Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 270 of 325
Found at i:88510376 original size:52 final size:53
Alignment explanation
Indices: 88510298--88510436 Score: 174
Period size: 52 Copynumber: 2.6 Consensus size: 53
88510288 TACATGATTT
88510298 CGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATT-CGT-ATCCC
1 CGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATTACGTGAT-CC
* * *** * *
88510350 CGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATGTGATTATGTGATTC
1 CGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATTACGTGATCC
* *
88510403 CGTATAAGACCATATCCGGGATATGGCATCGGTA
1 CGTATAAGACCATAGCCGGGCTATGGCATCGGTA
88510437 TGATATGTGG
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 39 0.53
53 32 0.44
54 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (53 bp):
CGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATTACGTGATCC
Found at i:88510474 original size:46 final size:50
Alignment explanation
Indices: 88510298--88510488 Score: 153
Period size: 52 Copynumber: 3.8 Consensus size: 50
88510288 TACATGATTT
* * *
88510298 CGTATAAGACCATAGCCGGGCTATGGCATCGGTACCATGTGATT-CGT-A-TCCC
1 CGTATAAGACCATAGCAGGGCTATGGCATCGGT--GA-GTGATTATGTGAGT--C
* *
88510350 CGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATGTGATTATGTGATTC
1 CGTATAAGACCATAGCAGGGCTATGGCATC-G-GTGA-GTGATTATGTGAGTC
* * *
88510403 CGTATAAGACCATATCCGGGATATGGCATCGGT-A-TGA-TATGTG-GTC
1 CGTATAAGACCATAGCAGGGCTATGGCATCGGTGAGTGATTATGTGAGTC
* * * *
88510449 CGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTGAT
1 CGTATAAGACCATAGCAGGGCTATGGCATCGGTGAGTGAT
88510489 GTGTGACAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
46 29 0.25
47 6 0.05
48 6 0.05
50 1 0.01
51 2 0.02
52 38 0.32
53 31 0.26
54 3 0.03
55 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (50 bp):
CGTATAAGACCATAGCAGGGCTATGGCATCGGTGAGTGATTATGTGAGTC
Found at i:88510491 original size:46 final size:46
Alignment explanation
Indices: 88510349--88510481 Score: 122
Period size: 46 Copynumber: 2.7 Consensus size: 46
88510339 ATTCGTATCC
* * *
88510349 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGTGATGTGATTATGTGATT
1 CCGTATAAGACCATAGCAGGGATATGGCATC-G-GT-A--TGA-TATGTG-GT
* *
88510402 CCGTATAAGACCATATCCGGGATATGGCATCGGTATGATATGTGGT
1 CCGTATAAGACCATAGCAGGGATATGGCATCGGTATGATATGTGGT
* * * *
88510448 CCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 CCGTATAAGACCATAGCAGGGATATGGCATCGGT
88510482 GTGTGATGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
46 29 0.41
47 6 0.09
48 3 0.04
50 1 0.01
51 2 0.03
52 1 0.01
53 28 0.40
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGTATAAGACCATAGCAGGGATATGGCATCGGTATGATATGTGGT
Found at i:88513520 original size:13 final size:13
Alignment explanation
Indices: 88513502--88513526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88513492 TATACTATTA
88513502 TTACTTACATCTC
1 TTACTTACATCTC
88513515 TTACTTACATCT
1 TTACTTACATCT
88513527 ATCATCTGTG
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (13 bp):
TTACTTACATCTC
Found at i:88521175 original size:130 final size:125
Alignment explanation
Indices: 88520875--88521186 Score: 365
Period size: 125 Copynumber: 2.5 Consensus size: 125
88520865 GCCAAACGAT
* * * * ** * *
88520875 AAATCGAAACCTAGCACGATTGGGCACGATTTATCGATTTTCCAAATACAGAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
* * **
88520940 TTAATTTAAGAAAACATAGATGAAATTTCAGAAGGATATTATGTACTTTTGTCGAATGAA
66 TTAATTTAAGAAAACATAGACGAAATTTCACAAGGATATTACATACTTTTGTCGAATGAA
* * *
88521000 AAATCGAAACCCAGCACAATTGGGCACGATCTCTCAAACTCCCAAACACAAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
* * * * *
88521065 TTAATTTAAGAAAACGTGGACGAAATTTCACAAGGGTATTCCATA-TTTTAGTTGAATGAAAAAA
66 TTAATTTAAGAAAACATAGACGAAATTTCACAAGGATATTACATACTTTT-GTCGAATG-----A
88521129 A
125 A
* *
88521130 AAATCGAAACCCAGCACGATTGGGTACGATCTCTCAAACTTCCAAACACGAAATATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATT
88521187 TCTTTATGTT
Statistics
Matches: 157, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
124 4 0.03
125 98 0.62
130 55 0.35
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCATT
TTAATTTAAGAAAACATAGACGAAATTTCACAAGGATATTACATACTTTTGTCGAATGAA
Found at i:88521566 original size:11 final size:11
Alignment explanation
Indices: 88521546--88521581 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
88521536 AGCATATAAA
*
88521546 AAAATGATAGT
1 AAAATAATAGT
88521557 AAAATAATAGT
1 AAAATAATAGT
88521568 AAAAATAATAGT
1 -AAAATAATAGT
88521580 AA
1 AA
88521582 CAGAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:88521588 original size:15 final size:12
Alignment explanation
Indices: 88521545--88521604 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
88521535 TAGCATATAA
*
88521545 AAAAATGATAGT
1 AAAAATAATAGT
88521557 -AAAATAATAGT
1 AAAAATAATAGT
88521568 AAAAATAATAGT
1 AAAAATAATAGT
* *
88521580 AACAGAAATAGTAAT
1 -A-A-AAATAATAGT
88521595 AAAAATAATA
1 AAAAATAATA
88521605 ACGAAAATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.25
12 18 0.45
13 2 0.05
14 2 0.05
15 8 0.20
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:88521589 original size:24 final size:24
Alignment explanation
Indices: 88521545--88521617 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
88521535 TAGCATATAA
*
88521545 AAAAATGATAGTAA-A-ATAATAGT
1 AAAAATAATAGTAACAGA-AATAGT
88521568 AAAAATAATAGTAACAGAAATAGT
1 AAAAATAATAGTAACAGAAATAGT
*
88521592 AATAAA-AATAATAAC-GAAAATAGT
1 AA-AAATAATAGTAACAG-AAATAGT
88521616 AA
1 AA
88521618 TGATAATAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 14 0.32
24 26 0.59
25 4 0.09
ACGTcount: A:0.64, C:0.03, G:0.11, T:0.22
Consensus pattern (24 bp):
AAAAATAATAGTAACAGAAATAGT
Found at i:88521618 original size:24 final size:25
Alignment explanation
Indices: 88521562--88521626 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
88521552 ATAGTAAAAT
*
88521562 AATAGTAA-AAATAATAGTAACAGA
1 AATAGTAATAAATAATAATAACAGA
88521586 AATAGTAATAAA-AATAATAAC-GAA
1 AATAGTAATAAATAATAATAACAG-A
*
88521610 AATAGTAAT-GATAATAA
1 AATAGTAATAAATAATAA
88521627 CAATATCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 2 0.06
24 31 0.86
25 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (25 bp):
AATAGTAATAAATAATAATAACAGA
Found at i:88521625 original size:12 final size:12
Alignment explanation
Indices: 88521552--88521625 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
88521542 TAAAAAAATG
88521552 ATAGTAAA-ATA
1 ATAGTAAAGATA
*
88521563 ATAGTAAAAATA
1 ATAGTAAAGATA
88521575 ATAGTAACAGA-A
1 ATAGTAA-AGATA
*
88521587 ATAGTAATA-AAA
1 ATAGTAA-AGATA
* * *
88521599 ATAATAACGAAA
1 ATAGTAAAGATA
*
88521611 ATAGTAATGATA
1 ATAGTAAAGATA
88521623 ATA
1 ATA
88521626 ACAATATCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
11 9 0.17
12 41 0.79
13 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.11, T:0.24
Consensus pattern (12 bp):
ATAGTAAAGATA
Found at i:88523388 original size:18 final size:18
Alignment explanation
Indices: 88523284--88523386 Score: 73
Period size: 18 Copynumber: 5.4 Consensus size: 18
88523274 ACATTGTGAT
* *
88523284 CTGAAGCCCGAAGTCTAA
1 CTGAAGCACGAAGGCTAA
*
88523302 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCAC-GAAG-GCT-AA
*
88523323 C-GAAAGCCCGAAGGCTAA
1 CTG-AAGCACGAAGGCTAA
*
88523341 CTGAAGCACATAAGTGCTAA
1 CTGAAGCAC-GAAG-GCTAA
* *
88523361 ATGGAAGCTCGAAGGCTAA
1 CT-GAAGCACGAAGGCTAA
88523380 CTGAAGC
1 CTGAAGC
88523387 TCACCAGAGC
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
18 21 0.32
19 16 0.24
20 15 0.23
21 14 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (18 bp):
CTGAAGCACGAAGGCTAA
Found at i:88523399 original size:39 final size:39
Alignment explanation
Indices: 88523286--88523386 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
88523276 ATTGTGATCT
*
88523286 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
88523325 AAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
88523364 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
88523387 TCACCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:88525415 original size:16 final size:17
Alignment explanation
Indices: 88525394--88525426 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
88525384 GGATCTAAAT
88525394 GGAAAAAGAGAA-AAAA
1 GGAAAAAGAGAACAAAA
*
88525410 GGAAAAATAGAACAAAA
1 GGAAAAAGAGAACAAAA
88525427 TTGCAGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (17 bp):
GGAAAAAGAGAACAAAA
Found at i:88527913 original size:20 final size:21
Alignment explanation
Indices: 88527888--88527936 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
88527878 TGTACTCCAG
88527888 TTTGTAATTAT-T-TTGTCGAA
1 TTTGTAATTATCTGTTGTC-AA
* *
88527908 TTTGTAAATATCTGTTGTCAT
1 TTTGTAATTATCTGTTGTCAA
88527929 TTTGTAAT
1 TTTGTAAT
88527937 AAGATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 9 0.38
22 5 0.21
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.55
Consensus pattern (21 bp):
TTTGTAATTATCTGTTGTCAA
Found at i:88535295 original size:3 final size:3
Alignment explanation
Indices: 88535280--88535357 Score: 65
Period size: 3 Copynumber: 26.3 Consensus size: 3
88535270 TTTAGCAATT
* * *
88535280 TTA TTA GTA TTA TTA TTA TTA ATG TTA TTA TTA TTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
88535328 -TA TT- TCCTA TTA -TA TTA TCA TTA TTA TTA T
1 TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA T
88535358 ATAAGTGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
2 6 0.10
3 52 0.87
4 1 0.02
5 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88547948 original size:44 final size:46
Alignment explanation
Indices: 88547834--88547948 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
88547824 ATACAGGTCT
* * *
88547834 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
88547880 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
88547924 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
88547949 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:88548102 original size:44 final size:44
Alignment explanation
Indices: 88548045--88548284 Score: 186
Period size: 44 Copynumber: 5.5 Consensus size: 44
88548035 GAGAATTTCA
88548045 GATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
* * * ** * * *
