Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 35 of 208
Found at i:9790903 original size:22 final size:22
Alignment explanation
Indices: 9790858--9790904 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
9790848 ATAATATAGA
* *
9790858 TTTAATAAATGCAGGAAAATAT
1 TTTAATAAATGAAAGAAAATAT
9790880 TTTAATAAATAGAAAGAAAA-AT
1 TTTAATAAAT-GAAAGAAAATAT
9790902 TTT
1 TTT
9790905 GAATTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (22 bp):
TTTAATAAATGAAAGAAAATAT
Found at i:9794887 original size:24 final size:24
Alignment explanation
Indices: 9794859--9794904 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9794849 TTTTTAGAAG
* *
9794859 TTTTTCTTCTAACAAATATTTTCT
1 TTTTTATTATAACAAATATTTTCT
*
9794883 TTTTTATTATAACCAATATTTT
1 TTTTTATTATAACAAATATTTT
9794905 TTCTATTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTATTATAACAAATATTTTCT
Found at i:9796722 original size:112 final size:111
Alignment explanation
Indices: 9796520--9796844 Score: 464
Period size: 112 Copynumber: 3.0 Consensus size: 111
9796510 CTTCAAAAGG
* * * * *
9796520 AAAATTTTTCTAAATGAGGCAATATTTAACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCT
* *
9796585 GGGTTTCGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAA
66 GGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTT-A
* * *
9796632 AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAA-TAGAGAAAACGTGCCCTAATGTGT
1 AAAAATTTTCAAAATAAGGCAATGTTTTACGTTT-GAAAATTCGAGAAAACGTGCCCTAATGTGC
*
9796696 TGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCC-TTTC
65 TGGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTA
*
9796742 AAAAA-TTTCAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAG-GAACGTGCCCTAATGTGCT
1 AAAAATTTTCAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCT
* *
9796805 GGGTTTCGA--TTTCTCATTTAACCAAATAGCCAAATATCCT
66 GGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
9796845 CTTGAATTCT
Statistics
Matches: 193, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
106 28 0.15
108 31 0.16
109 31 0.16
110 5 0.03
111 3 0.02
112 90 0.47
113 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (111 bp):
AAAAATTTTCAAAATAAGGCAATGTTTTACGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCT
GGGTTTCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTTTA
Found at i:9797233 original size:2 final size:2
Alignment explanation
Indices: 9797226--9797259 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
9797216 GTTGTTCTAT
9797226 TA TA TA TA TA TA TA TA CTA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T
9797260 TAGNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9797248 original size:15 final size:15
Alignment explanation
Indices: 9797228--9797256 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9797218 TGTTCTATTA
9797228 TATATATATATATAC
1 TATATATATATATAC
9797243 TATATATATATATA
1 TATATATATATATA
9797257 TATTAGNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATATATAC
Found at i:9797248 original size:17 final size:17
Alignment explanation
Indices: 9797226--9797258 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9797216 GTTGTTCTAT
9797226 TATATATATATATATAC
1 TATATATATATATATAC
9797243 TATATATATATATATA
1 TATATATATATATATA
9797259 TTAGNNNNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATATATATATAC
Found at i:9797656 original size:9 final size:9
Alignment explanation
Indices: 9797642--9797666 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9797632 AAACCACCAG
9797642 CTGCCGCAA
1 CTGCCGCAA
9797651 CTGCCGCAA
1 CTGCCGCAA
9797660 CTGCCGC
1 CTGCCGC
9797667 CCCTTTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (9 bp):
CTGCCGCAA
Found at i:9798602 original size:21 final size:22
Alignment explanation
Indices: 9798576--9798635 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
9798566 ATTTTCTCCC
**
9798576 ATTATTTATTATTATTGTTA-T
1 ATTATTTATTATTATCATTATT
*
9798597 ATTATTTATTATCATCATTATT
1 ATTATTTATTATTATCATTATT
*
9798619 ATT-TTTATTATTTTCAT
1 ATTATTTATTATTATCAT
9798636 ATTTGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTATTTATTATTATCATTATT
Found at i:9798626 original size:9 final size:9
Alignment explanation
Indices: 9798576--9798632 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
9798566 ATTTTCTCCC
9798576 ATTATTTATT
1 ATTATTT-TT
9798586 ATTATTGTTAT
1 ATTATT-TT-T
9798597 ATTATTTATT
1 ATTATTT-TT
* **
9798607 ATCATCATT
1 ATTATTTTT
9798616 ATTATTTTT
1 ATTATTTTT
9798625 ATTATTTT
1 ATTATTTT
9798633 CATATTTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 16 0.42
10 13 0.34
11 9 0.24
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:9805667 original size:27 final size:27
Alignment explanation
Indices: 9805596--9805667 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
9805586 TGGAGGGACC
*
9805596 TAGCACAAGCATTCATAAGGCAATATT
1 TAGCACAAGCATTCATGAGGCAATATT
* *
9805623 TAACACAAGCATTCATGAGGCACTATT
1 TAGCACAAGCATTCATGAGGCAATATT
*
9805650 TAGCACAAGCATTGATGA
1 TAGCACAAGCATTCATGA
9805668 AACTTATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
TAGCACAAGCATTCATGAGGCAATATT
Found at i:9814136 original size:16 final size:16
Alignment explanation
Indices: 9814117--9814157 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
9814107 ACACAGCTTT
*
9814117 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
9814133 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
9814149 TCCAATACA
1 TCCAATACA
9814158 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:9815193 original size:16 final size:18
Alignment explanation
Indices: 9815164--9815196 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9815154 GTTCAAATCT
9815164 ATGATAAAATCGTGAAAC
1 ATGATAAAATCGTGAAAC
9815182 ATGA-AAAA-CGTGAAA
1 ATGATAAAATCGTGAAA
9815197 TGGTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGATAAAATCGTGAAAC
Found at i:9816290 original size:21 final size:20
Alignment explanation
Indices: 9816265--9816305 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9816255 ATTAAAATAT
* *
9816265 TATAATAATATAATAATTTTA
1 TATAAAAATAT-ATAAATTTA
9816286 TATAAAAATATATAAATTTA
1 TATAAAAATATATAAATTTA
9816306 AAACTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAAATATATAAATTTA
Found at i:9821910 original size:27 final size:29
Alignment explanation
Indices: 9821880--9821938 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
9821870 GATGCGGACA
9821880 AATTGAAT-TAAATTTTTAAT-ATTT-TTT
1 AATT-AATATAAATTTTTAATGATTTATTT
**
9821907 AATTTTTATAAATTTTTAATGATTTATTT
1 AATTAATATAAATTTTTAATGATTTATTT
9821936 AAT
1 AAT
9821939 CGAACCGGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 1 0.04
27 16 0.59
28 4 0.15
29 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
AATTAATATAAATTTTTAATGATTTATTT
Found at i:9824445 original size:374 final size:374
Alignment explanation
Indices: 9823846--9824572 Score: 1271
Period size: 374 Copynumber: 1.9 Consensus size: 374
9823836 TCTAAGGTAG
* *
9823846 CATTTTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATTTTTATCACATTTTCATTTG
1 CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
*
9823911 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATTAGCTCATCTATAGC
66 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
*
9823976 CAATTGTGAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGAGAGA
131 CAATTGTCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGAGAGA
*
9824041 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTTTGGTTTG
196 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
**
9824106 ACAAATCACATAATTTGGTGTTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
261 ACAAATCACATAATTTGGCATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
* *
9824171 AAACTTAGAAGTCAGCATTTATATTTTTTATTACAAAAGTCAGCACTTA
326 AAACTTAGAAGCCAGCAATTATATTTTTTATTACAAAAGTCAGCACTTA
9824220 CATTCTGAGAAGTGGGCACTT-CTTCA-TTA-CTTGGAAAGCAATATGTTTATCACATTTTCATT
1 CATTCTGAGAAGTGGGCACTTCCTT-ATTTACCTT-GAAAGCAATATGTTTATCACATTTTCATT
* *
9824282 TGCTATGCTTTGCTTTATCTAAATTTATCTCAAAGGTTTGTAAAGAACCAATGAGCTCATCTATA
64 TGCTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATA
* * *
9824347 GCTAATTGCTCAAGATTTTCGGCTTCTTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGAG
129 GCCAATTG-TCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGAG
9824412 AGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGT
193 AGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGT
*
9824477 TTGACAAATCACATAATTTGGCATTAAAACTCCCCAATTATCTCTTATTCTTACATTCTCAAACT
258 TTGACAAATCACATAATTTGGCATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACT
9824542 TTCAAACTTAGAAGCCAGCAATTATATTTTT
323 TTCAAACTTAGAAGCCAGCAATTATATTTTT
9824573 GATTGCTTGA
Statistics
Matches: 335, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
372 3 0.01
373 103 0.31
374 229 0.68
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (374 bp):
CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
CAATTGTCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGAGAGA
TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
ACAAATCACATAATTTGGCATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
AAACTTAGAAGCCAGCAATTATATTTTTTATTACAAAAGTCAGCACTTA
Found at i:9825389 original size:18 final size:18
Alignment explanation
Indices: 9825366--9825402 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9825356 CCACACGCCT
9825366 ATGTGATGGGCTGTGTAA
1 ATGTGATGGGCTGTGTAA
9825384 ATGTGATGGGCTGTGTAA
1 ATGTGATGGGCTGTGTAA
9825402 A
1 A
9825403 GGGTGCATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.32
Consensus pattern (18 bp):
ATGTGATGGGCTGTGTAA
Found at i:9826277 original size:42 final size:42
Alignment explanation
Indices: 9826230--9826373 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 42
9826220 CGAAGGCTAC
* * *
9826230 ACAGAAGCACATAAGTGCTAAACGGAATCCCGTAAGGGTTGA
1 ACAGAAGCACATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * *
9826272 ACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTT-A
1 ACAGAAGCACATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * * * * * * *
9826313 ATCTGAATCTCAGAAGAGCTAAA-TGAAACCTATTAGGGTTAA
1 A-CAGAAGCACATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * *
9826355 ACTGAAGCTCAAAAGAGCT
1 ACAGAAGCACATAAGAGCT
9826374 GAACTGGGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 32 0.38
42 52 0.62
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (42 bp):
ACAGAAGCACATAAGAGCTAAACGGAAACCCATAAGGGTTGA
Found at i:9826353 original size:41 final size:41
Alignment explanation
Indices: 9826262--9826396 Score: 117
Period size: 42 Copynumber: 3.2 Consensus size: 41
9826252 CGGAATCCCG
* * * * **
9826262 TAAGGGTTGAACAGAAGCTCATAGGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACTGAAGCTCAAAAGAGCT-AAATGAAACCCA
* * * *
9826304 TAAGGGTTAATCTGAATCTCAGAAGAGCTAAATGAAACCTA
1 TAAGGGTTAAACTGAAGCTCAAAAGAGCTAAATGAAACCCA
* * **
9826345 TTAGGGTTAAACTGAAGCTCAAAAGAGCTGAACTGGGACCCA
1 TAAGGGTTAAACTGAAGCTCAAAAGAGCT-AAATGAAACCCA
*
