Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 149 of 316
Found at i:47331307 original size:16 final size:16
Alignment explanation
Indices: 47331292--47331349 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
47331282 GATTATAACT
*
47331292 CTATTTCATTACAACT
1 CTATTTCATTACAACC
*
47331308 CTATTACATTACAACC
1 CTATTTCATTACAACC
47331324 CTATTTCATTACAACC
1 CTATTTCATTACAACC
*
47331340 CTATTCCATT
1 CTATTTCATT
47331350 CCACTGAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (16 bp):
CTATTTCATTACAACC
Found at i:47331328 original size:32 final size:32
Alignment explanation
Indices: 47331283--47331349 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
47331273 TGAATTACTG
* * *
47331283 ATTATAACTCTATTTCATTACAACTCTATTAC
1 ATTACAACCCTATTTCATTACAACCCTATTAC
*
47331315 ATTACAACCCTATTTCATTACAACCCTATTCC
1 ATTACAACCCTATTTCATTACAACCCTATTAC
47331347 ATT
1 ATT
47331350 CCACTGAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (32 bp):
ATTACAACCCTATTTCATTACAACCCTATTAC
Found at i:47334911 original size:27 final size:27
Alignment explanation
Indices: 47334880--47334974 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
47334870 TTAGTTTACC
* *
47334880 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
47334907 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCGATTTGTA
* *
47334934 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCGATTTGTA
* *
47334961 AAATCACTAAAATA
1 AAATTACTCAAATA
47334975 AGATAGAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.88
28 4 0.07
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCGATTTGTA
Found at i:47335019 original size:27 final size:27
Alignment explanation
Indices: 47334979--47335279 Score: 419
Period size: 27 Copynumber: 11.3 Consensus size: 27
47334969 AAAATAAGAT
47334979 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
47335006 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
47335033 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
47335060 AGAATTACCATTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
47335087 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
47335114 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
47335141 AGAATTACTATTTTACCCTTGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
47335168 AGAATTACC-GTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
47335194 AGAATTACCA-TTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
47335220 AGAATTACC-GTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
** *
47335246 AGAATTACTGTTTTATCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
47335273 AAAATTA
1 AGAATTA
47335280 TTGAAATACC
Statistics
Matches: 248, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 72 0.29
27 176 0.71
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:47335313 original size:27 final size:27
Alignment explanation
Indices: 47335283--47335425 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 27
47335273 AAAATTATTG
*
47335283 AAATACCCTTAGTTTACAAAATTACCA
1 AAATACCCTTAGTTTATAAAATTACCA
* **
47335310 AAATACCC-TCGATCAATAAAATTACCA
1 AAATACCCTTAG-TTTATAAAATTACCA
* * * *
47335337 AAATACCCCTGGTTTGTAAAATTACAA
1 AAATACCCTTAGTTTATAAAATTACCA
* * * *
47335364 AAATAACCTTGGTTTGTAAAATTACTA
1 AAATACCCTTAGTTTATAAAATTACCA
* *
47335391 AAATACCCTT-GACTTGTAAAATTACCA
1 AAATACCCTTAG-TTTATAAAATTACCA
47335418 AAATACCC
1 AAATACCC
47335426 CTGATTTGTG
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 93 0.95
28 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATACCCTTAGTTTATAAAATTACCA
Found at i:47335320 original size:54 final size:52
Alignment explanation
Indices: 47335262--47335450 Score: 148
Period size: 54 Copynumber: 3.5 Consensus size: 52
47335252 ACTGTTTTAT
* * *
47335262 CCTCGATTTACAAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATAC
1 CCTCGATTTATAAAATTACTAAAATACCCTTAGTTT--AAAATTACCAAAATAC
** * * * * *
47335316 CCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATAA
1 CCTCGATTTATAAAATTACTAAAATACCCTTAG-TT-TAAAATTACCAAAATAC
* * * *
47335370 CCTTGGTTTGTAAAATTACTAAAATACCCTTGACTTGTAAAATTACCAAAATAC
1 CCTCGATTTATAAAATTACTAAAATACCCTT-AGTT-TAAAATTACCAAAATAC
* *
47335424 CC-CTGATTTGTGAAATTA-TCAAAATAC
1 CCTC-GATTTATAAAATTACT-AAAATAC
47335451 TCTCGATTTG
Statistics
Matches: 106, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 102 0.96
55 2 0.02
56 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (52 bp):
CCTCGATTTATAAAATTACTAAAATACCCTTAGTTTAAAATTACCAAAATAC
Found at i:47335358 original size:81 final size:81
Alignment explanation
Indices: 47335273--47335449 Score: 212
Period size: 81 Copynumber: 2.2 Consensus size: 81
47335263 CTCGATTTAC
** *
47335273 AAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGA-TCAATAAAATTACCA
1 AAAATTATAAAAATAACCTTAGTTTACAAAATTACCAAAATACCCTCGACT-AATAAAATTACCA
*
47335337 AAATACCCCTGGTTTGT
65 AAATACCCCTGATTTGT
* * ** * * **
47335354 AAAATTACAAAAATAACCTTGGTTTGTAAAATTACTAAAATACCCTTGACTTGTAAAATTACCAA
1 AAAATTATAAAAATAACCTTAGTTTACAAAATTACCAAAATACCCTCGACTAATAAAATTACCAA
47335419 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
* *
47335435 GAAATTATCAAAATA
1 AAAATTATAAAAATA
47335450 CTCTCGATTT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
81 79 0.99
82 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTATAAAAATAACCTTAGTTTACAAAATTACCAAAATACCCTCGACTAATAAAATTACCAA
AATACCCCTGATTTGT
Found at i:47335434 original size:27 final size:27
Alignment explanation
Indices: 47335300--47335508 Score: 174
Period size: 27 Copynumber: 7.8 Consensus size: 27
47335290 CTTAGTTTAC
***
47335300 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
47335327 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * *
47335354 AAAATTACAAAAATAACCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
47335381 AAAATTACTAAAATACCCTTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
47335408 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
47335435 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * * **
47335462 ATAA-TATCGAAATACCCCTG-TAGGAT
1 AAAATTACCAAAATACCCCTGATTTG-T
* *
47335488 AGAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
47335509 TAGGGTAGAA
Statistics
Matches: 152, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 17 0.11
27 129 0.85
28 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:47335530 original size:134 final size:134
Alignment explanation
Indices: 47335383--47335684 Score: 362
Period size: 134 Copynumber: 2.3 Consensus size: 134
47335373 TGGTTTGTAA
** **
47335383 AATTACTAAAATACCCTTG-ACTTGTAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTATCA
1 AATTACTAAAATACCCTTGTA-GGGTAAAATTACCAAAATACCCCTGTA-GAGTAG-AATTATCA
* ** *
47335445 AAATACTCTCGAT-TTGTATAA-TATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCT
63 AAATAC-CCCGATAGGGTAGAATTATCGAAATA-CCCTGTAGGATAGAATTACCGAAATACCCCT
47335508 GTAGGGTAG
126 GTAGGGTAG
* * * * *
47335517 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGAGTAGAATTATCGAAA
1 AATTACTAAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTATCAAAA
* * *
47335582 TACCCCTATAGGGTAGAATTATCGCAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
66 TACCCCGATAGGGTAGAATTATCGAAATACCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
47335647 GTAG
131 GTAG
**
47335651 AATTACTAAAATACCCTTGTAGGGTGGAATTACC
1 AATTACTAAAATACCCTTGTAGGGTAAAATTACC
47335685 GAGATACCTT
Statistics
Matches: 144, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
133 4 0.03
134 128 0.89
135 12 0.08
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (134 bp):
AATTACTAAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGAGTAGAATTATCAAAA
TACCCCGATAGGGTAGAATTATCGAAATACCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
GTAG
Found at i:47335709 original size:26 final size:27
Alignment explanation
Indices: 47335469--47335710 Score: 335
Period size: 27 Copynumber: 9.0 Consensus size: 27
47335459 TGTATAATAT
*
47335469 CGAAATACCCCTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47335496 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
47335523 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47335550 CGAAATACCCCTGTAGAGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47335577 CGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
47335604 CGCAATA-CCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47335630 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * *
47335657 TAAAATACCCTTGTAGGGTGGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
47335684 CGAGATA-CCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47335710 C
1 C
47335711 ATTTTGCCCC
Statistics
Matches: 193, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
26 40 0.21
27 153 0.79
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:47335721 original size:80 final size:79
Alignment explanation
Indices: 47335469--47335710 Score: 324
Period size: 80 Copynumber: 3.0 Consensus size: 79
47335459 TGTATAATAT
* * *
47335469 CGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCG-AATA-CCC
47335534 TGTAGGGTAGAATTAC
64 TGTAGGGTAGAATTAC
* * *
47335550 CGAAATACCCCTGTAGAGTAGAATTA-TCGAAATACCCCTATAGGGTAGAATTATCGCAATACCC
1 CGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTACCG-AATACCC
47335614 TGTAGGGTAGAATTAC
64 TGTAGGGTAGAATTAC
* * * *
47335630 CGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGTAGGGTGGAATTACCGAGATACCTT
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGA-ATACCCT
* *
47335695 GTGGGGTAAAATTAC
