Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 30 of 75
Found at i:9261690 original size:30 final size:30
Alignment explanation
Indices: 9261654--9261725 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
9261644 CTACACGGCC
*
9261654 AGACACACAGGCTTGTGACTTGGTAGTGTG
1 AGACACACAGGCTTGTGACTTGGCAGTGTG
* *
9261684 AGACACACAGGCGTGTGACTTGGCGGTGTG
1 AGACACACAGGCTTGTGACTTGGCAGTGTG
9261714 AGACACAC-GGCT
1 AGACACACAGGCT
9261726 AGACACAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.21
Consensus pattern (30 bp):
AGACACACAGGCTTGTGACTTGGCAGTGTG
Found at i:9265949 original size:19 final size:19
Alignment explanation
Indices: 9265897--9265950 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
9265887 GCGCTAACGC
* *
9265897 GCCAGGATGCACTTCATGT
1 GCCAGTATGCACTTTATGT
*
9265916 GCCAGTATGCACTTTGTGT
1 GCCAGTATGCACTTTATGT
*
9265935 GCTAGTATGCACTTTA
1 GCCAGTATGCACTTTA
9265951 CATGCTAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (19 bp):
GCCAGTATGCACTTTATGT
Found at i:9265956 original size:19 final size:19
Alignment explanation
Indices: 9265919--9265959 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9265909 TTCATGTGCC
***
9265919 AGTATGCACTTTGTGTGCT
1 AGTATGCACTTTACATGCT
9265938 AGTATGCACTTTACATGCT
1 AGTATGCACTTTACATGCT
9265957 AGT
1 AGT
9265960 TTCCCTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (19 bp):
AGTATGCACTTTACATGCT
Found at i:9270398 original size:26 final size:26
Alignment explanation
Indices: 9270368--9270421 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
9270358 TATTTTTTTT
9270368 ACAAATTAGTCCTTTTTAATTAATTA
1 ACAAATTAGTCCTTTTTAATTAATTA
9270394 ACAAATTAGTCCTTTTTAATTAATTA
1 ACAAATTAGTCCTTTTTAATTAATTA
9270420 AC
1 AC
9270422 TATCTAAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (26 bp):
ACAAATTAGTCCTTTTTAATTAATTA
Found at i:9276625 original size:8 final size:8
Alignment explanation
Indices: 9276612--9276647 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
9276602 TAGACATGGA
9276612 TTTAATTT
1 TTTAATTT
9276620 TTTAATTT
1 TTTAATTT
9276628 TTTAATTT
1 TTTAATTT
9276636 TTTAATTT
1 TTTAATTT
9276644 TTTA
1 TTTA
9276648 TTATAGGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTAATTT
Found at i:9276703 original size:22 final size:23
Alignment explanation
Indices: 9276655--9276702 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9276645 TTATTATAGG
9276655 CCCTGTCACTTATGTATTTTTTC
1 CCCTGTCACTTATGTATTTTTTC
9276678 CCCTGTCACTTATGTATTTTTTC
1 CCCTGTCACTTATGTATTTTTTC
9276701 CC
1 CC
9276703 TTTCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.29, G:0.08, T:0.50
Consensus pattern (23 bp):
CCCTGTCACTTATGTATTTTTTC
Found at i:9279781 original size:18 final size:18
Alignment explanation
Indices: 9279760--9279794 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9279750 AATAAATACT
*
9279760 ATTTACTAAATTAATTTA
1 ATTTAATAAATTAATTTA
*
9279778 ATTTAATTAATTAATTT
1 ATTTAATAAATTAATTT
9279795 TCCAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAATAAATTAATTTA
Found at i:9290120 original size:289 final size:289
Alignment explanation
Indices: 9289601--9290163 Score: 873
Period size: 289 Copynumber: 1.9 Consensus size: 289
9289591 CATTAACAAT
* * * *
9289601 CCAATTTTTGGCTTTTATTTAAAACGTGTGTTTCAATGGTTACAAATTAAGTTTAAAGGACTAGA
1 CCAATTTTTAGCTTTTATTTAAAACATGTGTTTCAATCGCTACAAATTAAGTTTAAAGGACTAGA
* * * *
9289666 TATCATTTAAAACTCATAGTAAGTCGAATGGTTACCTTCGATGGAAGAAAAATGAGCTTTGATGC
66 CATCATTTAAAACTCATAGAAAGTCGAATGGTTACCTTCGATGGAAGAAAAATAAGCTTTGACGC
* * * *
9289731 AAATCTAGAAACAGCCACATTTGGAGAAGATGATGTAGATGATGAAGTTTTTAGTTAATTTTCTT
131 AAATCCAGAAAAAACCACATTTGGAGAAGATGATGTAGATGATGAAGTTTTTAGGTAATTTTCTT
*
9289796 GGTTTTTATTGAGGTTTATAACTTAAGAGATGATAGAAATCAAAAGGAATT-AGAATTTGGAGTT
196 GGTTTTTATAGAGGTTTATAACTTAAGAGATGATAGAAATCAAAAGGAATTAAG-ATTTGGAGTT
9289860 CAAAATTGATTGAAATAGCAATTAAACGAC
260 CAAAATTGATTGAAATAGCAATTAAACGAC
* *
9289890 CCAATTTTTAGCTTTTAATTT-AAACATTTGTTTCAATCGCTACAAATTCAGTTT-AAGAGACTA
1 CCAATTTTTAGCTTTT-ATTTAAAACATGTGTTTCAATCGCTACAAATTAAGTTTAAAG-GACTA
* * *
9289953 GACATCATTTAAAACTCATAGAAATTTGAATGGTTACCTTCGATGGGAGAAAAATAAGCTTTGAC
64 GACATCATTTAAAACTCATAGAAAGTCGAATGGTTACCTTCGATGGAAGAAAAATAAGCTTTGAC
* * *
9290018 GCAAATCCA-AAAAAACTCACGTTTGGAGAAGATGATGTAGATGATGAAGTTTTTGGGTGATTTT
129 GCAAATCCAGAAAAAAC-CACATTTGGAGAAGATGATGTAGATGATGAAGTTTTTAGGTAATTTT
9290082 CTTGGTTTTTATAGAGGTTTATAACTTAAGAGATGATAGAAATCAAAAGGAATTAAGATTTGGAG
193 CTTGGTTTTTATAGAGGTTTATAACTTAAGAGATGATAGAAATCAAAAGGAATTAAGATTTGGAG
9290147 TTCAAAATTGATTGAAA
258 TTCAAAATTGATTGAAA
9290164 CAGTAAGAAA
Statistics
Matches: 249, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
288 8 0.03
289 235 0.94
290 6 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (289 bp):
CCAATTTTTAGCTTTTATTTAAAACATGTGTTTCAATCGCTACAAATTAAGTTTAAAGGACTAGA
CATCATTTAAAACTCATAGAAAGTCGAATGGTTACCTTCGATGGAAGAAAAATAAGCTTTGACGC
AAATCCAGAAAAAACCACATTTGGAGAAGATGATGTAGATGATGAAGTTTTTAGGTAATTTTCTT
GGTTTTTATAGAGGTTTATAACTTAAGAGATGATAGAAATCAAAAGGAATTAAGATTTGGAGTTC
AAAATTGATTGAAATAGCAATTAAACGAC
Found at i:9291958 original size:4 final size:4
Alignment explanation
Indices: 9291949--9291973 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9291939 TTTTTGAAAT
9291949 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
9291974 AGTTTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:9292680 original size:106 final size:106
Alignment explanation
Indices: 9292543--9292754 Score: 399
Period size: 106 Copynumber: 2.0 Consensus size: 106
9292533 AAATTTATAG
*
9292543 ATATAAAATAAACTCAATTAAAATGAGAAAAGATAAGAAAACTTGAAATGTATGTTTGTTTTATT
1 ATATAAAATAAACTCAATTAAAATAAGAAAAGATAAGAAAACTTGAAATGTATGTTTGTTTTATT
9292608 AAAAATAACTTTTATGAAATATTTTTAAGAAATCTATCAAA
66 AAAAATAACTTTTATGAAATATTTTTAAGAAATCTATCAAA
9292649 ATATAAAATAAACTCAATTAAAA-AATGAAAAGATAAGAAAACTTGAAATGTATGTTTGTTTTAT
1 ATATAAAATAAACTCAATTAAAATAA-GAAAAGATAAGAAAACTTGAAATGTATGTTTGTTTTAT
9292713 TAAAAATAACTTTTATGAAATATTTTTAAGAAATCTATCAAA
65 TAAAAATAACTTTTATGAAATATTTTTAAGAAATCTATCAAA
9292755 TAACATAAAA
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
105 1 0.01
106 103 0.99
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (106 bp):
ATATAAAATAAACTCAATTAAAATAAGAAAAGATAAGAAAACTTGAAATGTATGTTTGTTTTATT
AAAAATAACTTTTATGAAATATTTTTAAGAAATCTATCAAA
Found at i:9294193 original size:612 final size:606
Alignment explanation
Indices: 9293036--9294249 Score: 2025
Period size: 612 Copynumber: 2.0 Consensus size: 606
9293026 TGGCAAACTC
9293036 TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
* *
9293101 TTAAATAGATTTCTACTAACTCAACAATGGTTTCACTTCTCCCTATAAATAGATGACACCGGTAG
66 TTAAATAGATTTCTACTAACTCAACAAGGGTTTCACTTCTCCCTATAAATAGATGACACCGGTAA
* * *
9293166 AACTAAATACACAATTTTAAGATATTGTTATTCTGCTCGAAAATAGTGAGAATTTATTTTCTAAG
131 AACTAAATACACAATTTTAAGATATTGTTATTCTACCCGAAAACAGTGAGAATTTATTTTCTAAG
* *
9293231 TATAAATTATGATTTCCGTAATAACAATTCTATTGGTTTCTATTAAAGAGAATTTATTTTTCCTA
196 TATAAATTATGATTTCCGGAATAACAATTCTATTAGTTTCTATTAAAGAGAATTTATTTTTCCTA
* * * * *
9293296 TTGAAAGTAAAGTAAATTATTCTGCTTCTGTATTTGATTCGATTTCGTTCGATCCCACACTCGAA
261 CTAAAAGTAAAGTAAATAATTATGCTTCTGTATTTGATTCGAATTCGTTCGATCCCACACTCGAA
*
9293361 GAGGTTCATGGTAGGAGAATAACGGAGCAAACCATTTGGTTAAAAGCCAAGAATGACAAGGATCC
326 GAGGTTCATGGTAGGAGAATAACGGAGCAAACCATTTAGTTAAAAGCCAAGAATGACAAGGATCC
* *
9293426 GTTTAGTCGAAAACTCATTTGCAATTTCGAGAAATGTTTACTGCTATAAATATCACAAACCAACT
391 GTCTAGTCGAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACCAACT
*
9293491 TAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTACCAAC
456 CAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTACCAAC
9293556 AAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAAAGGATGTTGTAGGTCTTGT
521 AAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAAAGGATGTTGTAGGTCTTGT
9293621 TTTGGGACCTTCTCCCAATGA
586 TTTGGGACCTTCTCCCAATGA
* *
9293642 TAGTATATTTAACTAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTGTTTTTCTAT
1 TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
* *
9293707 TTAAATAGATTTCTACTAACTCAACTAGGGTTTTACTTATTCTCCCTATAAATAGATGACACCGG
66 TTAAATAGATTTCTACTAACTCAACAAGGGTTTCAC---TTCTCCCTATAAATAGATGACACCGG
*
9293772 TAAAACTAAATACACAATTTTGAGATATTGTTATTCTACCCGAAAACAGTGAGAATTTATTTTCT
128 TAAAACTAAATACACAATTTTAAGATATTGTTATTCTACCCGAAAACAGTGAGAATTTATTTTCT
9293837 AAGTATAAATTATGATTTCCGGAATAACAATTCTATTAGTTTCTATTAAAGAGAGAGTTTATTTT
193 AAGTATAAATTATGATTTCCGGAATAACAATTCTATTAGTTTCTATTAAAGAGA-A-TTTATTTT
9293902 TCCTACTAAAAGTAAAGTAAATAATTTATGCTTCTGTATTTGATTCGAATTCGTTCGATCCCACA
256 TCCTACTAAAAGTAAAGTAAATAA-TTATGCTTCTGTATTTGATTCGAATTCGTTCGATCCCACA
* ** **
9293967 CTCGAAGAGGTTCATGGTAGGATAATAGTGGAG-AAGACTGTTTAGTTAAAAGCCAAGAATGACA
320 CTCGAAGAGGTTCATGGTAGGAGAATAACGGAGCAA-ACCATTTAGTTAAAAGCCAAGAATGACA
* * * * **
9294031 AGGATTCGTCTAGTTGAAAACTCATTTGCAATTTTGAGAAAAGTTTATTGCTATAAATATTTCAA
384 AGGATCCGTCTAGTCGAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAA
* *
9294096 ACCAACTCAGTTTTCAAAATTTTAATTTTTCACTGTGCAAGAAAATCATTTTCGAACCATATTTT
449 ACCAACTCAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTT
* * *
9294161 TTCCAACAAAATTGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAATGGATGTTGTAG
514 TACCAACAAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAAAGGATGTTGTAG
9294226 GTCTTGTTTTGGGACCTTCTCCCA
579 GTCTTGTTTTGGGACCTTCTCCCA
9294250 CTGAATATTT
Statistics
Matches: 564, Mismatches: 37, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
606 96 0.17
609 138 0.24
610 1 0.00
611 31 0.05
612 298 0.53
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (606 bp):
TAGTATATTTAAATAAGGTTGTCGTCCCTCTCTCTCCTAGTTAAACTAGGATTTTATTTTTCTAT
TTAAATAGATTTCTACTAACTCAACAAGGGTTTCACTTCTCCCTATAAATAGATGACACCGGTAA
AACTAAATACACAATTTTAAGATATTGTTATTCTACCCGAAAACAGTGAGAATTTATTTTCTAAG
TATAAATTATGATTTCCGGAATAACAATTCTATTAGTTTCTATTAAAGAGAATTTATTTTTCCTA
CTAAAAGTAAAGTAAATAATTATGCTTCTGTATTTGATTCGAATTCGTTCGATCCCACACTCGAA
GAGGTTCATGGTAGGAGAATAACGGAGCAAACCATTTAGTTAAAAGCCAAGAATGACAAGGATCC
GTCTAGTCGAAAACTCATTTGCAATTTCGAGAAAAGTTTACTGCTATAAATATCACAAACCAACT
CAGTTTTCAAAATTTTAATTTTCCACTGTGCAAGAAAATCATTTTCGAACCAGATTTTTACCAAC
AAAATAGACTTGAAACATTATCATGCCATTGCACAAAGAGCATTAAAGGATGTTGTAGGTCTTGT
TTTGGGACCTTCTCCCAATGA
Found at i:9298957 original size:7 final size:7
Alignment explanation
Indices: 9298945--9298975 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
9298935 TTACTAATTG
9298945 ATTCTTT
1 ATTCTTT
9298952 ATTCTTT
1 ATTCTTT
9298959 ATTCTTT
1 ATTCTTT
9298966 ATTCTTT
1 ATTCTTT
9298973 ATT
1 ATT
9298976 TGTGATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTCTTT
Found at i:9309279 original size:19 final size:18
Alignment explanation
Indices: 9309232--9309278 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
9309222 ATTTTAAAAT
9309232 TTTTATTTTTAACT-TTAA
1 TTTTATTTTTAA-TGTTAA
9309250 TTTCTATTTTTAATGTTAA
1 TTT-TATTTTTAATGTTAA
9309269 TTTTATTTTT
1 TTTTATTTTT
9309279 TTATGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTAATGTTAA
Found at i:9309288 original size:20 final size:20
Alignment explanation
Indices: 9309229--9309289 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
9309219 TTAATTTTAA
* *
9309229 AATTTTTATTTTTAA-CTTT
1 AATTTCTATTTTTAATGTTT
9309248 AATTTCTATTTTTAATG-TT
1 AATTTCTATTTTTAATGTTT
*
9309267 AATTT-TATTTTTTTATGTTT
1 AATTTCTA-TTTTTAATGTTT
9309287 AAT
1 AAT
9309290 AAGGGGACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.06
19 29 0.81
20 5 0.14
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
AATTTCTATTTTTAATGTTT
Found at i:9315271 original size:38 final size:38
Alignment explanation
Indices: 9315218--9315299 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
9315208 TGAGATTAGA
*
9315218 TTGCAT-GTTAAACATGGC-CTACATGATATAATCCGAT
1 TTGCATGGTAAAACAT-GCTCTACATGATATAATCCGAT
* *
9315255 TTGCATGGTAAAACATGCTCTACATGATATTATTCGAT
1 TTGCATGGTAAAACATGCTCTACATGATATAATCCGAT
9315293 TTGCATG
1 TTGCATG
9315300 TTCAACATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
37 8 0.20
38 32 0.80
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (38 bp):
TTGCATGGTAAAACATGCTCTACATGATATAATCCGAT
Found at i:9328869 original size:29 final size:30
Alignment explanation
Indices: 9328823--9328879 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
9328813 TAATTTAATA
* *
9328823 TGTAATGTTGTAT-TTAAATTTTGATTTTG
1 TGTAATGTTATATATAAAATTTTGATTTTG
* *
9328852 TGTAATTTTATATATAAAATTTTTATTT
1 TGTAATGTTATATATAAAATTTTGATTT
9328880 AATTCAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (30 bp):
TGTAATGTTATATATAAAATTTTGATTTTG
Found at i:9331402 original size:108 final size:105
Alignment explanation
Indices: 9331131--9331435 Score: 430
Period size: 108 Copynumber: 2.9 Consensus size: 105
9331121 AAGTTAAGAA
* * * * *
9331131 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCACGTTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * *
9331196 TTCCAAACGCAAATATTGCCTCACTTTAAAATTTTAAAAG
66 TTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAAAG
* * * *
9331236 GATATTTGGCTATTTGGTCAAACGAGAAGTCGAAACCCAACATGTTAGGGCACGTTTTCTTGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
9331301 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGC-AAATATTGCCTTATTTTAAAA-TTTAAAAAG
* * *
9331343 GATATTTGGCTATTTCGGTCGAACAAGAAATCGAAACCCAGCACGTTAGGGTACGTTTTCTCGAT
1 GATATTTGGCTATTT-GGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAT
*
9331408 TTTCCAAACGCATAACATTGCCTTATTT
65 TTTCCAAACGCA-AATATTGCCTTATTT
9331436 AGAAAAATTT
Statistics
Matches: 176, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
105 66 0.38
106 19 0.11
107 24 0.14
108 67 0.38
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (105 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAAAG
Found at i:9332005 original size:17 final size:18
Alignment explanation
Indices: 9331983--9332016 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9331973 GTATAAGTAT
9331983 GTGTATTA-AAAATGTAG
1 GTGTATTATAAAATGTAG
9332000 GTGTATTATAAAATGTA
1 GTGTATTATAAAATGTA
9332017 TGCATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (18 bp):
GTGTATTATAAAATGTAG
Found at i:9333758 original size:42 final size:40
Alignment explanation
Indices: 9333674--9333823 Score: 162
Period size: 40 Copynumber: 3.7 Consensus size: 40
9333664 GGTCCTCAAC
* ** *
9333674 CTGCTCCACTGCAACTTCAGGGAGATAAG-GTTGGTTTCGT
1 CTGCTCCACTACTGCTT-AGGGAGATAAGACTTGGTTTCGT
*
9333714 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTTCGT
* * * *
9333756 CTGCTCCACTACTAC-TAGGGAAATAAGACTT-GATGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCG-T
9333795 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
9333824 NNNNNNNNNN
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
38 3 0.03
39 27 0.29
40 28 0.30
41 13 0.14
42 22 0.24
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTTCGT
Found at i:9342315 original size:17 final size:18
Alignment explanation
Indices: 9342293--9342332 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
9342283 ACATGTATAA
9342293 GTATGTGTATTA-AAAAT
1 GTATGTGTATTATAAAAT
9342310 GTATGTGTATTATAAAAT
1 GTATGTGTATTATAAAAT
9342328 GTATG
1 GTATG
9342333 CATGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (18 bp):
GTATGTGTATTATAAAAT
Found at i:9343959 original size:40 final size:41
Alignment explanation
Indices: 9343915--9344439 Score: 325
Period size: 40 Copynumber: 12.9 Consensus size: 41
9343905 GGTCCTCAAC
* *
9343915 CTGCTCCACTGCAACTTCAGGGAGATAAG-GT-TGGTTTCGT
1 CTGCTCCACTACAACTT-AGGGAGATAAGACTGTGGTTTCGT
** *
9343955 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTGT
1 CTGCTCCACTACAACTTAGGGAGATAAGA-CTGTGGTTTCGT
* * * *
9343997 CTGCTCCACTACTAC-TAGGGAAATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
**
9344036 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG-TTCTGT
1 CTGCTCCACTACAACTTAGGGAGATAAGA-CTGTGGTTTC-GT
* ** * * *
9344078 CTACTCCACTACTGCTTAAGGAGATAAGACT-TGATGT-GAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
* * * *
9344118 CTGCTCCACTACTATTTAGGGAGATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
