Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 130 of 163
Found at i:35669892 original size:12 final size:12
Alignment explanation
Indices: 35669841--35669898 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 12
35669831 GTTTAAAATT
35669841 AAAATAAATTTA
1 AAAATAAATTTA
35669853 AATAAGTAAATTTAA
1 AA-AA-TAAATTT-A
35669868 ATTTAAGATAAATTTA
1 A---AA-ATAAATTTA
35669884 AAAATAAATTTA
1 AAAATAAATTTA
35669896 AAA
1 AAA
35669899 TTAATTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
12 14 0.36
13 4 0.10
14 7 0.18
15 2 0.05
16 2 0.05
17 8 0.21
18 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATAAATTTA
Found at i:35670337 original size:17 final size:17
Alignment explanation
Indices: 35670315--35670406 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 17
35670305 TTTTTATTTC
35670315 AAAATAAATTTAAAATT
1 AAAATAAATTTAAAATT
* *
35670332 AAAATAAATTTAAACTC
1 AAAATAAATTTAAAATT
* * * *
35670349 CAAACAAGTTTTAAATTT
1 AAAATAA-ATTTAAAATT
* *
35670367 ACAATAAATTTAAACTT
1 AAAATAAATTTAAAATT
*
35670384 AAAATAAATTAAAAATCT
1 AAAATAAATTTAAAAT-T
35670402 AAAAT
1 AAAAT
35670407 TTCAACCATT
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
17 41 0.71
18 17 0.29
ACGTcount: A:0.59, C:0.08, G:0.01, T:0.33
Consensus pattern (17 bp):
AAAATAAATTTAAAATT
Found at i:35672374 original size:17 final size:17
Alignment explanation
Indices: 35672342--35672417 Score: 50
Period size: 17 Copynumber: 4.4 Consensus size: 17
35672332 AGATCAAACT
* *
35672342 TTTAAATTTATATTAAG
1 TTTAAATTGATATTAAA
*
35672359 TTTAAATTGATTTTAAA
1 TTTAAATTGATATTAAA
**
35672376 TTTATTTCTGA-ATTTAAA
1 TTTAAAT-TGATA-TTAAA
35672394 TTTAAACTTG-T-TGTAAA
1 TTTAAA-TTGATAT-TAAA
35672411 TTTAAAT
1 TTTAAAT
35672418 CTAGTTTAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
16 2 0.04
17 29 0.63
18 14 0.30
19 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (17 bp):
TTTAAATTGATATTAAA
Found at i:35672430 original size:17 final size:16
Alignment explanation
Indices: 35672388--35672453 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
35672378 TATTTCTGAA
*
35672388 TTTAAATTTAAACTTG
1 TTTAAATTTAAACTAG
35672404 TTGTAAATTTAAATCTAG
1 TT-TAAATTTAAA-CTAG
* * *
35672422 TTTAGATTTAAAATGG
1 TTTAAATTTAAACTAG
35672438 TTTTAAATTTAAACTA
1 -TTTAAATTTAAACTA
35672454 AATTTGAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.10
17 31 0.77
18 5 0.12
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (16 bp):
TTTAAATTTAAACTAG
Found at i:35672445 original size:34 final size:35
Alignment explanation
Indices: 35672354--35672463 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 35
35672344 TAAATTTATA
* * * **
35672354 TTAAGTTTAAATTGATTTTAAATTTATTTCTGAAT
1 TTAAATTTAAAATGGTTTTAAATTTAAATCTGAAT
* * * *
35672389 TTAAATTTAAACTTGTTGTAAATTTAAATCT-AGT
1 TTAAATTTAAAATGGTTTTAAATTTAAATCTGAAT
* *
35672423 TTAGATTTAAAATGGTTTTAAATTTAAA-CTAAAT
1 TTAAATTTAAAATGGTTTTAAATTTAAATCTGAAT
35672457 TTGAAAT
1 TT-AAAT
35672464 GTCCAAATAC
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.03
34 30 0.51
35 27 0.46
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (35 bp):
TTAAATTTAAAATGGTTTTAAATTTAAATCTGAAT
Found at i:35674404 original size:29 final size:29
Alignment explanation
Indices: 35674360--35674449 Score: 110
Period size: 28 Copynumber: 3.1 Consensus size: 29
35674350 TCAGTTGGTT
*
35674360 CCCTAAACTTCTAAAAATCACATTTTTACC
1 CCCT-AACTTCCAAAAATCACATTTTTACC
35674390 CCCTAACTTCCAAAAATCACATTTTTA-C
1 CCCTAACTTCCAAAAATCACATTTTTACC
* * * *
35674418 CTCAAACTTTCAAAAATTACATTTTTGACC
1 CCCTAACTTCCAAAAATCACATTTTT-ACC
35674448 CC
1 CC
35674450 AAATTTTCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.44
29 23 0.44
30 6 0.12
ACGTcount: A:0.36, C:0.30, G:0.01, T:0.33
Consensus pattern (29 bp):
CCCTAACTTCCAAAAATCACATTTTTACC
Found at i:35674452 original size:29 final size:28
Alignment explanation
Indices: 35674364--35674857 Score: 243
Period size: 29 Copynumber: 17.0 Consensus size: 28
35674354 TTGGTTCCCT
*
35674364 AAAC-TTCTAAAAATCACATTTTTACCCCC
1 AAACTTTC-AAAAATTACATTTTTA-CCCC
* * * *
35674393 TAACTTCCAAAAATCACATTTTTACCTC
1 AAACTTTCAAAAATTACATTTTTACCCC
35674421 AAACTTTCAAAAATTACATTTTTGACCCC
1 AAACTTTCAAAAATTACATTTTT-ACCCC
* * * *
35674450 AAATTTTCCAAAATTATATTTTTGACTCC
1 AAACTTTCAAAAATTACATTTTT-ACCCC
*
35674479 GAACTTTCTAAAAATTACATTTTTACCCTC
1 AAACTTTC-AAAAATTACATTTTTACCC-C
* * *
35674509 AAACTTTTAGAAATTACATTTTTAACCCT
1 AAACTTTCAAAAATTACATTTTT-ACCCC
* * * **
35674538 AAAATTTCCAAAATTTCATTTTTAACCTT
1 AAACTTTCAAAAATTACATTTTT-ACCCC
* *
35674567 GAACTTTCTAAAAGTTACATTTTTACCCTC
1 AAACTTTC-AAAAATTACATTTTTACCC-C
* * * * *
35674597 GAACTTTTAAAAATTTCATTTTAACCCT
1 AAACTTTCAAAAATTACATTTTTACCCC
* ** *
35674625 GATTTTTCCAAAATTTACCA-TTTTACCCCC
1 AAACTTT-CAAAAATTA-CATTTTTA-CCCC
* * *
35674655 AAA-TATCCAAAAATTCCATTTTTAACCTCG
1 AAACT-TTCAAAAATTACATTTTT-ACC-CC
35674685 AAACTTTCAAAAATTACCA-TTTTACCCTC
1 AAACTTTCAAAAATTA-CATTTTTACCC-C
* * * **
35674714 GAA-TGTCCAAAAATTCCATTTTTGACCTTG
1 AAACT-TTCAAAAATTACATTTTT-ACC-CC
35674744 AAA-TTTCCAAAAATTATCA-TTTTACCCTC
1 AAACTTT-CAAAAATTA-CATTTTTACCC-C
** * * *
35674773 GGA-TGTCCAAAAATTCCATTTTTACCCTG
1 AAACT-TTCAAAAATTACATTTTTACCC-C
* *
35674802 AAACTTCCAAAAATTACCA-TTTTACCCTT
1 AAACTTTCAAAAATTA-CATTTTTACCC-C
* * *
35674831 GAA-TGTCCAAAATTACATTTTTACCCC
1 AAACTTTCAAAAATTACATTTTTACCCC
35674858 CGAATATCCA
Statistics
Matches: 358, Mismatches: 78, Indels: 60
0.72 0.16 0.12
Matches are distributed among these distances:
27 2 0.01
28 53 0.15
29 206 0.58
30 92 0.26
31 5 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.38
Consensus pattern (28 bp):
AAACTTTCAAAAATTACATTTTTACCCC
Found at i:35674523 original size:88 final size:88
Alignment explanation
Indices: 35674401--35674772 Score: 323
Period size: 88 Copynumber: 4.2 Consensus size: 88
35674391 CCTAACTTCC
* * * *
35674401 AAAAATCACATTTTTA-CCTCAAACTTTCAAAAATTACATTTTTGACCCCAAATTTTCCAAAATT
1 AAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTAACCCCAAAATTTCCAAAATT
*
35674465 AT-ATTTTTGA-CTCCGAACTTTCT
66 -TCATTTTTAACCT-CGAACTTTCT
* *
35674488 AAAAATTACATTTTTACCCTCAAACTTTTAGAAATTACATTTTTAACCCTAAAATTTCCAAAATT
1 AAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTAACCCCAAAATTTCCAAAATT
*
35674553 TCATTTTTAACCTTGAACTTTCT
66 TCATTTTTAACCTCGAACTTTCT
* * * ** **
35674576 AAAAGTTACATTTTTACCCTCGAACTTTTAAAAATTTCA-TTTTAACCCTGATTTTTCCAAAATT
1 AAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTAACCCCAAAATTTCCAAAATT
* * * * *
35674640 TACCA-TTTT-ACCCCCAAATATCC
66 T--CATTTTTAACCTCGAACTTTCT
* * * * *
35674663 AAAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTACCA-TTTT-ACCCTC-GAATGTCCAAA
1 AAAAATTACATTTTTACCCTC-AAACTTTTAAAAATTA-CATTTTTAACCC-CAAAATTTCC-AA
* * * * *
35674725 AATTCCATTTTTGACCTTGAAATTTCC
62 AATTTCATTTTTAACCTCGAACTTTCT
35674752 AAAAATTATCA-TTTTACCCTC
1 AAAAATTA-CATTTTTACCCTC
35674773 GGATGTCCAA
Statistics
Matches: 234, Mismatches: 39, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
87 67 0.29
88 123 0.53
89 42 0.18
90 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.39
Consensus pattern (88 bp):
AAAAATTACATTTTTACCCTCAAACTTTTAAAAATTACATTTTTAACCCCAAAATTTCCAAAATT
TCATTTTTAACCTCGAACTTTCT
Found at i:35674561 original size:58 final size:59
Alignment explanation
Indices: 35674380--35674856 Score: 229
Period size: 59 Copynumber: 8.2 Consensus size: 59
35674370 CTAAAAATCA
* * * * * * *
35674380 CATTTTTACCCCCTAAC-TTCCAAAAATCACATTTTTA-CCTCAAACTTTCAAAAATTA
1 CATTTTTACCCTCAAACTTTCTAAAAGTTACATTTTTACCCTCAAAATTTCAAAAATTT
* * * * * * *
35674437 CATTTTTGACCC-CAAATTTTCCAAAA-TTATATTTTTGACTC-CGAACTTTCTAAAAATTA
1 CATTTTT-ACCCTCAAACTTTCTAAAAGTTACATTTTT-ACCCTCAAAATTTC-AAAAATTT
*
35674496 CATTTTTACCCTCAAACTTT-TAGAAA-TTACATTTTTAACCCT-AAAATTTCCAAAATTT
1 CATTTTTACCCTCAAACTTTCTA-AAAGTTACATTTTT-ACCCTCAAAATTTCAAAAATTT
* ** * * *
35674554 CATTTTTAACCTTGAACTTTCTAAAAGTTACATTTTTACCCTCGAACTTTTAAAAATTT
1 CATTTTTACCCTCAAACTTTCTAAAAGTTACATTTTTACCCTCAAAATTTCAAAAATTT
* * ** * * * * *
35674613 CATTTTAACCCT-GATTTTTCCAAAATTTACCA-TTTTACCC-CCAAATATCCAAAAATTC
1 CATTTTTACCCTCAAACTTTCTAAAAGTTA-CATTTTTACCCTCAAAAT-TTCAAAAATTT
* * * * *
35674671 CATTTTTAACCTCGAAACTTTC-AAAAATTACCA-TTTTACCCTC-GAATGTCCAAAAATTC
1 CATTTTTACCCTC-AAACTTTCTAAAAGTTA-CATTTTTACCCTCAAAAT-TTCAAAAATTT
* * * * ** * *
35674730 CATTTTTGACCTTGAAA-TTTCCAAAAATTATCA-TTTTACCCTC-GGATGTCCAAAAATTC
1 CATTTTT-ACCCTCAAACTTTCTAAAAGTTA-CATTTTTACCCTCAAAAT-TTCAAAAATTT
* * * ** * * *
35674789 CATTTTTACCCTGAAAC-TTCCAAAAATTACCA-TTTTACCCT-TGAATGTCCAAAATTA
1 CATTTTTACCCTCAAACTTTCTAAAAGTTA-CATTTTTACCCTCAAAATTTCAAAAATTT
35674846 CATTTTTACCC
1 CATTTTTACCC
35674857 CCGAATATCC
Statistics
Matches: 347, Mismatches: 53, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
57 40 0.12
58 134 0.39
59 164 0.47
60 9 0.03
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (59 bp):
CATTTTTACCCTCAAACTTTCTAAAAGTTACATTTTTACCCTCAAAATTTCAAAAATTT
Found at i:35674647 original size:59 final size:59
Alignment explanation
Indices: 35674488--35674880 Score: 353
Period size: 59 Copynumber: 6.8 Consensus size: 59
35674478 CGAACTTTCT
* * * * ** *
35674488 AAAAATTACATTTTT-ACCCTCAAACTTT-TAGAAATTA-CATTTTTAACCCTAAAATTTCC
1 AAAAATTCCATTTTTAACCCTGAAA-TTTCCAAAAATTACCA-TTTT-ACCCTCGAATGTCC
* * * * * **
35674547 -AAAATTTCATTTTTAACCTTGAACTTTCTAAAAGTTA-CATTTTTACCCTCGAACT-TTT
1 AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCA-TTTTACCCTCGAA-TGTCC
* ** * * * *
35674605 AAAAATTTCA-TTTTAACCCTGATTTTTCCAAAATTTACCATTTTACCCCCAAATATCC
1 AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTACCCTCGAATGTCC
35674663 AAAAATTCCATTTTTAA-CCTCGAAACTTT-CAAAAATTACCATTTTACCCTCGAATGTCC
1 AAAAATTCCATTTTTAACCCT-GAAA-TTTCCAAAAATTACCATTTTACCCTCGAATGTCC
* * * *
35674722 AAAAATTCCATTTTTGACCTTGAAATTTCCAAAAATTATCATTTTACCCTCGGATGTCC
1 AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTACCCTCGAATGTCC
* *
35674781 AAAAATTCCATTTTT-ACCCTGAAACTTCCAAAAATTACCATTTTACCCTTGAATGTCC
1 AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTACCCTCGAATGTCC
* * * *
35674839 -AAAATTACATTTTTACCCCCG-AATATCC-AAAATTACCATTTT
1 AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTT
35674881 GCCACTAGGC
Statistics
Matches: 282, Mismatches: 40, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
56 14 0.05
57 19 0.07
58 115 0.41
59 129 0.46
60 5 0.02
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (59 bp):
AAAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTACCCTCGAATGTCC
Found at i:35676103 original size:25 final size:25
Alignment explanation
Indices: 35676074--35676124 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35676064 TTCAATTTAT
35676074 AGAAATAAAAACATAACATGAATTA
1 AGAAATAAAAACATAACATGAATTA
35676099 AGAAATAAAAACATAACATGAATTA
1 AGAAATAAAAACATAACATGAATTA
35676124 A
1 A
35676125 CTTAGTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.20
Consensus pattern (25 bp):
AGAAATAAAAACATAACATGAATTA
Found at i:35680911 original size:29 final size:29
Alignment explanation
Indices: 35680857--35680912 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
35680847 GGTGAGATGG
* * *
35680857 GAGAAAAGTAAAACTTTTAGGGGAAAAGT
1 GAGAAAAGTAAAAATTTTACGAGAAAAGT
35680886 GAGAAAGAGTAAAAATTTT-CGAGAAAA
1 GAGAAA-AGTAAAAATTTTACGAGAAAA
35680913 AGTAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 12 0.52
30 11 0.48
ACGTcount: A:0.52, C:0.04, G:0.25, T:0.20
Consensus pattern (29 bp):
GAGAAAAGTAAAAATTTTACGAGAAAAGT
Found at i:35680914 original size:30 final size:29
Alignment explanation
Indices: 35680857--35680915 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
35680847 GGTGAGATGG
* * *
35680857 GAGAAAAGTAAAACTTTTAGGGGAAAAGT
1 GAGAAAAGTAAAAATTTTAGAGAAAAAGT
*
35680886 GAGAAAGAGTAAAAATTTTCGAGAAAAAGT
1 GAGAAA-AGTAAAAATTTTAGAGAAAAAGT
35680916 AAAAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.51, C:0.03, G:0.25, T:0.20
Consensus pattern (29 bp):
GAGAAAAGTAAAAATTTTAGAGAAAAAGT
Found at i:35681452 original size:2 final size:2
Alignment explanation
Indices: 35681445--35681475 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35681435 TGATGGTGCC
35681445 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
35681476 GACGCCGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35681541 original size:20 final size:20
Alignment explanation
Indices: 35681516--35681600 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
35681506 AATACACAAT
35681516 TATAATAATTCAAACAAATA
1 TATAATAATTCAAACAAATA
*
35681536 TATAAT-ATTACAAAC-ACTA
1 TATAATAATT-CAAACAAATA
* * * *
35681555 CAAAATAA-ACATACACAAT-
1 TATAATAATTCAAACA-AATA
35681574 TATAATAATTCAAA-AATATA
1 TATAATAATTCAAACAA-ATA
35681594 TATAATA
1 TATAATA
35681601 TTATAAATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
18 5 0.10
19 19 0.40
20 24 0.50
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATAATTCAAACAAATA
Found at i:35689941 original size:26 final size:25
Alignment explanation
Indices: 35689904--35690112 Score: 114
Period size: 26 Copynumber: 8.0 Consensus size: 25
35689894 AAAGAAGAAA
*
35689904 TAAATGAGCAGGCTTCGAGCCGGTAAT
1 TAAAT-AGCAGGCTT-GAGCCGGTGAT
* *
35689931 TAAATAGCAGGCCTTGAGCCGGTAAA
1 TAAATAGCAGG-CTTGAGCCGGTGAT
* *
35689957 TAATTAGCAGGCCTTAAGCCGGTGAT
1 TAAATAGCAGG-CTTGAGCCGGTGAT
* * * ** *
35689983 TTACTAGTAGGCTTCGATTCAGTGAT
1 TAAATAGCAGGCTT-GAGCCGGTGAT
* *
35690009 TAAATAGCAGGCCTTGAGCCGTTGAC
1 TAAATAGCAGG-CTTGAGCCGGTGAT
* * * * * *
35690035 T-ATTAGTAGACTACGAGCTGATGAT
1 TAAATAGCAGGCT-TGAGCCGGTGAT
*
35690060 TAAATAGCAGGCTTTGAGCCGGTGAC
1 TAAATAGCAGGC-TTGAGCCGGTGAT
* ** *
35690086 TGAATAGTTGGCCTTAAGCCGGTGAT
1 TAAATAGCAGG-CTTGAGCCGGTGAT
35690112 T
1 T
35690113 TTTAGCAGGC
Statistics
Matches: 136, Mismatches: 39, Indels: 15
0.72 0.21 0.08
Matches are distributed among these distances:
24 2 0.01
25 18 0.13
26 103 0.76
27 13 0.10
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (25 bp):
TAAATAGCAGGCTTGAGCCGGTGAT
Found at i:35692098 original size:41 final size:41
Alignment explanation
Indices: 35692041--35692224 Score: 217
Period size: 41 Copynumber: 4.4 Consensus size: 41
35692031 AAAAACTCGA
*
35692041 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
* * *
35692082 TATATTAAAGGAAGACTCAAGTCTCGGGAAGAGAATGAAAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
* * *
35692123 TATATAAAAGGAAGACTCATGTCTCAGGCCGA-ACATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGA-ATGAGAT
* * * *
35692164 TATGTATAAATGGAAGACTCATATCTCGTGACGAGCATGAGAT
1 TATAT-TAAA-GGAAGACTCATGTCTCGGGACGAGAATGAGAT
* *
35692207 TATGTTTAAGGAAGACTC
1 TATATTAAAGGAAGACTC
35692225 GTGACATGAA
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 84 0.69
42 6 0.05
43 31 0.25
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
Found at i:35692222 original size:84 final size:82
Alignment explanation
Indices: 35692041--35692224 Score: 210
Period size: 84 Copynumber: 2.2 Consensus size: 82
35692031 AAAAACTCGA
* * *
35692041 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGACTCAAGTCT
1 TATATAAAAGGAAGACTCATGTCTCAGGACGAGAATGAGATTATATTAAAGGAAGACTCAAGTCT
35692106 CGGGAAGAGAATGAAAT
