * *
32731727 ATCCCTTTTAATAATCAATTTCGGAAACT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
32731756 ATCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * * * *
32731785 ATCCTTTTTTATATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
* * * * * * *
32731814 GTCCCTTTTCATAGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
*
32731843 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* *
32731872 ATCCCTTTTCATATTCGATAACCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * *
32731901 ACCCCTTTTTATATTTGATA-CTCGAAGCT
1 ATCCCTTTTCATAATCGATAGC-CGAAGCT
32731930 A-CCCTTTT
1 ATCCCTTTT
32731938 TCATTGGTCA
Statistics
Matches: 170, Mismatches: 38, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
28 9 0.05
29 160 0.94
30 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:32731821 original size:87 final size:87
Alignment explanation
Indices: 32731636--32731890 Score: 210
Period size: 87 Copynumber: 2.9 Consensus size: 87
32731626 GATAATCATA
* * * * * *** *
32731636 ACCGTCCCTTTTCATATTCAATGGTCAAAACCATCCATTTTCATTAATCGATGGTCGTCA-CCAT
1 ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCA-TAATCGATAG-CCAAAGCTAT
* * * *
32731700 CCCTTTTCATAATCGATAGCCG-A
64 CCCTTTTCATATTCGATGGTCGTC
** * * * *
32731723 AGCTATCCCTTTTAATAATCAAT-TTCGGAAACTATCCTTTTTCATAATCGATAGCCGAAGCTAT
1 A-CCGTCCCTTTTAATAATCAATGGTC-GAAACCATCCCTTTTCATAATCGATAGCCAAAGCTAT
* *
32731787 CCTTTTTTATATTCGATGGTCGTC
64 CCCTTTTCATATTCGATGGTCGTC
* * ** **
32731811 ACCGTCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
1 ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
32731876 CTTTTCATATTCGAT
66 CTTTTCATATTCGAT
32731891 AACCGAAGCT
Statistics
Matches: 130, Mismatches: 33, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
86 2 0.02
87 94 0.72
88 34 0.26
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (87 bp):
ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
CTTTTCATATTCGATGGTCGTC
Found at i:32731823 original size:58 final size:58
Alignment explanation
Indices: 32731680--32731826 Score: 188
Period size: 58 Copynumber: 2.5 Consensus size: 58
32731670 CCATTTTCAT
32731680 TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
1 TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
* * ** * * * *
32731738 TAATCAAT-TTCGGAAACTATCCTTTTTCATAATCGATAGCCGAAGCTATCCTTTTTTA
1 TAATCGATGGTC-GTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
* *
32731796 TATTCGATGGTCGTCACCGTCCCTTTTCATA
1 TAATCGATGGTCGTCACCATCCCTTTTCATA
32731827 GTTGATGGTC
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
57 2 0.03
58 67 0.94
59 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (58 bp):
TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
Found at i:32731847 original size:116 final size:116
Alignment explanation
Indices: 32731683--32731915 Score: 281
Period size: 116 Copynumber: 2.0 Consensus size: 116
32731673 TTTTCATTAA
* **
32731683 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAATAATCAATTT
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCCATCCCTTTTAATAATCAATAG
* * * * *
32731748 CGGAAA-CTATCCTTTTTCATAATCGATAGCCGAAGCTATCCTTTTTTATAT
66 C-CAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
* * * * * * * *
32731799 TCGATGGTCGTCACCGTCCCTTTTCATAGTTGATGGTCGTCA-CCATCCCTTTTCATAATCGATA
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCG-AAGCCATCCCTTTTAATAATCAATA
*
32731863 GCCAAAGCTATCCCTTTTCATATTCGATAACCGAAGCTACCCCTTTTTATAT
65 GCCAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
32731915 T
1 T
32731916 TGATACTCGA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
115 3 0.03
116 94 0.96
117 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.36
Consensus pattern (116 bp):
TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCCATCCCTTTTAATAATCAATAG
CCAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
Found at i:32731907 original size:87 final size:86
Alignment explanation
Indices: 32731698--32731919 Score: 205
Period size: 87 Copynumber: 2.5 Consensus size: 86
32731688 GGTCGTCACC
* ** * * *
32731698 ATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAATAATCAATTTCGGAAACTATCCTTT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTA-CCCTTTTAATAATTGATGTCGGAAACCATCCCTT
*
32731763 TTCATAATCGATAGCCGAAGCT
65 TTCATAATCGATAGCCAAAGCT
* * * * * * * * **
32731785 ATCCTTTTTTATATTCGATGGTCGTCACCGT-CCCTTTTCATAGTTGATGGTC-GTCACCATCCC
1 ATCCCTTTTCATATTCGATAGCCG-AAGC-TACCCTTTTAATAATTGAT-GTCGGAAACCATCCC
32731848 TTTTCATAATCGATAGCCAAAGCT
63 TTTTCATAATCGATAGCCAAAGCT
* * *
32731872 ATCCCTTTTCATATTCGATAACCGAAGCTACCCCTTTTTATATTTGAT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTA-CCCTTTTAATAATTGAT
32731920 ACTCGAAGCT
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
85 1 0.01
86 2 0.02
87 96 0.92
88 4 0.04
89 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (86 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCTACCCTTTTAATAATTGATGTCGGAAACCATCCCTTT
TCATAATCGATAGCCAAAGCT
Found at i:32739562 original size:18 final size:19
Alignment explanation
Indices: 32739529--32739567 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
32739519 TTTTATAAAT
32739529 TGTGAATTATATTTG-ATA
1 TGTGAATTATATTTGAATA
32739547 TGTGAATTA-ATATTGAATA
1 TGTGAATTATAT-TTGAATA
32739566 TG
1 TG
32739568 GAACAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (19 bp):
TGTGAATTATATTTGAATA
Found at i:32739820 original size:23 final size:23
Alignment explanation
Indices: 32739793--32739874 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
32739783 AGTGTTATTG
** *
32739793 ATCAGTGGTAGCTTTGCCTACAT
1 ATCAGTGGTAGCTACGACTACAT
*
32739816 CTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