** * *
9344158 CTGCTCCACTACTGCTTAGGGAGATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
** *
9344198 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATGG-TTCTGT
1 CTGCTCCACTACAACTTAGGGAGATAAGA-CTGTGGTTTC-GT
** * * *
9344240 CTGCTCCACTACTGCCTAGGGAGATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
** * *
9344280 CTGCTCCACTACTGCTTAGGGAGATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
* ** *
9344320 TTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGG-TTCTAT
1 CTGCTCCACTACAACTTAGGGAGATAAGA-CTGTGGTTTC-GT
* ** * *
9344362 CTGCTCCAGTACTGCTTAGGGAGATAAGACT-T-GATGCGAT
1 CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCG-T
* **
9344402 CTACTCCACTACCGCTTAGGGAGATAAGATCTGTGGTT
1 CTGCTCCACTACAACTTAGGGAGATAAGA-CTGTGGTT
9344440 CTGATCCATC
Statistics
Matches: 416, Mismatches: 42, Indels: 51
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.01
39 31 0.07
40 230 0.55
41 28 0.07
42 117 0.28
43 7 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
CTGCTCCACTACAACTTAGGGAGATAAGACTGTGGTTTCGT
Found at i:9344164 original size:122 final size:123
Alignment explanation
Indices: 9343915--9344445 Score: 697
Period size: 122 Copynumber: 4.3 Consensus size: 123
9343905 GGTCCTCAAC
* ** * *
9343915 CTGCTCCACTGCAACTTCAGGGAGATAAGGT-TG-GTTTCG-TCTGCTCCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGATTCGATCTGCTCCACTACTGCTTAGGGA
*
9343977 GATAAGATCTGTGGTTTTGTCTGCTCCACTACTA-CTAGGGAAATAAGACTTGATGCGAT
65 GATAAGATCTGTGG-TTTGTCTGCTCCACTACTACCTAGGGAGATAAGACTTGATGCGAT
* * *
9344036 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTACTCCACTACTGCTTAAGGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTC-GATCTGCTCCACTACTGCTTAGGGA
* * **
9344100 GATAAGA-CT-TGATGTGATCTGCTCCACTACTATTTAGGGAGATAAGACTTGATGCGAT
65 GATAAGATCTGTGGTTTG-TCTGCTCCACTACTACCTAGGGAGATAAGACTTGATGCGAT
*
9344158 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTCGATCTGCTCCACTACTGCTTAGGGAG
* *
9344221 ATAAGATCTATGGTTCTGTCTGCTCCACTACTGCCTAGGGAGATAAGACTTGATGCGAT
66 ATAAGATCTGTGGTT-TGTCTGCTCCACTACTACCTAGGGAGATAAGACTTGATGCGAT
* *
9344280 CTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGATTTGCTCCACTACTGCTTAGGGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTCGATCTGCTCCACTACTGCTTAGGGAG
* * * *
9344343 ATAAGATCTGTGGTTCTATCTGCTCCAGTACTGCTTAGGGAGATAAGACTTGATGCGAT
66 ATAAGATCTGTGGTT-TGTCTGCTCCACTACTACCTAGGGAGATAAGACTTGATGCGAT
* * *
9344402 CTACTCCACTACCGCTTAGGGAGATAAGATCTGTGGTTCTGATC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTC-GATC
9344446 CATCCCACTG
Statistics
Matches: 368, Mismatches: 30, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
119 1 0.00
120 47 0.13
121 37 0.10
122 243 0.66
123 33 0.09
124 4 0.01
125 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (123 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTTGTCTGCTCCACTACTACCTAGGGAGATAAGACTTGATGCGAT
Found at i:9344206 original size:162 final size:161
Alignment explanation
Indices: 9343954--9344430 Score: 683
Period size: 162 Copynumber: 2.9 Consensus size: 161
9343944 GTTGGTTTCG
* ** *
9343954 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTG-TCTGCTCCACTACTAC-TAGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GATGCGATCTGCTCCACTACTGCTTAGGG
*
9344017 AAATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTAC
63 AGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TGGTTCTGTCTAC
* *
9344082 TCCACTACTGCTTAAGGAGATAAGACTTGATGTGA
127 TCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
**
9344117 TCTGCTCCACTACTATTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
*
9344182 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATGGTTCTGTCTGCTCC
66 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-TGGTTCTGTCTACTCC
*
9344247 ACTACTGCCTAGGGAGATAAGACTTGATGCGA
130 ACTACTGCTTAGGGAGATAAGACTTGATGCGA
*
9344279 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATTTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * * *
9344344 TAAGATCTGTGGTTCTATCTGCTCCAGTACTGCTTAGGGAGATAAGA-CTTGATGC-GATCTACT
66 TAAGA-CT-TGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGGTTCTG-TCTACT
*
9344407 CCACTACCGCTTAGGGAGATAAGA
128 CCACTACTGCTTAGGGAGATAAGA
9344431 TCTGTGGTTC
Statistics
Matches: 285, Mismatches: 24, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
160 3 0.01
161 17 0.06
162 199 0.70
163 32 0.11
164 34 0.12
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (161 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGGTTCTGTCTACTCCA
CTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:9345097 original size:108 final size:108
Alignment explanation
Indices: 9344896--9345098 Score: 284
Period size: 108 Copynumber: 1.9 Consensus size: 108
9344886 GCTTGACAAA
9344896 GATTATCAAAATGGACAAAATAAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAA
1 GATTATCAAAATGGACAAAATAAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAA
* **
9344961 GATAGCAAATTTTGCTGAGATATGAAATGAATAAGATAAAAAT
66 GATAGCAAATTTTACTGAGATACAAAATGAATAAGATAAAAAT
* * * * ** *
9345004 GATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAATCA
1 GATTATCAAAATGGACAAAAT-AAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCA
9345068 AGATAGCAAATTTTACT-AGAATACAAAATGA
65 AGATAGCAAATTTTACTGAG-ATACAAAATGA
9345099 GAATAAACTA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 78 0.94
109 3 0.04
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (108 bp):
GATTATCAAAATGGACAAAATAAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAA
GATAGCAAATTTTACTGAGATACAAAATGAATAAGATAAAAAT
Found at i:9346732 original size:27 final size:27
Alignment explanation
Indices: 9346694--9346747 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9346684 TTTCCTCTTC
9346694 CTCGTCAACGTTACAACAGTGGGCTGG
1 CTCGTCAACGTTACAACAGTGGGCTGG
9346721 CTCGTCAACGTTACAACAGTGGGCTGG
1 CTCGTCAACGTTACAACAGTGGGCTGG
9346748 AGCATCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (27 bp):
CTCGTCAACGTTACAACAGTGGGCTGG
Found at i:9355426 original size:108 final size:105
Alignment explanation
Indices: 9355167--9355471 Score: 351
Period size: 108 Copynumber: 2.9 Consensus size: 105
9355157 GAAAGTTAAG
* * * * *
9355167 AAGATATTTGGCTATTTGGTTAAACGAGAAATTGAGACCCAGCACGTTAGGGCCCG-TTCTCTCA
1 AAGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTC-CTCG
* * * * *
9355231 AATTTCCAAACGCAAATATTGCCTCACTTTGAAATTTTAAA
65 ATTTTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAA
* * * *
9355272 AGGATATTTGGCTATTTGGTCAAACGAGAAGTCAAAACCCAACACGTTAGGGCACGTTTCCTCGA
1 AAGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
9355337 TTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAA
66 TTTTCCAAACGC-AAATATTGCCTTATTTTAAAA-TTTAAAA
* ** * * * *
9355379 AAGATATTTGGCTATTTTGGTCGAATAAAAAATCGAAACCCAGCACGTTAGGGTATGTTTTCTCG
1 AAGATATTTGGCTA-TTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCG
*
9355444 ATTTTCCAAACGCAAAAAATTGCCTTAT
65 ATTTTCCAAACGC-AAATATTGCCTTAT
9355472 GTAGAAAATT
Statistics
Matches: 167, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
105 63 0.38
106 20 0.12
107 19 0.11
108 65 0.39
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (105 bp):
AAGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCAAATATTGCCTTATTTTAAAATTTAAAA
Found at i:9355964 original size:2 final size:2
Alignment explanation
Indices: 9355957--9355984 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9355947 AAGACTTATG
9355957 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
9355985 AAATGCATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9356043 original size:17 final size:18
Alignment explanation
Indices: 9356021--9356060 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
9356011 ACATGTATAA
9356021 GTATGTGTATTA-AAAAT
1 GTATGTGTATTATAAAAT
9356038 GTATGTGTATTATAAAAT
1 GTATGTGTATTATAAAAT
9356056 GTATG
1 GTATG
9356061 CATGTATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (18 bp):
GTATGTGTATTATAAAAT
Found at i:9358049 original size:17 final size:17
Alignment explanation
Indices: 9358003--9358050 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
9357993 CATGACGAGT
*
9358003 ATAAATTAAAAAAATAA
1 ATAAATTAATAAAATAA
* *
9358020 AAAAATCT-TTAAAATAA
1 ATAAAT-TAATAAAATAA
9358037 ATAAATTAATAAAA
1 ATAAATTAATAAAA
9358051 AAAGTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAATTAATAAAATAA
Found at i:9365530 original size:13 final size:13
Alignment explanation
Indices: 9365508--9365539 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9365498 TTTCGTCTGT
9365508 TTATTGATTTGAA
1 TTATTGATTTGAA
*
9365521 TTATTTATTTGAA
1 TTATTGATTTGAA
9365534 TTATTG
1 TTATTG
9365540 GTATTGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (13 bp):
TTATTGATTTGAA
Found at i:9368348 original size:49 final size:50
Alignment explanation
Indices: 9368273--9368377 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 50
9368263 CTGCCATCTC
* * * * ** *
9368273 CAATCTGTTCAACTGCAATGTTGGGGAAGTAAGATTCACTGTTGTAGCTT
1 CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTT
* *
9368323 CAATCTATT-AACCGCAATGTCGGGGAAGCGAGATTCGCCATCGTAGCTT
1 CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTT
9368372 CAATCT
1 CAATCT
9368378 GTTGCACTGC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 38 0.83
50 8 0.17
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (50 bp):
CAATCTATTCAACCGCAATGTCGGGGAAGCAAGATTCACCATCGTAGCTT
Found at i:9368477 original size:49 final size:49
Alignment explanation
Indices: 9368405--9368498 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
9368395 GGGAAATGAG
* * *
9368405 ATTGCAATGTCGGGGAAGGAAGATTCGCCGTTGTGGCCTCAATCTTTTA
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCCTCAATCTTTTA
*
9368454 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTCAATCT
1 ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCCTCAATCT
9368499 ATTCCACTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (49 bp):
ATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCCTCAATCTTTTA
Found at i:9368507 original size:121 final size:121
Alignment explanation
Indices: 9368286--9368528 Score: 333
Period size: 121 Copynumber: 2.0 Consensus size: 121
9368276 TCTGTTCAAC
* * * *
9368286 TGCAATGTTGGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTAACCGCAATGTCGGGGAAG
1 TGCAATGTCGGGGAAGGAAGATTCACCGTTGTAGCCTCAATCTATTAACCGCAATGTCGGGGAAG
* * * *
9368351 CGAGATTCGCCATCGTAGCTTCAATCTGTTGCACTGCACCGCTAGGGAAATGAGAT
66 CAAGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAATGAGAT
* * * **
9368407 TGCAATGTCGGGGAAGGAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAG
1 TGCAATGTCGGGGAAGGAAGATTCACCGTTGTAGCCTCAATCTATTAACCGCAATGTCGGGGAAG
* * * *
9368472 CAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTGTACTGCCAGGGAAATGTGAT
66 CAAGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAATGAGAT
9368528 T
1 T
9368529 CGCTATTGTA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
121 105 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (121 bp):
TGCAATGTCGGGGAAGGAAGATTCACCGTTGTAGCCTCAATCTATTAACCGCAATGTCGGGGAAG
CAAGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACCGCCAGGGAAATGAGAT
Found at i:9368540 original size:50 final size:50
Alignment explanation
Indices: 9368474--9368628 Score: 166
Period size: 50 Copynumber: 3.1 Consensus size: 50
9368464 CGGGGAAGCA
* *
9368474 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTGTACTGCCAGGGAAATG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAATG
* * * ** * * * **
9368524 TGATTCGCTATTGTAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGCG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAATG
* * * *
9368574 AGATTCGCCATCATAGCTTCAATCTGTTCCACTGCACCGCTAGGGAAATG
1 AGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAATG
9368624 AGATT
1 AGATT
9368629 GCAATGTCGG
Statistics
Matches: 79, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (50 bp):
AGATTCGCCATCGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAATG
Found at i:9368591 original size:100 final size:99
Alignment explanation
Indices: 9368425--9368628 Score: 273
Period size: 100 Copynumber: 2.1 Consensus size: 99
9368415 CGGGGAAGGA
** * * * * *
9368425 AGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAG
1 AGATTCGCTATTGTAGCTTCAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATCATAG
* *
9368490 CTTCAATCTATTCCACTGTACTGCCAGGGAAATG
66 CTTCAATCTATTCCACTGCACCGCCAGGGAAATG
* * *
9368524 TGATTCGCTATTGTAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGCGAGATTCGCCATCATA
1 AGATTCGCTATTGTAGCTTCAATCT-TTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATCATA
* *
9368589 GCTTCAATCTGTTCCACTGCACCGCTAGGGAAATG
65 GCTTCAATCTATTCCACTGCACCGCCAGGGAAATG
9368624 AGATT
1 AGATT
9368629 GCAATGTCGG
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 20 0.22
100 69 0.78
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (99 bp):
AGATTCGCTATTGTAGCTTCAATCTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATCATAG
CTTCAATCTATTCCACTGCACCGCCAGGGAAATG
Found at i:9383621 original size:39 final size:39
Alignment explanation
Indices: 9383539--9383695 Score: 156
Period size: 39 Copynumber: 3.9 Consensus size: 39
9383529 ATTTACATGG
* *
9383539 TAATCACATTAACTTTTAAGCATATAT-ATCACATTAC-ACATA
1 TAATCACA-TAACATTCAAGCATATATCA-CA-ATT-CTA-ATA
* *
9383581 TAATCACATAACATTTAAGCATATATCACAATTCTTATA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAATA
* * * *
9383620 TAATCACGTAACATTCAAACATATATCATAATACTAATA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAATA
* * *
9383659 TAATCACTTAGCATTCAAGCATATATCACAATACTAA
1 TAATCACATAACATTCAAGCATATATCACAATTCTAA
9383696 AAAACATGTT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 70 0.69
40 3 0.03
41 19 0.19
42 9 0.09
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (39 bp):
TAATCACATAACATTCAAGCATATATCACAATTCTAATA
Found at i:9383748 original size:15 final size:15
Alignment explanation
Indices: 9383730--9383772 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
9383720 ATAATATGGT
9383730 CACATATCATATAAA
1 CACATATCATATAAA
* *
9383745 CACATATCACAATACA
1 CACATATCA-TATAAA
9383761 CACATATTCATA
1 CACATA-TCATA
9383773 ATTTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:9395133 original size:8 final size:8
Alignment explanation
Indices: 9395120--9395155 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
9395110 TGTATGCTTG
9395120 TGAAATTA
1 TGAAATTA
9395128 TGAAATTA
1 TGAAATTA
*
9395136 TGAAATTG
1 TGAAATTA
9395144 TGAAATTA
1 TGAAATTA
9395152 TGAA
1 TGAA
9395156 CGTATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (8 bp):
TGAAATTA
Found at i:9395616 original size:335 final size:335
Alignment explanation
Indices: 9394993--9396276 Score: 2138
Period size: 335 Copynumber: 3.9 Consensus size: 335
9394983 AATATTAAAA
9394993 TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
1 TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
9395058 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTGA
66 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGC-T-TG-
*
9395123 AATTATGAAATTATGAAATTGTGAAATTATGAACGTATATGAGATGCTATGACATATGTTATAAG
128 -----TGAAATTATGAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAG
9395188 CTTATGATGACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATAT
188 CTTATGATGACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATAT
9395253 GTGGGTATGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGT
253 GTGGGTATGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGT
9395318 GTATTTCTGGTGAGTGTT
318 GTATTTCTGGTGAGTGTT
9395336 TTGGAATCACTACTTGTAGATGACTT-ATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCC
1 TTGGAATCACTACTTGTAGATGA-TTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCC
*
9395400 TACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTTTG
65 TACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTG
* *
9395465 AAATTATGAAATTGTGAAATTATAAACATAAATGAGATGCTATGACATATGTTATAAGCTTATGA
130 AAATTATGAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAGCTTATGA
*
9395530 TGACTAATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTA
195 TGACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTA
*
9395595 TGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGTTACTCTAAATTTTGGCGAAAGTGTATTTC
260 TGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTC
*
9395660 TGGTGCGTGTT
325 TGGTGAGTGTT
9395671 TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
1 TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
*
9395736 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAGTGTGATATATGTATGCTTGTGA
66 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTGA
9395801 AATT-TGGAAATTGTGAAATTATGAACATATAT--GA-G--ATG-----TG-----A-C------
131 AATTAT-GAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAGCTTATGA
**
9395843 TG---G-TTTGAAAGTGAATATGAGGGTGTGTTTCCCATGCCATGTGATAGTAAATATGTGGGTA
195 TGACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTA
9395904 TGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTC
260 TGTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTC
9395969 TGGTGAGTGTT
325 TGGTGAGTGTT
* * * *
9395980 TTGGAATCACTACTTGTACATGATTCATTGTATATTGGGAATATTTAGAGGAAGCTTAAACTCCT
1 TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
9396045 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTGA
66 ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTGA
9396110 AATTATGAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAGCTTATGAT
131 AATTATGAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAGCTTATGAT
*
9396175 GACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGACAGTAAATATGTGGGTAT
196 GACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTAT
*
9396240 GTTATTCATGCCTTATGAAAGTGTTTATAATGTGCTA
261 GTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTA
9396277 ATGATGTGAA
Statistics
Matches: 886, Mismatches: 25, Indels: 68
0.91 0.03 0.07
Matches are distributed among these distances:
309 285 0.32
310 1 0.00
311 2 0.00
312 1 0.00
313 2 0.00
314 3 0.00
319 3 0.00
320 1 0.00
324 1 0.00
325 3 0.00
330 3 0.00
331 2 0.00
332 1 0.00
333 2 0.00
334 4 0.00
335 447 0.50
341 1 0.00
342 1 0.00
343 121 0.14
344 2 0.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (335 bp):
TTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAACTCCT
ACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTTGTGA
AATTATGAAATTGTGAAATTATGAACATATATGAGATGCTATGACATATGTTATAAGCTTATGAT
GACTGATTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTAT
GTTATTCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTCT
GGTGAGTGTT
Found at i:9396096 original size:309 final size:309
Alignment explanation
Indices: 9395537--9396147 Score: 1127
Period size: 309 Copynumber: 2.0 Consensus size: 309
9395527 TGATGACTAA
9395537 TTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTATGTTATT
1 TTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTATGTTATT
* *
9395602 CATGCCTTGTGAAAGTGTTTATAATGTGTTACTCTAAATTTTGGCGAAAGTGTATTTCTGGTGCG
66 CATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTCTGGTGAG
* * * *
9395667 TGTTTTGGAATCACTACTTGTAGATGATTCATTGTGTATTGGGAATTTTTAGAGGTAGCTTAAAC
131 TGTTTTGGAATCACTACTTGTACATGATTCATTGTATATTGGGAATATTTAGAGGAAGCTTAAAC
*
9395732 TCCTACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAGTGTGATATATGTATGCTT
196 TCCTACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTT
9395797 GTGAAATT-TGGAAATTGTGAAATTATGAACATATATGAGATGTGACTGG
261 GTGAAATTAT-GAAATTGTGAAATTATGAACATATATGAGATGTGACTGG
9395846 TTTGAAAGTGAATATGAGGGTGTGTT-TCCCATGCCATGTGATAGTAAATATGTGGGTATGTTAT
1 TTTGAAAGTGAATATGAGGGTGTGTTGT-CCATGCCATGTGATAGTAAATATGTGGGTATGTTAT
9395910 TCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTCTGGTGA
65 TCATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTCTGGTGA
9395975 GTGTTTTGGAATCACTACTTGTACATGATTCATTGTATATTGGGAATATTTAGAGGAAGCTTAAA
130 GTGTTTTGGAATCACTACTTGTACATGATTCATTGTATATTGGGAATATTTAGAGGAAGCTTAAA
9396040 CTCCTACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCT
195 CTCCTACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCT
9396105 TGTGAAATTATGAAATTGTGAAATTATGAACATATATGAGATG
260 TGTGAAATTATGAAATTGTGAAATTATGAACATATATGAGATG
9396148 CTATGACATA
Statistics
Matches: 293, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
308 1 0.00
309 291 0.99
310 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (309 bp):
TTTGAAAGTGAATATGAGGGTGTGTTGTCCATGCCATGTGATAGTAAATATGTGGGTATGTTATT
CATGCCTTGTGAAAGTGTTTATAATGTGCTACTCTAAATTTTGGCGAAAGTGTATTTCTGGTGAG
TGTTTTGGAATCACTACTTGTACATGATTCATTGTATATTGGGAATATTTAGAGGAAGCTTAAAC
TCCTACTCTAAATTTTGAGAGTAAGTGTTGTCACGCCTATGATTAAATGTGATATATGTATGCTT
GTGAAATTATGAAATTGTGAAATTATGAACATATATGAGATGTGACTGG
Found at i:9396125 original size:16 final size:16
Alignment explanation
Indices: 9396104--9396134 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9396094 ATATGTATGC
9396104 TTGTGAAATTATGAAA
1 TTGTGAAATTATGAAA
9396120 TTGTGAAATTATGAA
1 TTGTGAAATTATGAA
9396135 CATATATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGTGAAATTATGAAA
Found at i:9397867 original size:32 final size:33
Alignment explanation
Indices: 9397797--9397867 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
9397787 AAGAGAGAAG
*
9397797 AATATAAGTTTTCATTGGAACTTATTATTAATAT
1 AATATAAGTTTTCATTGGAACTTA-TATAAATAT
9397831 AATATAAGTTTTCATTGGAACTTGA-A-AAATAT
1 AATATAAGTTTTCATTGGAACTT-ATATAAATAT
9397863 AATAT
1 AATAT
9397868 CATTATTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 10 0.29
33 1 0.03
34 23 0.66
35 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (33 bp):
AATATAAGTTTTCATTGGAACTTATATAAATAT
Found at i:9398712 original size:20 final size:20
Alignment explanation
Indices: 9398643--9398745 Score: 80
Period size: 20 Copynumber: 5.2 Consensus size: 20
9398633 AAATAAACTG
* *
9398643 CCAGAAATGTGGACATGCCA
1 CCAGTAATGTGGACAAGCCA
* * * * *
9398663 CTAGTATTGTAGACGAGCTA
1 CCAGTAATGTGGACAAGCCA
* * *
9398683 ACAATAATGTGGACAGGCCA
1 CCAGTAATGTGGACAAGCCA
* *
9398703 CCAGTAATGTAGACAAGCTA
1 CCAGTAATGTGGACAAGCCA
* *
9398723 CCAGTATTATGGACAAGCCA
1 CCAGTAATGTGGACAAGCCA
9398743 CCA
1 CCA
9398746 AAATTGAAGA
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (20 bp):
CCAGTAATGTGGACAAGCCA
Found at i:9398736 original size:40 final size:40
Alignment explanation
Indices: 9398652--9398745 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
9398642 GCCAGAAATG
* * * * *
9398652 TGGACATGCCACTAGTATTGTAGACGAGCTAACAATAATG
1 TGGACAAGCCACCAGTAATGTAGACAAGCTAACAATAATA
* * * *
9398692 TGGACAGGCCACCAGTAATGTAGACAAGCTACCAGTATTA
1 TGGACAAGCCACCAGTAATGTAGACAAGCTAACAATAATA
9398732 TGGACAAGCCACCA
1 TGGACAAGCCACCA
9398746 AAATTGAAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (40 bp):
TGGACAAGCCACCAGTAATGTAGACAAGCTAACAATAATA
Found at i:9416318 original size:16 final size:17
Alignment explanation
Indices: 9416277--9416319 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9416267 TCGCTTTCAA
9416277 TTTCTTTTTCAATCTCTT
1 TTTC-TTTTCAATCTCTT
*
9416295 TTTGCTTTTCACTCTC-T
1 TTT-CTTTTCAATCTCTT
9416312 TTTCTTTT
1 TTTCTTTT
9416320 TGAAATCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 13 0.57
19 1 0.04
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTCTTTTCAATCTCTT
Found at i:9417560 original size:11 final size:11
Alignment explanation
Indices: 9417531--9417560 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9417521 TCACAATCAC
9417531 TTTTTTTTCAA
1 TTTTTTTTCAA
*
9417542 TTGTTTTTCAA
1 TTTTTTTTCAA
9417553 TTTTTTTT
1 TTTTTTTT
9417561 TGATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:9419837 original size:269 final size:269
Alignment explanation
Indices: 9419352--9420162 Score: 1232
Period size: 269 Copynumber: 3.0 Consensus size: 269
9419342 ATCTGAGGTC
* * ** * * *
9419352 AAAAATTTTATTTTATCACTACGTTATTGCCAACAACATGATAGTCATACCATATAAAATTTTCG
1 AAAAA-TTTATTTTATTATTATTTTATTGCCTACAACATGATAGTAATACCGTATAAAATTTTCG
* *
9419417 TT-AAAAATTTTACCGTTTACATGCTCAATTTGCTGAAAAGGACTAAATCACGT-AAGTGCAAAA
65 TTAAAAAATTTTACCGTTTACATGCTCAATTTGATAAAAAGGACT-AATCACGTAAAGTGCAAAA
9419480 GTTGAGTTCTAGTAGCTAAAGGTATTAAATAACTATAGAACCTTAAAGTAAGAGTCCTTATGTGG
129 GTTGAGTTCTAGTAGCTAAAGGTATTAAATAACTATAGAACCTTAAAGTAAGAGTCCTTATGTGG
* * *
9419545 TAATTAGACCACTAATTGTGATAGTGGAATATGATGGCTTGGTAATACTGAAAATTG-AATATTT
194 TAATTAGACCACTAATGGTGATAGTGGAATATGATGGCTTGGTAATATTGAAATTTGTAATATTT
9419609 TAAAAGGTTAT
259 TAAAAGGTTAT
* *
9419620 AAAAATTTATTTTATTGTTATTTTATTGCCTACAACATGATAGTAATATCGTATAAAATTTTCGT
1 AAAAATTTATTTTATTATTATTTTATTGCCTACAACATGATAGTAATACCGTATAAAATTTTCGT
* *
9419685 TAAAAAATTTTACCGTTTACATGCTCAATTTGATAAAAAAGACTATATCACGTAAAGTGTAAAAG
66 TAAAAAATTTTACCGTTTACATGCTCAATTTGATAAAAAGGACTA-ATCACGTAAAGTGCAAAAG
* * *
9419750 TTGAGTTCTAGTAGCTAAAGATATTAAATAACTATAGATCCTTAAAGTAAGAGTCCTTCTGTGGT
130 TTGAGTTCTAGTAGCTAAAGGTATTAAATAACTATAGAACCTTAAAGTAAGAGTCCTTATGTGGT
9419815 AATTAGACCACTAATGGTGATAGTGGAATATGATGGCTTGGTAATATTGAAATTTGTAATATTTT
195 AATTAGACCACTAATGGTGATAGTGGAATATGATGGCTTGGTAATATTGAAATTTGTAATATTTT
9419880 AAAAGGTTAT
260 AAAAGGTTAT
* *
9419890 AAAAATTTATTTTATTATTATTTTATTGCCTACAACATGATCGTAATACCGTATAAAATTTTCCT
1 AAAAATTTATTTTATTATTATTTTATTGCCTACAACATGATAGTAATACCGTATAAAATTTTCGT
* * * *
9419955 TAAGAAATTTTACCGTTTACATGCTCAATTTGGTAAAAAGGACTAAACACATAAAGTGCAAAAGT
66 TAAAAAATTTTACCGTTTACATGCTCAATTTGATAAAAAGGACTAATCACGTAAAGTGCAAAAGT
* * * * *
9420020 AGAGTTGTAGTAGCTCAAGGTATTAAATAACTATAGAACCTTAAAGTAATAGTCCTTATATGGTA
131 TGAGTTCTAGTAGCTAAAGGTATTAAATAACTATAGAACCTTAAAGTAAGAGTCCTTATGTGGTA
* * * * * ** *
9420085 ATAAGATCACTAATGTTGAAAGTGAAATATGATGGCTTTATAATATTGAAATTTGTATTATTTTA
196 ATTAGACCACTAATGGTGATAGTGGAATATGATGGCTTGGTAATATTGAAATTTGTAATATTTTA
9420150 AAAGGTTAT
261 AAAGGTTAT
9420159 AAAA
1 AAAA
9420163 GTAAATTAAT
Statistics
Matches: 494, Mismatches: 45, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
267 53 0.11
268 51 0.10
269 269 0.54
270 121 0.24
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (269 bp):
AAAAATTTATTTTATTATTATTTTATTGCCTACAACATGATAGTAATACCGTATAAAATTTTCGT
TAAAAAATTTTACCGTTTACATGCTCAATTTGATAAAAAGGACTAATCACGTAAAGTGCAAAAGT
TGAGTTCTAGTAGCTAAAGGTATTAAATAACTATAGAACCTTAAAGTAAGAGTCCTTATGTGGTA
ATTAGACCACTAATGGTGATAGTGGAATATGATGGCTTGGTAATATTGAAATTTGTAATATTTTA
AAAGGTTAT
Found at i:9421180 original size:25 final size:25
Alignment explanation
Indices: 9421152--9421217 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
9421142 TCGTATTAGT
*
9421152 ATACCGATTTATAGCTCGTGAGAGC
1 ATACCGATTTATAGCTCGAGAGAGC
* *
9421177 ATACCAATCTT-TAGCTCGAGTGAGC
1 ATACCGAT-TTATAGCTCGAGAGAGC
* *
9421202 ATATCGATTCATAGCT
1 ATACCGATTTATAGCT
9421218 TGTATAAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.03
25 30 0.91
26 2 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
ATACCGATTTATAGCTCGAGAGAGC
Found at i:9430753 original size:10 final size:10
Alignment explanation
Indices: 9430738--9430768 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9430728 GGTTAGGAAA
9430738 TATCTGGTAT
1 TATCTGGTAT
*
9430748 TATCTGGAAT
1 TATCTGGTAT
9430758 TATCTGGTAT
1 TATCTGGTAT
9430768 T
1 T
9430769 TGTGCCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (10 bp):
TATCTGGTAT
Found at i:9438506 original size:36 final size:36
Alignment explanation
Indices: 9438412--9438512 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
9438402 TGTGTTCTAG
* *** * *
9438412 AGGGATTAGCTCGTGTGAGCATCCAGTGTGTTTCGG
1 AGGGATTGGCTCGTGTGAGCATTTGGTGTGTTACGC
* *
9438448 AGGGATTGGCTCATGCGAGCATTTGGTGTGTTACGC
1 AGGGATTGGCTCGTGTGAGCATTTGGTGTGTTACGC
*
9438484 AGGGATTGGCTTGTGTGAGCATTTGGTGT
1 AGGGATTGGCTCGTGTGAGCATTTGGTGT
9438513 TTTGGTTGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.16, C:0.14, G:0.38, T:0.33
Consensus pattern (36 bp):
AGGGATTGGCTCGTGTGAGCATTTGGTGTGTTACGC
Found at i:9443017 original size:50 final size:50
Alignment explanation
Indices: 9442894--9443090 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 50
9442884 ATTTGGGTAA
* * * *
9442894 AGAGATCCCATGTAAGACCATG-CTGGGACATGGAATTGGTATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATG
9442949 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * * * * *
9442999 AGAGGTTCCC-CGTAAGACCATGTCTCGGACATGGCATGGGCATCTATATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * *
9443049 AGAACTCCCATGTAAGACCATATCCGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
9443091 GTACAAGAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.03
50 71 0.59
51 4 0.03
53 2 0.02
55 21 0.17
56 19 0.16
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:9445776 original size:39 final size:39
Alignment explanation
Indices: 9445722--9445859 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
9445712 AACATGTTTT
* * *
9445722 TGAGTATTGTGATATATGCTTGAATGGTATGTGATTATA
1 TGAGTAATATGATATATGCTTGAATGATATGTGATTATA
* *
9445761 TGAGTATTATGATATATGCTTGAATGATATGTGATTAAA
1 TGAGTAATATGATATATGCTTGAATGATATGTGATTATA
* * *
9445800 TGAGTAATGTGATATATGCTTTAATGTTATGTGATTATA
1 TGAGTAATATGATATATGCTTGAATGATATGTGATTATA
* *
9445839 TGTGTAATATGATATTTGCTT
1 TGAGTAATATGATATATGCTT
9445860 AAAAGTGAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTAATATGATATATGCTTGAATGATATGTGATTATA
Found at i:9445795 original size:22 final size:22
Alignment explanation
Indices: 9445770--9445840 Score: 53
Period size: 22 Copynumber: 3.4 Consensus size: 22
9445760 ATGAGTATTA
9445770 TGATATATGCTTGAATGATATG
1 TGATATATGCTTGAATGATATG
** *
9445792 TGAT-TA--AATGAGT-A-ATG
1 TGATATATGCTTGAATGATATG
* *
9445809 TGATATATGCTTTAATGTTATG
1 TGATATATGCTTGAATGATATG
9445831 TGATTATATG
1 TGA-TATATG
9445841 TGTAATATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 11
0.65 0.15 0.20
Matches are distributed among these distances:
17 7 0.20
18 3 0.09
19 4 0.11
20 3 0.09
21 2 0.06
22 10 0.29
23 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (22 bp):
TGATATATGCTTGAATGATATG
Found at i:9448097 original size:482 final size:481
Alignment explanation
Indices: 9447392--9451032 Score: 4280
Period size: 482 Copynumber: 7.6 Consensus size: 481
9447382 TATTCCATTA
* * * * * * *
9447392 TTGACTTGGAAATAAAATCCGCAAGAAGTGAGCTCTATAGATTTATTCCATTGAGAAGTATCTTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* * * * * *
9447457 GTTTTTCTAAGAGAAAATAGATAGTTTAGAATTTGGGAGTATTAATACTTATGAAAGATGTACGA
66 GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGA
* * ** ** * *
9447522 GTTCCTCAGTTTGTGC-TCGCCTGTGTTATGTAGTATTGAAATCTGAGTTACCTTGTATCCACCA
131 GTTCGTAAGTTTGT-CTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCA
* * *
9447586 TATTTGAATAGTATCATATCTCGTTCTAGAATTATATGGTACTTGAGTTGTTTGATATCTTTGGC
195 TATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAGGC
* * * * *
9447651 ATTTTTGTGTTTTGTAACGAAGTTTTTTTGAATTCTTCTAAATGATCTCGATAGTTTATAATCAG
260 ATTTTTGTGTTTTGTAAC-AAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCAG
* * * * * *
9447716 TTTGAGGATAAGTTAGGTTTGAAACTGGGAAATGATTTTATTGGTAGACAATTAGTATCAAATTC
324 TTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTC
* * * *
9447781 AGTACT-GGAATCCTTCGAATGTGACTTCAGATAGTAATTGTCGGCCCATGAATTGTATCTATGC
389 AGTA-TGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATGC
*
9447845 ACAACTATTCTAGGAAAAAATATTAAGTG
453 ACAATTATTCTAGGAAAAAATATTAAGTG
* * * **
9447874 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTGGAGTTATTCCTTTGAGAAGTATCTAC
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* * * * *
9447939 GATTTTAAAAGAGAAAACAAATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAAATAAGA
66 GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGA
* * * * *
9448004 GTTCGTAAGTTTGCCTTCGCGTATGCAATGTAGGGTTGAAATTTGAGTTATCTGCTATCCACCAT
131 GTTCGTAAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCAT
* ** * * *
9448069 ATTTGAATAGTATCATATCTCGTTCTAGAATTATATCTTATTTGAGTTATTCGATATCTT-GTGT
196 ATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAG-GC
* * * *
9448133 ATTTTTTGTGTTTTGCAGCATAGATTTGTGGAATTCTTCTAAATGATATGGATAGTTCATTATCA
260 A-TTTTTGTGTTTTGTAACA-AGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCA
* ** ** * * * *
9448198 GTTTGAGGGTAGGTAAGGTTTGAAACTTTGATATGATTTGATTGGTATACTGGT-GTTTTTAAAT
323 GTTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAG-TATCAAAT
* * * * *
9448262 TTAGTATGGGAATCCGTCGAATGTGAATTCAGATTGGAATTCTCCGCCCATGAATAGTATCTTTG
