Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 142 of 438
Found at i:42481389 original size:35 final size:35
Alignment explanation
Indices: 42481343--42481414 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
42481333 TGATTACATG
* *
42481343 TAAGACCACGTCTGAGACGTTGGCATTGTATGATA
1 TAAGACAACGTCTGAGACGCTGGCATTGTATGATA
* *
42481378 TAAGACAACGTCTGGGACGCTGTCATTGTATGATA
1 TAAGACAACGTCTGAGACGCTGGCATTGTATGATA
42481413 TA
1 TA
42481415 TGTTTCGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (35 bp):
TAAGACAACGTCTGAGACGCTGGCATTGTATGATA
Found at i:42483274 original size:29 final size:29
Alignment explanation
Indices: 42483154--42483273 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
42483144 TACATACATG
*
42483154 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
42483182 CATATGGCCCATTAGGCCCAAATCTCATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
* * ** *
42483211 CCTATGGCTCATTAGGCTGAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCTCATT
* *
42483240 CATATAGCCCATTAGGCCCTAATCAT-ATT
1 CATATGGCCCATTAGGCCCAAATC-TCATT
42483269 CATAT
1 CATAT
42483274 ACATGCTTTC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.23
29 59 0.77
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCTCATT
Found at i:42486360 original size:27 final size:26
Alignment explanation
Indices: 42486230--42486376 Score: 141
Period size: 27 Copynumber: 5.5 Consensus size: 26
42486220 ATACCCCCAG
* *
42486230 TTGTAAAATTACCAAAGTACCCCCAGT
1 TTGTAAAATTACCAAA-TACCCTCAAT
* * *
42486257 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCAAT
* *
42486284 TTGTAAAATTATCGAAATACCCTCAGT
1 TTGTAAAATTA-CCAAATACCCTCAAT
* * *
42486311 TTGCAAAATTACTAAAATACCCTCAAC
1 TTGTAAAATTAC-CAAATACCCTCAAT
42486338 TTGTAAAATTACCAAAGTACCCTCAAT
1 TTGTAAAATTACCAAA-TACCCTCAAT
**
42486365 TTACAAAATTAC
1 TTGTAAAATTAC
42486377 TGTTTTACCC
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.04
27 88 0.91
28 5 0.05
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCAAT
Found at i:42486373 original size:81 final size:80
Alignment explanation
Indices: 42486203--42486375 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 80
42486193 AATACTTTAG
* * * **
42486203 TTTACAAAATTATTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA
1 TTTACAAAATTATCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCAACTTATAAAATTA
* *
42486268 CCCAAATATCCTCGA
66 CCCAAATACCCTCAA
** * * * *
42486283 TTTGTAAAATTATCGAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCAACTTGTAAAATT
1 TTTACAAAATTATCGAAATACCCCCAG-TTGCAAAATTACCAAAATACCCCCAACTTATAAAATT
42486348 A-CCAAAGTACCCTCAA
65 ACCCAAA-TACCCTCAA
42486364 TTTACAAAATTA
1 TTTACAAAATTA
42486376 CTGTTTTACC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 28 0.37
81 48 0.63
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (80 bp):
TTTACAAAATTATCGAAATACCCCCAGTTGCAAAATTACCAAAATACCCCCAACTTATAAAATTA
CCCAAATACCCTCAA
Found at i:42486385 original size:27 final size:27
Alignment explanation
Indices: 42486355--42486575 Score: 248
Period size: 27 Copynumber: 8.2 Consensus size: 27
42486345 ATTACCAAAG
* *
42486355 TACCCTCAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
42486382 TACCCTCGATTTATAAAATTACCT-TTT
1 TACCCTCGATTTACAAAATTA-CTATTT
*
42486409 TACCATCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * **
42486436 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
42486463 TACCTTCGATTGAAAAAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
42486490 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
42486517 CACCCTAGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* *
42486544 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
42486571 TACCC
1 TACCC
42486576 CTAGGGTGTT
Statistics
Matches: 160, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 155 0.97
28 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:42486386 original size:54 final size:54
Alignment explanation
Indices: 42486203--42486458 Score: 210
Period size: 54 Copynumber: 4.8 Consensus size: 54
42486193 AATACTTTAG
* * * * * *
42486203 TTTACAAAATTATTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCAG
1 TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCAA
* ** * * *
42486256 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTCAG
1 TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTA-CCAAAGTACCCTCAA
* * *
42486310 TTTGCAAAATTACTAAAATACCCTCAACTTGTAAAATTACCAAAGTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCAA
**** * **** * *
42486364 TTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCTTTTTACCATCGA
1 TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCAA
*** * *
42486418 TTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACC
1 TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACC
42486459 GTTTTACCTT
Statistics
Matches: 166, Mismatches: 34, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
53 22 0.13
54 140 0.84
55 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.34
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAGTACCCTCAA
Found at i:42486464 original size:54 final size:54
Alignment explanation
Indices: 42486363--42486574 Score: 273
Period size: 54 Copynumber: 3.9 Consensus size: 54
42486353 AGTACCCTCA
* *
42486363 ATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCTTTTTACCATCG
1 ATTTACAAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCATCG
* * *
42486417 ATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCG
1 ATTTACAAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCATCG
* * * * * * * *
42486471 ATTGAAAAAATTATTATTTTACCCTCGATTTACAAAATTACTATTTCACCCTAG
1 ATTTACAAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCATCG
* *
42486525 ATTTACAGAATTA-TCGTTTTACCCTCGATTTATAAAATTACCATTTTACC
1 ATTTACAAAATTACT-ATTTTACCCTCGATTTATAAAATTACCATTTTACC
42486575 CCTAGGGTGT
Statistics
Matches: 136, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 135 0.99
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.42
Consensus pattern (54 bp):
ATTTACAAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCATCG
Found at i:42486575 original size:81 final size:80
Alignment explanation
Indices: 42486363--42486575 Score: 300
Period size: 81 Copynumber: 2.6 Consensus size: 80
42486353 AGTACCCTCA
* * *
42486363 ATTTACAAAATTACTGTTTTACCCTCGATTTATAAAATTACCTTTTTACCATCGATTTACAAAAT
1 ATTTACAGAATTAC-GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAAT
* *
42486428 TACTATTTTACCCTCG
65 TACTATTTCACCCTAG
* * * * **
42486444 ATTTATAGAATTACCGTTTTACCTTCGATTGAAAAAATTATTATTTTACCCTCGATTTACAAAAT
1 ATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAAT
42486509 TACTATTTCACCCTAG
65 TACTATTTCACCCTAG
42486525 ATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
1 ATTTACAGAATTA-CGTTTTACCCTCGATTTATAAAATTACCATTTTACCC
42486576 CTAGGGTGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
81 112 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.41
Consensus pattern (80 bp):
ATTTACAGAATTACGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATT
ACTATTTCACCCTAG
Found at i:42487061 original size:6 final size:6
Alignment explanation
Indices: 42487030--42487117 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
42487020 TTGCATTCAC
* * *
42487030 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
42487079 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
42487118 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:42487068 original size:31 final size:31
Alignment explanation
Indices: 42487030--42487108 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
42487020 TTGCATTCAC
* * *
42487030 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
42487061 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
42487092 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
42487109 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:42489274 original size:26 final size:26
Alignment explanation
Indices: 42489245--42489393 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 26
42489235 ATAGTTTACC
*
42489245 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTACTCAAATACCCCCAGTTGTA
* * *
42489271 AAATTAC-CAAAGTACCCTCGGTTTATA
1 AAATTACTCAAA-TACCCCCAG-TTGTA
* * * *
42489298 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCCCCAGTTGTA
* *
42489325 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACTC-AAATACCCCCAG-TTGTA
* *
42489352 AAATTACTAAAATACCCCCACTTGTA
1 AAATTACTCAAATACCCCCAGTTGTA
42489378 AAATTAC-CAAAGTACC
1 AAATTACTCAAA-TACC
42489394 ATCAATTTAC
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
25 6 0.06
26 33 0.35
27 48 0.51
28 7 0.07
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACTCAAATACCCCCAGTTGTA
Found at i:42489303 original size:27 final size:26
Alignment explanation
Indices: 42489269--42489465 Score: 137
Period size: 27 Copynumber: 7.3 Consensus size: 26
42489259 CCCCCAGTTG
*
42489269 TAAAATTACCAAAGTACCCTCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTA
* *
42489296 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGATTTA
* *
42489323 TAAAATTATCGAAATACCCTC-AGTTTG
1 TAAAATTA-CCAAATACCCTCGA-TTTA
* * * * *
42489350 CAAAATTACTAAAATACCC-CCACTTG
1 TAAAATTAC-CAAATACCCTCGATTTA
* *
42489376 TAAAATTACCAAAGTACCATCAATTTA
1 TAAAATTACCAAA-TACCCTCGATTTA
* * **
42489403 CAAAATTACTATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTA
**
42489430 TAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTA
*
42489457 CAAAATTAC
1 TAAAATTAC
42489466 TGTTTTACCC
Statistics
Matches: 139, Mismatches: 24, Indels: 14
0.79 0.14 0.08
Matches are distributed among these distances:
25 3 0.02
26 18 0.13
27 113 0.81
28 5 0.04
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.32
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTA
Found at i:42489407 original size:53 final size:53
Alignment explanation
Indices: 42489237--42489466 Score: 203
Period size: 54 Copynumber: 4.3 Consensus size: 53
42489227 AGAATACTAT
* * *
42489237 AGTTTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTC
1 AGTTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCCTC
* * ** * * * *
42489290 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 AGTTTACAAAATTACTAAAATA-CCCCCACTTGTAAAATTA-CCAAAGTACCCTC
* *
42489344 AGTTTGCAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATC
1 AGTTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCCTC
* *** * * * ***
42489397 AATTTACAAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTC
1 AGTTTACAAAATTACTAAAATACCC-CCACTTGTAAAATTACCAAAGTACCCTC
42489451 -GATTTACAAAATTACT
1 AG-TTTACAAAATTACT
42489467 GTTTTACCCT
