Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 302 of 378
Found at i:91515263 original size:47 final size:47
Alignment explanation
Indices: 91515193--91515384 Score: 287
Period size: 47 Copynumber: 4.0 Consensus size: 47
91515183 GGAGGAAGTG
91515193 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
91515240 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
91515288 TAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
91515335 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTAT
91515384 A
1 A
91515385 TGATAAAGCA
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 67 0.51
48 53 0.40
49 12 0.09
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:91515317 original size:71 final size:72
Alignment explanation
Indices: 91515193--91515383 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 72
91515183 GGAGGAAGTG
*
91515193 AAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
91515257 CAGTTAT
66 CAGTTAT
* *
91515264 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
91515328 CAGTTAT
66 CAGTTAT
* *
91515335 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTACGCC-CCAGTTAT
91515384 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
71 79 0.71
72 32 0.29
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (72 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
CAGTTAT
Found at i:91515609 original size:31 final size:31
Alignment explanation
Indices: 91515574--91515637 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
91515564 CGTTTACCGT
*
91515574 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
91515605 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
91515636 AA
1 AA
91515638 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:91518367 original size:27 final size:27
Alignment explanation
Indices: 91518334--91518684 Score: 310
Period size: 27 Copynumber: 12.6 Consensus size: 27
91518324 AAAGTACTCC
*
91518334 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
91518361 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
*
91518388 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
***
91518415 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
*
91518442 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* **
91518469 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
91518496 TGATTTACAAAATTACCATTTTACCCC
1 CGATTTACAGAATTACCATTTTACCCT
* *
91518523 CGACTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
91518550 CGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCT
1 CG-ATT----T--AC--AG--AATTACCATTTTACCCT
* * * *
91518588 CGATTTACAAAATTATCGTTTTACCGT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
91518615 CGATTTATAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
91518642 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
91518669 TGATTTACAAAATTAC
1 CGATTTACAGAATTAC
91518685 AGAAATACCC
Statistics
Matches: 268, Mismatches: 41, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.01
27 235 0.88
28 3 0.01
29 1 0.00
31 2 0.01
32 1 0.00
33 1 0.00
34 2 0.01
36 1 0.00
37 2 0.01
38 18 0.07
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:91518425 original size:81 final size:81
Alignment explanation
Indices: 91518334--91518684 Score: 373
Period size: 81 Copynumber: 4.2 Consensus size: 81
91518324 AAAGTACTCC
*
91518334 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAG
1 CGATTTACAAAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCGATTTACAG
91518398 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
* ** * * *
91518415 C-AGTTTACAGAATTATTGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAG
1 CGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAG
*
91518479 AATTACTGTTTTACCCT
65 AATTACCGTTTTACCCT
* * * * *
91518496 TGATTTACAAAATTACCATTTTACCCCCGACTTACATAATTACCATTTTACCCTCGTTTTACCCT
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTA-C----TA------TTTTACCCT
*
91518561 CGACTTACAGAATTACCGTTTTACCCT
55 CGATTTACAGAATTACCGTTTTACCCT
* * * * *
91518588 CGATTTACAAAATTATCGTTTTACCGTCGATTTATAAAATTACTATTTTACCCTTGATTTACAGA
1 CGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGA
**
91518653 ATTACTATTTTACCCT
66 ATTACCGTTTTACCCT
*
91518669 TGATTTACAAAATTAC
1 CGATTTACAAAATTAC
91518685 AGAAATACCC
Statistics
Matches: 223, Mismatches: 33, Indels: 28
0.79 0.12 0.10
Matches are distributed among these distances:
80 1 0.00
81 148 0.66
82 3 0.01
86 1 0.00
87 2 0.01
91 1 0.00
92 67 0.30
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAGA
ATTACCGTTTTACCCT
Found at i:91518537 original size:54 final size:54
Alignment explanation
Indices: 91518334--91518684 Score: 357
Period size: 54 Copynumber: 6.3 Consensus size: 54
91518324 AAAGTACTCC
* *
91518334 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCT
* *
91518388 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCT
* *
91518442 TGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
* * * * *
91518496 TGATTTACAAAATTACCATTTTACCCCCGACTTACATAATTACCATTTTACCCTCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTAC---A-GA--A--TTA--CT-GTTTTACCCT
* * * *
91518561 CGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTA-TCGTTTTACCGT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACT-GTTTTACCCT
* * * * *
91518615 CGATTTATAAAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
* *
91518669 TGATTTACAAAATTAC
1 CGATTTACAGAATTAC
91518685 AGAAATACCC
Statistics
Matches: 254, Mismatches: 30, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
54 199 0.78
55 2 0.01
57 4 0.02
58 1 0.00
59 1 0.00
60 1 0.00
61 1 0.00
62 4 0.02
64 2 0.01
65 39 0.15
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCT
Found at i:91518556 original size:38 final size:38
Alignment explanation
Indices: 91518514--91518595 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
91518504 AAAATTACCA
*
91518514 TTTTACCCCCGACTTACATAATTACCATTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
* *
91518552 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
*
91518590 ATTTAC
1 TTTTAC
91518596 AAAATTATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.38
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
Found at i:91518557 original size:65 final size:65
Alignment explanation
Indices: 91518486--91518621 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 65
91518476 TAGAATTACT
* * *
91518486 GTTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGACTTACATAATTACCATTTTACCCTC
1 GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGACTTACAAAATTACCATTTTACCCTC
* * * * * * *
91518551 GTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTC
1 GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGACTTACAAAATTACCATTTTACCCTC
*
91518616 GATTTA
1 GTTTTA
91518622 TAAAATTACT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (65 bp):
GTTTTACCCTCGACTTACAAAATTACCATTTTACCCCCGACTTACAAAATTACCATTTTACCCTC
Found at i:91518569 original size:146 final size:146
Alignment explanation
Indices: 91518404--91518667 Score: 404
Period size: 146 Copynumber: 1.8 Consensus size: 146
91518394 ACAGAATTAC
* ** * *
91518404 CGTTTTACCCTCAGTTTACAGAATTATTGTTTTACCCTTGATTTACAGAATTACCATTTTACCCT
1 CGTTTTACCCTCAGCTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCT
* *
91518469 CGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGACTTACATA
66 CGATTTATAAAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGACTTACATA
91518534 ATTACCATTTTACCCT
131 ATTACCATTTTACCCT
* * *
91518550 CGTTTTACCCTC-GACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCG
1 CGTTTTACCCTCAG-CTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCC
* *
91518614 TCGATTTATAAAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCC
65 TCGATTTATAAAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCC
91518668 TTGATTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
145 1 0.01
146 104 0.99
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (146 bp):
CGTTTTACCCTCAGCTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCT
CGATTTATAAAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCCCGACTTACATA
ATTACCATTTTACCCT
Found at i:91518577 original size:119 final size:119
Alignment explanation