387 TCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATG
* * * * * *
9448327 CATAACTCTTCT-TGAAGGATATATTAAGTG
452 CACAATTATTCTAGGAA-AAAATATTAAGTG
* * *
9448357 TTGAATTGGAATGAAAATCCGTAGGAAGTGAGCTCTGTAAAGTTATTCCTTTGAGAAGTGTCTTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
*
9448422 -TTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGG-GCTATTAATAGTTATGAAAGATATTAA
66 GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAG-TATTAATAGTTATGAAAGATA-TAA
* * * * *
9448485 -AGTTC-TAGAGTTTCTGTTTGCCTGTTCAA-GTAGGGTTGAAATCTGAGTTATCTGGTATCCAG
129 GAGTTCGTA-AGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
* *
9448547 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGG-AATTGTAGTTGTTTGATATCTTG
193 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTG-AGTTGTTTGATATCTTA
* ** * * * * * *
9448611 GGTATTTTTGTGTACTGTAACATACATTTGTTGAACTCTTCTAAATGACCTAGATAGTTAATTAT
257 GGCATTTTTGTGTTTTGTAACA-AGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTAT
* * ** * * *
9448676 CTGTTTGAGTGTTGGTTGGGCTTGAAACTGGGATATGATTTGATTGGTTGACTTGTAGTATCAAA
321 CAGTTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAA
* *
9448741 TTCAGTATGGGCATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTAC
386 TTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTAT
* * * * * *
9448806 GGACAACTCTTTTGGGAGAAAATATTAAGTG
451 GCACAATTATTCTAGGAAAAAATATTAAGTG
* * * * * *
9448837 TTGACCTGGAAAGAAAATCCGTTGCAAGTGAGCTGTTTAGAGTTATTCCTTTGAGAAATGTCTTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* * * *
9448902 GTTTTTATAAGAGAAAAGAGAAAGTTTAGGATTTGGGTGTATTAATAGTTATGAAAGATATAAGA
66 GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGA
* * * *
9448967 GTAT-GTCAGTTTGTCTTTGCCTATTG-AATGTAAGGTTGAAATCTGAGTTATCTGGTATCCACC
131 GT-TCGTAAGTTTGTCTTCGCCT-GTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACC
* * ** * *
9449030 ATATCTGAATAGTATCATATCTCATTCTAGAATTGTATGGTGCTTGAGTTGTTGGATATCTTGGG
194 ATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAGG
* * * * *
9449095 TATTTTTGTGGTTTGTAACGCAGATGTGTGGAATTCTTCTAAATGATCTGGATAGTTCATTATCA
259 CATTTTTGTGTTTTGTAAC-AAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCA
* * *
9449160 GTTTGAGGGTAGGTTGGGTTTGAAACTAGGATATGATTTGATTGGTAAACT-GTTAGTATCAAAT
323 GTTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAG-TAGTATCAAAT
* * * * *
9449224 TCAGTATGGCAATCTGTCGAATGTGACTTCAGATAGTAATTGTCTGCCCATGAATATTATCTATG
387 TCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATG
*
9449289 CACAATTATTCTACTG-AAAAATATTAAGTG
452 CACAATTATTCTA-GGAAAAAATATTAAGTG
* * * * * * * *
9449319 TTGACTTGGAAAGAAAATTCATAGGAAATGAGCTCCGTAGAGTTATTCCTTTGATACGTGTCATC
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* * * * *
9449384 GTTTTTGTAAGAGAAAAGAGATAGTTTAGAATTTAGGAGTATTAAGAGTTATGAAAGATATAAGT
66 GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGA
* * * * *
9449449 GTTTGTCAGTTTGTGTTCGCCTCTGCACTGTAGGGTTGAAATCTGAGTTATCT-G-AT-----AT
131 GTTCGTAAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCAT
* * *
9449507 -CCT---TA-TATCATATCTCGTTCTAGTATTATATGGTATTTGAGTTGTTTGATATCTCAGGCA
196 ATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAGGCA
* * *
9449567 TTTTTGGGTTTTGTAACATAGCTTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCGGT
261 TTTTTGTGTTTTGTAACA-AGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCAGT
* * * * * *
9449632 TTGAGGATAAGTTGGGTTTGAAATTGGGATACGAATTGATTGGTAGACTGGTATTATCAAATTCA
325 TTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTCA
* * * * * * *
9449697 GTATGGGAATCCTTCGAATGTGACTTCAAATAGTAATTTTCCACCCATGAATTGTATATATGCAC
390 GTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATGCAC
9449762 AATTATTCTAGGAAAAAAAATATTAAGTG
455 AATTATTCTAGG--AAAAAATATTAAGTG
* * * * *
9449791 TTAACTAGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTAAAAAATGTCTTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* * * *
9449856 GCA-TTTCTAAGAAAAAAAAGATAGTTTAGAATTTGGGAGTATTAAGAGTTATGAAAGATATAAG
66 G-ATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAG
* * * * * *
9449920 AGTTTGTCAGTTTGTGTTCGCCTGTGGAATGTAGGGTTGAAATCTAAGTTATCTTGTATCCACCA
130 AGTTCGTAAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCA
* * *
9449985 TATTTGAATAGTATCATATCTCGTTCTAGAATTATATGGCT-TTTGAGTTGCTTGATATATTAGG
195 TATCTGAATAGTATCATATCTCGTTCTAGAATTATATGG-TATTTGAGTTGTTTGATATCTTAGG
* *
9450049 CA-TGTTGTGTTTTGTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGTTAGTTTATTATCA
259 CATTTTTGTGTTTTGTAAC-AAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCA
** *
9450113 GTTTGAGGGTAAGTTTTGTTTGAAACTGGGATATGAATTGATTGGTAGACTAGTAGTATCAAATT
323 GTTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAATT
* * * * * *
9450178 CAGTTTGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCACTCAAGAATAGTATATATGC
388 CAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATGC
*
9450243 ACAATTATTCTGGGAAAAAAATATTAAGTG
453 ACAATTATTCTAGG-AAAAAATATTAAGTG
* * * * * *
9450273 TTAACTAGGAAAGAAAATTCGTGGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAATTGTCTTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
* *
9450338 GCA-TTTCTAAGAAAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGT-GTTATGAAAGATATAA
66 G-ATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAA-TAGTTATGAAAGATATAA
* * *
9450401 GAGTTCGTCAA-TGTGTGTTCGCCTGTGTAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
129 GAGTTCGT-AAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
* *
9450465 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTTTTTTGAGTTGTTTGATATATTA
193 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGG-TATTTGAGTTGTTTGATATCTTA
* * * *
9450530 CGCA-TGTTGTGTTTTGTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGTTAGTTTATTGT
257 GGCATTTTTGTGTTTTGTAAC-AAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTAT
* ** * *
9450594 CAGTTTGAGGGTCAGTTTCGTTTGAAATTGGGATATGAATTGATTGGTAGACTAGTAGTATCAAA
321 CAGTTTGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAA
* * * * *
9450659 TTCAGTTTGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCGGCCCAAGAATAGTATATAT
386 TTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTAT
* *
9450724 GCACAATTATTCTGGGAAAAAATATTAAGGG
451 GCACAATTATTCTAGGAAAAAATATTAAGTG
* * * * *
9450755 TTAACTAGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGGGTTCTTCCATTG-GAAAGTGTCTT
1 TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAG-AAGTGTCTT
* * * * *
9450819 CG-TATTTCTAAGAAAAAAGAGATAGTTTAGAATTTGGGAGTGTTAAGAGTTATGAAAGATATAA
65 TGAT-TTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAA
* * * * *
9450883 GAGTTCGTCAGGTTT-TGTTCGCCTGTGCATTGTAGGGTTGAAATCTCATTTATCTGGTATCCAC
129 GAGTTCGT-AAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
* * *
9450947 CATATCTAAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTATTTGATATCTTGG
193 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAG
* *
9451012 GC-TGTCTTATGTTTTGTAACA
258 GCAT-TTTTGTGTTTTGTAACA
9451033 TAAAAAGTTG
Statistics
Matches: 2746, Mismatches: 356, Indels: 115
0.85 0.11 0.04
Matches are distributed among these distances:
469 1 0.00
470 223 0.08
471 3 0.00
472 174 0.06
473 1 0.00
474 4 0.00
475 2 0.00
479 2 0.00
480 245 0.09
481 193 0.07
482 1196 0.44
483 651 0.24
484 50 0.02
485 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (481 bp):
TTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAGAAGTGTCTTT
GATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGA
GTTCGTAAGTTTGTCTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCAT
ATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTAGGCA
TTTTTGTGTTTTGTAACAAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCAGTT
TGAGGGTAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTCAG
TATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATGCACA
ATTATTCTAGGAAAAAATATTAAGTG
Found at i:9449436 original size:963 final size:960
Alignment explanation
Indices: 9447392--9451012 Score: 4277
Period size: 963 Copynumber: 3.8 Consensus size: 960
9447382 TATTCCATTA
* * * * * * * * *
9447392 TTGACTTGGAAATAAAATCCGCAAGAAGTGAGCTCTATAGATTTATTCCATTGAGAAGTATCTTT
1 TTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAAGTGTC-TT
* * * * *
9447457 GTTTTTCTAAGAGAAAATAGATAGTTTAGAATTTGGGAGTATTAATACTTATGAAAGATGTACGA
65 GTTTTTCTAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGAGTTATGAAAGATATA-AA
* * * * ** * *
9447522 GTTCCT-CAGTTTGTGCTCGCCTGTGTTATGTAGTATTGAAATCTGAGTTACCTTGTATCCACCA
129 GTT-CTAGAGTTTGTGTTCGCCTGTGTCAAGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCA
* * * *
9447586 TATTTGAATAGTATCATATCTCGTTCTAGAATTATATGGTACT-TGAGTTGTTTGATATCTTTGG
193 TATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGTGAGTTGTTTGATATCTTAGG
** * * * *
9447650 CATTTTTGTGTTTTGTAACGA-AGTTTTTTTGAATTCTTCTAAATGATCTCGATAGTTTATAATC
258 CATTTTTGTGTTTTGTAAC-ATACATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATC
* * * * *
9447714 AGTTTGAGGATAAGTTAGGTTTGAAACTGGGAAATGATTTTATTGGTAGACAAT-TAGTATCAAA
322 AGTTTGAGGATAAGTTGGGTTTGAAACTGGGATATGAATTGATTGGTAGAC-TTGTAGTATCAAA
* * * * * *
9447778 TTCAGTACT-GGAATCCTTCGAATGTGACTTCAGATAGTAATTGTCGGCCCATGAATTGTATCTA
386 TTCAGTA-TGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCGCCCATGAATAGTATATA
* * *
9447842 TGCACAACTATTCTAGGAAAAAATATTAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGC
450 TGCACAACTATTCTGGGAAAAAATATTAAGTGTTAACTAGGAAAGAAAATCCGTAGGAAGTGAGC
* * * * * * * *
9447907 TTTGTGGAGTTATTCCTTTGAGAAGTATCTACG-ATTTTAAAAGAGAAAACA-AATAGTTTAGAA
515 TCTGTAGAGTTATTCCTTTGAGAAATGTCTTCGTA-TTTATAAGAAAAAAGAGAA-AGTTTAGAA
* * * * * *
9447970 TTTGAGAGTATTAATAGTTATGAAAGAAATAAGAGTTCGTAAGTTTGCCTTCGCGTA-TGCAATG
578 TTTGGGAGTATTAAGAGTTATGAAAGATATAAGAGTTCGTCAGTTTGTCTTCGCCTATTGCAATG
* * *
9448034 TAGGGTTGAAATTTGAGTTATCTGCTATCCACCATATTTGAATAGTATCATATCTCGTTCTAGAA
643 TAGGGTTGAAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCGTTCTAGAA
** * * * *
9448099 TTATATCTTATTTGAGTTATTCGATATCTTGTGTATTTTTTGTGTTTTGCAGCATAGATTTGTGG
708 TTATATGGTATTTGAGTTATT-GATATCTTGGGTA-TTTTTGTGTTTTGTAACAAAGATTTGTGG
* * **
9448164 AATTCTTCTAAATGATATGGATAGTTCATTATCAGTTTGAGGGTAGGTAAGGTTTGAAACTTTGA
771 AATTCTTCTAAATGATCTGGATAGTTCATTATCAGTTTGAGGGTAGGTTAGGTTTGAAACTAGGA
* * * *
9448229 TATGATTTGATTGGTATACTGGT-GTTTTTAAATTTAGTATGGGAATCCGTCGAATGTGAATTCA
836 TATGATTTGATTGGTAAACT-GTAG-TATCAAATTCAGTATGGGAATCCGTCGAATGTGAATTCA
* * * * * * * *
9448293 GATTGGAATTCTCCGCCCATGAATAGTATCTTTGCATAACTCTTCTTGAAGGATATATTAAGTG
899 GATAGTAATTGTCCGCCCATGAATAGTATCTATGCACAATTATTCTTGAA--AAATATTAAGTG
* * * * * *
9448357 TTGAATTGGAATGAAAATCCGTAGGAAGTGAGCTCTGTAAAGTTATTCCTTTGAGAAGTGTCTTT
1 TTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAAGTGTCTTG
* *
9448422 TTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGG-GCTATTAATAGTTATGAAAGATATTAAA
66 TTTTTCTAAGAGAAAAGAGATAGTTTAGAATTTGGGAG-TATTAAGAGTTATGAAAGATA-TAAA
* * *
9448486 GTTCTAGAGTTTCTGTTTGCCTGT-TCAAGTAGGGTTGAAATCTGAGTTATCTGGTATCCAGCAT
129 GTTCTAGAGTTTGTGTTCGCCTGTGTCAAGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCAT
* *
9448550 ATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGT-AGTTGTTTGATATCTTGGGT
194 ATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGTGAGTTGTTTGATATCTTAGGC
** * * * * * *
9448614 ATTTTTGTGTACTGTAACATACATTTGTTGAACTCTTCTAAATGACCTAGATAGTTAATTATCTG
259 ATTTTTGTGTTTTGTAACATACATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCAG
** * * *
9448679 TTTGAGTG-TTGGTTGGGCTTGAAACTGGGATATGATTTGATTGGTTGACTTGTAGTATCAAATT
324 TTTGAG-GATAAGTTGGGTTTGAAACTGGGATATGAATTGATTGGTAGACTTGTAGTATCAAATT
* * * * *
9448743 CAGTATGGGCATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTACGG
388 CAGTATGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCGCCCATGAATAGTATATATGC
* * * * * * *
9448808 ACAACTCTTTTGGGAGAAAATATTAAGTGTTGACCT-GGAAAGAAAATCCGTTGCAAGTGAGCTG
453 ACAACTATTCTGGGAAAAAATATTAAGTGTT-AACTAGGAAAGAAAATCCGTAGGAAGTGAGCTC
* * * * *
9448872 TTTAGAGTTATTCCTTTGAGAAATGTCTTTGTTTTTATAAGAGAAAAGAGAAAGTTTAGGATTTG
517 TGTAGAGTTATTCCTTTGAGAAATGTCTTCGTATTTATAAGAAAAAAGAGAAAGTTTAGAATTTG
* * * *
9448937 GGTGTATTAATAGTTATGAAAGATATAAGAGTAT-GTCAGTTTGTCTTTGCCTATTG-AATGTAA
582 GGAGTATTAAGAGTTATGAAAGATATAAGAGT-TCGTCAGTTTGTCTTCGCCTATTGCAATGTAG
* *
9449000 GGTTGAAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTG
646 GGTTGAAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCGTTCTAGAATTA
** * * ** *
9449065 TATGGTGCTTGAGTTGTTGGATATCTTGGGTATTTTTGTGGTTTGTAACGCAGATGTGTGGAATT
711 TATGGTATTTGAGTTATT-GATATCTTGGGTATTTTTGTGTTTTGTAACAAAGATTTGTGGAATT
*
9449130 CTTCTAAATGATCTGGATAGTTCATTATCAGTTTGAGGGTAGGTTGGGTTTGAAACTAGGATATG
775 CTTCTAAATGATCTGGATAGTTCATTATCAGTTTGAGGGTAGGTTAGGTTTGAAACTAGGATATG
* * *
9449195 ATTTGATTGGTAAACTGTTAGTATCAAATTCAGTATGGCAATCTGTCGAATGTGACTTCAGATAG
840 ATTTGATTGGTAAACTG-TAGTATCAAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAG
* *
9449260 TAATTGTCTGCCCATGAATATTATCTATGCACAATTATTCTACTGAAAAATATTAAGTG
904 TAATTGTCCGCCCATGAATAGTATCTATGCACAATTATTCT--TGAAAAATATTAAGTG
* * * * * *
9449319 TTGACTTGGAAAGAAAATTCATAGGAAATGAGCTCCGTAGAGTTATTCCTTTGATACGTGTCATC
1 TTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAAGTGTC-TT
* *
9449384 GTTTTTGTAAGAGAAAAGAGATAGTTTAGAATTTAGGAGTATTAAGAGTTATGAAAGATAT-AAG
65 GTTTTTCTAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGAGTTATGAAAGATATAAAG
* * *
9449448 TGT-TTGTCAGTTTGTGTTCGCCTCTG-CACTGTAGGGTTGAAATCTGAGTTATCT-G-AT----
130 T-TCTAG--AGTTTGTGTTCGCCTGTGTCA-AGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
* * * *
9449505 -AT-CCT---TA-TATCATATCTCGTTCTAGTATTATATGGTATT-TGAGTTGTTTGATATCTCA
191 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGTGAGTTGTTTGATATCTTA
*
9449563 GGCATTTTTGGGTTTTGTAACATAGC-TTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTA
256 GGCATTTTTGTGTTTTGTAACATA-CATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTA
* * * * *
9449627 TCGGTTTGAGGATAAGTTGGGTTTGAAATTGGGATACGAATTGATTGGTAGACTGGTATTATCAA
320 TCAGTTTGAGGATAAGTTGGGTTTGAAACTGGGATATGAATTGATTGGTAGACTTGTAGTATCAA
* * * * *
9449692 ATTCAGTATGGGAATCCTTCGAATGTGACTTCAAATAGTAATTTTCCACCCATGAATTGTATATA
385 ATTCAGTATGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCGCCCATGAATAGTATATA
* *
9449757 TGCACAATTATTCTAGGAAAAAAAATATTAAGTGTTAACTAGGAAAGAAAATCCGTAGGAAGTGA
450 TGCACAACTATTCT-GG-GAAAAAATATTAAGTGTTAACTAGGAAAGAAAATCCGTAGGAAGTGA
* * * * * * *
9449822 GCTCTGTAGAGTTATTCCTTTAAAAAATGTCTTTGCATTTCTAAGAAAAAAAAGATAGTTTAGAA
513 GCTCTGTAGAGTTATTCCTTTGAGAAATGTCTTCGTATTTATAAGAAAAAAGAGAAAGTTTAGAA
* * * *
9449887 TTTGGGAGTATTAAGAGTTATGAAAGATATAAGAGTTTGTCAGTTTGTGTTCGCCT-GTGGAATG
578 TTTGGGAGTATTAAGAGTTATGAAAGATATAAGAGTTCGTCAGTTTGTCTTCGCCTATTGCAATG
* * *
9449951 TAGGGTTGAAATCTAAGTTATCTTGTATCCACCATATTTGAATAGTATCATATCTCGTTCTAGAA
643 TAGGGTTGAAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCGTTCTAGAA
* * * * *
9450016 TTATATGGCT-TTTGAGTTGCTTGATATATTAGGCA-TGTTGTGTTTTGTAACAAAGATTTGTGG
708 TTATATGG-TATTTGAGTT-ATTGATATCTTGGGTATTTTTGTGTTTTGTAACAAAGATTTGTGG
* * * ** *
9450079 AATTCTTCTAAATGATCTGGTTAGTTTATTATCAGTTTGAGGGTAAGTTTTGTTTGAAACTGGGA
771 AATTCTTCTAAATGATCTGGATAGTTCATTATCAGTTTGAGGGTAGGTTAGGTTTGAAACTAGGA
* * * *
9450144 TATGAATTGATTGGTAGACTAGTAGTATCAAATTCAGTTTGGGAATCCGTCGAATGTGAATTCAA
836 TATGATTTGATTGGTAAACT-GTAGTATCAAATTCAGTATGGGAATCCGTCGAATGTGAATTCAG
* * * * *
9450209 ATAGTAATTGTCCACTCAAGAATAGTATATATGCACAATTATTCTGGGAAAAAAATATTAAGTG
900 ATAGTAATTGTCCGCCCATGAATAGTATCTATGCACAATTATTCT-TG--AAAAATATTAAGTG
* * * *
9450273 TTAACTAGGAAAGAAAATTCGTGGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAATTGTCTTT
1 TTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAAGTGTC-TT
** * *
9450338 GCATTTCTAAGAAAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGTGTTATGAAAGATATAAGA
65 GTTTTTCTAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGAGTTATGAAAGATATAA-A
*
9450403 GTTCGTCA-A-TGTGTGTTCGCCTGTGT-AATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
129 GTTC-T-AGAGTTTGTGTTCGCCTGTGTCAA-GTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
** * *
9450465 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGTTTTTTGAGTTGTTTGATATATTA