66 CGGGAAGAGAATGAAAT
* *
35692123 TATATAAAAGGAAGACTCATGTCTCAGGCCGA-ACATGAGATTATGTATAAATGGAAGACTCATA
1 TATATAAAAGGAAGACTCATGTCTCAGGACGAGA-ATGAGATTATAT-TAAA-GGAAGACTCA-A
* * * *
35692187 -TCTCGTGACGAGCATGAGAT
62 GTCTCGGGAAGAGAATGAAAT
* **
35692207 TATGTTTAAGGAAGACTC
1 TATATAAAAGGAAGACTC
35692225 GTGACATGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
81 1 0.01
82 39 0.45
83 4 0.05
84 41 0.48
85 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (82 bp):
TATATAAAAGGAAGACTCATGTCTCAGGACGAGAATGAGATTATATTAAAGGAAGACTCAAGTCT
CGGGAAGAGAATGAAAT
Found at i:35697123 original size:17 final size:17
Alignment explanation
Indices: 35697090--35697175 Score: 120
Period size: 17 Copynumber: 5.1 Consensus size: 17
35697080 ATATTTAAAC
*
35697090 ATTTAAATTCAAAATAA
1 ATTTAAATTTAAAATAA
* *
35697107 ATTCAAATTTAACATAA
1 ATTTAAATTTAAAATAA
*
35697124 ATTTAAATTCT-AAATGA
1 ATTTAAATT-TAAAATAA
35697141 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
35697158 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
35697175 A
1 A
35697176 CTAAGGTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
16 1 0.02
17 58 0.97
18 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:35697643 original size:76 final size:76
Alignment explanation
Indices: 35697466--35698226 Score: 1300
Period size: 76 Copynumber: 10.0 Consensus size: 76
35697456 AGGCTTCATC
* *
35697466 TTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC-----G
1 TTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
* *
35697526 ATAGGAAATGGTC-
64 ATAGGAGAT-GACG
35697539 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35697604 AGGAGATGACG
66 AGGAGATGACG
35697615 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
35697680 AGGAAATGACG
66 AGGAGATGACG
*
35697691 TTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35697756 AGGAGATGACG
66 AGGAGATGACG
*
35697767 TTGCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35697832 AGGAGATGACG
66 AGGAGATGACG
*
35697843 TTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
35697908 AGGAAATGACG
66 AGGAGATGACG
*
35697919 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCTAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35697984 AGGAGATGACG
66 AGGAGATGACG
35697995 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35698060 AGGAGATGACG
66 AGGAGATGACG
*
35698071 TTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
35698136 AGGAGATGACG
66 AGGAGATGACG
* * *
35698147 TTGCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAACTCTACTTTAATTTCAAAGAGGG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC-AAGAGGA
* *
35698212 TAGGAAATGATG
65 TAGGAGATGACG
35698224 TTG
1 TTG
35698227 GATTGATGTG
Statistics
Matches: 658, Mismatches: 23, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
71 36 0.05
73 19 0.03
75 2 0.00
76 582 0.88
77 19 0.03
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAGATGACG
Found at i:35710428 original size:38 final size:38
Alignment explanation
Indices: 35710386--35710460 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
35710376 AATGGTAATT
* * *
35710386 TTTGGTGAAACCGGGGTTAAAAATAGG-ATTTTGGAAAC
1 TTTGGTGAAACCGAGGCTAAAAAT-GGAATTTTAGAAAC
*
35710424 TTTGGTGAAATCGAGGCTAAAAATGGAATTTTAGAAA
1 TTTGGTGAAACCGAGGCTAAAAATGGAATTTTAGAAA
35710461 GTTCGGGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.06
38 30 0.94
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (38 bp):
TTTGGTGAAACCGAGGCTAAAAATGGAATTTTAGAAAC
Found at i:35710553 original size:59 final size:59
Alignment explanation
Indices: 35710424--35710892 Score: 597
Period size: 59 Copynumber: 7.9 Consensus size: 59
35710414 TTTTGGAAAC
* * * **
35710424 TTTGGTGAAATCGAGGCTAAAAATGGAATTTTAGAAAGTTCGGGGGGTAAAATGGTAATT
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTT-TAGGGGTAAAATGGTAATT
* * *
35710484 TTTGGTGAAACTGGGGTTAAAAATGGGATTTTGGAAAGTTT-GAGGGTAAAATGGTAATT
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATT
** * *
35710543 TTTATTGAAACCGAGGTTAAAAACGGAATTTTGGAAAGTTTTAGGGGGCAAAATGGTAATT
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAG-TTTA-GGGGTAAAATGGTAATT
*
35710604 TTTGGTGAAACC-AGAGTTAAAAATGGAATTTTGGAGAGTTTAGGGGTAAAATGGTAATT
1 TTTGGTGAAACCGAG-GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
* * *
35710663 TTTGGTAAAACCGGGGTTAAAAATGGAATTTTGGAGAGTTTAGGGGTAAAATGGTAATT
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
* * ** *
35710722 TTTGTTAAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATC
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
* * *
35710781 TTTGGTGAAATCGAGGTTAAAAATGAAATTTT-AAAGAGTTTAGGGGTAAAATGGTAA--
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAA-AGTTTAGGGGTAAAATGGTAATT
* * * *
35710838 CTTGGTAAAAACGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGT
1 TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGT
35710893 GTTAAAAATG
Statistics
Matches: 363, Mismatches: 38, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
57 46 0.13
58 5 0.01
59 221 0.61
60 44 0.12
61 46 0.13
62 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
TTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
Found at i:35710802 original size:30 final size:29
Alignment explanation
Indices: 35710471--35710802 Score: 89
Period size: 30 Copynumber: 11.2 Consensus size: 29
35710461 GTTCGGGGGG
* *
35710471 TAAAATGGTAATTTTTGGTGAAACTGGGGT
1 TAAAATGGTAA-TTTTGGTGAAATTGAGGT
* *
35710501 TAAAAATGG-GATTTT-G-GAAAGTTTGAGGG
1 T-AAAATGGTAATTTTGGTGAAA--TTGAGGT
** **
35710530 TAAAATGGTAATTTTTATTGAAACCGAGGT
1 TAAAATGGTAA-TTTTGGTGAAATTGAGGT
* * *
35710560 TAAAAACGG-AATTTT-G-GAAAGTTTTAGGGGG
1 T-AAAATGGTAATTTTGGTGAAA---TT-GAGGT
* **
35710591 CAAAATGGTAATTTTTGGTGAAA-CCAGAGT
1 TAAAATGGTAA-TTTTGGTGAAATTGAG-GT
* * * *
35710621 TAAAAATGG-AATTTTGGAG-AGTTTAGGGG
1 T-AAAATGGTAATTTTGGTGAAATTGA-GGT
* ** *
35710650 TAAAATGGTAATTTTTGGTAAAACCGGGGT
1 TAAAATGGTAA-TTTTGGTGAAATTGAGGT
* * * *
35710680 TAAAAATGG-AATTTTGGAG-AGTTTAGGGG
1 T-AAAATGGTAATTTTGGTGAAATTGA-GGT
* *
35710709 TAAAATGGTAATTTTTGTTAAAATTGAGGT
1 TAAAATGGTAA-TTTTGGTGAAATTGAGGT
* *
35710739 TAAAAATGG-AATTTT-G-GAAAGTTTAGGGG
1 T-AAAATGGTAATTTTGGTGAAA-TTGA-GGT
*
35710768 TAAAATGGTAATCTTTGGTGAAATCGAGGT
1 TAAAATGGTAAT-TTTGGTGAAATTGAGGT
35710798 TAAAA
1 TAAAA
35710803 ATGAAATTTT
Statistics
Matches: 211, Mismatches: 56, Indels: 70
0.63 0.17 0.21
Matches are distributed among these distances:
27 11 0.05
28 34 0.16
29 48 0.23
30 54 0.26
31 47 0.22
32 12 0.06
33 1 0.00
34 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTGAAATTGAGGT
Found at i:35710887 original size:29 final size:29
Alignment explanation
Indices: 35710560--35710888 Score: 123
Period size: 29 Copynumber: 11.2 Consensus size: 29
35710550 AAACCGAGGT
* *
35710560 TAAAAACGGAATTTTGGAAAGTTTTAGGGG
1 TAAAAATGGAATTTTGGAAAG-TTCAGGGG
** * * *
35710590 GCAAAATGGTAATTTTTGGTGAAA--CCAGAGT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTCAGGGG
* *
35710621 TAAAAATGGAATTTTGGAGAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCAGGGG
* *
35710650 T-AAAATGGTAATTTTTGGTAAA--ACCGGGG
1 TAAAAATGG-AA-TTTTGG-AAAGTTCAGGGG
* *
35710679 TTAAAAATGGAATTTTGGAGAGTTTAGGGG
1 -TAAAAATGGAATTTTGGAAAGTTCAGGGG
* * * *
35710709 T-AAAATGGTAATTTTTGTTAAAATTGA-GGT
1 TAAAAATGG-AA-TTTTG-GAAAGTTCAGGGG
*
35710739 TAAAAATGGAATTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCAGGGG
*
35710768 T-AAAATGGTAATCTTTGGTGAAA--TC-GAGGT
1 TAAAAATGG-AAT-TTT-G-GAAAGTTCAG-GGG
* * *
35710798 TAAAAATGAAATTTT-AAAGAGTTTAGGGG
1 TAAAAATGGAATTTTGGAA-AGTTCAGGGG
* ** *
35710827 T-AAAATGGTAA-CTTGGTAAA-AAC-GAGGT
1 TAAAAATGG-AATTTTGG-AAAGTTCAG-GGG
35710855 TAAAAATGGAATTTTGGAAAGTTCAGGGG
1 TAAAAATGGAATTTTGGAAAGTTCAGGGG
35710884 TAAAA
1 TAAAA
35710889 TGGTGTTAAA
Statistics
Matches: 215, Mismatches: 48, Indels: 73
0.64 0.14 0.22
Matches are distributed among these distances:
26 2 0.01
27 5 0.02
28 46 0.21
29 64 0.30
30 45 0.21
31 40 0.19
32 8 0.04
33 1 0.00
34 4 0.02
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTCAGGGG
Found at i:35710887 original size:41 final size:41
Alignment explanation
Indices: 35710841--35710925 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 41
35710831 ATGGTAACTT
35710841 GGTAAAAACGAG-GTTAAAAATGGAATTTTGGAAAGTTCAGG
1 GGTAAAAACG-GTGTTAAAAATGGAATTTTGGAAAGTTCAGG
* *
35710882 GGT-AAAATGGTGTTAAAAATGGAATTTTGGAAAGTTTAGG
1 GGTAAAAACGGTGTTAAAAATGGAATTTTGGAAAGTTCAGG
35710922 GGTA
1 GGTA
35710926 GAATGGTAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 1 0.03
40 36 0.90
41 3 0.08
ACGTcount: A:0.39, C:0.02, G:0.31, T:0.28
Consensus pattern (41 bp):
GGTAAAAACGGTGTTAAAAATGGAATTTTGGAAAGTTCAGG
Found at i:35710899 original size:40 final size:40
Alignment explanation
Indices: 35710853--35710932 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
35710843 TAAAAACGAG
35710853 GTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGT
1 GTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGT
* *
35710893 GTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAGAATGGT
1 GTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGT
35710933 AATTTTCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.31, T:0.31
Consensus pattern (40 bp):
GTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGT
Found at i:35712775 original size:17 final size:16
Alignment explanation
Indices: 35712753--35712807 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
35712743 TTTAAACATT
*
35712753 TAAATTCAAATTTAACA
1 TAAATTTAAATTTAA-A
35712770 TAAATTTAAATTCTAAA
1 TAAATTTAAATT-TAAA
*
35712787 TGAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
35712804 TAAA
1 TAAA
35712808 CTAAGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 29 0.88
18 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:35715762 original size:17 final size:17
Alignment explanation
Indices: 35715736--35715768 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35715726 TAAGTCCATT
*
35715736 TTATTTTAAATTTAAAA
1 TTATTGTAAATTTAAAA
35715753 TTATTGTAAATTTAAA
1 TTATTGTAAATTTAAA
35715769 TTAATGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTATTGTAAATTTAAAA
Found at i:35717671 original size:30 final size:30
Alignment explanation
Indices: 35717635--35717715 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
35717625 TAGACCCCCA
* *
35717635 AACTTTCCAAAAATTTTATTTTGACTCCCG
1 AACTTTCCAAAAATTATATTTTGACTACCG
*
35717665 AACTTTCCAAAAATTATATTTTGACTATCG
1 AACTTTCCAAAAATTATATTTTGACTACCG
* *
35717695 AACTTACCAAAAATTACATTT
1 AACTTTCCAAAAATTATATTT
35717716 GACCCCTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTCCAAAAATTATATTTTGACTACCG
Found at i:35717852 original size:88 final size:84
Alignment explanation
Indices: 35717695--35717944 Score: 252
Period size: 88 Copynumber: 2.8 Consensus size: 84
35717685 TTGACTATCG
* ** **
35717695 AACTTACCAAAAATTACATTTGACCC-CTAAACTTCTCAAAAATTACATTTTAACCTTAATTTTT
1 AACTTA-CAAAAATTACATTTTACCCTC-AAACTTCT-AAAAATTACATTTT-ACCCCAA-ACTT
*
35717759 TCAAAAATTACATTTTAA-CCCTCA
61 CCAAAAATTACATTTTAACCCCT-A
*
35717783 AACTTGATAAAAATTACATTTTTACCCTCAAACTTCTAAAAATTACATTTTACCCCCAAACCTTC
1 AACTT-ACAAAAATTACA-TTTTACCCTCAAACTTCTAAAAATTACATTTTA-CCCCAAA-CTTC
* *
35717848 CAAAAATCACATTTTTACCCCTA
62 CAAAAATTACATTTTAACCCCTA
* **
35717871 AACTTCCAAAAATTATCATTTTACCCTCAAACCTTCTAAAAATTGTATTTTTACCCCAAACTTCC
1 AACTTACAAAAATTA-CATTTTACCCTCAAA-CTTCTAAAAATTACA-TTTTACCCCAAACTT-C
35717936 CAAAAATTA
62 CAAAAATTA
35717945 TGTTTTTACC
Statistics
Matches: 138, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
87 25 0.18
88 87 0.63
89 25 0.18
90 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (84 bp):
AACTTACAAAAATTACATTTTACCCTCAAACTTCTAAAAATTACATTTTACCCCAAACTTCCAAA
AATTACATTTTAACCCCTA
Found at i:35717945 original size:59 final size:57
Alignment explanation
Indices: 35717695--35717944 Score: 263
Period size: 59 Copynumber: 4.3 Consensus size: 57
35717685 TTGACTATCG
* * **
35717695 AACTTACCAAAAATTACATTTGACCC-CTAAA-CTTCTCAAAAATTACATTTTAACCTTA
1 AACTT-CCAAAAATTACATTTTACCCTC-AAACCTTCT-AAAAATTACATTTTTACCCCA
** * *
35717753 ATTTTTTCAAAAATTACATTTTAACCCTCAAA-CTTGATAAAAATTACATTTTTACCCTCA
1 A-ACTTCCAAAAATTACATTTT-ACCCTCAAACCTT-CTAAAAATTACATTTTTACCC-CA
* * * *
35717813 AACTTCTAAAAATTACATTTTACCCCCAAACCTTCCAAAAATCACATTTTTACCCCTA
1 AACTTCCAAAAATTACATTTTACCCTCAAACCTTCTAAAAATTACATTTTTACCCC-A
**
35717871 AACTTCCAAAAATTATCATTTTACCCTCAAACCTTCTAAAAATTGTATTTTTACCCCA
1 AACTTCCAAAAATTA-CATTTTACCCTCAAACCTTCTAAAAATTACATTTTTACCCCA
35717929 AACTTCCCAAAAATTA
1 AACTT-CCAAAAATTA
35717945 TGTTTTTACC
Statistics
Matches: 161, Mismatches: 22, Indels: 17
0.81 0.11 0.09
Matches are distributed among these distances:
57 1 0.01
58 62 0.39
59 94 0.58
60 4 0.02
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.34
Consensus pattern (57 bp):
AACTTCCAAAAATTACATTTTACCCTCAAACCTTCTAAAAATTACATTTTTACCCCA
Found at i:35717950 original size:29 final size:28
Alignment explanation
Indices: 35717630--35717956 Score: 219
Period size: 29 Copynumber: 11.1 Consensus size: 28
35717620 ACGTTTAGAC
* *
35717630 CCCCAAACTTTCCAAAAATTTTATTTTGA
1 CCCCAAAC-TTCCAAAAATTATATTTTTA
* *
35717659 CTCCCGAACTTTCCAAAAATTATATTTTGA
1 C-CCCAAAC-TTCCAAAAATTATATTTTTA
** * * *
35717689 CTATCGAACTTACCAAAAATTACA-TTTGA
1 C-CCCAAACTT-CCAAAAATTATATTTTTA
* *
35717718 CCCCTAAACTTCTCAAAAATTACATTTTAA
1 CCCC-AAACTTC-CAAAAATTATATTTTTA
** ** * * *
35717748 CCTTAATTTTTTCAAAAATTACATTTTAA
1 CCCCAA-ACTTCCAAAAATTATATTTTTA
** *
35717777 CCCTCAAACTTGATAAAAATTACATTTTTA
1 CCC-CAAACTT-CCAAAAATTATATTTTTA
* *
35717807 CCCTCAAACTTCTAAAAATTACA-TTTTA
1 CCC-CAAACTTCCAAAAATTATATTTTTA
* *
35717835 CCCCCAAACCTTCCAAAAATCACATTTTTA
1 -CCCCAAA-CTTCCAAAAATTATATTTTTA
35717865 CCCCTAAACTTCCAAAAATTATCA-TTTTA
1 CCCC-AAACTTCCAAAAATTAT-ATTTTTA
* *
35717894 CCCTCAAACCTTCTAAAAATTGTATTTTTA
1 CCC-CAAA-CTTCCAAAAATTATATTTTTA
*
35717924 CCCCAAACTTCCCAAAAATTATGTTTTTA
1 CCCCAAACTT-CCAAAAATTATATTTTTA
35717953 CCCC
1 CCCC
35717957 CGAAGTGTCC
Statistics
Matches: 250, Mismatches: 31, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
28 14 0.06
29 126 0.50
30 110 0.44
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (28 bp):
CCCCAAACTTCCAAAAATTATATTTTTA
Found at i:35718058 original size:58 final size:58
Alignment explanation
Indices: 35717948--35718059 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
35717938 AAAATTATGT
** * * *
35717948 TTTTACCCCCGAAGTGTCCAAAATTACCATTTTGTCTTAGAAGTGTCTAAAATTACTA
1 TTTTACCCCCGAAGTGTCCAAAATTACCATTTTACCCTACAAGTGTCGAAAATTACTA
*
35718006 TTTTACCCCCGAAGTGTCCAAAATTACCATTTTACCCT-CAAGTATTCGAAAATT
1 TTTTACCCCCGAAGTGTCCAAAATTACCATTTTACCCTACAAGT-GTCGAAAATT
35718060 CGACTCCGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 4 0.09
58 43 0.91
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (58 bp):
TTTTACCCCCGAAGTGTCCAAAATTACCATTTTACCCTACAAGTGTCGAAAATTACTA
Found at i:35718059 original size:29 final size:29
Alignment explanation
Indices: 35717948--35718042 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 29
35717938 AAAATTATGT
35717948 TTTTACCCCCGAAGTGTCCAAAATTACCA