9826387 GAAGGGTTAA
1 TAAGGGTTAA
9826397 TCTAAAACTC
Statistics
Matches: 73, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 34 0.47
42 39 0.53
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (41 bp):
TAAGGGTTAAACTGAAGCTCAAAAGAGCTAAATGAAACCCA
Found at i:9826419 original size:83 final size:83
Alignment explanation
Indices: 9826264--9826422 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
9826254 GAATCCCGTA
* * * * * *
9826264 AGGGTTGAACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAG
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
9826329 AGCTAAATGAAACCTATT
66 AGCTAAATGAAACCTATT
* * * *
9826347 AGGGTTAAACTGAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATAT
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAA
*
9826411 GAGTTAAATGAA
65 GAGCTAAATGAA
9826423 GCTTATGACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 62 0.97
84 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (83 bp):
AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
AGCTAAATGAAACCTATT
Found at i:9826439 original size:83 final size:83
Alignment explanation
Indices: 9826275--9826439 Score: 179
Period size: 83 Copynumber: 2.0 Consensus size: 83
9826265 GGGTTGAACA
* * * * *
9826275 GAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAGAGCTAAATGAA
1 GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
* ** *
9826340 ACCTATTAGGGTTAAACT
66 ACCTATGACAGCTAAACT
* * * *
9826358 GAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATATGAGTTAAATGA
1 GAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGA
* *
9826422 AGCTTATGACAGCTAAAC
65 AACCTATGACAGCTAAAC
9826440 AGAAAGCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 64 0.97
84 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (83 bp):
GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
ACCTATGACAGCTAAACT
Found at i:9826937 original size:22 final size:23
Alignment explanation
Indices: 9826885--9826938 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
9826875 CGTTTTTAAT
*
9826885 TAAAATTAAAATTATATTTGTAA
1 TAAAATTAAAACTATATTTGTAA
*
9826908 TAAAATTAAAACTA-A-TTGTTA
1 TAAAATTAAAACTATATTTGTAA
9826929 TCAAAATTAA
1 T-AAAATTAA
9826939 TTGTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 9 0.32
23 13 0.46
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
TAAAATTAAAACTATATTTGTAA
Found at i:9826939 original size:16 final size:16
Alignment explanation
Indices: 9826915--9826952 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9826905 TAATAAAATT
*
9826915 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
9826931 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
9826947 AAAATT
1 AAAATT
9826953 GTATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:9827190 original size:52 final size:52
Alignment explanation
Indices: 9827112--9827215 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
9827102 ATTGCATGTT
*
9827112 CACCATCATGTTCACGGGACATTGAATCACTTGAGTCTCTTTCTATTAAACA
1 CACCATCATATTCACGGGACATTGAATCACTTGAGTCTCTTTCTATTAAACA
* * *
9827164 CACCATCCTATTCACTGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
1 CACCATCATATTCACGGGACATTGAATCACTTGAGTCTCTTTCTATTAAACA
9827216 ATTAAAAGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (52 bp):
CACCATCATATTCACGGGACATTGAATCACTTGAGTCTCTTTCTATTAAACA
Found at i:9827619 original size:9 final size:9
Alignment explanation
Indices: 9827607--9827632 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9827597 AACATCATCC
9827607 TCATCGTCG
1 TCATCGTCG
9827616 TCATCGTCG
1 TCATCGTCG
9827625 TCATCGTC
1 TCATCGTC
9827633 CCTTTTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.19, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:9829922 original size:45 final size:45
Alignment explanation
Indices: 9829858--9829950 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
9829848 AGCAAGGCAA
9829858 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
1 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
* *
9829903 TAATGTGAAATTT-TGAGCTAATTTTCCATTATATAAACAATCGGC
1 TAATGTGAAATTTCT-AGCTAATGTTCCATTATATAAACAATAGGC
9829948 TAA
1 TAA
9829951 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (45 bp):
TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
Found at i:9830357 original size:10 final size:10
Alignment explanation
Indices: 9830344--9830406 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
9830334 GCCTAAAATT
9830344 ATATATAATG
1 ATATATAATG
*
9830354 ATATATAATA
1 ATATATAATG
9830364 ATATATAATG
1 ATATATAATG
****
9830374 AT-GGGGATG
1 ATATATAATG
* *
9830383 ACACATAATG
1 ATATATAATG
9830393 ATATATAATG
1 ATATATAATG
9830403 ATAT
1 ATAT
9830407 GCTCATCTAA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
9 4 0.10
10 35 0.90
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (10 bp):
ATATATAATG
Found at i:9840150 original size:21 final size:21
Alignment explanation
Indices: 9840102--9840171 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 21
9840092 ACTTAATATT
* *
9840102 TAAGTAAATATATATAATATAA
1 TAAGTAAATATA-ATAAAAAAA
9840124 TAAAGTAAATATAATAAAAAAA
1 T-AAGTAAATATAATAAAAAAA
9840146 TAAGTAAATGA-AATAAAGAAAGA
1 TAAGTAAAT-ATAATAAA-AAA-A
9840169 TAA
1 TAA
9840172 AATCAAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 14 0.33
22 13 0.31
23 15 0.36
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
TAAGTAAATATAATAAAAAAA
Found at i:9840204 original size:10 final size:10
Alignment explanation
Indices: 9840189--9840226 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
9840179 ATCAAAATTG
9840189 AGAAAGAAAA
1 AGAAAGAAAA
9840199 AGAAAGAAAA
1 AGAAAGAAAA
*
9840209 AAAAAGAAAA
1 AGAAAGAAAA
9840219 A-AAAGAAA
1 AGAAAGAAA
9840227 GAAACAGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:9840218 original size:9 final size:9
Alignment explanation
Indices: 9840191--9840226 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
9840181 CAAAATTGAG
9840191 AAAGAAAAA
1 AAAGAAAAA
9840200 GAAAGAAAAAA
1 -AAAG-AAAAA
9840211 AAAGAAAAA
1 AAAGAAAAA
9840220 AAAGAAA
1 AAAGAAA
9840227 GAAACAGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 12 0.48
10 8 0.32
11 5 0.20
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:9846770 original size:30 final size:30
Alignment explanation
Indices: 9846708--9846778 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
9846698 AACCTCACCA
* * **
9846708 CCACCTCCACCACCACACAATCCAGTTTCT
1 CCACCACCACCACCACACAATCCAATCACT
* *
9846738 CCACCACCACCACCCCACCATCCAATCACT
1 CCACCACCACCACCACACAATCCAATCACT
*
9846768 CCACCGCCACC
1 CCACCACCACC
9846779 TCATGTACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.58, G:0.03, T:0.13
Consensus pattern (30 bp):
CCACCACCACCACCACACAATCCAATCACT
Found at i:9846807 original size:24 final size:24
Alignment explanation
Indices: 9846766--9846824 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
9846756 CATCCAATCA
* *
9846766 CTCCACCGCCACCTCATGTACATC
1 CTCCACCACCACCCCATGTACATC
* * *
9846790 CTCCACCACCTCCCCATGTGCGTC
1 CTCCACCACCACCCCATGTACATC
*
9846814 CACCACCACCA
1 CTCCACCACCA
9846825 GCACCACTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17
Consensus pattern (24 bp):
CTCCACCACCACCCCATGTACATC
Found at i:9860972 original size:21 final size:21
Alignment explanation
Indices: 9860948--9861002 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9860938 AGCAGCGGTG
* *
9860948 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
9860969 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
9860990 GCGGTGAGATTAG
1 GCGGTGAGATTAG
9861003 AAATAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:9864883 original size:31 final size:31
Alignment explanation
Indices: 9864848--9865024 Score: 234
Period size: 31 Copynumber: 5.7 Consensus size: 31
9864838 TTGACTACTT
9864848 TATATATTTTTTATTTTTAAAATACACTACA
1 TATATATTTTTTATTTTTAAAATACACTACA
* *
9864879 TATATA-TATATA-TTTTAAAATACACTACATA
1 TATATATTTTTTATTTTTAAAATACACTAC--A
* *
9864910 TATATATTTTTTATTTTTAAAATATAGTACA
1 TATATATTTTTTATTTTTAAAATACACTACA
* *
9864941 TATATTTTTTTTATTTTTAAAATACACTATA
1 TATATATTTTTTATTTTTAAAATACACTACA
*
9864972 TATATTTTTTTTATTTTTAAAATACACTACA
1 TATATATTTTTTATTTTTAAAATACACTACA
* *
9865003 TGTAT-TTTTTAATTTTTAAAAT
1 TATATATTTTTTATTTTTAAAAT
9865025 TTTAAATACA
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
29 16 0.12
30 20 0.16
31 75 0.58
32 4 0.03
33 14 0.11
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (31 bp):
TATATATTTTTTATTTTTAAAATACACTACA
Found at i:9865091 original size:16 final size:16
Alignment explanation
Indices: 9865052--9865092 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9865042 TTCTCCACTC
9865052 CCATCTCCCCTCTTCCA
1 CCAT-TCCCCTCTTCCA
*
9865069 TCATTCCCCTCTTCCA
1 CCATTCCCCTCTTCCA
*
9865085 CCGTTCCC
1 CCATTCCC
9865093 TCCTCCCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.10, C:0.56, G:0.02, T:0.32
Consensus pattern (16 bp):
CCATTCCCCTCTTCCA
Found at i:9865136 original size:60 final size:59
Alignment explanation
Indices: 9865072--9865254 Score: 223
Period size: 60 Copynumber: 3.1 Consensus size: 59
9865062 TCTTCCATCA
* *
9865072 TTCCCCTCTTCCACCGTTCCCTCCTCCCATTTCCTATTCCCATGCAATACCCATTCCAAT
1 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCCATTCC-AT
* * * *
9865132 TT-CCC-ATTCCACCGTGCCGTCCTCCCATTTCCCATTCCCAT-C--TCCCCTCTTCCAT
1 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCC-ATTCCAT
9865187 CGATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCCATTCCCAT
1 ---TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCCATT-CCAT
9865250 TTCCC
1 TTCCC
9865255 ATTCCCATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
55 6 0.06
56 4 0.04
57 1 0.01
58 34 0.33
59 6 0.06
60 41 0.40
61 1 0.01
62 2 0.02
63 8 0.08
ACGTcount: A:0.14, C:0.49, G:0.05, T:0.32
Consensus pattern (59 bp):
TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATGCAATACCCATTCCAT
Found at i:9865165 original size:28 final size:28
Alignment explanation
Indices: 9865130--9865229 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
9865120 ACCCATTCCA
*
9865130 ATTTCCCATTCCACCGTGCCGTCCTCCC
1 ATTTCCCATTCCACCGTGCCCTCCTCCC
* * *
9865158 ATTTCCCATTCCCATC-TCCCCTCTTCCATC
1 ATTTCCCATT-CCACCGTGCCCTCCTCC--C
* *
9865188 GATTCCCCTCTTCCACCGTGCCCTCCTCCC
1 -ATTTCCC-ATTCCACCGTGCCCTCCTCCC
9865218 ATTTCCCATTCC
1 ATTTCCCATTCC
9865230 CATGCAATAC
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
28 22 0.40
29 10 0.18
30 2 0.04
31 10 0.18
32 11 0.20
ACGTcount: A:0.11, C:0.51, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTTCCCATTCCACCGTGCCCTCCTCCC
Found at i:9865231 original size:6 final size:6
Alignment explanation
Indices: 9865214--9865288 Score: 89
Period size: 6 Copynumber: 12.2 Consensus size: 6
9865204 CGTGCCCTCC
* * *
9865214 TCCCATT TCCCAT TCCCA- TGCAAT ACCCAT TCCCATT TCCCAT TCCCAT
1 TCCCA-T TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT TCCCAT
9865263 TCCCATT TCCCAT TCCCAT TCCCAT T
1 TCCCA-T TCCCAT TCCCAT TCCCAT T