65 GTAGGGTAGAATTAC
47335710 C
1 C
47335711 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 87 0.61
81 54 0.38
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (79 bp):
CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAATACCCTG
TAGGGTAGAATTAC
Found at i:47336189 original size:22 final size:21
Alignment explanation
Indices: 47336140--47336201 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
47336130 AAGCCTTCTA
* *
47336140 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
47336161 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
47336183 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
47336202 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:47336461 original size:27 final size:26
Alignment explanation
Indices: 47336360--47336461 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
47336350 ATTCTGTTAA
* * *
47336360 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
*
47336387 GTGGCTATGCCACTAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
47336414 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
*
47336441 GTGACTCTGCCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
47336462 ATAACTGAGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 9 0.13
27 53 0.78
28 6 0.09
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:47336646 original size:31 final size:31
Alignment explanation
Indices: 47336606--47336678 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
47336596 ACATTCTGAT
47336606 ATTTT-ATTCTGTTACCTGATACTGATTATG
1 ATTTTGATTCTGTTACCTGATACTGATTATG
*
47336636 ATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTTTGATTCTGTTACCTGATACTGATTATG
*
47336667 ATTCTGATTCTG
1 ATTTTGATTCTG
47336679 ATTCTCATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTTTGATTCTGTTACCTGATACTGATTATG
Found at i:47336661 original size:6 final size:6
Alignment explanation
Indices: 47336621--47336698 Score: 70
Period size: 6 Copynumber: 12.8 Consensus size: 6
47336611 ATTCTGTTAC
* * * *
47336621 CTGATA CTGATT ATGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
*
47336670 CTGATT CTGATT CTCATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
47336699 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.05
6 52 0.87
7 4 0.07
8 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:47337550 original size:3 final size:3
Alignment explanation
Indices: 47337542--47337569 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
47337532 TTAAAGGTAT
47337542 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47337570 AGTCCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:47343966 original size:16 final size:16
Alignment explanation
Indices: 47343945--47343979 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47343935 TTTCAATTTC
*
47343945 TTTGTTATTTAACTTG
1 TTTGTTATTTAACTGG
*
47343961 TTTGTTGTTTAACTGG
1 TTTGTTATTTAACTGG
47343977 TTT
1 TTT
47343980 ATCCCTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.17, T:0.63
Consensus pattern (16 bp):
TTTGTTATTTAACTGG
Found at i:47347101 original size:26 final size:26
Alignment explanation
Indices: 47347071--47347152 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
47347061 TGAAATGCCC
47347071 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
47347097 ATCATGGAATATTTACCTAATCCGTT
1 ATCATGGAACATTTACCTAACCCATT
47347123 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
47347149 ATCA
1 ATCA
47347153 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:47353293 original size:37 final size:37
Alignment explanation
Indices: 47353270--47353413 Score: 162
Period size: 37 Copynumber: 3.9 Consensus size: 37
47353260 ATAGATTTTT
47353270 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
* * * *
47353307 CTCGTTTGAGCTTCATTCAATATAACAGTGGAATTTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
* * * * ** *
47353344 TTCGTTTGAGCTTCATTTAGTATAAAAAAAGAATTTG
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
** *
47353381 CTCCCTTAAGCTTCATTCAGTATAACAGTAGAA
1 CTCATTTGAGCTTCATTCAGTATAACAGTAGAA
47353414 CTTGTTATTG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (37 bp):
CTCATTTGAGCTTCATTCAGTATAACAGTAGAAATTG
Found at i:47353358 original size:74 final size:74
Alignment explanation
Indices: 47353274--47353419 Score: 193
Period size: 74 Copynumber: 2.0 Consensus size: 74
47353264 ATTTTTCTCA
* ** ** * *
47353274 TTTGAGCTTCATTCAGTATAACAGTAGAAATTGCTCGTTTGAGCTTCATTCAATATAACAGTGGA
1 TTTGAGCTTCATTCAGTATAAAAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
*
47353339 ATTTGTTCG
66 ACTTGTTCG
* * *
47353348 TTTGAGCTTCATTTAGTATAAAAAAAGAATTTGCTCCCTTAAGCTTCATTCAGTATAACAGTAGA
1 TTTGAGCTTCATTCAGTATAAAAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
47353413 ACTTGTT
66 ACTTGTT
47353420 ATTGGCTCGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (74 bp):
TTTGAGCTTCATTCAGTATAAAAAAAGAAATTGCTCCCTTAAGCTTCATTCAATATAACAGTAGA
ACTTGTTCG
Found at i:47357630 original size:41 final size:40
Alignment explanation
Indices: 47357478--47357647 Score: 143
Period size: 41 Copynumber: 4.2 Consensus size: 40
47357468 GCTAATCGGG
*
47357478 GTCTGAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * * *
47357519 G-CTAATAACTGAACTTAGTTTCAAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
47357562 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
47357602 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
47357643 G-CTAA
1 GTCTAA
47357648 GAGTCGGACT
Statistics
Matches: 103, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.14
41 48 0.47
42 21 0.20
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:47359324 original size:48 final size:48
Alignment explanation
Indices: 47359272--47359377 Score: 212
Period size: 48 Copynumber: 2.2 Consensus size: 48
47359262 TATGAGAGCC
47359272 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
1 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
47359320 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
1 AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
47359368 AGTGTAAGAC
1 AGTGTAAGAC
47359378 ATGTCTAGCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTGCT
Found at i:47359421 original size:46 final size:44
Alignment explanation
Indices: 47359363--47359467 Score: 140
Period size: 46 Copynumber: 2.3 Consensus size: 44
47359353 ATTGAGACGA
*
47359363 GTGCTAGTGTAAGACATGTCTAGCACATGCATCGGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTAGCACATGCATCGG-CTACGAGAT
* *
47359407 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAT
1 GT--GCCAGTGTAAGACATGTCTAGCACATGCATCGGCTACGAGAT
*
47359453 GTGTCAGTGTAAGAC
1 GTGCCAGTGTAAGAC
47359468 CATTTCTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
44 14 0.26
45 2 0.04
46 38 0.70
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTAGCACATGCATCGGCTACGAGAT
Found at i:47359487 original size:46 final size:47
Alignment explanation
Indices: 47359271--47359488 Score: 198
Period size: 48 Copynumber: 4.7 Consensus size: 47
47359261 TTATGAGAGC
* *
47359271 CAGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTG
1 CAGTGTAAGACCATCTCTGGGATATGGCATCGGCATCGAGACGAGTG
* *
47359318 CTAGTGTAAGACCATCTCTGGGATATGGCATCAGCATTGAGACGAGTG
1 C-AGTGTAAGACCATCTCTGGGATATGGCATCGGCATCGAGACGAGTG
* * * * * * *
47359366 CTAGTGTAAGA-CATGTCTAGCACAT-GCATCGGCCTCGAGATGTAAG-C
1 C-AGTGTAAGACCATCTCTGGGATATGGCATCGGCATCGAGACG--AGTG
* * * *
47359413 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGTGT-
1 CAGTGTAAGACCATCTCTGGGATATGGCATCGGCAT-CGAGACGAGTG
*
47359457 CAGTGTAAGACCATTTCTGGGATATGGCATCG
1 CAGTGTAAGACCATCTCTGGGATATGGCATCG
47359489 ACACAAATAT
Statistics
Matches: 150, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
44 11 0.07
45 13 0.09
46 55 0.37
47 12 0.08
48 59 0.39
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATCTCTGGGATATGGCATCGGCATCGAGACGAGTG
Found at i:47366251 original size:43 final size:43
Alignment explanation
Indices: 47366203--47366370 Score: 259
Period size: 43 Copynumber: 3.9 Consensus size: 43
47366193 GCTGGTATTA
47366203 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
47366246 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
47366289 TATTC-AGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGA-GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
47366332 TATTCTG-GCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTC-GAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
47366371 AATGATATGT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:47366754 original size:45 final size:42
Alignment explanation
Indices: 47366687--47366794 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
47366677 TTGACTTGAT
* * *
47366687 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
**
47366732 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
47366774 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
47366795 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:47368401 original size:43 final size:43
Alignment explanation
Indices: 47368347--47368432 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
47368337 TGTTCAGAGA
*
47368347 TAGAGTTTGTGTACCCAAGAACAATGAACTTATTCAAGAGATT
1 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
47368390 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
1 TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
47368433 CTGCGAGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (43 bp):
TAGAGTTTGTGTACCCAAGAACAATAAACTTATTCAAGAGATT