1 TTTTACCCCCGAAGTGTCCAAAATTACCA
** *** * *
35717977 TTTTGTCTTAGAAGTGTCTAAAATTACTA
1 TTTTACCCCCGAAGTGTCCAAAATTACCA
35718006 TTTTACCCCCGAAGTGTCCAAAATTACCA
1 TTTTACCCCCGAAGTGTCCAAAATTACCA
35718035 TTTTACCC
1 TTTTACCC
35718043 TCAAGTATTC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (29 bp):
TTTTACCCCCGAAGTGTCCAAAATTACCA
Found at i:35718469 original size:96 final size:96
Alignment explanation
Indices: 35718286--35718461 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
35718276 GGAAATATTC
* * * * *
35718286 CTTTATTTCTAGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCGATTTTTCTTCAAGTCGAAA
1 CTTTATCTCTAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGATTTTTCTTCAAATAGAAA
* *
35718351 TAATCGAATACCCTTAATCAAGGCAATGTTT
66 TAATCAAATACCATTAATCAAGGCAATGTTT
* *
35718382 CTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGACTTTTT-TTCAAATAGAG
1 CTTTATCTCTAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGA-TTTTTCTTCAAATAGAA
*
35718446 ATAATCAAATATCATT
65 ATAATCAAATACCATT
35718462 TTCCAAGGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 64 0.93
97 5 0.07
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (96 bp):
CTTTATCTCTAGTTTTGAAAATTTGTGCCTTAACTTACTAAGCGCGATTTTTCTTCAAATAGAAA
TAATCAAATACCATTAATCAAGGCAATGTTT
Found at i:35730236 original size:201 final size:201
Alignment explanation
Indices: 35729887--35731734 Score: 2646
Period size: 201 Copynumber: 9.3 Consensus size: 201
35729877 GATTATCTAC
* * * *
35729887 AAAC-AGTGAGGCGGTTATCTTCCTGATAAAATTCAGAGAAGTATACCAACTCCAA-GCTCAATG
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACT-CAAGGCTCAATG
* * *
35729950 CGAGCAAATCTTCGAA-CCTCAGCTTCCTGATGAGACACTGAGAAGTAGGTTGAAGCAATAAAAT
65 CGAGCAAATCTTCGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* *
35730014 GGTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAA
129 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
35730079 GCGGATTG
194 GCGGATTG
* *
35730087 AAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTTAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * * * *
35730152 TAGCAAATCTTCGAACCCTAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGAAATAAAATGG
66 GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* *
35730217 TTAGTTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTGTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
***
35730282 ATTTTG
196 GGATTG
* * *
35730288 AAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCATCTTAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
35730353 AAGCAAATCTTCGAACACC-AGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAATG
66 GAGCAAATCTTCGAAC-CCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
* *
35730417 GTTAGCTTCC---T--G--A-TGAGAAGTGGACCAAATTAGTCTTTCTGATGAGATACAGAGAAG
130 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
*
35730474 CAGATTG
195 CGGATTG
* * *
35730481 AAATAAGTGAGGCAGG-CATCTTCTTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATG
1 AAACAAGTGAGGC-GGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATG
* * * *
35730545 CGAGCTACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATG
65 CGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
* * * *
35730610 GTTAGCTTCCTAATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGATATAGAGAAG
130 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
*
35730675 CGAATTG
195 CGGATTG
* * * *
35730682 AAACAAGTGAGACGGTCATTTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGATCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* *
35730747 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * *
35730812 TTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATATAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
35730877 GGATTG
196 GGATTG
* * *
35730883 AAACAAGTAAGGCGGTCATCTTCCTGATGAGATATATAGAAGTATACCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * * ** *
35730948 GAGCAAATCATCGAA-CATCAGCTTCTTGATGAGATGTTGAGAAGTAGGTCGAAGCAATAAAATG
66 GAGCAAATCTTCGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
35731012 GTTAGCTTCC---T--G--A-TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
130 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
***
35731069 AAAATTG
195 CGGATTG
* * *
35731076 AAACAAGTGAGACGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGT
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
35731141 GAGCAACTCTTCGAACCCTAGCTTCCTTATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
*
35731206 TTAGCTTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
131 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
35731271 GGATTG
196 GGATTG
*
35731277 AAACAAGTGAGGCTGTCATCTTCCTGATGAGATACAAGAGAAGTATACCAACTCAAGGCTCAATG
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATAC-AGAGAAGTATACCAACTCAAGGCTCAATG
* *
35731342 CAAGCAAATCTTCGAA-CCTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAT
65 CGAGCAAATCTTCGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* * * *
35731406 GTTTAGCTTCTTGATGAGATACTAAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAA
129 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
35731471 GCGGATTG
194 GCGGATTG
* *
35731479 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATTCAGAGAAGTATATCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
35731544 GAGCAAATCATCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-CCACAGCAATAAAATG
66 GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGA-AGCAATAAAATG
* *
35731608 GTTAGCTTCCTGATGAGATAATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
130 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
35731673 CGGATTG
195 CGGATTG
* * * * * *
35731680 AAATAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAA
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAA
35731735 CAACACCAAA
Statistics
Matches: 1483, Mismatches: 136, Indels: 57
0.88 0.08 0.03
Matches are distributed among these distances:
192 2 0.00
193 339 0.23
194 5 0.00
196 4 0.00
198 4 0.00
200 14 0.01
201 924 0.62
202 191 0.13
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (201 bp):
AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
GAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
GGATTG
Found at i:35730628 original size:394 final size:395
Alignment explanation
Indices: 35729887--35731734 Score: 2531
Period size: 394 Copynumber: 4.6 Consensus size: 395
35729877 GATTATCTAC
* * * *
35729887 AAAC-AGTGAGGCGGTTATCTTCCTGATAAAATTCAGAGAAGTATACCAACTCCAA-GCTCAATG
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACT-CAAGGCTCAATG
* * *
35729950 CGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGACACTGAGAAGTAGGTTGAAGCAATAAAATG
65 CGAGCAAATCTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATG
*
35730015 GTTAGCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAG
129 GTTAGCTTCC--AT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
* *
35730080 CGGATTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGC
190 CGGATTGAAACAAGTGAGGC-GGCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGC
* * * * * * *
35730145 TTAATGCTAGCAAATCTTCGAACCCTAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGAAAT
254 TCAATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
* * *
35730210 AAAATGGTTAGTTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTGTTCCTGATGAGATACA
319 AAAATGGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACA
*
35730275 GAGAAGCATTTTG
384 GAGAAGCA-ATTG
* * *
35730288 AAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCATCTTAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
35730353 AAGCAAATCTTCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAAC-CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * *
35730418 TTAGCTTCC-T-G-A-TGAGAAGTGGACCAAATTAGTCTTTCTGATGAGATACAGAGAAGCAGAT
130 TTAGCTTCCATAGAACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* *
35730479 TGAAATAAGTGAGGCAGGCATCTTCTTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAAT
195 TGAAACAAGTGAGGC-GGCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAAT
* * *
35730544 GCGAGCTACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAAT
259 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAT
* * *
35730609 GGTTAGCTTCCTAATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGATATAGAGAA
324 GGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
35730674 GCGAATTG
389 GC-AATTG
* * * *
35730682 AAACAAGTGAGACGGTCATTTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGATCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
*
35730747 GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
* * *
35730812 TTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATATAGAAGC
130 TTAGCTTC--CAT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
* *
35730877 GGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATATATAGAAGTATACCAACTCAAGGCT
191 GGATTGAAACAAGTGAGGCGG-CATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCT
* ** * ** *
35730942 CAATGCGAGCAAATCATCGAACATCAGCTTCTTGATGAGATGTTGAGAAGTAGGTCGAAGCAATA
255 CAATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
35731007 AAATGGTTAGCTTCCTGAT--G------AGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
320 AAATGGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
*
35731064 AGAAGAAAATTG
385 AGAAG-CAATTG
* * *
35731076 AAACAAGTGAGACGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGT
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* * *
35731141 GAGCAACTCTTCGAACCCTAGCTTCCTTATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGG
66 GAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
*
35731206 TTAGCTTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
130 TTAGCTTCC--AT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
* *
35731271 GGATTGAAACAAGTGAGGCTGTCATCTTCCTGATGAGATACAAGAGAAGTATACCAACTCAAGGC
191 GGATTGAAACAAGTGAGGC-GGCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTCAAGGC
* * *
35731336 TCAATGCAAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAAT
254 TCAATGCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
* * *
35731401 AAAATGTTTAGCTTCTTGATGAGATACTAAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACA
319 AAAATGGTTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACA
*
35731466 GAGAAGCGGATTG
384 GAGAAGC-AATTG
* *
35731479 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATTCAGAGAAGTATATCAACTCAAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
* *
35731544 GAGCAAATCATCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-CCACAGCAATAAAATG
66 GAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGA-AGCAATAAAATG
* *
35731608 GTTAGCTTCCTGATGAGATAATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
129 GTTAGCTTCC--AT-AGA-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
* * * * *
35731673 CGGATTGAAATAAGCGATGCGGTCATCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAA
190 CGGATTGAAACAAGTGAGGCGG-CATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTCAA
35731735 CAACACCAAA
Statistics
Matches: 1295, Mismatches: 120, Indels: 63
0.88 0.08 0.04
Matches are distributed among these distances:
393 3 0.00
394 607 0.47
395 101 0.08
397 3 0.00
399 2 0.00
400 1 0.00
401 9 0.01
402 309 0.24
403 257 0.20
404 3 0.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (395 bp):
AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATGC
GAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGT
TAGCTTCCATAGAACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
GAAACAAGTGAGGCGGCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGC
GAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGG
TTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
AATTG
Found at i:35731022 original size:595 final size:595
Alignment explanation
Indices: 35729891--35731734 Score: 2827
Period size: 595 Copynumber: 3.1 Consensus size: 595
35729881 ATCTACAAAC
* * *
35729891 AGTGAGGCGGTTATCTTCCTGATAAAAT-TCAGAGAAGTATACCAACTCCAA-GCTCAATGCGAG
1 AGTGAGGCGGTCATCTTCCTGATGAGATAT-AGAGAAGTATACCAACT-CAAGGCTCAATGCGAG
* * * * *
35729954 CAAATCTTCGAACCTCAGCTTCCTGATGAGACACTGAGAAGTAGGTTGAAGCAATAAAATGGTTA
64 CAACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
35730019 GCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGA
129 GCTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGA
*
35730084 TTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTTAA
194 TTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAA
* * * * *
35730149 TGCTAGCAAATCTTCGAACCCTAGCTTCCTGATGAGACATTGAGAAGTAGGTCGAAGAAATAAAA
259 TGCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
35730214 TGGTTAGTTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTGTTCCTGATGAGATACAGAGA
324 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
*** * * * *
35730279 AGCATTTTGAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCATCTTAAG
389 AGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAG
* *
35730344 GCTCAATGCAAGCAAATCTTCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCA
454 GCTCAATGCGAGCAAATCATCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCA
* *
35730409 ATAAAATGGTTAGCTTCCTGATGAGAAGTGGACCAAATTAGTCTTTCTGATGAGATACAGAGAAG
519 ATAAAATGGTTAGCTTCCTGATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
35730474 CAGATTGAAATA
584 CAGATTGAAATA
*
35730486 AGTGAGGCAGG-CATCTTCTTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGCGAGC
1 AGTGAGGC-GGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGCGAGC
* *
35730550 TACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAG
65 AACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
* * *
35730615 CTTCCTAATGAGATACTAAGAAGTGGACCAAATTCGTCTTCCTAATGAGATATAGAGAAGCGAAT
130 CTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGAT
* * * * *
35730680 TGAAACAAGTGAGACGGTCATTTTCCTGATGAGATACAGAGAAGTATACCAACTCAGGGATCAAT
195 TGAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAT
*
35730745 GCGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
260 GCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
* *
35730810 GGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATATAGAA
325 GGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
* *
35730875 GCGGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATATATAGAAGTATACCAACTCAAGG
390 GCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGG
* * *
35730940 CTCAATGCGAGCAAATCATCGAACATCAGCTTCTTGATGAGATGTTGAGAAGTAGGTCGAAGCAA
455 CTCAATGCGAGCAAATCATCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAA
*
35731005 TAAAATGGTTAGCTTCCTGATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGA
520 TAAAATGGTTAGCTTCCTGATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGC
* *
35731070 AAATTGAAACA
585 AGATTGAAATA
* *
35731081 AGTGAGACGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGTGAGCA
1 AGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGCGAGCA
* * *
35731146 ACTCTTCGAACCCTAGCTTCCTTATGAGATATTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
66 ACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
* * *
35731211 TTCCTGATGAGATATTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
131 TTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGATT
*
35731276 GAAACAAGTGAGGCTGTCATCTTCCTGATGAGATACAAGAGAAGTATACCAACTCAAGGCTCAAT
196 GAAACAAGTGAGGCAGTCATCTTCCTGATGAGATAC-AGAGAAGTATACCAACTCAAGGCTCAAT
* * *
35731341 GCAAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAAT
260 GCAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAT
* * *
35731406 GTTTAGCTTCTTGATGAGATACTAAGAAGTGGATCAAATTCGTCTTCCTGATGAGATACAGAGAA
325 GGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
*
35731471 GCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGAT-TCAGAGAAGTATATCAACTCAAG
390 GCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATAT-AGAGAAGTATACCAACTCAAG
* * * *
35731535 GCTCAATGCGAGCAAATCATCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGG-CCACAGC
454 GCTCAATGCGAGCAAATCATCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGA-AGC
35731599 AATAAAATGGTTAGCTTCCTGATGAGATAATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
518 AATAAAATGGTTAGCTTCC---T--G---ATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* *
35731664 ACAAAGAAGCGGATTGAAATA
575 ACAGAGAAGCAGATTGAAATA
* * * *
35731685 AGCGATGCGGTCATCTTCCTGATGAGATACT-GAGAAGTAGACCAAATCAA
1 AGTGAGGCGGTCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTCAA
35731735 CAACACCAAA
Statistics
Matches: 1136, Mismatches: 97, Indels: 23
0.90 0.08 0.02
Matches are distributed among these distances:
594 5 0.00
595 751 0.66
596 282 0.25
599 1 0.00
601 1 0.00
604 95 0.08
605 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (595 bp):
AGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGCTCAATGCGAGCA
ACTCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
TTCCTAATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGATT
GAAACAAGTGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAATG
CAAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAATG
GTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
CGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTCAAGGC
TCAATGCGAGCAAATCATCGAACACCAGCTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAAT
AAAATGGTTAGCTTCCTGATGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCA
GATTGAAATA
Found at i:35732058 original size:17 final size:17
Alignment explanation
Indices: 35732035--35732128 Score: 116
Period size: 17 Copynumber: 5.5 Consensus size: 17
35732025 CTCACTTTCT
35732035 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
35732052 ATTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
* *
35732069 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
35732086 TTTAAGTTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
35732104 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
35732121 TTTAAATT
1 TTTAAATT
35732129 AATGAAAGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
17 50 0.79
18 13 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:35732072 original size:6 final size:6
Alignment explanation
Indices: 35732035--35732128 Score: 63
Period size: 6 Copynumber: 16.3 Consensus size: 6
35732025 CTCACTTTCT
* * **
35732035 TTTAAA TTT-AT TTTAAA ATTAAA TTT-GT TTTAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** *
35732080 TTTAAG TTTAAG TTTATT TTTAAA TTTAAA ATT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
35732127 TT
1 TT
35732129 AATGAAAGTC
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.19
6 49 0.73
7 3 0.04
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:35734049 original size:30 final size:30
Alignment explanation
Indices: 35734015--35734250 Score: 210
Period size: 30 Copynumber: 7.9 Consensus size: 30
35734005 TTGACCCTCA
* *
35734015 AACTTTCCAAAATTTATATTTTAACCCCCG
1 AACTTTCCAAAAATTACATTTTAACCCCCG
* * *
35734045 AACTTTCCAAAAATTATATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTAACCCCCG
* * **
35734075 AACTTTCCAAAAATTATATTTTGACCCCTA
1 AACTTTCCAAAAATTACATTTTAACCCCCG
**
35734105 AAC-TTCTCAAAAATTACATTTTAA-CCTTG
1 AACTTTC-CAAAAATTACATTTTAACCCCCG
* * * *
35734134 AACTTTTCAAAAATTACATTTTGACCCTCA
1 AACTTTCCAAAAATTACATTTTAACCCCCG
** ** *
35734164 AACTTTATAAAAATTACATTTTTGCCCCTG
1 AACTTTCCAAAAATTACATTTTAACCCCCG
* *
35734194 AAC-TTCCAAAAATTACCATTTT-GCCCTCG
1 AACTTTCCAAAAATTA-CATTTTAACCCCCG
* *
35734223 AACCTTCCAAAAATTACATTTTGACCCC
1 AACTTTCCAAAAATTACATTTTAACCCC
35734251 AAACTTCCTT
Statistics
Matches: 173, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
29 49 0.28
30 124 0.72
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTAACCCCCG
Found at i:35734076 original size:60 final size:60
Alignment explanation
Indices: 35734003--35734309 Score: 265
Period size: 59 Copynumber: 5.2 Consensus size: 60
35733993 ATAAATCATG
* * * * *
35734003 TTTTGACCCTCAAACTTTCCAAAATTTATATTTTAACCCCCGAACTTTCCAAAAATTATA
1 TTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCCCGAACTTTCCAAAAATTACA
* **
35734063 TTTTAACCCTCAAACTTTCCAAAAATTATATTTTGACCCCTAAAC-TTCTCAAAAATTACA
1 TTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCCCGAACTTTC-CAAAAATTACA
** * * * **
35734123 TTTTAA-CCTTGAACTTTTCAAAAATTACATTTTGACCCTCAAACTTTATAAAAATTACA
1 TTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCCCGAACTTTCCAAAAATTACA
** * * *
35734182 TTTTTGCCC-CTGAAC-TTCCAAAAATTACCATTTTG-CCCTCGAACCTTCCAAAAATTACA
1 TTTTAACCCTC-AAACTTTCCAAAAATTA-CATTTTGACCCCCGAACTTTCCAAAAATTACA
* * * * *
35734241 TTTTGACCC-CAAAC-TTCCTTAAAATTACTATTTTG-CCCTCGAAGTGTCC-AAAATTAACA
1 TTTTAACCCTCAAACTTTCC-AAAAATTAC-ATTTTGACCCCCGAACTTTCCAAAAATT-ACA
35734300 TTTT-ACCCTC
1 TTTTAACCCTC
35734310 GAGCATCCAA
Statistics
Matches: 209, Mismatches: 29, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
58 18 0.09
59 120 0.57
60 71 0.34
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (60 bp):
TTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACCCCCGAACTTTCCAAAAATTACA
Found at i:35734291 original size:89 final size:88
Alignment explanation
Indices: 35734019--35734324 Score: 320
Period size: 89 Copynumber: 3.5 Consensus size: 88
35734009 CCCTCAAACT
* * * * * *
35734019 TTCCAAAATTTATATTTTAACCCCCGAACTTTCCAAAAATTATATTTTAACCCTCAAACTTTCC-
1 TTCCAAAAATTACATTTT-ACCCTCGAACCTTCCAAAAATTACATTTTGACCCTCAAAC-TTCCT
*
35734083 AAAAATTA-TATTTTGACCCCTAAAC
64 AAAAATTACTATTTTG-CCCCTGAAC
* * * * **
35734108 TTCTCAAAAATTACATTTTAACCTTGAACTTTTCAAAAATTACATTTTGACCCTCAAACTTTATA
1 TTC-CAAAAATTACATTTTACCCTCGAACCTTCCAAAAATTACATTTTGACCCTCAAACTTCCTA
35734173 AAAATTAC-ATTTTTGCCCCTGAAC
65 AAAATTACTA-TTTTGCCCCTGAAC
* *
35734197 TTCCAAAAATTACCATTTTGCCCTCGAACCTTCCAAAAATTACATTTTGACCC-CAAACTTCCTT
1 TTCCAAAAATTA-CATTTTACCCTCGAACCTTCCAAAAATTACATTTTGACCCTCAAACTTCCTA
*
35734261 AAAATTACTATTTTG-CCCTCGAAG
65 AAAATTACTATTTTGCCCCT-GAAC
* *
35734285 TGTCC-AAAATTAACATTTTACCCTCG-AGCATCCAAAAATT
1 T-TCCAAAAATT-ACATTTTACCCTCGAACCTTCCAAAAATT
35734325 CGACTCCTTT
Statistics
Matches: 185, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
87 16 0.09
88 54 0.29
89 97 0.52
90 18 0.10
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (88 bp):
TTCCAAAAATTACATTTTACCCTCGAACCTTCCAAAAATTACATTTTGACCCTCAAACTTCCTAA
AAATTACTATTTTGCCCCTGAAC
Found at i:35751303 original size:48 final size:48
Alignment explanation
Indices: 35751228--35751621 Score: 410
Period size: 48 Copynumber: 8.2 Consensus size: 48
35751218 CAGAGACATG
* *
35751228 AAGGGAAAGATCTAAG-TCGCAACGGCGGATCCAGTACCATGAAGACAC
1 AAGGGAAAGATCTAAGCT-GCAATGGCGGATCCAGTACCACGAAGACAC
35751276 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
1 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
* * * * * *
35751324 AAGGGAAAGGTTTAAG-TCGCAGTGGC-GAACCTAGTACCTC-AGAGACATG
1 AAGGGAAAGATCTAAGCT-GCAATGGCGGATCC-AGTACCACGA-AGACA-C
* * * *
35751373 AAGGGAAAGATCTAA-CCGCAACGGCAGATCCAATACCACGAAGACAC
1 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
* * ** *
35751420 AAGGAAAAGATCTAAGCCGCAATGGTAGATCCAGTACCATGAAGACAC
1 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
* * *
35751468 AAGGGAAAG-TCTTAAG-TCGCAATGGC-GAACCTAGTACCTC-AGAGACATG
1 AAGGGAAAGATC-TAAGCT-GCAATGGCGGATCC-AGTACCACGA-AGACA-C
* * *
35751517 AAGGGAAAGATCTAAGCCGTAACGGCGGATCCAGTACCACGAAGACAC
1 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
* *
35751565 AAGGGAAAGATCTAAGCTGTAATGGCGGATCTAGTACCACGAAGACAC
1 AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
35751613 AAGGGAAAG
1 AAGGGAAAG
35751622 GTTTAGTCGT
Statistics
Matches: 290, Mismatches: 38, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
47 27 0.09
48 206 0.71
49 50 0.17
50 7 0.02
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.14
Consensus pattern (48 bp):
AAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACAC
Found at i:35751341 original size:96 final size:95
Alignment explanation
Indices: 35751228--35751698 Score: 454
Period size: 96 Copynumber: 4.9 Consensus size: 95
35751218 CAGAGACATG
*
35751228 AAGGGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCATGAAGACACAAGGGAAAGATCTAAGC
1 AAGGGAAAGATCTAAGTCGCAATGGC-GATCCAGTACCATGAAGACACAAGGGAAAGATCTAAGC
35751293 TGCAATGGCGGATCCAGTACCACGAAGACAC
65 TGCAATGGCGGATCCAGTACCACGAAGACAC
* * * * * *
35751324 AAGGGAAAGGTTTAAGTCGCAGTGGCGAACCTAGTACC-TCAGAGACATGAAGGGAAAGATCTAA
1 AAGGGAAAGATCTAAGTCGCAATGGCGATCC-AGTACCATGA-AGACA-CAAGGGAAAGATCTAA
* * * *
35751388 -CCGCAACGGCAGATCCAATACCACGAAGACAC
63 GCTGCAATGGCGGATCCAGTACCACGAAGACAC
* * *
35751420 AAGGAAAAGATCTAAGCCGCAATGGTAGATCCAGTACCATGAAGACACAAGGGAAAG-TCTTAAG
1 AAGGGAAAGATCTAAGTCGCAATGG-CGATCCAGTACCATGAAGACACAAGGGAAAGATC-TAAG
* * *
35751484 -TCGCAATGGC-GAACCTAGTACCTC-AGAGACATG
64 CT-GCAATGGCGGATCC-AGTACCACGA-AGACA-C
* * * *
35751517 AAGGGAAAGATCTAAGCCGTAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGC
1 AAGGGAAAGATCTAAGTCGCAATGGC-GATCCAGTACCATGAAGACACAAGGGAAAGATCTAAGC
* *
35751582 TGTAATGGCGGATCTAGTACCACGAAGACAC
65 TGCAATGGCGGATCCAGTACCACGAAGACAC
* * * * * * *
35751613 AAGGGAAAGGT-TTAGTCGTAATGGCGAACCTAGTACC-TTAGAGACATGAAGGGAAAGATTTAA
1 AAGGGAAAGATCTAAGTCGCAATGGCGATCC-AGTACCATGA-AGACA-CAAGGGAAAGATCTAA
** * *
35751676 GCCACAACGGCGAATCCAGTACC
63 GCTGCAATGGCGGATCCAGTACC
35751699 GAGAAAACAC
Statistics
Matches: 305, Mismatches: 51, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
94 7 0.02
95 45 0.15
96 151 0.50
97 95 0.31
98 7 0.02
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.15
Consensus pattern (95 bp):
AAGGGAAAGATCTAAGTCGCAATGGCGATCCAGTACCATGAAGACACAAGGGAAAGATCTAAGCT
GCAATGGCGGATCCAGTACCACGAAGACAC
Found at i:35751451 original size:144 final size:145
Alignment explanation
Indices: 35751115--35751698 Score: 798
Period size: 144 Copynumber: 4.0 Consensus size: 145
35751105 CAGGTCTCAA
* * * ** * * * * *
35751115 TACCACGAA-ACATGAAGGGAAATATTTAAGCCACAATGACGAATCCAGTACCATGAAAATATCA
1 TACCACGAAGACA-CAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACA-CA
* ** * * *
35751179 AGGCAAAAGGTTTAAGTCGCAACAGTGAATCTTGTACCTCAGAGACATGAAGGGAAAGATCTAAG
64 AGG-GAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
*
35751244 TCGCAACGGCGGATCCAG
128 CCGCAACGGCGGATCCAG
*
35751262 TACCATGAAGACACAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACACAAG
1 TACCACGAAGACACAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACACAAG
*
35751327 GGAAAGGTTTAAGTCGCAGTGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAA-CCG
66 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
* *
35751391 CAACGGCAGATCCAA
131 CAACGGCGGATCCAG
* * ** *
35751406 TACCACGAAGACACAAGGAAAAGATCTAAGCCGCAATGGTAGATCCAGTACCATGAAGACACAAG
1 TACCACGAAGACACAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACACAAG
35751471 GGAAA-GTCTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCC
66 GGAAAGGT-TTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCC
*
35751535 GTAACGGCGGATCCAG
130 GCAACGGCGGATCCAG
* *
35751551 TACCACGAAGACACAAGGGAAAGATCTAAGCTGTAATGGCGGATCTAGTACCACGAAGACACAAG
1 TACCACGAAGACACAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * * *
35751616 GGAAAGGTTT-AGTCGTAATGGCGAACCTAGTACCTTAGAGACATGAAGGGAAAGATTTAAGCCA
66 GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
*
35751680 CAACGGCGAATCCAG
131 CAACGGCGGATCCAG
35751695 TACC
1 TACC
35751699 GAGAAAACAC
Statistics
Matches: 389, Mismatches: 44, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
143 2 0.01
144 198 0.51
145 133 0.34
146 7 0.02
147 46 0.12
148 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (145 bp):
TACCACGAAGACACAAGGGAAAGATCTAAGCTGCAATGGCGGATCCAGTACCACGAAGACACAAG
GGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCG
CAACGGCGGATCCAG
Found at i:35752233 original size:18 final size:17
Alignment explanation
Indices: 35752210--35752252 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35752200 TAAAATTAGG
*
35752210 TTTAAATTGATTTTTAAA
1 TTTAAATTGA-TCTTAAA
*
35752228 TTTAAATTTATCTTAAA
1 TTTAAATTGATCTTAAA
35752245 TTTAAATT
1 TTTAAATT
35752253 TGCTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTAAATTGATCTTAAA
Found at i:35752245 original size:17 final size:16
Alignment explanation
Indices: 35752223--35752280 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 16
35752213 AAATTGATTT
35752223 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTA-C
*
35752240 TTAAATTTAAATTTGC
1 TTAAATTTAAATTTAC
* *
35752256 TTTAAATTTGAATTTAA
1 -TTAAATTTAAATTTAC
35752273 TTAAATTT
1 TTAAATTT
35752281 GAAACAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 9 0.25
17 27 0.75
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTTAAATTTAC
Found at i:35753052 original size:13 final size:13
Alignment explanation
Indices: 35753036--35753060 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35753026 TAGCATTAAT
35753036 AAATATTAATAAG
1 AAATATTAATAAG
35753049 AAATATTAATAA
1 AAATATTAATAA
35753061 TATTCATAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATATTAATAAG
Found at i:35754193 original size:29 final size:29
Alignment explanation
Indices: 35754158--35754582 Score: 209
Period size: 29 Copynumber: 14.6 Consensus size: 29
35754148 TTTTGACCTC
* *
35754158 CAAACTTTCCAAAAATTACATTTTTCCCT
1 CAAACTTTCCAAAAATTCCATTTTACCCT
* *
35754187 CAAAC-TTCTAAAAATTCCATTTTTAGCCT
1 CAAACTTTCCAAAAATTCCA-TTTTACCCT
*
35754216 CAAAACTTT-TAAAAATTACCATTTTACCCT
1 C-AAACTTTCCAAAAATT-CCATTTTACCCT
*
35754246 TAAAC-TTCC-AAAATTCCATTTTTGACCC-
1 CAAACTTTCCAAAAATTCCA-TTTT-ACCCT
** **
35754274 CAATTTTTTTAAAAATTGCCATTTTACCCT
1 CAAACTTTCCAAAAATT-CCATTTTACCCT
* * *
35754304 -AAAATATCAAAAAATTCCATTTTGACCCT
1 CAAACTTTCCAAAAATTCCATTTT-ACCCT
* *
35754333 AAAAC-TT-CTAAAATTACCATTTTACCCT
1 CAAACTTTCCAAAAATT-CCATTTTACCCT
*
35754361 CAAA-TGTCCAAAAATTCCATTTTTAACCCT
1 CAAACTTTCCAAAAATTCCA-TTTT-ACCCT
* *
35754391 -AAAATTTTCAAAAATTACCATTTTACCCT
1 CAAACTTTCCAAAAATT-CCATTTTACCCT
* *
35754420 CAGA--TTCCAAAAATTCTATTTTTGA-CCT
1 CAAACTTTCCAAAAATTCCA-TTTT-ACCCT
* ** * *
35754448 CAAAATTATTGAAAAATACCATTTTACCCC
1 CAAACTT-TCCAAAAATTCCATTTTACCCT
* * *
35754478 CGAA-TGTT-CAAAATTTCCATTTTTAACCT
1 CAAACT-TTCCAAAAATTCCA-TTTTACCCT
* ** * * *
35754507 CAAATTTTTTGAAAAGTACCATTTTGCCCT
1 CAAA-CTTTCCAAAAATTCCATTTTACCCT
* * * *
35754537 TAAA-TGTCTAAAAAATCCATTTTTAACCC-