9865289 ATCAACAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
5 3 0.05
6 39 0.66
7 17 0.29
ACGTcount: A:0.19, C:0.45, G:0.01, T:0.35
Consensus pattern (6 bp):
TCCCAT
Found at i:9865232 original size:13 final size:13
Alignment explanation
Indices: 9865214--9865288 Score: 82
Period size: 13 Copynumber: 5.5 Consensus size: 13
9865204 CGTGCCCTCC
9865214 TCCCATTTCCCAT
1 TCCCATTTCCCAT
*
9865227 TCCCATGCAATACCCAT
1 TCCCAT----TTCCCAT
9865244 TCCCATTTCCCAT
1 TCCCATTTCCCAT
9865257 TCCCA-TTCCCATT
1 TCCCATTTCCCA-T
9865270 TCCCA-TTCCCAT
1 TCCCATTTCCCAT
9865282 TCCCATT
1 TCCCATT
9865289 ATCAACAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
12 12 0.22
13 30 0.56
17 12 0.22
ACGTcount: A:0.19, C:0.45, G:0.01, T:0.35
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:9865252 original size:118 final size:118
Alignment explanation
Indices: 9865040--9865259 Score: 388
Period size: 118 Copynumber: 1.9 Consensus size: 118
9865030 ATACAATGCA
*
9865040 ATTTCTCCACTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTTCCCTCCTCCCATTTC
1 ATTTCTCCACTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTC
*
9865105 CTATTCCCATGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCC
66 CCATTCCCATGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCC
*
9865158 ATTTC-CCATTCCCATCTCCCCTCTTCCATCGATTCCCCTCTTCCACCGTGCCCTCCTCCCATTT
1 ATTTCTCCACTCCCATCTCCCCTCTTCCATC-ATTCCCCTCTTCCACCGTGCCCTCCTCCCATTT
*
9865222 CCCATTCCCATGCAATACCCATTCCCATTTCCCATTCC
65 CCCATTCCCATGCAATACCCATTCCAATTTCCCATTCC
9865260 CATTCCCATT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
117 24 0.25
118 73 0.75
ACGTcount: A:0.15, C:0.49, G:0.04, T:0.32
Consensus pattern (118 bp):
ATTTCTCCACTCCCATCTCCCCTCTTCCATCATTCCCCTCTTCCACCGTGCCCTCCTCCCATTTC
CCATTCCCATGCAATACCCATTCCAATTTCCCATTCCACCGTGCCGTCCTCCC
Found at i:9865263 original size:19 final size:19
Alignment explanation
Indices: 9865239--9865288 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
9865229 CCATGCAATA
9865239 CCCATTCCCATTTCCCATT
1 CCCATTCCCATTTCCCATT
9865258 CCCATTCCCATTTCCCATT
1 CCCATTCCCATTTCCCATT
9865277 CCCATTCCCATT
1 CCCATTCCCATT
9865289 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.36
Consensus pattern (19 bp):
CCCATTCCCATTTCCCATT
Found at i:9867867 original size:21 final size:20
Alignment explanation
Indices: 9867843--9867905 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
9867833 GAACAAAGTA
*
9867843 AAAAAGAGGGGAGAAACTAGC
1 AAAAAGA-GGGAGAAACCAGC
* *
9867864 AAAAATGAGGGACAAACCAGT
1 AAAAA-GAGGGAGAAACCAGC
*
9867885 AAACA-AGGGAGAAACCAGC
1 AAAAAGAGGGAGAAACCAGC
9867904 AA
1 AA
9867906 GAACGAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.40
21 19 0.54
22 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAAAGAGGGAGAAACCAGC
Found at i:9873664 original size:2 final size:2
Alignment explanation
Indices: 9873652--9873685 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9873642 AAGCACATAG
* *
9873652 AT AT TT AT AT AT AT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9873686 TAAATAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9873745 original size:3 final size:3
Alignment explanation
Indices: 9873737--9873800 Score: 67
Period size: 3 Copynumber: 20.3 Consensus size: 3
9873727 AAGCTATCAC
* *
9873737 ATA ATA ATA ATG ATA AGTA ACA TATA CATA ATA ATA ATA ATA GA-A ATA
1 ATA ATA ATA ATA ATA A-TA ATA -ATA -ATA ATA ATA ATA ATA -ATA ATA
9873785 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
9873801 ATGATAATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.02
3 42 0.81
4 9 0.17
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9875391 original size:44 final size:43
Alignment explanation
Indices: 9875332--9876335 Score: 206
Period size: 44 Copynumber: 22.8 Consensus size: 43
9875322 CCTTTGTTTT
* *
9875332 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTA-CTTA
* * *
9875376 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCTA-ATA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTACTTA
* * * * * * *
9875416 CGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTT
1 -AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTACTTA
** * *
9875461 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTA-CTTA
* * * *
9875505 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-AC-TACTTA
** * * * *
9875551 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCTGACGT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-ACTTA
* * ** * * * ** *
9875592 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCATTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACT-ACTTA
* * * * *
9875636 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--ACTACTTA
** * * * *
9875682 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCTGACGT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-ACTTA
* * ** * *** ** *
9875723 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCGTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACT-ACTTA
* * * * *
9875767 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--ACTACTTA
** * * * **
9875813 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCTGAC-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-ACTTA
* * * * * * ** *
9875854 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACT-ACTTA
* * * *
9875898 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTA-CTTA
* * * *
9875942 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--ACTACTTA
** * * ** *
9875988 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGACTTGGTGC---
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTACTACTTA
* * * * * ** *
9876029 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC-T-ACTTA
** * * * *
9876073 AATCCACTCCACTGTAATATCAGAGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTA-CTTA
* * * * *
9876117 AATCTGCTCCGCTGTAATTTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACT-ACTTA
* * ** * *
9876161 AATCTGATGCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCTTTTATTTC
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-TACTACTTA
* * * * *
9876215 AATCAGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACT-ACTTA
* * * * *
9876258 GATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACT-ACTTA
*
9876302 AATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
9876336 CTGAAATTCT
Statistics
Matches: 700, Mismatches: 192, Indels: 136
0.68 0.19 0.13
Matches are distributed among these distances:
39 1 0.00
40 8 0.01
41 129 0.18
42 12 0.02
43 38 0.05
44 327 0.47
45 11 0.02
46 127 0.18
47 10 0.01
49 2 0.00
51 2 0.00
52 1 0.00
53 1 0.00
54 28 0.04
55 3 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTACTTA
Found at i:9875455 original size:129 final size:129
Alignment explanation
Indices: 9875225--9875537 Score: 473
Period size: 129 Copynumber: 2.4 Consensus size: 129
9875215 CGCAACGTCG
* * * * * * * * * * *
9875225 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGA
* *
9875290 TCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCA
66 TCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
*
9875354 GGGAGATAGGATTACTAGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGA
* *
9875419 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
66 TCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
*
9875483 GGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
9875538 TCTGACATTC
Statistics
Matches: 166, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 166 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (129 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGA
TCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
Found at i:9875584 original size:175 final size:177
Alignment explanation
Indices: 9875378--9875720 Score: 476
Period size: 175 Copynumber: 1.9 Consensus size: 177
9875368 CTAGCTTAAA
* * * *
9875378 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTGTAACTTCAGAGA
* * *
9875443 GATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTC
66 GATAAGATCATTGATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATCTGAAAT-GCTTC
* * *
9875505 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACATTCTTCGG
130 GATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACATTCTTCGG
* * ** *
9875553 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTGTAACTTCAGAGA
* * *
9875618 GATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCG
66 GATAAGATCATTGATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATCTGAAATGCTTCG
* *
9875683 GTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAC
131 ATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGAC
9875721 GTGATCTACT
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
175 104 0.72
176 1 0.01
177 38 0.26
178 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (177 bp):
TCTGCTCCACTGTAATCTCAGGGAAATAAGACCTAACACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCATTGATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATCTGAAATGCTTCG
ATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGACATTCTTCGG
Found at i:9875661 original size:131 final size:131
Alignment explanation
Indices: 9875510--9875979 Score: 784
Period size: 131 Copynumber: 3.6 Consensus size: 131
9875500 GCTTCGATCT
* * *
9875510 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGACATTCTTCGGTCTGTTCCACTGTAATCTCAGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
9875575 GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
66 GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
9875640 C
131 C
9875641 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
*
9875706 GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCGTTGGTTTTAATC
66 GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
9875771 C
131 C
9875772 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
* *
9875837 GAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
66 GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
9875902 C
131 C
* * ** * *
9875903 GCTCCACTGTAATCTCAGAGAGATAGGAT-T--ACTATCTTCAATCTGCTCCGCTGTAATCTCAG
1 GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAAT-TCTTCGGTCTGTTCCACTGTAATCTCAG
* *
9875965 GGAGATAAGATCTGA
65 GGAAATAAGACCTGA
9875980 AATTCTTCGG
Statistics
Matches: 323, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
128 2 0.01
129 37 0.11
130 1 0.00
131 283 0.88
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (131 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGG
GAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATC
C
Found at i:9875923 original size:306 final size:303
Alignment explanation
Indices: 9875293--9876149 Score: 976
Period size: 306 Copynumber: 2.8 Consensus size: 303
9875283 GATGCGATCT
* * *
9875293 ACTCTACTATAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGA
1 ACTCCACTGTAACTTCAGAGAGATAAGAT-CATTGTTTTAATCCGCTCCACTGTAATCTCAGGGA
* * *** * * * * *