Indices: 91518432--91518668 Score: 332
Period size: 119 Copynumber: 2.0 Consensus size: 119
91518422 CAGAATTATT
* * * *
91518432 GTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTA-CTGTTTTACCCT
1 GTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATC-GTTTTACCCT
* *
91518496 TGATTTACAAAATTACCATTTTACCCCCGACTTACATAATTACCATTTTACCCTC
65 CGATTTACAAAATTACCATTTTACCCCCGACTTACAGAATTACCATTTTACCCTC
* *
91518551 GTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTC
1 GTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTC
* * ** * *
91518616 GATTTATAAAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCT
66 GATTTACAAAATTACCATTTTACCCCCGACTTACAGAATTACCATTTTACCCT
91518669 TGATTTACAA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
119 102 0.99
120 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.41
Consensus pattern (119 bp):
GTTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTC
GATTTACAAAATTACCATTTTACCCCCGACTTACAGAATTACCATTTTACCCTC
Found at i:91518693 original size:27 final size:27
Alignment explanation
Indices: 91518636--91518859 Score: 147
Period size: 27 Copynumber: 8.3 Consensus size: 27
91518626 ATTACTATTT
* ***
91518636 TACCCTTGATTTACAGAATTACTA-TTT
1 TACCCTTGATTTACAAAATTAC-AGAAA
91518663 TACCCTTGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
* **
91518690 TACCCTTAATTTGTAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-CAGAAA
* *** *
91518717 TACCAC-TGGTTTGTGAAATTACCG-AA
1 TACC-CTTGATTTACAAAATTACAGAAA
** *
91518743 TACCCTCAATTT-TAAAATTACCA-AAA
1 TACCCTTGATTTACAAAATTA-CAGAAA
* *
91518769 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
*
91518796 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACAGAAA
* * *
91518825 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACAGAAA
91518852 TACCCTTG
1 TACCCTTG
91518860 GTTTGTAGAT
Statistics
Matches: 155, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
25 8 0.05
26 25 0.16
27 94 0.61
28 9 0.06
29 19 0.12
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACAGAAA
Found at i:91518707 original size:81 final size:81
Alignment explanation
Indices: 91518552--91518711 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
91518542 TTTACCCTCG
* *** * *
91518552 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
91518617 ATTTATAAAATTACTA
66 ATTTATAAAATTACTA
* * * * *
91518633 TTTTACCCTTGATTTACAGAATTACTATTTTACCCTTGATTTACAAAATTA-CAGAAATACCCTT
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATC-GAAATACCCTC
*
91518697 AATTTGTAAAATTAC
65 AATTTATAAAATTAC
91518712 CAAAATACCA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTATCGAAATACCCTCA
ATTTATAAAATTACTA
Found at i:91518981 original size:27 final size:27
Alignment explanation
Indices: 91518904--91518981 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
91518894 AAATGACTAA
* *
91518904 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
91518931 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
91518958 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
91518982 GAATATGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:91520162 original size:25 final size:25
Alignment explanation
Indices: 91520133--91520180 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
91520123 TTATAATATG
* * *
91520133 AAAATAACCGTTTTGCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
91520158 AAAATAACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
91520181 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:91520231 original size:9 final size:9
Alignment explanation
Indices: 91520219--91520295 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
91520209 TTTGATGCAC
91520219 ATGATATGT
1 ATGATATGT
*
91520228 ATGATATGCAC
1 ATGATATG--T
91520239 ATGATATGT
1 ATGATATGT
*
91520248 ATGATATGCAC
1 ATGATATG--T
*
91520259 ATGACATGT
1 ATGATATGT
*
91520268 ATGATATGCAC
1 ATGATATG--T
91520279 ATGATATGT
1 ATGATATGT
91520288 ATGATATG
1 ATGATATG
91520296 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:91520307 original size:20 final size:20
Alignment explanation
Indices: 91520213--91520299 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
91520203 TGGGATTTTG
91520213 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
91520233 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
*
91520253 ATGCACATGACATGTATGAT
1 ATGCACATGATATGTATGAT
91520273 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
91520293 ATGCACA
1 ATGCACA
91520300 CGAGATGTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGCACATGATATGTATGAT
Found at i:91520381 original size:24 final size:24
Alignment explanation
Indices: 91520354--91520520 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
91520344 GAGGAAGTGA
91520354 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
91520378 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
91520402 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
91520426 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
91520449 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
91520473 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
91520497 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
91520521 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 21 0.16
24 100 0.76
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:91520748 original size:31 final size:31
Alignment explanation
Indices: 91520713--91520776 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
91520703 CGTTTACCGT
*
91520713 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
91520744 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
91520775 AA
1 AA
91520777 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:91524575 original size:40 final size:40
Alignment explanation
Indices: 91524516--91524723 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
91524506 CAATTGAATG
* * * *
91524516 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
91524556 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
91524596 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
91524636 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
91524676 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
91524716 ATATCCGG
1 ATATCCGG
91524724 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:91524654 original size:80 final size:80
Alignment explanation
Indices: 91524518--91524723 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
91524508 ATTGAATGAT
* * ** * * *
91524518 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
91524582 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
91524598 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
91524663 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
91524678 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
91524724 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:91528901 original size:41 final size:41
Alignment explanation
Indices: 91528856--91528973 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
91528846 TGAAAGATAA
91528856 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
91528897 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91528927 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91528968 ATGTAG
1 ATGTAG
91528974 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:91528912 original size:71 final size:71
Alignment explanation
Indices: 91528824--91528987 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
91528814 GAGATGTATC
91528824 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91528889 AGGACA
66 AGGACA
91528895 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91528960 AGGACA
66 AGGACA
91528966 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
91528988 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:91535971 original size:41 final size:41
Alignment explanation
Indices: 91535926--91536043 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
91535916 TGAAAGATAA
91535926 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
91535967 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91535997 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
91536038 ATGTAG
1 ATGTAG