* *
32739839 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGACTACAT
32739862 ATCAGTGGTAGCT
1 ATCAGTGGTAGCT
32739875 TCAGTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGACTACAT
Found at i:32739906 original size:16 final size:17
Alignment explanation
Indices: 32739885--32739918 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32739875 TCAGTTAGGG
*
32739885 GCAAAAGT-TTAATTTT
1 GCAAAAGTATGAATTTT
32739901 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
32739918 G
1 G
32739919 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:32741136 original size:219 final size:220
Alignment explanation
Indices: 32740749--32741181 Score: 674
Period size: 219 Copynumber: 2.0 Consensus size: 220
32740739 CATTGAAATG
32740749 TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
1 TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
* * *
32740814 GTTTTTTTTATAATCGGAAGCTCAATTGGTTTGGAAGTTTGTCGAAGATCTATCACACTATCCAG
66 G-TTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAG
* * *
32740879 TGAATATATTGTTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTGTG
130 TGAATACATTGGTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTATG
*
32740944 TTTAATGGTCTTGTTGATAGGTGGAC
195 TTTAATGATCTTGTTGATAGGTGGAC
* * * * *
32740970 TTAAGTTATATTCATGATTTAC-TAACTTACTAATCATTATATGCTTACGTAGTTTTCTTTCTCA
1 TTAAGGTATATTCATGATTTACGT-ACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCA
* * * *
32741034 TG-TTTTTTATAATCGGAAGCTCGATTAGTTTTGATGCTCGTCGGAGATCTATCACACTATCCAG
65 TGTTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAG
32741098 TGAATACATTGGTA-GTTTTTGATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTAT
130 TGAATACATTGGTAGGTTTTT-ATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTAT
32741162 GTTTAATGATCTTGTTGATA
194 GTTTAATGATCTTGTTGATA
32741182 TGGTTAGCAT
Statistics
Matches: 194, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
218 6 0.03
219 128 0.66
220 1 0.01
221 59 0.30
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (220 bp):
TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
GTTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAGT
GAATACATTGGTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTATGT
TTAATGATCTTGTTGATAGGTGGAC
Found at i:32746633 original size:15 final size:15
Alignment explanation
Indices: 32746613--32746646 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32746603 AAAAGTGTCA
32746613 TCTTCTTCAAACTG-T
1 TCTTCTTC-AACTGAT
32746628 TCTTCTTCAACTGAT
1 TCTTCTTCAACTGAT
32746643 TCTT
1 TCTT
32746647 TAAGAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (15 bp):
TCTTCTTCAACTGAT
Found at i:32748341 original size:220 final size:220
Alignment explanation
Indices: 32747945--32748372 Score: 655
Period size: 220 Copynumber: 1.9 Consensus size: 220
32747935 ATTGAAATGG
32747945 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
1 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
** * *
32748010 TTTTTTTAAAATCAGAAGCTCGATAGGTTTGGAAGCTTGTTGGAGATCTATCACACTATCCAACG
66 TTTTTGCAAAATCAGAAGCTCGATAGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAACG
32748075 AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
131 AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
32748140 TAATGATCTTGTTTATAGGTGGAAT
196 TAATGATCTTGTTTATAGGTGGAAT
* * * *
32748165 TAAGTTGTATTCATGATTTATGAACTTACTAAGCATTATATGCTTATGTAGTTTTCTTTCGT-AT
1 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTC-TCAT
* ** *
32748229 -TTTTTGCATAATTGGAAGCTCGATCA-GTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAG
65 GTTTTTGCAAAATCAGAAGCTCGAT-AGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAA
* * * *
32748292 CGAATATATGGGTAGTTTTTTTATGTTTTGGCCAAGGTTATAGTGGCATGTATAGGTGGACTTGT
129 CGAATATATCGATAG-TTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCT
*
32748357 GTTTAATGATCTTGTT
193 ATTTAATGATCTTGTT
32748373 GATATGGTTG
Statistics
Matches: 188, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
219 66 0.35
220 121 0.64
221 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (220 bp):
TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
TTTTTGCAAAATCAGAAGCTCGATAGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAACG
AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
TAATGATCTTGTTTATAGGTGGAAT
Found at i:32755013 original size:14 final size:15
Alignment explanation
Indices: 32754988--32755016 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32754978 AAAATGGTAA
32754988 CTTGGTATGTTTGTG
1 CTTGGTATGTTTGTG
32755003 CTTGG-ATGTTTGTG
1 CTTGGTATGTTTGTG
32755017 GATTGTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.34, T:0.52
Consensus pattern (15 bp):
CTTGGTATGTTTGTG
Found at i:32762949 original size:46 final size:46
Alignment explanation
Indices: 32762879--32763055 Score: 248
Period size: 46 Copynumber: 3.8 Consensus size: 46
32762869 ACAATGCTAT
* * *
32762879 AACTCAGTATGGTTTTCTTCACTGAAGTACCATACCTACTTTTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * * *
32762925 AACTCAGTACGGTTTCCGTTACTGAAATACCATACCTAATTCTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
*
32762971 AACTCAGTACGGTTTTCTTTTCTGAAATACCATACCT-CATTTTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTAC-TTTTCAC
* *
32763017 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTAC
32763056 GTTCGACACT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 113 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:32763798 original size:17 final size:18
Alignment explanation
Indices: 32763752--32763805 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
32763742 TTTACCTATT
*
32763752 AAATTCTTTCTAAATCACA