88548089 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGAAGCGGATTAAAATAAAG
* * *
88548132 TATCCTATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
* ** **
88548176 GATCTTATCTCCCTG-AGATTACAG-CAGAGTAGATTGAAGCT--AG
1 GATCTTATCTCCCTGAAG-TTACAGTGA-AGCGGATT-AAAATAAAG
* * * * *
88548219 TAATCCTATCTCTCTGAAATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
* *
88548264 GATCTTATCTCTCTAAAGTTA
1 GATCTTATCTCCCTGAAGTTA
88548285 TAGTAGAGTA
Statistics
Matches: 144, Mismatches: 41, Indels: 22
0.70 0.20 0.11
Matches are distributed among these distances:
43 39 0.27
44 99 0.69
45 6 0.04
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAG
Found at i:88548141 original size:87 final size:88
Alignment explanation
Indices: 88548050--88548274 Score: 364
Period size: 87 Copynumber: 2.6 Consensus size: 88
88548040 TTTCAGATCT
* *
88548050 TATCTCCCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCA
88548115 GAGCAGATCGAAGAC-ACT-ATCC
66 GAGCAGATCGAAG-CTACTAATCC
88548137 TATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCA
1 TATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCA
* * *
88548202 GAGTAGATTGAAGCTAGTAATCC
66 GAGCAGATCGAAGCTACTAATCC
* *
88548225 TATCTCTCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTC
1 TATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTC
88548275 TCTAAAGTTA
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.59
88 52 0.40
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
TATCTCTCTGAAGTTACAGTGAAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGCTACTAATCC
Found at i:88548396 original size:44 final size:44
Alignment explanation
Indices: 88548303--88548396 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
88548293 TAGATCACAT
* *
88548303 CAGATTGAAGCTAGAGATCTTATCTCCCTGAGATTACAATGGAG
1 CAGATTGAAGCTAGAGATCCTATCTCCCTGAGATTACAACGGAG
* * *
88548347 TAGATTGAAGCTAGTA-ATCCTATTTCCCTG-GAGTTACAGCGGAG
1 CAGATTGAAGCTAG-AGATCCTATCTCCCTGAGA-TTACAACGGAG
88548391 CAGATT
1 CAGATT
88548397 AAAACCACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 2 0.05
44 39 0.93
45 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CAGATTGAAGCTAGAGATCCTATCTCCCTGAGATTACAACGGAG
Found at i:88548447 original size:142 final size:142
Alignment explanation
Indices: 88548176--88548440 Score: 388
Period size: 142 Copynumber: 1.9 Consensus size: 142
88548166 TAAAATAAAG
* *
88548176 GATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAATTA
1 GATCTTATCTCCCTGAGATTACAACAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
* * * *
88548241 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAGAGTAGATCACATCAG
66 CAGCGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCAG
88548306 ATTGAAGCTAGA
131 ATTGAAGCTAGA
** * * *
88548318 GATCTTATCTCCCTGAGATTACAATGGAGTAGATTGAAGCTAGTAATCCTATTTCCCTGGAGTTA
1 GATCTTATCTCCCTGAGATTACAACAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
* * *
88548383 CAGCGGAGCAGATTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGTGGATC
66 CAGCGGAGCAGATTAAAA-CAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATC
88548441 GTATCAGGTC
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
142 106 0.98
143 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
GATCTTATCTCCCTGAGATTACAACAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTA
CAGCGGAGCAGATTAAAACAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCAG
ATTGAAGCTAGA
Found at i:88549903 original size:3 final size:3
Alignment explanation
Indices: 88549888--88549968 Score: 71
Period size: 3 Copynumber: 27.3 Consensus size: 3
88549878 TTTAGCAATT
* * *
88549888 TTA TTA GTA TTA TTA TTA TTA TTA ATG TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
88549935 TCTA -TA TT- TCCTA TTA -TA TTA TCA TTA TTA TTA T
1 T-TA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA T
88549969 ATAAGTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
2 6 0.10
3 55 0.87
4 1 0.02
5 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88550067 original size:12 final size:12
Alignment explanation
Indices: 88550052--88550086 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
88550042 TTTATAAAAG
88550052 TATCTATATATA
1 TATCTATATATA
88550064 TATCTATATATA
1 TATCTATATATA
*
88550076 TATATATATAT
1 TATCTATATAT
88550087 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (12 bp):
TATCTATATATA
Found at i:88550106 original size:2 final size:2
Alignment explanation
Indices: 88550056--88550086 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
88550046 TAAAAGTATC
*
88550056 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88550087 TTTTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88551882 original size:18 final size:18
Alignment explanation
Indices: 88551839--88551882 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
88551829 TAAAATATAA
*
88551839 ATTAAAAAATTAAAAAAT
1 ATTATAAAATTAAAAAAT
*
88551857 ATTTTAAAATTATAAAAAT
1 ATTATAAAATTA-AAAAAT
88551876 A-TATAAA
1 ATTATAAA
88551883 TTCTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTATAAAATTAAAAAAT
Found at i:88554869 original size:30 final size:30
Alignment explanation
Indices: 88554833--88554889 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
88554823 ATAATGTCTG
*
88554833 TTTTCTAAATGAACTGGGCCTCGAGTACTA
1 TTTTCTAAATGAACTGAGCCTCGAGTACTA
88554863 TTTTCTAAATGAACTGAGCCTCGAGTA
1 TTTTCTAAATGAACTGAGCCTCGAGTA
88554890 ATAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (30 bp):
TTTTCTAAATGAACTGAGCCTCGAGTACTA
Found at i:88555004 original size:14 final size:11
Alignment explanation
Indices: 88554970--88555001 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
88554960 TGCTACCATT
88554970 TTGTTATTATA
1 TTGTTATTATA
88554981 TTGTTATTATA
1 TTGTTATTATA
*
88554992 TTGTTGTTAT
1 TTGTTATTAT
88555002 TATTTGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (11 bp):
TTGTTATTATA
Found at i:88573551 original size:21 final size:21
Alignment explanation
Indices: 88573527--88573566 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88573517 TAAAACAATG
*
88573527 TAATTTTGCCTTTTAACTTGA
1 TAATTTTGACTTTTAACTTGA
*
88573548 TAATTTTGATTTTTAACTT
1 TAATTTTGACTTTTAACTT
88573567 TAGAAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
TAATTTTGACTTTTAACTTGA
Found at i:88573625 original size:70 final size:70
Alignment explanation
Indices: 88573530--88573680 Score: 223
Period size: 70 Copynumber: 2.2 Consensus size: 70
88573520 AACAATGTAA
*
88573530 TTTTGCCTTTTAACTTGATAATTTTGATTTTTAACTTTAGAAAAAGTAAACATTTATCTAA-ACG
1 TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATC-AAGACG
*
88573594 ACGTAG
65 ACATAG
* * * *
88573600 TTTTGCCTTTTAACTTGATAGTTTTGACTTTTAATTTTAGAAAATGTAAACATTTATCAAGATGA
1 TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCAAGACGA
88573665 CATAG
66 CATAG
*
88573670 TTTTGTCTTTT
1 TTTTGCCTTTT
88573681 TTTATTTGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
69 2 0.03
70 71 0.97
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (70 bp):
TTTTGCCTTTTAACTTGATAATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCAAGACGA
CATAG
Found at i:88573984 original size:20 final size:20
Alignment explanation
Indices: 88573946--88573997 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
88573936 TTTTTTGTTA
* *
88573946 AATTTTTTAATATATATTT-T
1 AATTTTTTAA-AGAAATTTCT
88573966 AGATTTTTTAAAGAAATTTCT
1 A-ATTTTTTAAAGAAATTTCT
88573987 AATTTTTTAAA
1 AATTTTTTAAA
88573998 AATATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
AATTTTTTAAAGAAATTTCT
Found at i:88574023 original size:18 final size:19
Alignment explanation
Indices: 88574000--88574035 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
88573990 TTTTTAAAAA
88574000 TATAAAT-TTTAGAATTTC
1 TATAAATATTTAGAATTTC
*
88574018 TATAAATATTTTGAATTT
1 TATAAATATTTAGAATTT
88574036 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (19 bp):
TATAAATATTTAGAATTTC
Found at i:88574035 original size:19 final size:18
Alignment explanation
Indices: 88574000--88574048 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
88573990 TTTTTAAAAA
*
88574000 TATAAAT-TTTAGAATTT
1 TATAAATATTTTGAATTT
88574017 CTATAAATATTTTGAATTT
1 -TATAAATATTTTGAATTT
*
88574036 TAAAAATTATTTT
1 TATAAA-TATTTT
88574049 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:88575453 original size:18 final size:19
Alignment explanation
Indices: 88575431--88575500 Score: 51
Period size: 18 Copynumber: 3.8 Consensus size: 19
88575421 AAACATAGTG
88575431 GATATTTGAAATATTATAT
1 GATATTTGAAATATTATAT
* * *
88575450 -ATATAT-AAACAATA-AT
1 GATATTTGAAATATTATAT
*
88575466 GATATTTGAAATAATTATTT
1 GATATTTGAAAT-ATTATAT
88575486 GAT-TTT-ATAATATTA
1 GATATTTGA-AATATTA
88575501 AAAATTACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 13 0.33
19 9 0.23
20 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (19 bp):
GATATTTGAAATATTATAT
Found at i:88576138 original size:47 final size:46
Alignment explanation
Indices: 88576055--88576150 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 46
88576045 CTTTTCTACA
88576055 AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAAGAAAACTTG
1 AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAA-AAAA-TTG
* ** *
88576103 AAAAAAA-ATTTATTAATTAAAAA-TGTTATTTAAAATAAAAAATTG
1 AAAAAAAGAGTTATTAATTAAAAACT-AAATTAAAAATAAAAAATTG
88576148 AAA
1 AAA
88576151 CAATATGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
45 6 0.14
46 5 0.12
47 25 0.58
48 7 0.16
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (46 bp):
AAAAAAAGAGTTATTAATTAAAAACTAAATTAAAAATAAAAAATTG
Found at i:88583978 original size:46 final size:47
Alignment explanation
Indices: 88583928--88584109 Score: 180
Period size: 46 Copynumber: 3.9 Consensus size: 47
88583918 CACTGACACA
* *
88583928 TCTCGTA-GCCGATGCATGTCCCAGACATGTCTTATACTAGCTTATG
1 TCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTATG
*
88583974 TCTCG-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACT-TG
1 TCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGC-TTATG
* * *
88584020 TCTC-AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-
1 TCTCGTAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCT-T-ATG
** * *
88584069 AAT-GT-GGCCGATGCATGTCCCAGATATGTCTTACACTAGCT