91536044 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:91535982 original size:71 final size:71
Alignment explanation
Indices: 91535894--91536057 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
91535884 GAGATGTATC
91535894 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91535959 AGGACA
66 AGGACA
91535965 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
91536030 AGGACA
66 AGGACA
91536036 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
91536058 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:91541462 original size:25 final size:25
Alignment explanation
Indices: 91541434--91541484 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
91541424 TCGGTTAGAG
91541434 GGCCGAATGTGTGACTTAGGTAATC
1 GGCCGAATGTGTGACTTAGGTAATC
91541459 GGCCGAATGTGTGACTTAGGTAATC
1 GGCCGAATGTGTGACTTAGGTAATC
91541484 G
1 G
91541485 ATGCCAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (25 bp):
GGCCGAATGTGTGACTTAGGTAATC
Found at i:91542011 original size:40 final size:40
Alignment explanation
Indices: 91541952--91542059 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
91541942 CAATTGAATG
* **
91541952 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGACATTTATGCTAGTAACC
* * * *
91541992 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAA-GACATTTATGCTAGTAACC
* *
91542032 ACATCCGGGCTAAGACCCGAAGGCATTT
1 ATATCCGGGCTAAGACCCGAAGACATTT
91542060 GCAAGTTGTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.05
40 50 0.89
41 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACATTTATGCTAGTAACC
Found at i:91544802 original size:34 final size:35
Alignment explanation
Indices: 91544759--91544827 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
91544749 GTTTTACTTA
*
91544759 CTTGATTGTTTA-AGGT-TATGAATGAATTGAAATT
1 CTTGATTGTTTATA-ATATATGAATGAATTGAAATT
*
91544793 CTTGATTGTTTATAATATGTGAATGAATTGAAATT
1 CTTGATTGTTTATAATATATGAATGAATTGAAATT
91544828 TCTAAACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 13 0.42
35 18 0.58
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (35 bp):
CTTGATTGTTTATAATATATGAATGAATTGAAATT
Found at i:91545177 original size:19 final size:19
Alignment explanation
Indices: 91545153--91545250 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
91545143 AATCTTTAAG
91545153 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
91545172 GATATGCAATCTTGGATAT
1 GATATGCAATCTTAGATAT
91545191 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
91545208 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
91545227 CATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
91545248 GAT
1 GAT
91545251 CTTGTGATCT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
17 16 0.23
19 46 0.67
21 7 0.10
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:91545183 original size:36 final size:35
Alignment explanation
Indices: 91545143--91545220 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
91545133 ATGGAAATAT
91545143 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTT--GGATATGACAATCTTAGATATGATATGC
91545179 AATC-TTGGATATGATACAATCTTAGATATGATATGC
1 AATCTTTGGATATG--ACAATCTTAGATATGATATGC
91545215 AATCTT
1 AATCTT
91545221 AAATATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
33 7 0.18
35 2 0.05
36 28 0.74
37 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (35 bp):
AATCTTTGGATATGACAATCTTAGATATGATATGC
Found at i:91545628 original size:2 final size:2
Alignment explanation
Indices: 91545623--91545653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91545613 AAATATATTT
91545623 TA TA TA TA TA TA 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
91545654 TATCATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91550840 original size:7 final size:7
Alignment explanation
Indices: 91550824--91550872 Score: 55
Period size: 8 Copynumber: 6.7 Consensus size: 7
91550814 CTTCTATTTC
91550824 AAAAAA-
1 AAAAAAG
91550830 AAAAAAG
1 AAAAAAG
91550837 AAAAAAG
1 AAAAAAG
91550844 AAAAAAAG
1 -AAAAAAG
91550852 AGAAAAATG
1 A-AAAAA-G
*
91550861 AAAAAAT
1 AAAAAAG
91550868 AAAAA
1 AAAAA
91550873 TGGAGAGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 6 0.16
7 13 0.34
8 17 0.45
9 2 0.05
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:91550849 original size:17 final size:17
Alignment explanation
Indices: 91550827--91550866 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
91550817 CTATTTCAAA
91550827 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
* *
91550844 AAAAAAAGAGAAAAATG
1 AAAAAAAAAGAAAAAAG
91550861 AAAAAA
1 AAAAAA
91550867 TAAAAATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:91551960 original size:44 final size:43
Alignment explanation
Indices: 91551727--91552233 Score: 337
Period size: 44 Copynumber: 11.6 Consensus size: 43
91551717 ACAAGATTTT
* * *
91551727 GCATCCCTGCGTTTATAGGGAACAAATCGAAGATAGCAGATCTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT-TG
* * * ** * **
91551771 ACA-CTCCTGTGCTTACAGCAAAGC-AGATCGAAGATTTCAGCA-TG
1 GCATC-CCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG-ATTG
* **
91551815 CCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAGCA-TG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG-ATTG
***
91551858 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTTAGCA-TG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG-ATTG
* * * *
91551901 GCATCCTTATGTTTATAAGGAACAAGTTTAAGATAGCAGATTTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-TTG
* * *
91551945 GCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGGTCTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT-TG
* * * * * ** **
91551989 ACATTCCTGTGCTTACAGCGAAGC-AGATCAAAGATTTCAGCA-TG
1 GCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGCAG-ATTG
91552033 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-TTG
* * * *
91552077 GCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGGAGATCTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT-TG
* * * * * ** * **
91552121 ACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA-TG
1 GCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAGCAG-ATTG
*
91552165 GCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTG
1 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA-TTG
* * * *
91552209 GCATCCTTGTGCTTACAAGGAACAA
1 GCATCCCTGTGTTTATAGGGAACAA
91552234 ATCGAAGACA
Statistics
Matches: 362, Mismatches: 81, Indels: 40
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.01
43 113 0.31
44 210 0.58
45 34 0.09
46 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTG
Found at i:91552055 original size:132 final size:132
Alignment explanation
Indices: 91551887--91552241 Score: 575
Period size: 132 Copynumber: 2.7 Consensus size: 132
91551877 GAACAAGTTG
* * * * * *
91551887 AAGATTTTAGCATGGCATCCTTATGTTTATAAGGAACAAGTTTAAGATAGCAGATTTGGCATCCC
1 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCT
*
91551952 TGTGTTTATAGGGAACAAATCGAAGATAGCAGGTCTGACATTCCTGTGCTTACAGCGAAGCAGAT
66 TGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGAT
91552017 CA
131 CA
91552019 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCT
1 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCT
* * *
91552084 TGTGTTTATAGGGAACAAATCGAAGATAGGAGATCTGACATTCCTGTGCTTACAGTGAAGTAGAT
66 TGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGAT
*
91552149 CG
131 CA
*
91552151 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTGGCATCCT
1 AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCT
* * *
91552216 TGTGCTTACAAGGAACAAATCGAAGA
66 TGTGTTTATAGGGAACAAATCGAAGA
91552242 CATAGCTGAT
Statistics
Matches: 208, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 208 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
AAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCT
TGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGAT
CA
Found at i:91552197 original size:88 final size:88
Alignment explanation
Indices: 91551727--91552241 Score: 408
Period size: 88 Copynumber: 5.9 Consensus size: 88
91551717 ACAAGATTTT
* * * **
91551727 GCATCCCTGCGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAGCA
1 GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGGCATC-CCTGTGCTTACAGGG
91551791 AAGC-AGATCGAAGATTTCAGCATG