1 AAATTC-TTCTAATTCACA
*
32763771 AAATTC-ACTAATTCA-A
1 AAATTCTTCTAATTCACA
32763787 AAATTCTTCTAAATTCACA
1 AAATTCTTCT-AATTCACA
32763806 CTTGACCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 6 0.21
19 7 0.24
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTCTTCTAATTCACA
Found at i:32765896 original size:80 final size:79
Alignment explanation
Indices: 32765760--32766016 Score: 250
Period size: 80 Copynumber: 3.2 Consensus size: 79
32765750 TGAATGCTGG
* * * * * * *
32765760 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATTT
*
32765824 GTGCGAGATACTAAAT
64 GTACGAGATACTAAAT
* * *
32765840 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
* **
32765905 TACGAGTTGTTAAAT
65 TACGAGATACTAAAT
* * * * * *
32765920 CCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGA
1 CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTGT
* *
32765985 ACGAGGA-GCTATAT
66 ACGA-GATACTAAAT
*
32765999 CC-GGTTAAATCCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
32766017 TACGTGATTT
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 47 0.32
80 82 0.56
81 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTGT
ACGAGATACTAAAT
Found at i:32765963 original size:39 final size:40
Alignment explanation
Indices: 32765760--32765981 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 40
32765750 TGAATGCTGG
* * * * * *
32765760 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATAT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAAT
** * * *
32765800 CCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAT
*
32765840 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
* **
32765880 CCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTGTTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
* * *
32765920 CCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
* *
32765959 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGCATT
32765982 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.22
40 116 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
Found at i:32765989 original size:79 final size:80
Alignment explanation
Indices: 32765835--32766016 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 80
32765825 TGCGAGATAC
* * *
32765835 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
32765900 ATTCGTACGAGTTGT
66 ATTCGAACGAGTTGT
* * *
32765915 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
* ** *
32765979 ATTTGAACGAGGAGC
66 ATTCGAACGAGTTGT
* *
32765994 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
32766017 TACGTGATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGTTGT
Found at i:32773013 original size:34 final size:36
Alignment explanation
Indices: 32772960--32773026 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
32772950 TAACAGAATT
32772960 GATACATAACAACCATACC-ATTTTGGCCATTTAAA
1 GATACATAACAACCATACCAATTTTGGCCATTTAAA
*
32772995 GATACATTAAC-A-CATACCAATTTTGGTCATTT
1 GATACA-TAACAACCATACCAATTTTGGCCATTT
32773027 CAAAACATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (36 bp):
GATACATAACAACCATACCAATTTTGGCCATTTAAA
Found at i:32790389 original size:79 final size:81
Alignment explanation
Indices: 32790280--32790462 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
32790270 TACTCGTTCA
* *
32790280 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
32790343 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
32790360 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
32790423 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
32790439 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32790463 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:32790462 original size:40 final size:40
Alignment explanation
Indices: 32790259--32790462 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
32790249 CGGAATTTAA
** *
32790259 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32790299 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32790339 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32790378 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
32790418 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32790458 CCGGA
1 CCGGA
32790463 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32793195 original size:40 final size:40
Alignment explanation
Indices: 32793151--32793267 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
32793141 GAATACACGT
* *
32793151 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATATAA
* ** * *
32793191 CACCAGCACGAATT-TTCTTCGGGGTTTAGCACGGATATAT
1 CACCAGCACG-ATTGCTCTTCGGGACTTAGCCCGGATATAA
* * *
32793231 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATA
32793268 CATCACTTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 56 0.92
41 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:32793273 original size:40 final size:40
Alignment explanation
Indices: 32793163--32793274 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
32793153 CCAGCATGAT
* * *
32793163 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** ** *
32793203 TTTTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
32793243 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
32793275 TGTAACACCC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:32794702 original size:39 final size:40
Alignment explanation
Indices: 32794657--32794748 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 40
32794647 GCTCCTCGTT
* *
32794657 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * *
32794697 C-AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
*
32794736 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