Statistics
Matches: 140, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
52 4 0.03
53 58 0.41
54 74 0.53
55 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (53 bp):
AGTTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCCTC
Found at i:42489424 original size:107 final size:107
Alignment explanation
Indices: 42489245--42489437 Score: 271
Period size: 107 Copynumber: 1.8 Consensus size: 107
42489235 ATAGTTTACC
* * * ** *
42489245 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACCCAAA
1 AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTACCCAAA
* *
42489310 TATCCTCGATTTGTAAAATTATCGAAATACCCTCAGTTTGCA
66 TACCCTCGATTTATAAAATTATCGAAATACCCTCAGTTTGCA
* *
42489352 AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTA-CTATT
1 AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTACCCA-A
*
42489416 TTACCCTCGATTTATAAAATTA
65 ATACCCTCGATTTATAAAATTA
42489438 CCATTTTACC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 2 0.03
107 72 0.97
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (107 bp):
AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTACCCAAA
TACCCTCGATTTATAAAATTATCGAAATACCCTCAGTTTGCA
Found at i:42489448 original size:107 final size:107
Alignment explanation
Indices: 42489239--42489466 Score: 264
Period size: 107 Copynumber: 2.1 Consensus size: 107
42489229 AATACTATAG
* * * * ** *
42489239 TTTACCAAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTA
1 TTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTA
* * *
42489304 CCCAAATATCCTCGATTTGTAAAATTATCGAAATACCCTC-A
66 CCCAAATACCCTCGATTTATAAAATTATCCAAATACCCTCGA
*
42489345 GTTTGCAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATT
1 -TTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATT
* ** **
42489410 A-CTATTTTACCCTCGATTTATAAAATTA-CCATTTTACCCTCGA
65 ACCCA-AATACCCTCGATTTATAAAATTATCCA-AATACCCTCGA
42489453 TTTACAAAATTACT
1 TTTACAAAATTACT
42489467 GTTTTACCCT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
106 4 0.04
107 96 0.95
108 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (107 bp):
TTTACAAAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCATCAATTTACAAAATTA
CCCAAATACCCTCGATTTATAAAATTATCCAAATACCCTCGA
Found at i:42489471 original size:27 final size:27
Alignment explanation
Indices: 42489398--42489637 Score: 311
Period size: 27 Copynumber: 8.9 Consensus size: 27
42489388 AGTACCATCA
42489398 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
42489425 ATTTATAAAATTACCATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
42489452 ATTTACAAAATTACTGTTTTACCCTTG
1 ATTTACAAAATTACTATTTTACCCTCG
* * **
42489479 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* * * *
42489506 ATTGACAGAATTACTGTTTTACCTTCG
1 ATTTACAAAATTACTATTTTACCCTCG
42489533 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
*
42489560 ATTTACAATATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
42489587 ATTTACAGAATTA-TCGTTTTACCCTCG
1 ATTTACAAAATTACT-ATTTTACCCTCG
* *
42489614 ATTTATAAAATTACCATTTTACCC
1 ATTTACAAAATTACTATTTTACCC
42489638 CTAGGGTGTT
Statistics
Matches: 185, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 184 0.99
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTACAAAATTACTATTTTACCCTCG
Found at i:42490019 original size:27 final size:26
Alignment explanation
Indices: 42489967--42490026 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42489957 ATATATATAT
*
42489967 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
42489993 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
42490020 ATATCTG
1 ATATCTG
42490027 GCAGCTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:42490180 original size:31 final size:32
Alignment explanation
Indices: 42490145--42490224 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 32
42490135 TTGCATTCAC
*
42490145 ATTCTGATTTTGATTCTGTT-ACCTGATACTG
1 ATTCTGATTCTGATTCTGTTAACCTGATACTG
* *
42490176 ATTCTGATTCTAATT-T-TTACACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTA-ACCTGATACTG
42490207 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
42490225 ATTCTAGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 1 0.02
31 37 0.90
32 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (32 bp):
ATTCTGATTCTGATTCTGTTAACCTGATACTG
Found at i:42490184 original size:6 final size:6
Alignment explanation
Indices: 42490145--42490238 Score: 75
Period size: 6 Copynumber: 15.3 Consensus size: 6
42490135 TTGCATTCAC
* * * * *
42490145 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTTTT
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
**
42490194 ACACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 A-TTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
42490239 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
5 3 0.04
6 59 0.86
7 6 0.09
8 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:42491430 original size:21 final size:22
Alignment explanation
Indices: 42491388--42491432 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
42491378 TAAAAGAAAT
*
42491388 TGTTTTAATATATGCTGGATTA
1 TGTTTTAATATATGCTAGATTA
* *
42491410 TGTTTTAAT-TATGTTATATTA
1 TGTTTTAATATATGCTAGATTA
42491431 TG
1 TG
42491433 AATGATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (22 bp):
TGTTTTAATATATGCTAGATTA
Found at i:42492916 original size:141 final size:141
Alignment explanation
Indices: 42492659--42492936 Score: 457
Period size: 141 Copynumber: 2.0 Consensus size: 141
42492649 TGTCACTAGA
* * ** *
42492659 AAACCATGTGTTATGTGATCTATGTGAATCCGGGTGCTGGTCATGCACGTCCTATTGGTGGCTAG
1 AAACCATGTGTTATGTGATATATGTGAATCCAGGTGCTGGTCATGCACGTCCTACCGGAGGCTAG
* *
42492724 GTAGTCTGGCATGTGTTACAGATACCTGACACCTTGTGTGAGTAGCCCGTGTAGCAACGTCTTGA
66 GTAGTCCGGCATGTGTTACAGATACCTGACACCTTGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
42492789 CTGACAGTAGG
131 CTGACAGTAGG
* *
42492800 AAACCATGTGTTATGTGATATATGTGAATCCAGGTGTTGGTCATGCACGTCCTACCGGAGGCTGG
1 AAACCATGTGTTATGTGATATATGTGAATCCAGGTGCTGGTCATGCACGTCCTACCGGAGGCTAG
* *
42492865 GTAGTCCGGCATGTGTTGCAGATACCTGACACCTTGTGTGAGCAGCTCGTGTAGCAACGTCTTGA
66 GTAGTCCGGCATGTGTTACAGATACCTGACACCTTGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
42492930 CTGACAG
131 CTGACAG
42492937 CTTGTGTGAG
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 126 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (141 bp):
AAACCATGTGTTATGTGATATATGTGAATCCAGGTGCTGGTCATGCACGTCCTACCGGAGGCTAG
GTAGTCCGGCATGTGTTACAGATACCTGACACCTTGTGTGAGCAGCCCGTGTAGCAACGTCTTGA
CTGACAGTAGG
Found at i:42496018 original size:18 final size:18
Alignment explanation
Indices: 42495973--42496018 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
42495963 ATCGCATAGT
*
42495973 TGTGAGCTCATCAAAAGT
1 TGTGAGCTCATCAAAAGA
** *
42495991 TGCAACCTCATCAAAAGA
1 TGTGAGCTCATCAAAAGA
42496009 TGTGAGCTCA
1 TGTGAGCTCA
42496019 ACCAAGTTGT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (18 bp):
TGTGAGCTCATCAAAAGA
Found at i:42504670 original size:42 final size:42
Alignment explanation
Indices: 42504568--42504739 Score: 145
Period size: 43 Copynumber: 4.0 Consensus size: 42
42504558 AGCTCGTACA
* *
42504568 ATGCCAATGTCACAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTC-CAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
42504611 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGT-CCAGACAGGGTCTTACACGAAATCAAATATCG
* * * *
42504653 ATGCCAATGTCCTAGACATGGTCTTACACATAAATGAAAAATCG
1 ATGCCAATGTCC-AGACAGGGTCTTACAC-GAAATCAAATATCG
* *
42504697 ATGCCAACGTCCCAGA-TGTGGTCTTACACGATAA-CAAATATCG
1 ATGCCAATGT-CCAGACAG-GGTCTTACACGA-AATCAAATATCG
42504740 GAATCCTATG
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 25 0.24
43 46 0.45
44 28 0.27
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:42504720 original size:86 final size:85
Alignment explanation
Indices: 42504568--42504727 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
42504558 AGCTCGTACA
* ** *
42504568 ATGCCAATGTCACAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCACAGACATGGTCTTACACATAATCAAAAATCGATGCCACTATCCCAGACAGGGT
42504633 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * *
42504653 ATGCCAATGTC-CTAGACATGGTCTTACACATAAATGAAAAATCGATGCCAAC-GTCCCAGA-TG
1 ATGCCAATGTCAC-AGACATGGTCTTACACAT-AATCAAAAATCGATGCC-ACTATCCCAGACAG
42504715 TGGTCTTACACGA
63 -GGTCTTACACGA
42504728 TAACAAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 1 0.02
85 27 0.42
86 34 0.53
87 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAATGTCACAGACATGGTCTTACACATAATCAAAAATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATCATATACG
Found at i:42504903 original size:2 final size:2
Alignment explanation
Indices: 42504896--42504921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42504886 TCGGCATCAC
42504896 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
42504922 TTCTTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42512706 original size:39 final size:39
Alignment explanation
Indices: 42512652--42512767 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 39
42512642 TTCAGTGATG
42512652 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
42512691 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * **
42512730 TATATCCGGACTTAAGGTCCACAAGCTACATGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
42512768 ATATGTACGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:42517036 original size:42 final size:42
Alignment explanation
Indices: 42516931--42517085 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 42
42516921 TCGTACATTA
* ***
42516931 CCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATA-GATG
1 CCAATGTCCCAGACATGGTCTTACACAAAATC--ATATACGATG
* * * * *
42516974 TCATTGTCCCAGAGAGGGTCTAACACAAAATCATATACGATG
1 CCAATGTCCCAGACATGGTCTTACACAAAATCATATACGATG
* * * *
42517016 CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATT
1 CCAATGTCCCAGACATGGTCTTACAC-AAAATCATATA-CGATG
**
42517060 CCAATGTCCCAGATGTGGTCTTACAC
1 CCAATGTCCCAGACATGGTCTTACAC
42517086 GATAACACAT
Statistics
Matches: 89, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 5 0.06
42 25 0.28
43 31 0.35
44 28 0.31
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
CCAATGTCCCAGACATGGTCTTACACAAAATCATATACGATG
Found at i:42517070 original size:44 final size:43
Alignment explanation
Indices: 42516931--42517086 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 43
42516921 TCGTACATTA
* * *
42516931 CCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATAGATGT
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCGAT-T
* * * * * * *
42516975 -CATTGTCCCAGAGAGGGTCTAACAC-AAAATC-ATATACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAAAT-CGATT