65 AA-CAAGATCGAAGATTTCAGCATG
* * ** * *
91551815 CCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGG
1 GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATC-TGGCATCCCTGTGCTTACAGGG
* *
91551878 AACAAG-TTGAAGATTTTAGCATG
65 AACAAGATCGAAGATTTCAGCATG
* * * ** * * *
91551901 GCATCCTTATGTTTATAAGGAACAAGTTTAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGGCATCCCTGTGCTTACAGGGA
**
91551966 ACAA-ATCGAAGATAGCAGGTC-TG
66 ACAAGATCGAAGATTTCA-G-CATG
* * * * * * ** * *
91551989 ACATTCCTGTGCTTACAGCGAAGC-AGATCAAAGATTTCAG--CATGGCATCCCTGTGTTTATAG
1 GCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAGATC-TGGCATCCCTGTGCTTACAG
* **
91552051 GGAACAAG-TTGAAGATAGCAG-ATTTG
63 GGAACAAGATCGAAGATTTCAGCA--TG
* * * * * *
91552077 GCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGGAGATCTGACATTCCTGTGCTTACAGTGA
1 GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGGCATCCCTGTGCTTACAGGGA
**
91552142 AGTAGATCGAAGATTTCAGCATG
66 ACAAGATCGAAGATTTCAGCATG
* * * * *
91552165 GCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAGGA
1 GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGGCATCCCTGTGCTTACAGGGA
91552230 ACAA-ATCGAAGA
66 ACAAGATCGAAGA
91552242 CATAGCTGAT
Statistics
Matches: 334, Mismatches: 73, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
86 49 0.15
87 73 0.22
88 189 0.57
89 22 0.07
90 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
GCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGATCTGGCATCCCTGTGCTTACAGGGA
ACAAGATCGAAGATTTCAGCATG
Found at i:91552556 original size:206 final size:206
Alignment explanation
Indices: 91552203--91553152 Score: 1508
Period size: 206 Copynumber: 4.6 Consensus size: 206
91552193 GAAGATAGCA
*
91552203 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * *
91552267 TACGCTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAAATCGAAGATTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * ** * *
91552332 CATCTCTATATTCGACGGAGAGTAGACACATAACAGACCTGGCCTTCATATGTTTATACTGAAGT
131 CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
91552397 AGATCCAAGGT
196 AGATCCAAGAT
91552408 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
91552473 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
** * *
91552538 CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTAAAGC
131 CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
91552603 AGATCCAAGGT
196 AGATCCAAGAT
* *
91552614 GACTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
91552679 TAAGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAGATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* *
91552744 CGTCTCCATATTCAACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
91552809 AGATCCAAGAT
196 AGATCCAAGAT
* * *
91552820 GATTTGGAATTCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
91552885 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
91552950 CGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
91553015 AGATCCAAGAT
196 AGATCCAAGAT
* * * **
91553026 GGTTTGGTATCCTTGTGCTTACAAGGAGA-AAATCGAAGACATAGTTGATTTGGCTTTCGGGTGC
1 GATTTGGCATCCTTGTGCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGC
* * *
91553090 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAATAGATCGAAGTT
65 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTT
91553153 AACAGATTTG
Statistics
Matches: 698, Mismatches: 45, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
205 61 0.09
206 636 0.91
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CATCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:91553578 original size:16 final size:17
Alignment explanation
Indices: 91553528--91553578 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
91553518 ATGGAAATAT
*
91553528 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
91553545 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
91553564 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
91553579 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:91553597 original size:22 final size:21
Alignment explanation
Indices: 91553538--91553580 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
91553528 AATCTTTAAG
91553538 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
91553557 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
91553578 GAT
1 GAT
91553581 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:91556301 original size:21 final size:21
Alignment explanation
Indices: 91556275--91556330 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
91556265 GTGTCTTTCT
91556275 GTCAAATAATACAATCAAACA
1 GTCAAATAATACAATCAAACA
* * * *
91556296 GTCAAATATTTCATTCAAATA
1 GTCAAATAATACAATCAAACA
91556317 GTCAAATAGATACA
1 GTCAAATA-ATACA
91556331 GCAGTCATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (21 bp):
GTCAAATAATACAATCAAACA
Found at i:91556983 original size:14 final size:14
Alignment explanation
Indices: 91556957--91556996 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
91556947 CCAAAATCTT
*
91556957 TGCATGCAGATGTA
1 TGCATGTAGATGTA
*
91556971 TGTATGTAGATGTA
1 TGCATGTAGATGTA
*
91556985 TGCATGTGGATG
1 TGCATGTAGATG
91556997 CCCCAACTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.07, G:0.33, T:0.35
Consensus pattern (14 bp):
TGCATGTAGATGTA
Found at i:91559144 original size:14 final size:15
Alignment explanation
Indices: 91559120--91559154 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
91559110 TTAAGTACAT
91559120 ATATAATAATAGTAATA
1 ATATAATAATA--AATA
91559137 ATATAATAATAAATA
1 ATATAATAATAAATA
91559152 ATA
1 ATA
91559155 AAAACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
ATATAATAATAAATA
Found at i:91559218 original size:12 final size:12
Alignment explanation
Indices: 91559210--91559242 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
91559200 CAGAGAAGGA
91559210 AAGAAAGAAAAG
1 AAGAAAGAAAAG
91559222 AAGAAAGAAAAG
1 AAGAAAGAAAAG
91559234 AAGAAAGAA
1 AAGAAAGAA
91559243 GGAGAGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:91560115 original size:41 final size:39
Alignment explanation
Indices: 91560058--91560192 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 39
91560048 GACCTCGAGT
* * *
91560058 CGATGAGACACAGGGTGTCAATCTATTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAA-CTATTACTTTGAATT-ATC
* * * *
91560099 CGATGAGACACTGGGTGCCAA-T-TTACTTTCATTTAGC
1 CGATGAGACACTGGGTGTCAACTATTACTTTGAATTATC
*
91560136 CGATGAGACACTGGGTGTCAACTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAC-TATTACTTTGAATTATC
91560176 CGATGA-AGCACTGGGTG
1 CGATGAGA-CACTGGGTG
91560193 CCAAACTAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 21 0.27
38 9 0.12
39 3 0.04
40 26 0.33
41 19 0.24
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTTGAATTATC
Found at i:91562142 original size:32 final size:33
Alignment explanation
Indices: 91562075--91562143 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
91562065 CTTAATTTGA
*
91562075 AATTCAAATTAATCCTTTTAAAATCCTAATTAG
1 AATTCAAACTAATCCTTTTAAAATCCTAATTAG
* * * *
91562108 AATTCAAACTACTCGTTTTCAAATTCT-ATTAG
1 AATTCAAACTAATCCTTTTAAAATCCTAATTAG
91562140 AATT
1 AATT
91562144 TATCTTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 9 0.29
33 22 0.71
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.41
Consensus pattern (33 bp):
AATTCAAACTAATCCTTTTAAAATCCTAATTAG
Found at i:91574942 original size:29 final size:28
Alignment explanation
Indices: 91574862--91574945 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
91574852 CTGCCATAGT
* * *
91574862 TTTTTCCAACTTTTACAATTTTGCAACTG
1 TTTTTCCAA-TTTTACAATTTTTCCACTA
* *
91574891 GTTTTCCAGGTTTTACAATTTTTCCACTA
1 TTTTTCCA-ATTTTACAATTTTTCCACTA
91574920 TTTTTCCATATTTTACAATTTTTCCA
1 TTTTTCCA-ATTTTACAATTTTTCCA
91574946 ATGGGTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.06, T:0.51
Consensus pattern (28 bp):
TTTTTCCAATTTTACAATTTTTCCACTA
Found at i:91596341 original size:12 final size:13
Alignment explanation
Indices: 91596305--91596342 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
91596295 AAATATTTGA
91596305 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
91596318 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
91596332 CTTG-TCTTAAT
1 CTTGTTCTTAAT