9875358 GATAGGAT-T--ACTAGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGAT
65 GATAGGATCTGAAAT-TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGAT
* **
9875420 CTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAGG
129 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCACTCCACTGTAATCTCAGG
* * * * *
9875485 GAGATAGGATTACTAGCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACATTCTT
194 GAGATAGGATTAATAGCTTCGATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGA-A-TCTG
* ** * * *
9875550 CGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCT
257 CGATCTACTCCACTGTAATCTCAGAGAAATAAGACCTGACGTAATCC
**
9875597 ACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGA
1 ACTCCACTGTAACTTCAGAGAGATAAGATCATT-GTTTTAATCCGCTCCACTGTAATCTCAGGGA
* *
9875662 GATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATC
65 GATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATC
* * *
9875727 TACTCTGCTGTAACTTCAGAGAGATAAGATCGTTGGTTTTAATCCGCTCCACTGTAATCTCAGGG
130 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCACTCCACTGTAATCTCAGGG
* * *
9875792 AGATAGGATCTGAA-ATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG-A-C-G
195 AGATAGGAT-T-AATA-GCTTCGATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGAATCTG
* * * ***
9875853 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTGGTTTTAATCC
257 CGATCTACTCCACTGTAATC-TCAGAGAAATAAGA-C-CT-GACGTAATCC
* * * * * * * *
9875903 GCTCCACTGTAA-TCTCAGAGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAGGG
1 ACTCCACTGTAACT-TCAGAGAGATAAGATCATTGT-TTTAATCCGCTCCACTGTAATCTCAGGG
* * *
9875967 AGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACTTGGTGCGAT
64 AGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGAT
* *
9876032 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCACTCCACTGTAATATCAGA
129 CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCACTCCACTGTAATCTCAGG
* * * * *
9876097 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATTTCAGGGAGATAAGA
194 GAGATAGGATTAATAGCTTCGATCTGCTCCACTGTAATCTCAGGGAAATAAGA
9876150 TTTCTGGCTT
Statistics
Matches: 470, Mismatches: 69, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
302 1 0.00
303 29 0.06
304 100 0.21
305 6 0.01
306 293 0.62
307 4 0.01
308 37 0.08
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (303 bp):
ACTCCACTGTAACTTCAGAGAGATAAGATCATTGTTTTAATCCGCTCCACTGTAATCTCAGGGAG
ATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCACTCCACTGTAATCTCAGGGA
GATAGGATTAATAGCTTCGATCTGCTCCACTGTAATCTCAGGGAAATAAGACCTGAATCTGCGAT
CTACTCCACTGTAATCTCAGAGAAATAAGACCTGACGTAATCC
Found at i:9875963 original size:175 final size:175
Alignment explanation
Indices: 9875767--9876511 Score: 808
Period size: 175 Copynumber: 4.2 Consensus size: 175
9875757 CGTTGGTTTT
* * * **
9875767 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATCTGAAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATC
*
9875832 TCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
66 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
* *
9875897 TAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTC
131 TAATCCACTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
**
9875942 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATC
* * *
9876007 TCAGGGAAATAAGACTTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTT
66 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
*
9876072 TAATCCACTCCACTGTAATATCAGAGAGATAGGATTACTAGCTTC
131 TAATCCACTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
* * * *
9876117 AATCTGCTCCGCTGTAATTTCAGGGAGATAAGATTTCTGGCTTCAA-TCTGATGCGATCTACTCT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--TCT-G---AAATTCT--T-CGGTCTACTCC
* * * * * * * * *
9876181 GCTGTAA-CTTCAGAGAGATAAGATCTTTTATTTCAATC-AGCTCCACTGTAACTTCAGGGAGAT
57 ACTGTAATC-TCAGGGAAATAAGA-C-CTGA-TGCGATCTA-CTCTACTGTAACTTCAGAGAGAT
* * * ** * * *
9876244 AGGAT-AGT-GTCTTTGATCTGCTCCGCTGTAATCTCA-AGGAGATAAGATCT-CTGGCTTC
117 AAGATCATTGGT-TTTAATCCACTCCACTGTAATCTCAGA-GAGATAGGAT-TACTAGCTTC
* * *
9876302 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATC
* * * * * ** *
9876367 TCAAGGAGATAAGACCTAATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATCT
66 TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
* *
9876432 TAATCCACTCCACTGTAA-CTTCAGGGAGATAGGA-TAGT-GTCTTC
131 TAATCCACTCCACTGTAATC-TCAGAGAGATAGGATTACTAG-CTTC
*
9876476 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
9876512 CTGGCTTCAA
Statistics
Matches: 478, Mismatches: 66, Indels: 53
0.80 0.11 0.09
Matches are distributed among these distances:
173 2 0.00
174 68 0.14
175 227 0.47
176 2 0.00
177 30 0.06
178 3 0.01
179 2 0.00
180 6 0.01
181 2 0.00
182 3 0.01
183 28 0.06
184 4 0.01
185 70 0.15
186 31 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATC
TCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTT
TAATCCACTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTC
Found at i:9876336 original size:44 final size:44
Alignment explanation
Indices: 9876212--9876533 Score: 187
Period size: 44 Copynumber: 7.4 Consensus size: 44
9876202 GATCTTTTAT
* * ** *
9876212 TTCAATCAGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGC
** * *
9876255 TTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTCTGGC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
* * *
9876299 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CTGGC
** * * * **
9876345 TTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGA-C-CT-AA
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
* * * ** * * **
9876386 TGCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCTGGC
** * ** *
9876431 TT-AATCCACTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCTGGC
* *
9876473 TTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
9876517 TTCAATCTGCTCCACTG
1 TTCAATCTGCTCCACTG
9876534 CAACCGATGG
Statistics
Matches: 214, Mismatches: 52, Indels: 25
0.74 0.18 0.09
Matches are distributed among these distances:
40 1 0.00
41 29 0.14
42 5 0.02
43 57 0.27
44 86 0.40
45 2 0.01
46 33 0.15
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGC
Found at i:9876679 original size:44 final size:43
Alignment explanation
Indices: 9876631--9876769 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 43
9876621 CAACCGATGG
*
9876631 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTCTCAATGCA-GA
* * * * *
9876675 AGGCAAGATCATT-TATCTTCAACCAGC-TC-CATCACAACTG-AGA
1 AGGCAAGGT--TTGTGTCTTCGACCTGCTTCGC-TCTCAA-TGCAGA
* *
9876718 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTTTCAATGCAAGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTCTCAATGC-AGA
9876763 AGGCAAG
1 AGGCAAG
9876770 ATCTTTCTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
42 2 0.03
43 16 0.22
44 36 0.50
45 16 0.22
46 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTCTCAATGCAGA
Found at i:9876934 original size:43 final size:43
Alignment explanation
Indices: 9876802--9877277 Score: 137
Period size: 43 Copynumber: 11.2 Consensus size: 43
9876792 TGTAACCAAT
* *
9876802 GAAGGCAAGG-CTTGTTTTCGATCTGCTTCGCTATTAACGCAG
1 GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
* * * * * * * *
9876844 GAAGGCAA-GATCTGCCTCTTT-AACCAGCTCCACTG-CAAC-CAAT
1 GAAGGCAAGGATTTG--T-TTTCGATCTGCTTCGCTGTTAACGC-AG
*
9876887 GAAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
* ** * * * * * *
9876930 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CAAT
1 GAAGGCAAGGATTTG-TT-TTCGATCTGCTTCGCTGTTAACGC-AG
*
9876973 GAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
** * * ** * * * * * * ** *
9877016 GACCGCCA-GATCTGCTTCTTTAACCAGCTCCACAG-CAACTAAT
1 GAAGGCAAGGATTTG-TT-TTCGATCTGCTTCGCTGTTAACGCAG
* * *
9877059 GAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAG
1 GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
** * * * * * *
9877102 GAAGGCAA-GATTT-TTCTTTAACCAGCTCCACTG-CAAC-CAAT
1 GAAGGCAAGGATTTGTT-TTCGATCTGCTTCGCTGTTAACGC-AG
* * *
9877143 GAAGGCAATG--CT-TTTTCGATCTGCTTCGCTGTTAACACAG
1 GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
* ** * * * *
9877183 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-TAAC-CAG
1 GAAGGCAAGGATTTG-TT-TTCGATCTGCTTCGCTGTTAACGCAG
* * * *
9877225 TGAAGGCAATGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAG
1 -GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
9877269 GAAGGCAAG
1 GAAGGCAAG
9877278 ATCTGCTTCT
Statistics
Matches: 291, Mismatches: 110, Indels: 65
0.62 0.24 0.14
Matches are distributed among these distances:
39 12 0.04
40 16 0.05
41 20 0.07
42 78 0.27
43 100 0.34
44 62 0.21
45 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (43 bp):
GAAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
Found at i:9876935 original size:86 final size:86
Alignment explanation
Indices: 9876525--9877288 Score: 989
Period size: 86 Copynumber: 8.9 Consensus size: 86
9876515 GCTTCAATCT
* * * *
9876525 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGTTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
9876590 CAAGATCTGCTATCTTCAACTA
66 CAAGATCTGCT-TCTTTAACCA
* * * * *
9876612 GCTCCACTGCAACCGATGGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAA
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAA
* *
9876676 GGCAAGATCAT-TTATCTTCAACCA
64 GGCAAGATC-TGCT-TCTTTAACCA
* ** * * * *
9876700 GCTCCA-TCACAACTGA-GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCG-TTTTCAATGCAA
1 GCTCCACT-GCAACCAATGA-AGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTT-AACGCAG
9876761 GAAGGCAAGATCT--TTCTTTAACCA
61 GAAGGCAAGATCTGCTTCTTTAACCA
* *
9876785 GCTCCACTGTAACCAATGAAGGCAAGGC-TTGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
9876849 CAAGATCTGCCTCTTTAACCA
66 CAAGATCTGCTTCTTTAACCA
*
9876870 GCTCCACTGCAACCAATGAAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
9876935 CAAGATCTGCTTCTTTAACCA
66 CAAGATCTGCTTCTTTAACCA
**
9876956 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGACCG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
9877021 CCAGATCTGCTTCTTTAACCA
66 CAAGATCTGCTTCTTTAACCA
* * * *
9877042 GCTCCACAGCAACTAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
9877107 CAAGAT-T-TTTCTTTAACCA
66 CAAGATCTGCTTCTTTAACCA
* *
9877126 GCTCCACTGCAACCAATGAAGGCAATGC--T-TTTTCGATCTGCTTCGCTGTTAACACAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
9877188 CAAGATCTGCTTCTTTAACCA
66 CAAGATCTGCTTCTTTAACCA
* * * * *
9877209 GCTCCACTGTAACCAGTGAAGGCAATGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
9877274 CAAGATCTGCTTCTT
66 CAAGATCTGCTTCTT
9877289 CACTGATCTG
Statistics
Matches: 608, Mismatches: 51, Indels: 37
0.87 0.07 0.05
Matches are distributed among these distances:
81 36 0.06
82 2 0.00
83 68 0.11
84 40 0.07
85 69 0.11
86 255 0.42
87 33 0.05
88 104 0.17
89 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (86 bp):
GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTTCTTTAACCA
Found at i:9877209 original size:253 final size:256
Alignment explanation