42517016 CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATT
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCA-AAATCGATT
**
42517060 CCAATGTCCCAGATGTGGTCTTACACG
1 CCAATGTCCCAGACATGGTCTTACACG
42517087 ATAACACATA
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.02
42 25 0.29
43 28 0.32
44 29 0.33
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAAATCAAAATCGATT
Found at i:42517111 original size:44 final size:44
Alignment explanation
Indices: 42516931--42517111 Score: 117
Period size: 43 Copynumber: 4.2 Consensus size: 44
42516921 TCGTACATTA
* * *
42516931 CCAATGTCCCAGACGTGGTCTTACATGT-AATCA-AATATAG-AT
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGAAT
* * * * * * * *
42516973 GTCATTGTCCCAGAGAGGGTCTAACAC-AAAATCATATA-CG-AT
1 -CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAAT
*
42517015 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATT
1 -CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAAT
** *
42517060 CCAATGTCCCAGATGTGGTCTTACACG-ATAA-CACATATCGGAAT
1 CCAATGTCCCAGACATGGTCTTACACGTA-AATCACAAATC-GAAT
*
42517104 CCTATGTC
1 CCAATGTC
42517112 GTGACATATG
Statistics
Matches: 107, Mismatches: 24, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
42 25 0.23
43 41 0.38
44 40 0.37
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (44 bp):
CCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAAT
Found at i:42519846 original size:47 final size:47
Alignment explanation
Indices: 42519789--42520179 Score: 647
Period size: 47 Copynumber: 8.3 Consensus size: 47
42519779 GTATGAGATA
42519789 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
42519836 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42519883 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42519930 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42519977 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
42520024 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
42520071 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
42520118 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42520165 TATAAATGTGATAAG
1 TATATATGTGATAAG
42520180 TCCCGAAGGG
Statistics
Matches: 324, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 324 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:42520347 original size:37 final size:37
Alignment explanation
Indices: 42520297--42520379 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
42520287 CCGAGCTCTA
*
42520297 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
*
42520334 AAGACCCGATGACTACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
*
42520371 AAGCCCCGA
1 AAGACCCGA
42520380 ACTAAAGGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (37 bp):
AAGACCCGATGACTACGGGTGGAGATTATGTCCGGGT
Found at i:42523907 original size:45 final size:45
Alignment explanation
Indices: 42523857--42523944 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
42523847 AAACATGTTC
42523857 CACATACATCATGAACTCAGACCACAACTCAATGAGGTCAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGGTCAGATGT
* * * *
42523902 CACATATATCATGAACTTAGACCACAACTTAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGGTCAGAT
42523945 CATATAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGGTCAGATGT
Found at i:42526416 original size:47 final size:48
Alignment explanation
Indices: 42526347--42526662 Score: 171
Period size: 47 Copynumber: 6.7 Consensus size: 48
42526337 TTGTGTGCTG
* *
42526347 GTGTAAGA-CATGTTTTGGACAT-GCATCGGCCACATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCA
* * * *
42526393 GTGTAAGACCATGTTTGGGACATGGCATCGG---TATTGA-GACAAGAACTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATG---AGAGCCA
* * * *
42526441 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--GA-GATGTGTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GAGCCA
* * * * * *
42526485 ATGTAAGACCATGTGTGGGATATGGCATCGGCACAGATATGTGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-CACAT-TATGAGAGCCA
* * * ** * *
42526535 GTGTAAGACCAT-CCATGGGACATGACGTCGGCCTGGATT-TCGATAGTCA
1 GTGTAAGACCATGTC-TGGGACATGGCATCGGCC-ACATTAT-GAGAGCCA
*
42526584 GTGTAAGACCATGTCTGGGACATCGCATC-G--AC-TTGATGGATGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GAGCCA
*
42526631 GTGTAAGACCATGTCGGGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
42526663 ATTATGCCCT
Statistics
Matches: 202, Mismatches: 42, Indels: 49
0.69 0.14 0.17
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 16 0.08
46 29 0.14
47 58 0.29
48 23 0.11
49 30 0.15
50 32 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCA
Found at i:42533079 original size:13 final size:13
Alignment explanation
Indices: 42533061--42533085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42533051 GTAAGTGATT
42533061 TTGATGATTTTTC
1 TTGATGATTTTTC
42533074 TTGATGATTTTT
1 TTGATGATTTTT
42533086 TCACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:42534051 original size:49 final size:48
Alignment explanation
Indices: 42533790--42534103 Score: 197
Period size: 47 Copynumber: 6.6 Consensus size: 48
42533780 TTTGTGTGCT
* * ** *
42533790 AGTGTAAGA-CATGTTTGGGACAT-ACATCGGCC-ACATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATT-TGATAGTC
* * ** * *** *
42533836 AGTGTAGGACCATGTTTGGGACATGGCATCGGTATTGAGACGATA-AC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTTGATAGTC
* * *
42533883 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGACTATGAGA--TG-T-GTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTG-GATTTGATAGTC
* *
42533928 AGTGTAAGACCATGTCTGGGATATGGCATCGGCAC-GGATATGTGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGGAT-T-TGATAGTC
** *
42533977 TAGTGTAAGACCATGTCTGCAACATGGCGTCGGCCTGGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTT-GATAGTC
* * * *
42534027 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTTGAT-AGTC
*
42534074 AGTGTAAGACCATGTCTGAGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
42534104 AGCATTATTC
Statistics
Matches: 210, Mismatches: 38, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 25 0.12
47 62 0.30
48 27 0.13
49 35 0.17
50 35 0.17
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGGATTTGATAGTC
Found at i:42534390 original size:19 final size:19
Alignment explanation
Indices: 42534366--42534402 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
42534356 TTTATTTGCA
42534366 TGCAACTTACTAAGCTTTT
1 TGCAACTTACTAAGCTTTT
42534385 TGCAACTTACTAAGCTTT
1 TGCAACTTACTAAGCTTT
42534403 ATGATGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (19 bp):
TGCAACTTACTAAGCTTTT
Found at i:42538764 original size:45 final size:45
Alignment explanation
Indices: 42538657--42538804 Score: 124
Period size: 45 Copynumber: 3.3 Consensus size: 45
42538647 GCTGGTATTA
* * ** * *
42538657 TATTTGGGCCTTCGTGCCTAGCAGGCT-TTTTGCTGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-GATAC
* * * * *
42538700 TATTCAGGCCTTCGTGCCTAGCAGGCTATGATTCTGGTG-GAATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG-ATAC
* *
42538745 TATTCGGGCCTTTGAGCCTAGCATGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
42538790 TATTCGGGCTTTCGA
1 TATTCGGGCCTTCGA
42538805 TATCGGGCCT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 25 0.29
44 9 0.11
45 49 0.58
46 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:42554886 original size:29 final size:29
Alignment explanation
Indices: 42554854--42554988 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
42554844 ATACCCTCCG
** * *
42554854 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
42554883 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
42554912 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
* *
42554941 AGCACACACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
42554970 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
42554989 GATCTCGTCA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 90 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:42554921 original size:58 final size:58
Alignment explanation
Indices: 42554858--42554989 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
42554848 CCTCCGAGCT
** * *** * *
42554858 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACACACACATAGTGCCATATATTTCCAGCA
* * *
42554916 TGCACACTTAGTGCCTTATATTTCCAGCACACACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACACACACATAGTGCCATATATTTCCAGCA
42554974 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
42554990 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACACACACATAGTGCCATATATTTCCAGCA
Found at i:42560414 original size:39 final size:38
Alignment explanation
Indices: 42560356--42560529 Score: 122
Period size: 39 Copynumber: 4.5 Consensus size: 38
42560346 AAATTGAATG
*
42560356 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCT--AATCT
* * * *
42560395 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAAT-CT
* * *
42560434 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGT-T
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAATCT
* * * * *
42560470 GTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 -ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATC-T
* *
42560510 GATATCCGGGTTAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
42560530 TAGGCCTTGG
Statistics
Matches: 115, Mismatches: 12, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
36 1 0.01
37 29 0.25
38 10 0.09
39 57 0.50
40 18 0.16
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATCT
Found at i:42560485 original size:37 final size:37
Alignment explanation
Indices: 42560394--42560503 Score: 152
Period size: 39 Copynumber: 2.9 Consensus size: 37
42560384 ATGCTGAAAT
*
42560394 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTGC
42560433 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTG-
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAG-TGC
42560471 T-TATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
42560504 AATCGTGATA
Statistics
Matches: 67, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
37 29 0.43
38 8 0.12
39 30 0.45
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (37 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTGC
Found at i:42571128 original size:40 final size:38
Alignment explanation
Indices: 42571033--42571181 Score: 156
Period size: 39 Copynumber: 3.8 Consensus size: 38
42571023 AAATTGAATG
* * * **
42571033 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT-AGTTT
* * *
42571072 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--TT
*
42571112 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTTT
* *