91596343 ATTCCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:91598501 original size:29 final size:29
Alignment explanation
Indices: 91598463--91598540 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
91598453 CAACCCTCCG
* *
91598463 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
91598492 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACCCAGTGCCATATATTTCC
* **
91598521 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACCCAGTGCCA
91598541 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACCCAGTGCCATATATTTCC
Found at i:91606269 original size:28 final size:28
Alignment explanation
Indices: 91606204--91606304 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
91606194 ATAGTGAATC
*
91606204 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
91606233 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
91606261 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
91606291 CGCACACTTAGTGC
1 CGCACACTTAGTGC
91606305 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:91616583 original size:12 final size:12
Alignment explanation
Indices: 91616566--91616591 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91616556 GACGCCACAC
91616566 GGCCGTGTGGTA
1 GGCCGTGTGGTA
91616578 GGCCGTGTGGTA
1 GGCCGTGTGGTA
91616590 GG
1 GG
91616592 TCATGTGCCA
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:0.08, C:0.15, G:0.54, T:0.23
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:91626809 original size:43 final size:43
Alignment explanation
Indices: 91626728--91626812 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
91626718 AAATCGTACA
** * *
91626728 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACATATAAACACATATCG
91626771 ATGCC-ACTGTCCCAGACAAGGTCTTAC-TCATAAACACATATC
1 ATGCCAAC-GTCCCAGACAAGGTCTTACAT-ATAAACACATATC
91626813 AGAATCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACATATAAACACATATCG
Found at i:91627357 original size:38 final size:38
Alignment explanation
Indices: 91627306--91627382 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
91627296 CAAAATTTCT
91627306 CAACACCCATGTTAGGCCGAATAGTACCCATGCTCATA
1 CAACACCCATGTTAGGCCGAATAGTACCCATGCTCATA
91627344 CAACACCCATGTTAGGCCGAATAGTACCCATGCTCATA
1 CAACACCCATGTTAGGCCGAATAGTACCCATGCTCATA
91627382 C
1 C
91627383 GAGTCCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (38 bp):
CAACACCCATGTTAGGCCGAATAGTACCCATGCTCATA
Found at i:91628684 original size:38 final size:38
Alignment explanation
Indices: 91628631--91628705 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
91628621 CGGTACTTTT
91628631 TGGAGTGTAGAGATGGGTGGGTTGATTATATCACCACA
1 TGGAGTGTAGAGATGGGTGGGTTGATTATATCACCACA
* *
91628669 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCAC
1 TGGAGTGTAGAGATGGGTGGGTTGATTATATCACCAC
91628706 TTTGAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.12, G:0.36, T:0.29
Consensus pattern (38 bp):
TGGAGTGTAGAGATGGGTGGGTTGATTATATCACCACA
Found at i:91631643 original size:26 final size:26
Alignment explanation
Indices: 91631614--91631678 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 26
91631604 TAGACATGCT
91631614 TTTTAGTAAATTTAT-ATATTTTTAAA
1 TTTTA-TAAATTTATAATATTTTTAAA
*
91631640 TTTTCATAAA-TTATAATATTTTTATA
1 TTTT-ATAAATTTATAATATTTTTAAA
91631666 TTATTATTAAATT
1 TT-TTA-TAAATT
91631679 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 4 0.12
26 21 0.64
27 7 0.21
28 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTATAAATTTATAATATTTTTAAA
Found at i:91635765 original size:2 final size:2
Alignment explanation
Indices: 91635758--91635789 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
91635748 TTACTAATTA
91635758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91635790 TTGAAGCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91640877 original size:20 final size:20
Alignment explanation
Indices: 91640852--91640898 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
91640842 ATTACCCAAA
*
91640852 ATTGATGGAAAAGTTAACTT
1 ATTGATGAAAAAGTTAACTT
91640872 ATTGATGAAAAAGTTAACTT
1 ATTGATGAAAAAGTTAACTT
*
91640892 ACTGATG
1 ATTGATG
91640899 TGGCATACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTGATGAAAAAGTTAACTT
Found at i:91640945 original size:8 final size:8
Alignment explanation
Indices: 91640934--91641015 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
91640924 ATAATTAATT
91640934 AATTTTAA
1 AATTTTAA
91640942 AATTTTTAA
1 AA-TTTTAA
*
91640951 ATTTTTAA
1 AATTTTAA
91640959 AA-TTTAA
1 AATTTTAA
*
91640966 AATAATTAAA
1 AAT--TTTAA
* *
91640976 AAGTATAA
1 AATTTTAA
91640984 ATATTTTAA
1 A-ATTTTAA
*
91640993 TATTTTAA
1 AATTTTAA
*
91641001 ATTTTTAA
1 AATTTTAA
*
91641009 AAATTTA
1 AATTTTA
91641016 TTGTTAACTT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
7 7 0.12
8 31 0.55
9 12 0.21
10 6 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (8 bp):
AATTTTAA
Found at i:91640958 original size:17 final size:16
Alignment explanation
Indices: 91640936--91641015 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 16
91640926 AATTAATTAA
91640936 TTTTAAAATTTTTAAAT
1 TTTTAAAA-TTTTAAAT
*
91640953 TTTTAAAATTTAAAAT
1 TTTTAAAATTTTAAAT
* * * *
91640969 AATTAAAAAGTATAAAT
1 -TTTTAAAATTTTAAAT
*
91640986 ATTTTAATATTTTAAAT
1 -TTTTAAAATTTTAAAT
*
91641003 TTTTAAAAATTTA
1 TTTTAAAATTTTA
91641016 TTGTTAACTT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
16 18 0.37
17 31 0.63
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (16 bp):
TTTTAAAATTTTAAAT
Found at i:91641009 original size:34 final size:33
Alignment explanation
Indices: 91640948--91641011 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
91640938 TTAAAATTTT
91640948 TAAATTTTTAAAATTTAAAATAATTAAAAAGTA
1 TAAATTTTTAAAATTTAAAATAATTAAAAAGTA
* * **
91640981 TAAATATTTTAATATTTTAAATTTTTAAAAA
1 TAAAT-TTTTAAAATTTAAAATAATTAAAAA
91641012 TTTATTGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 5 0.19
34 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TAAATTTTTAAAATTTAAAATAATTAAAAAGTA
Found at i:91643683 original size:14 final size:15
Alignment explanation
Indices: 91643663--91643719 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
91643653 GATTACAAGA
91643663 TCATATCTAAGATTG
1 TCATATCTAAGATTG
91643678 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
91643697 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
91643714 -CATATC
1 TCATATC
91643720 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:91643686 original size:19 final size:19
Alignment explanation
Indices: 91643662--91643719 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
91643652 AGATTACAAG
91643662 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91643681 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
91643698 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91643717 ATC
1 ATC
91643720 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.46
19 20 0.54
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:91644478 original size:206 final size:206
Alignment explanation
Indices: 91644104--91644844 Score: 1182
Period size: 206 Copynumber: 3.6 Consensus size: 206
91644094 AATCTATTAT
* *
91644104 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * ** * * *
91644169 GAGAAA-CCAAATCAACTATGTCTTTAATTTGCTCCTTGTAAGCACAAGGATACCAAA-CTATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC-ATCT
* * * *
91644232 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTTCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
*
91644297 GAAGACGCCAAA
195 GGAGACGCCAAA
* *
91644309 CTTCGATTTGTTCTCTGACAATACTGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
91644374 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
* * *
91644439 GGATCTACTTTAGTATAAACATCTGAAGATTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
91644504 GAGACGCCAAA
196 GAGACGCCAAA
91644515 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
91644580 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
* ** *
91644645 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
91644710 GAGACGCCAAA
196 GAGACGCCAAA
* * *
91644721 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
91644785 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