1 TCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCT
88584110 CACAATAACC
Statistics
Matches: 114, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 64 0.56
47 27 0.24
48 20 0.18
49 1 0.01
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
TCTCGTAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTATG
Found at i:88584086 original size:47 final size:44
Alignment explanation
Indices: 88583889--88584110 Score: 146
Period size: 46 Copynumber: 4.8 Consensus size: 44
88583879 GTATATCTGT
* * * * * *
88583889 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTC-GTA
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTC-TCTCAATG
* * * * *
88583935 GCCGATGCATGTCCCAGACATGTCTTATACTAGCTTATGTCTCGA-G
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC---TCTCTCAATG
* *
88583981 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTTGTCTCAAT-
1 GCCGATGCATGTCCCAAACATGTCTTACACT-G-GC-TCTCTCAATG
88584027 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-AATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTC-TCAA--TG
* * *
88584075 GCCGATGCATGTCCCAGATATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTC
88584111 ACAATAACCC
Statistics
Matches: 144, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
44 10 0.07
45 18 0.12
46 70 0.49
47 28 0.19
48 18 0.12
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCTCAATG
Found at i:88586112 original size:12 final size:13
Alignment explanation
Indices: 88586095--88586132 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
88586085 ATCCTGGAAT
88586095 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
88586107 ATTAAGAACACATA
1 ATTAAGAACA-AGA
88586121 ATTAAGAACAAG
1 ATTAAGAACAAG
88586133 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:88601753 original size:30 final size:30
Alignment explanation
Indices: 88601717--88601776 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
88601707 AATGTTCTAA
88601717 TGATCCAAACTTAAAACAAACCCTTTCATT
1 TGATCCAAACTTAAAACAAACCCTTTCATT
*
88601747 TGATCCAAACTTAAAACAACCCCTTTCATT
1 TGATCCAAACTTAAAACAAACCCTTTCATT
88601777 CCTCCGGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.30
Consensus pattern (30 bp):
TGATCCAAACTTAAAACAAACCCTTTCATT
Found at i:88613801 original size:79 final size:79
Alignment explanation
Indices: 88613657--88613837 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
88613647 AAATCACGTA
* * *
88613657 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
88613722 AACTCGCACAAATG
66 AACTCGCACAAATG
* * * *
88613736 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACCAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTACAAATGCCTTCGGGACATAGCCCGGATA-T
*
88613798 AGTATCTCGCACAAATG
63 AGTAACTCGCACAAATG
* *
88613815 CCTTCGGATCTTAGTCCGGATAT
1 CCTTCGGAACTTA-ACCGGATAT
88613838 GGTCACTTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 28 0.33
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:88613815 original size:39 final size:40
Alignment explanation
Indices: 88613690--88613874 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
88613680 GCTACTCGTT
*
88613690 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
88613730 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
88613770 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
88613809 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
88613850 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88613875 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:88613858 original size:79 final size:80
Alignment explanation
Indices: 88613657--88613874 Score: 200
Period size: 79 Copynumber: 2.7 Consensus size: 80
88613647 AAATCACGTA
* * * * *
88613657 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGT-TCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGGGACTTAACCCGGATATAG-TAACTC-TACCAAA-GCCTTCGGGACTTAGCCCGGAATA
88613718 TAGTAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
* *
88613736 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAACCCGGATATAGTAACTC-TACCAAAGCCTTCGGGACTTAGCCCGGAATATA
*
88613799 GTATCTCGCACAAATG
65 GTAACTCGCACAAATG
** * * *
88613815 CCTTC-GGATCTTAGTCCGGATATGGTCACT-TAGCACAAAGCCTTTGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTAACTCTA-C-CAAAGCCTTCGGGACTTAGCCCGGA
88613875 CATCATTCGA
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
77 2 0.02
78 4 0.03
79 71 0.61
80 36 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCTACCAAAGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:88621925 original size:79 final size:81
Alignment explanation
Indices: 88621816--88621998 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
88621806 TACTCGTTCA
* *
88621816 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
88621879 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
88621896 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
88621959 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
88621975 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
88621999 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:88621998 original size:40 final size:40
Alignment explanation
Indices: 88621795--88621998 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
88621785 CGGAATTTAA
** *
88621795 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88621835 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88621875 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88621914 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
88621954 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88621994 CCGGA
1 CCGGA
88621999 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:88625548 original size:46 final size:48
Alignment explanation
Indices: 88625459--88625625 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 48
88625449 TAGTATATCT
*
88625459 GCCGATGCCATGTCCCAGACATGGTCTTACACTA--ATA-GATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCATACG-TCTCG-AG
*
88625505 GCCGATG-CATGTCCCAGACAT-GTCTTATACTAGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCATACGTCTCGAG
* * * *
88625551 GCCTATG-CATGTCCTAGACAT-GTCTTACT-CTAGCACT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTA-TACTAGCA-TACGTCTCGAG
*
88625597 GCCGATGCCATGTCCCAAACATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
88625626 CACTGGCTCT
Statistics
Matches: 103, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 57 0.55
47 15 0.15
48 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCATACGTCTCGAG
Found at i:88629535 original size:49 final size:49
Alignment explanation
Indices: 88629463--88629592 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 49
88629453 GGTAACTGCC
* ** *
88629463 GATGCCGTGTCCTTGACATGGTCTTACACTGGCTAT-CATCATC-GAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCCAT-ATCTG-GGCT
* * * * *
88629512 GATGCCATGTCCCAGATATGGTCTTATACTAGCTCTCGCATATCTGTGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-CATATCTGGGCT
*
88629562 GATGCCATGTCCCAGACGTGGTCTTACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
88629593 ACACATCGCT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 29 0.44
50 33 0.50
51 4 0.06
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCCATATCTGGGCT
Found at i:88643408 original size:22 final size:21
Alignment explanation
Indices: 88643383--88643431 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
88643373 TTTATACTTA
88643383 AATTATTAACATAATTAATTTT
1 AATTATT-ACATAATTAATTTT
**
88643405 AATTAATTTTATAATTAATTTT
1 AATT-ATTACATAATTAATTTT
*
88643427 TATTA
1 AATTA
88643432 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTATTACATAATTAATTTT
Found at i:88643409 original size:10 final size:10
Alignment explanation
Indices: 88643394--88643445 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
88643384 ATTATTAACA
88643394 TAATTAATTT
1 TAATTAATTT
88643404 TAATTAATTTT
1 TAATTAA-TTT
88643415 ATAATTAATTT
1 -TAATTAATTT
*
88643426 TTATTAATTT
1 TAATTAATTT
*
88643436 TGATT-ATTT
1 TAATTAATTT
88643445 T
1 T
88643446 TGATAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TAATTAATTT
Found at i:88643432 original size:22 final size:22
Alignment explanation
Indices: 88643393--88643436 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
88643383 AATTATTAAC
88643393 ATAATTAATTTTAATTAATTTT
1 ATAATTAATTTTAATTAATTTT
*
88643415 ATAATTAATTTTTATTAATTTT
1 ATAATTAATTTTAATTAATTTT
88643437 GATTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATAATTAATTTTAATTAATTTT
Found at i:88644064 original size:21 final size:21
Alignment explanation
Indices: 88644022--88644064 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88644012 CAATTTTCTC
*
88644022 TCTTTATTTCTCGTCCATTTT
1 TCTTTATTTCTCGTCCAATTT
*
88644043 TCTTTA-TTCTCTTGCCAATTT
1 TCTTTATTTCTCGT-CCAATTT
88644064 T
1 T
88644065 ACCTCTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.12, C:0.23, G:0.05, T:0.60
Consensus pattern (21 bp):
TCTTTATTTCTCGTCCAATTT
Found at i:88650002 original size:26 final size:26
Alignment explanation
Indices: 88649973--88650025 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
88649963 CAAAACTTAA
88649973 GGTCCTTAAATGGTAATTAGACCATT
1 GGTCCTTAAATGGTAATTAGACCATT
*
88649999 GGTCCTTATATGGTAATTAGACCATT
1 GGTCCTTAAATGGTAATTAGACCATT
88650025 G
1 G
88650026 AAGGGTAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (26 bp):
GGTCCTTAAATGGTAATTAGACCATT
Found at i:88667631 original size:10 final size:10
Alignment explanation
Indices: 88667613--88667664 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
88667603 ATTATTAACG
*
88667613 TAATGAATTT
1 TAATTAATTT
88667623 TAATTAATTTT
1 TAATTAA-TTT
88667634 ATAATTAATTT
1 -TAATTAATTT
*
88667645 TGATTAATTT
1 TAATTAATTT
*
88667655 TGATT-ATTT
1 TAATTAATTT
88667664 T
1 T
88667665 CGACAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:88667638 original size:22 final size:22
Alignment explanation
Indices: 88667613--88667655 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
88667603 ATTATTAACG
88667613 TAATGAATTTTAATTAATTTTA
1 TAATGAATTTTAATTAATTTTA
* *
88667635 TAATTAATTTTGATTAATTTT
1 TAATGAATTTTAATTAATTTT
88667656 GATTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TAATGAATTTTAATTAATTTTA
Found at i:88671871 original size:12 final size:12
Alignment explanation