1 CAAACTTTCCAAAAATTCCA-TTTT-ACCCT
*
35754566 CAAACTTTCCGAAAATT
1 CAAACTTTCCAAAAATT
35754583 ACCAATTTGC
Statistics
Matches: 301, Mismatches: 60, Indels: 69
0.70 0.14 0.16
Matches are distributed among these distances:
27 5 0.02
28 88 0.29
29 91 0.30
30 88 0.29
31 29 0.10
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (29 bp):
CAAACTTTCCAAAAATTCCATTTTACCCT
Found at i:35754222 original size:59 final size:58
Alignment explanation
Indices: 35754148--35754586 Score: 362
Period size: 59 Copynumber: 7.5 Consensus size: 58
35754138 TGAAATCATA
* * * *
35754148 TTTTGACCTCCAAACTTTCCAAAAATTA-CATTTTTCCCTCAAACTTCTAAAAATTCCAT
1 TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAA-TTC-AAAAATTCCAT
* * *
35754207 TTTTAGCCTCAAAACTTTT-AAAAATTACCATTTTACCCTTAAACTTCCAAAATTCCAT
1 TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAA-TTCAAAAATTCCAT
* * ** * * *
35754265 TTTTGACC-CCAATTTTTTTAAAAATTGCCATTTTACCCTAAAATATCAAAAAATTCCAT
1 TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAAT-TC-AAAAATTCCAT
* * *
35754324 TTTGACCCT-AAAAC--TTCTAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCAT
1 TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAAT-T-CAAAAATTCCAT
* *
35754381 TTTTAACC-CTAAAA-TTTTCAAAAATTACCATTTTACCCTCAGATTCCAAAAATTCTAT
1 TTTTAACCTC-AAAACTTTTCAAAAATTACCATTTTACCCTCAAATT-CAAAAATTCCAT
* * * * *
35754439 TTTTGACCTCAAAA-TTATTGAAAAA-TACCATTTTACCCCCGAATGTTCAAAATTTCCAT
1 TTTTAACCTCAAAACTT-TTCAAAAATTACCATTTTACCCTC-AA-ATTCAAAAATTCCAT
* ** * * * *
35754498 TTTTAACCTC-AAATTTTTTGAAAAGTACCATTTTGCCCTTAAATGTCTAAAAAATCCAT
1 TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAAT-TC-AAAAATTCCAT
* * *
35754557 TTTTAACC-CCAAACTTTCCGAAAATTACCA
1 TTTTAACCTCAAAACTTTTCAAAAATTACCA
35754587 ATTTGCCATC
Statistics
Matches: 310, Mismatches: 51, Indels: 38
0.78 0.13 0.10
Matches are distributed among these distances:
57 51 0.16
58 107 0.35
59 150 0.48
60 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (58 bp):
TTTTAACCTCAAAACTTTTCAAAAATTACCATTTTACCCTCAAATTCAAAAATTCCAT
Found at i:35754338 original size:87 final size:88
Alignment explanation
Indices: 35754159--35754451 Score: 263
Period size: 87 Copynumber: 3.4 Consensus size: 88
35754149 TTTGACCTCC
* * *
35754159 AAACTTTCCAAAAATTACATTTTT--CCCTCAAACT-TCTAAAAATTCCATTTTT-AGCCTCAAA
1 AAAC-TTCC-AAAATTCCATTTTTGACCCTCAAA-TGTCCAAAAATTCCATTTTTAACCCT-AAA
* *
35754220 ACTT-TTAAAAATTACCATTTTACCCTT
62 A-TTATCAAAAATTACCATTTTACCCTA
* * **
35754247 AAACTTCCAAAATTCCATTTTTGACCC-CAATTTTTTTAAAAATTGCCA-TTTT-ACCCTAAAA-
1 AAACTTCCAAAATTCCATTTTTGACCCTCAA-ATGTCCAAAAATT-CCATTTTTAACCCTAAAAT
35754308 TATCAAAAAATT-CCATTTTGACCCTA
64 TATC-AAAAATTACCATTTT-ACCCTA
*
35754334 AAACTTCTAAAATTACCA-TTTT-ACCCTCAAATGTCCAAAAATTCCATTTTTAACCCTAAAATT
1 AAACTTCCAAAATT-CCATTTTTGACCCTCAAATGTCCAAAAATTCCATTTTTAACCCTAAAATT
* *
35754397 TTCAAAAATTACCATTTTACCCTC
65 ATCAAAAATTACCATTTTACCCTA
* *
35754421 AGA-TTCCAAAAATTCTATTTTTGA-CCTCAAA
1 AAACTTCC-AAAATTCCATTTTTGACCCTCAAA
35754452 ATTATTGAAA
Statistics
Matches: 172, Mismatches: 16, Indels: 35
0.77 0.07 0.16
Matches are distributed among these distances:
85 4 0.02
86 43 0.25
87 84 0.49
88 38 0.22
89 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (88 bp):
AAACTTCCAAAATTCCATTTTTGACCCTCAAATGTCCAAAAATTCCATTTTTAACCCTAAAATTA
TCAAAAATTACCATTTTACCCTA
Found at i:35756083 original size:51 final size:52
Alignment explanation
Indices: 35755951--35756083 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 52
35755941 GAGCAGGCTT
* * * * * *
35755951 CGAGCCGGTAATTAAATAGTAAGCCTTGAGCCGGTGATTTACTAGCAGGCTT
1 CGAGCCGGTGATTAAATAGTAGGCCTTGAGCCGGTGATCTACTACCAGACTA
** * * *
35756003 CGAGCCGGTGATTACGTAGCAGGCCTTGAGCCGTTGA-CTATTACCAGACTA
1 CGAGCCGGTGATTAAATAGTAGGCCTTGAGCCGGTGATCTACTACCAGACTA
* *
35756054 CGAGCCGGTGATTAATTAGTAGGCTTTGAG
1 CGAGCCGGTGATTAAATAGTAGGCCTTGAG
35756084 TAGGTGATTG
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
51 35 0.53
52 31 0.47
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (52 bp):
CGAGCCGGTGATTAAATAGTAGGCCTTGAGCCGGTGATCTACTACCAGACTA
Found at i:35756115 original size:26 final size:26
Alignment explanation
Indices: 35755952--35756116 Score: 104
Period size: 26 Copynumber: 6.4 Consensus size: 26
35755942 AGCAGGCTTC
* * *
35755952 GAGCCGGTAATTAAATAGTAAGCCTT
1 GAGCCGGTGATTAATTAGTAGGCCTT
* * *
35755978 GAGCCGGTGATTTACTAGCAGG-CTT
1 GAGCCGGTGATTAATTAGTAGGCCTT
** *
35756003 CGAGCCGGTGATTACGTAGCAGGCCTT
1 -GAGCCGGTGATTAATTAGTAGGCCTT
* * ** * *
35756030 GAGCCGTTGACT-ATTACCA-GACTAC
1 GAGCCGGTGATTAATTAGTAGGCCT-T
*
35756055 GAGCCGGTGATTAATTAGTAGGCTTT
1 GAGCCGGTGATTAATTAGTAGGCCTT
** *
35756081 GAGTAGGTGATTGAA-TAGTTGGCCTT
1 GAGCCGGTGATT-AATTAGTAGGCCTT
35756107 GAGCCGGTGA
1 GAGCCGGTGA
35756117 CTTTTAGCTG
Statistics
Matches: 105, Mismatches: 28, Indels: 12
0.72 0.19 0.08
Matches are distributed among these distances:
24 3 0.03
25 17 0.16
26 78 0.74
27 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (26 bp):
GAGCCGGTGATTAATTAGTAGGCCTT
Found at i:35758078 original size:41 final size:41
Alignment explanation
Indices: 35758021--35758204 Score: 226
Period size: 41 Copynumber: 4.4 Consensus size: 41
35758011 AAAAATCTGA
*
35758021 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
* *
35758062 TATATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
* * * *
35758103 TATATAAAAGAAAGACTCATGTCTAGGGGCGA-ACATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGACGAGA-ATGAGAT
* * *
35758144 TATGTATAAATGGAAGACTCATGTCTCGTGACGAGCATGAGAT
1 TATAT-TAAA-GGAAGACTCATGTCTCGGGACGAGAATGAGAT
* *
35758187 TATGTTTAAGGAAGACTC
1 TATATTAAAGGAAGACTC
35758205 TCGAAACCAG
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 86 0.69
42 6 0.05
43 31 0.25
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCATGTCTCGGGACGAGAATGAGAT
Found at i:35758202 original size:84 final size:82
Alignment explanation
Indices: 35758021--35758204 Score: 226
Period size: 84 Copynumber: 2.2 Consensus size: 82
35758011 AAAAATCTGA
* * *
35758021 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGACTCATGTCT
1 TATATAAAAGGAAGACTCATGTCTAGGGACGAGAATGAGATTATATTAAAGGAAGACTCATGTCT
*
35758086 CGAGATGAGAATGAGAT
66 CGAGACGAGAATGAGAT
* * *
35758103 TATATAAAAGAAAGACTCATGTCTAGGGGCGA-ACATGAGATTATGTATAAATGGAAGACTCATG
1 TATATAAAAGGAAGACTCATGTCTAGGGACGAGA-ATGAGATTATAT-TAAA-GGAAGACTCATG
* *
35758167 TCTCGTGACGAGCATGAGAT
63 TCTCGAGACGAGAATGAGAT
* **
35758187 TATGTTTAAGGAAGACTC
1 TATATAAAAGGAAGACTC
35758205 TCGAAACCAG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 1 0.01
82 38 0.44
83 4 0.05
84 43 0.50
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (82 bp):
TATATAAAAGGAAGACTCATGTCTAGGGACGAGAATGAGATTATATTAAAGGAAGACTCATGTCT
CGAGACGAGAATGAGAT
Found at i:35762518 original size:29 final size:29
Alignment explanation
Indices: 35762468--35762534 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 29
35762458 ATTATAACCT
35762468 TGTGATTGATTATCATCTGGGGAAGGCTAA
1 TGTG-TTGATTATCATCTGGGGAAGGCTAA
*
35762498 TGTGTTGATTATCAT-TCGGGGAAGGCTAG
1 TGTGTTGATTATCATCT-GGGGAAGGCTAA
35762527 TGTTGTTG
1 TG-TGTTG
35762535 CTGATGCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.03
29 24 0.71
30 9 0.26
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.37
Consensus pattern (29 bp):
TGTGTTGATTATCATCTGGGGAAGGCTAA
Found at i:35765267 original size:41 final size:41
Alignment explanation
Indices: 35765204--35765428 Score: 225
Period size: 41 Copynumber: 5.4 Consensus size: 41
35765194 ACAAACTCGA
* *
35765204 TATATTAAAGGAAGAATCATGTCTTGGGATGAGAATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
*
35765245 TATATTAAAGGAAGACTTATGTCTCGGGATGAGAATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
* * ** *
35765286 TATATAAAAGAAAGACTCATGTCTCGGGGCGAGGATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
* * * * *
35765327 TATGTATAAATGGAAGACTCATGTCTTGTGACGAGTATGAGAT
1 TATAT-TAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGAT
* * * * ** * *
35765370 TATGTTTAAGGAAGACTCGTGACTCGAAATGAGTAGGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
*
35765411 TATGTTTAAAGGAAGACT
1 TAT-ATTAAAGGAAGACT
35765429 TATGACTCAG
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 105 0.68
42 18 0.12
43 32 0.21
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.28
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGAT
Found at i:35766112 original size:21 final size:21
Alignment explanation
Indices: 35766088--35766164 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
35766078 CTAGAGTTTT
*
35766088 TAGTATCAGTAGAAGCATAAC
1 TAGTATCAGTAGAAGTATAAC
* *
35766109 TAGTTTC-GATA-AATTATAGAC
1 TAGTATCAG-TAGAAGTATA-AC
* * *
35766130 TTGTATCGGTAGAAGTATCAC
1 TAGTATCAGTAGAAGTATAAC
*
35766151 AAGTATCAGTAGAA
1 TAGTATCAGTAGAA
35766165 TTCTGTACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 6 0.14
21 30 0.71
22 6 0.14
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (21 bp):
TAGTATCAGTAGAAGTATAAC
Found at i:35773550 original size:59 final size:58
Alignment explanation
Indices: 35773487--35773599 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 58
35773477 TCAAAATCAA
* *
35773487 AATTTT-AGAAAGTTTAGGGGTTAAAATGTAATTTTCATAAAGTTGAGGGGTTAAAATGT
1 AATTTTCAAAAAGTTTA-GGGTTAAAATGCAATTTTCATAAAGTTGA-GGGTTAAAATGT
* * *
35773546 AATTTTCAAAAAGTTTAGGGTTAATATGCAATTTTTATAAAGTTTAGGGTTAAA
1 AATTTTCAAAAAGTTTAGGGTTAAAATGCAATTTTCATAAAGTTGAGGGTTAAA
35773600 TTTGAACTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 8 0.17
59 31 0.65
60 9 0.19
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (58 bp):
AATTTTCAAAAAGTTTAGGGTTAAAATGCAATTTTCATAAAGTTGAGGGTTAAAATGT
Found at i:35773578 original size:29 final size:30
Alignment explanation
Indices: 35773487--35773599 Score: 151
Period size: 29 Copynumber: 3.9 Consensus size: 30
35773477 TCAAAATCAA
*
35773487 AATTTT-AGAAAGTTTAGGGGTTAAAATGT
1 AATTTTCATAAAGTTTAGGGGTTAAAATGT
*
35773516 AATTTTCATAAAGTTGAGGGGTTAAAATGT
1 AATTTTCATAAAGTTTAGGGGTTAAAATGT
* * *
35773546 AATTTTCAAAAAGTTTA-GGGTTAATATGC
1 AATTTTCATAAAGTTTAGGGGTTAAAATGT
*
35773575 AATTTTTATAAAGTTTA-GGGTTAAA
1 AATTTTCATAAAGTTTAGGGGTTAAA
35773600 TTTGAACTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 38 0.51
30 36 0.49
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (30 bp):
AATTTTCATAAAGTTTAGGGGTTAAAATGT
Found at i:35773687 original size:29 final size:29
Alignment explanation
Indices: 35773486--35773682 Score: 159
Period size: 30 Copynumber: 6.7 Consensus size: 29
35773476 GTCAAAATCA
35773486 AAATTTTAGAAAGTTTAGGGGTTAAAATG
1 AAATTTTAGAAAGTTTAGGGGTTAAAATG
* * *
35773515 TAATTTTCATAAAGTTGAGGGGTTAAAATG
1 AAATTTT-AGAAAGTTTAGGGGTTAAAATG
* * *
35773545 TAATTTTCAAAAAGTTTA-GGGTTAATATG
1 AAATTTT-AGAAAGTTTAGGGGTTAAAATG
* * *
35773574 CAATTTTTATAAAGTTTA-GGGTTAAATTTG
1 -AAATTTTAGAAAGTTTAGGGGTTAAA-ATG
* * * * * *
35773604 AACTGTT-GGAAGTTT-GAGGGTCAAATTC
1 AAATTTTAGAAAGTTTAG-GGGTTAAAATG
* *
35773632 AAATTTTAGAGAAGTTTAGGGATCAAAATG
1 AAATTTTAGA-AAGTTTAGGGGTTAAAATG
35773662 AAATTTTAGAAAGTTTAGGGG
1 AAATTTTAGAAAGTTTAGGGG
35773683 CCAAATTTAG
Statistics
Matches: 136, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
28 13 0.10
29 55 0.40
30 67 0.49
31 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AAATTTTAGAAAGTTTAGGGGTTAAAATG
Found at i:35775571 original size:38 final size:38
Alignment explanation
Indices: 35775436--35776058 Score: 427
Period size: 38 Copynumber: 15.9 Consensus size: 38
35775426 GAGATGATAA
* *
35775436 CTTCAATCTGCCCCTCTTGATTTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTG-CCCT-ATGA-TTA-GGGTAAGAGATTGGA---T-G
* *
35775482 CTTCAATCTGACCC-ATGA-TCGAGGTAAGAGATTGGATAT
1 CTTCAATCTG-CCCTATGATTAG-GGTAAGAGATTGGAT-G
* * *
35775521 CTTCAATCTGCCCTTTGATTAGGGTAAAATATTGGATG
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
* * * * *
35775559 CTTCAATTTGCCCCATGATTGGGGTAAGA-TTTGCATG
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
* * *
35775596 TCTTCAATCTGCCCTCTAATTAGGGTAAAAGATTGGATGGTGG
1 -CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGA---T-G
* *
35775639 CTTCAATCTGCCCCATGA-TCGTGGTAAGAGATTGGATG
1 CTTCAATCTGCCCTATGATTAG-GGTAAGAGATTGGATG
* * * ** *
35775677 CTTTAATTTGTTCC-ATGATCCGGGTAAGAGATTGGTGTG
1 CTTCAATCTG-CCCTATGATTAGGGTAAGAGATTGG-ATG
* * * *
35775716 TCTTCAATCTACCCTCTAATTAGGGTAAAAGATTGGATG
1 -CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
* * *
35775755 CTTCAATCTACCCCATGA-TCGGAGTAAGAGATTGGATG
1 CTTCAATCTGCCCTATGATTAGG-GTAAGAGATTGGATG
* * *
35775793 CTTCAATCTGCCTTATGA-TCGAGGTAAGAGATTGGTGTG
1 CTTCAATCTGCCCTATGATTAG-GGTAAGAGATTGG-ATG
* * * *
35775832 TCTTCAATCTACCCTCTAATTAGGGTAAAAGATTGGATG
1 -CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
* **
35775871 CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTG
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGA-TG
* * * * * *
35775910 TTTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGTATG
1 -CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
*
35775949 CTTCAATCTG-CCTCATGATCAGGGTAAGAGATTGG-TG
1 CTTCAATCTGCCCT-ATGATTAGGGTAAGAGATTGGATG
* ** * * *
35775986 TCTTCAATATGCTTTCTGATTAAGGTAAAAGATTGGATG
1 -CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
* * *
35776025 CTTCAATCTGCCCCATGATTGGGGTAAGATATTG
1 CTTCAATCTGCCCTATGATTAGGGTAAGAGATTG
35776059 CATTGTAGCT
Statistics
Matches: 450, Mismatches: 101, Indels: 60
0.74 0.17 0.10
Matches are distributed among these distances:
37 13 0.03
38 240 0.53
39 54 0.12
40 78 0.17
41 5 0.01
42 43 0.10
43 1 0.00
44 3 0.01
46 13 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (38 bp):
CTTCAATCTGCCCTATGATTAGGGTAAGAGATTGGATG
Found at i:35775812 original size:116 final size:115
Alignment explanation
Indices: 35775504--35776058 Score: 527
Period size: 116 Copynumber: 4.8 Consensus size: 115
35775494 CCATGATCGA
* * ** * * * *
35775504 GGTAAGAGATTGGATATCTTCAATCTGCCCTTTGATTAGGGTAAAATATTGGATGCTTCAATTTG
1 GGTAAAAGATTGGAT-GCTTCAATCTGCCCCATGA-TCGGGTAAGAGATTGGATGCTTCAATCTG
** * * * *
35775569 CCCCATGATTGGGGT-A-AGATTTGCATGTCTTCAATCTGCCCTCTAATTAG
64 CCTTATGATTCGGGTAAGAGATTGGTATGTCTTCAATCTACCCTCTAATTAG
*
35775619 GGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCATGATCGTGGTAAGAGATTGGATGCTTTAAT
1 GGTAAAAGATTGGA---T-GCTTCAATCTGCCCCATGATCG-GGTAAGAGATTGGATGCTTCAAT
* * *
35775684 TTG--TTCCATGATCCGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTAATTAG
61 CTGCCTT--ATGATTCGGGTAAGAGATTGGTATGTCTTCAATCTACCCTCTAATTAG
*
35775739 GGTAAAAGATTGGATGCTTCAATCTACCCCATGATCGGAGTAAGAGATTGGATGCTTCAATCTGC
1 GGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGG-GTAAGAGATTGGATGCTTCAATCTGC
*
35775804 CTTATGA-TCGAGGTAAGAGATTGGTGTGTCTTCAATCTACCCTCTAATTAG
65 CTTATGATTCG-GGTAAGAGATTGGTATGTCTTCAATCTACCCTCTAATTAG
*
35775855 GGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATTGTTTTCAATCT
1 GGTAAAAGATTGGATGCTTCAATCTGCCCCATGATC-GGGTAAGAGATTGGA-TG-CTTCAATCT
* ** * * * *
35775920 GCCTTCTGATTAAGGTAAAAGATT-GTATG-CTTCAATCT-GCCTCATGATCAG
63 GCCTTATGATTCGGGTAAGAGATTGGTATGTCTTCAATCTACCCTC-TAATTAG
* * ** ** *
35775971 GGTAAGAGATTGG-TGTCTTCAATATGCTTTC-TGATTAAGGTAAAAGATTGGATGCTTCAATCT