91644845 TGCTATCTTC
Statistics
Matches: 496, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
205 125 0.25
206 370 0.75
207 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:91644883 original size:44 final size:42
Alignment explanation
Indices: 91644806--91644970 Score: 116
Period size: 44 Copynumber: 3.8 Consensus size: 42
91644796 ATCAGCTATG
* * * * *
91644806 TCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCTGCTA
1 TCTTCGA-TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
* **
91644850 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCGA-TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
** * * * **
91644893 TCTTCGATCTGCTTTGCTGTAAGCACAGGAATGTTAGATCTGCTA
1 TCTTCGAT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTA
91644938 TCTTCGATTTGTTCCCTATAAACACAGGGATGC
1 TCTTCGA-TTGTTCCCTATAAACACAGGGATGC
91644971 TATGCAGAAA
Statistics
Matches: 90, Mismatches: 25, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
42 3 0.03
43 12 0.13
44 59 0.66
45 13 0.14
46 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (42 bp):
TCTTCGATTGTTCCCTATAAACACAGGGATGCCAATCTGCTA
Found at i:91644919 original size:88 final size:88
Alignment explanation
Indices: 91644822--91644993 Score: 263
Period size: 88 Copynumber: 2.0 Consensus size: 88
91644812 ATTTGTTCCT
91644822 TGTAAGCACAAGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATG
1 TGTAAGCACAAGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATG
*
91644887 CTGAAATCTTCGATCTGCTTTGC
66 CAGAAATCTTCGATCTGCTTTGC
* ** * * * *
91644910 TGTAAGCACAGGAATGTTAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCTATG
1 TGTAAGCACAAGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATG
*
91644975 CAGAAATCTTTGATCTGCT
66 CAGAAATCTTCGATCTGCT
91644994 ATCTTCGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
TGTAAGCACAAGAATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATG
CAGAAATCTTCGATCTGCTTTGC
Found at i:91645912 original size:21 final size:21
Alignment explanation
Indices: 91645888--91645941 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
91645878 GGCCTCTCCA
91645888 TTTTTCTTTTTTATTTTTCTC
1 TTTTTCTTTTTTATTTTTCTC
*
91645909 TTTTT-TCTTTTTATTTTTTTC
1 TTTTTCT-TTTTTATTTTTCTC
91645930 TCTTTTCTTTTT
1 T-TTTTCTTTTT
91645942 CTTTTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 19 0.66
22 8 0.28
23 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTCTTTTTTATTTTTCTC
Found at i:91645929 original size:36 final size:36
Alignment explanation
Indices: 91645888--91645964 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
91645878 GGCCTCTCCA
* *
91645888 TTTTTCTTTTTTATTTTTCTCTT-TTTTCTTTTTATT
1 TTTTTCTCTTTTATTTTTCTCTTCTTTTCCTTTT-TT
* *
91645924 TTTTTCTCTTTTCTTTTTCTTTTCTTTTCCTTTTTT
1 TTTTTCTCTTTTATTTTTCTCTTCTTTTCCTTTTTT
91645960 TTTTT
1 TTTTT
91645965 GAAGTAGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 27 0.75
37 9 0.25
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (36 bp):
TTTTTCTCTTTTATTTTTCTCTTCTTTTCCTTTTTT
Found at i:91645944 original size:11 final size:11
Alignment explanation
Indices: 91645911--91645962 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
91645901 TTTTTCTCTT
*
91645911 TTTTCTTTTTA
1 TTTTCTTTTTC
*
91645922 TTTT-TTTCTC
1 TTTTCTTTTTC
91645932 TTTTCTTTTTC
1 TTTTCTTTTTC
*
91645943 TTTTCTTTTCC
1 TTTTCTTTTTC
91645954 TTTT-TTTTT
1 TTTTCTTTTT
91645963 TTGAAGTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 12 0.34
11 23 0.66
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:91645946 original size:21 final size:20
Alignment explanation
Indices: 91645889--91645964 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 20
91645879 GCCTCTCCAT
*
91645889 TTTTCTTTTTTATTTTTCTCTT
1 TTTTCTTTTTT-TTTTT-TCTC
91645911 TTTTCTTTTTATTTTTTTCTC
1 TTTTCTTTTT-TTTTTTTCTC
*
91645932 TTTTC--TTTTTCTTTTCT-
1 TTTTCTTTTTTTTTTTTCTC
*
91645949 TTTCCTTTTTTTTTTT
1 TTTTCTTTTTTTTTTT
91645965 GAAGTAGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.09
18 8 0.17
19 11 0.23
21 8 0.17
22 15 0.32
23 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTTTCTC
Found at i:91648500 original size:27 final size:28
Alignment explanation
Indices: 91648470--91648569 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
91648460 TTTAGTTTAC
91648470 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* ** *
91648497 TAAAAATATTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
91648524 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
91648551 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
91648570 CCGATTTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:91648674 original size:54 final size:54
Alignment explanation
Indices: 91648572--91648723 Score: 180
Period size: 54 Copynumber: 2.8 Consensus size: 54
91648562 AAGTACCCCC
* * * * *
91648572 GATTTATAGAATTACCGTTTTACCCCCGATTTACATAATTA-TCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-ATTTTAACCTT
* * **
91648626 GATTTACAGAATTACCGTTTTACCCTAGATTTACAGAATTACTATTTTAATTTT
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTAACCTT
* **
91648680 AATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTA
1 GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
91648724 AAATACCCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 83 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (54 bp):
GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTAACCTT
Found at i:91648722 original size:27 final size:27
Alignment explanation
Indices: 91648565--91648723 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 27
91648555 ATTACCAAAG
* * **
91648565 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
91648592 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-ATTT
* **
91648619 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
91648646 TACCCTAGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*** **
91648673 TAATTTTAATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
91648700 TACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTACAGAATTACTA
91648724 AAATACCCTT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:91648747 original size:54 final size:54
Alignment explanation
Indices: 91648709--91648893 Score: 212
Period size: 54 Copynumber: 3.4 Consensus size: 54
91648699 TTACCCTCGA
* * *
91648709 TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCATAG
1 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATAG
** *
91648763 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATAG
*** * * * *
91648817 TTTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCATAG
*
91648871 TTTACAAAGTTA-CAGAAATACCC
1 TTTACAAAATTACCA-AAATACCC
91648894 TTGACTTTCT
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 5 0.04
54 105 0.94
55 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATAG
Found at i:91648774 original size:81 final size:81
Alignment explanation
Indices: 91648700--91648895 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 81
91648690 ATTACTATTT
* * *
91648700 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCAT-AG
1 TACCC-CGAGTTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCC-TCAA
91648763 TTTGTAAAATTACCAAAA
64 TTTGTAAAATTACCAAAA
* ** * *
91648781 TACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGAGTTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATT
91648846 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
* * *
91648862 TACCCCTAATTTACAAAGTTA-CAGAAATACCCTT
1 TACCCCGAGTTTACAAAATTACCA-AAATACCCTT
91648896 GACTTTCTAA
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 5 0.05
81 95 0.95
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCCGAGTTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:91648883 original size:27 final size:27
Alignment explanation
Indices: 91648714--91648869 Score: 224
Period size: 27 Copynumber: 5.8 Consensus size: 27
91648704 CTCGATTTAC
* * *
91648714 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
91648741 AAAATTACCAAAATACCCATAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
91648768 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
91648795 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