Found at i:47376127 original size:17 final size:16
Alignment explanation
Indices: 47376082--47376146 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
47376072 TATATATAAC
** *
47376082 ATATTTAATGTAACTA
1 ATATTTAAAATAAATA
47376098 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
47376114 ATATTTAGAAATAAA-A
1 ATATTTA-AAATAAATA
*
47376130 A-ATTAAAAATAATATA
1 ATATTTAAAATAA-ATA
47376146 A
1 A
47376147 AATTAAGTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.14
15 5 0.12
16 24 0.57
17 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:47376809 original size:29 final size:27
Alignment explanation
Indices: 47376741--47376809 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
47376731 TAGAGTTTCA
*
47376741 CATGTATAATTGCACAAAATTAAGGTT
1 CATGTATAATTGCACAAAATCAAGGTT
* *
47376768 CATGTATACAATTGCATATTAAATCAATGTT
1 CATGTAT--AATTGCACA--AAATCAAGGTT
47376799 CATGTATAATT
1 CATGTATAATT
47376810 CTGAGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 7 0.20
29 12 0.34
31 16 0.46
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
CATGTATAATTGCACAAAATCAAGGTT
Found at i:47378151 original size:14 final size:13
Alignment explanation
Indices: 47378133--47378161 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47378123 TAAAAATTTT
47378133 AATAT-TAAAATA
1 AATATATAAAATA
47378145 AATATATAAAATA
1 AATATATAAAATA
47378158 AATA
1 AATA
47378162 ATTTGTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATATATAAAATA
Found at i:47378261 original size:16 final size:16
Alignment explanation
Indices: 47378240--47378270 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47378230 TTTTGTATTA
*
47378240 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
47378256 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
47378271 ACGTTAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:47379918 original size:3 final size:3
Alignment explanation
Indices: 47379910--47379939 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
47379900 AATTGTTTCT
47379910 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
47379940 CATTGAGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:47392055 original size:18 final size:16
Alignment explanation
Indices: 47392032--47392069 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
47392022 ATCATTATTT
47392032 AAATAAAATAAAGTAGTA
1 AAATAAAATAAA--AGTA
47392050 AAATAAAATAAAAGTA
1 AAATAAAATAAAAGTA
47392066 AAAT
1 AAAT
47392070 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
18 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (16 bp):
AAATAAAATAAAAGTA
Found at i:47392230 original size:41 final size:41
Alignment explanation
Indices: 47392180--47392260 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
47392170 CTTACTACAC
47392180 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
1 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
47392221 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATA
1 CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATA
47392261 GTTTACCCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (41 bp):
CCTATTAGAATATGATTTTACAAGCCTATAAATAGACATAA
Found at i:47394244 original size:18 final size:19
Alignment explanation
Indices: 47394221--47394260 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
47394211 GATTGCTTGT
47394221 TTAAATGAATT-GTTTTA-A
1 TTAAATG-ATTAGTTTTAGA
47394239 TTAAATGATTAGTTTTAGA
1 TTAAATGATTAGTTTTAGA
47394258 TTA
1 TTA
47394261 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 13 0.65
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
TTAAATGATTAGTTTTAGA
Found at i:47394908 original size:14 final size:14
Alignment explanation
Indices: 47394889--47394919 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
47394879 ACATTTACTG
47394889 ACCTAATTAGAATA
1 ACCTAATTAGAATA
47394903 ACCTAATTAGAATA
1 ACCTAATTAGAATA
47394917 ACC
1 ACC
47394920 AAATGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (14 bp):
ACCTAATTAGAATA
Found at i:47396617 original size:46 final size:44
Alignment explanation
Indices: 47396472--47396688 Score: 170
Period size: 46 Copynumber: 4.7 Consensus size: 44
47396462 TGTGTGAGCT
* * *
47396472 AGTGTAAGACATGTCTGGTACATGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCA-AAT--GTGCC
* * * * * * * *
47396518 AGTATAAGACCATATCTGGGACATGGTATC-GACATTGAGACGAGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TCAAATGTGC-C
*
47396565 TAGTGTAAGACATGTCTGAGACATGCATCGGCC-TCAAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAA-ATGT--GCC
* *
47396612 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAAATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAAATGTGCC
47396656 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
47396689 ACCTTACCCC
Statistics
Matches: 138, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 61 0.44
47 34 0.25
48 15 0.11
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATCAAATGTGCC
Found at i:47400034 original size:47 final size:49
Alignment explanation
Indices: 47399942--47400035 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 49
47399932 ATCCATGATA
* * * *
47399942 AATGGATGTCCATAACCCCCTCAAATTTATCCTATTGTAATCCCTAAAG
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
*
47399991 AATGAATGTCCATAA-CCCCT-AAATTCATTATATTGTAACCCCTAA
1 AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAA
47400036 GTCATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 21 0.52
48 5 0.12
49 14 0.35
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (49 bp):
AATGAATGTCCATAACCCCCTCAAATTCATCATATTGTAACCCCTAAAG
Found at i:47405035 original size:3 final size:3
Alignment explanation
Indices: 47405027--47405065 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
47405017 ACCTTTCATG
47405027 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47405066 AGAAAACCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47419025 original size:12 final size:11
Alignment explanation
Indices: 47418969--47419038 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 11
47418959 ATTTAAAAGT
*
47418969 TTTTAATTAT-
1 TTTTAAATATA
*
47418979 TTTTAAA-AAA
1 TTTTAAATATA
*
47418989 TTTAAAATATA
1 TTTTAAATATA
47419000 TATTT-AA-ATA
1 T-TTTAAATATA
47419010 -TTTAAATATA
1 TTTTAAATATA
47419020 CTTTTAAAATATA
1 -TTTT-AAATATA
47419033 TTTTAA
1 TTTTAA
47419039 TGTTGTTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 18 0.38
11 7 0.15
12 9 0.19
13 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:47419025 original size:20 final size:21
Alignment explanation
Indices: 47418988--47419027 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
47418978 TTTTTAAAAA
47418988 ATTTAAAATATATATTTAAAT
1 ATTTAAAATATATATTTAAAT
47419009 ATTT-AAATATACT-TTTAAA
1 ATTTAAAATATA-TATTTAAA
47419028 ATATATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAAATATATATTTAAAT
Found at i:47419029 original size:21 final size:21
Alignment explanation
Indices: 47418979--47419031 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
47418969 TTTTAATTAT
*
47418979 TTTTAAAAAATTTAAAATATA
1 TTTTAAAATATTTAAAATATA
47419000 TATTT-AAATATTT-AAATATA
1 T-TTTAAAATATTTAAAATATA
47419020 CTTTTAAAATAT
1 -TTTTAAAATAT
47419032 ATTTTAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
21 15 0.54
22 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAAATATTTAAAATATA
Found at i:47420716 original size:16 final size:16
Alignment explanation
Indices: 47420670--47420716 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47420660 AATTAAATAC
47420670 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
47420687 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
47420703 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
47420717 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:47421449 original size:17 final size:18
Alignment explanation
Indices: 47421429--47421462 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47421419 AAGTGAATTG
47421429 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
47421446 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
47421463 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:47422223 original size:16 final size:16
Alignment explanation
Indices: 47422177--47422223 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47422167 AATTAAATAC
47422177 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
47422194 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
47422210 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
47422224 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:47423729 original size:16 final size:16
Alignment explanation
Indices: 47423683--47423729 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47423673 AATTAAATAC
47423683 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
47423700 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
47423716 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
47423730 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:47425454 original size:20 final size:20
Alignment explanation
Indices: 47425425--47425462 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47425415 GTAATAAATC
*
47425425 ATTAAGATAAAATAATAATA
1 ATTAAAATAAAATAATAATA
47425445 ATTAAAATAAAATAATAA
1 ATTAAAATAAAATAATAA
47425463 GGAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATTAAAATAAAATAATAATA
Found at i:47425478 original size:33 final size:33
Alignment explanation
Indices: 47425400--47425487 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