Indices: 88671854--88671879 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88671844 GGTTTGGCAT
88671854 GGCCTAGCACAC
1 GGCCTAGCACAC
88671866 GGCCTAGCACAC
1 GGCCTAGCACAC
88671878 GG
1 GG
88671880 GCGTGTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:88674569 original size:42 final size:43
Alignment explanation
Indices: 88674479--88674596 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 43
88674469 TACCGTATCA
* * * * *
88674479 ATGCCATATCCCGGATATGGTCTTACATGAAAT-ATCATATCG
1 ATGCCATATCCCTGATATGGTCTTATACGAAATCATCACACCG
* * *
88674521 ACGCCATGTCCCTGACATGGTCTTATACGAAATCA-CACACCG
1 ATGCCATATCCCTGATATGGTCTTATACGAAATCATCACACCG
* *
88674563 ATGCCATAT-CCTAGATATTGTCTTATACGGAATC
1 ATGCCATATCCCT-GATATGGTCTTATACGAAATC
88674597 TCAGTAGCTC
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.05
42 57 0.93
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCTGATATGGTCTTATACGAAATCATCACACCG
Found at i:88693303 original size:50 final size:49
Alignment explanation
Indices: 88693180--88693368 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 49
88693170 TAGCCAAAGC
* * * *
88693180 TATCTGGTACACATAGTAGCCTGTACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* ** * *
88693229 TATCCGGTACATGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
88693279 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
*
88693330 TATC-GTGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTG-GTACACATAGTAGCCTGCACTTAGTACTACACA
88693369 TGCGACCTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 38 0.33
50 44 0.38
51 34 0.29
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:88693376 original size:101 final size:99
Alignment explanation
Indices: 88693181--88693376 Score: 241
Period size: 101 Copynumber: 2.0 Consensus size: 99
88693171 AGCCAAAGCT
* * * **
88693181 ATCTGGTACACATAGTAGCCTGTACATAGTACTACACATGCGACCAATTATCCGGTACATGTAGT
1 ATCTGATACACATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGT
* *
88693246 AGTCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * * *
88693280 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGTGTACGCAT
1 ATCTGATACACATAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCG-GTACACAT
*
88693344 AGTAGCCTGCACTTAGTACTACACATGCGACCT
63 AGTAGCCTGCACTTAGTACTACACACGCGACCT
88693377 CACAATAGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
99 37 0.46
100 5 0.06
101 39 0.48
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:88699119 original size:39 final size:38
Alignment explanation
Indices: 88699067--88699143 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
88699057 CCTGGAAAAG
*
88699067 AAATAAAAGAAAAACAAAATTAAAAGTTTTTATCTGGAA
1 AAATAAAAGAAAAACAAAATTAAAAGTTTTGAT-TGGAA
* * *
88699106 AAATAAAATAAAAATAGAATTAAAAGTTTTGATTGGAA
1 AAATAAAAGAAAAACAAAATTAAAAGTTTTGATTGGAA
88699144 TTTCAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (38 bp):
AAATAAAAGAAAAACAAAATTAAAAGTTTTGATTGGAA
Found at i:88699898 original size:10 final size:10
Alignment explanation
Indices: 88699871--88699930 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
88699861 TTAAATTCTA
88699871 AAAGATAAAT
1 AAAGATAAAT
88699881 ACAA-ATAAAT
1 A-AAGATAAAT
*
88699891 AAAGATAATT
1 AAAGATAAAT
*
88699901 AAAGATAATT
1 AAAGATAAAT
88699911 AAAGATAAAT
1 AAAGATAAAT
88699921 GAAA-ATAAAT
1 -AAAGATAAAT
88699931 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:88700559 original size:13 final size:13
Alignment explanation
Indices: 88700541--88700571 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88700531 CAATTTTATA
88700541 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
88700554 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
88700567 -TTTTT
1 CTTTTT
88700572 AGTTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:88703317 original size:75 final size:75
Alignment explanation
Indices: 88703187--88703344 Score: 253
Period size: 75 Copynumber: 2.1 Consensus size: 75
88703177 ATGGGGTGTC
* * *
88703187 TGGCTGCAGGTTTTGTGGAGTCTAAGGCAGGAACGCACTATTCCAGGCTATAATAGGGATGGAAT
1 TGGCTGCAGGTTTTGGGGAGTCTAAGGCAAGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
88703252 AAAGGCTATT
66 AAAGGCTATT
* * * *
88703262 TGGCTGCAGGTTTTGGGGAGTTTAGGGTAAGAACGCACTATTCCATGCTAGAATAGGGATGGAAT
1 TGGCTGCAGGTTTTGGGGAGTCTAAGGCAAGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
88703327 AAAGGCTATT
66 AAAGGCTATT
88703337 TGGCTGCA
1 TGGCTGCA
88703345 ATTTTTTTCT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (75 bp):
TGGCTGCAGGTTTTGGGGAGTCTAAGGCAAGAACGCACTATTCCAGGCTAGAATAGGGATGGAAT
AAAGGCTATT
Found at i:88703446 original size:13 final size:13
Alignment explanation
Indices: 88703428--88703452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88703418 TCAACATCCA
88703428 AAAATAAAATAAT
1 AAAATAAAATAAT
88703441 AAAATAAAATAA
1 AAAATAAAATAA
88703453 AAATTGGGTT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:88709081 original size:38 final size:38
Alignment explanation
Indices: 88709001--88709081 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 38
88708991 CCTACGCACC
88709001 TGGAAAAGAAAAAAAAAACAAAATTAAAAGTTTTGATA
1 TGGAAAAGAAAAAAAAAACAAAATTAAAAGTTTTGATA
* *
88709039 TGGAAAA-ATAAAATAAAAAGAGAATTAAAAGTTTTGAT-
1 TGGAAAAGA-AAAA-AAAAACAAAATTAAAAGTTTTGATA
88709077 TGGAA
1 TGGAA
88709082 TTTCGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 1 0.03
38 16 0.41
39 22 0.56
ACGTcount: A:0.59, C:0.01, G:0.16, T:0.23
Consensus pattern (38 bp):
TGGAAAAGAAAAAAAAAACAAAATTAAAAGTTTTGATA
Found at i:88710682 original size:47 final size:45
Alignment explanation
Indices: 88710622--88710784 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 45
88710612 ATAGCCCTTA
*
88710622 TAAGACCACGTCTGAGACATGGCATCGGCATAGAGGTGAGTGCCAGTG
1 TAAGA-CATGTCTGAGACAT-GCATCGGCATAGAGGTG-GTGCCAGTG
** * * *
88710670 TAAGACATGTCTGAGACATGCATCAACCTCGAGGATGTTAGCCAGTG
1 TAAGACATGTCTGAGACATGCATCGGCATAGAGG-TGGT-GCCAGTG
* * * * * *
88710717 TAAGACGTGTCTGGGACATGCATCGG-TTA-AGTTTCGTGCTAGTG
1 TAAGACATGTCTGAGACATGCATCGGCATAGAG-GTGGTGCCAGTG
*
88710761 TAAGACATGTCTGGGACATGCATC
1 TAAGACATGTCTGAGACATGCATC
88710785 AGTATGTATA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
44 29 0.31
45 4 0.04
46 13 0.14
47 44 0.46
48 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
TAAGACATGTCTGAGACATGCATCGGCATAGAGGTGGTGCCAGTG
Found at i:88710692 original size:94 final size:93
Alignment explanation
Indices: 88710527--88710697 Score: 225
Period size: 94 Copynumber: 1.8 Consensus size: 93
88710517 TGAGAGCCAG
* * * * * * * *
88710527 TATAAGACCATGTCTGGGACGTGGCATCAGCATTGAGACAGGGCTAGTGTAATACATGTTTGGGA
1 TATAAGACCACGTCTGAGACATGGCATCAGCATAGAGACAGGGCCAGTGTAAGACATGTCTGAGA
88710592 CATGCATCAACCGCATCATGATAGCCCT
66 CATGCATCAACCGCATCATGATAGCCCT
* ** *
88710620 TATAAGACCACGTCTGAGACATGGCATCGGCATAGAGGTGAGTGCCAGTGTAAGACATGTCTGAG
1 TATAAGACCACGTCTGAGACATGGCATCAGCATAGA-GACAGGGCCAGTGTAAGACATGTCTGAG
88710685 ACATGCATCAACC
65 ACATGCATCAACC
88710698 TCGAGGATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
93 31 0.48
94 34 0.52
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (93 bp):
TATAAGACCACGTCTGAGACATGGCATCAGCATAGAGACAGGGCCAGTGTAAGACATGTCTGAGA
CATGCATCAACCGCATCATGATAGCCCT
Found at i:88727756 original size:22 final size:22
Alignment explanation
Indices: 88727728--88727771 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
88727718 ATATAGCATA
88727728 AATTTCTAGAATTGGAACTAAG
1 AATTTCTAGAATTGGAACTAAG
88727750 AATTTCTAGAATTGGAACTAAG
1 AATTTCTAGAATTGGAACTAAG
88727772 TATATGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
AATTTCTAGAATTGGAACTAAG
Found at i:88729904 original size:10 final size:10
Alignment explanation
Indices: 88729883--88729934 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
88729873 AATTAAATTC
88729883 TAAAAGATAAA
1 TAAAA-ATAAA
88729894 TAAAAATAAA
1 TAAAAATAAA
* *
88729904 TAAAGATAAT
1 TAAAAATAAA
*
88729914 TAAAGATAAA
1 TAAAAATAAA
*
88729924 TGAAAATAAA
1 TAAAAATAAA
88729934 T
1 T
88729935 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 31 0.86
11 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:88729908 original size:20 final size:21
Alignment explanation
Indices: 88729885--88729934 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
88729875 TTAAATTCTA
88729885 AAAGATAAATAAAAATAAAT-
1 AAAGATAAATAAAAATAAATG
* *
88729905 AAAGATAATTAAAGATAAATG
1 AAAGATAAATAAAAATAAATG
88729926 AAA-ATAAAT
1 AAAGATAAAT
88729935 CCTAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (21 bp):
AAAGATAAATAAAAATAAATG
Found at i:88739454 original size:19 final size:19
Alignment explanation
Indices: 88739430--88739489 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
88739420 AAATTACAAA
*
88739430 TTTTTACAATTTTTAATAT
1 TTTTTAAAATTTTTAATAT
*
88739449 TTTTTATAATTTTTACA-AT
1 TTTTTAAAATTTTTA-ATAT
*
88739468 ATTTTAAAATTTTTAATAT
1 TTTTTAAAATTTTTAATAT
88739487 TTT
1 TTT
88739490 AATATTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.94
20 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAAAATTTTTAATAT
Found at i:88739463 original size:28 final size:29
Alignment explanation
Indices: 88739428--88739489 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
88739418 TTAAATTACA
* *
88739428 AATTTTTACAAT-TTTTAATATTTTTTAT
1 AATTTTTACAATATTTTAAAATTTTTAAT
88739456 AATTTTTACAATATTTTAAAATTTTTAAT
1 AATTTTTACAATATTTTAAAATTTTTAAT
88739485 -ATTTT
1 AATTTT
88739490 AATATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
AATTTTTACAATATTTTAAAATTTTTAAT
Found at i:88739483 original size:9 final size:9
Alignment explanation
Indices: 88739427--88739489 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
88739417 TTTAAATTAC
88739427 AAATTTTTA
1 AAATTTTTA
*
88739436 CAATTTTTA
1 AAATTTTTA
*
88739445 ATATTTTTTA
1 A-AATTTTTA
*
88739455 TAATTTTTA
1 AAATTTTTA
*
88739464 CAATATTTTA
1 AAAT-TTTTA
88739474 AAATTTTTA
1 AAATTTTTA
*
88739483 ATATTTT
1 AAATTTT
88739490 AATATTATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
9 29 0.66
10 15 0.34
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
AAATTTTTA
Found at i:88740045 original size:21 final size:21
Alignment explanation
Indices: 88740014--88740060 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
88740004 ATTTAATTTC