32794749 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.76
40 11 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
Found at i:32794761 original size:40 final size:39
Alignment explanation
Indices: 32794662--32794801 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 39
32794652 TCGTTCAAAT
* * * *
32794662 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCACACAAG
* *
32794701 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC-AAG
** * * * * *
32794741 GCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA
1 GCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAG
*
32794781 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
32794802 CAGCATTCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 34 0.42
40 41 0.51
41 6 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCACACAAG
Found at i:32794810 original size:41 final size:41
Alignment explanation
Indices: 32794733--32794810 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32794723 TTAGTATCTC
* * *
32794733 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32794774 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32794811 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32796357 original size:40 final size:40
Alignment explanation
Indices: 32796300--32796577 Score: 230
Period size: 40 Copynumber: 7.0 Consensus size: 40
32796290 TTGGGCTGTC
* *
32796300 ACATCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
32796340 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
32796380 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * * *
32796420 ATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 ACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
** * * *
32796460 TTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAATT
1 ACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG-A-T
* * * * *
32796501 A-GTAACTCGCACAAATGC-CTTC-GGATCTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGAT
** *
32796539 ATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 A-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
32796578 CATCATTCGA
Statistics
Matches: 205, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.02
39 29 0.14
40 151 0.74
41 21 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:32796444 original size:80 final size:78
Alignment explanation
Indices: 32796300--32796576 Score: 272
Period size: 80 Copynumber: 3.5 Consensus size: 78
32796290 TTGGGCTGTC
* * * * * *
32796300 ACATCACTAGCATGAATGCTCTTCAGGACTTAGCCCGG-ATACATCACTAGCACGAATGCTCTTC
1 ACATCACTAGCATCAATGC-CTTCGGGACTTAGCCCGGTATA-GTAACTCGCACAAATGC-CTTC
32796364 GGAACTTAGCCCGGAT
63 GGAACTTAGCCCGGAT
*
32796380 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCG
1 ACATCACTAGCATCAATGC-CTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCG
* *
32796445 GGACTTAACCCGGAT
64 GAACTTAGCCCGGAT
** * * * *
32796460 TTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCG
1 ACA-TCACTAGCATCAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCG
* *
32796524 GATCTTAGTCCGGAT
64 GAACTTAGCCCGGAT
** *
32796539 ATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
1 A-CATCAC-TAGCATCAATGCCTTCGGGACTTAGCCCGG
32796577 ACATCATTCG
Statistics
Matches: 166, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.36
80 77 0.46
81 25 0.15
82 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
ACATCACTAGCATCAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGA
ACTTAGCCCGGAT
Found at i:32798404 original size:39 final size:40
Alignment explanation
Indices: 32798359--32798526 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
32798349 CGGGGTTTAG
* * *
32798359 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
32798398 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
32798438 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
32798478 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
32798519 CCGGATAT
1 CCGGATAT
32798527 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:32798509 original size:41 final size:40
Alignment explanation
Indices: 32798382--32798526 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
32798372 CTCGCACAAG
* * * * *
32798382 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
32798422 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
32798462 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
32798503 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
32798527 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:32800356 original size:49 final size:50
Alignment explanation
Indices: 32800266--32800367 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 50
32800256 CACACAACCA
* * * *
32800266 TGTGGGGCCACATGGGCATGTGGGATTACATGGCAAAATTAGGTAGGTCG
1 TGTGGGGCCACACGGGCATGTGCGATTACAGGGCAAAATTAGGTAGGCCG
*
32800316 TGTGGGG-CACACGGGCCTGTGCGATTACACGGGC-AAATTAGGTAGGCCG
1 TGTGGGGCCACACGGGCATGTGCGATTACA-GGGCAAAATTAGGTAGGCCG
32800365 TGT
1 TGT
32800368 AGGCTAGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 36 0.78
50 10 0.22
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.23
Consensus pattern (50 bp):
TGTGGGGCCACACGGGCATGTGCGATTACAGGGCAAAATTAGGTAGGCCG
Found at i:32801978 original size:42 final size:42
Alignment explanation
Indices: 32801914--32802094 Score: 182
Period size: 42 Copynumber: 4.5 Consensus size: 42
32801904 ATTCATTGGT
*
32801914 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * *
32801956 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * * * *
32801998 GGTTTCTAGGTGTTGATTCC-CCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* *
32802031 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTTAAATGTG-AAAGG