42571150 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
42571182 AAATCGTGAT
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 29 0.32
39 33 0.36
40 30 0.33
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTT
Found at i:42571164 original size:38 final size:38
Alignment explanation
Indices: 42571071--42571181 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 38
42571061 ATGCTGAAAT
* * *
42571071 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GC
*
42571111 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-T
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC
*
42571149 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
42571182 AAATCGTGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 29 0.45
39 5 0.08
40 30 0.47
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGC
Found at i:42571194 original size:78 final size:78
Alignment explanation
Indices: 42571031--42571222 Score: 190
Period size: 78 Copynumber: 2.4 Consensus size: 78
42571021 AGAAATTGAA
* * * *
42571031 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAATTATAACCGGGTTAAGACCCGAAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GAAATTATAACCGGGCTAAGACCCGAAGGC
* * *
42571096 AATTGTGCTAGTGGC
64 AATTGTGCAAATCGC
** * *
42571111 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTTCTATCCGGGCTAAGACCCGAAGGCA
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAAATTATAACCGGGCTAAGACCCGAAGGCA
*
42571175 TTTGTGCAAATCG-
65 ATTGTGCAAATCGC
* * * *
42571188 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCG
42571223 GGTTACCATA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 66 0.71
79 25 0.27
80 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTGTGCGAAATTATAACCGGGCTAAGACCCGAAGGCAA
TTGTGCAAATCGC
Found at i:42576994 original size:29 final size:29
Alignment explanation
Indices: 42576953--42577063 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 29
42576943 AGTGCCGTTT
** * * *
42576953 TTTCCAGCTTGCACACATAGTGTCATATT
1 TTTCCAGCACGCACACTTAGTGCCATATA
* *
42576982 TTTCCAGCATGCACACTTAGTGCCTTATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
*
42577011 TTTCCAGCACACACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
42577040 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
42577064 GATGTCGTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:42581148 original size:45 final size:45
Alignment explanation
Indices: 42581061--42581148 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
42581051 TGCCACATAC
* **
42581061 ATCATGAACTCAGACCACAACTTAATCAGTCCAGATGTCATAGAT
1 ATCATGAACTCAGACCACAACTCAATCAGTCCAGATCACATAGAT
* * *
42581106 ATCATGAACTCAGACCATAACTCAATGAGTTCAGATCACATAG
1 ATCATGAACTCAGACCACAACTCAATCAGTCCAGATCACATAG
42581149 TTCCTAGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (45 bp):
ATCATGAACTCAGACCACAACTCAATCAGTCCAGATCACATAGAT
Found at i:42586626 original size:28 final size:27
Alignment explanation
Indices: 42586525--42586626 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
42586515 TCAAAGTTAA
* *
42586525 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
* *
42586553 CTGGACCATAGCCC-TTTACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
42586585 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
42586613 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
42586627 TATACAAGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
27 8 0.14
28 25 0.44
30 2 0.04
32 15 0.26
33 7 0.12
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:42586664 original size:59 final size:59
Alignment explanation
Indices: 42586526--42586664 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
42586516 CAAAGTTAAC
* * *
42586526 TGGGCCTTAGCCCATATCAATATTAATCTGGACCATAGCCCTTTACAGTATCAGAGTATAT
1 TGGG-CTTAGCCCATATCAGTATCAATCTGGACCATAGCCCTATACAG-ATCAGAGTATAT
* * *
42586587 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACA-AGTC-GAGATATAT
1 TGGGCTTAGCCCATATCAGTATCAATCTGGACCATAGCCCTATACAGA-TCAGAG-TATAT
42586646 TGGGCTTTA-CCCATATCAG
1 TGGGC-TTAGCCCATATCAG
42586665 CACAGTTAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 4 0.06
59 22 0.32
60 38 0.56
61 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (59 bp):
TGGGCTTAGCCCATATCAGTATCAATCTGGACCATAGCCCTATACAGATCAGAGTATAT
Found at i:42586708 original size:19 final size:20
Alignment explanation
Indices: 42586666--42586709 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
42586656 CCATATCAGC
** *
42586666 ACAGTTAGGCCCATTTTAAT
1 ACAGTTAGGCCCATAATAAA
42586686 ACAGTT-GGCCCATAATAAA
1 ACAGTTAGGCCCATAATAAA
42586705 ACAGT
1 ACAGT
42586710 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (20 bp):
ACAGTTAGGCCCATAATAAA
Found at i:42587030 original size:26 final size:27
Alignment explanation
Indices: 42586999--42587062 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
42586989 CAAAATTAAC
*
42586999 CTTAGGGGTATAACGGTCATTTTGCAT-
1 CTTAGGGGTATAACGGTAATTTT-CATA
* *
42587026 C-TAGGGGTAAAATGGTAATTTTCATA
1 CTTAGGGGTATAACGGTAATTTTCATA
42587052 CTTAGGGGTAT
1 CTTAGGGGTAT
42587063 TTCAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.10
26 19 0.61
27 9 0.29
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (27 bp):
CTTAGGGGTATAACGGTAATTTTCATA
Found at i:42588708 original size:336 final size:336
Alignment explanation
Indices: 42588095--42588767 Score: 1283
Period size: 336 Copynumber: 2.0 Consensus size: 336
42588085 AATCCCGTAC
42588095 GGCCCTTTTCGTGCGTGCACATAAAAAAGAAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
1 GGCCCTTTTCGTGCGTGCACATAAAAAAGAAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
*
42588160 GACCTCCAGGGTGCCCAACACACTGCTAACCACTGGGACGGGTCTCCTTCTTTGATATAATAGCG
66 GACCTCCAGGGTGCCCAACACACTGCTAACCACTGGGACGGGTCTCCTCCTTTGATATAATAGCG
42588225 TCGTGTTTACCTTTAAACCTTACCTGCTGACGTCCTGAGTTCTTTTAAAAATAAAACAGAACATA
131 TCGTGTTTACCTTTAAACCTTACCTGCTGACGTCCTGAGTTCTTTTAAAAATAAAACAGAACATA
* * * *
42588290 CATGCGCCTGGACTCGAACCCGAGCCACCCTGGTACTCCTAACGCACTGCTGCCGCTGCGCCACA
196 CATGCGCCTAGACTAGAACCCGAGCCACCCTAGTACTCCTAACGCACTACTGCCGCTGCGCCACA
42588355 AACCTTTTAGTGGCATAACTCGGTCGCAACTATACTTAAGTTTTACCTTAGCTCGACGTGGCTTC
261 AACCTTTTAGTGGCATAACTCGGTCGCAACTATACTTAAGTTTTACCTTAGCTCGACGTGGCTTC
42588420 TAAAATAAAAA
326 TAAAATAAAAA
42588431 GGCCCTTTTCGTGCGTGCACATAAAAAAGAAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
1 GGCCCTTTTCGTGCGTGCACATAAAAAAGAAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
42588496 GACCTCCAGGGTGCCCAACACACTGCTAACCACTGGGACGGGTCTCCTCCTTTGATATAATAGCG
66 GACCTCCAGGGTGCCCAACACACTGCTAACCACTGGGACGGGTCTCCTCCTTTGATATAATAGCG
42588561 TCGTGTTTACCTTTAAACCTTACCTGCTGACGTCCTGAGTTCTTTTAAAAATAAAACAGAACATA
131 TCGTGTTTACCTTTAAACCTTACCTGCTGACGTCCTGAGTTCTTTTAAAAATAAAACAGAACATA
42588626 CATGCGCCTAGACTAGAACCCGAGCCACCCTAGTACTCCTAACGCACTACTGCCGCTGCGCCACA
196 CATGCGCCTAGACTAGAACCCGAGCCACCCTAGTACTCCTAACGCACTACTGCCGCTGCGCCACA
* *
42588691 AACCTTTTAGTGGCATAACTCGGTCGCAACTATACTTAAGTTTTACTTTAGCTCGACGTTGCTTC
261 AACCTTTTAGTGGCATAACTCGGTCGCAACTATACTTAAGTTTTACCTTAGCTCGACGTGGCTTC
42588756 TAAAATAAAAA
326 TAAAATAAAAA
42588767 G
1 G
42588768 CAACTTATGC
Statistics
Matches: 330, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
336 330 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (336 bp):
GGCCCTTTTCGTGCGTGCACATAAAAAAGAAGCACCCTCCTGCACGCAACGCTGCTCGAACACGG
GACCTCCAGGGTGCCCAACACACTGCTAACCACTGGGACGGGTCTCCTCCTTTGATATAATAGCG
TCGTGTTTACCTTTAAACCTTACCTGCTGACGTCCTGAGTTCTTTTAAAAATAAAACAGAACATA
CATGCGCCTAGACTAGAACCCGAGCCACCCTAGTACTCCTAACGCACTACTGCCGCTGCGCCACA
AACCTTTTAGTGGCATAACTCGGTCGCAACTATACTTAAGTTTTACCTTAGCTCGACGTGGCTTC
TAAAATAAAAA
Found at i:42590615 original size:13 final size:13
Alignment explanation
Indices: 42590593--42590625 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42590583 AAGGGTTTGT
42590593 TTAT-TAAACTAA
1 TTATCTAAACTAA
42590605 TTATCTAAACTAA
1 TTATCTAAACTAA
*
42590618 TTAACTAA
1 TTATCTAA
42590626 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:42592277 original size:40 final size:40
Alignment explanation
Indices: 42592205--42592385 Score: 145
Period size: 40 Copynumber: 4.5 Consensus size: 40
42592195 CATTCAAATC
* * *
42592205 CCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAAAG
* * *
42592245 CCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAAG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAAG
* * * * *
42592285 CTTTC-GGATCTTAGTCTGGATTTAGTAACTCGCACGTATG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAAAG
* ** * * *
42592325 CCGTC-GGATCTTATTCCAGATTTAGTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACGAAAG
42592365 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
42592386 ATCATTCGAA
Statistics
Matches: 110, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.88
41 10 0.09
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAAG
Found at i:42597891 original size:19 final size:19
Alignment explanation
Indices: 42597867--42597905 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
42597857 CTCGCTCGAC
*
42597867 AAGTACTACGAATTCTCGT
1 AAGTACTACGAACTCTCGT
42597886 AAGTACTACGAACTCTCGT
1 AAGTACTACGAACTCTCGT
42597905 A
1 A
42597906 TTTCAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (19 bp):
AAGTACTACGAACTCTCGT
Found at i:42600204 original size:40 final size:40
Alignment explanation
Indices: 42600159--42600342 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
42600149 TACACATTCA
* *
42600159 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
42600199 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
*
42600239 AA-GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
42600278 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
42600318 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
42600343 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 3 0.03
39 30 0.25
40 77 0.64
41 10 0.08
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:42602905 original size:29 final size:28
Alignment explanation
Indices: 42602873--42602975 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
42602863 GTGACGAGAT
* *
42602873 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
42602902 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
42602931 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
42602960 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42602976 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:42610699 original size:29 final size:28
Alignment explanation
Indices: 42610667--42610769 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
42610657 GTGACGAGAT
* *
42610667 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