88740014 TTTTATAAAATTTA-TAAT-T
1 TTTTATAAAATTTAGTAATAT
88740033 TTTTATAATAAATTTAGTAATAT
1 TTTTAT-A-AAATTTAGTAATAT
88740056 TTTTA
1 TTTTA
88740061 GTTTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 1 0.04
21 7 0.29
22 4 0.17
23 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTATAAAATTTAGTAATAT
Found at i:88747737 original size:16 final size:16
Alignment explanation
Indices: 88747716--88747750 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
88747706 CTCCTAATAT
88747716 ATAAACTACTTTTATG
1 ATAAACTACTTTTATG
88747732 ATAAACTACTTTTATG
1 ATAAACTACTTTTATG
88747748 ATA
1 ATA
88747751 GATATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
ATAAACTACTTTTATG
Found at i:88748025 original size:3 final size:3
Alignment explanation
Indices: 88748017--88748043 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
88748007 TTTTATTAGT
88748017 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
88748044 AAAACATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:88751408 original size:29 final size:29
Alignment explanation
Indices: 88751375--88751434 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
88751365 ATTTATCTAC
*
88751375 AAGATAAATATTAAATTAAATCCAATATT
1 AAGATAAATATTAAATTAAATCAAATATT
* *
88751404 AAGATAAGTATTAAATTAAATTAAATATT
1 AAGATAAATATTAAATTAAATCAAATATT
88751433 AA
1 AA
88751435 ATTTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (29 bp):
AAGATAAATATTAAATTAAATCAAATATT
Found at i:88751421 original size:17 final size:17
Alignment explanation
Indices: 88751412--88751450 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
88751402 TTAAGATAAG
88751412 TATTAAATTAAATTAAA
1 TATTAAATTAAATTAAA
*
88751429 TATTAAATT-TATTAAAA
1 TATTAAATTAAATT-AAA
88751446 TATTA
1 TATTA
88751451 TTATTTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATTAAATTAAA
Found at i:88752994 original size:70 final size:70
Alignment explanation
Indices: 88752912--88753049 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
88752902 CCATGCCAGC
88752912 CCCCTGCCTTCGCCCTTAATTATTATAAGTATTTGTTTTTTTTTTGTAAAATCTACAAAAGCAAC
1 CCCCTGCCTTCGCCCTTAATTATTATAAGTATTTGTTTTTTTTTTGTAAAATCTACAAAAGCAAC
88752977 AATAG
66 AATAG
88752982 CCCCTGCCTTCGCCCTTAATTATTATAAGTATTTGTTTTTTTTTTGTAAAATCTACAAAAGCAAC
1 CCCCTGCCTTCGCCCTTAATTATTATAAGTATTTGTTTTTTTTTTGTAAAATCTACAAAAGCAAC
88753047 AAT
66 AAT
88753050 TTAGACTAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (70 bp):
CCCCTGCCTTCGCCCTTAATTATTATAAGTATTTGTTTTTTTTTTGTAAAATCTACAAAAGCAAC
AATAG
Found at i:88759426 original size:15 final size:15
Alignment explanation
Indices: 88759406--88759450 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
88759396 ATTTTATCCT
88759406 ATTTTTA-TAATAATA
1 ATTTTTAGTAA-AATA
88759421 ATTTTTAGTAAAATA
1 ATTTTTAGTAAAATA
*
88759436 ATGATTTAGTAAAAT
1 AT-TTTTAGTAAAAT
88759451 CATTCGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
ATTTTTAGTAAAATA
Found at i:88760516 original size:11 final size:11
Alignment explanation
Indices: 88760500--88760526 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
88760490 CTAAAATATC
88760500 TAGATAAAATA
1 TAGATAAAATA
88760511 TAGATAAAATA
1 TAGATAAAATA
88760522 TAGAT
1 TAGAT
88760527 TGATTCCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (11 bp):
TAGATAAAATA
Found at i:88776986 original size:15 final size:15
Alignment explanation
Indices: 88776949--88776978 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88776939 TAAGACTTTT
*
88776949 TTATAATAAATATCA
1 TTATAATAAAAATCA
88776964 TTATAATAAAAATCA
1 TTATAATAAAAATCA
88776979 GTTAAATATC
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:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTATAATAAAAATCA
Found at i:88777786 original size:14 final size:14
Alignment explanation
Indices: 88777767--88777803 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
88777757 GCTTAATATT
88777767 TATTATAAACAATA
1 TATTATAAACAATA
* *
88777781 TATTATGAATAATA
1 TATTATAAACAATA
88777795 TATTATAAA
1 TATTATAAA
88777804 AAAATGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (14 bp):
TATTATAAACAATA
Found at i:88778846 original size:24 final size:24
Alignment explanation
Indices: 88778804--88778852 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
88778794 ATTCGGATTC
* *
88778804 GTTACTTGGGGCTGATGAGGATGA
1 GTTACTTCGGGCTCATGAGGATGA
* *
88778828 GTTACTTCGGGCTCCTGAGGGTGA
1 GTTACTTCGGGCTCATGAGGATGA
88778852 G
1 G
88778853 GAATCCGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.16, C:0.14, G:0.41, T:0.29
Consensus pattern (24 bp):
GTTACTTCGGGCTCATGAGGATGA
Found at i:88782551 original size:11 final size:11
Alignment explanation
Indices: 88782529--88782563 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
88782519 TATTTATACT
88782529 TATATACATATG
1 TATAT-CATATG
*
88782541 TGTATCATATG
1 TATATCATATG
88782552 TATATCATATG
1 TATATCATATG
88782563 T
1 T
88782564 TATAAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (11 bp):
TATATCATATG
Found at i:88793665 original size:104 final size:105
Alignment explanation
Indices: 88793419--88793686 Score: 450
Period size: 104 Copynumber: 2.6 Consensus size: 105
88793409 TTGTATATAA
** *
88793419 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
88793483 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
88793524 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
88793589 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
88793628 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
88793687 ATAACGGTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.55
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:88887369 original size:25 final size:27
Alignment explanation
Indices: 88887332--88887384 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
88887322 TCAAACATGC
88887332 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
88887358 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
88887384 A
1 A
88887385 AATGTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:88888910 original size:25 final size:25
Alignment explanation
Indices: 88888857--88888959 Score: 174
Period size: 25 Copynumber: 4.2 Consensus size: 25
88888847 CATGAAATTC
88888857 ATCAT-GAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
88888881 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
*
88888906 ATCATGGAATATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
88888931 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
88888956 ATCA
1 ATCA
88888960 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
24 19 0.25
25 43 0.57
26 13 0.17
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:88893135 original size:25 final size:26
Alignment explanation
Indices: 88893098--88893149 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
88893088 TCAAACATGC
88893098 ATTTAGGTCAATTTA-ACCCTAGGGGT
1 ATTTAGGTCAATTTACA-CCTAGGGGT
* *
88893124 ATTTCGGT-AATTTTCACCTAGGGGT
1 ATTTAGGTCAATTTACACCTAGGGGT
88893149 A
1 A
88893150 AAAGTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (26 bp):
ATTTAGGTCAATTTACACCTAGGGGT
Found at i:88894660 original size:26 final size:26
Alignment explanation
Indices: 88894629--88894735 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
88894619 TGAAATTCCC
*
88894629 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88894655 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
88894681 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
88894707 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88894733 ATC
1 ATC
88894736 CATTTGTATC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88897141 original size:7 final size:7
Alignment explanation
Indices: 88897131--88897162 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
88897121 AGATAATACA
88897131 TATCAAG
1 TATCAAG
*
88897138 TATCAAA
1 TATCAAG
88897145 TATCAAG
1 TATCAAG
88897152 TATCAAG
1 TATCAAG
88897159 TATC
1 TATC
88897163 TAATGGGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (7 bp):
TATCAAG
Found at i:88897253 original size:9 final size:9
Alignment explanation
Indices: 88897220--88897537 Score: 223
Period size: 9 Copynumber: 36.6 Consensus size: 9
88897210 TATTTATGTA
88897220 TTATGTAAG
1 TTATGTAAG
*
88897229 TTAAGTAAG
1 TTATGTAAG
*
88897238 TTTTGTAAG
1 TTATGTAAG
88897247 TTATGT-A-
1 TTATGTAAG
* *
88897254 -TATAT-AT
1 TTATGTAAG
88897261 TTATGT-A-
1 TTATGTAAG
88897268 TTATGTAAG
1 TTATGTAAG
*
88897277 TTAAGTAAG
1 TTATGTAAG
*
88897286 TTTTGTAAG
1 TTATGTAAG
88897295 TTATGTAAG
1 TTATGTAAG
* *
88897304 ATATGATATG
1 TTATG-TAAG
* * *
88897314 ATATAT-AT
1 TTATGTAAG
88897322 TTATGTAAG
1 TTATGTAAG
88897331 TTATGTAAG
1 TTATGTAAG
* *
88897340 TTATAT-AT
1 TTATGTAAG
*
88897348 TTATCTAAG
1 TTATGTAAG
*
88897357 TTATATAAG
1 TTATGTAAG
88897366 TTATGTAAG
1 TTATGTAAG
88897375 TTATGTAAG
1 TTATGTAAG
*
88897384 TTATGATATG
1 TTATG-TAAG
* * *
88897394 ATATAT-AT
1 TTATGTAAG
88897402 TTATGT-A-
1 TTATGTAAG
88897409 TTATGTAAG
1 TTATGTAAG
*
88897418 TTATGATATG
1 TTATG-TAAG
* * *
88897428 ATATAT-AT
1 TTATGTAAG
*
88897436 TTGTGTAAG
1 TTATGTAAG
88897445 TTATGTAAG
1 TTATGTAAG
* *
88897454 TTATAT-AT
1 TTATGTAAG
*
88897462 TTATCTAAG
1 TTATGTAAG
88897471 TTATGTAAG
1 TTATGTAAG
88897480 TTATGTAAG
1 TTATGTAAG
* *
88897489 TTATAT-AT
1 TTATGTAAG
*
88897497 TTATCTAAG
1 TTATGTAAG
*
88897506 TTATATAAG
1 TTATGTAAG
*
88897515 TTATGTAAA
1 TTATGTAAG
88897524 TTATGTAAG
1 TTATGTAAG
88897533 TTATG
1 TTATG
88897538 ATATGATATA
Statistics
Matches: 241, Mismatches: 54, Indels: 28
0.75 0.17 0.09
Matches are distributed among these distances:
6 5 0.02
7 12 0.05
8 38 0.16
9 167 0.69
10 19 0.08
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:88897258 original size:48 final size:48
Alignment explanation
Indices: 88897206--88897420 Score: 205
Period size: 48 Copynumber: 4.5 Consensus size: 48
88897196 GATTTTCAAG
*
88897206 TATATATTTATGTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTA
1 TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
*
88897254 TATATATTTATGTATTATGTAAGTTAAGTAAGTTTTGTAAGTTATGTA
1 TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
* * * * * *
88897302 -AGATATGATATG-A-TATAT-ATTTATGTAAGTTATGTAAGTTATATA
1 TATATAT-TTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