47425390 TATCCAAAAT
* *
47425400 AAAAT-AAATAATTAAGTAAT-AAATCATTAAGAT
1 AAAATAAAATAATTAA--AATAAAATCAATAAGAA
47425433 AAAATAATAATAATTAAAATAAAAT-AATAAGGAA
1 AAAATAA-AATAATTAAAATAAAATCAATAA-GAA
*
47425467 AAAATAAAATAA-AAAAATAAA
1 AAAATAAAATAATTAAAATAAA
47425488 GAGAAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.17
33 17 0.35
34 14 0.29
35 9 0.19
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (33 bp):
AAAATAAAATAATTAAAATAAAATCAATAAGAA
Found at i:47425500 original size:24 final size:24
Alignment explanation
Indices: 47425447--47425498 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
47425437 TAATAATAAT
* *
47425447 TAAAATAAAATAATAAGGAAAAAA
1 TAAAATAAAAAAATAAAGAAAAAA
*
47425471 TAAAATAAAAAAATAAAG-AGAAA
1 TAAAATAAAAAAATAAAGAAAAAA
47425494 TAAAA
1 TAAAA
47425499 ATTGGGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (24 bp):
TAAAATAAAAAAATAAAGAAAAAA
Found at i:47429233 original size:16 final size:16
Alignment explanation
Indices: 47429187--47429233 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47429177 AATTAAATAC
47429187 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
47429204 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
47429220 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
47429234 TCCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:47430978 original size:15 final size:15
Alignment explanation
Indices: 47430958--47431003 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
47430948 TCCAAAATAA
47430958 AATAAATAATTAAGT
1 AATAAATAATTAAGT
*
47430973 AATAAATCATTAAG-
1 AATAAATAATTAAGT
47430987 -ATAAAATAA-TAAGT
1 AAT-AAATAATTAAGT
47431001 AAT
1 AAT
47431004 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 15 0.58
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAAATAATTAAGT
Found at i:47430998 original size:21 final size:21
Alignment explanation
Indices: 47430972--47431020 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
47430962 AATAATTAAG
* *
47430972 TAATAAATCATTAAGATAAAA
1 TAATAAATAATTAAAATAAAA
*
47430993 TAATAAGTAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
47431014 TAATAAA
1 TAATAAA
47431021 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Found at i:47431039 original size:27 final size:26
Alignment explanation
Indices: 47431005--47431060 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 26
47430995 ATAAGTAATT
*
47431005 AAAAT-AAAATAATAAAGGAGAAAATAA
1 AAAATAAAAAAAATAAA-GAG-AAATAA
47431032 AAAATAAAAAAAATAAAGAGAAATAA
1 AAAATAAAAAAAATAAAGAGAAATAA
47431058 AAA
1 AAA
47431061 TTGGGTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 8 0.30
28 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (26 bp):
AAAATAAAAAAAATAAAGAGAAATAA
Found at i:47434007 original size:17 final size:18
Alignment explanation
Indices: 47433987--47434020 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47433977 AAGTGAATTG
47433987 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
47434004 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
47434021 ATGAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:47434783 original size:16 final size:16
Alignment explanation
Indices: 47434737--47434783 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
47434727 AATTAAATAC
47434737 TAAATGATAAATACAAA
1 TAAATGATAAATA-AAA
*
47434754 TAAA-GATAATTAAAGA
1 TAAATGATAAATAAA-A
47434770 TAAATGA-AAATAAA
1 TAAATGATAAATAAA
47434784 TTCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 18 0.69
17 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (16 bp):
TAAATGATAAATAAAA
Found at i:47439813 original size:61 final size:60
Alignment explanation
Indices: 47439730--47439901 Score: 199
Period size: 61 Copynumber: 2.8 Consensus size: 60
47439720 TATTATTAAA
* *
47439730 TTTTAACAAAGATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCATA-
1 TTTTAACATA-ATTATTATTAAATATAATTTAATAAAAAT--AAATAAATAATTTAATAATAT
* * *
47439792 TTTTCACATAATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAATAT
1 TTTTAACATAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATAT
* *
47439850 TTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATATAATATATAAT
1 TTTTAACATAATTATTATT-AAATAT-AATTTAATAAAAATA-AATAAATAAT
47439902 ATTAGAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
57 17 0.18
58 17 0.18
59 10 0.10
60 12 0.12
61 22 0.23
62 18 0.19
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (60 bp):
TTTTAACATAATTATTATTAAATATAATTTAATAAAAATAAATAAATAATTTAATAATAT
Found at i:47439828 original size:55 final size:57
Alignment explanation
Indices: 47439767--47439895 Score: 156
Period size: 58 Copynumber: 2.2 Consensus size: 57
47439757 ATTTAATAAA
* *
47439767 AATAAAAATAAATAATTTAATCATA-TTTTCACATAATTATTATT-AAATA-CAATTT
1 AATAAAAATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAA-TT
* * *
47439822 AATAAAATAATATATAATTTAATAATATTTTTAATATAATTATTATTAAAATATGAATT
1 AAT-AAA-AATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAATT
47439881 AATAAAAATATAATA
1 AATAAAAATA-AATA
47439896 TATAATATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
55 3 0.05
56 3 0.05
57 21 0.34
58 23 0.37
59 10 0.16
60 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (57 bp):
AATAAAAATAAATAATTTAATAATATTTTTAACATAATTATTATTAAAATATCAATT
Found at i:47441689 original size:17 final size:17
Alignment explanation
Indices: 47441663--47441706 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
47441653 CTCCGCTTCA
*
47441663 ATAGGATCAAGACTCAT
1 ATAGGTTCAAGACTCAT
47441680 ATAGGTTCAAGACTCAT
1 ATAGGTTCAAGACTCAT
47441697 ATAGGTTCAA
1 ATAGGTTCAA
47441707 ATAAAGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (17 bp):
ATAGGTTCAAGACTCAT
Found at i:47443715 original size:19 final size:19
Alignment explanation
Indices: 47443693--47443738 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47443683 TAGAATATAG
*
47443693 AATAAAATAAATTTTAAAT
1 AATAAAATAAAATTTAAAT
* *
47443712 AATAGAACAAAATTTAAAT
1 AATAAAATAAAATTTAAAT
*
47443731 AATGAAAT
1 AATAAAAT
47443739 TGACAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AATAAAATAAAATTTAAAT
Found at i:47445348 original size:16 final size:16
Alignment explanation
Indices: 47445313--47445347 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47445303 ATTTTATTTG
47445313 AAAATAGCTTACCTTC
1 AAAATAGCTTACCTTC
47445329 AAAATAGCTTACC-TC
1 AAAATAGCTTACCTTC
47445344 AAAA
1 AAAA
47445348 ACCTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATAGCTTACCTTC
Found at i:47450921 original size:15 final size:16
Alignment explanation
Indices: 47450881--47450922 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
47450871 ATTTATTAAA
47450881 TTATTATTTTTAATCAAT
1 TTATTA-TTTTAA-CAAT
47450899 TT-TTATTTTAA-AAT
1 TTATTATTTTAACAAT
47450913 TTATTATTTT
1 TTATTATTTT
47450923 TCATTATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 7 0.30
16 6 0.26
17 3 0.13
18 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTATTTTAACAAT
Found at i:47452247 original size:24 final size:23
Alignment explanation
Indices: 47452220--47452274 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
47452210 AGTACTACAG
47452220 AATTTAATTAAAATTAATATAAAT
1 AATTTAATTAAAATTAATA-AAAT
* * *
47452244 AATTTATAATAAATTTAGTAAAAT
1 AATTTA-ATTAAAATTAATAAAAT
47452268 -ATTTAAT
1 AATTTAAT
47452275 AGATCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 10 0.38
25 10 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTAATTAAAATTAATAAAAT
Found at i:47454793 original size:7 final size:7
Alignment explanation
Indices: 47454781--47454807 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47454771 ATGATGTTAA
47454781 AAATAAC
1 AAATAAC
47454788 AAATAAC
1 AAATAAC
47454795 AAATAAC
1 AAATAAC
47454802 AAATAA
1 AAATAA
47454808 TGAAGCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAC
Found at i:47455158 original size:20 final size:20
Alignment explanation
Indices: 47455133--47455179 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
47455123 ATAAAATAAA
* *
47455133 TAAAATGTGTACAATAAA-AT
1 TAAAATGTATA-AAAAAATAT
47455153 TAAAATGTATAAAAAAATAT
1 TAAAATGTATAAAAAAATAT
47455173 TAAAATG
1 TAAAATG
47455180 AAGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (20 bp):
TAAAATGTATAAAAAAATAT
Found at i:47455169 original size:18 final size:18
Alignment explanation
Indices: 47455123--47455170 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
47455113 TATAGAATTG
47455123 ATAAAATAAA-TAAAATGT
1 ATAAAA-AAATTAAAATGT
*
47455141 GTACAATAAAATTAAAATGT
1 ATA-AA-AAAATTAAAATGT
47455161 ATAAAAAAAT
1 ATAAAAAAAT
47455171 ATTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 11 0.44
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
ATAAAAAAATTAAAATGT
Found at i:47459898 original size:46 final size:47
Alignment explanation
Indices: 47459846--47459939 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
47459836 ACTATCATAT
47459846 CAGATATATGTGGTCAAGCCACTA-TATTACAGCCAAGCTGCCAGAA
1 CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
* * * * * *
47459892 CAGATATGTGTGGTCGAGCCACTATTATTGCAGTCGAGTTGCCAGAA
1 CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
47459939 C
1 C
47459940 TAAAATATGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 22 0.54
47 19 0.46
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (47 bp):
CAGATATATGTGGTCAAGCCACTATTATTACAGCCAAGCTGCCAGAA
Found at i:47462339 original size:16 final size:17
Alignment explanation