91648822 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
91648849 AAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
91648870 ATTTACAAAG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 3 0.03
27 109 0.94
28 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:91649041 original size:27 final size:27
Alignment explanation
Indices: 91648998--91649071 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
91648988 AAGTGACTAA
*
91648998 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
91649025 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
91649052 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
91649072 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:91649075 original size:27 final size:27
Alignment explanation
Indices: 91649011--91649075 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
91649001 ACCCCTATTA
*
91649011 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
91649038 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
91649065 GGTAAAATGAC
1 GGTAAAATGAC
91649076 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:91650366 original size:11 final size:11
Alignment explanation
Indices: 91650330--91650385 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
91650320 CATGGTATGT
91650330 ATGATATGCAC
1 ATGATATGCAC
* *
91650341 ATGACATG--T
1 ATGATATGCAC
91650350 ATGATATGCAC
1 ATGATATGCAC
*
91650361 ATGATATG--T
1 ATGATATGCAC
91650370 ATGATATGCAC
1 ATGATATGCAC
91650381 ATGAT
1 ATGAT
91650386 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:91650385 original size:20 final size:20
Alignment explanation
Indices: 91650319--91650385 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
91650309 ATTTTGATAA
*
91650319 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
91650339 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
91650359 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
91650379 ACATGAT
1 ACATGAT
91650386 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:91650399 original size:40 final size:39
Alignment explanation
Indices: 91650319--91650399 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
91650309 ATTTTGATAA
* *
91650319 ACATGGTATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATGTATCATATGC
91650359 ACATGATATGTATGATATGCACATG-ATGTATTCATAATGC
1 ACATGATATGTATGATATGCACATGAATGTA-TCAT-ATGC
91650399 A
1 A
91650400 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 29 0.78
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (39 bp):
ACATGATATGTATGATATGCACATGAATGTATCATATGC
Found at i:91650465 original size:23 final size:23
Alignment explanation
Indices: 91650435--91650555 Score: 206
Period size: 23 Copynumber: 5.2 Consensus size: 23
91650425 AGGAAGTGAA
91650435 AAAAGGCTTATGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATT
91650458 AAAAGGCTTATGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATT
*
91650481 AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATT
*
91650504 AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATT
*
91650527 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAA-GGCTTATGCCCCAGTTATT
91650551 AAAAG
1 AAAAG
91650556 AGGCTAGGCC
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 72 0.77
24 22 0.23
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (23 bp):
AAAAGGCTTATGCCCCAGTTATT
Found at i:91650805 original size:31 final size:31
Alignment explanation
Indices: 91650767--91650830 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
91650757 CGTTTACAGT
*
91650767 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
91650798 AAAGGCTTCGGTCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
91650829 AA
1 AA
91650831 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:91655715 original size:19 final size:19
Alignment explanation
Indices: 91655691--91655767 Score: 140
Period size: 19 Copynumber: 4.2 Consensus size: 19
91655681 AGATTACAAG
91655691 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91655710 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
91655727 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91655746 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
91655765 ATC
1 ATC
91655768 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.30
19 39 0.70
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:91655733 original size:36 final size:36
Alignment explanation
Indices: 91655691--91655761 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
91655681 AGATTACAAG
91655691 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
91655727 ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 ATCATATCTAAGATTGCATATCATATCTAAGATTG
91655762 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:91658659 original size:15 final size:15
Alignment explanation
Indices: 91658608--91658659 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
91658598 TATATATATT
*
91658608 AATATTTTAATAATA
1 AATATATTAATAATA
*
91658623 AATATATGATACAATTATA
1 AATATAT--T--AATAATA
91658642 AATATATTAATAATA
1 AATATATTAATAATA
91658657 AAT
1 AAT
91658660 GTTTTACAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 15 0.50
17 2 0.07
19 13 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:91664691 original size:18 final size:17
Alignment explanation
Indices: 91664651--91664697 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
91664641 TTAGGTTGAG
*
91664651 AAAATT-ATTTAATTAT
1 AAAATTAATTTATTTAT
91664667 AAAATTAATTTATTTAT
1 AAAATTAATTTATTTAT
91664684 ATAAATTAATTTAT
1 A-AAATTAATTTAT
91664698 GATGTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 6 0.21
17 10 0.36
18 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTAATTTATTTAT
Found at i:91665934 original size:12 final size:13
Alignment explanation
Indices: 91665900--91665934 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
91665890 AAGATATGAA
91665900 AATAAGGTAAATG
1 AATAAGGTAAATG
91665913 AATAAGGTAAATG
1 AATAAGGTAAATG
91665926 AAT-AGGTAA
1 AATAAGGTAA
91665935 GCAAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
AATAAGGTAAATG
Found at i:91666512 original size:39 final size:39
Alignment explanation
Indices: 91666454--91666533 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
91666444 CAAATCTTTC
*
91666454 TTGTCGAGACAGCACACCTATTTTCAACATTGCGCTATT
1 TTGTCGAGACAGCACACCTATTTTCAACATTGCCCTATT
*
91666493 TTGTCGAGACAGCATACCTATTTTCAACATTGCCCTATT
1 TTGTCGAGACAGCACACCTATTTTCAACATTGCCCTATT
91666532 TT
1 TT
91666534 AAGTTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (39 bp):
TTGTCGAGACAGCACACCTATTTTCAACATTGCCCTATT
Found at i:91675594 original size:30 final size:30
Alignment explanation
Indices: 91675537--91675594 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
91675527 AATCCCGAGC
*
91675537 TTAGGGGCAAAAATGTAAATATGCAAAAGT
1 TTAGGGGCAAAAATGTAAATATCCAAAAGT
* * *
91675567 TTAGGGGCAAAATTGTAATTTTCCAAAA
1 TTAGGGGCAAAAATGTAAATATCCAAAA
91675595 TTTGAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAAATATCCAAAAGT
Found at i:91676062 original size:46 final size:46
Alignment explanation
Indices: 91676012--91676187 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
91676002 TGGTTGAGCA
91676012 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
91676058 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
91676103 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
91676151 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91676188 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.59
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:91676168 original size:93 final size:93
Alignment explanation
Indices: 91676009--91676180 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
91675999 GGATGGTTGA
* *
91676009 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91676074 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
91676102 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
91676167 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
91676181 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:91682979 original size:18 final size:18
Alignment explanation
Indices: 91682958--91683002 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
91682948 ATTCTGTAAT