191 CATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGTGAGTTGTTTGATATCTTA
* * * * * *
9450530 CGCA-TGTTGTGTTTTGTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGTTAGTTTATTGT
256 GGCATTTTTGTGTTTTGTAACATACATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTAT
* * ** * *
9450594 CAGTTTGAGGGTCAGTTTCGTTTGAAATTGGGATATGAATTGATTGGTAGACTAGTAGTATCAAA
321 CAGTTTGAGGATAAGTTGGGTTTGAAACTGGGATATGAATTGATTGGTAGACTTGTAGTATCAAA
* * *
9450659 TTCAGTTTGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCGGCCCAAGAATAGTATATAT
386 TTCAGTATGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCGCCCATGAATAGTATATAT
* *
9450724 GCACAATTATTCTGGGAAAAAATATTAAGGGTTAACTAGGAAAGAAAATCCGTAGGAAGTGAGCT
451 GCACAACTATTCTGGGAAAAAATATTAAGTGTTAACTAGGAAAGAAAATCCGTAGGAAGTGAGCT
* * * * *
9450789 CTGTAGGGTTCTTCCATTG-GAAAGTGTCTTCGTATTTCTAAGAAAAAAGAGATAGTTTAGAATT
516 CTGTAGAGTTATTCCTTTGAGAAA-TGTCTTCGTATTTATAAGAAAAAAGAGAAAGTTTAGAATT
* * * *
9450853 TGGGAGTGTTAAGAGTTATGAAAGATATAAGAGTTCGTCAGGTTT-TGTTCGCCT-GTGCATTGT
580 TGGGAGTATTAAGAGTTATGAAAGATATAAGAGTTCGTCA-GTTTGTCTTCGCCTATTGCAATGT
* * *
9450916 AGGGTTGAAATCTCATTTATCTGGTATCCACCATATCTAAATAGTATCATATCTCGTTCTAGAAT
644 AGGGTTGAAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCGTTCTAGAAT
9450981 TATATGGTATTTGAGTTATTTGATATCTTGGG
709 TATATGGTATTTGAGTTA-TTGATATCTTGGG
9451013 CTGTCTTATG
Statistics
Matches: 2284, Mismatches: 310, Indels: 125
0.84 0.11 0.05
Matches are distributed among these distances:
951 2 0.00
952 218 0.10
953 188 0.08
954 393 0.17
955 7 0.00
956 7 0.00
957 3 0.00
961 9 0.00
962 246 0.11
963 568 0.25
964 351 0.15
965 62 0.03
966 210 0.09
967 20 0.01
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (960 bp):
TTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTCTGTAGAGTTATTCCTTTGAAAAGTGTCTTG
TTTTTCTAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAAGAGTTATGAAAGATATAAAGT
TCTAGAGTTTGTGTTCGCCTGTGTCAAGTAGGGTTGAAATCTGAGTTATCTGGTATCCACCATAT
CTGAATAGTATCATATCTCGTTCTAGAATTATATGGAATTGTGAGTTGTTTGATATCTTAGGCAT
TTTTGTGTTTTGTAACATACATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATTATCAGTT
TGAGGATAAGTTGGGTTTGAAACTGGGATATGAATTGATTGGTAGACTTGTAGTATCAAATTCAG
TATGGGAATCCGTCGAATGTGAATTCAAATAGTAATTGTCCGCCCATGAATAGTATATATGCACA
ACTATTCTGGGAAAAAATATTAAGTGTTAACTAGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTA
GAGTTATTCCTTTGAGAAATGTCTTCGTATTTATAAGAAAAAAGAGAAAGTTTAGAATTTGGGAG
TATTAAGAGTTATGAAAGATATAAGAGTTCGTCAGTTTGTCTTCGCCTATTGCAATGTAGGGTTG
AAATCTGAGTTATCTGGTATCCACCATATCTGAATAGTATCATATCTCGTTCTAGAATTATATGG
TATTTGAGTTATTGATATCTTGGGTATTTTTGTGTTTTGTAACAAAGATTTGTGGAATTCTTCTA
AATGATCTGGATAGTTCATTATCAGTTTGAGGGTAGGTTAGGTTTGAAACTAGGATATGATTTGA
TTGGTAAACTGTAGTATCAAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGT
CCGCCCATGAATAGTATCTATGCACAATTATTCTTGAAAAATATTAAGTG
Found at i:9452242 original size:482 final size:481
Alignment explanation
Indices: 9451105--9452461 Score: 1690
Period size: 482 Copynumber: 2.8 Consensus size: 481
9451095 TTTTCTAAGA
* * * * * * *
9451105 AAAAGAGATATTTTAGAATTTGGGAGTATTAAGAGTTTTGGAAGATATAAGTGTTCATCAGTTTG
1 AAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGAGTTCGTTAGTTTG
* * * *
9451170 TGTTCGCCTGTGCAATGTAAGGTTGAAATCTGAGTTTTCTTGTATCCACCATATCTGAATTGTAT
66 TGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTAGTATCCACCATATCTGAATAGTAT
* * *
9451235 CATATCTCGTTCTAGAATTATATGGTAGTTAAGTTGTTTTATATCTTAGGCATTTATATGTTTTG
131 CATATCTCGTTCTAGAATTATATGGTAGTTAAGTTGTTTGATATC-TAGGTATTTTTATGTTTTG
* * * *
9451300 TAACAAAGATTTGTGGAATTCTTCTAAATGATCTTGAGAGTTTATTAT-TAGTTTGAGGGTAAGT
195 TAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGACAGTTCATTATCT-GTTTGAGGGTAGGT
* * * * * *
9451364 TGGGTTTGAAACTGGGATATGATTTGATTCGTAGACTACTAGTATCAAATTCAGCATGGGAATCC
259 TGGGTTTGAAACTTGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTTAGTATGAGAATCC
* * * **
9451429 TTCGAATGTGACTTCAGATAGTAATTGTCC-TCCCATGAATTCTATCTATGCACAACTATTCTAG
324 GTCGAATGTGAATTCAGATAGTAATTG-CCAGCCCATGAATAATATCTATGCACAACTATTCT-G
* * * * * * * *
9451493 GAAAATAATATTAAGTGTCGACTTGGAAAGAAAATCCGTAGGAAGTGTGCTCTATAGAGTTATTC
387 GGAAACAATATTAAGTGTCAACTAGGAAAGAAAATCCGTAAGAAGTGAGCTCCATAGAGTTAATC
*
9451558 GTTTGAGAAGTGTGTTCATTTTTGTAAAAG
452 CTTTGAGAAGTGTGTTCATTTTTGTAAAAG
* * *
9451588 AGAAGTGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGAGTTTAG-TAGTTT
1 AAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGAG-TTCGTTAGTTT
* ** * *
9451652 GTGGTCGCCTGTGCTTTGTAGGGTTGAAATCTGAATTATCTAGTATCCACCATATCTGAATAGTC
65 GTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTAGTATCCACCATATCTGAATAGTA
* * * * * **
9451717 TCATATCTCGTGT-TAGAATTATATTGAAGTTCAGTTATTTGATATCGTGGGTATTTTTATGTAC
130 TCATATCTCGT-TCTAGAATTATATGGTAGTTAAGTTGTTTGATATC-TAGGTATTTTTATGTTT
**
9451781 TGTAACATTGATTTGTGGAATTCTTCTAAATGATCTGGACAGTTCATTATCTGTTTGAGGGTAGG
193 TGTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGACAGTTCATTATCTGTTTGAGGGTAGG
* *
9451846 TAGGGTTTGAAACTTGGATATGATTTGATTGGTAGACTAGTAGTACCAAATTTAGTATGAGAATC
258 TTGGGTTTGAAACTTGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTTAGTATGAGAATC
* * *
9451911 CGTCGAATGTGAATTCAGATAGTACTTGCCAGCCCATGAATAGTATCTATGCAGAACTATTCTGG
323 CGTCGAATGTGAATTCAGATAGTAATTGCCAGCCCATGAATAATATCTATGCACAACTATTCTGG
* * * *
9451976 GAAACAATATTAAGTGTTAACTAGGAAAGAAAATCTGTAAGAAGTGAGGTCCGTAGAGTTAATCC
388 GAAACAATATTAAGTGTCAACTAGGAAAGAAAATCCGTAAGAAGTGAGCTCCATAGAGTTAATCC
* * * **
9452041 TTTGATATGTGTCTTTGTTTTT-TGAAAAG
453 TTTGAGAAGTGTGTTCATTTTTGT-AAAAG
* *
9452070 AAAAGAGATAGTTTAGAATTTGGGAGTATTCATAGTTATGAAAGATATAAGAGTTCGTTAGTTGG
1 AAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGAGTTCGTTAGTTTG
* * * *
9452135 TGTTTGCCTGCGCAATGTAGGGTTGAAATTTGAGTTATCTGGTATCCACCATATCTGAATAGTAT
66 TGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTAGTATCCACCATATCTGAATAGTAT
* * *
9452200 CATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTA-GTCATTTTTGTGTTTT
131 CATATCTCGTTCTAGAATTATATGGTAGTTAAGTTGTTTGATATC-TAGGT-ATTTTTATGTTTT
* * * * *
9452264 GTAACAAAGATTTGTGTAATTCTTCTAAACGATTTGGACAGTTCGTTATCAGTTTGAGGGTAGGT
194 GTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGACAGTTCATTATCTGTTTGAGGGTAGGT
* * * *
9452329 TGGGTTTGAAA-TTGGGATATAATTTGATTGGTGGAC-AGGTAGTATAAAATTCT-GTATGTGAA
259 TGGGTTTGAAACTT-GGATATGATTTGATTGGTAGACTA-GTAGTATCAAATT-TAGTATGAGAA
* * * * *
9452391 TCCGTCGAATGTGAATTTAGATAGTAATTG-TACGCCCGTGAATAATATCTATGCACAATTATTT
321 TCCGTCGAATGTGAATTCAGATAGTAATTGCCA-GCCCATGAATAATATCTATGCACAACTATTC
9452455 TGGGAAA
385 TGGGAAA
9452462 AAAACATTAA
Statistics
Matches: 748, Mismatches: 114, Indels: 25
0.84 0.13 0.03
Matches are distributed among these distances:
481 11 0.01
482 407 0.54
483 326 0.44
484 4 0.01
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (481 bp):
AAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAAGAGTTCGTTAGTTTG
TGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTAGTATCCACCATATCTGAATAGTAT
CATATCTCGTTCTAGAATTATATGGTAGTTAAGTTGTTTGATATCTAGGTATTTTTATGTTTTGT
AACAAAGATTTGTGGAATTCTTCTAAATGATCTGGACAGTTCATTATCTGTTTGAGGGTAGGTTG
GGTTTGAAACTTGGATATGATTTGATTGGTAGACTAGTAGTATCAAATTTAGTATGAGAATCCGT
CGAATGTGAATTCAGATAGTAATTGCCAGCCCATGAATAATATCTATGCACAACTATTCTGGGAA
ACAATATTAAGTGTCAACTAGGAAAGAAAATCCGTAAGAAGTGAGCTCCATAGAGTTAATCCTTT
GAGAAGTGTGTTCATTTTTGTAAAAG
Found at i:9452515 original size:16 final size:16
Alignment explanation
Indices: 9452494--9452526 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9452484 TTCGCTGTAT
9452494 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
9452510 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
9452526 T
1 T
9452527 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:9453175 original size:18 final size:17
Alignment explanation
Indices: 9453152--9453188 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
9453142 AATTATTATT
9453152 AAATATA-T-TTTAATTA
1 AAATATATTATTTAA-TA
9453168 AAATATATTATTTAATA
1 AAATATATTATTTAATA
9453185 AAAT
1 AAAT
9453189 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATATTATTTAATA
Found at i:9457120 original size:481 final size:479
Alignment explanation
Indices: 9456157--9460563 Score: 5082
Period size: 481 Copynumber: 9.2 Consensus size: 479
9456147 AAACATGGTG
* * *
9456157 TAAGTATTGACTTGGAAAGAAAATTCGTAGGAAGTGAGCTTTGTAGGGTTATTCCATTTGAGAAG
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCC-TTTGAGAAG
* * *
9456222 TGTCTATGATTTTAAAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAATTATGAAAGA
65 TGTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGA
** * * *
9456287 TATCCGAGTTCGTCAGTTTGTGTTCACCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTAGTGT
130 TATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTAT
* *
9456352 CAACCATATCTGAATA-TCATCA-ATCTCATTCTAGAATTACATGGTATTTGAGTTGTTTGATAT
195 CCACCATATCTGAATAGT-ATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATAT
* * *
9456415 CTTAGGCATTTTTGTGTTTTGTAACA-AGGATTTGTGGAATTCGTCTAAATGATCTGGATAGCTT
259 CTTAGGTATTTTTGTGTTTTGTAACATA-GATTTGTGGAATTCTTCTAAATGATCTGGATAGTTT
* * * * ** *
9456479 ATTTTCAGTTTGAGGATAAGTTGGGTTTGAAACTAGGATATGGTTTGATTCTTAGACTAGTAGTG
323 ATTATCAGTTTGAGG-TAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTA
* * * * *
9456544 TCAAATTCAGTATGGGAATCCTTCAAATGTGATTTCAAATAGTAATTG-CCTGCCCATGAATTGT
387 T-AAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCC-GCCCATGAATAGT
*
9456608 ATCTATGCACAACTATTCCTGGAAAAAATAT
450 ATCTATGCACAACTATT-CTGGGAAAAATAT
* * *
9456639 TAAGTGTTGACTTGGAAAAAAAATCCGTAGGAAGTGAACTTTGTGGAGTTATTCCTTTGAGAAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
** * *
9456704 GTCTACGATTTTAAAAGAGAAAAGAGATAGTTTAGAATTTGAGTGTATTAATAGTTATGAAAGAT
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAT
* * * * * *
9456769 ATAATAGTTCATCAATTTGTGTTCGCCTGTGCCATGTAGGATTGAAATCTAAGTTATCTGGTATC
131 ATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATC
* *
9456834 CACCATATCTAAATAGTATCATATCT-AGTCCTA-AATTATATGGTATTTGAGTTGTTTGATATC
196 CACCATATCTGAATAGTATCATATCTCA-TTCTAGAATTATATGGTATTTGAGTTGTTTGATATC
* *
9456897 TTAGGCATTTTTGTGTTTTGTAACAAAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTAT
260 TTAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTAT
*
9456962 TATCAGTTTGAGGATAAGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATA
325 TATCAGTTTGAGG-TAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATA
* * * * * *
9457027 GAATTCAGTATGGGAATCCTTTGAATGTGACTTCACATACTAATTGTCCGCCCATGAATTGTATC
389 -AATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATC
*
9457092 TATGCACAACTATTCTAGGAATAAATAT
453 TATGCACAACTATTCTGGGAA-AAATAT
* * * *
9457120 TAAGTGTTCACTTGGAAAGAAAATTCGTAAGAAGTGAGCTTTGTGGAGTTATTCCTTTGAGAAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* * * *
9457185 GTCTATGATTTTAAAAGAGGAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAATAT
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAT
* * * * * *
9457250 ATAAGAGTTTGTCAGTTT-TGTTCACCTGTGCAATGTAAGGTTAAAATTTTAGTTATCTGGTATC
131 ATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATC
* * * *
9457314 CACCGTATCTGAATTGTATCATATCACGA-TCTAGAATTATATTGTATTTGAGTTGTTTGATATC
196 CACCATATCTGAATAGTATCATATCTC-ATTCTAGAATTATATGGTATTTGAGTTGTTTGATATC
* * * *
9457378 TT-GTTTATTTTTGTGTTTTGTAGCATAGATTTGTGGAATTTTTCTAAATGATCTAGATAGTTTA
260 TTAG-GTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTA
* * * ** * *
9457442 TTATCAGTTTGAGGTTAGG-TAGGTTTCGAAACTTGGATATGATTTGATTTGTCTACTGGTGGTA
324 TTATCAGTTTGAGG-TAGGTTGGGTTT-GAAACTGGGATATGATTTGATTGGTAGACTAGTAGTA
* * * *
9457506 TCAAATTTAGTATGGGAATCCATCGAATGTGAATTTAGATAGTAATTCTCCGCCCATGAATAGTA
387 T-AAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTA
* ** * * *
9457571 TCTGTGCACAACTCCTATTGGAGAATATAT
451 TCTATGCACAACTATTCTGGGA-AAAATAT
* *
9457601 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTATAGAGTTATTCCTTTGAGAAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* * * *
9457666 GTCTTCGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTT-AGGGGTATTAATAGTGATGAAAGA
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGA-GAGTATTAATAGTTATGAAAGA
* * * *
9457730 TATAAAAGTTC-TAGAGTTTCTGTTCGCCTGTGCAA-GTAGGGTTGAAATCTAAGTTATCTGGTA
130 TATAAGAGTTCGT-CAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTA
* *
9457793 TCCACAATATCTGAATAGTATCATATCTCATTCTAGAATTATATGATATTTGAGTTGTTTGATAT
194 TCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATAT
* * * * * * *
9457858 CTTGGGTATTTTTGTGTCTTGTAACGTAGATGTATGGAGTTCTTCTAGAAT-ATCTGGACAGTTT
259 CTTAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTA-AATGATCTGGATAGTTT
* * * * *
9457922 GTTATTAGTGTGATGGTAGGTCGGGTTTGAAACTGGGATATGATTTAATTGGTAGAC-AGGTAGT
323 ATTATCAGTTTGA-GGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTA-GTAGT
* * * ** *
9457986 ATAAAATTCAGTA-GAGGAATCCGTCGAATATGAAATCAGATAGTAATTGTTCGATCGTGAATAG
386 AT-AAATTCAGTATG-GGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAG
*
9458050 ----TAT------CTATTC---------CA-
449 TATCTATGCACAACTATTCTGGGAAAAATAT
* * * * * * *
9458061 T---TGTTGACATGGAAATAAAATCCGCAGGAAGTGAGCTCTATAGATTTATTCCATTGAGAAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* * * * * *
9458123 ATCTTTGTTTTTCTAAGAGAAAATAGATAGTTTAGAATTTGGGAGTATTAATATTTATGAAAGAT
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAT
* * * ** * *
9458188 CTAGGAGTTCGTCAGTTTGTGCTCGCCTGTGTTATGT-GGTGTTGAAATCTGAGTTACCTTGTAT
131 ATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGG-GTTGAAATCTGAGTTATCTGGTAT
* * * *
9458252 CCACTATATTTGAATAATATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATC
195 CCACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATC
* ** * **
9458317 TTTGGTATTTTTGTGTTTTGTAACA-ATTTTTTTTTAATTCTTCTAAATGATCTGGATAGTTTAT
260 TTAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTAT
* * * * * *
9458381 TATCAGTTTGAGGATAAGTTGGGTTTGAAACTGGGAAATGATTTTATTGGTAAACAATTAGTATC
325 TATCAGTTTGAGG-TAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTAT-
* * * *
9458446 AAATTCAGTATGGGAATCCTTCGAATGTGACTTCAGATAGTAATTGTCGGCCCATGAATTGTATC
388 AAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATC
* *
9458511 AATGCACAACTATTCTAGGAAAAAAATAT
453 TATGCACAACTATTCT-GG-GAAAAATAT
* * * * *
9458540 TAAGTGTTCACTTGGAAGGAAAATCTGTAGGAAGTGAGCTTTGTGGAGTTATTCCTTTGAGGAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* ** * * * * *
9458605 ATCTACGATTTTAAAAGAGAAAACAAATAGTTTAGAATTCGAGAGTATTAATAGTTATGAAAGAA
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAT
* * * *
9458670 ATAAGAGTTCGTCAGTTTGCGTTCGCCTGTACAATGTAGGGTTGAAATTTGAGTTATCTGCTATC
131 ATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATC
* * * *
9458735 CACCATATCTGAATAGTATCATATCTCGTTCTAGAATTATATTGTATTTGAGTTGTTCGATGTCT
196 CACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCT
* * * * *
9458800 T-GTGTATTTTTTATGTTTTGTAGCATAGATTTGTGGAATTCTTCTAAATGATATGAATAGTTCA
261 TAG-GTA-TTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTA
* ** ** * *
9458864 TTATTAGTTTGAGGGTAGGTAAGGTTTGAAACTTTGATATGATTTGATTGGTAAACTGGT-GTTT
324 TTATCAGTTTGA-GGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAG--T
* * * * *
9458928 TTAAATTTAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTCTCCTCCCATGAATAGTG
386 ATAAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTA
* * * * *
9458993 TTTGTGCACAACTCTTCTTGGAGAATATAT
451 TCTATGCACAACTATTCTGGGA-AAAATAT
* * *
9459023 TAAGTGTTGAATTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAAAGTTATTCCTTTGAGAAGT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* *
9459088 GTCTTTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTG-GGGCTATTAATAGTTATGAAAGA
66 GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAG-TATTAATAGTTATGAAAGA
* * * * *
9459152 TATAAAAGTTC-TAGAGTTTCTGTT-GCCTATGCAA-GTAGGGTTGAAATCTGAGTTATTTGGTA
130 TATAAGAGTTCGT-CAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTA
* *
9459214 TCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTGTATGGTATTTGAGGTGTTTGATAT
194 TCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATAT
* * * * * * * * *
9459279 CTTGGGTATTTTTGTGTCTTGTAACGTAGATGTGTGGAGTTTTTCTAAAAGATCTGGACAGTTTG