1 GGTAAAAGATTGGATG-CTTCAATCTGC-CCCATGA-TCGGGTAAGAGATTGGATGCTTCAATCT
** * *
35776034 GCCCCATGATTGGGGTAAGATATTG
63 GCCTTATGATTCGGGTAAGAGATTG
35776059 CATTGTAGCT
Statistics
Matches: 373, Mismatches: 46, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
114 25 0.07
115 24 0.06
116 188 0.50
117 13 0.03
118 77 0.21
119 2 0.01
120 44 0.12
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (115 bp):
GGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGTAAGAGATTGGATGCTTCAATCTGCC
TTATGATTCGGGTAAGAGATTGGTATGTCTTCAATCTACCCTCTAATTAG
Found at i:35775837 original size:78 final size:76
Alignment explanation
Indices: 35775436--35776058 Score: 542
Period size: 78 Copynumber: 7.9 Consensus size: 76
35775426 GAGATGATAA
*
35775436 CTTCAATCTGCCCCTCTTGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAATCTGACCCATGAT
1 CTTCAATCTG-CCC-C-TGA-TTA-GGGTAAAAGATTGGA---T-GCTTCAATCTGCCCCATGAT
*
35775501 CGAGGTAAGAGATTGGATAT
57 CGAGGTAAGAGATTGGATGT
* * * * *
35775521 CTTCAATCTGCCCTTTGATTAGGGTAAAATATTGGATGCTTCAATTTGCCCCATGATTGGGGTAA
1 CTTCAATCTGCCC-CTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAA
* *
35775586 GA-TTTGCATGT
65 GAGATTGGATGT
* *
35775597 CTTCAATCTGCCCTCTAATTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCCATGATCGTG
1 CTTCAATCTGCCC-CTGATTAGGGTAAAAGATTGGA---T-GCTTCAATCTGCCCCATGATCGAG
35775662 GTAAGAGATTGGATG-
61 GTAAGAGATTGGATGT
* * * * ** * * * * *
35775677 CTTTAATTTGTTCCATGATCCGGGTAAGAGATTGGTGTGTCTTCAATCTACCCTC-TAAT-TAGG
1 CTTCAATCTG-CCCCTGATTAGGGTAAAAGATTGG-ATG-CTTCAATCTGCCC-CATGATCGA-G
*
35775740 GTAAAAGATTGGATG-
61 GTAAGAGATTGGATGT
* * * **
35775755 CTTCAATCTACCCCATGA-TCGGAGTAAGAGATTGGATGCTTCAATCTGCCTTATGATCGAGGTA
1 CTTCAATCTGCCCC-TGATTAGG-GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTA
*
35775819 AGAGATTGGTGTGT
64 AGAGATTGG-ATGT
* * *
35775833 CTTCAATCTACCCTCTAATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAA
1 CTTCAATCTGCCC-CTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAA
35775898 GAGATTGGATTGT
65 GAGATTGGA-TGT
* * * * *
35775911 TTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGTATGCTTCAATCTGCCTCATGATC-AGGGTA
1 CTTCAATCTGCC-CCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGA-GGTA
35775975 AGAGATTGG-TGT
64 AGAGATTGGATGT
* ** * * *
35775987 CTTCAATATGCTTTCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGGGTAA
1 CTTCAATCTGC-CCCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAA
*
35776052 GATATTG
65 GAGATTG
35776059 CATTGTAGCT
Statistics
Matches: 447, Mismatches: 68, Indels: 55
0.78 0.12 0.10
Matches are distributed among these distances:
76 130 0.29
77 37 0.08
78 181 0.40
79 6 0.01
80 51 0.11
81 22 0.05
82 3 0.01
83 3 0.01
84 4 0.01
85 10 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (76 bp):
CTTCAATCTGCCCCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTAAG
AGATTGGATGT
Found at i:35776277 original size:49 final size:49
Alignment explanation
Indices: 35776225--35776477 Score: 176
Period size: 49 Copynumber: 5.2 Consensus size: 49
35776215 GGTTTCAGCT
*
35776225 TTTCCCTTCATATCGCCATGGTATAAGATTCACCGTTGC-GACTTCAAT-
1 TTTCCCTTCATATCCCCATGGTATAAGATTCACCGTTGCAG-CTTCAATC
* * * * * * * * * *
35776273 TTTTCCTATCATGTCTCTAAGGTACAAGGTT-AGCCGTTGTAGCTTTAACC
1 TTTCCCT-TCATATCCCCATGGTATAAGATTCA-CCGTTGCAGCTTCAATC
35776323 TTTCCCTTCATATCCCCATGGTATAAGATTCACCGTTGCAGCTTCAATC
1 TTTCCCTTCATATCCCCATGGTATAAGATTCACCGTTGCAGCTTCAATC
** * * * * * * * *
35776372 TTTCCCATT-ACGTCTCTAAGGTACAAGGTTCGCCGTTGCAGCTTTAACC
1 TTTCCC-TTCATATCCCCATGGTATAAGATTCACCGTTGCAGCTTCAATC
* * * * * * *
35776421 TTTCCCTCCACATCTCTA-GG-ATTAGATTTACCGTTGCGGCTTCAATC
1 TTTCCCTTCATATCCCCATGGTATAAGATTCACCGTTGCAGCTTCAATC
35776468 TTTCCCTTCA
1 TTTCCCTTCA
35776478 AACCTGTAAA
Statistics
Matches: 157, Mismatches: 41, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
47 28 0.18
48 10 0.06
49 109 0.69
50 10 0.06
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (49 bp):
TTTCCCTTCATATCCCCATGGTATAAGATTCACCGTTGCAGCTTCAATC
Found at i:35776328 original size:98 final size:96
Alignment explanation
Indices: 35776147--35776472 Score: 361
Period size: 98 Copynumber: 3.4 Consensus size: 96
35776137 ACAACTTTGA
* * * * * * * *
35776147 GGTAAAAGATTCGCCGTTGCAGCTTTAATTTTTCCATCACATCTCTCAGGTACAAGGTTCGTCAT
1 GGTATAAGATTCACCGTTGCAGCTTCAATCTTTCCATCACGTCTCTAAGGTACAAGGTTCGCCGT
* * * * *
35776212 TGCGGTTTCAGCTTTTCCCTTCATATCGCCAT
66 TGAGCTTT-AACCTTTCCCTTCATATCCCCAT
* * *
35776244 GGTATAAGATTCACCGTTGC-GACTTCAATTTTTCCTATCATGTCTCTAAGGTACAAGGTTAGCC
1 GGTATAAGATTCACCGTTGCAG-CTTCAATCTTTCC-ATCACGTCTCTAAGGTACAAGGTTCGCC
35776308 GTTGTAGCTTTAACCTTTCCCTTCATATCCCCAT
64 GTTG-AGCTTTAACCTTTCCCTTCATATCCCCAT
*
35776342 GGTATAAGATTCACCGTTGCAGCTTCAATCTTTCCCATTACGTCTCTAAGGTACAAGGTTCGCCG
1 GGTATAAGATTCACCGTTGCAGCTTCAATCTTT-CCATCACGTCTCTAAGGTACAAGGTTCGCCG
* * * *
35776407 TTGCAGCTTTAACCTTTCCCTCCACATCTCTA-
65 TTG-AGCTTTAACCTTTCCCTTCATATCCCCAT
* * *
35776439 GG-ATTAGATTTACCGTTGCGGCTTCAATCTTTCC
1 GGTATAAGATTCACCGTTGCAGCTTCAATCTTTCC
35776473 CTTCAAACCT
Statistics
Matches: 198, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
95 2 0.01
96 28 0.14
97 32 0.16
98 129 0.65
99 7 0.04
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.36
Consensus pattern (96 bp):
GGTATAAGATTCACCGTTGCAGCTTCAATCTTTCCATCACGTCTCTAAGGTACAAGGTTCGCCGT
TGAGCTTTAACCTTTCCCTTCATATCCCCAT
Found at i:35777017 original size:111 final size:106
Alignment explanation
Indices: 35776881--35777077 Score: 286
Period size: 106 Copynumber: 1.8 Consensus size: 106
35776871 ACTAACCGGC
*
35776881 ATTTCAATGCAAAAATGCTTGAACAAGATTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAA
1 ATTTCAATGCAAAAATACTTGAACAAGATTGTAAGGTGGAT--AA---AATTTTATTGGAGGCAA
*
35776946 AGCTCGCGTGAATGAAAATATTAAAATCATTAGTCTACTAACTGTT
61 AGCTCGCGTGAATGAAAAGATTAAAATCATTAGTCTACTAACTGTT
** * * *
35776992 ATTTCAATGCAAACGTACTTGAACAAGGTTGTAAGGTGGGTAAAATTTTGTTGGAGGCAAAGCTC
1 ATTTCAATGCAAAAATACTTGAACAAGATTGTAAGGTGGATAAAATTTTATTGGAGGCAAAGCTC
35777057 GCGTGAATGAAAAGATTAAAA
66 GCGTGAATGAAAAGATTAAAA
35777078 ATGACAAACA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 41 0.52
109 2 0.03
111 36 0.46
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (106 bp):
ATTTCAATGCAAAAATACTTGAACAAGATTGTAAGGTGGATAAAATTTTATTGGAGGCAAAGCTC
GCGTGAATGAAAAGATTAAAATCATTAGTCTACTAACTGTT
Found at i:35777412 original size:16 final size:15
Alignment explanation
Indices: 35777391--35777433 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
35777381 TCGACCTCTC
35777391 CTTTTTCTTTTTCCTT
1 CTTTTT-TTTTTCCTT
*
35777407 CTTTTTTTCTT-CTT
1 CTTTTTTTTTTCCTT
35777421 CTCTTTTTTTTTC
1 CT-TTTTTTTTTC
35777434 TTTTTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.22
15 12 0.52
16 6 0.26
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTTTTTTTCCTT
Found at i:35777415 original size:18 final size:18
Alignment explanation
Indices: 35777392--35777438 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
35777382 CGACCTCTCC
35777392 TTTTTCTTTTTC-CTTCTT
1 TTTTTCTTTTTCTCTT-TT
*
35777410 TTTTTCTTCTTCTCTTTT
1 TTTTTCTTTTTCTCTTTT
35777428 TTTTTCTTTTT
1 TTTTTCTTTTT
35777439 TATTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTTCTCTTTT
Found at i:35777447 original size:18 final size:17
Alignment explanation
Indices: 35777392--35777449 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
35777382 CGACCTCTCC
*
35777392 TTTTTCTTTTTCCTTCTT
1 TTTTTCTTTTTTCTT-TT
*
35777410 TTTTTCTTCTTCTCTTTT
1 TTTTTCTT-TTTTCTTTT
*
35777428 TTTTTCTTTTTTATTATT
1 TTTTTCTTTTTTCTT-TT
35777446 TTTT
1 TTTT
35777450 GGGTGAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:35778344 original size:9 final size:9
Alignment explanation
Indices: 35778332--35778357 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35778322 CTTTTTCTTT
35778332 TCTTTTTTC
1 TCTTTTTTC
35778341 TCTTTTTTC
1 TCTTTTTTC
35778350 TCTTTTTT
1 TCTTTTTT
35778358 TAAAATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:35778347 original size:21 final size:22
Alignment explanation
Indices: 35778309--35778358 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35778299 TCATCTTAAC
35778309 TTTC-TTTTTCTTCCTTTTTCT
1 TTTCTTTTTTCTTCCTTTTTCT
*
35778330 TTTCTTTTTTC-TCTTTTTTCT
1 TTTCTTTTTTCTTCCTTTTTCT
*
35778351 CTT-TTTTT
1 TTTCTTTTT
35778359 AAAATGCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 15 0.58
22 6 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTCTTTTTTCTTCCTTTTTCT
Found at i:35782867 original size:29 final size:30
Alignment explanation
Indices: 35782837--35782949 Score: 127
Period size: 30 Copynumber: 3.8 Consensus size: 30
35782827 AAAATTGAAA
*
35782837 TTTTGGAAAGTTTAGGGATTAAAATGTAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATGTAAT
** ** *
35782867 TTTTAAAAAAATTAGGGGTTAAGATGTAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATGTAAT
* * *
35782897 TTTTAGAAAGTTGAGGGGTTAAAATGCAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATGTAAT
* *
35782927 TTTTGAAAAGTTTAAGGGTTAAA
1 TTTTGGAAAGTTTAGGGGTTAAA
35782950 TTCAAATTTT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTTAAAATGTAAT
Found at i:35782968 original size:60 final size:58
Alignment explanation
Indices: 35782828--35782974 Score: 159
Period size: 60 Copynumber: 2.4 Consensus size: 58
35782818 AATAGGGTCA
* * *
35782828 AAATTGAAATTTTGGAAAGTTTAGGGATTAAAATGTAATTTTTAAAAAAATTAGGGGTT
1 AAATT-AAATTTTGGAAAGTTGAGGGATTAAAATGCAATTTTTAAAAAAATTAAGGGTT
* * * * **
35782887 AAGATGTAATTTTTAGAAAGTTGAGGGGTTAAAATGCAATTTTTGAAAAGTTTAAGGGTT
1 AA-AT-TAAATTTTGGAAAGTTGAGGGATTAAAATGCAATTTTTAAAAAAATTAAGGGTT
35782947 AAATTCAAATTTTGGAGAAGTTCGAGGG
1 AAATT-AAATTTTGGA-AAGTT-GAGGG
35782975 TCAAAATATC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
59 12 0.17
60 53 0.74
61 6 0.08
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (58 bp):
AAATTAAATTTTGGAAAGTTGAGGGATTAAAATGCAATTTTTAAAAAAATTAAGGGTT
Found at i:35782981 original size:60 final size:57
Alignment explanation
Indices: 35782828--35782998 Score: 155
Period size: 60 Copynumber: 2.9 Consensus size: 57
35782818 AATAGGGTCA
* * *
35782828 AAATTGAAATTTTGGAAAGTTTAGGGATTAAAATGTAATTTTTAAAAAAATTAGGGGTT
1 AAATT-AAATTTTGGAAAGTTGAGGG-TTAAAATGCAATTTTTAAAAAAATTAAGGGTT
* * * **
35782887 AAGATGTAATTTTTAGAAAGTTGAGGGGTTAAAATGCAATTTTTGAAAAGTTTAAGGGTT
1 AA-AT-TAAATTTTGGAAAGTTGA-GGGTTAAAATGCAATTTTTAAAAAAATTAAGGGTT
* * *
35782947 AAATTCAAATTTTGGAGAAGTTCGAGGGTCAAAATATC-ATTTTTAAATAAAT
1 AAATT-AAATTTTGGA-AAGTT-GAGGGTTAAAAT-GCAATTTTTAAAAAAAT
35782999 CAGAGACTTC
Statistics
Matches: 89, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
58 1 0.01
59 12 0.13
60 69 0.78
61 7 0.08
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.36
Consensus pattern (57 bp):
AAATTAAATTTTGGAAAGTTGAGGGTTAAAATGCAATTTTTAAAAAAATTAAGGGTT
Found at i:35784221 original size:27 final size:25
Alignment explanation
Indices: 35784186--35784240 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
35784176 TGAGATGTTA
*
35784186 GGTTAGGGTTTGGGTTAGTTGTAATTT
1 GGTTAGGGTTTGGG-TAGTT-TAAGTT
*
35784213 GGTTTGGGTTTGGGTAGTTTAAGTT
1 GGTTAGGGTTTGGGTAGTTTAAGTT
35784238 GGT
1 GGT
35784241 AGTAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 5 0.19
27 13 0.50
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (25 bp):
GGTTAGGGTTTGGGTAGTTTAAGTT
Found at i:35784905 original size:38 final size:39
Alignment explanation
Indices: 35784800--35785091 Score: 243
Period size: 38 Copynumber: 7.4 Consensus size: 39
35784790 TGATTTAAGA
** * **
35784800 GTAAAAGATTGGATGGTAGCTTCAATCTATCTCATGATCGGG
1 GTAAAAGATTGGAT-GT--CTTCAATCTGCCCCATGATTAGG
* * * *
35784842 GTAAAAGAATAGATGTCTTCAATCTGCGCTC-TGATTAAG
1 GTAAAAGATTGGATGTCTTCAATCTGC-CCCATGATTAGG
*
35784881 GTAAAAGATTGGATG-CTTCAATCTGCCCCATGATCAGG
1 GTAAAAGATTGGATGTCTTCAATCTGCCCCATGATTAGG
*
35784919 GTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATTAGG
1 GTAAAAGATTGGA-TGTCTTCAATCTGCCC-CATGATTAGG
* *
35784959 GTAAAAGATTAGATG-CTTCAATCTGCCCCATGATTGGG
1 GTAAAAGATTGGATGTCTTCAATCTGCCCCATGATTAGG
* * **
35784997 GTAAGAGATTGGATGGTGGCTTCAATATGCCCCATGATCGGG
1 GTAAAAGATTGGAT-GT--CTTCAATCTGCCCCATGATTAGG
* * * * **
35785039 GTAAGATATTGGATG-CTTTAATTTGCCCCATGATCGGG
1 GTAAAAGATTGGATGTCTTCAATCTGCCCCATGATTAGG
* *
35785077 GTAAGAGATTAGATG
1 GTAAAAGATTGGATG
35785092 GTAGCTTTAC
Statistics
Matches: 214, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
37 3 0.01
38 95 0.44
39 32 0.15
40 34 0.16
41 4 0.02
42 46 0.21
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (39 bp):
GTAAAAGATTGGATGTCTTCAATCTGCCCCATGATTAGG
Found at i:35784956 original size:78 final size:79
Alignment explanation
Indices: 35784773--35785086 Score: 321
Period size: 78 Copynumber: 3.9 Consensus size: 79
35784763 GAGATGATAG
* * ** *
35784773 CTTCAATCTACCCTTCTTGATTTAAGAGTAAAAGATTGGATGGTAGCTTCAATCTATCTCATGAT
1 CTTCAATCTGCCC-TCATGA-TTAAG-GTAAAAGATTGGA---T-GCTTCAATCTGCCCCATGAT
* * *
35784838 CGGGGTAAAAGAATAGA-TGT
59 CGGGGTAAGAGATTGGATTGT
* *
35784858 CTTCAATCTGCGCTC-TGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTA
1 CTTCAATCTGCCCTCATGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
35784922 AGAGATTGGATTGT
66 AGAGATTGGATTGT
* * *
35784936 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTAGATGCTTCAATCTGCCCCATGATTGGGGTA
1 CTTCAATCTGCCCTCATGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
*
35785000 AGAGATTGGATGGTGG
66 AGAGATTGGAT--TGT
* *** * * * *
35785016 CTTCAATATGCCC-CATGATCGGGGTAAGATATTGGATGCTTTAATTTGCCCCATGATCGGGGTA
1 CTTCAATCTGCCCTCATGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
35785080 AGAGATT
66 AGAGATT
35785087 AGATGGTAGC
Statistics
Matches: 201, Mismatches: 24, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
77 30 0.15
78 74 0.37
79 1 0.00
80 62 0.31
81 13 0.06
82 5 0.02
83 3 0.01
84 2 0.01
85 11 0.05
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (79 bp):
CTTCAATCTGCCCTCATGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA
AGAGATTGGATTGT
Found at i:35785069 original size:80 final size:80
Alignment explanation
Indices: 35784800--35785098 Score: 304
Period size: 80 Copynumber: 3.8 Consensus size: 80
35784790 TGATTTAAGA
** * * * *
35784800 GTAAAAGATTGGATGGTAGCTTCAATCTATCTCATGATCGGGGTAAAAGAATAGAT-GT--CTTC
1 GTAAAAGATTGGA---T-GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTGGCTTC
* * * *
35784862 AATCTGCGCTCTGATTAAG
62 AATATGCCCTCTGATCAGG
* * *
35784881 GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGAT--TGTCTTCAATC
1 GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTGGCTTCAATA
*
35784944 TGCCCTCTGATTAGG
66 TGCCCTCTGATCAGG
* *
35784959 GTAAAAGATTAGATGCTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGATGGTGGCTTCAATA
1 GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTGGCTTCAATA
*
35785024 TGCCC-CATGATCGGG
66 TGCCCTC-TGATCAGG
* * * * * *
35785039 GTAAGATATTGGATGCTTTAATTTGCCCCATGATCGGGGTAAGAGATTAGATGGTAGCTT
1 GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTGGCTT
35785099 TACTTTGCTA
Statistics
Matches: 189, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
76 1 0.01
77 31 0.16
78 71 0.38