32802075 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
32802095 CCGAATCATT
Statistics
Matches: 112, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
33 19 0.17
34 3 0.03
35 1 0.01
36 2 0.02
37 2 0.02
38 4 0.04
39 2 0.02
40 3 0.03
41 2 0.02
42 54 0.48
44 20 0.18
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
Found at i:32802095 original size:77 final size:75
Alignment explanation
Indices: 32801956--32802131 Score: 235
Period size: 77 Copynumber: 2.3 Consensus size: 75
32801946 ATGTGAAGGG
* * * * *
32801956 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGGGGTTTCTAGGTGTTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
*
32802021 ATTCATTGGT
66 AATCATTGGT
* * *
32802031 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGGGGTTGCTAAGTGCTGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTG-AAAGGGGTTGCTAAGTGCTGATTCCC
32802096 CGAATCATTGGT
64 CGAATCATTGGT
* *
32802108 GGTTGCTAAGTGATGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
32802132 ATAACGGATA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 23 0.26
76 9 0.10
77 55 0.63
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGT
Found at i:32805215 original size:26 final size:29
Alignment explanation
Indices: 32805122--32805248 Score: 86
Period size: 31 Copynumber: 4.3 Consensus size: 29
32805112 TGTATACATT
*
32805122 ATATATAT-T-AGTGGGTGTTATATATATA
1 ATATATATGTGAGTGGTTG-TATATATATA
* * *
32805150 ATATATAAATGGGAG-AGTTGGTAATATACATAA
1 ATATAT--ATGTGAGTGGTT-GT-ATATATAT-A
*
32805183 ATATATATGTGCGT-G-TGT-TATATATA
1 ATATATATGTGAGTGGTTGTATATATATA
*
32805209 ATATATATATGAGTGGGTTGTATATATATA
1 ATATATATGTGAGT-GGTTGTATATATATA
32805239 CATATATATG
1 -ATATATATG
32805249 CGTGAGAGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
26 13 0.17
27 6 0.08
28 7 0.09
29 5 0.07
30 11 0.14
31 17 0.22
32 10 0.13
33 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (29 bp):
ATATATATGTGAGTGGTTGTATATATATA
Found at i:32813548 original size:50 final size:51
Alignment explanation
Indices: 32813426--32813565 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 51
32813416 GATAATAACA
* ** *
32813426 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
* * * * * *
32813477 TGCCCATGCCATGTTCAAGACATGGTCTTATGA-GGGA-CCTCTCATCTCGC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTA-CATGGGATCCTCTCATATCGC
*
32813527 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
32813566 TCTTTACCCA
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 39 0.55
51 30 0.42
52 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (51 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
Found at i:32820044 original size:28 final size:29
Alignment explanation
Indices: 32820013--32820102 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
32820003 AATTGAAAAA
32820013 AAAAAGAAT-TGAGAGA-AAAAGAGAAAT
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
*
32820040 AAAAAGAATGTGAGCGAGAAAAGA-AAAT
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
** * * * *
32820068 TGAAAGAGTTTGAGAAAGAAAA-AGAAAA
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
32820096 AAAAAGA
1 AAAAAGA
32820103 GAAAATGGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.20
28 34 0.68
29 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.23, T:0.11
Consensus pattern (29 bp):
AAAAAGAATGTGAGAGAGAAAAGAGAAAT
Found at i:32824175 original size:3 final size:3
Alignment explanation
Indices: 32824167--32824201 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
32824157 AAATATTTGA
*
32824167 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
32824202 ATGGAGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32824398 original size:12 final size:12
Alignment explanation
Indices: 32824377--32824414 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32824367 TCTTCTTCTT
32824377 CTCCTCCCCCTC
1 CTCCTCCCCCTC
*
32824389 CTCCTTCCCCTC
1 CTCCTCCCCCTC
32824401 C-CGCTCCCCCTC
1 CTC-CTCCCCCTC
32824413 CT
1 CT
32824415 GTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 1 0.05
12 21 0.95
ACGTcount: A:0.00, C:0.71, G:0.03, T:0.26
Consensus pattern (12 bp):
CTCCTCCCCCTC
Found at i:32826300 original size:14 final size:15
Alignment explanation
Indices: 32826281--32826310 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
32826271 ATTAAAAGAC
32826281 ATAATATTT-TTATA
1 ATAATATTTATTATA
32826295 ATAATATTTATTATA
1 ATAATATTTATTATA
32826310 A
1 A
32826311 AAATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATATTTATTATA
Found at i:32828443 original size:124 final size:124
Alignment explanation
Indices: 32828315--32828579 Score: 354
Period size: 124 Copynumber: 2.1 Consensus size: 124
32828305 GTTTCTGGTT
** ** * * * *
32828315 AAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
* * *
32828380 GGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATATTTTTTTTTGACGTTTTCTGAGG
66 GGACGCGATTTCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGAC-ATTTCTGAGC
* * *
32828439 AAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
32828504 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
66 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
* *
32828563 AAACAGTGTCAAATCGC
1 AAATAGTGTAAAATCGC
32828580 GCCCTCGTGG
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
124 95 0.78
125 26 0.21
126 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (124 bp):
AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
Found at i:32831114 original size:94 final size:92
Alignment explanation
Indices: 32830993--32832026 Score: 1189
Period size: 94 Copynumber: 11.3 Consensus size: 92
32830983 AGAGAATGCA
* * * *