* * * *
88897347 TTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATG--A--TATG-A
1 --TATAT-ATTTATGT-A-TTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
88897395 TATATATTTATGTATTATGTAAGTTA
1 TATATATTTATGTATTATGTAAGTTA
88897421 TGATATGATA
Statistics
Matches: 139, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
43 12 0.09
44 1 0.01
45 29 0.21
46 8 0.06
47 6 0.04
48 58 0.42
49 4 0.03
50 1 0.01
51 1 0.01
52 4 0.03
53 15 0.11
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (48 bp):
TATATATTTATGTATTATGTAAGTTAAGTAAGTTATGTAAGTTATGTA
Found at i:88897285 original size:57 final size:63
Alignment explanation
Indices: 88897224--88897550 Score: 191
Period size: 61 Copynumber: 5.5 Consensus size: 63
88897214 TATGTATTAT
* *
88897224 GTAAGTTAAGTAAGTTTTGTAAG-T-T-ATGT-ATATATATTTATGT-A-TTATGTAAGTTAA
1 GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
**
88897281 GTAAGTTTTGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTT-A
1 GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
* ** * * * *
88897343 -TATATTTATCTAAGTTATATAAG---T--TATG---TA-AGTTATGTAAGTTATGATATGAT-A
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATG-TAAGTTAA
* * * *
88897397 -TATATTTATGT-A-TTATGTAAGTTATGATATGATATATATTTGTGTAAGTTATGTAAGTT-A
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
* ** * * * * * *
88897457 -TATATTTATCTAAGTTATGTAAGTTATG-TAAGTTATATATTTATCTAAGTTATATAAGTTAT
1 GTA-AGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
* * *
88897519 GTAAATTATGTAAGTTATGATATGATAT-ATAT
1 GTAAGTTAAGTAAGTTATG-TAAGATATGATAT
88897551 TTAACATTAA
Statistics
Matches: 218, Mismatches: 29, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
52 8 0.04
53 16 0.07
54 17 0.08
55 1 0.00
57 28 0.13
58 1 0.00
59 2 0.01
60 20 0.09
61 58 0.27
62 46 0.21
63 21 0.10
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (63 bp):
GTAAGTTAAGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTAA
Found at i:88897373 original size:35 final size:35
Alignment explanation
Indices: 88897291--88897527 Score: 232
Period size: 35 Copynumber: 6.7 Consensus size: 35
88897281 GTAAGTTTTG
* * * *
88897291 TAAGTTATGTAAGATATGATATGATATATATTTATG
1 TAAGTTATGTAAGTTATG-TAAGTTATATATTTATA
* * * *
88897327 TAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATA
1 TAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATA
*
88897362 TAAGTTATGTAAGTTATGTAAGTTATGATA-TGATA
1 TAAGTTATGTAAGTTATGTAAGTTAT-ATATTTATA
* *
88897397 TATATTTATGT-A-TTATGTAAGTTATGATA-TGATA
1 TA-AGTTATGTAAGTTATGTAAGTTAT-ATATTTATA
* * *
88897431 TATATTTGTGTAAGTTATGTAAGTTATATATTTATC
1 TA-AGTTATGTAAGTTATGTAAGTTATATATTTATA
*
88897467 TAAGTTATGTAAGTTATGTAAGTTATATATTTATC
1 TAAGTTATGTAAGTTATGTAAGTTATATATTTATA
* *
88897502 TAAGTTATATAAGTTATGTAAATTAT
1 TAAGTTATGTAAGTTATGTAAGTTAT
88897528 GTAAGTTATG
Statistics
Matches: 174, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
34 36 0.21
35 90 0.52
36 47 0.27
37 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (35 bp):
TAAGTTATGTAAGTTATGTAAGTTATATATTTATA
Found at i:88897414 original size:34 final size:35
Alignment explanation
Indices: 88897375--88897553 Score: 166
Period size: 34 Copynumber: 4.8 Consensus size: 35
88897365 GTTATGTAAG
88897375 TTATGTAAGTTATGATATGATATATATTTATGT-A-
1 TTATGTAAGTTAT-ATATGATATATATTTATGTAAG
*
88897409 TTATGTAAGTTATGATATGATATATATTTGTGTAAG
1 TTATGTAAGTTAT-ATATGATATATATTTATGTAAG
* * *
88897445 TTATGTAAGTTATATAT-TTATCTAAGTTATGTAAG
1 TTATGTAAGTTATATATGATATAT-ATTTATGTAAG
* *
88897480 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATA-TGA--T-A--TATAT---TTATGTAAG
88897524 TTATGTAAGTTATGATATGATATATATTTA
1 TTATGTAAGTTAT-ATATGATATATATTTA
88897554 ACATTAAGAT
Statistics
Matches: 121, Mismatches: 10, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
34 36 0.30
35 30 0.25
36 17 0.14
39 6 0.05
40 1 0.01
41 2 0.02
42 3 0.02
44 23 0.19
45 3 0.02
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.49
Consensus pattern (35 bp):
TTATGTAAGTTATATATGATATATATTTATGTAAG
Found at i:88897426 original size:114 final size:114
Alignment explanation
Indices: 88897282--88897553 Score: 404
Period size: 114 Copynumber: 2.4 Consensus size: 114
88897272 GTAAGTTAAG
* *
88897282 TAAGTTTTGTAAGTTATGTAAGATATGATATGATATATATTTATGTAAGTTATGTAAGTTATATA
1 TAAGTTATGTAA-TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATATA
* *
88897347 TTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATGATATGATATA
65 TTTATCTAAGTTATATAAGTTATGTAAGTTATAT-AGTTAT-ATAAGATATA
* *
88897399 T-ATTTATGT-ATTATGTAAGTTATGATATGATATATATTTGTGTAAGTTATGTAAGTTATATAT
1 TAAGTTATGTAATTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATATAT
* * * *
88897462 TTATCTAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATA
66 TTATCTAAGTTATATAAGTTATGTAAGTTATATAGTTATATAAGATATA
88897511 TAAGTTATGTAAATTATGTAAGTTATGATATGATATATATTTA
1 TAAGTTATGT-AATTATGTAAGTTATGATATGATATATATTTA
88897554 ACATTAAGAT
Statistics
Matches: 140, Mismatches: 12, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
112 8 0.06
113 12 0.09
114 82 0.59
115 31 0.22
116 6 0.04
117 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (114 bp):
TAAGTTATGTAATTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATATAT
TTATCTAAGTTATATAAGTTATGTAAGTTATATAGTTATATAAGATATA
Found at i:88897459 original size:26 final size:26
Alignment explanation
Indices: 88897415--88897541 Score: 112
Period size: 26 Copynumber: 4.8 Consensus size: 26
88897405 TGTATTATGT
* * *
88897415 AAGTTATGATATGATATATATTTGTGT
1 AAGTTATG-TAAGTTATATATTTATGT
*
88897442 AAGTTATGTAAGTTATATATTTATCT
1 AAGTTATGTAAGTTATATATTTATGT
* * *
88897468 AAGTTATGTAAGTTATGTAAGTTATAT
1 AAGTTATGTAAGTTATAT-ATTTATGT
* * *
88897495 -ATTTATCTAAGTTATATAAGTTATGT
1 AAGTTATGTAAGTTATAT-ATTTATGT
*
88897521 AAATTATGTAAGTTATGATAT
1 AAGTTATGTAAGTTAT-ATAT
88897542 GATATATATT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
26 53 0.64
27 28 0.34
28 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (26 bp):
AAGTTATGTAAGTTATATATTTATGT
Found at i:88897489 original size:44 final size:44
Alignment explanation
Indices: 88897439--88897553 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
88897429 TATATATTTG
* *
88897439 TGTAAGTTATGTAAGTTATATATTTATCTAAGTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATATATTTATATAAGTTATGTAAATTA
* * * *
88897483 TGTAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAATTA
1 TGTAAGTTATGTAAGTTATAT-ATTTATATAAGTTATGTAAATTA
* *
88897527 TGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATG-TAAGTTATATATTTA
88897554 ACATTAAGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
43 6 0.11
44 41 0.73
45 5 0.09
46 4 0.07
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.48
Consensus pattern (44 bp):
TGTAAGTTATGTAAGTTATATATTTATATAAGTTATGTAAATTA
Found at i:88898271 original size:23 final size:23
Alignment explanation
Indices: 88898241--88898286 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
88898231 CTTTTTTATT
*
88898241 ATTATCAAATGAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
88898264 ATTATCAAATAAATTTTCTTAAC
1 ATTATCAAATAAATTTTCTTAAC
88898287 CAAATACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTATCAAATAAATTTTCTTAAC
Found at i:88899135 original size:14 final size:14
Alignment explanation
Indices: 88899116--88899160 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
88899106 AACAACCCAA
88899116 GATATATGCATATT
1 GATATATGCATATT
88899130 GATATATG--TA-T
1 GATATATGCATATT
88899141 -ATATATGCATATT
1 GATATATGCATATT
88899154 GATATAT
1 GATATAT
88899161 ATATACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 1 0.04
12 4 0.15
13 1 0.04
14 14 0.52
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (14 bp):
GATATATGCATATT
Found at i:88899147 original size:24 final size:24
Alignment explanation
Indices: 88899117--88899165 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
88899107 ACAACCCAAG
*
88899117 ATATATGCATATTGATATATGTAT
1 ATATATGCATATTGATATATATAT
88899141 ATATATGCATATTGATATATATAT
1 ATATATGCATATTGATATATATAT
88899165 A
1 A
88899166 CATTACAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (24 bp):
ATATATGCATATTGATATATATAT
Found at i:88902203 original size:18 final size:17
Alignment explanation
Indices: 88902151--88902201 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
88902141 GACAAATGGG
88902151 TTTGATTTGGGGGAAAT
1 TTTGATTTGGGGGAAAT
* * *
88902168 TTAGGGTTTAGGGGAAAT
1 TT-TGATTTGGGGGAAAT
88902186 TTTGATTTGGGGGAAA
1 TTTGATTTGGGGGAAA
88902202 ATAAGGGGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.37
Consensus pattern (17 bp):
TTTGATTTGGGGGAAAT
Found at i:88903353 original size:22 final size:21
Alignment explanation
Indices: 88903311--88903356 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
88903301 TTTAATCAAT
*
88903311 TAACCCTTAAACCCTATACAC
1 TAACCCTTAAACCATATACAC
88903332 TAACCCTTAAAACCATGA-ACAC
1 TAACCCTT-AAACCAT-ATACAC
88903354 TAA
1 TAA
88903357 GACCCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 13 0.59
23 1 0.05
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (21 bp):
TAACCCTTAAACCATATACAC
Found at i:88903493 original size:36 final size:38
Alignment explanation
Indices: 88903453--88903532 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
88903443 CCCGGCCCAT
*
88903453 ACCATAAACTTAACATA-A-TATACCATTGAACCCTAA
1 ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
*
88903489 ACCATAAACTTAAAATATATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
88903527 ACCATA
1 ACCATA
88903533 GGCCTTAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 16 0.40
37 1 0.03
38 23 0.57
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.26
Consensus pattern (38 bp):
ACCATAAACTTAAAATATATTATACCATTGAACCCTAA
Found at i:88903716 original size:21 final size:21
Alignment explanation
Indices: 88903692--88903764 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
88903682 GGGTTTTAGA
88903692 GTTTATGGATTAATGTTTAAG
1 GTTTATGGATTAATGTTTAAG
** * *
88903713 GTTTATGTTTTAGA-ATTTAGG
1 GTTTATGGATTA-ATGTTTAAG
* * *
88903734 GTTTAGGGTTTAATGTTTAAT
1 GTTTATGGATTAATGTTTAAG
88903755 GTTTA-GGATT
1 GTTTATGGATT
88903765 TAACGGTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
20 5 0.12
21 34 0.85