Indices: 9876525--9877288 Score: 983
Period size: 253 Copynumber: 3.0 Consensus size: 256
9876515 GCTTCAATCT
* * *
9876525 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGTTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
* * * * * *
9876590 CAAGATCTGCTATCTTCAACTAGCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTCTTCGACCT
66 CAAGATCTG-TATCTTTAACCAGCTCCACTGCAACCAATGAAGGCAATG-TTGT-T-TTCGATCT
* * * * * **
9876655 GCTTCGCTGTCAATGCAGGAAGGCAAGATCAT-TTATCTTCAACCAGCTCCA-TCACAACTGA-G
127 GCTTCGCTGTTAACGCAGGAAGGCAAGATC-TGCT-TCTTTAACCAGCTCCACT-GCAACCAATG
* * *
9876717 AGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCG-TTTTCAATGCAAGAAGGCAAGATCT--TTCT
189 A-AGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTT-AATGCAGGAAGGCAAGATCTGCTTCT
9876778 TTAACCA
250 TTAACCA
* * *
9876785 GCTCCACTGTAACCAATGAAGGCAAGGC-TTGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
** *
9876849 CAAGATCTGCCTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGTTTTGTTTTCGATCTGC
66 CAAGATCTGTATCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA--TGTTGTTTTCGATCTGC
9876914 TTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGC
129 TTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGC
* ** *
9876979 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGACCGCCAGATCTGCTTCTTTAACCA
194 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCA
* * *
9877042 GCTCCACAGCAACTAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
* *
9877107 CAAGAT-T-TTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAATGCT-TTTTCGATCTGCTT
66 CAAGATCTGTATCTTTAACCAGCTCCACTGCAACCAATGAAGGCAATGTTGTTTTCGATCTGCTT
* * *
9877169 CGCTGTTAACACAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGTAACCAGTGAAGGCAA
131 CGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA
* *
9877234 TGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTT
196 GGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTT
9877289 CACTGATCTG
Statistics
Matches: 446, Mismatches: 48, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
253 125 0.28
254 2 0.00
255 28 0.06
256 68 0.15
257 81 0.18
258 71 0.16
259 46 0.10
260 25 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (256 bp):
GCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
CAAGATCTGTATCTTTAACCAGCTCCACTGCAACCAATGAAGGCAATGTTGTTTTCGATCTGCTT
CGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA
GGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCA
Found at i:9877231 original size:339 final size:344
Alignment explanation
Indices: 9876525--9877290 Score: 1097
Period size: 339 Copynumber: 2.2 Consensus size: 344
9876515 GCTTCAATCT
* *
9876525 GCTCCACTGCAACC-GATGGAGGCAAGGCTTTGTTTTCGATCTACTTCGTTGTTAACGCAGGAAG
1 GCTCCACTGCAACCAG-TGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAG
* * *
9876589 GCAAGATCTGCTATCTTCAACTAGCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTCTTCGACC
65 GCAAGATCTGCT-TCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGTTTGTGTCTTCGACC
* * * *
9876654 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCATTTATCTTCAACCAGCTCCATCACAACTGAGAG
129 TGCTTCGCTGTCAACGCAGGAACGCAAGATCATCTATCTTCAACCAGCTCCATCACAACTAAGAG
* *
9876719 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGTTTTCAATGCAAGAAGGCAAGATCTTTCTTTAACC
194 AGGCAAGGTTTGTGTCTTCGACCTACTTCGTGTTCAATGCAAGAAGGCAAGATCTTTCTTTAACC
* *
9876784 AGCTCCACTGTAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGG
259 AGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTATTAACACAGGAAGG
9876849 CAAGATCTGCCTCTTTAACCA
324 CAAGATCTGCCTCTTTAACCA
* * *
9876870 GCTCCACTGCAACCAATGAAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAGTGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
* *
9876935 CAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGT-T-TTCGATCT
66 CAAGATCTGCTTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGG-TTTGTGTCTTCGACCT
* * * *
9876998 GCTTCGCTGTTAACGCAGGACCGCCAGATC-TGCT-TCTTTAACCAGCTCCA-CAGCAACTAATG
130 GCTTCGCTGTCAACGCAGGAACGCAAGATCAT-CTATCTTCAACCAGCTCCATCA-CAACTAA-G
* * *
9877060 A-AGGCAAGGCTTTGT-T-TTCGATCTACTTCGCTGTT-AATGCAGGAAGGCAAGATTTTTCTTT
192 AGAGGCAAGG-TTTGTGTCTTCGACCTACTTCG-TGTTCAATGCAAGAAGGCAAGATCTTTCTTT
* *
9877121 AACCAGCTCCACTGCAACCAATGAAGGCAATGC-T-TTTTCGATCTGCTTCGCTGTTAACACAGG
255 AACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTATTAACACAGG
*
9877184 AAGGCAAGATCTGCTTCTTTAACCA
320 AAGGCAAGATCTGCCTCTTTAACCA
* * *
9877209 GCTCCACTGTAACCAGTGAAGGCAATGCTTTGTTTTCGATCTACTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCAGTGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
9877274 CAAGATCTGCTTCTTCA
66 CAAGATCTGCTTCTTCA
9877291 CTGATCTGTT
Statistics
Matches: 379, Mismatches: 35, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
339 126 0.33
340 1 0.00
341 69 0.18
342 34 0.09
343 40 0.11
344 34 0.09
345 75 0.20
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (344 bp):
GCTCCACTGCAACCAGTGAAGGCAAGGCTTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTTCTTCAACCAGCTCCACTGCAACCAATGAAGGCAAGGTTTGTGTCTTCGACCTG
CTTCGCTGTCAACGCAGGAACGCAAGATCATCTATCTTCAACCAGCTCCATCACAACTAAGAGAG
GCAAGGTTTGTGTCTTCGACCTACTTCGTGTTCAATGCAAGAAGGCAAGATCTTTCTTTAACCAG
CTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTATTAACACAGGAAGGCA
AGATCTGCCTCTTTAACCA
Found at i:9880663 original size:64 final size:64
Alignment explanation
Indices: 9880584--9880801 Score: 359
Period size: 64 Copynumber: 3.4 Consensus size: 64
9880574 ATATATATTT
*
9880584 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
*
9880648 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
**
9880712 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTTAAATATAGGTTAC
9880776 AAA-TTCTTTGAGCTGAATTTTAATGT
1 AAAGTTC-TTGAGCTGAA-TTTAATGT
9880802 TGTAAATTAT
Statistics
Matches: 148, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
63 3 0.02
64 136 0.92
65 9 0.06
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTTAAATATAGGTTAC
Found at i:9881003 original size:41 final size:41
Alignment explanation
Indices: 9880944--9881098 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 41
9880934 ATATGAGATT
* * * *
9880944 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
9880985 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
9881026 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
9881068 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCG
9881099 ATGTTTTATA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 89 0.90
42 8 0.08
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:9882468 original size:13 final size:14
Alignment explanation
Indices: 9882450--9882484 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9882440 TGACCTCTCC
9882450 TTTTCTT-TTTCTT
1 TTTTCTTCTTTCTT
9882463 TTTTCTTCTTTC-T
1 TTTTCTTCTTTCTT
9882476 TTTTCTTCT
1 TTTTCTTCT
9882485 ATTTTTGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTCTTCTTTCTT
Found at i:9882523 original size:21 final size:20
Alignment explanation
Indices: 9882507--9882549 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
9882497 GATTGATTGA
9882507 TTTTTT-TTTATTTTTGATT
1 TTTTTTCTTTATTTTTGATT
*
9882526 TTTTTTCTTT-TTTTTTATT
1 TTTTTTCTTTATTTTTGATT
9882545 TTTTT
1 TTTTT
9882550 GAGTCTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.07, C:0.02, G:0.02, T:0.88
Consensus pattern (20 bp):
TTTTTTCTTTATTTTTGATT
Found at i:9894311 original size:16 final size:17
Alignment explanation
Indices: 9894290--9894325 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
9894280 AAGCACATAG
9894290 ATATTTATATATA-TAA
1 ATATTTATATATATTAA
9894306 ATATTTATATATATTAA
1 ATATTTATATATATTAA
9894323 ATA
1 ATA
9894326 GGTTAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTATATATATTAA
Found at i:9894369 original size:3 final size:3
Alignment explanation
Indices: 9894361--9894440 Score: 83
Period size: 3 Copynumber: 26.3 Consensus size: 3
9894351 AAGCTATCAC
* ** *
9894361 ATA ATA ATA ATG ATA AGTA GCA GTA AT- ATA CATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
9894407 GA-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9894441 ATGATAATAC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
2 3 0.05
3 57 0.86
4 6 0.09
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9896612 original size:29 final size:30
Alignment explanation
Indices: 9896556--9896612 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9896546 ATTTTTTATT
**
9896556 TTTAGAAAAAAACAAAAATTAGTTGTCGAC
1 TTTAGAAAAAAACAAAAATTAGGAGTCGAC
*
9896586 TTTA-AAAAAAACAAAAATTGGGAGTCG
1 TTTAGAAAAAAACAAAAATTAGGAGTCG
9896613 CCACCAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.25
Consensus pattern (30 bp):
TTTAGAAAAAAACAAAAATTAGGAGTCGAC
Found at i:9897575 original size:27 final size:26
Alignment explanation
Indices: 9897519--9897607 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
9897509 AAAAGGGTAC
* *
9897519 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
9897545 AAAAGTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
* * *
9897574 AAAAGATAATTACATATATATATATAAA
1 AAAATAT-A-TACATATACATAGATAAA
*
9897602 CAAATA
1 AAAATA
9897608 ATAATAATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 4 0.08
27 15 0.29
28 10 0.20
29 9 0.18
30 13 0.25
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:9897788 original size:17 final size:17
Alignment explanation
Indices: 9897766--9897826 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
9897756 TAGGAAATAA
9897766 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
9897783 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
* *
9897800 AAATTGTAAATGTATAT
1 AAAATGTATATGTATAT
*
9897817 -ATATGTATAT
1 AAAATGTATAT
9897827 AAAAGTTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
16 7 0.18
17 32 0.82
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:9897795 original size:23 final size:23
Alignment explanation
Indices: 9897769--9897830 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
9897759 GAAATAAAAA
9897769 ATGTATATGTATATAAAATGTAT
1 ATGTATATGTATATAAAATGTAT
** *
9897792 ATGTATATAAAT-TGTAAATGTAT
1 ATGTATATGTATAT-AAAATGTAT
9897815 A--TATATGTATATAAAA
1 ATGTATATGTATATAAAA
9897831 GTTATGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 10 0.32
22 2 0.06
23 19 0.61
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGTATATGTATATAAAATGTAT
Found at i:9898374 original size:24 final size:24
Alignment explanation
Indices: 9898346--9898399 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 24
9898336 TAATATTACA
9898346 AAATCATATCTTCTAAGATTGCAT
1 AAATCATATCTTCTAAGATTGCAT
9898370 AAATCATA---TCTAAGATTGCAT
1 AAATCATATCTTCTAAGATTGCAT
9898391 --ATCATATCT
1 AAATCATATCT
9898400 AAGATTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 6 0.22
21 13 0.48
24 8 0.30
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (24 bp):
AAATCATATCTTCTAAGATTGCAT
Found at i:9898396 original size:19 final size:19