Indices: 47462308--47462340 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47462298 TTCATAAGTA
47462308 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
47462325 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
47462341 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:47462688 original size:46 final size:46
Alignment explanation
Indices: 47462626--47463081 Score: 639
Period size: 46 Copynumber: 10.0 Consensus size: 46
47462616 TTTGACATGA
* * * * * *
47462626 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * * *
47462672 TGCCATGGTATTTTTCAACCATGGTCCTACACATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
47462718 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* ** *** *
47462764 TGCCATGGTATCTTTCAACCATCGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
47462810 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47462856 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47462902 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47462948 TGCCATGGTATCTTTCAACCATGGTCTT--ACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47462992 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47463038 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
47463082 AGAGCACCCT
Statistics
Matches: 381, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
44 43 0.11
45 4 0.01
46 334 0.88
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:47465239 original size:13 final size:12
Alignment explanation
Indices: 47465217--47465276 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
47465207 TTTATACTAA
47465217 ATAAATAATAAT
1 ATAAATAATAAT
47465229 ATAATATAATAAT
1 ATAA-ATAATAAT
* *
47465242 AATAAATATCTCAT
1 -ATAAATA-ATAAT
* *
47465256 AAAAATATTAAT
1 ATAAATAATAAT
47465268 A-AAATAATA
1 ATAAATAATA
47465277 TTTATCTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.18
12 8 0.21
13 17 0.44
14 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:47469360 original size:5 final size:5
Alignment explanation
Indices: 47469350--47469383 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
47469340 TACAAGTGTG
47469350 AAAAT AAAAT AAAAT AAACAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AAA
47469384 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:47469374 original size:16 final size:16
Alignment explanation
Indices: 47469353--47469383 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47469343 AAGTGTGAAA
47469353 ATAAAATAAAATAAAC
1 ATAAAATAAAATAAAC
47469369 ATAAAATAAAATAAA
1 ATAAAATAAAATAAA
47469384 GAACACACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAATAAAC
Found at i:47472127 original size:40 final size:40
Alignment explanation
Indices: 47472072--47472252 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
47472062 TATTCGAATG
*
47472072 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
47472112 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
47472152 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
47472192 ATATCAGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
47472232 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47472253 ATACTTGGGC
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 111 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:47472520 original size:22 final size:22
Alignment explanation
Indices: 47472480--47472521 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47472470 GAATGTGCAT
*
47472480 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
47472502 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
47472522 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:47473964 original size:22 final size:22
Alignment explanation
Indices: 47473939--47473981 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47473929 GTACCCCTTT
*
47473939 TGACTTAGGTACAATTTACTTC
1 TGACTTAAGTACAATTTACTTC
47473961 TGACTTAAGTACAATTTACTT
1 TGACTTAAGTACAATTTACTT
47473982 GCTTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (22 bp):
TGACTTAAGTACAATTTACTTC
Found at i:47489925 original size:28 final size:28
Alignment explanation
Indices: 47489885--47489942 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
47489875 TATATACAAA
* *
47489885 GAATGGTTATATCCGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
47489913 GAATGCTTATATCAGTCTAAGTAATGAT
1 GAATGCTTATATCAGTCTAAGTAATGAT
47489941 GA
1 GA
47489943 GTTTATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (28 bp):
GAATGCTTATATCAGTCTAAGTAATGAT
Found at i:47493473 original size:26 final size:25
Alignment explanation
Indices: 47493421--47493474 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
47493411 CATGGAATGG
** *
47493421 AAATTTTATTTTATTTTACTTAGTT
1 AAATTTTATTTTAAATTACTTACTT
*
47493446 AAATTTTAGTTTTAAATTACTTCCTT
1 AAATTTTA-TTTTAAATTACTTACTT
47493472 AAA
1 AAA
47493475 ATCAAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
AAATTTTATTTTAAATTACTTACTT
Found at i:47498359 original size:43 final size:44
Alignment explanation
Indices: 47498310--47498476 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 44
47498300 GATTACCGAG
*
47498310 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * *
47498354 -TGTGATTACGTGTAAGACCATTTTTGGGATATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * * **
47498396 ATATGATTTCGTATAAGACTATGTCTAAGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
47498439 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
47498477 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 7 0.07
43 90 0.93
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:47504205 original size:16 final size:15
Alignment explanation
Indices: 47504178--47504211 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47504168 ATAACTAGTA
*
47504178 TATAATTATATTTAT
1 TATAATTATATTAAT
47504193 TATAATATATATTAAT
1 TATAAT-TATATTAAT
47504209 TAT
1 TAT
47504212 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:47504953 original size:25 final size:24
Alignment explanation
Indices: 47504925--47504983 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
47504915 AGTTTTCTCC
* *
47504925 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAAATTTATTGAATTA-T
*
47504950 TAAAATTTAAATTTATTGAATTAT
1 TAAATTTTAAATTTATTGAATTAT
47504974 TAATATTTTA
1 TAA-ATTTTA
47504984 TACTCATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TAAATTTTAAATTTATTGAATTAT
Found at i:47507249 original size:20 final size:19
Alignment explanation
Indices: 47507197--47507249 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
47507187 CCAGTAGTTC
47507197 ATCCGTATAACCAATAATTT
1 ATCCGTATAA-CAATAATTT
* *
47507217 ATCAGTAGTAACAGTAATTT
1 ATCCGTA-TAACAATAATTT
47507237 ATCCGTATCAACA
1 ATCCGTAT-AACA
47507250 TAGCTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (19 bp):
ATCCGTATAACAATAATTT
Found at i:47507434 original size:24 final size:24
Alignment explanation
Indices: 47507396--47507507 Score: 140
Period size: 24 Copynumber: 4.8 Consensus size: 24
47507386 TCCTCCTGAT
* *
47507396 CTGATAAACAATAAGCTGTATTGAG
1 CTGA-AAACAGTAAGCTCTATTGAG
47507421 CTGAAAACAGTAAGCTCTATTGAG
1 CTGAAAACAGTAAGCTCTATTGAG
*
47507445 CTGAAAACAGTAAGCTCTATCGAG
1 CTGAAAACAGTAAGCTCTATTGAG
* *
47507469 CTG--AATAGTAAGCTCTAATGAG
1 CTGAAAACAGTAAGCTCTATTGAG
*
47507491 CTG-AAACGGTAAGCTCT
1 CTGAAAACAGTAAGCTCT
47507508 TACGAGCTGA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
22 19 0.24
23 11 0.14
24 44 0.56
25 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
CTGAAAACAGTAAGCTCTATTGAG
Found at i:47507506 original size:23 final size:23
Alignment explanation
Indices: 47507401--47507539 Score: 131
Period size: 24 Copynumber: 6.0 Consensus size: 23
47507391 CTGATCTGAT
* * *
47507401 AAACAATAAGCTGTATTGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
*
47507424 AAAACAGTAAGCTCTATTGAGCTG
1 -AAACAGTAAGCTCTAATGAGCTG
47507448 AAAACAGTAAGCTCT-ATCGAGCTG
1 -AAACAGTAAGCTCTAAT-GAGCTG
*
47507472 -AATAGTAAGCTCTAATGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
* * *
47507494 AAACGGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTCTAATGAGCTG
* *
47507517 AATCGGTAAGCTC-ATATGAGCTG
1 AAACAGTAAGCTCTA-ATGAGCTG
47507540 TGGTGAGTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
22 18 0.18
23 40 0.40
24 42 0.42
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (23 bp):
AAACAGTAAGCTCTAATGAGCTG
Found at i:47507518 original size:45 final size:47
Alignment explanation
Indices: 47507396--47507539 Score: 161
Period size: 46 Copynumber: 3.1 Consensus size: 47
47507386 TCCTCCTGAT
* * * * *
47507396 CTGATAAACAATAAGCTGTATTGAGCTGAAAACAGTAAGCTCTATTGAG
1 CTGA-AAACAGTAAGCTCTATCGAGCTG-AATCAGTAAGCTCTAATGAG
47507445 CTGAAAACAGTAAGCTCTATCGAGCTGAAT-AGTAAGCTCTAATGAG
1 CTGAAAACAGTAAGCTCTATCGAGCTGAATCAGTAAGCTCTAATGAG
* *
47507491 CTG-AAACGGTAAGCTCT-TACGAGCTGAATCGGTAAGCTC-ATATGAG
1 CTGAAAACAGTAAGCTCTAT-CGAGCTGAATCAGTAAGCTCTA-ATGAG
47507537 CTG
1 CTG
47507540 TGGTGAGTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.01
45 24 0.28
46 34 0.40
47 2 0.02
48 20 0.24
49 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (47 bp):
CTGAAAACAGTAAGCTCTATCGAGCTGAATCAGTAAGCTCTAATGAG
Found at i:47513743 original size:20 final size:20
Alignment explanation
Indices: 47513715--47513773 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
47513705 ATTCATTTTT
* *
47513715 ATTCGTATAAACTGTAATTC
1 ATTCATATAAACAGTAATTC
* *
47513735 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAATTC
* *
47513755 ATCCATATAACCAGTAATT
1 ATTCATATAAACAGTAATT