22 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (21 bp):
GTTTATGGATTAATGTTTAAG
Found at i:88904376 original size:26 final size:26
Alignment explanation
Indices: 88904347--88904402 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
88904337 TGATACAAAT
88904347 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88904373 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88904399 TGAT
1 TGAT
88904403 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88905850 original size:30 final size:30
Alignment explanation
Indices: 88905816--88905875 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88905806 CGTGAAAAGT
88905816 AGGAATATGCATGAAAAACCCTAAAATAGA
1 AGGAATATGCATGAAAAACCCTAAAATAGA
88905846 AGGAATATGCATGAAAAACCCTAAAATAGA
1 AGGAATATGCATGAAAAACCCTAAAATAGA
88905876 TAAATTACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.17, T:0.17
Consensus pattern (30 bp):
AGGAATATGCATGAAAAACCCTAAAATAGA
Found at i:88907261 original size:41 final size:41
Alignment explanation
Indices: 88907112--88907282 Score: 130
Period size: 41 Copynumber: 4.2 Consensus size: 41
88907102 AACATTTTGG
* * ** * *
88907112 GGCGTTTGGACCAAAAACGCCATTACTGCTCAGTTTTTAGT
1 GGCGTTTGGGCCAAAAAAGCCGCTATTGATCAGTTTTTAGT
** * *
88907153 GGCGTTT--TACATAAAAACGCTGCTATTCATCAGTTTTTAGT
1 GGCGTTTGGGCCA-AAAAA-GCCGCTATTGATCAGTTTTTAGT
** * * ** *
88907194 GGCGTTTTAGCTAAAAACGCTTCTATTGATCAGTTTTTGGT
1 GGCGTTTGGGCCAAAAAAGCCGCTATTGATCAGTTTTTAGT
* * *
88907235 GGCGTTTGGGCCAAAAAAGCCGCTATTGTTCAGTTTTTTGC
1 GGCGTTTGGGCCAAAAAAGCCGCTATTGATCAGTTTTTAGT
88907276 GGCGTTT
1 GGCGTTT
88907283 AACGCCGTTA
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 90 0.89
42 4 0.04
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
GGCGTTTGGGCCAAAAAAGCCGCTATTGATCAGTTTTTAGT
Found at i:88913312 original size:28 final size:27
Alignment explanation
Indices: 88913214--88913312 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 27
88913204 GTGTTAATTC
* *
88913214 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCC-TAGCCCATATCAGTATCAATCTG
* *
88913242 GGCCATAGCCCCT-TACAGTATCAGAGTTTATTG
1 GGCC-TAGCCCATAT-CAGTATCA-A---T-CTG
88913275 GGCCTAGCCCATATCAGTATCAATCTG
1 GGCCTAGCCCATATCAGTATCAATCTG
88913302 GGCCGTAGCCC
1 GGCC-TAGCCC
88913313 TATTACAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 24 0.43
29 1 0.02
31 1 0.02
32 16 0.29
33 7 0.12
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (27 bp):
GGCCTAGCCCATATCAGTATCAATCTG
Found at i:88913334 original size:60 final size:60
Alignment explanation
Indices: 88913214--88913337 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 60
88913204 GTGTTAATTC
* * *
88913214 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTTTATTG
1 GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTG
* *
88913275 GGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTG
1 GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTG
88913335 GGC
1 GGC
88913338 ATTGGCCATA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
59 4 0.07
60 42 0.76
61 9 0.16
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (60 bp):
GGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTG
Found at i:88917854 original size:25 final size:23
Alignment explanation
Indices: 88917733--88917861 Score: 93
Period size: 23 Copynumber: 5.6 Consensus size: 23
88917723 ATTTTTTTGT
*
88917733 TATTAT-TATATTTCTTAATATTA
1 TATTATGTATA-TTCTTAATACTA
* * *
88917756 TATTATATATATTCTT-TTAATA
1 TATTATGTATATTCTTAATACTA
* * *
88917778 TATTAGGTATATTCTAAATTCTA
1 TATTATGTATATTCTTAATACTA
* * *
88917801 TATTACGTATATATATT-ATATTA
1 TATTATGTATAT-TCTTAATACTA
*
88917824 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATAT-TC-TTAATACTA
*
88917849 TATTATTTATATT
1 TATTATGTATATT
88917862 TTTTTTTTCT
Statistics
Matches: 82, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
22 17 0.21
23 41 0.50
24 9 0.11
25 15 0.18
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATGTATATTCTTAATACTA
Found at i:88917907 original size:22 final size:23
Alignment explanation
Indices: 88917877--88917943 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
88917867 TTTCTACAGG
*
88917877 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
88917899 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
88917924 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
88917944 TTTATATCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:88917954 original size:27 final size:25
Alignment explanation
Indices: 88917888--88917959 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
88917878 TATCTTATGT
* *
88917888 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
88917912 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
88917937 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
88917960 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:88917982 original size:78 final size:76
Alignment explanation
Indices: 88917810--88917982 Score: 179
Period size: 78 Copynumber: 2.2 Consensus size: 76
88917800 ATATTACGTA
* * * *
88917810 TATATATTATATTATTTTATGTATATATCTTTAATACTATATTATTTATATTTTTTTTTTCTACA
1 TATATATTATATTATATTATGTATATATCTTTAACACTATATTATTCATATTTTTTTTATCTA-A
*
88917875 GGTTATCTTATG
65 GGTTATCATATG
* * * *
88917887 TATATATTTTAATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTATATC
1 TATATATTAT-ATTATATTATGTATATATCTTTAACACTATATTAT-T-CATATTTTTTT-TATC
**
88917952 T-ATTTTATACATATG
62 TAAGGTTAT-CATATG
88917967 TATATATTATA-TATAT
1 TATATATTATATTATAT
88917983 CTTAACATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
77 9 0.11
78 35 0.44
79 7 0.09
80 24 0.30
81 4 0.05
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (76 bp):
TATATATTATATTATATTATGTATATATCTTTAACACTATATTATTCATATTTTTTTTATCTAAG
GTTATCATATG
Found at i:88918034 original size:25 final size:24
Alignment explanation
Indices: 88918006--88918061 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
88917996 GTTATATTTT
*
88918006 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
88918031 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
88918054 CACTATTA
1 CACTATTA
88918062 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:88930649 original size:73 final size:74
Alignment explanation
Indices: 88930564--88931562 Score: 772
Period size: 71 Copynumber: 13.6 Consensus size: 74
88930554 AGTATTCATT
* * *
88930564 TGTCTTTTAAAAAAATCAGCTCATA-TGCGAGAGGTGAGTTGAA-CTCAAACACCGTTGATGTGT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACA-CGTTGAGGTAT
88930627 TTTCAATTTC
65 TTTCAATTTC
* * *
88930637 TGTCTTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGACACATTGAGGTATT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTATT
88930702 TTCAATTTC
66 TTCAATTTC
* * * *
88930711 TGT-TTTTCAAAAAAATCAACT-GTATT-CGCATTA-GTGAGTTGAACCTC-AAGACGCTGAGGT
1 TGTCTTTT-AAAAAAATCAACTCATATTGCG-A-GAGGTGAGTTGAACCTCAAACACGTTGAGGT
* *
88930771 AATTTCAATTTT
63 ATTTTCAATTTC
* *
88930783 TGT-TTGT-CAAAAATCAACTTCATATTGCGAGA-GTGAGTTGAACCTCAAACACG-TGAGGTAT
1 TGTCTTTTAAAAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTA-
88930844 TTTTCAATTT-
64 TTTTCAATTTC
*
88930854 TGTC-TTT-AAAAAATCAGCTCATATTGCGAGAGGTG-GTTGAACCTCAAGACACGTTGA-GTAT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA-ACACGTTGAGGTAT
*
88930915 TTTTAATTT-
65 TTTCAATTTC
* * * * * * *
88930924 T-TGTTTTCAAAAAATCAACTCATATTGCGATA-GTTAGTTGAACCTC-AAGACGCTGAGGTAAT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTATT
88930986 TTCAATTT-
66 TTCAATTTC
* * *
88930994 TGT-TTGT-CAAAAGTCAACTCATATTGCGAGA-GTGAGTTTGAACCTCAAGACACGTTGAGGTA
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAACCTCAA-ACACGTTGAGGTA
88931056 TTTTCCAATTTC
64 TTTT-CAATTTC
* * * *
88931068 TAT-TTTTCAAAAAAATCAACTCATATTTGC-AAAGGTGAGTTGAACCTC-AAGACGCTGAGGTA
1 TGTCTTTT-AAAAAAATCAACTCATA-TTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTA
* *
88931130 ATTTCAATTTT
64 TTTTCAATTTC
* * * *
88931141 TGT-TTGTCAAAAAAT-AACTCATATTGCGAGA-GTGAG-TGAGCCTCAGA-ACG-TGA-GTA-T
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTATT
88931198 TTCAATTTC
66 TTCAATTTC
* * *
88931207 TATCTTTCAAAAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-GTAT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA-ACACGTTGAGGTAT
*
88931270 TTCTCATTTATC
65 TT-TCAATT-TC
* *** * * * *
88931282 TTTC-CAAAAAAAAATC-GCTCA-ATTGC-AGAAGGTGAGTTGAACCTC-AAGACGCTGAGGTGT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAG-AGGTGAGTTGAACCTCAAACACGTTGAGGTAT
*
88931342 TTTCCATTTC
65 TTTCAATTTC
** * * ** *
88931352 TGTCTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAACCTTGACTCACACGCTGAGGT
1 TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-T--CAAACACGTTGAGGT
*
88931417 ATTTTCAAAATTC
63 ATTTTC-AATTTC
* *
88931430 TGT-TTTTCAAATTTTGTTTTTCAAAAATC-ACTCATATTGCGAGAGGTGAGTTCAAGCCTCAGA
1 TGTCTTTT--AA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCAAA
*
88931493 CACGCTGAGGTATTTTCAATTTC
52 CACGTTGAGGTATTTTCAATTTC
* *
88931516 TTTTCAATTTATGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 -TGTC---TT-T-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
88931563 AGCCCAGATC
Statistics
Matches: 762, Mismatches: 91, Indels: 138
0.77 0.09 0.14
Matches are distributed among these distances:
66 11 0.01
67 27 0.04
68 8 0.01
69 52 0.07
70 91 0.12
71 116 0.15
72 89 0.12
73 107 0.14
74 92 0.12
75 13 0.02
76 26 0.03
77 27 0.04
78 7 0.01
79 2 0.00
80 7 0.01
81 23 0.03
86 5 0.01
87 21 0.03
89 24 0.03
90 9 0.01
91 3 0.00
92 1 0.00
93 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (74 bp):
TGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAACACGTTGAGGTATT
TTCAATTTC
Found at i:88930840 original size:71 final size:70
Alignment explanation
Indices: 88930352--88931398 Score: 649
Period size: 73 Copynumber: 14.6 Consensus size: 70
88930342 TATTCACATT
* * * * *
88930352 TTTTCAAAACTCAACTCATATTGCAAGAGCGTGAG-TGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGC--GAGAGTGAGTTGAACCTCAA-ACACGCTGAGGTAATTTC
*
88930416 AATTTTCAG
63 AATTTT-TG
* * * *
88930425 TTTTTCAAAAAGAATTAACTCATATTGCGA-AGTCGTGGTTG-AGC-CAGGACACGCTGGATGGT
1 -TTTTC--AAA-AATCAACTCATATTGCGAGAGT-G-AGTTGAACCTCA-AACACGCT-GA-GGT
88930487 AA-TTCAATTTTTTG
57 AATTTCAA-TTTTTG
* * * *