Alignment explanation
Indices: 9898357--9898412 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
9898347 AATCATATCT
9898357 TCTAAGATTGCATAAATCATA
1 TCTAAGATTGCAT--ATCATA
9898378 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9898397 TCTAAGATTACATATC
1 TCTAAGATTGCATATC
9898413 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 21 0.62
21 13 0.38
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9898636 original size:28 final size:30
Alignment explanation
Indices: 9898601--9898688 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 30
9898591 TCAACTTAAG
*
9898601 AAAAAATGTCAAGTTTAGGTA-CAAAT-TA
1 AAAAAATGTCAAGTTTAGGTACCAAATAGA
*
9898629 AAAAAATGTCAAGTTTGGGTACCAAAATAGA
1 AAAAAATGTCAAGTTTAGGTACC-AAATAGA
9898660 AAAAAATTTGTCAAGTTTAGGTACCAAAT
1 AAAAAA--TGTCAAGTTTAGGTACCAAAT
9898689 GTTATATTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
28 20 0.38
29 1 0.02
30 4 0.08
31 7 0.13
32 4 0.08
33 16 0.31
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAAAATGTCAAGTTTAGGTACCAAATAGA
Found at i:9901306 original size:18 final size:18
Alignment explanation
Indices: 9901283--9901344 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
9901273 GGTGATATCA
9901283 ATATTGATGACAGTGACG
1 ATATTGATGACAGTGACG
* *
9901301 ATATTGATG-CTAGTCATG
1 ATATTGATGAC-AGTGACG
* *
9901319 CTATTGATGATAGTGAC-
1 ATATTGATGACAGTGACG
9901336 ACTATTGAT
1 A-TATTGAT
9901345 CGTGACCTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (18 bp):
ATATTGATGACAGTGACG
Found at i:9904298 original size:19 final size:20
Alignment explanation
Indices: 9904260--9904300 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
9904250 GGTTGCAAGC
9904260 CTACTTTGTGACTTAGGGAAGT
1 CTACTTTGTGA--TAGGGAAGT
9904282 CTACTTTGTGA-AGGGAAGT
1 CTACTTTGTGATAGGGAAGT
9904301 TCTTTAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
22 11 0.58
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.34
Consensus pattern (20 bp):
CTACTTTGTGATAGGGAAGT
Found at i:9907476 original size:49 final size:49
Alignment explanation
Indices: 9907415--9907518 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
9907405 TCATGTGTTA
* * *
9907415 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
9907464 TAATTTTGTAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
9907513 TAATTT
1 TAATTT
9907519 GATTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:9908708 original size:14 final size:14
Alignment explanation
Indices: 9908689--9908730 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
9908679 TGTAAAACTG
9908689 TATAACATATGAAT
1 TATAACATATGAAT
*
9908703 TATAACATATGGAT
1 TATAACATATGAAT
*
9908717 TATGACATA-GAAT
1 TATAACATATGAAT
9908730 T
1 T
9908731 TCATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (14 bp):
TATAACATATGAAT
Found at i:9908949 original size:21 final size:21
Alignment explanation
Indices: 9908908--9908950 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9908898 AATAAAGTAG
* *
9908908 ATTATATATTATTTTTATAGT
1 ATTATATAATATATTTATAGT
9908929 ATTATATAATATGATTT-TAGT
1 ATTATATAATAT-ATTTATAGT
9908950 A
1 A
9908951 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATAATATATTTATAGT
Found at i:9909001 original size:18 final size:18
Alignment explanation
Indices: 9908978--9909012 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9908968 TTATCTAGTT
9908978 TTTTTATTAAATTATATA
1 TTTTTATTAAATTATATA
9908996 TTTTTATTAAATTATAT
1 TTTTTATTAAATTATAT
9909013 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTATTAAATTATATA
Found at i:9909144 original size:120 final size:120
Alignment explanation
Indices: 9908915--9909392 Score: 829
Period size: 120 Copynumber: 4.0 Consensus size: 120
9908905 TAGATTATAT
* *
9908915 ATTAT-TTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATT-AT-CT-AG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
** *
9908976 TTTTTTTATTAAATTATATATTTTTATTAAATTATATTTAATATTAATTATTTTAA
66 -AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* * *
9909032 ATTATATTTTATAGTGTTATATATTATGATTTTAGTAAATTCATATAAGAATATCTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
9909097 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
9909152 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
*
9909217 AATTTCATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
9909272 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
*
9909337 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
9909392 A
1 A
9909393 ATATGATTAA
Statistics
Matches: 343, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
117 5 0.01
118 46 0.13
119 2 0.01
120 288 0.84
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:9909620 original size:45 final size:44
Alignment explanation
Indices: 9909531--9909623 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
9909521 ATTACAACAT
**
9909531 CATTCCATTCAACCAAACACAGGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAGGAATACTATTACACCTCTATTC
*
9909575 CATTCCATTCAACCAAACA-ATTGAATTACTATTACACCTCTATTC
1 CATTCCATTCAACCAAACACA-GGAA-TACTATTACACCTCTATTC
9909620 CATT
1 CATT
9909624 ACAGCGAACC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAGGAATACTATTACACCTCTATTC
Found at i:9912647 original size:10 final size:11
Alignment explanation
Indices: 9912627--9912660 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9912617 GAATTAAGAT
9912627 AAAAATATAAA
1 AAAAATATAAA
9912638 AAAAAT-TAAA
1 AAAAATATAAA
*
9912648 AAATATATAAA
1 AAAAATATAAA
9912659 AA
1 AA
9912661 TAATTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:9912651 original size:19 final size:21
Alignment explanation
Indices: 9912627--9912665 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
9912617 GAATTAAGAT
9912627 AAAAATATA-AAAAA-AATTA
1 AAAAATATATAAAAATAATTA
9912646 AAAAATATATAAAAATAATT
1 AAAAATATATAAAAATAATT
9912666 TCATAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATATATAAAAATAATTA
Found at i:9912657 original size:21 final size:20
Alignment explanation
Indices: 9912627--9912665 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9912617 GAATTAAGAT
9912627 AAAAATATAAAAAAAATTAA
1 AAAAATATAAAAAAAATTAA
*
9912647 AAAATATATAAAAATAATT
1 AAAA-ATATAAAAAAAATT
9912666 TCATAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATATAAAAAAAATTAA
Found at i:9914113 original size:24 final size:24
Alignment explanation
Indices: 9914054--9914113 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
9914044 TTAAGTAGTG
* * *
9914054 ATACATGATAAAATTTAAAATAATA
1 ATACATAAT-AAACTTAAAATAAAA
* *
9914079 ATACGTAATAAACTTATAATAAAA
1 ATACATAATAAACTTAAAATAAAA
*
9914103 ATACATTATAA
1 ATACATAATAA
9914114 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (24 bp):
ATACATAATAAACTTAAAATAAAA
Found at i:9916673 original size:2 final size:2
Alignment explanation
Indices: 9916666--9916717 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
9916656 NNNNNNNNNN
9916666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9916708 TA TA TA TA TA
1 TA TA TA TA TA
9916718 ACATGAACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9917417 original size:22 final size:22
Alignment explanation
Indices: 9917369--9917417 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
9917359 AACTAAATCC
9917369 TTTCTCTCAATTTCTCCCTAAT
1 TTTCTCTCAATTTCTCCCTAAT
* * *
9917391 ATTCTTTCAATTTC-CTCTCAAT
1 TTTCTCTCAATTTCTCCCT-AAT
9917413 TTTCT
1 TTTCT
9917418 ATTTAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTCTCTCAATTTCTCCCTAAT
Found at i:9919246 original size:18 final size:18
Alignment explanation
Indices: 9919223--9919260 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9919213 TTCCAAGTGC
* *
9919223 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9919241 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
9919259 GT
1 GT
9919261 TTCATTTTTC
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9919552 original size:21 final size:21
Alignment explanation
Indices: 9919528--9919567 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9919518 CTACCGAATG
* *
9919528 AACCAGAATCCCCGCCGGAGC
1 AACCACAACCCCCGCCGGAGC
9919549 AACCACAACCCCCGCCGGA
1 AACCACAACCCCCGCCGGA
9919568 AGTTGGACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.47, G:0.20, T:0.03
Consensus pattern (21 bp):
AACCACAACCCCCGCCGGAGC
Found at i:9919736 original size:49 final size:49
Alignment explanation
Indices: 9919682--9919807 Score: 234
Period size: 49 Copynumber: 2.6 Consensus size: 49
9919672 AACAGTTTAT
9919682 TTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTA
1 TTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTA
9919731 TTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTA
1 TTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTA
* *
9919780 TTTCATTTAATAAAATACAAAATAGTTT
1 TTTGATGTAATAAAATACAAAATAGTTT
9919808 TGATATTATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (49 bp):
TTTGATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTA
Found at i:9924724 original size:12 final size:12
Alignment explanation
Indices: 9924688--9924725 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
9924678 TAATCCATGA
9924688 TTATCTCTTTCTT
1 TTATCTCTTTC-T
9924701 TTATC-CTATTCT
1 TTATCTCT-TTCT
9924713 TTATCTCTTTCT
1 TTATCTCTTTCT
9924725 T
1 T
9924726 AACACTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATCTCTTTCT
Found at i:9931303 original size:24 final size:24
Alignment explanation
Indices: 9931276--9931330 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9931266 GAAAATAAAA
9931276 GTATAAGAATTAAATTACAAATTT
1 GTATAAGAATTAAATTACAAATTT
9931300 GTATAAGAATTAAATTACAAATTT
1 GTATAAGAATTAAATTACAAATTT
9931324 GTA-AAGA
1 GTATAAGA
9931331 GTACGTAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.35
Consensus pattern (24 bp):
GTATAAGAATTAAATTACAAATTT
Found at i:9932240 original size:12 final size:12
Alignment explanation
Indices: 9932220--9932253 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9932210 AAATGGGGGA
*
9932220 TTTCATTTTCAT
1 TTTCTTTTTCAT
9932232 TTTCTTTTTCAT
1 TTTCTTTTTCAT
9932244 TTTCTTTTTC
1 TTTCTTTTTC
9932254 TCTGTTCGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:9932243 original size:18 final size:18
Alignment explanation
Indices: 9932220--9932254 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9932210 AAATGGGGGA
9932220 TTTCATTTTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
9932238 TTTCATTTTCTTTTTCT
1 TTTCATTTTCATTTTCT
9932255 CTGTTCGGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:9932254 original size:6 final size:6
Alignment explanation
Indices: 9932220--9932253 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9932210 AAATGGGGGA
* *
9932220 TTTCAT TTTCAT TTTCTT TTTCAT TTTCTT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
9932254 TCTGTTCGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTCAT
Found at i:9935625 original size:23 final size:25
Alignment explanation
Indices: 9935594--9935640 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