47513774 TATCAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTCATATAAACAGTAATTC
Found at i:47513991 original size:23 final size:22
Alignment explanation
Indices: 47513961--47514049 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 22
47513951 AGCTGAAAAA
47513961 CAGTAAGCTCTATCGAGCTGAAT
1 CAGTAAGCTCTAT-GAGCTGAAT
* *
47513984 CAGTAAGCTCCAATGAGCTGAAA
1 CAGTAAGCT-CTATGAGCTGAAT
* **
47514007 CGGTAAGCTCTTACAAGCTGAAT
1 CAGTAAGCTC-TATGAGCTGAAT
*
47514030 CGGTAAGCTCATATGAGCTG
1 CAGTAAGCTC-TATGAGCTG
47514050 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.02
23 50 0.93
24 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
CAGTAAGCTCTATGAGCTGAAT
Found at i:47514017 original size:46 final size:46
Alignment explanation
Indices: 47513958--47514049 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
47513948 CCGAGCTGAA
*
47513958 AAACAGTAAGCTC-TATCGAGCTGAATCAGTAAGCTCCA-ATGAGCTG
1 AAACAGTAAGCTCTTA-CAAGCTGAATCAGTAAGCT-CATATGAGCTG
* *
47514004 AAACGGTAAGCTCTTACAAGCTGAATCGGTAAGCTCATATGAGCTG
1 AAACAGTAAGCTCTTACAAGCTGAATCAGTAAGCTCATATGAGCTG
47514050 TGGTGAGTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 2 0.05
46 37 0.90
47 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (46 bp):
AAACAGTAAGCTCTTACAAGCTGAATCAGTAAGCTCATATGAGCTG
Found at i:47516490 original size:12 final size:12
Alignment explanation
Indices: 47516473--47516500 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47516463 CAAAATGTTC
47516473 TTTGAAAATAAG
1 TTTGAAAATAAG
47516485 TTTGAAAATAAG
1 TTTGAAAATAAG
47516497 TTTG
1 TTTG
47516501 GGTGAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.18, T:0.39
Consensus pattern (12 bp):
TTTGAAAATAAG
Found at i:47519235 original size:12 final size:12
Alignment explanation
Indices: 47519218--47519242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47519208 TTCATTCATT
47519218 AATCATAAAATA
1 AATCATAAAATA
47519230 AATCATAAAATA
1 AATCATAAAATA
47519242 A
1 A
47519243 GTACTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:47519946 original size:12 final size:12
Alignment explanation
Indices: 47519929--47519953 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47519919 TTCATTCATT
47519929 AATCATAAAATA
1 AATCATAAAATA
47519941 AATCATAAAATA
1 AATCATAAAATA
47519953 A
1 A
47519954 GTACTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:47520510 original size:712 final size:711
Alignment explanation
Indices: 47518675--47520799 Score: 4150
Period size: 711 Copynumber: 3.0 Consensus size: 711
47518665 TTTTGGTAGG
47518675 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
*
47518740 GAGTTTAATAATTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
47518805 TCATCTTTTGAAATCGTGCATTGGAA-TTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
131 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
*
47518869 ACTTCTTCAAAATCAAAATA--TTTCCTTCACCAAAGCGTTTTAATTACATTCATAAATAAATTC
196 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
47518932 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
261 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
47518997 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
326 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
*
47519062 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTATGCATG
391 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
47519127 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
456 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
47519192 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
521 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
47519257 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
586 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
47519322 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
651 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
47519383 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
47519448 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
47519513 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
131 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
47519578 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
196 ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
47519643 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
261 TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
*
47519708 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGACGAGCCTAA
326 GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
47519773 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
391 AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
47519838 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
456 CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
47519903 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
521 TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
47519968 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
586 TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
47520033 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
651 GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
47520094 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
1 TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
47520159 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
66 GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
47520224 TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAAT
131 TCATCTTTTGAAATCGTGCATTGGAA-TTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAAT
47520289 CACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATT
195 CACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATT
47520354 CTTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGAT
260 CTTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGAT
*
47520419 TGTGTACACTTGTACATTTCTGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTA
325 TGTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTA
*
47520484 AAAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTGCGCAT
390 AAAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCAT
47520549 GCA-TTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGA
455 GCATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGA
47520613 TTGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGC
520 TTGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGC
*
47520678 ATTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAAAGCGGTAT
585 ATTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTAT
47520743 CGATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACC
650 CGATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACC
47520800 CAACTTTCGA
Statistics
Matches: 1405, Mismatches: 8, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
708 155 0.11
709 58 0.04
711 894 0.64
712 298 0.21
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (711 bp):
TGAGTCTGTTTATAAGTTAGCAAATTACTAAGTTGCCGTGAATTTATTCGTAACAACATGAACAT
GAGTTTAATAGTTCTAAGTTAAGAAATGTAATTAATCTAACATAGTTATGTTATCTTGATTAAAA
TCATCTTTTGAAATCGTGCATTGGAATTTTTTTTATTTTATTTAGTTAAATTTTAGCTTTAAATC
ACTTCTTCAAAATCAAAATATTTTTCCTTCACCAAAGTGTTTTAATTACATTCATAAATAAATTC
TTCTCACAGTTACTGTGGGTACAATAACTCGACATTTACTTGTCACTTTATTACTTGTTGCGATT
GTGTACACTTGTACATTTCCGTCATTCCAGTAACAGCCTATACTCGGCCTTATTGCCGAGCCTAA
AAACTAGAATGCTACATCACCGTCTCACTTCATGTTCATCACAAACTGTCACATTATTACGCATG
CATTTTTTTTCTTTTAACATAATAGCACTTACATGAAACGTAATCCATACATGCTCTAAGGAGAT
TGAATTATGTTAAACATTCATTCATTAATCATAAAATAAATCATAAAATAAGTACTAAACTTGCA
TTAGGACCATTTAGCAAAATTTCCCAAAACTATTACGTAGATATTAATAAGGGAAGAGCGGTATC
GATATCGCTTGGAAATTTGATACCAAATTAGCTTACTATTTCTCGACTTAAAAACCATACA
Found at i:47520657 original size:12 final size:12
Alignment explanation
Indices: 47520640--47520664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47520630 TTCATTCATT
47520640 AATCATAAAATA
1 AATCATAAAATA
47520652 AATCATAAAATA
1 AATCATAAAATA
47520664 A
1 A
47520665 GTACTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATCATAAAATA
Found at i:47526633 original size:43 final size:43
Alignment explanation
Indices: 47526508--47526796 Score: 224
Period size: 43 Copynumber: 6.7 Consensus size: 43
47526498 TTTTGTGGAA
* * * ** ** * *
47526508 AAATGCCGCTATAGAACTTGACCTTTAATGGTGCTTTTCACAA
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * *
47526551 AAATGCCAATATAGACCATGACTTTTAGCGGCACTTTTCCCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * * * *
47526594 AAACGCCGCTATAGAACATGACATTTAGCAGCGCTTTTCCTC-C
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCC-CAC
* * * * * *
47526637 AAACGCTACTATAGATCATGACCTTTAGTGGCGCTTCTT-CCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTT-TTCCCAC
* *
47526680 AAATGCCACTAAATAAAATGACCTTTAGCGGCACTTTT-CCAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * * * *
47526722 AAATACCACTAAAGAACACGACCTTTAGCGACACTTTGCCTAC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
* * *
47526765 AAATGCCGCTAAAGAACACGATCTTTAGCGGC
1 AAATGCCACTAAAGAACATGACCTTTAGCGGC
47526797 GTTTTTATAA
Statistics
Matches: 199, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 39 0.20
43 157 0.79
44 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
AAATGCCACTAAAGAACATGACCTTTAGCGGCACTTTTCCCAC
Found at i:47527185 original size:21 final size:21
Alignment explanation
Indices: 47527161--47527205 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47527151 CTTTGCTTTG
* * *
47527161 CTTCTCTCACTGCTGCCTCTA
1 CTTCCCTCACTGCTACCTCCA
*
47527182 CTTCCCTCGCTGCTACCTCCA
1 CTTCCCTCACTGCTACCTCCA