42610696 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
42610725 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
42610754 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
42610770 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:42621693 original size:25 final size:25
Alignment explanation
Indices: 42621648--42621707 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
42621638 TTTATTTTGT
*
42621648 ATGAGCTTACCGATACTCAGCTCGC
1 ATGAGCTTACCGATACTCAGCTCGA
42621673 ATGAGCTTACC-ATTA-TCCAGCTCGA
1 ATGAGCTTACCGA-TACT-CAGCTCGA
*
42621698 AGGAGCTTAC
1 ATGAGCTTAC
42621708 TGGTTTCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (25 bp):
ATGAGCTTACCGATACTCAGCTCGA
Found at i:42621725 original size:24 final size:25
Alignment explanation
Indices: 42621684--42621756 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 25
42621674 TGAGCTTACC
* *
42621684 ATTATCCAGCTCGAAGGAGCTTACTG
1 ATTAT-CAGCTCGTAGGAGCATACTG
*
42621710 GTT-TCAGCTCGTAGGAGCATACTG
1 ATTATCAGCTCGTAGGAGCATACTG
* *
42621734 ATTATGAGCTCGTACGAGCATAC
1 ATTATCAGCTCGTAGGAGCATAC
42621757 ATGTACAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.50
25 18 0.45
26 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
ATTATCAGCTCGTAGGAGCATACTG
Found at i:42627737 original size:19 final size:18
Alignment explanation
Indices: 42627695--42627738 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
42627685 TATTTGAATT
42627695 TTTTATTTTTTATTTTTAG
1 TTTTA-TTTTTATTTTTAG
*
42627714 CTTTATTTTTATTTTTCAG
1 TTTTATTTTTATTTTT-AG
42627733 TTTTAT
1 TTTTAT
42627739 CTATGCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAG
Found at i:42627774 original size:5 final size:6
Alignment explanation
Indices: 42627746--42627776 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
42627736 TATCTATGCC
42627746 TTTAAT TTTAAT TTTAAT TTTAA- TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
42627777 GTTTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:42637284 original size:26 final size:26
Alignment explanation
Indices: 42637248--42637325 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
42637238 AAAGAATGAA
42637248 AAAAAATGATAGCTTTTATCATTTTT
1 AAAAAATGATAGCTTTTATCATTTTT
42637274 AAAAAATGATAGCTTTTATCATTTTT
1 AAAAAATGATAGCTTTTATCATTTTT
*
42637300 TAAAAATGATAGCTTTTATCATTTTT
1 AAAAAATGATAGCTTTTATCATTTTT
42637326 GTCTTATTAG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (26 bp):
AAAAAATGATAGCTTTTATCATTTTT
Found at i:42640989 original size:40 final size:40
Alignment explanation
Indices: 42640831--42640991 Score: 155
Period size: 40 Copynumber: 4.0 Consensus size: 40
42640821 GTGCGCATGA
* * *
42640831 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATCGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * *
42640871 GCTAGTAAT-TTATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
42640910 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
42640950 GCAAATCGTGATATCCGGGTTAAGTCCCGAAGGCCTTTGT
1 GCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
42640990 GC
1 GC
42640992 GGGCTACCAT
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 28 0.29
40 70 0.71
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:42644822 original size:23 final size:24
Alignment explanation
Indices: 42644792--42644842 Score: 86
Period size: 23 Copynumber: 2.1 Consensus size: 24
42644782 TTCAGAACGA
42644792 GATATGGTCACTAT-GTTCCTAGT
1 GATATGGTCACTATAGTTCCTAGT
42644815 GATATGGTCACTATGAGTTCCTAGT
1 GATATGGTCACTAT-AGTTCCTAGT
42644840 GAT
1 GAT
42644843 GCCGTTTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 14 0.54
25 12 0.46
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.37
Consensus pattern (24 bp):
GATATGGTCACTATAGTTCCTAGT
Found at i:42649117 original size:40 final size:40
Alignment explanation
Indices: 42649009--42649119 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
42648999 CTAGTAATTT
* * * *
42649009 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
* *
42649049 AATCCGGGCTCAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
* * *
42649089 TATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
42649120 GGGCTACCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
Found at i:42652484 original size:30 final size:30
Alignment explanation
Indices: 42652449--42652520 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
42652439 ACACACGATC
42652449 AGAGACACGACCGTGTGTCTCGACTGTGTG
1 AGAGACACGACCGTGTGTCTCGACTGTGTG
42652479 AGAGACACGACCGTGTGTCTCGACTGTGTG
1 AGAGACACGACCGTGTGTCTCGACTGTGTG
42652509 AGAGACACGACC
1 AGAGACACGACC
42652521 TCGAAACACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (30 bp):
AGAGACACGACCGTGTGTCTCGACTGTGTG
Found at i:42657258 original size:17 final size:17
Alignment explanation
Indices: 42657236--42657272 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
42657226 TATTACACCA
42657236 ATACATCCTATACTTAT
1 ATACATCCTATACTTAT
42657253 ATACATCCTATACTTAT
1 ATACATCCTATACTTAT
42657270 ATA
1 ATA
42657273 TATATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
ATACATCCTATACTTAT
Found at i:42658302 original size:43 final size:43
Alignment explanation
Indices: 42658243--42658502 Score: 360
Period size: 43 Copynumber: 6.0 Consensus size: 43
42658233 ATATCGTACA
** *
42658243 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* ** * *
42658286 ATGTC-ACTGTCCCAGACAAGGTCTTACACGTAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACATAATTACATATCG
* *
42658329 ATGCCAACATCCCAGACGTGGTCTTACACATAATTATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* *
42658372 ATCCCAACGTCCCAGACGTGGTCTTACATATAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* * *
42658415 ATGCCAACGTCCTAGACATGGTCTTACACATAATTACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
*
42658458 ATGCCAACGTCCTAGACGTGGTCTTACACATAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
42658501 AT
1 AT
42658503 ATCACATATA
Statistics
Matches: 193, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 2 0.01
43 189 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
Found at i:42658476 original size:129 final size:129
Alignment explanation
Indices: 42658246--42658502 Score: 399
Period size: 129 Copynumber: 2.0 Consensus size: 129
42658236 TCGTACAATG
* *
42658246 CCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGTCACTGTCCCAGACAAGGTCTT
1 CCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGATGCCACTGTCCCAGACAAGGTCTT
* * *
42658311 ACACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACATAATTATATATCGATC
66 ACACATAATCACATATCAATGCCAACATCCCAGACGTGGTCTTACACATAATTACATATCGATC
* * *
42658375 CCAACGTCCCAGACGTGGTCTTACATATAATTACATATCGATGCCAAC-GTCCTAGACATGGTCT
1 CCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGATGCC-ACTGTCCCAGACAAGGTCT
* * *
42658439 TACACATAATTACATATCAATGCCAACGTCCTAGACGTGGTCTTACACATAATTACATATCGAT
65 TACACATAATCACATATCAATGCCAACATCCCAGACGTGGTCTTACACATAATTACATATCGAT
42658503 ATCACATATA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 114 0.98
130 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (129 bp):
CCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGATGCCACTGTCCCAGACAAGGTCTT
ACACATAATCACATATCAATGCCAACATCCCAGACGTGGTCTTACACATAATTACATATCGATC
Found at i:42660030 original size:12 final size:12
Alignment explanation
Indices: 42660007--42660040 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42659997 GTAAAATTAA
42660007 AACACGATAAATT
1 AACAC-ATAAATT
42660020 AACACATAAATT
1 AACACATAAATT
*
42660032 CACACATAA
1 AACACATAA
42660041 TAAAACAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (12 bp):
AACACATAAATT
Found at i:42667666 original size:43 final size:43
Alignment explanation
Indices: 42667610--42667868 Score: 281
Period size: 43 Copynumber: 6.0 Consensus size: 43
42667600 ATATCGTACA
* ** *
42667610 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* * * * **
42667653 ATGCC-ACTATCCCAGACAG-GGTCATACACGTAATCACATATTA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATTACATATCG
* * *
42667696 ATGCCAACGTCCCAAACGTAGTCTTACACATAATTATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* * ** *
42667739 GTG-CAACGTCTCAGGTGTAGTCTTACACATAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
*
42667781 ATTCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
* **
42667824 ATGCCAACGTCCCAGACATGGTCTTACACGCAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
42667867 AT
1 AT
42667869 ATCACATATA
Statistics
Matches: 180, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
42 37 0.21
43 140 0.78
44 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATTACATATCG
Found at i:42667859 original size:128 final size:128
Alignment explanation
Indices: 42667630--42667866 Score: 298
Period size: 128 Copynumber: 1.9 Consensus size: 128
42667620 CCCAGACGTG
** * *
42667630 GTCTTACATGTAATCACATATCGATGCCACTATCCCAGACAGGGTCATACACGTAATCACATATT
1 GTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGTCATACACATAATCACATATC
* * *
42667695 AATGCCAACGTCCCAAACGTAGTCTTACACATAATTATATATCGGTGCAACGTCTCAGGTGTA
66 AATGCCAACGTCCCAAACATAGTCTTACACACAATTACATATCGGTGCAACGTCTCAGGTGTA
* * * * *
42667758 GTCTTACACATAATTACATATCGATTCCAAC-GTCCCAGAC-GTGGTCTTACACATAATTACATA
1 GTCTTACACATAATCACATATCGATGCC-ACTATCCCAGACAG-GGTCATACACATAATCACATA
* * * *
42667821 TCGATGCCAACGTCCCAGACATGGTCTTACACGCAATTACATATCG
64 TCAATGCCAACGTCCCAAACATAGTCTTACACACAATTACATATCG
42667867 ATATCACATA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
127 1 0.01
128 88 0.97
129 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (128 bp):
GTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGTCATACACATAATCACATATC
AATGCCAACGTCCCAAACATAGTCTTACACACAATTACATATCGGTGCAACGTCTCAGGTGTA
Found at i:42683711 original size:80 final size:80
Alignment explanation
Indices: 42683627--42683775 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
42683617 TATGGTAACC
* * * *
42683627 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
42683691 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
42683707 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
42683772 CCGG
66 CCGG
42683776 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:42683717 original size:40 final size:38
Alignment explanation
Indices: 42683668--42683775 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
42683658 ATCACGATTT
*
42683668 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
42683708 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
42683748 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