9935584 ATTCACTTTT
*
9935594 ATTTTCTT-ACAATTT-TTTTTAGA
1 ATTTACTTAACAATTTATTTTTAGA
*
9935617 ATTTACTTAACATTTTATTTTTAG
1 ATTTACTTAACAATTTATTTTTAG
9935641 TCCCATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (25 bp):
ATTTACTTAACAATTTATTTTTAGA
Found at i:9935673 original size:23 final size:24
Alignment explanation
Indices: 9935647--9935705 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
9935637 TTAGTCCCAT
9935647 TATTAA-ATTGTTTGAAATTTT-TA
1 TATTAATATT-TTTGAAATTTTGTA
*
9935670 TATTAATTATTTTTTAAATTTTGTA
1 TATTAA-TATTTTTGAAATTTTGTA
9935695 TA-TATATATTT
1 TATTA-ATATTT
9935706 AATCCTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 6 0.19
24 17 0.55
25 8 0.26
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (24 bp):
TATTAATATTTTTGAAATTTTGTA
Found at i:9936113 original size:73 final size:72
Alignment explanation
Indices: 9936018--9936225 Score: 310
Period size: 73 Copynumber: 2.9 Consensus size: 72
9936008 TTCGCGGCCT
* * * *
9936018 CAAAAAACCTAAGCCCAACGACGCCGTTTT-TCGGGCTTTCGGGGATTTAGCGGCATTTTTGAGA
1 CAAAAAACATAAGCCCAACGACGCCGTTTTGT-GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGA
9936082 AAGCACCG
65 AAGCACCG
*
9936090 CAAAAAGACATAAGCCCAACGACGCTGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGA
1 CAAAAA-ACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGA
*
9936155 AAGCGCCG
65 AAGCACCG
* *
9936163 CAAAAAAACATAAGCCCAACGACGTCGTTTTGTGAGCTTTTGGGGATTTAGCGGCGTTTTTAA
1 C-AAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAA
9936226 NNNNNNNNNN
Statistics
Matches: 124, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
72 6 0.05
73 112 0.90
74 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (72 bp):
CAAAAAACATAAGCCCAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAA
AGCACCG
Found at i:9937877 original size:8 final size:7
Alignment explanation
Indices: 9937858--9937906 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
9937848 NATTTAAGGT
9937858 TTAGGGG
1 TTAGGGG
9937865 TTAGGGG
1 TTAGGGG
9937872 TATAGGGG
1 T-TAGGGG
**
9937880 TTAGATG
1 TTAGGGG
9937887 TTAGGGG
1 TTAGGGG
* *
9937894 TTAAGAG
1 TTAGGGG
9937901 TTAGGG
1 TTAGGG
9937907 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:9939738 original size:176 final size:175
Alignment explanation
Indices: 9939576--9939906 Score: 499
Period size: 176 Copynumber: 1.9 Consensus size: 175
9939566 CAAAAAAATC
* *
9939576 AATTTAT-AAAAACTTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
1 AATTTATAAAAAACTTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGATCAAAATGAAAAA
** * ***
9939640 ACG-GC-ATTTTTATCAATTTATAAAAAACAAAATAATTTTTTTTTAGAATAGCAAAACGGCGTA
66 ACGCGCAAAATATATCAATTTATAAAAAACAAAATAAAAATTTTTTAGAATAGCAAAACGGCGTA
*
9939703 GTTTTGTTCAAAATAAAAA-AATTTTGCATAAAAACACCGCTAAA
131 GTTTTGTTCAAAATAAAAACAATTTTGCATAAAAACACCGCAAAA
* * *
9939747 GATTTATAAAAAATTTAAAAAATTTTAGCATAGCAAAACGGCGTCATTTTGATCAAAATGAAAAA
1 AATTTATAAAAAACTTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGATCAAAATGAAAAA
9939812 ACGCCGCAAAAATATATCAATTTATAAAAAACAAAATAAAAATTTTTTAGAATAGCAAAACGGCG
66 ACG-CGC-AAAATATATCAATTTATAAAAAACAAAATAAAAATTTTTTAGAATAGCAAAACGGCG
*
9939877 TAGTTTTGTTTAAAATAAAAACAATTTTGC
129 TAGTTTTGTTCAAAATAAAAACAATTTTGC
9939907 GGCGTTTTTA
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
171 6 0.04
172 56 0.39
174 2 0.01
176 70 0.49
177 8 0.06
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (175 bp):
AATTTATAAAAAACTTAAAAAAATTTAGCATAGCAAAACGGCGTCATTTTGATCAAAATGAAAAA
ACGCGCAAAATATATCAATTTATAAAAAACAAAATAAAAATTTTTTAGAATAGCAAAACGGCGTA
GTTTTGTTCAAAATAAAAACAATTTTGCATAAAAACACCGCAAAA
Found at i:9941042 original size:54 final size:54
Alignment explanation
Indices: 9940984--9941101 Score: 236
Period size: 54 Copynumber: 2.2 Consensus size: 54
9940974 TGTGGGGGTA
9940984 AAATATTCATCAGCCTTGAGGTAATCAATATTCAAGTTACATACATATGATTAG
1 AAATATTCATCAGCCTTGAGGTAATCAATATTCAAGTTACATACATATGATTAG
9941038 AAATATTCATCAGCCTTGAGGTAATCAATATTCAAGTTACATACATATGATTAG
1 AAATATTCATCAGCCTTGAGGTAATCAATATTCAAGTTACATACATATGATTAG
9941092 AAATATTCAT
1 AAATATTCAT
9941102 AAGCTTATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (54 bp):
AAATATTCATCAGCCTTGAGGTAATCAATATTCAAGTTACATACATATGATTAG
Found at i:9943888 original size:43 final size:42
Alignment explanation
Indices: 9943786--9944092 Score: 346
Period size: 43 Copynumber: 7.2 Consensus size: 42
9943776 CGTTTTTAAT
* * * * *
9943786 GGCGTTTTTGCAAGAAGCGTCGCTAAACGT-TTGTTCTATAGC
1 GGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
9943828 GGCGTTTTCTGATAAAAGCACCGCTAAAGGTCTTGATCTATAGT
1 GGCG-TTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
*
9943872 GGCGTTTGTAGAAAAAGCGCCGCTAAAGGTCTTGATCTACAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* *
9943915 GGCGTTTGTGGAAAAATCGCCGCTAAAGGTCTTGAGCTATAGC
1 GGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
9943958 GGCGTTTGTTGTAAAAGCGCCGCTAAAGATCCTGAACTATAGC
1 GGCGTTTG-TGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * *
9944001 GGCGTTTATGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGC
1 GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
* * * *
9944043 GGCATTTGTGAGGAAAGCGCCGCTAAAGGTCATGGTCTATAGC
1 GGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCTTGATCTATAGC
9944086 GGCGTTT
1 GGCGTTT
9944093 ATTTCCACAA
Statistics
Matches: 228, Mismatches: 31, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
42 44 0.19
43 167 0.73
44 17 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTGAAAAAGCGCCGCTAAAGGTCTTGATCTATAGC
Found at i:9944064 original size:128 final size:130
Alignment explanation
Indices: 9943820--9944092 Score: 367
Period size: 128 Copynumber: 2.1 Consensus size: 130
9943810 AAACGTTTGT
* * * * *
9943820 TCTATAGCGGCGTTTTCTGATAAAAGCACCGCTAAAGGTCTTGATCTATAGTGGCGTTTGTAGAA
1 TCTATAGCGGCGTTTTCTGATAAAAGCACCGCTAAAGATCCTGAACTATAGCGGCGTTTATAGAA
* * * *
9943885 AAAGCGCCGCTAAAGGTCTTGATCTACAGCGGCGTTTGTGGAAAAATCGCCGCTAAAGGTCTTGA
66 AAAGCGCCGCTAAAGGTCCTGATCTACAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATG-
9943950 G
130 G
* *
9943951 -CTATAGCGGCGTTTGT-TG-TAAAAGCGCCGCTAAAGATCCTGAACTATAGCGGCGTTTAT-GG
1 TCTATAGCGGCGTTT-TCTGATAAAAGCACCGCTAAAGATCCTGAACTATAGCGGCGTTTATAGA
* *
9944012 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCATTTGT-GAGGAAAGCGCCGCTAAAGGTCAT
65 AAAAGCGCCGCTAAAGGTCCTGATCTACAGCGGCATTTGTGGA-AAAAGCGCCGCTAAAGGTCAT
9944076 GG
129 GG
9944078 TCTATAGCGGCGTTT
1 TCTATAGCGGCGTTT
9944093 ATTTCCACAA
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
127 3 0.02
128 71 0.56
129 35 0.28
130 16 0.13
131 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (130 bp):
TCTATAGCGGCGTTTTCTGATAAAAGCACCGCTAAAGATCCTGAACTATAGCGGCGTTTATAGAA
AAAGCGCCGCTAAAGGTCCTGATCTACAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:9947354 original size:30 final size:31
Alignment explanation
Indices: 9947310--9947369 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
9947300 TTTCTTATGC
*
9947310 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATATCTCGATACCAATATCTTTGACTTTT
*
9947341 CAATAT-TTGATACCAATATCTTTGACTTT
1 CAATATCTCGATACCAATATCTTTGACTTT
9947370 ATTTGATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
CAATATCTCGATACCAATATCTTTGACTTTT
Found at i:9947372 original size:25 final size:25
Alignment explanation
Indices: 9947344--9947394 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
9947334 GACTTTTCAA
9947344 TATTTGATAC-CAATATCTTTGACTT
1 TATTTGATACAC-ATATCTTTGACTT
*
9947369 TATTTGATACACATATCTTTGGCTT
1 TATTTGATACACATATCTTTGACTT
9947394 T
1 T
9947395 CCATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (25 bp):
TATTTGATACACATATCTTTGACTT
Found at i:9947989 original size:35 final size:34
Alignment explanation
Indices: 9947950--9948059 Score: 114
Period size: 35 Copynumber: 3.2 Consensus size: 34
9947940 TTGACTTGGC
* *
9947950 TTTATTAATGGAAAATTTAGGTCTTCATTTTTCGT
1 TTTATTAATGGAAATTTTAAGTCTTCA-TTTTCGT
* ** * *
9947985 TTTATTCATGGAAATTTTACTTCTTTGATTTTGGT
1 TTTATTAATGGAAATTTTAAGTC-TTCATTTTCGT
*
9948020 TTTATTAATGGAAATTTTAAGTCTTCAGTTT-GCT
1 TTTATTAATGGAAATTTTAAGTCTTCATTTTCG-T
9948054 TTTATT
1 TTTATT
9948060 CTTGCACATT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
33 1 0.02
34 13 0.21
35 45 0.73
36 3 0.05
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.55
Consensus pattern (34 bp):
TTTATTAATGGAAATTTTAAGTCTTCATTTTCGT
Found at i:9951615 original size:13 final size:13
Alignment explanation
Indices: 9951599--9951623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9951589 CAAGTATTCA
9951599 ACCCAACCCAATT
1 ACCCAACCCAATT
9951612 ACCCAACCCAAT
1 ACCCAACCCAAT
9951624 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9951673 original size:6 final size:6
Alignment explanation
Indices: 9951664--9951699 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
9951654 AAAGAAAATT
*
9951664 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA ATAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA
9951700 AATAAAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:9963758 original size:91 final size:90
Alignment explanation
Indices: 9963663--9963827 Score: 269
Period size: 91 Copynumber: 1.8 Consensus size: 90
9963653 AGTGACACTG
9963663 TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAAATTCTTGTTTAG-TCG
1 TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGC-AAAAAATTCTTGTTTAGAT-G
*
9963727 TCAATTAATGTTGTCTAAGTGACTGTA
64 TCAATAAATGTTGTCTAAGTGACTGTA
* * *
9963754 TTTATATTGTTTTAAGGGCTGCTGTTTGGTGTATTAATGCAGCAGAAAATTGTTGTTTAGATGTC
1 TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATGTC
9963819 AATAAATGT
66 AATAAATGT
9963828 GGTTTGAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
90 26 0.38
91 43 0.62
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (90 bp):
TTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATGTC
AATAAATGTTGTCTAAGTGACTGTA
Found at i:9964912 original size:43 final size:42
Alignment explanation
Indices: 9964840--9964998 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 42
9964830 TACGTGTTTT
* ** * *
9964840 CGTGTAAGACCACATCTGGGATGTTGGCATCGATTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGA-CATGGCATTGATTTGTGATTA
*
9964883 CGTGTAAGACCATGTCTGGGACATCGGCATTG-TATT-TGATT-
1 CGTGTAAGACCACGTCTGGGACAT-GGCATTGAT-TTGTGATTA
* *
9964924 CGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATATGATTA
1 CGTGTAAGACCAC-GTCTGGGACA-TGGCATTGATTTGTGATTA
* *
9964967 CATGTAAGACCACGTCTGGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGAC-ATGGCATTG
9964999 TACGAGTTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
41 29 0.30
42 13 0.13
43 54 0.56
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATGGCATTGATTTGTGATTA
Found at i:9964940 original size:41 final size:41
Alignment explanation
Indices: 9964880--9965000 Score: 147
Period size: 41 Copynumber: 2.9 Consensus size: 41
9964870 CGATTTGTGT
* *