47527203 CTT
1 CTT
47527206 TAAGTTGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.47, G:0.09, T:0.36
Consensus pattern (21 bp):
CTTCCCTCACTGCTACCTCCA
Found at i:47528861 original size:46 final size:46
Alignment explanation
Indices: 47528811--47528983 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
47528801 TGGTTGAGCA
*
47528811 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
47528857 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
47528904 TCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACG
* *
47528950 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47528984 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47528967 original size:93 final size:93
Alignment explanation
Indices: 47528808--47528978 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
47528798 GGATGGTTGA
* *
47528808 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
47528873 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
47528901 GCATCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG-CCTGAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACGTCC-GAACTCATTGA
47528964 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
47528979 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47535055 original size:19 final size:19
Alignment explanation
Indices: 47535031--47535073 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
47535021 TAAATACCTA
47535031 AGATTCATCAGACCTTATG
1 AGATTCATCAGACCTTATG
47535050 AGATTCATCAGACCTTATG
1 AGATTCATCAGACCTTATG
47535069 AGATT
1 AGATT
47535074 ATTTAGCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (19 bp):
AGATTCATCAGACCTTATG
Found at i:47549265 original size:46 final size:46
Alignment explanation
Indices: 47549215--47549387 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
47549205 TGGTTGAGCA
*
47549215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
47549261 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
47549308 TCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACG
* *
47549354 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47549388 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47549371 original size:93 final size:93
Alignment explanation
Indices: 47549212--47549382 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
47549202 GGATGGTTGA
* *
47549212 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
47549277 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
47549305 GCATCCGAACTCGTTGAGTTGAGTCCG-GTTTCATTTATGGATGCGAACG-CCTGAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCAAACGTCC-GAACTCATTGA
47549368 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
47549383 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47556857 original size:46 final size:46
Alignment explanation
Indices: 47556807--47556979 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
47556797 TGGTTGAGCA
*
47556807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
47556853 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
47556900 TCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
47556946 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47556980 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47556963 original size:93 final size:93
Alignment explanation
Indices: 47556804--47556974 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
47556794 GGATGGTTGA
* *
47556804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
47556869 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
47556897 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCATTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCATTGAG
47556961 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
47556975 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47558449 original size:13 final size:14
Alignment explanation
Indices: 47558423--47558451 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47558413 ACAAACGACA
47558423 AATTAAACCATTAT
1 AATTAAACCATTAT
47558437 AATTAAA-CATTAT
1 AATTAAACCATTAT
47558450 AA
1 AA
47558452 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:47564402 original size:40 final size:40
Alignment explanation
Indices: 47564341--47564425 Score: 152
Period size: 40 Copynumber: 2.1 Consensus size: 40
47564331 CGTTTGTTAT
*
47564341 TGCTTACCTTTTGTAGTGTTTTTCTCATAAACACCGCTAA
1 TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
*
47564381 TGCTTACCTTTTGTGGCGTTTTTCTCATAAACACCGCTAA
1 TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
47564421 TGCTT
1 TGCTT
47564426 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (40 bp):
TGCTTACCTTTTGTAGCGTTTTTCTCATAAACACCGCTAA
Found at i:47564741 original size:20 final size:20
Alignment explanation
Indices: 47564716--47564778 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
47564706 AATATCTTGC
47564716 ATAATTTTGCATAATTTAAT
1 ATAATTTTGCATAATTTAAT
*
47564736 ATAATTAAATT--A-AAATTAAT
1 ATAATT---TTGCATAATTTAAT
47564756 ATAATTTTGCATAATTTTAAT
1 ATAATTTTGCATAA-TTTAAT
47564777 AT
1 AT
47564779 CTTTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
17 2 0.06
19 1 0.03
20 21 0.62
21 8 0.24
23 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
ATAATTTTGCATAATTTAAT
Found at i:47564760 original size:40 final size:41
Alignment explanation
Indices: 47564716--47564793 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
47564706 AATATCTTGC
47564716 ATAATTTTGCATAA-TTTAATATAATTAAATTAAAATTAAT
1 ATAATTTTGCATAATTTTAATATAATTAAATTAAAATTAAT
**
47564756 ATAATTTTGCATAATTTTAATATCTTTAAATTAAAATT
1 ATAATTTTGCATAATTTTAATATAATTAAATTAAAATT
47564794 TTAATTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 14 0.40
41 21 0.60
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (41 bp):
ATAATTTTGCATAATTTTAATATAATTAAATTAAAATTAAT
Found at i:47566302 original size:20 final size:21
Alignment explanation
Indices: 47566277--47566331 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
47566267 TGGGGGGTCA
47566277 ACACG-CTCATGTGGAA-AGGC
1 ACACGCCT-ATGTGGAAGAGGC
47566297 ACACGCCTATGTGGAAGGAGGC
1 ACACGCCTATGTGGAA-GAGGC
* *
47566319 ACACACCTGTGTG
1 ACACGCCTATGTG
47566332 ACCTAGGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.43
21 2 0.07
22 15 0.50
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.16
Consensus pattern (21 bp):
ACACGCCTATGTGGAAGAGGC
Found at i:47570544 original size:25 final size:25
Alignment explanation
Indices: 47570502--47570551 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
47570492 CTTTATTATT
* *
47570502 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
47570527 ATCATTATCATGAGTTATATGATTA
1 ATCATTATCAAGAATTATATGATTA
47570552 GTCCTTTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:47577469 original size:442 final size:443
Alignment explanation
Indices: 47576604--47577492 Score: 1528
Period size: 442 Copynumber: 2.0 Consensus size: 443
47576594 TGGTTTCTGG
*
47576604 ACCACAAATCTGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
1 ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
*
47576669 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGGACTAA
66 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
* * *
47576734 ATTGTAAAAATTATAAAATACGTAGTAAAAGTGTGTTCTAGTGGAAATTGTGGGCTATTATAGTT
131 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
* * *
47576799 ATGAAAATGGTTCGGCTAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTACGAGCCTGG
196 ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
* *
47576864 GGGCAAAAGTGTAAATATGACAAAGTTTAGGGGTAAAAATGTAATTTTTCTATAATATGATTTTC
261 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
*
47576929 GGGTCACAATGAATAATGTGATTAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
326 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
* *
47576994 GGTTTGGACCTAAAATAAGGGAAAAATGCATATTTGACGGTTAGGTCTTTTTC
391 GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
** *
47577047 ACCACAAATCCGATGAGGAAAATTTTATTTTTATTATA-TTTTATGGTCTAAAATTTCATGGAAT
1 ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
* * *
47577111 GATTCCGTGAAAATTTCGTTTGAAAATTTTGATGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
66 GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
*
47577176 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTGTTATAGTT
131 ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
** *
47577241 ATGAAAATGGTTCGGATATTCTTAAAGTACAAATAAATTGAATAAATTTCATTTTAAGAGCCTAG
196 ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
*
47577306 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTT
261 GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
*
47577371 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACGA
326 GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
* *
47577436 GGTTTGGACCTAGAACAGGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
391 GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
47577489 ACCA
1 ACCA
47577493 TTTTTGGTAT
Statistics
Matches: 419, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
442 384 0.92
443 35 0.08
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (443 bp):
ACCACAAATCCGACAAGGAAAATTTTATTTTTATTATATTTTTATGGTCTAAAATTTCACGGAAT
GATTCCGTGAAAATTTCGTTCGAAAATTTTAACGTTTGGGCACTCAATTTAGTCAAAAGAACTAA
ATTGTAAAAATTATAAAATACATAGTAAAAGTGTGCTCTAGTAGAAATTGTGGGCTATTATAGTT
ATGAAAATGGTTCGGATAAGCTTAAAGTACAAAGAAATTGAATAAATTTCATTTTAAGAGCCTAG
GGGCAAAAGTATAAATATGACAAAGTTTAGGGGCAAAAATGTAATTTTTCTATAATATGATTTTC