259 CTTAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTA
* * *
9459344 TTATCAATGTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTAATTGGTAGAC-AGGTAGTA
324 TTATCAGTTTGA-GGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTA-GTAGTA
* *
9459408 TAAAATTCAGTA-GAGGAATCCGTCGAATATGAAATCAGATAGTAATTGTCCGCCCATGAATAGT
387 T-AAATTCAGTATG-GGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGT
* * *
9459472 ATCTACGGACAACTCTTCTGGGAGAAAATAT
450 ATCTATGCACAACTATTCTGGGA-AAAATAT
* * *
9459503 TAAGTGTTGACCTGGAAAGAAAATCCGTTGCAAGTGAGCTGTT-TAGAGTTATTCCTTTGAGAAG
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCT-TTGTAGAGTTATTCCTTTGAGAAG
* * * * *
9459567 TGTCTTTGTTTTTATAAGAGAAAAGAGATAGTTTAGGATTTGGGTGTATTAATAGTTATGGAAGA
65 TGTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGA
* * * *
9459632 TATAAGAGTTCGTCAGTTTGTCTTTGCCTATTG-AATGTAAGGTTGAAATCTGAGTTATCTGGTA
130 TATAAGAGTTCGTCAGTTTGTGTTCGCCT-GTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTA
* * *
9459696 TCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTGTATGGTGTTTGAGTTGTTGGATAT
194 TCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATAT
* *
9459761 CTCTA-GTATTTTTGTGTTTTGTAACATAGATGTGTGGAATTCTTCTAAATGATCTCGATAGTTT
259 CT-TAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTT
* *
9459825 GTTATCAGTTTTAAGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGAC-AGGTAGT
323 ATTATCAG-TTTGAGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTA-GTAGT
** * *
9459889 ATAAAATTCAGTATGGGAATTTGTCGAATGTG-ATCTTAGATAGTAATTGTCCGCCCATGAATTG
386 AT-AAATTCAGTATGGGAATCCGTCGAATGTGAAT-TCAGATAGTAATTGTCCGCCCATGAATAG
*
9459953 TATCTATGGACAA-TAATTCTGGGAAAAAATAT
449 TATCTATGCACAACT-ATTCTGGG-AAAAATAT
* * * * * * * * *
9459985 CAATTTTTGACTCGAAAATAAAATCCGTTA-GAAGTGAGCTCTATAGAGTTATTCCATTGAGAAG
1 TAAGTGTTGACTTGGAAAGAAAATCCG-TAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAG
* * * *
9460049 TGTCTTT-ATTTT-TCCAAGAGACAAGAGGTAGTTTAGAATTTGGGAGTATTAATACTTATGAAA
65 TGTCTTTGATTTTAT--AAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAA
* * * * *
9460112 GATATAATAGTTCATCAGTTTGTGCTT-GCCTGTGCTATGTAGTGTTGAAATTTGAGTTATCTGG
128 GATATAAGAGTTCGTCAGTTTGTG-TTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGG
* * * * *
9460176 TATCCACCATATTTGAATAGTATCATATCTCATTCTAGAATTTTTTGGGATTTGATTTGTTTGAT
192 TATCCACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGAT
* * *
9460241 ATCTTGGGTATTTTTGTGTTTTGTAATATAGATTTGTGGAATTCTTCTAAATGATCTAGATAGTT
257 ATCTTAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTT
** * * *
9460306 CGTTATCAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGAGATGATTTGATCGGTAGACTAGTAAT
322 TATTATCAGTTTGA-GGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGT
* * * **
9460371 ATCAAATTCATTATGGGAATCCGTTGAATGTGAATTCAAATAGTAATTGTCTACCCATGAATAGT
386 AT-AAATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGT
*
9460436 ATCTATGCACAATTATTCTGGGAAAAAAATAT
450 ATCTATGCACAACTATTCTGGG--AAAAATAT
* * * * * *
9460468 TAACTGTTGATTTAGAAGGAAAATCCATAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAATT
1 TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
* * *
9460533 GTC-TTCATTTTTCTAAGAGAAAGGAGATAGT
66 GTCTTTGA-TTTTATAAGAGAAAAGAGATAGT
9460564 AGAATACTAT
Statistics
Matches: 3347, Mismatches: 478, Indels: 199
0.83 0.12 0.05
Matches are distributed among these distances:
456 5 0.00
457 264 0.08
458 108 0.03
460 1 0.00
461 3 0.00
467 6 0.00
471 3 0.00
477 2 0.00
478 1 0.00
479 4 0.00
480 387 0.12
481 1177 0.35
482 992 0.30
483 240 0.07
484 149 0.04
485 5 0.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (479 bp):
TAAGTGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTTTGTAGAGTTATTCCTTTGAGAAGT
GTCTTTGATTTTATAAGAGAAAAGAGATAGTTTAGAATTTGAGAGTATTAATAGTTATGAAAGAT
ATAAGAGTTCGTCAGTTTGTGTTCGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATC
CACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCT
TAGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTATT
ATCAGTTTGAGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACTAGTAGTATAAA
TTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTAT
GCACAACTATTCTGGGAAAAATAT
Found at i:9459885 original size:482 final size:482
Alignment explanation
Indices: 9458062--9460563 Score: 3019
Period size: 482 Copynumber: 5.2 Consensus size: 482
9458052 TCTATTCCAT
* * * * * * *
9458062 TGTTGACATGGAAATAAAATCCGCAGGAAGTGAGCTCTATAGATTTATTCCATTGAGAAGTATCT
1 TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTTTAGAGTTATTCCTTTGAGAAGTGTCT
* * * * *
9458127 TTGTTTTTCTAAGAGAAAATAGATAGTTTAGAATTTGGGAGTATTAATATTTATGAAAGATCTAG
66 TTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAA
* ** * *
9458192 GAGTTCGTCAGTTTGTGC-TCGCCTGTGTTATGT-GGTGTTGAAATCTGAGTTACCTTGTATCCA
131 GAGTTCGTCAGTTTGT-CTTTGCCTGTGCAATGTAGG-GTTGAAATCTGAGTTATCTGGTATCCA
* * * * *
9458255 CTATATTTGAATAATATCATATCTCGTTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTT
194 CCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTG
** * ** *
9458320 GGTATTTTTGTGTTTTGTAACA-ATTTTTTTTTAATTCTTCTAAATGATCTGGATAGTTTATTAT
259 GGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTAT
* * * * * ** *
9458384 CAGTTTGAGGATAAGTTGGGTTTGAAACTGGGAAATGATTTTATTGGTAAACAATTAGTATCAAA
324 CAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAGTATAAAA
* * * * *
9458449 TTCAGTATGGGAATCCTTCGAATGTGACTTCAGATAGTAATTGTCGGCCCATGAATTGTATCAAT
389 TTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTAT
*
9458514 GCACAACTATTCTAGGAAAAAAATATTAAG
454 GCACAACTATTCT-GGGAAAAAATATTAAG
* * * * * *
9458544 TGTTCACTTGGAAGGAAAATCTGTAGGAAGTGAGCT-TTGTGGAGTTATTCCTTTGAGGAGTATC
1 TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTT-TAGAGTTATTCCTTTGAGAAGTGTC
** * * * * * * *
9458608 TACGATTTTAAAAGAGAAAACAAATAGTTTAGAATTCGAGAGTATTAATAGTTATGAAAGAAATA
65 TTTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATA
* * * *
9458673 AGAGTTCGTCAGTTTG-CGTTCGCCTGTACAATGTAGGGTTGAAATTTGAGTTATCTGCTATCCA
130 AGAGTTCGTCAGTTTGTC-TTTGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCA
* * * *
9458737 CCATATCTGAATAGTATCATATCTCGTTCTAGAATTATATTGTATTTGAGTTGTTCGATGTCTTG
194 CCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTG
* * * * * **
9458802 TGTATTTTTTATGTTTTGTAGCATAGATTTGTGGAATTCTTCTAAATGATATGAATAGTTCATTA
259 GGTA-TTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTA
* ** ** * * * *
9458867 TTAGTTTGAGGGTAGGTAAGGTTTGAAACTTTGATATGATTTGATTGGTAAACTGGT-GTTTTTA
323 TCAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAG-TATAA
* * * * *
9458931 AATTTAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTCTCCTCCCATGAATAGTGTTT
387 AATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCT
* * * * *
9458996 GTGCACAACTCTTCTTGGAGAATATATTAAG
452 ATGCACAACTATTCTGGGAAAAAATATTAAG
* * *
9459027 TGTTGAATTGGAAAGAAAATCCGTAGGAAGTGAGCTCTGTAAAGTTATTCCTTTGAGAAGTGTCT
1 TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTTTAGAGTTATTCCTTTGAGAAGTGTCT
9459092 TTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGG-GCTATTAATAGTTATGAAAGATATA
66 TTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAG-TATTAATAGTTATGAAAGATATA
* * * *
9459156 AAAGTTC-T-AGAGTT-TCTGTTGCCTATGCAA-GTAGGGTTGAAATCTGAGTTATTTGGTATCC
130 AGAGTTCGTCAG-TTTGTCT-TTGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCC
* *
9459217 ACCATATCTGAATAGTATCATATCTCATTCTAGAATTGTATGGTATTTGAGGTGTTTGATATCTT
193 ACCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTT
* * * * * * *
9459282 GGGTATTTTTGTGTCTTGTAACGTAGATGTGTGGAGTTTTTCTAAAAGATCTGGACAGTTTGTTA
258 GGGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTA
* * *
9459347 TCAATGTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTAATTGGTAGACAGGTAGTATAAA
323 TCAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAGTATAAA
* *
9459412 ATTCAGTA-GAGGAATCCGTCGAATATGAAATCAGATAGTAATTGTCCGCCCATGAATAGTATCT
388 ATTCAGTATG-GGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCT
* * * *
9459476 ACGGACAACTCTTCTGGGAGAAAATATTAAG
452 ATGCACAACTATTCTGGGAAAAAATATTAAG
* * * *
9459507 TGTTGACCTGGAAAGAAAATCCGTTGCAAGTGAGCTGTTTAGAGTTATTCCTTTGAGAAGTGTCT
1 TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTTTAGAGTTATTCCTTTGAGAAGTGTCT
* * *
9459572 TTGTTTTTATAAGAGAAAAGAGATAGTTTAGGATTTGGGTGTATTAATAGTTATGGAAGATATAA
66 TTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAA
* *
9459637 GAGTTCGTCAGTTTGTCTTTGCCTATTG-AATGTAAGGTTGAAATCTGAGTTATCTGGTATCCAC
131 GAGTTCGTCAGTTTGTCTTTGCCT-GTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCAC
* * *
9459701 CATATCTGAATAGTATCATATCTCATTCTAGAATTGTATGGTGTTTGAGTTGTTGGATATCTCT-
195 CATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCT-TG
* * *
9459765 AGTATTTTTGTGTTTTGTAACATAGATGTGTGGAATTCTTCTAAATGATCTCGATAGTTTGTTAT
259 GGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTAT
* *
9459830 CAGTTTTAAGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAGTATAAAA
324 CAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAGTATAAAA
** * *
9459895 TTCAGTATGGGAATTTGTCGAATGTG-ATCTTAGATAGTAATTGTCCGCCCATGAATTGTATCTA
389 TTCAGTATGGGAATCCGTCGAATGTGAAT-TCAGATAGTAATTGTCCGCCCATGAATAGTATCTA
* * *
9459959 TGGACAA-TAATTCTGGGAAAAAATATCAAT
453 TGCACAACT-ATTCTGGGAAAAAATATTAAG
* * * * * *
9459989 TTTTGACTCGAAAATAAAATCCGTTA-GAAGTGAGCTCTATAGAGTTATTCCATTGAGAAGTGTC
1 TGTTGACTTGGAAAGAAAATCCG-TAGGAAGTGAGCTCTTTAGAGTTATTCCTTTGAGAAGTGTC
* ** * * *
9460053 TTTATTTTTCCAAGAGACAAGAGGTAGTTTAGAATTTGGGAGTATTAATACTTATGAAAGATATA
65 TTTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATA
* * * * *
9460118 ATAGTTCATCAGTTTGTGC-TTGCCTGTGCTATGTAGTGTTGAAATTTGAGTTATCTGGTATCCA
130 AGAGTTCGTCAGTTTGT-CTTTGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCA
* * * * *
9460182 CCATATTTGAATAGTATCATATCTCATTCTAGAATTTTTTGGGATTTGATTTGTTTGATATCTTG
194 CCATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTG
* * *
9460247 GGTATTTTTGTGTTTTGTAATATAGATTTGTGGAATTCTTCTAAATGATCTAGATAGTTCGTTAT
259 GGTATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTAT
* * * *
9460312 CAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGAGATGATTTGATCGGTAGACTA-GTAATATCAA
324 CAGTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGAC-AGGTAGTATAAA
* * * **
9460376 ATTCATTATGGGAATCCGTTGAATGTGAATTCAAATAGTAATTGTCTACCCATGAATAGTATCTA
388 ATTCAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTA
* *
9460441 TGCACAATTATTCTGGGAAAAAAATATTAAC
453 TGCACAACTATTCTGGG-AAAAAATATTAAG
* * * * *
9460472 TGTTGATTTAGAAGGAAAATCCATAGGAAGTGAGCT-TTGTAGAGTTATTCCTTTGAGAATTGTC
1 TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTT-TAGAGTTATTCCTTTGAGAAGTGTC
** * *
9460536 TTCATTTTTCTAAGAGAAAGGAGATAGT
65 TTTGTTTTTATAAGAGAAAAGAGATAGT
9460564 AGAATACTAT
Statistics
Matches: 1724, Mismatches: 262, Indels: 67
0.84 0.13 0.03
Matches are distributed among these distances:
479 1 0.00
480 304 0.18
481 113 0.07
482 922 0.53
483 234 0.14
484 150 0.09
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (482 bp):
TGTTGACTTGGAAAGAAAATCCGTAGGAAGTGAGCTCTTTAGAGTTATTCCTTTGAGAAGTGTCT
TTGTTTTTATAAGAGAAAAGAGATAGTTTAGAATTTGGGAGTATTAATAGTTATGAAAGATATAA
GAGTTCGTCAGTTTGTCTTTGCCTGTGCAATGTAGGGTTGAAATCTGAGTTATCTGGTATCCACC
ATATCTGAATAGTATCATATCTCATTCTAGAATTATATGGTATTTGAGTTGTTTGATATCTTGGG
TATTTTTGTGTTTTGTAACATAGATTTGTGGAATTCTTCTAAATGATCTGGATAGTTTGTTATCA
GTTTGAGGGTAGGTTGGGTTTGAAACTGGGATATGATTTGATTGGTAGACAGGTAGTATAAAATT
CAGTATGGGAATCCGTCGAATGTGAATTCAGATAGTAATTGTCCGCCCATGAATAGTATCTATGC
ACAACTATTCTGGGAAAAAATATTAAG
Found at i:9466033 original size:24 final size:22
Alignment explanation
Indices: 9465968--9466036 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
9465958 GCTCATTAAC
9465968 CAAATATAAAAATAGAAATGAAA
1 CAAATATAAAAA-AGAAATGAAA
* **
9465991 CAACAT-TAAATAATTAATGATAA
1 CAA-ATATAAAAAAGAAATGA-AA
9466014 CAAATAATAAAAAAGAAATGAAA
1 CAAAT-ATAAAAAAGAAATGAAA
9466037 GTAAAGAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
22 8 0.22
23 15 0.42
24 13 0.36
ACGTcount: A:0.67, C:0.06, G:0.07, T:0.20
Consensus pattern (22 bp):
CAAATATAAAAAAGAAATGAAA
Found at i:9466059 original size:14 final size:13
Alignment explanation
Indices: 9466022--9466055 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
9466012 AACAAATAAT
9466022 AAAAAAGAAATGA
1 AAAAAAGAAATGA
*
9466035 AAGTAAAGAAATGA
1 AA-AAAAGAAATGA
9466049 AAAAAAG
1 AAAAAAG
9466056 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (13 bp):
AAAAAAGAAATGA
Found at i:9469560 original size:13 final size:13
Alignment explanation
Indices: 9469542--9469568 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9469532 CGTGGTAGGA
9469542 TATTGATAATCAT
1 TATTGATAATCAT
9469555 TATTGATAATCAT
1 TATTGATAATCAT
9469568 T
1 T
9469569 TCCAAAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTGATAATCAT
Found at i:9470233 original size:15 final size:15
Alignment explanation
Indices: 9470213--9470244 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9470203 AATAGGAGAA
*
9470213 TCAGACCATGATCAT
1 TCAGACCAGGATCAT
9470228 TCAGACCAGGATCAT
1 TCAGACCAGGATCAT
9470243 TC
1 TC
9470245 CCTTCCTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (15 bp):
TCAGACCAGGATCAT
Found at i:9471532 original size:37 final size:37
Alignment explanation
Indices: 9471491--9471577 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
9471481 AATCCTACTA
*
9471491 TTATACTGAATGAAGCTCAATTAAGCAAATTGTACCG
1 TTATACTGAATGAAGCTCAACTAAGCAAATTGTACCG
* * * * *
9471528 TTATACT-AATTGGAGCTTAACTAAGCAAGTTTTACTG
1 TTATACTGAA-TGAAGCTCAACTAAGCAAATTGTACCG
*
9471565 ATATACTGAATGA
1 TTATACTGAATGA
9471578 TGTTTAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
36 2 0.05
37 36 0.90
38 2 0.05
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (37 bp):
TTATACTGAATGAAGCTCAACTAAGCAAATTGTACCG
Found at i:9476206 original size:26 final size:26
Alignment explanation
Indices: 9476177--9476227 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9476167 ATACTAAGAG
9476177 AATAAACTATCATTGTTTTCGAGCAT
1 AATAAACTATCATTGTTTTCGAGCAT
9476203 AATAAACTATCATTGTTTTCGAGCA
1 AATAAACTATCATTGTTTTCGAGCA
9476228 AAGTAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (26 bp):
AATAAACTATCATTGTTTTCGAGCAT
Found at i:9484922 original size:16 final size:16
Alignment explanation
Indices: 9484901--9484931 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9484891 TCCCAACCCC
*
9484901 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
9484917 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
9484932 CTCAGAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:9491181 original size:21 final size:21
Alignment explanation
Indices: 9491140--9491181 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9491130 CTTTGTTCAA
* *
9491140 AGACTTTGTAAAGGTGTATTC
1 AGACTTTGTAAAGGGGAATTC
9491161 AGACTTTGTAAAGGGGAATTC
1 AGACTTTGTAAAGGGGAATTC
9491182 TTACCTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (21 bp):
AGACTTTGTAAAGGGGAATTC
Found at i:9491480 original size:12 final size:12
Alignment explanation
Indices: 9491463--9491495 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9491453 CGTGAAGTAC
9491463 AACAAAAATTGA
1 AACAAAAATTGA
*
9491475 AACAAAAATCGA
1 AACAAAAATTGA
9491487 AA-AAAAATT
1 AACAAAAATT
9491496 CAAGTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (12 bp):
AACAAAAATTGA
Found at i:9506113 original size:17 final size:18
Alignment explanation
Indices: 9506081--9506115 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
9506071 TCAAATGAAC
9506081 AAAAATGGAAAGAAATGGT
1 AAAAATGG-AAGAAATGGT
9506100 AAAAATGG-AGAAATGG
1 AAAAATGGAAGAAATGG
9506116 GAAACATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (18 bp):
AAAAATGGAAGAAATGGT
Found at i:9506157 original size:52 final size:51
Alignment explanation
Indices: 9506101--9506216 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 51
9506091 AGAAATGGTA
* *
9506101 AAAATGGAGAAATGGGAAA-CATTTGGAAAAT-AATATGGTTTTCTCCAAAATG
1 AAAATGGAGAAAT--GAAATAAGTTGG-AAATGAATATGGTTTTCTCCAAAATG
* * *
9506153 AAAATGGAGAAATGAAATAAGTTGGAAATGAATGTTGTTTTCTCTAAAATG
1 AAAATGGAGAAATGAAATAAGTTGGAAATGAATATGGTTTTCTCCAAAATG
9506204 AAAAT-GA-AAATGA
1 AAAATGGAGAAATGA