79 1 0.01
80 72 0.38
81 13 0.07
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (80 bp):
GTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTGGCTTCAATA
TGCCCTCTGATCAGG
Found at i:35785300 original size:49 final size:49
Alignment explanation
Indices: 35785197--35785606 Score: 295
Period size: 49 Copynumber: 8.4 Consensus size: 49
35785187 CGCCGTTGTA
* * * * * * * *
35785197 GCTTCAA-CTTTTCCATCACATCTCTCAGGTACAAGGTTCGCCATTGCA
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * * * * * *
35785245 GTTTCAACCTTTCCCTTCATATCTCCATGGGATAAGATTCGTCGTTGCG
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * ** * * ** *
35785294 GCTTCAATCTTTCCCATCACGTCTCTAAGCTACAAGGTTCACCATTGCG
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * * *
35785343 GCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTGTCATTACG
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * ** * * *
35785392 GCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTATG
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * * * * *
35785441 GCTTCAACATTTCCCTCCATATCTCCATGGTACAAGATTCG-CTGTTGCG
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTC-ATTACG
* * ** * * *
35785490 GCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTACA
1 GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
* * ** *
35785539 GCTTCAACCTTT-CCTTCCATATTTCTAGGGTATTAGATTTGTCATTACG
1 GCTTCAACCTTTCCCTT-CATATCTCTAAGGTACAAGATTCGTCATTACG
*
35785588 GCTTCAATCTTTCCCTTCA
1 GCTTCAACCTTTCCCTTCA
35785607 AACTTGTAGA
Statistics
Matches: 270, Mismatches: 87, Indels: 9
0.74 0.24 0.02
Matches are distributed among these distances:
48 10 0.04
49 255 0.94
50 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (49 bp):
GCTTCAACCTTTCCCTTCATATCTCTAAGGTACAAGATTCGTCATTACG
Found at i:35785349 original size:98 final size:98
Alignment explanation
Indices: 35785181--35785602 Score: 517
Period size: 98 Copynumber: 4.3 Consensus size: 98
35785171 TTCGAGGTAG
* ** * * * *
35785181 AAGATTCGCCGTTGTAGCTTCAA-CTTTTCCATCACATCTCTCAGGTACAAGGTTCGCCATTGCA
1 AAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTACA
* * *
35785245 GTTTCAACCTTTCCCTTCATATCTCCATGGGAT
66 GCTTCAACCTTTCCCTCCATATCTCCATGGGAC
* * * *
35785278 AAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGCTACAAGGTTCACCATTGCG
1 AAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTACA
*
35785343 GCTTCAACCTTTCCCTCCATATCTCCATGGTAC
66 GCTTCAACCTTTCCCTCCATATCTCCATGGGAC
* * * **
35785376 AAGATTTGTCATTACGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTATG
1 AAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTACA
* *
35785441 GCTTCAACATTTCCCTCCATATCTCCATGGTAC
66 GCTTCAACCTTTCCCTCCATATCTCCATGGGAC
* *
35785474 AAGATTCG-CTGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTAC
1 AAGATTCGTC-GTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTAC
* * * *
35785538 AGCTTCAACCTTTCCTTCCATATTTCTA-GGGTAT
65 AGCTTCAACCTTTCCCTCCATATCTCCATGGG-AC
* * * *
35785572 TAGATTTGTCATTACGGCTTCAATCTTTCCC
1 AAGATTCGTCGTTGCGGCTTCAATCTTTCCC
35785603 TTCAAACTTG
Statistics
Matches: 283, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
97 23 0.08
98 259 0.92
99 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (98 bp):
AAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTACA
GCTTCAACCTTTCCCTCCATATCTCCATGGGAC
Found at i:35785545 original size:196 final size:196
Alignment explanation
Indices: 35785197--35785602 Score: 582
Period size: 196 Copynumber: 2.1 Consensus size: 196
35785187 CGCCGTTGTA
* * * * *
35785197 GCTTCAA-CTTTTCCATCACATCTCTCAGGTACAAGGTTCGCCATTGCAGTTTCAACCTTTCCCT
1 GCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGCCATTACAGCTTCAACATTTCCCT
* *
35785261 TCATATCTCCATGGGATAAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGCTA
66 CCATATCTCCATGGGACAAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGCTA
* * *
35785326 CAAGGTTCACCATTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTTGTCATTAC
131 CAAGGTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTCCAGGGTACAAGATTTGTCATTAC
35785391 G
196 G
* **
35785392 GCTTCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGCCATTATGGCTTCAACATTTCCCT
1 GCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGCCATTACAGCTTCAACATTTCCCT
* *
35785457 CCATATCTCCATGGTACAAGATTCG-CTGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGGT
66 CCATATCTCCATGGGACAAGATTCGTC-GTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGCT
** * * * * **
35785521 ACAAGGTTCGTCGTTACAGCTTCAACCTTTCCTTCCATATTTCTAGGGTATTAGATTTGTCATTA
130 ACAAGGTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTCCAGGGTACAAGATTTGTCATTA
35785586 CG
195 CG
35785588 GCTTCAATCTTTCCC
1 GCTTCAATCTTTCCC
35785603 TTCAAACTTG
Statistics
Matches: 186, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
195 8 0.04
196 178 0.96
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.34
Consensus pattern (196 bp):
GCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGGTTCGCCATTACAGCTTCAACATTTCCCT
CCATATCTCCATGGGACAAGATTCGTCGTTGCGGCTTCAATCTTTCCCATCACGTCTCTAAGCTA
CAAGGTTCACCATTACAGCTTCAACCTTTCCCTCCATATCTCCAGGGTACAAGATTTGTCATTAC
G
Found at i:35786562 original size:24 final size:24
Alignment explanation
Indices: 35786526--35786573 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
35786516 CTCTCATTTT
35786526 TCTTTTTCCTTCTTTTTATCTTCTTC
1 TCTTTTT-CTTCTTTTTAT-TTCTTC
35786552 TCTTTTT-TTCTTTTTATTTCTT
1 TCTTTTTCTTCTTTTTATTTCTT
35786574 TTTTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 10 0.45
26 7 0.32
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TCTTTTTCTTCTTTTTATTTCTTC
Found at i:35786573 original size:18 final size:17
Alignment explanation
Indices: 35786522--35786577 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
35786512 CGACCTCTCA
*
35786522 TTTTTCTTTTTCCTTCTT
1 TTTTTCTTTTT-TTTCTT
* * *
35786540 TTTATC-TTCTTCTCTT
1 TTTTTCTTTTTTTTCTT
35786556 TTTTTCTTTTTATTTCTT
1 TTTTTCTTTTT-TTTCTT
35786574 TTTT
1 TTTT
35786578 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 9 0.31
17 6 0.21
18 14 0.48
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTCTT
Found at i:35786585 original size:20 final size:20
Alignment explanation
Indices: 35786549--35786586 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35786539 TTTTATCTTC
*
35786549 TTCTCTTTTTTTCTTTTTAT
1 TTCTCTTTTTTTATTTTTAT
35786569 TTCT-TTTTTATTATTTTT
1 TTCTCTTTTT-TTATTTTT
35786587 TTGGGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (20 bp):
TTCTCTTTTTTTATTTTTAT
Found at i:35787436 original size:11 final size:11
Alignment explanation
Indices: 35787422--35787450 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
35787412 TTCTTCCTTT
35787422 TTCTTTTCTTC
1 TTCTTTTCTTC
35787433 TTCTTTTCTTC
1 TTCTTTTCTTC
35787444 TTCTTTT
1 TTCTTTT
35787451 TTTATCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:35787453 original size:14 final size:14
Alignment explanation
Indices: 35787408--35787453 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
35787398 CTTAACTTTC
35787408 TTTTTTCTTC--CT
1 TTTTTTCTTCTTCT
35787420 TTTTCTT-TTCTTCT
1 TTTT-TTCTTCTTCT
*
35787434 TCTTTTCTTCTTCT
1 TTTTTTCTTCTTCT
35787448 TTTTTT
1 TTTTTT
35787454 ATCTCCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 17 0.61
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:35787463 original size:26 final size:28
Alignment explanation
Indices: 35787406--35787465 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
35787396 ATCTTAACTT
* *
35787406 TCTTTTTTCTTCCTTTTTCTTTTCTTCT
1 TCTTTTTTCTTCCTTTTTCTTATCTTCC
35787434 TCTTTTCTTCTT-CTTTTT-TTATC-TCC
1 TCTTTT-TTCTTCCTTTTTCTTATCTTCC
35787460 TCTTTT
1 TCTTTT
35787466 AATAGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 8 0.28
27 4 0.14
28 12 0.41
29 5 0.17
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (28 bp):
TCTTTTTTCTTCCTTTTTCTTATCTTCC
Found at i:35791906 original size:30 final size:30
Alignment explanation
Indices: 35791867--35791990 Score: 148
Period size: 29 Copynumber: 4.2 Consensus size: 30
35791857 AAAATCAAAA
35791867 TTTTGGAAAGTTTAGGGGTTAAAA-TGCAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATTG-AAT
* *
35791897 TTTTAGAAAGTTT-GGGGTAAAAATTGAAT
1 TTTTGGAAAGTTTAGGGGTTAAAATTGAAT
* *
35791926 TTTTGGAAAGTTTA-GGGTCAAAATTGATT
1 TTTTGGAAAGTTTAGGGGTTAAAATTGAAT
* * *
35791955 TTTTGGAAAGTTTATGGGTT-AAATTCAAA
1 TTTTGGAAAGTTTAGGGGTTAAAATTGAAT
35791984 TTTTGGA
1 TTTTGGA
35791991 GATGTTCGAG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
29 64 0.78
30 18 0.22
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTTAAAATTGAAT
Found at i:35794148 original size:20 final size:20
Alignment explanation
Indices: 35794085--35794148 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
35794075 TTAAAAACTA
35794085 TAAACCCTGAAC-CTAAACCT
1 TAAACCC-GAACTCTAAACCT
* * * *
35794105 TGAACCCTAAGTCCAAGACC-
1 TAAACCCGAACTCTAA-ACCT
35794125 TAAACCCGAACTCTAAACCT
1 TAAACCCGAACTCTAAACCT
35794145 TAAA
1 TAAA
35794149 TCCCAAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.41, C:0.33, G:0.08, T:0.19
Consensus pattern (20 bp):
TAAACCCGAACTCTAAACCT
Found at i:35794268 original size:18 final size:16
Alignment explanation
Indices: 35794235--35794269 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
35794225 TTTGTTTATA
35794235 ATTTAAAAAATTAATT
1 ATTTAAAAAATTAATT
35794251 ATTTAAAATAATTTAATT
1 ATTTAAAA-AA-TTAATT
35794269 A
1 A
35794270 AAATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAAAAATTAATT
Found at i:35794340 original size:23 final size:24
Alignment explanation
Indices: 35794314--35794359 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
35794304 GATGAATGTA
*
35794314 TGAT-AATATTTTGTTATTTTTTT
1 TGATAAATACTTTGTTATTTTTTT
35794337 TGATAAAATACTTTGTTATTTTT
1 TGAT-AAATACTTTGTTATTTTT
35794360 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (24 bp):
TGATAAATACTTTGTTATTTTTTT
Found at i:35796229 original size:23 final size:23
Alignment explanation
Indices: 35796203--35796252 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
35796193 AAAATGCTTA
* *
35796203 AAAATAAAAACCAAAATAACAAC
1 AAAACAAAAACAAAAATAACAAC
* * *
35796226 AAAACAATAACAAAAATAGCAGC
1 AAAACAAAAACAAAAATAACAAC
35796249 AAAA
1 AAAA
35796253 ATAACAGGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.72, C:0.16, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAACAAAAACAAAAATAACAAC
Found at i:35796243 original size:35 final size:35
Alignment explanation
Indices: 35796202--35796279 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
35796192 AAAAATGCTT
* *
35796202 AAAAATAAAAACCAAAATAACAACAAAACAATAAC
1 AAAAATAAAAACAAAAATAACAACAAAACAACAAC
** * ** *
35796237 AAAAATAGCAGCAAAAATAACAGGAAATCAACAAC
1 AAAAATAAAAACAAAAATAACAACAAAACAACAAC
35796272 AAAAATAA
1 AAAAATAA
35796280 CAGTAAAAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.71, C:0.15, G:0.05, T:0.09
Consensus pattern (35 bp):
AAAAATAAAAACAAAAATAACAACAAAACAACAAC
Found at i:35796274 original size:23 final size:21
Alignment explanation
Indices: 35796248--35796294 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
35796238 AAAATAGCAG
35796248 CAAAAATAACAGGAAATCAACAA
1 CAAAAATAACAGGAAA--AACAA
*
35796271 CAAAAATAACAGTAAAAACAA
1 CAAAAATAACAGGAAAAACAA
35796292 CAA
1 CAA
35796295 TATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.68, C:0.17, G:0.06, T:0.09
Consensus pattern (21 bp):
CAAAAATAACAGGAAAAACAA
Found at i:35796288 original size:35 final size:35
Alignment explanation
Indices: 35796215--35796294 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
35796205 AATAAAAACC
* *
35796215 AAAATAACAACAAAACAATAACAAAAATAGCAGCA
1 AAAATAACAACAAAACAACAACAAAAATAACAGCA
** * *
35796250 AAAATAACAGGAAATCAACAACAAAAATAACAGTA
1 AAAATAACAACAAAACAACAACAAAAATAACAGCA
*
35796285 AAAACAACAA
1 AAAATAACAA
35796295 TATTTTTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.69, C:0.16, G:0.06, T:0.09
Consensus pattern (35 bp):
AAAATAACAACAAAACAACAACAAAAATAACAGCA
Found at i:35800052 original size:19 final size:19
Alignment explanation
Indices: 35800030--35800069 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
35800020 AAATTTAGAA
35800030 TTTTCTATATTTT-ATAATT
1 TTTTCTAT-TTTTAATAATT
35800049 TTTTCTATTTTTAATAATT
1 TTTTCTATTTTTAATAATT
35800068 TT
1 TT
35800070 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTCTATTTTTAATAATT
Found at i:35800076 original size:18 final size:19
Alignment explanation
Indices: 35800055--35800098 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
35800045 AATTTTTTCT
*
35800055 ATTTTTAATAATTTTG-AA
1 ATTTTTAAAAATTTTGTAA
35800073 ATTTTTAAAAATTTTGTAA
1 ATTTTTAAAAATTTTGTAA
35800092 ATATTTT
1 AT-TTTT
35800099 TTGCAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.65
19 4 0.17
20 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTTAAAAATTTTGTAA
Found at i:35810320 original size:17 final size:17
Alignment explanation
Indices: 35810298--35810336 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
35810288 AGGTGGAGAA
* * *
35810298 CTTGTTCGTTGAGAGTT
1 CTTGTTAGTAGAGAATT
35810315 CTTGTTAGTAGAGAATT
1 CTTGTTAGTAGAGAATT
35810332 CTTGT
1 CTTGT
35810337 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTAGTAGAGAATT
Found at i:35811387 original size:24 final size:22
Alignment explanation
Indices: 35811351--35811395 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
35811341 TAAAGTATTA
* *
35811351 AATAATAATTATTATT-ATAAT
1 AATAATAATAACTATTAATAAT
*
35811372 AATAATATTAACTATTAATAAT
1 AATAATAATAACTATTAATAAT
35811394 AA
1 AA
35811396 AAAATACACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATAATAACTATTAATAAT
Found at i:35812593 original size:29 final size:29
Alignment explanation
Indices: 35812526--35812732 Score: 140
Period size: 29 Copynumber: 7.1 Consensus size: 29
35812516 GTATTTTGAC
*
35812526 CCCT-AAACTTCTCTAAAATTACATTTTTA
1 CCCTAAAACTT-TCAAAAATTACATTTTTA
** * *
35812555 AGCTCGAAACTTACAAAAATTACATTTTTA
1 CCCT-AAAACTTTCAAAAATTACATTTTTA
*
35812585 CCCTAAAAC-TTCTAAAAATTATATTTTTAA
1 CCCTAAAACTTTC-AAAAATTACATTTTT-A
* ** * *
35812615 CCCCAAAACTTTTGGAAAATTGCATTTTGA
1 CCCTAAAAC-TTTCAAAAATTACATTTTTA
* * * *
35812645 CCC-AAAAATTTCCAAAATTATATTTTGA
1 CCCTAAAACTTTCAAAAATTACATTTTTA
*
35812673 CCCCT-AAACTTCTCCAAAATTACA-TTTTA
1 -CCCTAAAACTT-TCAAAAATTACATTTTTA
*
35812702 CCCCAAAACTTTC-AAAATTACCA-TTTTA
1 CCCTAAAACTTTCAAAAATTA-CATTTTTA
35812730 CCC
1 CCC
35812733 ATAGATGTTT
Statistics
Matches: 143, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
27 7 0.05
28 33 0.23
29 42 0.29
30 42 0.29
31 17 0.12
32 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAAACTTTCAAAAATTACATTTTTA
Found at i:35812624 original size:59 final size:59
Alignment explanation
Indices: 35812526--35812721 Score: 186
Period size: 59 Copynumber: 3.4 Consensus size: 59
35812516 GTATTTTGAC
* * * * *
35812526 CCCT-AAACTTCTCTAAAATTACATTTTTAAGCTCGAAACTTACAAAAATTACATTTTTA
1 CCCTAAAACTTCTC-AAAATTATATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTA
* ** * *
35812585 CCCTAAAACTTCTAAAAATTATATTTTTAACCCCAAAACTTTTGGAAAATTGCATTTTGA