32830993 TAAATTAGGTTAGGGTTAGAGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTA
1 TAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGTTTGGGTTTTTAA-TTA
* *
32831058 TTTAAATAGGTTAGGGTTTGGG-TTTTAA-A-T
63 ---AATTAGGTTAGGGTTAGGGTTTTTAATATT
* * * *
32831088 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGTTTGGGTTTTTAATTAAA
* ***
32831153 TTA-ATTA-GGTTAGGG-TTTGGGT-TT
65 TTAGGTTAGGGTTAGGGTTTTTAATATT
* * *
32831177 TTAATTAAATTAGGTTAGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTAGGGTTTTTAATTATT
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTA-GGTTTGGGTTTTT-A--A-T
* *
32831238 TAAATTAAGTTA-GGTTACGGTTTTT-A-ATT
61 TAAATTAGGTTAGGGTTAGGGTTTTTAATATT
* *** ** *
32831267 T-AATTAA-TTAGGTTTGGG-TTTGGGTTT--TTAATTAAATTAGGTTAGGGTTTTTAATTAAAT
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGTTTGGGTTTTTAATTAAAT
32831327 TAGGTTAGGGTTAGGGTTTTTAATTATT
66 TAGGTTAGGGTTAGGGTTTTTAA-TATT
* *
32831355 TAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGG-TTAGGTTTGGGTTTTTAATTAAA
32831420 TTAGGTTAGGGTTAGGGTTTTTAATTATT
65 TTAGGTTAGGGTTAGGGTTTTTAA-TATT
* *
32831449 TAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGG-TTAGGTTTGGGTTTTTAATTAAA
32831514 TTAGGTTAGGGTTAGGGTTTTTAATTATT
65 TTAGGTTAGGGTTAGGGTTTTTAA-TATT
* *
32831543 TAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGG-TTAGGTTTGGGTTTTTAATTAAA
32831608 TTAGGTTAGGGTTAGGGTTTTTAATTATT
65 TTAGGTTAGGGTTAGGGTTTTTAA-TATT
*
32831637 TAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTA-GGTTTGGGTTTTTAATTAAA
32831702 TTAGGTTAGGGTTAGGGTTTTTAATTATT
65 TTAGGTTAGGGTTAGGGTTTTTAA-TATT
32831731 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTA-GGTTTGGGTTTTTAATTAAA
32831796 TTAGGTTAGGGTTAGGGTTTTTAATTATT
65 TTAGGTTAGGGTTAGGGTTTTTAA-TATT
32831825 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATT-AA
1 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTA-GGTTTGGGTTTTTAATTAAA
32831889 --A--TTA-GGTTAGGGTTTTT-A-A-T
65 TTAGGTTAGGGTTAGGGTTTTTAATATT
* * * ** *
32831909 TAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTACGGTTTTTAATTTA
1 TAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGTTTGGGTTTTTAATTAA
* * ***
32831973 ATTA-ATTA-GGTTTGGG-TTTGGGT-TT
64 ATTAGGTTAGGGTTAGGGTTTTTAATATT
* *
32831998 TTAATTAAATTAGGTTAGGGTTTTTAATT
1 TAAATTAAGTTAGGTTAGGGTTTTTAATT
32832027 AAGTAGGGTT
Statistics
Matches: 856, Mismatches: 49, Indels: 74
0.87 0.05 0.08
Matches are distributed among these distances:
84 53 0.06
85 53 0.06
86 2 0.00
87 10 0.01
88 80 0.09
89 69 0.08
90 26 0.03
91 10 0.01
93 13 0.02
94 528 0.62
95 12 0.01
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.49
Consensus pattern (92 bp):
TAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGTTTGGGTTTTTAATTAAAT
TAGGTTAGGGTTAGGGTTTTTAATATT
Found at i:32831197 original size:23 final size:23
Alignment explanation
Indices: 32831166--32831221 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
32831156 ATTAGGTTAG
*
32831166 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831189 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831212 GGTTAGGGTT
1 GGTTAGGGTT
32831222 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:32831218 original size:117 final size:118
Alignment explanation
Indices: 32831068--32832020 Score: 935
Period size: 117 Copynumber: 7.9 Consensus size: 118
32831058 TTTAAATAGG
* *
32831068 TTAGGGTTTGGGTTTTAAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA
32831133 GGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
66 GGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
*
32831186 TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAAGTT
* *
32831249 AGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAA
65 AGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
*
32831303 TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAAGTT
* *
32831366 AGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAATTA
65 AGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATT-AA--A
* *
32831423 GGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTACGGTTTTTAATTTAATT-AATT
1 --TTAGGGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATT
* * * * * *** *
32831487 AGGTTTGGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAG
60 AAG-TTAGGTTAGGGTTTTTAATTTAATTA-ATTA-GGTTAGGG-TTTGGGTT-TTT-AATTAAA
* * * * *
32831552 TTA-GGTTACGGTTTTTAATTTAATTA-ATTAGGTTTGGGTTTGGGTT--TTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAATTAAG
* *** **
32831613 TTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGG
63 TTA-GGTTAGGGTTTTT-A--ATTT-AATTAA-TTAGGTTA-GGGTTTGGGTTT--TTAATTAAA
* *
32831678 TTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTT
1 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAAGTT
32831742 AGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAATTA
65 AGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATT-AA--A
*
32831799 GGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATT-AATT
1 --TTAGGGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATT
* * * **
32831863 AGGTTAGGGTTTGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTT---TTAATTAAATTAGG
60 AAGTTA-GGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTT--TTTAATTAAA
* * *
32831918 TTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAGGTTACGGTTTTTAATTTAATT-AATTAG
1 TTAGGGTTAGGGTTTTT-A--A-TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAA
* *
32831982 GTTTGGGTTTGGGTTTTTAA-TT-A--AATTAGGTTAGGGTTT
62 G-TTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTT
32832021 TTAATTAAGT
Statistics
Matches: 732, Mismatches: 53, Indels: 101
0.83 0.06 0.11
Matches are distributed among these distances:
117 305 0.42
118 28 0.04
119 1 0.00
120 11 0.02
121 21 0.03
122 31 0.04
123 69 0.09
124 5 0.01
125 4 0.01
126 100 0.14
127 120 0.16
128 6 0.01
129 17 0.02
130 5 0.01
131 5 0.01
132 4 0.01
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.49
Consensus pattern (118 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA
GGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
Found at i:32831314 original size:23 final size:23
Alignment explanation
Indices: 32831283--32831338 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
32831273 ATTAGGTTTG
*
32831283 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831306 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831329 GGTTAGGGTT
1 GGTTAGGGTT
32831339 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:32831727 original size:24 final size:26
Alignment explanation
Indices: 32831668--32831933 Score: 97
Period size: 29 Copynumber: 9.0 Consensus size: 26
32831658 TTTTAATTTA
*
32831668 ATTAATTAGGTTAGGGTTTGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
32831695 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
* **
32831724 AATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTT
1 -ATTAATTAGGTT-AG---GGTTAGGG----T--TTT
*
32831761 AATTAATTAGGTTAGGGTTTGGGTTTTT
1 -ATTAATTAGGTTAGGGTTAGGG-TTTT
32831789 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
* **
32831818 AATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTT
1 -ATTAATTAGGTT-AG---GGTTAGGG----T--TTT
*
32831855 AATTAATTAGGTTAGGGTTTGGG-TTT
1 -ATTAATTAGGTTAGGGTTAGGGTTTT
**
32831881 -TTAATTAAATTA-GGTTAGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
32831906 AATTAAATTAGGTTAGGGTTAGGGTTTT
1 -ATT-AATTAGGTTAGGGTTAGGGTTTT
32831934 TAATTATTTA
Statistics
Matches: 191, Mismatches: 21, Indels: 52
0.72 0.08 0.20
Matches are distributed among these distances:
23 7 0.04
24 10 0.05
25 3 0.02
26 3 0.02
27 2 0.01
28 34 0.18
29 66 0.35
30 2 0.01
32 16 0.08
33 14 0.07
35 4 0.02
36 4 0.02
37 26 0.14
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (26 bp):
ATTAATTAGGTTAGGGTTAGGGTTTT
Found at i:32831901 original size:23 final size:23
Alignment explanation
Indices: 32831870--32831925 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
32831860 ATTAGGTTAG
*
32831870 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831893 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
32831916 GGTTAGGGTT
1 GGTTAGGGTT
32831926 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:32832018 original size:23 final size:24
Alignment explanation
Indices: 32831986--32832053 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
32831976 AATTAGGTTT
*
32831986 GGGTTTGGGTTTTTAATTAAATTA
1 GGGTTAGGGTTTTTAATTAAATTA
*
32832010 -GGTTAGGGTTTTTAATT-AAGTA
1 GGGTTAGGGTTTTTAATTAAATTA
* *
32832032 GGGTTAGGGATTTTAATCAAAT
1 GGGTTAGGGTTTTTAATTAAAT
32832054 AATGTCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 31 0.84
24 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (24 bp):
GGGTTAGGGTTTTTAATTAAATTA
Found at i:32834718 original size:18 final size:19
Alignment explanation
Indices: 32834679--32834722 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
32834669 ATTTTTAAAA
*
32834679 TTTTTAA-TTTATATATAG
1 TTTTTAATTTTATAAATAG
*
32834697 TTTTTAATTTTA-AAATAT
1 TTTTTAATTTTATAAATAG
32834715 TTTTTAAT
1 TTTTTAAT
32834723 ATTCATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATTTTATAAATAG
Found at i:32835025 original size:20 final size:19
Alignment explanation
Indices: 32835000--32835090 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 19
32834990 TTTAAAAATA
32835000 AATTTTACTTAAATTATTT
1 AATTTTACTTAAATTATTT
* *
32835019 GAATTTTACTTAAATTGTTC
1 -AATTTTACTTAAATTATTT
* ** *
32835039 AATATAGTAGATAGATTATTT
1 AAT-T-TTACTTAAATTATTT
32835060 AA-TTTACTTAAATTATTT
1 AATTTTACTTAAATTATTT
32835078 AAGTTTTACTTAA
1 AA-TTTTACTTAA
32835091 TAGATAAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 13 0.24
19 4 0.07
20 27 0.49
21 11 0.20
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (19 bp):
AATTTTACTTAAATTATTT
Found at i:32839427 original size:15 final size:15
Alignment explanation
Indices: 32839381--32839426 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
32839371 TCGTTTTAAT
*
32839381 AAATTTTAAATTTTATA
1 AAATTTTATA-TTT-TA
32839398 AAATTTTATATTTTA
1 AAATTTTATATTTTA
32839413 AAATTTTGATATTT
1 AAATTTT-ATATTT
32839427 ATCAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 9 0.33
17 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
AAATTTTATATTTTA
Found at i:32840288 original size:2 final size:2
Alignment explanation
Indices: 32840277--32840311 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
32840267 ATGTGAAAAC
32840277 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
32840312 GGGCAGAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32840501 original size:14 final size:16
Alignment explanation
Indices: 32840477--32840509 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
32840467 GACGAGAAGT
32840477 AAAAAATAAT-AATAC
1 AAAAAATAATAAATAC
32840492 AAAAAA-AATAAATAC
1 AAAAAATAATAAATAC
32840507 AAA
1 AAA
32840510 CTCTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAATAAATAC
Found at i:32842638 original size:18 final size:20
Alignment explanation
Indices: 32842604--32842640 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
32842594 TTTTATGTAA
32842604 TATTTTATTTAAAATATTAG
1 TATTTTATTTAAAATATTAG
32842624 TATTTTA-TT-AAATATTA
1 TATTTTATTTAAAATATTA
32842641 TTATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTATTTAAAATATTAG
Found at i:32846062 original size:91 final size:91