9506217 CCTAAAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
49 6 0.11
50 10 0.18
51 28 0.49
52 13 0.23
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAATGGAGAAATGAAATAAGTTGGAAATGAATATGGTTTTCTCCAAAATG
Found at i:9507878 original size:29 final size:29
Alignment explanation
Indices: 9507843--9508475 Score: 865
Period size: 29 Copynumber: 21.8 Consensus size: 29
9507833 GATGGTCAAA
9507843 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
9507872 ACTATCCCTTTTCATATTCGATGGTTATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
9507901 ACCATCCCTTCTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
9507930 ACCATCCCTTTCCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
**
9507959 ACCATCCCTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
9507988 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
9508017 ACTATCCCTTTTCATATTCAATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508046 ACCATCCCTTCTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508075 ACCATCCCTTTCCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * **
9508104 ACCATCCTTTTTCATATTCGATGGTTGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
9508133 ACCATTCCTTTTCATGTTCGATGGTC-TAA
1 ACCATCCCTTTTCATATTCGATGGTCGT-C
** * *
9508162 ATTATCCCTTTTCATATTCAATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
9508191 ACCCTCCCTTTTCATATTTGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508220 ACCATCCCTTTTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508249 ACCATCCCTTTTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508278 ACCATCCCTTTTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
9508307 ACCATCCCTTTTCATATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
9508336 ACCATCCCTTTTCATATTTGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
9508365 ACCATCCCTTTTCATATTCGATGGTGGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
9508394 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
9508423 ACCATCCC-TTTCAATATTTGATGGTTGTC
1 ACCATCCCTTTTC-ATATTCGATGGTCGTC
*
9508452 ACCGTCCCTTTTCATATTCGATGG
1 ACCATCCCTTTTCATATTCGATGG
9508476 GCATAGATAT
Statistics
Matches: 539, Mismatches: 61, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
28 4 0.01
29 530 0.98
30 5 0.01
ACGTcount: A:0.19, C:0.28, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:9514099 original size:20 final size:20
Alignment explanation
Indices: 9514074--9514117 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
9514064 ATCAACTACA
9514074 TGTTAGTCTTAATGCATTAT
1 TGTTAGTCTTAATGCATTAT
9514094 TGTTAGTCTTAATGCATTAT
1 TGTTAGTCTTAATGCATTAT
9514114 TGTT
1 TGTT
9514118 GTCCTATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (20 bp):
TGTTAGTCTTAATGCATTAT
Found at i:9519463 original size:16 final size:16
Alignment explanation
Indices: 9519442--9519473 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9519432 GTTTTGTTGC
*
9519442 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
9519458 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
9519474 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:9524233 original size:23 final size:23
Alignment explanation
Indices: 9524207--9524259 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
9524197 ATAAGTGTCA
*
9524207 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9524230 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9524253 CACTGAT
1 CACTGAT
9524260 CAATAACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:9524359 original size:8 final size:8
Alignment explanation
Indices: 9524346--9524374 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9524336 ACCCGGGACT
9524346 CACTGTAA
1 CACTGTAA
9524354 CACTGTAA
1 CACTGTAA
9524362 CACTGTAA
1 CACTGTAA
9524370 CACTG
1 CACTG
9524375 ATCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:9546464 original size:25 final size:25
Alignment explanation
Indices: 9546430--9546482 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
9546420 AAAAAAAACA
**
9546430 TGTGTGAATTCGTTCTAAGGTTTAT
1 TGTGTGAATTCGTTCTAAAATTTAT
9546455 TGTGTGAATTCGTTCTAAAATTTAT
1 TGTGTGAATTCGTTCTAAAATTTAT
9546480 TGT
1 TGT
9546483 TATAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.49
Consensus pattern (25 bp):
TGTGTGAATTCGTTCTAAAATTTAT
Found at i:9548553 original size:152 final size:149
Alignment explanation
Indices: 9548007--9548637 Score: 874
Period size: 152 Copynumber: 4.2 Consensus size: 149
9547997 CAATTATTCG
* * ** ** *
9548007 TATTTTGGCCATTTGTTCGTATTTTTT-TTCGGATTTTATTACTTTTAAAAAATATACTATTTTT
1 TATTTCGGCC-TTTGTTCGTATTTTTTCTCCAAATTTTATTACTTCAAAAAAATATACTATTTTC
* * *
9548071 TAATTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTATTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-TTTT
9548136 TTAAATAAATTAAAAAAATCCT
129 TTAAATAAATTAAAAAAA-CCT
* ** *
9548158 TATTTCGGCCTTTTGTTCATATTTTTTC-CTGAATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCC-TTTGTTCGTATTTTTTCTCCAAATTTTATTAC-TTCAA-AAAAATATACTATTT
*
9548222 TCGT-ATTTTATTATTTTACATTATTTTAGTACATAATGTTTGAAATGTATTAATTTACTGTGTT
63 TC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
*
9548286 TTATAAATAAATTAAAAAAACCT
127 TTTTAAATAAATTAAAAAAACCT
* * * *
9548309 TATTTCGGCCCTTTGTTCGTATTTTTTCCCCAGAGTTTATTACTT-TAAAAAATATACTATTTTC
1 TATTTCGG-CCTTTGTTCGTATTTTTTCTCCAAATTTTATTACTTCAAAAAAATATACTATTTTC
9548373 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTT
9548438 TAAATAAATATAAAAAAACCT
130 TAAATAAAT-TAAAAAAACCT
* * * *
9548459 TATTTTGACACTTTGTTTGTATTTTTTTCTCCAAATTTTATTACTTCAAAAAAATATATTATTTT
1 TATTTCGGC-CTTTGTTCGTA-TTTTTTCTCCAAATTTTATTACTTCAAAAAAATATACTATTTT
*
9548524 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAATGTGTTTT
64 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTT
9548589 TTAAATAAATTTAAAAAAAACCCT
129 TTAAATAAA-TT-AAAAAAA-CCT
*
9548613 CATTTCGGCCTTTGTTCGTATTTTT
1 TATTTCGGCCTTTGTTCGTATTTTT
9548638 AAGGGGTTTT
Statistics
Matches: 429, Mismatches: 37, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
148 1 0.00
149 87 0.20
150 28 0.07
151 85 0.20
152 131 0.31
153 87 0.20
154 10 0.02
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (149 bp):
TATTTCGGCCTTTGTTCGTATTTTTTCTCCAAATTTTATTACTTCAAAAAAATATACTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTT
AAATAAATTAAAAAAACCT
Found at i:9548596 original size:301 final size:305
Alignment explanation
Indices: 9548007--9548637 Score: 951
Period size: 302 Copynumber: 2.1 Consensus size: 305
9547997 CAATTATTCG
* * ** * * *
9548007 TATTTTGGCCATTTGTTCGTATTTTTTTTCGGATTTTATTACTTTTAAAAAATATACTATTTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGAGTTTATTACTTTTAAAAAATATACTATTTTCT
* *
9548072 AATTTTTTTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTATTGTGTTTTTT
66 AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTT
* **
9548137 TAAATAAATTAAAAAAATCCTTATTTCGGCCTTTTGTTCATATTTTTTCCTGAATTTTATTACTT
131 TAAATAAATTAAAAAAATCCTTATTTCGACCTTTTGTTCATATTTTTTCCCAAATTTTATTACTT
9548202 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATAATGTTTGAAA
196 TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATAATGTTTGAAA
*
9548267 TGTATTAATTTACTGTGTTTTATAAATAAA-TT-AAAAAAA-CCT
261 TGTATTAATTTAATGTGTTTTATAAATAAATTTAAAAAAAACCCT
9548309 TATTTCGGCCCTTTGTTCGTATTTTTTCCCCAGAGTTTATTAC-TTTAAAAAATATACTATTTTC
1 TATTTCGGCCCTTTGTTCGTATTTTTT-CCCAGAGTTTATTACTTTTAAAAAATATACTATTTTC
*
9548373 TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-TTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTT
* **
9548437 TTAAATAAATATAAAAAAA-CCTTATTTTGACAC-TTTGTTTGTATTTTTTTCTCCAAATTTTAT
130 TTAAATAAAT-TAAAAAAATCCTTATTTCGAC-CTTTTGTTCATA-TTTTTTC-CCAAATTTTAT
*
9548500 TAC-TTCAA-AAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGT
191 TACTTTCAATAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATAATGT
*
9548562 TTGAAATGTATTAATTTAATGTGTTTTTTAAATAAATTTAAAAAAAACCCT
255 TTGAAATGTATTAATTTAATGTGTTTTATAAATAAATTTAAAAAAAACCCT
*
9548613 CATTTCGG-CCTTTGTTCGTATTTTT
1 TATTTCGGCCCTTTGTTCGTATTTTT
9548638 AAGGGGTTTT
Statistics
Matches: 300, Mismatches: 20, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
300 1 0.00
301 117 0.39
302 125 0.42
303 47 0.16
304 10 0.03
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (305 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGAGTTTATTACTTTTAAAAAATATACTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTACTGTGTTTTTT
TAAATAAATTAAAAAAATCCTTATTTCGACCTTTTGTTCATATTTTTTCCCAAATTTTATTACTT
TCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTTAGTACATAATGTTTGAAA
TGTATTAATTTAATGTGTTTTATAAATAAATTTAAAAAAAACCCT
Found at i:9550683 original size:21 final size:22
Alignment explanation
Indices: 9550659--9550710 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
9550649 TGGCCAGTAC
* *
9550659 AAATTACAAAAACAATAGCA-A
1 AAATAACAAAAAAAATAGCATA
9550680 AAATAACAAAAAAAATAGCATAA
1 AAATAACAAAAAAAATAGCAT-A
9550703 AAATAACA
1 AAATAACA
9550711 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.71, C:0.12, G:0.04, T:0.13
Consensus pattern (22 bp):
AAATAACAAAAAAAATAGCATA
Found at i:9551263 original size:26 final size:25
Alignment explanation
Indices: 9551216--9551265 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9551206 TTTGACTCTA
*
9551216 ATTTTTTTAAAATTTCTCTCAATTT
1 ATTTTTTTAAAATTTATCTCAATTT
* *
9551241 ATTTTTTTTAACTTTATCGTCAATT
1 ATTTTTTTAAAATTTATC-TCAATT
9551266 AATAATTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTTTTTAAAATTTATCTCAATTT
Found at i:9553097 original size:25 final size:25
Alignment explanation
Indices: 9553069--9553119 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
9553059 CCATTATTTC
*
9553069 AAGTCATTTACT-TAATTAATAAAAT
1 AAGTCATTT-CTATAAATAATAAAAT
* *
9553094 AAGTTATTTTTATAAATAATAAAAT
1 AAGTCATTTCTATAAATAATAAAAT
9553119 A
1 A
9553120 TGAGGAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (25 bp):
AAGTCATTTCTATAAATAATAAAAT
Found at i:9562657 original size:23 final size:23
Alignment explanation
Indices: 9562624--9562721 Score: 115
Period size: 23 Copynumber: 4.3 Consensus size: 23
9562614 AGGGCGTTAT
* *
9562624 AGAATAAGCCACAAAGGCTTCAC
1 AGAATATGCCACAAAGACTTCAC
* * * *
9562647 AGAGTTTGCCACAAAGACATCAT
1 AGAATATGCCACAAAGACTTCAC
9562670 AGAATATGCCACAAAGACTTCAC
1 AGAATATGCCACAAAGACTTCAC
* * *
9562693 AGAATATGCCATAAAGACATCAT
1 AGAATATGCCACAAAGACTTCAC
9562716 AGAATA
1 AGAATA
9562722 CACCATGATG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (23 bp):
AGAATATGCCACAAAGACTTCAC
Found at i:9562672 original size:46 final size:46
Alignment explanation
Indices: 9562622--9562721 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
9562612 TAAGGGCGTT
* * *
9562622 ATAGAATAAGCCACAAAGGCTTCACAGAGTTTGCCACAAAGACATC
1 ATAGAATAAGCCACAAAGACTTCACAGAATATGCCACAAAGACATC
* *
9562668 ATAGAATATGCCACAAAGACTTCACAGAATATGCCATAAAGACATC
1 ATAGAATAAGCCACAAAGACTTCACAGAATATGCCACAAAGACATC
9562714 ATAGAATA
1 ATAGAATA
9562722 CACCATGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (46 bp):
ATAGAATAAGCCACAAAGACTTCACAGAATATGCCACAAAGACATC
Found at i:9566803 original size:18 final size:19
Alignment explanation
Indices: 9566780--9566821 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
9566770 TTCTTTTTCA
9566780 TCTTTAGC-AACTTCTTCT
1 TCTTTAGCAAACTTCTTCT
9566798 TCTTTAGCAATAACTTCTTCT
1 TCTTTAGC-A-AACTTCTTCT
9566819 TCT
1 TCT
9566822 GCAGCAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.19, C:0.26, G:0.05, T:0.50
Consensus pattern (19 bp):
TCTTTAGCAAACTTCTTCT
Found at i:9566812 original size:21 final size:21
Alignment explanation
Indices: 9566787--9566840 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
9566777 TCATCTTTAG
**
9566787 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTCTGCAGCAA
*
9566808 TAACTTCTTCTTCTGCAGCAA
1 CAACTTCTTCTTCTGCAGCAA
9566829 CAACTTCCTTCT
1 CAACTT-CTTCT
9566841 CAAGAACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAGCAA
Found at i:9570728 original size:50 final size:50
Alignment explanation
Indices: 9570649--9570946 Score: 281
Period size: 50 Copynumber: 5.8 Consensus size: 50
9570639 TTTCTTGTAC
* * * * * ** * *
9570649 TGCCAATGCCATATCCCGGATATGTTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * * * * * *
9570699 TGCCCATGCCATGTCCCAAACATGGTCTTACAGGGGACCACTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
9570749 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * * * *
9570799 AGCCAACGCCATGTCCTAGACATGGTCTTACTTGCGACCTCTCATTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * * *
9570849 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTC---TCATCTC---GG
* * * *
9570905 TGGCAATGCCATGTCTCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
9570947 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 35, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
50 161 0.78
53 6 0.03
56 40 0.19
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:9584035 original size:17 final size:17
Alignment explanation
Indices: 9584013--9584054 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
9584003 TTGATCGGTT
*
9584013 CATAAAAGTAAA-AGAAA
1 CATAAAA-TAAAGAAAAA
9584030 CATAAACATAAAGAAAAA
1 CATAAA-ATAAAGAAAAA
9584048 CATAAAA
1 CATAAAA
9584055 CTAAGTCCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (17 bp):
CATAAAATAAAGAAAAA
Found at i:9588879 original size:26 final size:27
Alignment explanation
Indices: 9588841--9588908 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
9588831 CGAGCTATGC
* *
9588841 TCGCAGATATGTTTGGTGAA-T-AGTGT
1 TCGCAAATGTGTTTGGTGAACTAAGT-T
*
9588867 TCGCATATGTGTTTTGGTGAACTAAGTT
1 TCGCAAATGTG-TTTGGTGAACTAAGTT
9588895 T-GCAAATGTGTTTG
1 TCGCAAATGTGTTTG
9588909 TTAATCTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 13 0.36
27 17 0.47
28 3 0.08
29 3 0.08
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (27 bp):
TCGCAAATGTGTTTGGTGAACTAAGTT
Found at i:9588903 original size:27 final size:27
Alignment explanation
Indices: 9588852--9588907 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
9588842 CGCAGATATG
*
9588852 TTTGGTGAATAGTGTTCGCATATGTGT
1 TTTGGTGAATAGTGTTCGCAAATGTGT
9588879 TTTGGTGAACTAAGT-TT-GCAAATGTGT
1 TTTGGTGAA-T-AGTGTTCGCAAATGTGT
9588906 TT
1 TT
9588908 GTTAATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 20 0.77
28 3 0.12
29 3 0.12
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (27 bp):
TTTGGTGAATAGTGTTCGCAAATGTGT
Found at i:9593286 original size:18 final size:19
Alignment explanation
Indices: 9593257--9593292 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9593247 TGATATGACC
9593257 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTTCACTTA
9593276 AAAATCA-TTTTTCACTT
1 AAAATCACTTTTTCACTT
9593293 TGGCATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.19, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATCACTTTTTCACTTA
Found at i:9597164 original size:29 final size:29
Alignment explanation
Indices: 9597126--9597198 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
9597116 ATAGCTGAAG
* *
9597126 CCATCGCTTTTCA-AGTTCGATGGTCGTCA
1 CCATCCCTTTTCATAGTT-AATGGTCGTCA
* *
9597155 CCATCCCTTTTCATTGTTAATGGTTGTCA
1 CCATCCCTTTTCATAGTTAATGGTCGTCA
*
9597184 CCATCCTTTTTCATA
1 CCATCCCTTTTCATA
9597199 ATCTATAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 34 0.92
30 3 0.08
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (29 bp):
CCATCCCTTTTCATAGTTAATGGTCGTCA
Found at i:9600054 original size:181 final size:181
Alignment explanation
Indices: 9599750--9600109 Score: 648
Period size: 181 Copynumber: 2.0 Consensus size: 181
9599740 ATGGAAATTC
* *
9599750 ATAGTGTCCGTACCTAGTTCTAAAAGTAGTTTTTGACACGTCCAAATCTTTAACCCGTAGTTGAT
1 ATAGTGTCCGTACCTAGTTCTAAAAGTAGTTTTCGACACGTCCAAATATTTAACCCGTAGTTGAT
*
9599815 AATATCCACAACAGAGATGAATCTTTGAAAACACTGTCACACCTTTCAGCTGATCAAACAAATCA
66 AATATCCACAACAGAGATGAATCTTTGAAAACACTGTCACACCTTTCAACTGATCAAACAAATCA
* *
9599880 TCAATACGTGGCAAGGGATATTTTTTATTGATTGTGACTTTGTTGAGCTGT
131 TCAATACATGGCAAGGGATATTTTTTATTGATTCTGACTTTGTTGAGCTGT
9599931 ATAGTGTCCGTACCTAGTTCTAAAAGTAGTTTTCGACACGTCCAAATATTTAACCCGTAGTTGAT
1 ATAGTGTCCGTACCTAGTTCTAAAAGTAGTTTTCGACACGTCCAAATATTTAACCCGTAGTTGAT