42683776 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:42688874 original size:25 final size:25
Alignment explanation
Indices: 42688841--42688890 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
42688831 TTCCTCTAGG
42688841 AATACATCTGGAAATTCACAGACTA
1 AATACATCTGGAAATTCACAGACTA
42688866 AATACATCTGGAAATTCACAGACTA
1 AATACATCTGGAAATTCACAGACTA
42688891 TCGGCACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (25 bp):
AATACATCTGGAAATTCACAGACTA
Found at i:42692183 original size:40 final size:40
Alignment explanation
Indices: 42692139--42692326 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
42692129 GCGAATTGTG
*
42692139 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
* * * * *
42692179 ATATCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAAT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACT
*
42692219 AAATCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * * *
42692258 AAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* **
42692298 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
42692327 AGCGAGTCGT
Statistics
Matches: 121, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.27
40 81 0.67
41 7 0.06
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:42692289 original size:79 final size:82
Alignment explanation
Indices: 42692141--42692326 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 82
42692131 GAATTGTGAT
* * *
42692141 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCAT
*
42692205 TCGTGCGAGTTAATA-A
66 TCGTGCGAGTCAATATA
* **
42692221 ATCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCA
*
42692283 TTCGTGCGAGTCACTATA
65 TTCGTGCGAGTCAATATA
**
42692301 A-CCGGGCTTCGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
42692327 AGCGAGTCGT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.61
80 35 0.38
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCAT
TCGTGCGAGTCAATATA
Found at i:42692357 original size:79 final size:79
Alignment explanation
Indices: 42692141--42692359 Score: 185
Period size: 79 Copynumber: 2.8 Consensus size: 79
42692131 GAATTGTGAT
* * * * ** *
42692141 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCA
*
42692204 TTCGTGCGAGTTAATAA
63 TTCGTGCGAGTCAATAA
* * * *
42692221 ATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTC
1 ATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTC
*
42692286 GTGCGAGTCACTATA
66 GTGCGAGTCAATA-A
** * ** * *
42692301 A-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
42692360 TACGTGATTC
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 45 0.39
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTC
GTGCGAGTCAATAA
Found at i:42701059 original size:40 final size:39
Alignment explanation
Indices: 42700894--42701077 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42700884 AAATTGAATG
* * *
42700894 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42700934 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42700974 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42701014 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42701053 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42701078 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42701102 original size:80 final size:81
Alignment explanation
Indices: 42700934--42701122 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42700924 GCTGGAAATT
* * * *
42700934 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42700999 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42701015 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42701078 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42701094 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42701123 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42703607 original size:79 final size:82
Alignment explanation
Indices: 42703467--42703651 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
42703457 TCGAATGATG
* * *
42703467 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
42703531 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
42703547 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
42703609 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
42703627 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42703652 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:42703659 original size:40 final size:40
Alignment explanation
Indices: 42703468--42703659 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
42703458 CGAATGATGT
* * * * *
42703468 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
42703508 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
42703548 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
42703587 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
42703627 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
42703660 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:42703682 original size:79 final size:79
Alignment explanation
Indices: 42703467--42703684 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
42703457 TCGAATGATG
* * * * ** *
42703467 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
42703530 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
42703547 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
42703612 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
42703627 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
42703685 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:42709185 original size:24 final size:24
Alignment explanation
Indices: 42709153--42709229 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
42709143 AAGTCTGTCA
*
42709153 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
42709177 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
42709201 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
42709225 GGAGA
1 GGAGA
42709230 ATAGTGTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:42710646 original size:27 final size:27
Alignment explanation
Indices: 42710605--42710716 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
42710595 TGGGAGCGTC
* *
42710605 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
42710632 CTAGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
*
42710659 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
42710686 CTGGTGACTCTGTCAC-ATCATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
42710712 CTGGT
1 CTGGT
42710717 AACCATGCTG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:42710697 original size:54 final size:53
Alignment explanation
Indices: 42710605--42710716 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 53
42710595 TGGGAGCGTC
* *
42710605 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACAT-CATCTGTT
* * * * *
42710659 CTGGTGGCTCTGCCACGATTATCTGTTCTGGTGACTCTGTCACATCATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATCATCTGTT
42710712 CTGGT
1 CTGGT
42710717 AACCATGCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 39 0.76
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATCATCTGTT
Found at i:42713038 original size:42 final size:42
Alignment explanation
Indices: 42712977--42713068 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
42712967 TGGCCCTTAG
* ** ** *
42712977 GCCCATTTCAATATCACATGTGATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATAACATGAAATACCAATGAATGTATGCAA
42713019 GCCCATTTCAATATAACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATAACATGAAATACCAATGAATGTATGCAA
*
42713061 GTCCATTT
1 GCCCATTT
42713069 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATAACATGAAATACCAATGAATGTATGCAA
Found at i:42713284 original size:26 final size:25
Alignment explanation
Indices: 42713213--42713309 Score: 158
Period size: 25 Copynumber: 3.8 Consensus size: 25
42713203 CCTCTTTAAT
42713213 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
**
42713238 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
42713263 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCA-AAGCCCTTTTCGGTA
42713289 AACTGGGGCACAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
42713310 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 33 0.50
26 33 0.50
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:42713284 original size:51 final size:51
Alignment explanation
Indices: 42713213--42713309 Score: 178
Period size: 51 Copynumber: 1.9 Consensus size: 51
42713203 CCTCTTTAAT
42713213 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCACAAGCCCTTTTCAATA
42713263 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCACAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCACAAGCCCTTTT
42713310 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 10 0.22
51 25 0.56
52 10 0.22
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCACAAGCCCTTTTCAATA
Found at i:42714131 original size:26 final size:27
Alignment explanation
Indices: 42714113--42714184 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
42714103 GGGCATATTC
* *
42714113 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCATACAGGGATATTACG
* *
42714140 GTCACTTTACCCTACAGGGGT-TTACG
1 GTCACTTTACCATACAGGGATATTACG
*
42714166 GTCACTTTACCTTACAGGG
1 GTCACTTTACCATACAGGG
42714185 GCTTTACGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 23 0.55
27 19 0.45
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGATATTACG
Found at i:42714185 original size:26 final size:26
Alignment explanation
Indices: 42714113--42714213 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
42714103 GGGCATATTC
* *
42714113 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCTTACAGGGGT-TTACG
*
42714140 GTCACTTTACCCTACAGGGGTTTACG
1 GTCACTTTACCTTACAGGGGTTTACG
42714166 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCTTACAGGGG-TTTACG
** * *
42714193 GTCTTTTTACCTAATAGGGGT
1 GTCACTTTACCTTACAGGGGT
42714214 ATTTTAGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 25 0.38
27 41 0.62
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTTACAGGGGTTTACG
Found at i:42714287 original size:27 final size:27
Alignment explanation
Indices: 42714257--42714477 Score: 158
Period size: 27 Copynumber: 8.1 Consensus size: 27
42714247 GTAAATCTAC
*
42714257 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
42714284 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * *
42714310 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCGGTAATTTTGT
* * * **
42714340 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
*** ***
42714367 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
42714394 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTGT
* * *