1 CCCTAAAACTTCTCAAAATTATATTTTTAACCCCAAAAC-TTTCAAAAATTACATTTTTA
* * * * *
35812645 CCCAAAAATTTC-CAAAATTATA-TTTTGACCCCTAAACTTCTCCAAAATTACA-TTTTA
1 CCCTAAAACTTCTCAAAATTATATTTTTAACCCCAAAACTT-TCAAAAATTACATTTTTA
*
35812702 CCCCAAAACTT-TCAAAATTA
1 CCCTAAAACTTCTCAAAATTA
35812722 CCATTTTACC
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
57 23 0.21
58 22 0.20
59 34 0.30
60 33 0.29
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (59 bp):
CCCTAAAACTTCTCAAAATTATATTTTTAACCCCAAAACTTTCAAAAATTACATTTTTA
Found at i:35812642 original size:31 final size:29
Alignment explanation
Indices: 35812500--35812732 Score: 161
Period size: 30 Copynumber: 7.9 Consensus size: 29
35812490 GGAGGTCCCT
** * *
35812500 AAACTGTCTAAAAATTGTATTTTGACCCCT
1 AAACT-TCTAAAAATTACATTTTTACCCCA
* * * *
35812530 AAACTTCTCTAAAATTACATTTTTAAGCTCG
1 AAACTTCT-AAAAATTACATTTTT-ACCCCA
*
35812561 AAACTTAC-AAAAATTACATTTTTACCCTA
1 AAACTT-CTAAAAATTACATTTTTACCCCA
*
35812590 AAACTTCTAAAAATTATATTTTTAACCCCA
1 AAACTTCTAAAAATTACATTTTT-ACCCCA
* * * * *
35812620 AAACTTTTGGAAAATTGCATTTTGACCCAA
1 AAACTTCT-AAAAATTACATTTTTACCCCA
* * * * *
35812650 AAATTTC-CAAAATTATATTTTGACCCCT
1 AAACTTCTAAAAATTACATTTTTACCCCA
*
35812678 AAACTTCTCCAAAATTACA-TTTTACCCCA
1 AAACTTCT-AAAAATTACATTTTTACCCCA
*
35812707 AAACTT-TCAAAATTACCA-TTTTACCC
1 AAACTTCTAAAAATTA-CATTTTTACCC
35812733 ATAGATGTTT
Statistics
Matches: 163, Mismatches: 31, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
27 8 0.05
28 34 0.21
29 39 0.24
30 61 0.37
31 20 0.12
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (29 bp):
AAACTTCTAAAAATTACATTTTTACCCCA
Found at i:35812759 original size:58 final size:56
Alignment explanation
Indices: 35812697--35812909 Score: 165
Period size: 59 Copynumber: 3.6 Consensus size: 56
35812687 CAAAATTACA
**
35812697 TTTTACCCCAAAACTTTCAAAATTACCATTTTACCCATAGATGTTTAAAAACTCCATT
1 TTTTACCCCAAAACTTT-AAAATTACCATTTTACCC-TAGATGTCCAAAAACTCCATT
* * * * ** ** *
35812755 TTTTACCCCAAACCCTTTATATTTACTATTTTACCCCCGAATAACCAAAAACTTCATT
1 TTTTACCCCAAA-ACTTTAAAATTACCATTTTACCCTAG-ATGTCCAAAAACTCCATT
* *** * *
35812813 TTTGACCTTGAACCTTTTGAAAATTACCATTTTACCCTCGGATGTCCAAAAACTCCATT
1 TTTTACCCCAAAAC-TTT-AAAATTACCATTTTACCCT-AGATGTCCAAAAACTCCATT
* * *
35812872 ATTTATCCCAAAACTTCTAAAAATTACCATCTTACCCT
1 TTTTACCCCAAAACTT-T-AAAATTACCATTTTACCCT
35812910 CGTATTTCTA
Statistics
Matches: 117, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
57 3 0.03
58 53 0.45
59 60 0.51
60 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (56 bp):
TTTTACCCCAAAACTTTAAAATTACCATTTTACCCTAGATGTCCAAAAACTCCATT
Found at i:35818552 original size:12 final size:12
Alignment explanation
Indices: 35818525--35818568 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
35818515 ATAAATAAAT
35818525 AAAAGAAGAGAAAG
1 AAAA-AAGA-AAAG
35818539 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
35818551 AAAAAACAAGAAG
1 AAAAAAGAA-AAG
35818564 AAAAA
1 AAAAA
35818569 TAAAAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.43
13 12 0.43
14 4 0.14
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:35819913 original size:50 final size:50
Alignment explanation
Indices: 35819857--35820021 Score: 156
Period size: 50 Copynumber: 3.3 Consensus size: 50
35819847 AAAGATACAA
*
35819857 AAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACACG
1 AAGGGAAAGATCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACACG
* * * ** * *
35819907 AAGGGAAAGATCTAAGACCGCGATGGCGGATCC-AATACCGCA-AAGACACAA
1 AAGGGAAAGATCTAAG-TCGCAACGGCGGA-CCGTGTACCTCAGAAGACAC-G
* * * * * *
35819958 AAGGAAAAGGTCTAAGTCACAACGACGGATCGTGTACCTCAGAAG-CATG
1 AAGGGAAAGATCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACACG
35820007 AAGGGAAAGATCTAA
1 AAGGGAAAGATCTAA
35820022 AACCGTAACG
Statistics
Matches: 87, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
49 14 0.16
50 38 0.44
51 33 0.38
52 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.13
Consensus pattern (50 bp):
AAGGGAAAGATCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACACG
Found at i:35819973 original size:51 final size:51
Alignment explanation
Indices: 35819808--35819973 Score: 185
Period size: 51 Copynumber: 3.3 Consensus size: 51
35819798 GAAACACGAC
* *
35819808 GGGAAAGATCTAAGACCGTAATGGCGGATCCAATACCGCAAAGATACAAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAA
* * * ** * *
35819859 GGGAAAGGTCTAAG-TCGCAACGGCGGA-CCGTGTACCTCAGAAGACAC-GAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCC-AATACCGCA-AAGACACAAAA
*
35819909 GGGAAAGATCTAAGACCGCGATGGCGGATCCAATACCGCAAAGACACAAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAA
* *
35819960 GGAAAAGGTCTAAG
1 GGGAAAGATCTAAG
35819974 TCACAACGAC
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.42
51 49 0.54
52 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (51 bp):
GGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAA
Found at i:35819981 original size:101 final size:101
Alignment explanation
Indices: 35819801--35820045 Score: 357
Period size: 101 Copynumber: 2.4 Consensus size: 101
35819791 GCACCATGAA
* * * *
35819801 ACACGACGGGAAAGATCTAAGACCGTAATGGCGGATCCAATACCGCAAAGATACAAAAGGGAAAG
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAAGGAAAAG
* *
35819866 GTCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAG
66 GTCTAAGTCACAACGACGGACCGTGTACCTCAGAAG
*
35819902 ACACGAAGGGAAAGATCTAAGACCGCGATGGCGGATCCAATACCGCAAAGACACAAAAGGAAAAG
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAAGGAAAAG
*
35819967 GTCTAAGTCACAACGACGGATCGTGTACCTCAGAAG
66 GTCTAAGTCACAACGACGGACCGTGTACCTCAGAAG
* * * * * *
35820003 -CATGAAGGGAAAGATCTAAAACCGTAACGGTGGATCCAGTACC
1 ACACGAAGGGAAAGATCTAAGACCGCAATGGCGGATCCAATACC
35820046 ACGAAGATTT
Statistics
Matches: 129, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 36 0.28
101 93 0.72
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.13
Consensus pattern (101 bp):
ACACGAAGGGAAAGATCTAAGACCGCAATGGCGGATCCAATACCGCAAAGACACAAAAGGAAAAG
GTCTAAGTCACAACGACGGACCGTGTACCTCAGAAG
Found at i:35821275 original size:92 final size:92
Alignment explanation
Indices: 35820176--35821232 Score: 1859
Period size: 92 Copynumber: 11.5 Consensus size: 92
35820166 TAAATAATAA
* *
35820176 CAAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
35820241 TCTTGAAGTTGTAGTAAAGTTGGTTAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
35820268 CAAGCCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAACTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820333 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
35820360 CAAGTCTTTATCTCTCTGAAGTTGTATTAAGAGCAAGATGAAGATTCAAACATCCATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820425 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * * *
35820452 CAAGTCTTTATCTCTCTGAAGTTGTATTAAGAGCAAGATGAAGATTCAAACATCCATTTCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820517 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
35820544 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820609 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
35820636 CAAGTC--TATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820699 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
35820726 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGTTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820791 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* *
35820818 CAAGTCTTTATCTCTCTGAATTTATAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35820883 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
35820910 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGTAAGATGAAGCTTCAAACATCAA-TCCTTATC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCC-TATC
35820974 CTCTTGAAGTTGTAGTAAAGTTGGATAG
65 CTCTTGAAGTTGTAGTAAAGTTGGATAG
*
35821002 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCAATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
35821067 TCTTGAAGTTGTAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
* * *
35821094 CAAGTCTTTATCTCTCTGAAATTGTAGTAAGAGCAAGATGAAGCTTCAAATATCAATTTCTATCC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
*
35821159 TCTTGAAGTTGCAGTAAAGTTGGATAG
66 TCTTGAAGTTGTAGTAAAGTTGGATAG
*
35821186 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATAAAGCTTC
1 CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTC
35821233 GGCACCAAAT
Statistics
Matches: 931, Mismatches: 30, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
90 90 0.10
91 3 0.00
92 835 0.90
93 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (92 bp):
CAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCC
TCTTGAAGTTGTAGTAAAGTTGGATAG
Found at i:35821393 original size:39 final size:39
Alignment explanation
Indices: 35821335--35821435 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
35821325 GAAGATCCTG
* * * * * **
35821335 ATCTTTTA-CCCGAGTCTGGGGTAAATTACCATTAGTCA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAACCA
35821373 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAACCA
* *
35821412 ATCTCCTACCCCGAGCCTTGGGCA
1 ATCTCTTACCCCGAGCCTGGGGCA
35821436 GATTGTTGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 7 0.13
39 46 0.87
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAAATCACCATCAACCA
Found at i:35821842 original size:17 final size:17
Alignment explanation
Indices: 35821830--35821888 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
35821820 TAAATTTATC
35821830 TTAAATTTTAATTTAAT
1 TTAAATTTTAATTTAAT
* *
35821847 TTAAGTTTGAATTTAAT
1 TTAAATTTTAATTTAAT
35821864 TTAAA-TTTAATATT-AT
1 TTAAATTTTAAT-TTAAT
35821880 TGTAAATTT
1 T-TAAATTT
35821889 AAATGTCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.23
17 25 0.71
18 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTAAATTTTAATTTAAT
Found at i:35821844 original size:5 final size:5
Alignment explanation
Indices: 35821836--35821874 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
35821826 TATCTTAAAT
35821836 TTTAA TTTAA TTTAA GTTTGAA TTTAA TTTAAA TTTAA T
1 TTTAA TTTAA TTTAA -TTT-AA TTTAA TTT-AA TTTAA T
35821875 ATTATTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 18 0.58
6 11 0.35
7 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (5 bp):
TTTAA
Found at i:35821847 original size:11 final size:11
Alignment explanation
Indices: 35821819--35821874 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
35821809 TACTTTGAAA
35821819 TTAAATTT-AT
1 TTAAATTTAAT
35821829 CTTAAATTTTAAT
1 -TTAAA-TTTAAT
35821842 TT-AATTTAAGT
1 TTAAATTTAA-T
*
35821853 TTGAATTTAAT
1 TTAAATTTAAT
35821864 TTAAATTTAAT
1 TTAAATTTAAT
35821875 ATTATTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 5 0.12
11 21 0.52
12 12 0.30
13 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:35822605 original size:15 final size:14
Alignment explanation
Indices: 35822585--35822614 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
35822575 AAAGTTTTAA
35822585 ATAATAATAATTATT
1 ATAATAATAA-TATT
35822600 ATAATAATAATATT
1 ATAATAATAATATT
35822614 A
1 A
35822615 ACTATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATAATAATATT
Found at i:35822610 original size:21 final size:22
Alignment explanation
Indices: 35822584--35822626 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
35822574 TAAAGTTTTA
*
35822584 AATAATAATAATTATT-ATAAT
1 AATAATAATAACTATTAATAAT
*
35822605 AATAATATTAACTATTAATAAT
1 AATAATAATAACTATTAATAAT
35822627 GAAAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAATAATAACTATTAATAAT
Found at i:35823795 original size:30 final size:29
Alignment explanation
Indices: 35823761--35824002 Score: 172
Period size: 29 Copynumber: 8.2 Consensus size: 29
35823751 AAACTATCCA
* *
35823761 AAAATTGTATTTTGACCCCTAAACTTCTCT
1 AAAATTATATTTTGACCCCAAAACTT-TCT
* * * * *
35823791 AAAATTACATTTTTAACCTCAAAACTTACA
1 AAAATTATA-TTTTGACCCCAAAACTTTCT
* *
35823821 AAAATTAAATTTTTACCCCAAAACTTT-T
1 AAAATTATATTTTGACCCCAAAACTTTCT
* *
35823849 GAAAACTATATTTTTACCCCAAAACTTT-T
1 -AAAATTATATTTTGACCCCAAAACTTTCT
* *
35823878 GAAAACTATATTTTTAACCCCAAAACTTT-T
1 -AAAATTATA-TTTTGACCCCAAAACTTTCT
*
35823908 GGAAAATT-TCATTTTGACCCCAAAA-TTTCC
1 --AAAATTAT-ATTTTGACCCCAAAACTTTCT
* **
35823938 AAAATTATATTTT-AACCCTGAACTTCTCT
1 AAAATTATATTTTGACCCCAAAACTT-TCT
* * * *
35823967 AAAATTACATTTTGACCACGAAACTTTCA
1 AAAATTATATTTTGACCCCAAAACTTTCT
35823996 AAAATTA
1 AAAATTA
35824003 CCATTTAACC
Statistics
Matches: 174, Mismatches: 28, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.03
28 13 0.07
29 78 0.45
30 56 0.32
31 21 0.12
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTATATTTTGACCCCAAAACTTTCT
Found at i:35823853 original size:29 final size:29
Alignment explanation
Indices: 35823761--35823955 Score: 180
Period size: 29 Copynumber: 6.6 Consensus size: 29
35823751 AAACTATCCA
* * *
35823761 AAAATTGTATTTTGACCCCTAAACTTCTCT-
1 AAAATTATATTTTTACCCCAAAACTT-T-TG
* * ***
35823791 AAAATTACATTTTTAACCTCAAAACTTACA
1 AAAATTATATTTTT-ACCCCAAAACTTTTG
*
35823821 AAAATTAAATTTTTACCCCAAAACTTTTG
1 AAAATTATATTTTTACCCCAAAACTTTTG
*
35823850 AAAACTATATTTTTACCCCAAAACTTTTG
1 AAAATTATATTTTTACCCCAAAACTTTTG
*
35823879 AAAACTATATTTTTAACCCCAAAACTTTTGG
1 AAAATTATATTTTT-ACCCCAAAACTTTT-G
* **
35823910 AAAATT-TCATTTTGACCCCAAAA-TTTCC
1 AAAATTAT-ATTTTTACCCCAAAACTTTTG
*
35823938 AAAATTATATTTTAACCC
1 AAAATTATATTTTTACCC
35823956 TGAACTTCTC
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
28 15 0.11
29 56 0.40
30 48 0.34
31 21 0.15
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTATATTTTTACCCCAAAACTTTTG
Found at i:35823901 original size:59 final size:59
Alignment explanation
Indices: 35823829--35823955 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 59
35823819 CAAAAATTAA
* **
35823829 ATTTTT-ACCCCAAAACTTTT-GAAAACTAT-ATTTTTACCCCAAAACTTTTGAAAACTAT
1 ATTTTTAACCCCAAAACTTTTGGAAAA-TATCATTTTGACCCCAAAA-TTTCCAAAACTAT
* *
35823887 ATTTTTAACCCCAAAACTTTTGGAAAATTTCATTTTGACCCCAAAATTTCCAAAATTAT
1 ATTTTTAACCCCAAAACTTTTGGAAAATATCATTTTGACCCCAAAATTTCCAAAACTAT
35823946 A-TTTTAACCC
1 ATTTTTAACCC
35823956 TGAACTTCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
58 15 0.25
59 27 0.44
60 19 0.31
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (59 bp):
ATTTTTAACCCCAAAACTTTTGGAAAATATCATTTTGACCCCAAAATTTCCAAAACTAT
Found at i:35824144 original size:59 final size:57
Alignment explanation
Indices: 35823976--35824155 Score: 227
Period size: 59 Copynumber: 3.1 Consensus size: 57
35823966 TAAAATTACA
* * * * *
35823976 TTTTGACCACGAAACTTTCAAAAATTACCATTTAACCCCTCGATGTCCAAAAACTCTAT
1 TTTTGACCTCGAACCTTT-TAAAATTACCATTTTACCCC-CAATGTCCAAAAACTCTAT
* * *
35824035 TTTTGACCTCGAACCTTTTAAAATTACTATTTTACTCCCGAATGTCCAAAAAGT-TCAT
1 TTTTGACCTCGAACCTTTTAAAATTACCATTTTAC-CCCCAATGTCCAAAAACTCT-AT
35824093 TTTTGACCTCGAACCTTTTGAAAATTACCATTTTACCCCCAAATGTCCAAAAACTCTAT
1 TTTTGACCTCGAACCTTTT-AAAATTACCATTTTACCCCC-AATGTCCAAAAACTCTAT
35824152 TTTT
1 TTTT
35824156 TATCCTGAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
57 1 0.01
58 50 0.48
59 53 0.50
60 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (57 bp):
TTTTGACCTCGAACCTTTTAAAATTACCATTTTACCCCCAATGTCCAAAAACTCTAT
Done.