GGGTCACAATGAATAATGTGAATAATAAATAAGCTAAATGTGATATTTTAGATCAAGGAAAACAA
GGTTTGGACCTAAAACAAGGGAAAAACGCATATTTGACGGTTAGGTCTTTTTC
Found at i:47580256 original size:35 final size:35
Alignment explanation
Indices: 47580216--47580303 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
47580206 ATGTACTCAA
* *
47580216 TCAGATACAAATACAGATTCGGGCTTAAGCCCAT-
1 TCAGATACAGATACAGATTCGGGCCTAAGCCCATC
* **
47580250 TACAGATACAGATGCAGATTTTGGCCTAAGCCCATC
1 T-CAGATACAGATACAGATTCGGGCCTAAGCCCATC
*
47580286 TCAGATACAGATATAGAT
1 TCAGATACAGATACAGAT
47580304 GTACAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
34 1 0.02
35 43 0.96
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (35 bp):
TCAGATACAGATACAGATTCGGGCCTAAGCCCATC
Found at i:47590445 original size:20 final size:20
Alignment explanation
Indices: 47590420--47590466 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
47590410 ATTTTGATAT
47590420 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47590440 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47590460 ACATGAT
1 ACATGAT
47590467 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47590545 original size:25 final size:24
Alignment explanation
Indices: 47590515--47590586 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
47590505 GGACGAAGTG
*
47590515 CAAAAAGGGCTATGCCCCAGTTTA
1 CAAAAAGGGCTTTGCCCCAGTTTA
*
47590539 CCGAAAAGGGCTTTTGCCCCAGTTTA
1 -CAAAAAGGGC-TTTGCCCCAGTTTA
*
47590565 TAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
47590587 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 12 0.29
25 17 0.40
26 13 0.31
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAAGGGCTTTGCCCCAGTTTA
Found at i:47590578 original size:24 final size:24
Alignment explanation
Indices: 47590516--47590599 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
47590506 GACGAAGTGC
* *
47590516 AAAAAGGGCTATGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTA-T
*
47590541 GAAAAGGGCTTTTGCCCCAGTTTAT
1 AAAAAGGGC-TTTGCCCCAGTTTAT
47590566 AAAAAGGGCTTTGCCCCAG-TTAT
1 AAAAAGGGCTTTGCCCCAGTTTAT
*
47590589 TAAAAGAGGCT
1 AAAAAG-GGCT
47590600 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.17
24 14 0.27
25 16 0.31
26 13 0.25
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAAGGGCTTTGCCCCAGTTTAT
Found at i:47590844 original size:31 final size:31
Alignment explanation
Indices: 47590809--47590898 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 31
47590799 GTTTATAGTG
*
47590809 AAGGCTTTGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
47590840 AAGGCTTCGGCCCAGTGTTATGAGATATGAAATATGAA
1 AAGGCTTCGGCCCA--G---T-A-ATATGAAATATGAA
*
47590878 AAGGCTTCGGCCGAGT-ATATG
1 AAGGCTTCGGCCCAGTAATATG
47590899 CTGAGATGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
30 5 0.10
31 13 0.26
33 2 0.04
36 2 0.04
37 1 0.02
38 27 0.54
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:47591825 original size:33 final size:33
Alignment explanation
Indices: 47591788--47591853 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
47591778 TGAAGATGAA
*
47591788 TTAGATTCTAACTCAGTTTTTGTTATCACTTTT
1 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
47591821 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
1 TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
47591854 GACGATGTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (33 bp):
TTAGATTCTAACTCAGTTTCTGTTATCACTTTT
Found at i:47598306 original size:89 final size:90
Alignment explanation
Indices: 47598086--47598329 Score: 237
Period size: 89 Copynumber: 2.7 Consensus size: 90
47598076 AACCAAAAAA
* * * * ** * *
47598086 GTTGCAAGTTAATACATTCCCAGATGGTTGTGAATACACAACATATTTGCAGATAAGTGCTTCTA
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAACTGCCA
* *
47598151 GATATTGGGTGGATGAACCAACGAT
66 GAAAGTGGGTGGATGAACCAACGAT
* * * * *
47598176 GTTGCAGGTTAATACACTACTAGATAGTAGTGAGTATACAACATATTCT-CAAATAAGAACTGCC
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATT-TGCAAATAAGAACTGCC
*
47598240 A-AAAGTGGTTGGATGAACC-ACTTG-T
65 AGAAAGTGGGTGGATGAACCAAC--GAT
* * **
47598265 GTTTCAGGTTAATACGCTACCAGATGGTTGTGAATACACAACATGGTTGCAAATAA-AAGCTGCC
1 GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAA-CTGCC
47598329 A
65 A
47598330 AATAATTTGT
Statistics
Matches: 124, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
88 5 0.04
89 67 0.54
90 51 0.41
91 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
GTTGCAGGTTAATACACTACCAGATGGTTGTGAATACACAACATATTTGCAAATAAGAACTGCCA
GAAAGTGGGTGGATGAACCAACGAT
Found at i:47599938 original size:12 final size:12
Alignment explanation
Indices: 47599921--47599945 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47599911 TAGACTCAAT
47599921 AATATTTAATTC
1 AATATTTAATTC
47599933 AATATTTAATTC
1 AATATTTAATTC
47599945 A
1 A
47599946 TCCTCTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATTTAATTC
Found at i:47600592 original size:46 final size:47
Alignment explanation
Indices: 47600438--47600697 Score: 236
Period size: 46 Copynumber: 5.6 Consensus size: 47
47600428 ATGTCGATTC
* *
47600438 CATGTCCCAGACATGGTCTTACACTAGCTCTCAAATATTCG-TGCAGATGA
1 CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATATT-GATGCCGAT-A
*
47600488 -ATGTCCCAGACATGTCTTACACTAG--C-ACAT-TTCGTAT-CCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATT-G-ATGCCGATA
* *
47600531 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTTGATGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGATA
* * ** *
47600577 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGAT-A
* * *
47600624 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG-TGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTACATATTGAT-GCCGATA
*
47600671 CATGTCCCAGATATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
47600698 ACACACACAT
Statistics
Matches: 179, Mismatches: 19, Indels: 28
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.02
44 31 0.17
45 3 0.02
46 62 0.35
47 31 0.17
48 35 0.20
49 13 0.07
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATATTGATGCCGATA
Found at i:47600676 original size:94 final size:91
Alignment explanation
Indices: 47600438--47600700 Score: 304
Period size: 94 Copynumber: 2.8 Consensus size: 91
47600428 ATGTCGATTC
* * * *
47600438 CATGTCCCAGACATGGTCTTACACTAGCTCTCA-AATATTCGTGCAGATGAATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-G-GCCGATGCATGTCCCAGACATG
*
47600502 TCTTACACTAGCACATTTCGTATCCGATG
63 TCTTACACTAGCACATTTCGAATCCGATG
** *
47600531 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTTGAT-GCCGATACATGTCCCAGACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATG-TGGCCGATGCATGTCCCAGACATGT
*
47600593 CTTACACTAGCTC-TCGTCTC-AATGCCGATG
64 CTTACACTAGCACAT--T-TCGAAT-CCGATG
*
47600623 TCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGATATGTC
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTC
47600688 TTACACTAGCACA
65 TTACACTAGCACA
47600701 CACACATCGC
Statistics
Matches: 144, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
89 1 0.01
90 32 0.22
91 4 0.03
92 23 0.16
93 31 0.22
94 52 0.36
95 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCACATTTCGAATCCGATG
Found at i:47606090 original size:39 final size:40
Alignment explanation
Indices: 47605978--47606138 Score: 263
Period size: 40 Copynumber: 4.0 Consensus size: 40
47605968 CGAGATTTAA
*
47605978 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
**
47606018 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
47606058 CCGGATATAGTAACTCG-ACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47606097 CTGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
47606137 CC
1 CC
47606139 CGTTATCATC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 39 0.35
40 73 0.65
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47606095 original size:79 final size:80
Alignment explanation
Indices: 47605978--47606138 Score: 263
Period size: 79 Copynumber: 2.0 Consensus size: 80
47605968 CGAGATTTAA
* **
47605978 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47606043 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
*
47606058 CCGGATATAG-TAACTCG-ACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAAT
1 CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
47606121 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
47606137 CC
1 CC
47606139 CGTTATCATC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
79 61 0.80
80 15 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTTAGC
Found at i:47610526 original size:44 final size:45
Alignment explanation
Indices: 47610431--47610647 Score: 174
Period size: 44 Copynumber: 4.7 Consensus size: 45
47610421 ATGTCGATTC
* * *
47610431 CATGTCCCAGACATGGTCTTACACTGGCTCTCAAATATCCGT-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG----CACATATTCGTAGCCGATG
47610480 CATGTCCCAGACATGTCTTACACTAGCACAT-TTCGTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACATATTCGTAGCCGATG
* * ** *
47610524 CATGTCCC-GAACATGTCTTACACTAGCTC-TCGTCTCAAACCCGATG
1 CATGTCCCAG-ACATGTCTTACACTAGCACAT-AT-TCGTAGCCGATG
* * * * *
47610570 CCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG--CACATATTCGTAGCCGATG
47610618 CATGTCCCAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
47610648 CACACATCGC
Statistics
Matches: 139, Mismatches: 18, Indels: 27
0.76 0.10 0.15
Matches are distributed among these distances:
43 6 0.04
44 40 0.29
45 1 0.01
46 20 0.14
47 24 0.17
48 29 0.21
49 15 0.11
50 3 0.02
51 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACATATTCGTAGCCGATG
Done.