Alignment explanation
Indices: 32845864--32846068 Score: 214
Period size: 91 Copynumber: 2.3 Consensus size: 91
32845854 ATTAATCATT
* * * *
32845864 TGCAAACACTGGTTGTTTATCCACAAACTTACTGGCAACTTTTATCTACAAATAGGTTGTGCATT
1 TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
* * *
32845929 CACAACCCACTAGCAGTGTATTAACT
66 CACAACCCAATAGCAGCGTATTAACC
* * * * ** * **
32845955 TGTAAAAATTGATGGTTCATTTAGAAACTTACTGGCAGTTTTTATCTACAAACACGTTGTGCATT
1 TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
** *
32846020 CAGTACCTAAT-GTCAGCGTATTAACC
66 CACAACCCAATAG-CAGCGTATTAACC
*
32846046 TGCAAACACTGGTGGTTTATCCA
1 TGCAAACACTGGTGGTTCATCCA
32846069 AAAATTGGAG
Statistics
Matches: 87, Mismatches: 26, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
90 1 0.01
91 86 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (91 bp):
TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
CACAACCCAATAGCAGCGTATTAACC
Found at i:32863429 original size:44 final size:43
Alignment explanation
Indices: 32863379--32863467 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
32863369 AGATTAAAAA
*
32863379 AATTAAAGAAAAATAACAAAAATTAGATTGAAGCAGAGTAGGG
1 AATTAAAGAAAAATAACAAAAATTAGATTGAAGCAGAGGAGGG
*
32863422 NAATTAAAGAAAAATAGCAAAAATTAGATTGAAGCAGAGGAGGG
1 -AATTAAAGAAAAATAACAAAAATTAGATTGAAGCAGAGGAGGG
32863466 AA
1 AA
32863468 AGGCGGAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.55, C:0.04, G:0.22, T:0.17
Consensus pattern (43 bp):
AATTAAAGAAAAATAACAAAAATTAGATTGAAGCAGAGGAGGG
Found at i:32870858 original size:30 final size:30
Alignment explanation
Indices: 32870822--32870890 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
32870812 ACTTGAAGCT
***
32870822 CAAATAGCTAAATGGGTGGATGTTATGGCC
1 CAAATAGCTAAATGCCCGGATGTTATGGCC
32870852 CAAATAGCTAAATGCCCGGATGTTATGGCC
1 CAAATAGCTAAATGCCCGGATGTTATGGCC
*
32870882 TAAATAGCT
1 CAAATAGCT
32870891 GTGTCTAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (30 bp):
CAAATAGCTAAATGCCCGGATGTTATGGCC
Found at i:32872170 original size:8 final size:8
Alignment explanation
Indices: 32872157--32872186 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
32872147 AAATCGGCTC
32872157 AATTTTAA
1 AATTTTAA
32872165 AATTTTAA
1 AATTTTAA
32872173 AATTTTAA
1 AATTTTAA
32872181 AATTTT
1 AATTTT
32872187 TGTTGTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTTAA
Found at i:32874483 original size:18 final size:18
Alignment explanation
Indices: 32874449--32874485 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32874439 AGAGAGTTAA
*
32874449 TAAGTCTAAAGGCTTATT
1 TAAGTCTAAAGGATTATT
*
32874467 TAAGTCTAAATGATTATT
1 TAAGTCTAAAGGATTATT
32874485 T
1 T
32874486 TACAGCACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAGTCTAAAGGATTATT
Found at i:32877007 original size:25 final size:26
Alignment explanation
Indices: 32876947--32877014 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
32876937 AAGTTTCGAC
* *
32876947 TCACAGCTTGTGTGAGCAGTCCCATTT
1 TCACAGCTCGTGTGAGCAG-CACATTT
32876974 TCACAGCTCGTGTGAGCA-CAC-TTAT
1 TCACAGCTCGTGTGAGCAGCACATT-T
32876999 TCACAGCTCGTGTGAG
1 TCACAGCTCGTGTGAG
32877015 TATATATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
27 17 0.45
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCAGCACATTT
Found at i:32886608 original size:13 final size:13
Alignment explanation
Indices: 32886587--32886624 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
32886577 TAACTCATTG
*
32886587 CACATAAAACAAA
1 CACAAAAAACAAA
32886600 CACACAAAAACAAA
1 CACA-AAAAACAAA
32886614 -ACAAAAAACAA
1 CACAAAAAACAA
32886625 CCAAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.74, C:0.24, G:0.00, T:0.03
Consensus pattern (13 bp):
CACAAAAAACAAA
Found at i:32901402 original size:27 final size:27
Alignment explanation
Indices: 32901372--32901549 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32901362 ATATTGAGTC
* * * *
32901372 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32901399 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32901426 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32901454 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32901481 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32901508 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32901535 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32901550 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32901511 original size:82 final size:81
Alignment explanation
Indices: 32901393--32901548 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32901383 TGCTATATAA
* *
32901393 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32901458 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32901475 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32901539 CACTTAGTGC
65 CACTTAGTGC
32901549 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32907279 original size:25 final size:24
Alignment explanation
Indices: 32907247--32907295 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
32907237 GACCTTGCCT
* * *
32907247 GTTATCAGCTTGTATGAGCTTACC
1 GTTATCAGCTCGGAGGAGCTTACC
32907271 GTTATTCAGCTCGGAGGAGCTTACC
1 GTTA-TCAGCTCGGAGGAGCTTACC
32907296 ATTTATCGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (24 bp):
GTTATCAGCTCGGAGGAGCTTACC
Found at i:32909844 original size:21 final size:20
Alignment explanation
Indices: 32909809--32909848 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
32909799 GACTAAATTA
*
32909809 GAAACGTTTGAAAAATTTAG
1 GAAACGTTAGAAAAATTTAG
32909829 GAAACAGTTAGAAAAATTTA
1 GAAAC-GTTAGAAAAATTTA
32909849 ACTGCAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (20 bp):
GAAACGTTAGAAAAATTTAG
Done.