* *
9599996 AATATCTACAACAGAGATGAATCTTTGAAAATACTGTCACACCTTTCAACTGATCAAACAAATCA
66 AATATCCACAACAGAGATGAATCTTTGAAAACACTGTCACACCTTTCAACTGATCAAACAAATCA
*
9600061 TCAATACATGGCAAGGGATATTTTTTCTTGATTCTGACTTTGTTGAGCT
131 TCAATACATGGCAAGGGATATTTTTTATTGATTCTGACTTTGTTGAGCT
9600110 ATCTATAGTC
Statistics
Matches: 171, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
181 171 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (181 bp):
ATAGTGTCCGTACCTAGTTCTAAAAGTAGTTTTCGACACGTCCAAATATTTAACCCGTAGTTGAT
AATATCCACAACAGAGATGAATCTTTGAAAACACTGTCACACCTTTCAACTGATCAAACAAATCA
TCAATACATGGCAAGGGATATTTTTTATTGATTCTGACTTTGTTGAGCTGT
Found at i:9613222 original size:14 final size:15
Alignment explanation
Indices: 9613203--9613245 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
9613193 AAATTGCTCT
*
9613203 GTTGAACCGCAT-TA
1 GTTGAACCGAATCTA
9613217 GTTGAACCGAATCTA
1 GTTGAACCGAATCTA
9613232 G-TGAACCGAA-CTA
1 GTTGAACCGAATCTA
9613245 G
1 G
9613246 CCACCAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 20 0.74
15 3 0.11
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (15 bp):
GTTGAACCGAATCTA
Found at i:9622492 original size:25 final size:25
Alignment explanation
Indices: 9622460--9622554 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
9622450 ACATGGGAAT
*
9622460 AATGCTCACCCAAGCTGTAACTGTA
1 AATGCTCACACAAGCTGTAACTGTA
* * * * *
9622485 ATTTCTCACACGAGTTGTAATTGTA
1 AATGCTCACACAAGCTGTAACTGTA
* **
9622510 AATGCTCACACAAGCTGTGAAATGGG
1 AATGCTCACACAAGCTGT-AACTGTA
**
9622536 CCTGCTCACACAAGCTGTA
1 AATGCTCACACAAGCTGTA
9622555 GGTCGAGATG
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 34 0.63
26 20 0.37
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTAACTGTA
Found at i:9623365 original size:20 final size:21
Alignment explanation
Indices: 9623326--9623368 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9623316 TAGTCTTATT
9623326 TACCTATCAAACTTATAAAAA
1 TACCTATCAAACTTATAAAAA
*
9623347 TACC-ATCAAACTTCAAAAAAA
1 TACCTATCAAACTT-ATAAAAA
9623368 T
1 T
9623369 CTCAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (21 bp):
TACCTATCAAACTTATAAAAA
Found at i:9624033 original size:28 final size:27
Alignment explanation
Indices: 9623976--9624034 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
9623966 TAAAAATATC
* *
9623976 ATTAGATTCAAAATATATATAATACTAT
1 ATTAAATTCAAAATATAAATAATAC-AT
9624004 ATTAAATTCATAAATATGAAATAATA-AT
1 ATTAAATTCA-AAATAT-AAATAATACAT
9624032 ATT
1 ATT
9624035 TATGAACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 6 0.22
30 7 0.26
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (27 bp):
ATTAAATTCAAAATATAAATAATACAT
Found at i:9626974 original size:22 final size:22
Alignment explanation
Indices: 9626948--9626992 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9626938 ATTATATGTA
9626948 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
9626970 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
9626992 T
1 T
9626993 GGGATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:9627403 original size:18 final size:19
Alignment explanation
Indices: 9627375--9627411 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9627365 GCATTCACAT
9627375 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
9627394 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
9627412 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:9639453 original size:21 final size:21
Alignment explanation
Indices: 9639429--9639470 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9639419 TCGCTATTTA
9639429 CATTAAAAATTAATCTTTATC
1 CATTAAAAATTAATCTTTATC
*
9639450 CATTAAAAATTAATTTTTATC
1 CATTAAAAATTAATCTTTATC
9639471 TCACATTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
CATTAAAAATTAATCTTTATC
Found at i:9639690 original size:94 final size:92
Alignment explanation
Indices: 9639352--9639690 Score: 277
Period size: 94 Copynumber: 3.7 Consensus size: 92
9639342 ACTCACTTCT
* * *
9639352 ACTATTTTCATTAAAAAGTTAATTTTAATCACACATTCATTAGAGAATACTCTCATAGCTCACAT
1 ACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACAT
* ** * *
9639417 TTTCGCTATTTACA--TTAAAA-ATTAA
66 TTAC-CTATAAACAGGTCAAAATTTTAA
* * * * *
9639442 TCT-TTATCCATTAAAAA-TTAATTTTTATCTCACATT-AGCT-G-TAATACACTTCCAT-GCTC
1 ACTATT-TTCATTAAAAAGTTAATTTTAATCTCACATTGA-CTAGAGAATACTC-T-CATAGCTC
* * * *
9639501 ACACTTACCCTATAAATAAGTGTCAAATTTTTTAT
62 ACATTTA-CCTATAAA-CAG-GTCAAA-ATTTTAA
* * * * * *
9639536 A-TATTTTAATT-AAAAGTTAATTTTAATCTCACATTGACTCGAGAACACCCCCATATCTCACAT
1 ACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACAT
*
9639599 TTACCATATAAACAGGTGAAAATCTTTAA
66 TTACC-TATAAACAGGTCAAAAT-TTTAA
*
9639628 ACTATTTTTATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCAC
1 ACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCAC
9639691 GTATTCATTA
Statistics
Matches: 192, Mismatches: 36, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
87 6 0.03
88 17 0.09
89 25 0.13
90 12 0.06
91 1 0.01
92 18 0.09
93 41 0.21
94 67 0.35
95 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (92 bp):
ACTATTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACAT
TTACCTATAAACAGGTCAAAATTTTAA
Found at i:9639710 original size:69 final size:69
Alignment explanation
Indices: 9639628--9639796 Score: 214
Period size: 70 Copynumber: 2.4 Consensus size: 69
9639618 AAATCTTTAA
* * * * *
9639628 ACTATTTTTATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACGT
1 ACTATTTTAATTAAAAAGTTAATTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACGT
9639693 ATTC
66 ATTC
* * * *
9639697 ATTATTTTAATTAAAAAAGTTAGTTTTAACCCCACATTGACTAGAGAATACTATAATAACTCACT
1 ACTATTTTAATT-AAAAAGTTAATTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACG
9639762 TATTC
65 TATTC
* * *
9639767 GCTATTTTCATTAAAAA-TTAATTTGAATCC
1 ACTATTTTAATTAAAAAGTTAATTTTAATCC
9639797 TTCACTGGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
68 10 0.12
69 15 0.18
70 59 0.70
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (69 bp):
ACTATTTTAATTAAAAAGTTAATTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACGT
ATTC
Found at i:9640414 original size:93 final size:93
Alignment explanation
Indices: 9640188--9640415 Score: 368
Period size: 93 Copynumber: 2.5 Consensus size: 93
9640178 TTTTAGCCCC
*
9640188 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTCCCATGCTCACACATACCCTATAA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTTCCATGCTCACACATACCCTATAA
*
9640253 ATACGTGTCAATTTCTTCTCTATTTTTA
66 ATACGTGCCAATTTCTTCTCTATTTTTA
* *
9640281 TTAAAAAGTTAATTTTTATTCCACATTGGCTAGAATACACTTCCATGCTCACACATACCTTATAA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTTCCATGCTCACACATACCCTATAA
9640346 ATACGTGCCAATTTCTTCTCTATTTTTA
66 ATACGTGCCAATTTCTTCTCTATTTTTA
* * * *
9640374 TTAAAAAATTAA-TTTTAGTCCCACATTGACTACAAAACACTT
1 TTAAAAAGTTAATTTTTA-TCCCACATTGGCTAGAATACACTT
9640416 TCATATTTGT
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 5 0.04
93 120 0.96
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (93 bp):
TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTTCCATGCTCACACATACCCTATAA
ATACGTGCCAATTTCTTCTCTATTTTTA
Found at i:9645120 original size:85 final size:86
Alignment explanation
Indices: 9644977--9645152 Score: 336
Period size: 85 Copynumber: 2.0 Consensus size: 86
9644967 AATTAATATC
9644977 AATTGATTGAATTAATGGTTGAATTAATTTTATTTTATTTTTTAAATAATTTTATAATTTTATAT
1 AATTGATTGAATTAATGGTTGAATTAATTTTATTTTATTTTTTAAATAATTTTATAATTTTATAT
9645042 TATTATTCAATT-GCCGAACA
66 TATTATTCAATTAGCCGAACA
9645062 AATTGATTGAATTAATGGTTGAATTAATTTTATTTTATTTTTTAAATAATTTTATAATTTTATAT
1 AATTGATTGAATTAATGGTTGAATTAATTTTATTTTATTTTTTAAATAATTTTATAATTTTATAT
9645127 TATTATTCAATTGAGCCGAACA
66 TATTATTCAATT-AGCCGAACA
9645149 AATT
1 AATT
9645153 CATCATACTG
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 77 0.87
87 12 0.13
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.51
Consensus pattern (86 bp):
AATTGATTGAATTAATGGTTGAATTAATTTTATTTTATTTTTTAAATAATTTTATAATTTTATAT
TATTATTCAATTAGCCGAACA
Found at i:9646987 original size:27 final size:28
Alignment explanation
Indices: 9646930--9646987 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
9646920 TTTTAGTGGG
* *
9646930 AAAATTAATTTCTCTCTACAGGAAAACA
1 AAAATTAACTTCTCTCTACAAGAAAACA
9646958 AAAACTTAACTTCTCTCT-CAAGAAAA-A
1 AAAA-TTAACTTCTCTCTACAAGAAAACA
9646985 AAA
1 AAA
9646988 GAAGAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 4 0.15
28 11 0.41
29 12 0.44
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (28 bp):
AAAATTAACTTCTCTCTACAAGAAAACA
Found at i:9654421 original size:17 final size:17
Alignment explanation
Indices: 9654384--9654423 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
9654374 AATCAACCCT
*
9654384 GCGAACCCCTATTGCTG
1 GCGAACCCCTATTGCTA
**
9654401 GCGAACCCCTATTTTTA
1 GCGAACCCCTATTGCTA
9654418 GCGAAC
1 GCGAAC
9654424 TCTAGCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (17 bp):
GCGAACCCCTATTGCTA
Found at i:9655850 original size:18 final size:18
Alignment explanation
Indices: 9655829--9655878 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
9655819 TTTGCATAAA
*
9655829 TAACACAGTTCACCAAAT
1 TAACACAGTTCACAAAAT
* *
9655847 TAACATAGTTCGCAAAAT
1 TAACACAGTTCACAAAAT
*
9655865 TAACACAATTCACA
1 TAACACAGTTCACA
9655879 TTATTATAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
TAACACAGTTCACAAAAT
Found at i:9658673 original size:7 final size:6
Alignment explanation
Indices: 9658658--9658689 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
9658648 CATTTCTAGG
9658658 TCATTT TCATTTT TCATTT TCATTT TCATTT T
1 TCATTT TCA-TTT TCATTT TCATTT TCATTT T
9658690 GAAGAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:9658777 original size:58 final size:58
Alignment explanation
Indices: 9658664--9658799 Score: 185
Period size: 58 Copynumber: 2.4 Consensus size: 58
9658654 TAGGTCATTT
* *
9658664 TCATTTTTC-ATTTTCATTTTC-ATTTTGAAGAAAACATATTCATTTCCAAATGTTTC
1 TCATTTCTCTATTTTCATTTTCAATTTGGAAGAAAACATATTCATTTCCAAATGTTTC
9658720 -CATTTCTCTATTTTCATTTTCAATTTGGTAA-AAACCACAT-TTCATTTCCAAATGTTTC
1 TCATTTCTCTATTTTCATTTTCAATTTGG-AAGAAA--ACATATTCATTTCCAAATGTTTC
9658778 TCATTTCTCTA-TTTCATTTTCA
1 TCATTTCTCTATTTTCATTTTCA
9658800 TTGATCAATG
Statistics
Matches: 72, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
55 7 0.10
56 12 0.17
57 8 0.11
58 31 0.43
59 14 0.19
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.50
Consensus pattern (58 bp):
TCATTTCTCTATTTTCATTTTCAATTTGGAAGAAAACATATTCATTTCCAAATGTTTC
Found at i:9675905 original size:22 final size:22
Alignment explanation
Indices: 9675877--9675924 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9675867 TGATTGATTA
*
9675877 GGATATTCTATAGCGTTTTAAG
1 GGATATTCTATAGCATTTTAAG
* * *
9675899 GGATATTTTATGGTATTTTAAG
1 GGATATTCTATAGCATTTTAAG
9675921 GGAT
1 GGAT
9675925 TGATTAGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (22 bp):
GGATATTCTATAGCATTTTAAG
Found at i:9675928 original size:54 final size:52
Alignment explanation
Indices: 9675806--9675934 Score: 150
Period size: 52 Copynumber: 2.4 Consensus size: 52
9675796 TTCAAAGCTC
* * *
9675806 TATTTTTAGAGATTGATTAGGATATTTTATAGGATTTATGACATATTTATGG
1 TATTTTAAGAGATTGATTAGGATATTCTATAGGATTTAAGACATATTTATGG
* ** * **
9675858 GATTTTAATTGATTGATTAGGATATTCTATAGCGTTTTAAGGGATATTTTATGG
1 TATTTTAAGAGATTGATTAGGATATTCTATAG-GATTTAAGACATA-TTTATGG
*
9675912 TATTTTAAGGGATTGATTAGGAT
1 TATTTTAAGAGATTGATTAGGAT
9675935 TTTATGGGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
52 27 0.43
53 9 0.14
54 27 0.43
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (52 bp):
TATTTTAAGAGATTGATTAGGATATTCTATAGGATTTAAGACATATTTATGG
Found at i:9678891 original size:43 final size:43
Alignment explanation
Indices: 9678839--9678924 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
9678829 ATTAGTGCAA
*
9678839 CAATTAAATGAATGATATTCTAGGATCTTTAGCTATATTAGTG
1 CAATTAAATGAATGATATTCTAGGATCTTTAGCTATACTAGTG
* *
9678882 CAATTAAATGAATGGTATTCTAGGATCTTTAGCTGTACTAGTG
1 CAATTAAATGAATGATATTCTAGGATCTTTAGCTATACTAGTG
9678925 GATGTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (43 bp):
CAATTAAATGAATGATATTCTAGGATCTTTAGCTATACTAGTG
Found at i:9682717 original size:24 final size:24
Alignment explanation
Indices: 9682683--9682759 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
9682673 CATTTTAATA
9682683 GCCTTTATGGCATATTCTGATTTG
1 GCCTTTATGGCATATTCTGATTTG
* *
9682707 GCCTTTGTGGCAT-TT-TG--TTC
1 GCCTTTATGGCATATTCTGATTTG
* *
9682727 GCC-TTATGGCATATTCTAATTTA
1 GCCTTTATGGCATATTCTGATTTG
9682750 GCCTTTATGG
1 GCCTTTATGG
9682760 TATTCTAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
19 8 0.19
20 7 0.16
21 1 0.02
22 2 0.05
23 7 0.16
24 18 0.42
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (24 bp):
GCCTTTATGGCATATTCTGATTTG
Found at i:9682817 original size:20 final size:20
Alignment explanation
Indices: 9682775--9682822 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
9682765 TAGTATGGCA
* * *
9682775 TTTGTGGCATCCTGTTGGTC
1 TTTGTGGCATCCTGCTAGCC
*
9682795 TTTGTGGCATTCTGCTAGCC
1 TTTGTGGCATCCTGCTAGCC
*
9682815 TTTATGGC
1 TTTGTGGC
9682823 GTATTCTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.08, C:0.21, G:0.27, T:0.44
Consensus pattern (20 bp):
TTTGTGGCATCCTGCTAGCC
Found at i:9691457 original size:8 final size:8
Alignment explanation
Indices: 9691444--9691468 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9691434 GGGGGTCAAT
9691444 TTGTTAAA
1 TTGTTAAA
9691452 TTGTTAAA
1 TTGTTAAA
9691460 TTGTTAAA
1 TTGTTAAA
9691468 T
1 T
9691469 GTTTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TTGTTAAA
Found at i:9694823 original size:19 final size:19
Alignment explanation
Indices: 9694799--9694850 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
9694789 CATGTTCAAA
*
9694799 ATTTTAATACAATTTAATC
1 ATTTTAATACAAATTAATC
* *
9694818 ATTTT-ATAAAAATTAATT
1 ATTTTAATACAAATTAATC
*
9694836 ATTTTATTACAAATT
1 ATTTTAATACAAATT
9694851 CTATCGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTAATACAAATTAATC
Found at i:9696181 original size:25 final size:25
Alignment explanation
Indices: 9696147--9696196 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9696137 AAGAGGAGGT
9696147 GAGTCAAATTGACTACTTAAGTACC
1 GAGTCAAATTGACTACTTAAGTACC
9696172 GAGTCAAATTGACTACTTAAGTACC
1 GAGTCAAATTGACTACTTAAGTACC
9696197 AAGCTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
GAGTCAAATTGACTACTTAAGTACC
Found at i:9709340 original size:48 final size:48
Alignment explanation
Indices: 9709285--9709471 Score: 374
Period size: 48 Copynumber: 3.9 Consensus size: 48
9709275 GATATCACGA
9709285 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
1 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
9709333 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
1 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
9709381 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
1 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
9709429 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTT
1 TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTT
9709472 CATATATCGT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 139 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (48 bp):
TAGGTATCACGATATCCAAGTCGGGTCATGAGATACCTAGTTTGACCC
Found at i:9728374 original size:16 final size:16
Alignment explanation
Indices: 9728340--9728388 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
9728330 ACCTTAAAAG
**
9728340 ATTAAATA-TGTACCA
1 ATTAAATATTGTTTCA
9728355 ATTAAATATTGTTTCA
1 ATTAAATATTGTTTCA
* *
9728371 ATTAATTATAGTTTCA
1 ATTAAATATTGTTTCA
9728387 AT
1 AT
9728389 ACGTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAATATTGTTTCA
Found at i:9729466 original size:22 final size:23
Alignment explanation
Indices: 9729432--9729475 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
9729422 CAAATTTATG
* *
9729432 AAAATTTATTATA-AAATAATTA
1 AAAATTCAATATATAAATAATTA
*
9729454 AAAATTCAATATATTAATAATT
1 AAAATTCAATATATAAATAATT
9729476 TAAGTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTCAATATATAAATAATTA
Done.