88930501 TTTGTTAAAAATCAA-TCATACTTGCGAGAGGGAGTTGGAGCCTCAAGA-ACG-TTA-GT-A-TT
1 TTT-TCAAAAATCAACTCATA-TTGCGAGAGTGAGTT-GAACCTCAA-ACACGCTGAGGTAATTT
* *
88930560 C-ATTTGTC
62 CAATTTTTG
* * * * **
88930568 TTTTAAAAAAATCAGCTCATA-TGCGAGAGGTGAGTTGAA-CTCAAACACCGTTGATGTGTTTTC
1 TTTT-CAAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAAACA-CGCTGAGGTAATTTC
*
88930631 AATTTCTGTC
63 AATTT-T-TG
* * * ** *
88930641 TTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGACACATTGAGGTATTTTCA
1 TTTT-CAAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAAACACGCTGAGGTAATTTCA
*
88930706 ATTTCTG
64 ATTTTTG
* * *
88930713 TTTTTCAAAAAAATCAACT-GTATT-CGCATTAGTGAGTTGAACCTC-AAGACGCTGAGGTAATT
1 -TTTTC--AAAAATCAACTCATATTGCG-A-GAGTGAGTTGAACCTCAAACACGCTGAGGTAATT
88930775 TCAATTTTTG
61 TCAATTTTTG
*
88930785 TTTGTCAAAAATCAACTTCATATTGCGAGAGTGAGTTGAACCTCAAACACG-TGAGGTATTTTTC
1 TTT-TCAAAAATCAAC-TCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTA-ATTTC
88930849 AA-TTTTG
63 AATTTTTG
* * * * *
88930856 TCTTTAAAAAATCAGCTCATATTGCGAGAGGTG-GTTGAACCTCAAGACACGTTGA-GTATTTTT
1 T-TTTCAAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAA-ACACGCTGAGGTAATTTC
88930919 AATTTTTG
63 AATTTTTG
* * *
88930927 TTTTCAAAAAATCAACTCATATTGCGATAGTTAGTTGAACCTC-AAGACGCTGAGGTAATTTCAA
1 TTTTC-AAAAATCAACTCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTAATTTCAA
88930991 -TTTTG
65 TTTTTG
* * *
88930996 TTTGTCAAAAGTCAACTCATATTGCGAGAGTGAGTTTGAACCTCAAGACACGTTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGTGAG-TTGAACCTCAA-ACACGCTGAGGTAATTT-
88931061 CAATTTCTAT-
62 CAATTT-T-TG
* *
88931071 TTTTCAAAAAAATCAACTCATATTTGC-AAAGGTGAGTTGAACCTC-AAGACGCTGAGGTAATTT
1 TTTTC--AAAAATCAACTCATA-TTGCGAGA-GTGAGTTGAACCTCAAACACGCTGAGGTAATTT
88931134 CAATTTTTG
62 CAATTTTTG
* *
88931143 TTTGTCAAAAAAT-AACTCATATTGCGAGAGTGAG-TGAGCCTCAGA-ACG-TGA-GT-ATTTCA
1 TTT-TC-AAAAATCAACTCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTAATTTCA
* *
88931202 ATTTCTA
64 ATTTTTG
* *
88931209 TCTTTCAAAAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-GT-ATT
1 T-TTTC--AAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAA-ACACGCTGAGGTAATT
* * *
88931271 TCTCATTTATC
61 TC-AATTTTTG
* ** * **
88931282 TTTCCAAAAAAAAATCGCTCA-ATTGC-AGAAGGTGAGTTGAACCTC-AAGACGCTGAGGTGTTT
1 TTTTCAAAAATCAA---CTCATATTGCGAG-A-GTGAGTTGAACCTCAAACACGCTGAGGTAATT
* *
88931344 TCCATTTCTG
61 TCAATTTTTG
* * *
88931354 TCTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAACCT
1 TTTTC---AAAAATCAACTCATATTGCGAG-AGTGAGTTGAACCT
88931399 TGACTCACAC
Statistics
Matches: 792, Mismatches: 94, Indels: 175
0.75 0.09 0.16
Matches are distributed among these distances:
64 1 0.00
65 6 0.01
66 26 0.03
67 49 0.06
68 16 0.02
69 63 0.08
70 87 0.11
71 117 0.15
72 112 0.14
73 121 0.15
74 86 0.11
75 35 0.04
76 40 0.05
77 33 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (70 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTAATTTCAAT
TTTTG
Found at i:88930947 original size:141 final size:144
Alignment explanation
Indices: 88930352--88931424 Score: 778
Period size: 141 Copynumber: 7.5 Consensus size: 144
88930342 TATTCACATT
* * * *
88930352 TTTTC-AAAACTCAACTCATATTGCAAGAGCGTGAG-TGAGCCTCAAGACACGTTGAGGTATTTT
1 TTTTCAAAAAATCAACTCATATTGC--GAGAGTGAGTTGAACCTCAA-ACACGCTGAGGTATTTT
* * * *
88930415 CAATTTTCAGTTTTTCAAAAAGAATTAACTCATATTGCGA-AGTCGTG-GTTG-AGC-CAGGACA
63 CAATTTT--GTCTTT-AAAAA-AATCAACTCATATTGCGAGAG--GTGAGTTGAACCTCAAGACA
* *
88930476 CGCTGGATGGTA-ATTCAATTTTTTG
122 CG-TTGA-GGTATTTTCAA-TTTTTG
* * * *
88930501 TTTGT-TAAAAATCAA-TCATACTTGCGAGAGGGAGTTGGAGCCTCAAGA-ACG-TTA-GTA--T
1 TTT-TCAAAAAATCAACTCATA-TTGCGAGAGTGAGTT-GAACCTCAA-ACACGCTGAGGTATTT
*
88930559 TC-A-TTTGTCTTTTAAAAAAATCAGCTCATA-TGCGAGAGGTGAGTTGAA-CTCAA-ACACCGT
62 TCAATTTTGTC-TTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA-CGT
* * *
88930619 TGATGTGTTTTCAATTTCTGTC
125 TGAGGTATTTTCAATTT-T-TG
* * * **
88930641 TTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAGACACATTGAGGTATTTTCA
1 TTTTCAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAAACACGCTGAGGTATTTTCA
* * * *
88930706 ATTTCTGTTTTTCAAAAAAATCAACT-GTATT-CGCATTA-GTGAGTTGAACCTCAAG--ACGCT
65 ATTT-TGTCTTT-AAAAAAATCAACTCATATTGCG-A-GAGGTGAGTTGAACCTCAAGACACGTT
*
88930766 GAGGTAATTTCAATTTTTG
126 GAGGTATTTTCAATTTTTG
88930785 TTTGTC-AAAAATCAACTTCATATTGCGAGAGTGAGTTGAACCTCAAACACG-TGAGGTATTTTT
1 TTT-TCAAAAAATCAAC-TCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTA-TTTT
*
88930848 CAATTTTGTCTTT-AAAAAATCAGCTCATATTGCGAGAGGTG-GTTGAACCTCAAGACACGTTGA
63 CAATTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGA
*
88930911 -GTATTTTTAATTTTTG
128 GGTATTTTCAATTTTTG
* * * *
88930927 TTTTCAAAAAATCAACTCATATTGCGATAGTTAGTTGAACCTC-AAGACGCTGAGGTAATTTCAA
1 TTTTCAAAAAATCAACTCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTATTTTCAA
* *
88930991 TTTTGT-TTGT-CAAAAGTCAACTCATATTGCGAGA-GTGAGTTTGAACCTCAAGACACGTTGAG
66 TTTTGTCTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAACCTCAAGACACGTTGAG
88931053 GTATTTTCCAATTTCTAT-
129 GTATTTT-CAATTT-T-TG
* * *
88931071 TTTTCAAAAAAATCAACTCATATTTGC-AAAGGTGAGTTGAACCTC-AAGACGCTGAGGTAATTT
1 TTTTC-AAAAAATCAACTCATA-TTGCGAGA-GTGAGTTGAACCTCAAACACGCTGAGGTATTTT
* *
88931134 CAATTTTTGT-TTGTCAAAAAAT-AACTCATATTGCGAGA-GTGAG-TGAGCCTC-AGA-ACG-T
63 CAA-TTTTGTCTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTT
* *
88931192 GA-GTA-TTTCAATTTCTA
126 GAGGTATTTTCAATTTTTG
* *
88931209 TCTTTCAAAAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-GTATTT
1 T-TTTC-AAAAAATCAACTCATATTGCGAGA-GTGAGTTGAACCTCAA-ACACGCTGAGGTATTT
* *
88931272 CTC-A-TTTATCTTTCCAAAAAAAAATC-GCTCA-ATTGC-AGAAGGTGAGTTGAACCTCAAG--
62 -TCAATTTTGTCTTT----AAAAAAATCAACTCATATTGCGAG-AGGTGAGTTGAACCTCAAGAC
* * * *
88931330 ACGCTGAGGTGTTTTCCATTTCTG
121 ACGTTGAGGTATTTTCAATTTTTG
* * * **
88931354 TCTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAACCTTGACTCACACGCTGAGGTAT
1 TTTTC--AAAAAATCAACTCATATTGCGAG-AGTGAGTTGAACC-T--CAAACACGCTGAGGTAT
88931419 TTTCAA
60 TTTCAA
88931425 AATTCTGTTT
Statistics
Matches: 771, Mismatches: 73, Indels: 160
0.77 0.07 0.16
Matches are distributed among these distances:
137 10 0.01
138 34 0.04
139 57 0.07
140 104 0.13
141 119 0.15
142 61 0.08
143 37 0.05
144 60 0.08
145 65 0.08
146 87 0.11
147 63 0.08
148 30 0.04
149 20 0.03
150 24 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (144 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGTGAGTTGAACCTCAAACACGCTGAGGTATTTTCAA
TTTTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGT
ATTTTCAATTTTTG
Found at i:88931438 original size:15 final size:15
Alignment explanation
Indices: 88931418--88931455 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
88931408 CGCTGAGGTA
88931418 TTTTCAAAATTCTGT
1 TTTTCAAAATTCTGT
*
88931433 TTTTC-AAATTTTGT
1 TTTTCAAAATTCTGT
88931447 TTTTCAAAA
1 TTTTCAAAA
88931456 ATCACTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (15 bp):
TTTTCAAAATTCTGT
Found at i:88931559 original size:81 final size:81
Alignment explanation
Indices: 88931452--88931654 Score: 236
Period size: 87 Copynumber: 2.4 Consensus size: 81
88931442 TTTGTTTTTC
* *
88931452 AAAAATC-ACTCATATTGCGAGAGGTGAGTTCAAGCCTCAG-ACACGCTGAGGTATTTTCAA-TT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTT--AGCC-CAGAACACGCCGA-GAATTTTCAATTT
88931514 TCTTTTCAATTTATG-T-CA
62 TCTTTTCAATTTATGTTGCA
88931532 AAAAATCAACTCATATTGCGAGAGGTGAGTTAGCCCAGATCACACGCCGAGAATTTTCAATTGTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAGCCCAGA--ACACGCCGAGAATTTTCAA-T-TT
*
88931597 TTTTTTCAATTTATGCTTTGCA
62 TCTTTTCAATTTATG--TTGCA
*
88931619 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTT-AGCC
88931655 GGGTCACATA
Statistics
Matches: 107, Mismatches: 4, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
78 3 0.03
79 4 0.04
80 16 0.15
81 31 0.29
83 16 0.15
86 1 0.01
87 32 0.30
88 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (81 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTAGCCCAGAACACGCCGAGAATTTTCAATTTTCTT
TTCAATTTATGTTGCA
Found at i:88931662 original size:87 final size:84
Alignment explanation
Indices: 88931516--88931735 Score: 238
Period size: 87 Copynumber: 2.6 Consensus size: 84
88931506 TTTCAATTTC
*
88931516 TTTTCAATTTATG--TCAAAAAATCAACTCATATTGCGAGAGGTGAGTT-AGCCCAGATCACACG
1 TTTTCAATTTATGTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CCAGATCACA-G
* **** *
88931578 CCGAGAATTTTCAATTGTTTT
64 ACGAGAATTTTCAAAACCTGT
* * *
88931599 TTTTCAATTTATGCTTTGCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCGGGTCACAT
1 TTTTCAATTTATG-TTT-CAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCAGATCACAG
*
88931664 ACGAGGATTTTCAAAACCTGT
64 ACGAGAATTTTCAAAACCTGT
*
88931685 TTTACAAATTT-TGTTT--AAAAATCAACTCATATTACGAGA-GTGAGTTGAGCC
1 TTTTC-AATTTATGTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
88931736 TTGGCTACGT
Statistics
Matches: 119, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
81 12 0.10
82 23 0.19
83 13 0.11
85 3 0.03
86 21 0.18
87 45 0.38
88 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (84 bp):
TTTTCAATTTATGTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCAGATCACAGAC
GAGAATTTTCAAAACCTGT
Found at i:88932505 original size:30 final size:30
Alignment explanation
Indices: 88932447--88932541 Score: 144
Period size: 30 Copynumber: 3.3 Consensus size: 30
88932437 CTAGCCTTTG
88932447 CCACCACCAACTCCACTAG-C-CAC--GCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
88932473 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
88932503 CCACCACCTACTCCAATAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
88932533 CCACCACCA
1 CCACCACCA
88932542 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
26 19 0.31
27 1 0.02
28 3 0.05
30 39 0.63
ACGTcount: A:0.27, C:0.52, G:0.06, T:0.15
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:88933108 original size:25 final size:25
Alignment explanation
Indices: 88933080--88933137 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
88933070 ATTCTAAATT
88933080 CTATATTACGTATATATATATT-ATA
1 CTATATTACGTATATATAT-TTAATA
* * *
88933105 CTATTTTATGTATATATCTTTAATA
1 CTATATTACGTATATATATTTAATA
88933130 CTATATTA
1 CTATATTA
88933138 ATTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
CTATATTACGTATATATATTTAATA
Done.