9964880 TTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACAT-GGCATTGTATATGA
9964922 TT-CGTGTAAGACCCTGTCTGGGACAGTGGCATTGATATATGA
1 TTACGTGTAAGACCCTGTCTGGGACA-TGGCATTG-TATATGA
* *
9964964 TTACATGTAAGACCAC-GTCTGGGACGTTGGCATTGTA
1 TTACGTGTAAGACC-CTGTCTGGGAC-ATGGCATTGTA
9965001 CGAGTTTTCT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
41 29 0.41
42 13 0.19
43 27 0.39
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
TTACGTGTAAGACCCTGTCTGGGACATGGCATTGTATATGA
Found at i:9969581 original size:9 final size:9
Alignment explanation
Indices: 9969564--9969724 Score: 58
Period size: 9 Copynumber: 17.0 Consensus size: 9
9969554 TGATATGAAC
*
9969564 TTATAAAAA
1 TTATTAAAA
9969573 TTATTAAAAA
1 TTATT-AAAA
*
9969583 GTTATAAAAA
1 -TTATTAAAA
*
9969593 TTATAAAAA
1 TTATTAAAA
*
9969602 TCTAAT-AAA
1 T-TATTAAAA
9969611 TTA-TAAAA
1 TTATTAAAA
*
9969619 TTAATAAAA
1 TTATTAAAA
*
9969628 CATATTTAAAA
1 -TTA-TTAAAA
*
9969639 TT-TAAAAA
1 TTATTAAAA
9969647 TGTATTAAAA
1 T-TATTAAAA
*
9969657 TTCAATAAAAA
1 TT--ATTAAAA
* *
9969668 TCATGAAAAA
1 TTAT-TAAAA
* *
9969678 ATATAAAAA
1 TTATTAAAA
*
9969687 GTATTAAAA
1 TTATTAAAA
* *
9969696 GTGATTTAAAC
1 -TTA-TTAAAA
*
9969707 TTATAAAAA
1 TTATTAAAA
9969716 TTATTAAAA
1 TTATTAAAA
9969725 ATAGATAAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
7 1 0.01
8 14 0.12
9 51 0.44
10 29 0.25
11 21 0.18
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (9 bp):
TTATTAAAA
Found at i:9969587 original size:20 final size:19
Alignment explanation
Indices: 9969564--9969726 Score: 99
Period size: 19 Copynumber: 8.5 Consensus size: 19
9969554 TGATATGAAC
9969564 TTATAAAAATTATTAAAAA
1 TTATAAAAATTATTAAAAA
9969583 GTTATAAAAATTA-TAAAAA
1 -TTATAAAAATTATTAAAAA
*
9969602 TCTA-ATAAATTA-T-AAAA
1 T-TATAAAAATTATTAAAAA
*
9969619 TTAATAAAACA-TATTTAAAA
1 TT-ATAAAA-ATTATTAAAAA
9969639 TT-TAAAAATGTATT-AAAA
1 TTATAAAAAT-TATTAAAAA
* *
9969657 TTCAATAAAAATCATGAAAAA
1 TT--ATAAAAATTATTAAAAA
* * *
9969678 ATATAAAAAGTATTAAAAG
1 TTATAAAAATTATTAAAAA
* * *
9969697 TGATTTAAACTTA-TAAAAA
1 TTA-TAAAAATTATTAAAAA
9969716 TTATTAAAAAT
1 TTA-TAAAAAT
9969727 AGATAAAAAC
Statistics
Matches: 112, Mismatches: 18, Indels: 27
0.71 0.11 0.17
Matches are distributed among these distances:
16 1 0.01
17 7 0.06
18 25 0.22
19 41 0.37
20 26 0.23
21 12 0.11
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (19 bp):
TTATAAAAATTATTAAAAA
Found at i:9969596 original size:29 final size:28
Alignment explanation
Indices: 9969564--9969735 Score: 120
Period size: 29 Copynumber: 6.0 Consensus size: 28
9969554 TGATATGAAC
9969564 TTATAAAAATTATTAAAAAGTTATAAAAA
1 TTATAAAAATTATTAAAAA-TTATAAAAA
*
9969593 TTATAAAAATCTA--ATAAATTAT-AAAA
1 TTATAAAAAT-TATTAAAAATTATAAAAA
*
9969619 TTAATAAAACA-TATTTAAAATT-TAAAAA
1 TT-ATAAAA-ATTATTAAAAATTATAAAAA
* * *
9969647 TGTATTAAAATTCAATAAAAATCATGAAAAA
1 T-TATAAAAATT-ATTAAAAATTAT-AAAAA
* * * * * *
9969678 ATATAAAAAGTATTAAAAGTGATTTAAAC
1 TTATAAAAATTATTAAAAATTA-TAAAAA
*
9969707 TTATAAAAATTATTAAAAATAGATAAAAA
1 TTATAAAAATTATTAAAAAT-TATAAAAA
9969736 CTTAAACAGG
Statistics
Matches: 110, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
26 8 0.07
27 12 0.11
28 21 0.19
29 50 0.45
30 14 0.13
31 5 0.05
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (28 bp):
TTATAAAAATTATTAAAAATTATAAAAA
Found at i:9969609 original size:11 final size:9
Alignment explanation
Indices: 9969528--9969726 Score: 97
Period size: 10 Copynumber: 21.2 Consensus size: 9
9969518 ATTTTTTAAT
9969528 ATTA-AAAA
1 ATTATAAAA
9969536 ATT-TAAAA
1 ATTATAAAA
*
9969544 A-TATGAAA
1 ATTATAAAA
*
9969552 ATTGATATGAA
1 ATT-ATA-AAA
*
9969563 CTTATAAAA
1 ATTATAAAA
9969572 ATTATTAAAA
1 ATTA-TAAAA
9969582 AGTTATAAAA
1 A-TTATAAAA
9969592 ATTATAAAA
1 ATTATAAAA
*
9969601 ATCTA-ATAA
1 AT-TATAAAA
9969610 ATTAT-AAA
1 ATTATAAAA
9969618 ATTAATAAAA
1 ATT-ATAAAA
*
9969628 CA-TATTTAAA
1 -ATTA-TAAAA
9969638 ATT-TAAAA
1 ATTATAAAA
*
9969646 ATGTATTAAA
1 AT-TATAAAA
9969656 ATTCAATAAAA
1 ATT--ATAAAA
*
9969667 ATCATGAAAA
1 ATTAT-AAAA
*
9969677 AATATAAAA
1 ATTATAAAA
*
9969686 AGTATTAAAA
1 ATTA-TAAAA
* * *
9969696 GTGATTTAAA
1 ATTA-TAAAA
*
9969706 CTTATAAAA
1 ATTATAAAA
9969715 ATTATTAAAA
1 ATTA-TAAAA
9969725 AT
1 AT
9969727 AGATAAAAAC
Statistics
Matches: 146, Mismatches: 24, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
7 1 0.01
8 26 0.18
9 43 0.29
10 61 0.42
11 15 0.10
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:9969611 original size:18 final size:16
Alignment explanation
Indices: 9969590--9969626 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9969580 AAAGTTATAA
9969590 AAATTATAAAAATCTAAT
1 AAATTAT-AAAAT-TAAT
9969608 AAATTATAAAATTAAT
1 AAATTATAAAATTAAT
9969624 AAA
1 AAA
9969627 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAATTAAT
Found at i:9969654 original size:18 final size:18
Alignment explanation
Indices: 9969564--9969695 Score: 92
Period size: 18 Copynumber: 7.0 Consensus size: 18
9969554 TGATATGAAC
9969564 TTATAAAAATTATTAAAAA
1 TTATAAAAATTATT-AAAA
*
9969583 GTTATAAAAATTATAAAAA
1 -TTATAAAAATTATTAAAA
*
9969602 TCTA-ATAAATTA-TAAAA
1 T-TATAAAAATTATTAAAA
9969619 TTAATAAAACA-TATTTAAAA
1 TT-ATAAAA-ATTA-TTAAAA
9969639 TT-TAAAAATGTATTAAAA
1 TTATAAAAAT-TATTAAAA
* *
9969657 TTCAATAAAAATCATGAAAAA
1 TT--ATAAAAATTAT-TAAAA
* *
9969678 ATATAAAAAGTATTAAAA
1 TTATAAAAATTATTAAAA
9969696 GTGATTTAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.01
17 7 0.08
18 30 0.33
19 18 0.20
20 22 0.24
21 12 0.13
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
TTATAAAAATTATTAAAA
Found at i:9970168 original size:19 final size:20
Alignment explanation
Indices: 9970113--9970172 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
9970103 CCAGTCCAGT
* *
9970113 TCAATTTTTTATAAGTTTATA
1 TCAATTTTTTATTA-TTTTTA
*
9970134 TCAA-TTTTAATGTATTTTTA
1 TCAATTTTTTAT-TATTTTTA
9970154 T-AATTTTTTATTATTTTTA
1 TCAATTTTTTATTATTTTTA
9970173 AGAATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.30
20 18 0.55
21 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TCAATTTTTTATTATTTTTA
Found at i:9970172 original size:30 final size:29
Alignment explanation
Indices: 9970118--9970239 Score: 76
Period size: 30 Copynumber: 4.3 Consensus size: 29
9970108 CCAGTTCAAT
* * * *
9970118 TTTTTATAAGTTTATATCAATTTTAATGTA
1 TTTTTATAATTTTTTATTAATTTTAA-GAA
*
9970148 TTTTTATAATTTTTTATTATTTTTAAGAA
1 TTTTTATAATTTTTTATTAATTTTAAGAA
* * * *
9970177 TTATAATACATTTTTTA-T--TTTAAATAA
1 TTTTTATA-ATTTTTTATTAATTTTAAGAA
*
9970204 CTTTTATTAA--TTTTA-TAATTTATAAGAA
1 TTTTTA-TAATTTTTTATTAATTT-TAAGAA
9970232 TTTTTATA
1 TTTTTATA
9970240 TTATTACAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
25 6 0.08
27 16 0.22
28 11 0.15
29 9 0.12
30 30 0.42
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTTATAATTTTTTATTAATTTTAAGAA
Found at i:9970227 original size:46 final size:46
Alignment explanation
Indices: 9970118--9970284 Score: 125
Period size: 46 Copynumber: 3.6 Consensus size: 46
9970108 CCAGTTCAAT
* * * *
9970118 TTTTTATAAGTTTAT-ATCAATTTTAATGTATTTTTATAATTTTTTATTA
1 TTTTTATAA-TTTATAAT-AATTTT--TATATTATTACAATATTTTATTA
*
9970167 TTTTTA-AGAATTATAATACATTTTT-TATT-TTA-AATAACTTTTATTA
1 TTTTTATA-ATTTATAATA-ATTTTTATATTATTACAAT-A-TTTTATTA
* *
9970213 ATTTTATAATTTATAAGAATTTTTATATTATTACAATATTTATATT-
1 TTTTTATAATTTATAATAATTTTTATATTATTACAATATTT-TATTA
*
9970259 TTTTTATAATTT-TAATAA-GTTTATAT
1 TTTTTATAATTTATAATAATTTTTATAT
9970285 CATTTTTATT
Statistics
Matches: 100, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
44 10 0.10
45 14 0.14
46 43 0.43
47 10 0.10
48 9 0.09
49 14 0.14
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (46 bp):
TTTTTATAATTTATAATAATTTTTATATTATTACAATATTTTATTA
Found at i:9970235 original size:27 final size:28
Alignment explanation
Indices: 9970159--9970235 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 28
9970149 TTTTATAATT
* * *
9970159 TTTTATTATTTTTAAGAATTATAATACA
1 TTTTATAATTTATAAGAATTTTAATACA
* * * *
9970187 TTTTTTATTTTA-AATAACTTTTATTA-A
1 TTTTATAATTTATAAGAA-TTTTAATACA
9970214 TTTTATAATTTATAAGAATTTT
1 TTTTATAATTTATAAGAATTTT
9970236 TATATTATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTATAATTTATAAGAATTTTAATACA
Found at i:9970308 original size:19 final size:19
Alignment explanation
Indices: 9970148--9970311 Score: 70
Period size: 19 Copynumber: 8.8 Consensus size: 19
9970138 TTTTAATGTA
*
9970148 TTTTTATAATTTTTTATTAT
1 TTTTTATAA-TTTTTATAAT
* * * *
9970168 TTTTAAGAATTATAATACAT
1 TTTTTATAATTTTTATA-AT
**
9970188 TTTTTAT--TTTAAATAA-
1 TTTTTATAATTTTTATAAT
*
9970204 CTTTTATTAA-TTTTATAAT
1 TTTTTA-TAATTTTTATAAT
* * *
9970223 TTATAAGAATTTTTAT-A-
1 TTTTTATAATTTTTATAAT
* * * *
9970240 TTATTACAATATTTATATT
1 TTTTTATAATTTTTATAAT
* *
9970259 TTTTTATAATTTTAATAAG
1 TTTTTATAATTTTTATAAT
* * *
9970278 TTTATATCATTTTTATTAT
1 TTTTTATAATTTTTATAAT
*
9970297 TTTTTATGATTTTTA
1 TTTTTATAATTTTTA
9970312 ATCATGTTTA
Statistics
Matches: 103, Mismatches: 33, Indels: 17
0.67 0.22 0.11
Matches are distributed among these distances:
16 5 0.05
17 15 0.15
18 15 0.15
19 54 0.52
20 14 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:9978360 original size:22 final size:22
Alignment explanation
Indices: 9978319--9978361 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9978309 ACAGCAGAAC
* *
9978319 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
*
9978341 AGGTCTTTAGCGGTGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
9978362 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.12, G:0.28, T:0.51
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:9978507 original size:42 final size:42
Alignment explanation
Indices: 9978433--9978786 Score: 446
Period size: 42 Copynumber: 8.4 Consensus size: 42
9978423 ACGTCACTAA
* *
9978433 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
9978477 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
9978519 CTTTAGCGGCGCTTAGAAAGAAACGCC-CTTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGC-TAAAGATCATGTT
* *
9978561 CTTTAGCGGCGCTTATAAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
9978603 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
9978645 CTTTAGCGGCGCTTTGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * ** * *
9978687 CTTTAGCGACGCTTTGGAAGAAAGTGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
9978730 CTATAGCGGCGCTTATTAAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
9978772 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
9978787 TTTCACAAAC
Statistics
Matches: 275, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.01
42 228 0.83
43 32 0.12
44 13 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:9979233 original size:12 final size:12
Alignment explanation
Indices: 9979218--9979245 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9979208 GCTTCTATTA
9979218 CTGCTTCTCTCG
1 CTGCTTCTCTCG
9979230 CTGCTTCTCTCG
1 CTGCTTCTCTCG
9979242 CTGC
1 CTGC
9979246 GGCCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Done.