42714421 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
**
42714448 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
42714475 AAA
1 AAA
42714478 TTGAGGGTAA
Statistics
Matches: 159, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 130 0.82
28 7 0.04
29 18 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTGT
Found at i:42714406 original size:54 final size:54
Alignment explanation
Indices: 42714347--42714486 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 54
42714337 TGTAAATCAG
42714347 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-A
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * ***
42714400 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* **
42714455 GGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
42714487 AAACGGTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.03
54 69 0.93
55 3 0.04
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:42714458 original size:81 final size:80
Alignment explanation
Indices: 42714234--42714471 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 80
42714224 TTTCATCCTA
* * * * ** *
42714234 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
* *
42714299 CTA-TAATTTTTAGAAAG
65 C-AGTAA-TTTCACAAAG
* ** ***
42714316 TCAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 -CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA
*
42714379 TTTCGGTAATTTCACAAA-
62 TTTCAGTAATTTCACAAAG
*
42714397 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
*
42714462 TTAGTAATTT
64 TCAGTAATTT
42714472 TGTAAATTGA
Statistics
Matches: 122, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
79 2 0.02
80 10 0.08
81 50 0.41
82 7 0.06
83 47 0.39
84 4 0.03
85 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC
AGTAATTTCACAAAG
Found at i:42714495 original size:54 final size:54
Alignment explanation
Indices: 42714330--42714551 Score: 169
Period size: 54 Copynumber: 4.1 Consensus size: 54
42714320 GGGTATTTCT
* * * ***
42714330 GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
1 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTAAAACG
*** * ****
42714384 GTAATTTCACAAACC-AGTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTG
1 GTAATTTTGTAAACCAAG-GGTATTTTGGTAATTTTACAAATTGA-GGGTAAAACG
* **
42714438 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTAAAACG
* * * *** * ** *
42714492 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTAAAACG
42714546 GTAATT
1 GTAATT
42714552 CTATAAATCG
Statistics
Matches: 136, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 2 0.01
54 131 0.96
55 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (54 bp):
GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTAAAACG
Found at i:42714513 original size:81 final size:81
Alignment explanation
Indices: 42714428--42714607 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
42714418 TACAAACTAG
* *** * * * *
42714428 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACGG
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGG
*
42714493 TAATTCTGTAAATCGA
66 TAATTCTATAAATCGA
** * *** *
42714509 GGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGATAAAACGG
1 GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGG
42714574 TAATTCTATAAATCGA
66 TAATTCTATAAATCGA
*
42714590 GGGTACTTTGGTAATTTT
1 GGGTAATTTGGTAATTTT
42714608 ACAATTTGAG
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGATAAAACGG
TAATTCTATAAATCGA
Found at i:42714541 original size:27 final size:27
Alignment explanation
Indices: 42714465--42714594 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
42714455 GGGTATTTTA
* *
42714465 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
42714492 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42714519 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
42714546 GTAATTCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
42714573 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
42714595 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:42714602 original size:27 final size:27
Alignment explanation
Indices: 42714339--42714605 Score: 139
Period size: 27 Copynumber: 9.9 Consensus size: 27
42714329 TGTAACTTTG
* *
42714339 TAAATC-AGGGGTATTTTGGTAATTTTA
1 TAAATCGA-GGGTAATTTGGTAATTCTA
* *
42714366 CAAATTGAGGGT-ATTTCGGTAATT-TCA
1 TAAATCGAGGGTAATTT-GGTAATTCT-A
* * * *
42714393 CAAA-CCAGTGGTATTTTGGTAATTTTA
1 TAAATCGAG-GGTAATTTGGTAATTCTA
* * * * *
42714420 CAAA-CTAGGGGTATTTTGGTAATTTTG
1 TAAATCGA-GGGTAATTTGGTAATTCTA
* * * * * *
42714447 TAAACCAAGGGTATTTTAGTAATTTTG
1 TAAATCGAGGGTAATTTGGTAATTCTA
* *** *
42714474 TAAATTGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAATTTGGTAATTCTA
** *
42714501 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAATTTGGTAATTCTA
* **
42714528 TAAATTGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATTCTA
* ***
42714555 TAAATCGAGGATAAAACGGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATTCTA
*
42714582 TAAATCGAGGGTACTTTGGTAATT
1 TAAATCGAGGGTAATTTGGTAATT
42714606 TTACAATTTG
Statistics
Matches: 200, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.03
27 186 0.93
28 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (27 bp):
TAAATCGAGGGTAATTTGGTAATTCTA
Found at i:42732651 original size:51 final size:51
Alignment explanation
Indices: 42732555--42732655 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
42732545 CTTGGACTTC
* *
42732555 CTTACACGGGTAGACCACACGCCGGTGTCCTTTTAGCAGAATTGAGCACGA
1 CTTACACGGGTAGACCACACGCCAGTGTCCTTTTAACAGAATTGAGCACGA
* * **
42732606 CTTACATGGGTAGACCACACGCCATTGT-CTATTTAACAGCCTTGAGCACG
1 CTTACACGGGTAGACCACACGCCAGTGTCCT-TTTAACAGAATTGAGCACG
42732656 GATTGAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (51 bp):
CTTACACGGGTAGACCACACGCCAGTGTCCTTTTAACAGAATTGAGCACGA
Found at i:42735023 original size:44 final size:42
Alignment explanation
Indices: 42734953--42735052 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 42
42734943 CGATATGTGT
* *
42734953 TTTCGTGCAAGACCACGTCTGGGACGTTGGCATCA-ACTTATGA
1 TTTCGTGCAAGACCACATCTGAGACGTTGGCATCATA-TT-TGA
42734996 TTTACGTGCAAGACCACATCTGAGACGTTGGCATCATATTTGA
1 TTT-CGTGCAAGACCACATCTGAGACGTTGGCATCATATTTGA
*
42735039 TTTCGTGTAAGACC
1 TTTCGTGCAAGACC
42735053 CTGTCTAGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 10 0.19
43 9 0.17
44 32 0.62
45 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
TTTCGTGCAAGACCACATCTGAGACGTTGGCATCATATTTGA
Found at i:42735078 original size:43 final size:42
Alignment explanation
Indices: 42735023--42735114 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 42
42735013 ATCTGAGACG
* * *
42735023 TTGGCATCATATTTGATTTCGTGTAAGACC-CTGTCTAGGATA
1 TTGGCATCATATTTGATTACATATAAGACCAC-GTCTAGGATA
* *
42735065 TTGGCATCGATATTTGATTACATATAAGACCACGTCTGGGATG
1 TTGGCATC-ATATTTGATTACATATAAGACCACGTCTAGGATA
42735108 TTGGCAT
1 TTGGCAT
42735115 TGTACAAGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 8 0.19
43 34 0.79
44 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGGCATCATATTTGATTACATATAAGACCACGTCTAGGATA
Found at i:42756998 original size:28 final size:27
Alignment explanation
Indices: 42756940--42757004 Score: 121
Period size: 28 Copynumber: 2.4 Consensus size: 27
42756930 GAGTCTGCAT
42756940 ACTTAGTGCTATATAATCAACTCGCAC
1 ACTTAGTGCTATATAATCAACTCGCAC
42756967 ACTTAGTGCTATATAATCAAACTCGCAC
1 ACTTAGTGCTATATAATC-AACTCGCAC
42756995 ACTTAGTGCT
1 ACTTAGTGCT
42757005 GTACAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 18 0.49
28 19 0.51
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (27 bp):
ACTTAGTGCTATATAATCAACTCGCAC
Found at i:42759171 original size:64 final size:64
Alignment explanation
Indices: 42759090--42759273 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
42759080 AGACATTATG
* *
42759090 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
42759154 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATCTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
42759218 TAA
62 TAA
* * * *
42759221 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
42759274 CGAACTCTAT
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 23 0.24
65 4 0.04
66 18 0.19
67 32 0.33
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42760367 original size:2 final size:2
Alignment explanation
Indices: 42760355--42760396 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
42760345 CATGACATGC
*
42760355 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42760397 GACTAGTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42765879 original size:15 final size:15
Alignment explanation
Indices: 42765859--42765894 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
42765849 ATGGGCTGAA
42765859 AACGGGTTGTGGGCC
1 AACGGGTTGTGGGCC
42765874 AACGGGTTGTGGGCC
1 AACGGGTTGTGGGCC
42765889 AACGGG
1 AACGGG
42765895 CCCAATTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (15 bp):
AACGGGTTGTGGGCC
Found at i:42766393 original size:20 final size:20
Alignment explanation
Indices: 42766350--42766395 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
42766340 ACTATTTTGT
42766350 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATTAA
* * *
42766369 AATGGGCCCAACTGTGTTGA
1 TATGGGCCCAACTGTATTAA
42766389 TATGGGC
1 TATGGGC
42766396 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTAA
Found at i:42770120 original size:20 final size:20
Alignment explanation
Indices: 42770077--42770122 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
42770067 ACTATTTTGC
42770077 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATTAA
* * *
42770096 AATGGGCCCAACTGTGTTGA
1 TATGGGCCCAACTGTATTAA
42770116 TATGGGC
1 TATGGGC
42770123 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTAA
Found at i:42770224 original size:60 final size:60
Alignment explanation
Indices: 42770112--42770251 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
42770102 CCCAACTGTG
*
42770112 TTGATATGGGCAAGGCCCAATATATCTTGACTCGTAATAGGGCGACGACCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCTTGACTCGTAATAGGGCGACGACCCAGATTAATA
* * * *
42770172 TTGATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAATATATCT-TGACT-C-GTAATAGGGCGACGACCCAGATTAATA
42770232 TTGATATGGGCTGAGGCCCA
1 TTGATATGGGCT-AGGCCCA
42770252 GTTAACACTG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
59 3 0.04
60 57 0.80
61 11 0.15
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (60 bp):
TTGATATGGGCTAGGCCCAATATATCTTGACTCGTAATAGGGCGACGACCCAGATTAATA
Found at i:42776699 original size:30 final size:30
Alignment explanation
Indices: 42776663--42776720 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
42776653 TATGTCCTTC
*
42776663 ACATGG-CTGAGACATACAGCC-GTGTGTCAT
1 ACATGGCCT-AGACACAC-GCCTGTGTGTCAT
42776693 ACATGGCCTAGACACACGCCTGTGTGTC
1 ACATGGCCTAGACACACGCCTGTGTGTC
42776721 TACCCGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 20 0.80
31 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (30 bp):
ACATGGCCTAGACACACGCCTGTGTGTCAT
Found at i:42778560 original size:31 final size:31
Alignment explanation
Indices: 42778522--42778724 Score: 277
Period size: 31 Copynumber: 6.5 Consensus size: 31
42778512 TTTAACGGTT
42778522 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
42778553 ACTAGGCCGAAGCCTTATCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
* * *
42778584 ACTGGGCTG-AGTCCTTATCATAAATCATATC
1 ACTAGGCCGAAG-CCTTTTCATAAATCATATC
*
42778615 ACTGGGCCGAAG-CTTTATCATAAATCATATC
1 ACTAGGCCGAAGCCTTT-TCATAAATCATATC
* *
42778646 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
42778677 TCTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
*
42778708 A-TTGAGCCGAAGCCTTT
1 ACTAG-GCCGAAGCCTTT
42778725 ACTGTAAATG
Statistics
Matches: 156, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.04
31 144 0.92
32 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCATATC
Found at i:42778608 original size:62 final size:62
Alignment explanation
Indices: 42778526--42778723 Score: 308
Period size: 62 Copynumber: 3.2 Consensus size: 62
42778516 ACGGTTACTA
*
42778526 GGCCGAAGCCTTTTCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTG
* * *
42778588 GGCTG-AGTCCTTATCATAAATCATATCACTGGGCCGAAGCTTTATCATAAATCATATCACTG
1 GGCCGAAG-CCTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTG
* * *
42778650 GGCCGAAGCCTTATCATAAATCATATCTCTAGGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTG
*
42778712 AGCCGAAGCCTT
1 GGCCGAAGCCTT
42778724 TACTGTAAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
61 2 0.02
62 119 0.97
63 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (62 bp):
GGCCGAAGCCTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTG
Found at i:42778636 original size:93 final size:94
Alignment explanation
Indices: 42778526--42778725 Score: 307
Period size: 93 Copynumber: 2.1 Consensus size: 94
42778516 ACGGTTACTA
*
42778526 GGCCGAAGCCTTT-TCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTGGG
1 GGCCGAAGCCTTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTAGG
*
42778590 CTG-AGTCCTTATCATAAATCATATCACTG
66 CCGAAG-CCTTATCATAAATCATATCACTG
* *
42778619 GGCCGAAG-CTTTATCATAAATCATATCACTGGGCCGAAGCCTTATCATAAATCATATCTCTAGG
1 GGCCGAAGCCTTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTAGG
* *
42778683 CCGAAGCCTTTTCATAAATCATATCATTG
66 CCGAAGCCTTATCATAAATCATATCACTG
*
42778712 AGCCGAAGCCTTTA
1 GGCCGAAGCCTTTA
42778726 CTGTAAATGG
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 4 0.04
93 86 0.89
94 7 0.07
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (94 bp):
GGCCGAAGCCTTTATCATAAATCATATCACTAGGCCGAAGCCTTATCATAAATCATATCACTAGG
CCGAAGCCTTATCATAAATCATATCACTG
Found at i:42778956 original size:24 final size:24
Alignment explanation
Indices: 42778920--42779036 Score: 128
Period size: 25 Copynumber: 4.8 Consensus size: 24
42778910 TATCATATAT
* *
42778920 CTGGAGGCCTAGCCTCTTTTAAT-AA
1 CTGG-GGCATAGCC-CTTTTGATAAA
42778945 CTGGGGCATAGCCCTTTTGATAAA
1 CTGGGGCATAGCCCTTTTGATAAA
* * *
42778969 CTAGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCATAGCCCTTTT-GATAAA
* *
42778994 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCATAGCCCTTTT-GATAAA
42779019 CTGGGGCATAGCCCTTTT
1 CTGGGGCATAGCCCTTTT
42779037 AGCACTTCCT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 7 0.08
24 26 0.31
25 50 0.60
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
CTGGGGCATAGCCCTTTTGATAAA
Found at i:42779000 original size:25 final size:25
Alignment explanation
Indices: 42778943--42779036 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
42778933 CTCTTTTAAT
* *
42778943 AACTGGGGCATAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
42778967 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
42778992 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
42779017 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
42779037 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 18 0.28
25 46 0.72
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:42779907 original size:27 final size:27
Alignment explanation
Indices: 42779848--42779922 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
42779838 CATATTCATT
42779848 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACGGTC
* *
42779875 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGGG-TATTACGGTC
* *
42779902 TTTTTACC-TAATAGGGGTATT
1 ATTTTACCAT-ACAGGGGTATT
42779923 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.05
27 37 0.93
28 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTC
Found at i:42780146 original size:81 final size:80
Alignment explanation
Indices: 42779942--42780688 Score: 538
Period size: 81 Copynumber: 9.2 Consensus size: 80
42779932 TCACCCTACA
* * * * * ** ** *
42779942 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT-T
*
42780007 A-TAATTTTTAGAAAGCC
65 AGTAA-TTTTACAAA-CC
* ** ***
42780024 AAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTT
1 -AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* *
42780089 GGTAATTTCACAAACC
65 AGTAATTTTACAAACC
* * *
42780105 AGTGGTATTTTGGTAATTTTACAAATTAGGGGTATTATGGTAATTTTACAAACCAGGGGTATTTT
1 AG-GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
42780170 AGTAATTTTACAAACC
65 AGTAATTTTACAAACC
* ** ** *
42780186 AGGGTAATTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAGCCAAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
** *
42780250 AGTAATTTTGTAAATCA
65 AGTAATTTTACAAA-CC
***** * ** * *** * * * * * ****
42780267 AGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
* *
42780332 GTAATTCTGTA-AATCG
66 GTAATT-T-TACAAACC
***** * ** * ** *
42780348 AGGGTAAAACAGTAATTATGTAAATC-GAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* ** *
42780412 AATAATTTTACAGGTCG
65 AGTAATTTTACA-AACC
* * * *
42780429 AGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAAATTTACAAACTAAGGGTATTTT-
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
* *
42780493 GATAATTTCACAAACT
66 G-TAATTTTACAAACC
* *
42780509 AGGGGTATTTTGGTAGTTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 A-GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
42780573 TGGTAATTTTGTA-AAACA
64 TAGTAA-TTT-TACAAACC
* * *
42780591 AGGGTATTTTGGTAATTTTACAAACCATGGG-ATTTTGGTGATTTTACAAACCAAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
42780655 GTAATTTTACAAACC
66 GTAATTTTACAAACC
42780670 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
42780689 GGTAAACTAA
Statistics
Matches: 530, Mismatches: 114, Indels: 43
0.77 0.17 0.06
Matches are distributed among these distances:
78 2 0.00
79 11 0.02
80 121 0.23
81 322 0.61
82 22 0.04
83 52 0.10
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTACAAACC
Found at i:42780695 original size:27 final size:27
Alignment explanation
Indices: 42779940--42780688 Score: 489
Period size: 27 Copynumber: 27.7 Consensus size: 27
42779930 TTTCACCCTA
* * *
42779940 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
42779967 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
42779994 CAATGGTATTTCT-ATAATTTTTAGAAAGC
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* ** *
42780023 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
42780050 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
42780077 TGAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
42780104 C-AGTGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
42780131 TAGGGGTATTATGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
42780158 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
42780185 C-AGGGTAATTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
42780211 CGAGGGTATTTTGGTAATTTTGTAAGC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
42780238 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
***** * ** *
42780265 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
*** * * * *
42780292 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ***** * ** *
42780319 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ***** * ** *
42780346 CGAGGGTAAAACAGTAATTATGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
42780373 CGAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** ***
42780400 CGAGGGTATTTTAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
42780427 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
42780454 CAGGGGTATTTTGGTAAATTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
42780481 TAAGGGTATTTTGATAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
42780508 TAGGGGTATTTTGGTAGTTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
42780535 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
42780562 TAAGGGTATTTTGGTAATTTTGTAAAA
1 CAAGGGTATTTTGGTAATTTTACAAAC
42780589 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
42780616 CATGGG-ATTTTGGTGATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
42780642 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
42780669 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
42780689 GGTAAACTAA
Statistics
Matches: 602, Mismatches: 112, Indels: 16
0.82 0.15 0.02
Matches are distributed among these distances:
26 46 0.08
27 526 0.87
28 16 0.03
29 14 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:42782120 original size:9 final size:9
Alignment explanation
Indices: 42782106--42782130 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
42782096 ATGGTACATA
42782106 TTGCATAAT
1 TTGCATAAT
42782115 TTGCATAAT
1 TTGCATAAT
42782124 TTGCATA
1 TTGCATA
42782131 TGTGCTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATAAT
Found at i:42790879 original size:15 final size:15
Alignment explanation
Indices: 42790859--42790888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42790849 CAACACTTGT
42790859 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
42790874 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
42790889 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:42793702 original size:16 final size:17
Alignment explanation
Indices: 42793669--42793703 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
42793659 CAAGATTTGG
*
42793669 TGGAAAATCTAGAAAAA
1 TGGAAAATCTACAAAAA
42793686 TGGAAAAT-TACAAAAA
1 TGGAAAATCTACAAAAA
42793702 TG
1 TG
42793704 CCCCTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.20
Consensus pattern (17 bp):
TGGAAAATCTACAAAAA
Done.