91682958 TAGTTTAAATTTAATCTC
1 TAGTTTAAATTTAATCTC
91682976 TAGTTTAAATTTAATCTC
1 TAGTTTAAATTTAATCTC
91682994 TAGTTTAAA
1 TAGTTTAAA
91683003 CTTGATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (18 bp):
TAGTTTAAATTTAATCTC
Found at i:91699654 original size:43 final size:43
Alignment explanation
Indices: 91699559--91699729 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
91699549 CATAAGCTCG
* * **
91699559 TACAATGCC-ATATCCCAGATATGGTCTTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTC-TTACATGAAATCACAA
** * * * *
91699601 TATTGATGCCACTATCCCAGACAAGGTCTTACATGAAATCATAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAA
** * *
91699645 TACGTTGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAA
**
91699688 TACAATGCCAATGTCCCAGACATGGTCTTACATTTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCACA
91699730 TCTCAATAAC
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 2 0.02
43 87 0.82
44 17 0.16
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCACAA
Found at i:91716616 original size:40 final size:40
Alignment explanation
Indices: 91716544--91716644 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
91716534 GCCACTTTAT
* *
91716544 TTTCTTTTCATATTTGTTTTCTTTTTATTCCCTTTC-CTTTCC
1 TTTCTTTTC-T-TTTCTTTTCTTTTTACTCCCTTTCACTTT-C
* * *
91716586 TTTCTTTTCTTTTCTTTTGTTTTTCCTCCCTTTCACTTTT
1 TTTCTTTTCTTTTCTTTTCTTTTTACTCCCTTTCACTTTC
91716626 TTTCTTTTGCTTTTCTTTT
1 TTTCTTTT-CTTTTCTTTT
91716645 TATCTTTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 28 0.54
41 15 0.29
42 9 0.17
ACGTcount: A:0.04, C:0.23, G:0.03, T:0.70
Consensus pattern (40 bp):
TTTCTTTTCTTTTCTTTTCTTTTTACTCCCTTTCACTTTC
Found at i:91716643 original size:19 final size:19
Alignment explanation
Indices: 91716621--91716669 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
91716611 CTCCCTTTCA
91716621 CTTTTTTTCTTTTGCTT-TT
1 CTTTTTTTCTTTT-CTTCTT
*
91716640 CTTTTTATC-TTTCTTCTT
1 CTTTTTTTCTTTTCTTCTT
91716658 CTTCTTTTTCTT
1 CTT-TTTTTCTT
91716670 CAACAAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 8 0.32
19 13 0.52
20 1 0.04
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (19 bp):
CTTTTTTTCTTTTCTTCTT
Found at i:91720462 original size:50 final size:49
Alignment explanation
Indices: 91720378--91720492 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 49
91720368 TAACCCATAG
* * * * * *
91720378 CTCGTTAGAGCATATCGATCTACAGTTGGTGTGAGCATACTGATTTACAA
1 CTCG-TAGAGCATACCGATCTACAGCTCGAGTGAGCATACCGATTCACAA
*
91720428 CTCGTGAGAGCATACCGATCTACAGCTCGAGTGAGCATACCGGTTCACAA
1 CTCGT-AGAGCATACCGATCTACAGCTCGAGTGAGCATACCGATTCACAA
91720478 CTCGTATGAGCATAC
1 CTCGTA-GAGCATAC
91720493 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 2 0.04
50 54 0.96
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (49 bp):
CTCGTAGAGCATACCGATCTACAGCTCGAGTGAGCATACCGATTCACAA
Found at i:91720468 original size:25 final size:25
Alignment explanation
Indices: 91720376--91720492 Score: 103
Period size: 25 Copynumber: 4.7 Consensus size: 25
91720366 TCTAACCCAT
*
91720376 AGCTCGT-TAGAGCATATCGATCTAC
1 AGCTCGTGT-GAGCATACCGATCTAC
* * * *
91720401 AGTTGGTGTGAGCATACTGATTTAC
1 AGCTCGTGTGAGCATACCGATCTAC
* *
91720426 AACTCGTGAGAGCATACCGATCTAC
1 AGCTCGTGTGAGCATACCGATCTAC
* *
91720451 AGCTCGAGTGAGCATACCGGT-TCAC
1 AGCTCGTGTGAGCATACCGATCT-AC
* *
91720476 AACTCGTATGAGCATAC
1 AGCTCGTGTGAGCATAC
91720493 ATGTACAGGA
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 1 0.01
25 70 0.97
26 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATCTAC
Found at i:91723995 original size:43 final size:43
Alignment explanation
Indices: 91723938--91724101 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
91723928 TTTCGATATG
*
91723938 TGATTT-CGTGTAAGACCACGTTTGGGACGTTGGCATCGATTT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT
* * * *
91723980 GAGATTTACGT-TAAGACCATGTTTGGGACATTGGCATCG-TATT
1 -TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TT
** *
91724023 TGATTT-TTTTTAAGACC-CTGTCTGGGACAG-TGGCATCGATATT
1 TGATTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TT
*
91724066 TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
91724102 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 32 0.32
43 63 0.63
44 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT
Found at i:91726114 original size:16 final size:16
Alignment explanation
Indices: 91726093--91726124 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
91726083 CATTGGTGGA
91726093 AGACATTGATATCAAT
1 AGACATTGATATCAAT
91726109 AGACATTGATATCAAT
1 AGACATTGATATCAAT
91726125 GGTTTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (16 bp):
AGACATTGATATCAAT
Found at i:91731665 original size:43 final size:43
Alignment explanation
Indices: 91731529--91731699 Score: 179
Period size: 43 Copynumber: 4.0 Consensus size: 43
91731519 ATAGGATTTT
* * *
91731529 GATATGTGATTTCGTGTAAGACCAC-GTTTGGGACTTTGGCATC
1 GATATTTGATTTCATGTAAGACC-CTGTTTGGGACATTGGCATC
* * * *
91731572 GAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATTGGCATT
1 GATATT-TGATTT-CATGTAAGACCCTGTTTGGGACATTGGCATC
*
91731616 G-TATTTGATTTCATGTAAGACCCTGTTTGGGACAGTGGCATC
1 GATATTTGATTTCATGTAAGACCCTGTTTGGGACATTGGCATC
* * *
91731658 GATATTTGATTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 GATATTTGATTTCATGTAAGACC-CTGTTTGGGACATTGGCAT
91731700 TATACAAGCT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.27
43 48 0.45
44 29 0.27
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GATATTTGATTTCATGTAAGACCCTGTTTGGGACATTGGCATC
Found at i:91737242 original size:22 final size:20
Alignment explanation
Indices: 91737190--91737243 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
91737180 GGTTTAGAAG
91737190 GGCGTGTGCCTCAGTCACAT
1 GGCGTGTGCCTCAGTCACAT
* **
91737210 GGTCGTATGCCTCCTTTCACAT
1 GG-CGTGTGCCT-CAGTCACAT
91737232 AGGCGTGTGCCT
1 -GGCGTGTGCCT
91737244 TAGCCACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 15 0.56
23 2 0.07
ACGTcount: A:0.13, C:0.30, G:0.28, T:0.30
Consensus pattern (20 bp):
GGCGTGTGCCTCAGTCACAT
Found at i:91739047 original size:60 final size:60
Alignment explanation
Indices: 91738948--91739172 Score: 238
Period size: 60 Copynumber: 3.8 Consensus size: 60
91738938 GAAGAAGTGC
* * * * *
91738948 CCCTATTTGCAGGACTGTGCCCCTGTTCACACTTTGGTGCCCCTGTATAGATTTTGGTGT
1 CCCTATTTGCATGACTATGCCCCTGTTCACACTTCGGTGCCCCTGTATAGACTTCGGTGT
* * * *
91739008 CTCTATTTGCATGACTATGCCCCTGTTCGCACTTCGGTGCCCCTATATACG-CTTCAGTGT
1 CCCTATTTGCATGACTATGCCCCTGTTCACACTTCGGTGCCCCTGTATA-GACTTCGGTGT
*** ** *
91739068 CCCTATTTGCATGACTATGGTGCTGTTCACACTTCAATGCCCCTGTATACACTTCGGTGT
1 CCCTATTTGCATGACTATGCCCCTGTTCACACTTCGGTGCCCCTGTATAGACTTCGGTGT
* * * * *
91739128 CCCTGTTTGCA-CATCTGTGCCCCTGTTCTCACTTTGGTGCCCCTG
1 CCCTATTTGCATGA-CTATGCCCCTGTTCACACTTCGGTGCCCCTG
91739173 ATTGCACGTA
Statistics
Matches: 133, Mismatches: 29, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
59 1 0.01
60 131 0.98
61 1 0.01
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.36
Consensus pattern (60 bp):
CCCTATTTGCATGACTATGCCCCTGTTCACACTTCGGTGCCCCTGTATAGACTTCGGTGT
Found at i:91739149 original size:40 final size:40
Alignment explanation
Indices: 91739105--91739191 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
91739095 CACACTTCAA
* * *
91739105 TGCCCCTGTAT-ACACTTCGGTGTCCCTGTTTGCACATCTG
1 TGCCCCTGT-TCACACTTCGGTGCCCCTGATTGCACATATG
* * *
91739145 TGCCCCTGTTCTCACTTTGGTGCCCCTGATTGCACGTATG
1 TGCCCCTGTTCACACTTCGGTGCCCCTGATTGCACATATG
91739185 TGCCCCT
1 TGCCCCT
91739192 ATTCTGCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.10, C:0.34, G:0.21, T:0.34
Consensus pattern (40 bp):
TGCCCCTGTTCACACTTCGGTGCCCCTGATTGCACATATG
Found at i:91739151 original size:20 final size:19
Alignment explanation
Indices: 91739105--91739191 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
91739095 CACACTTCAA
* * *
91739105 TGCCCCTGTATACACTTCGG
1 TGCCCCTGTTTGCAC-TCTG
*
91739125 TGTCCCTGTTTGCACATCTG
1 TGCCCCTGTTTGCAC-TCTG
*
91739145 TGCCCCTGTTCT-CACTTTGG
1 TGCCCCTGTT-TGCACTCT-G
* *
91739165 TGCCCCTGATTGCACGTATG
1 TGCCCCTGTTTGCAC-TCTG
91739185 TGCCCCT
1 TGCCCCT
91739192 ATTCTGCATT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.10, C:0.34, G:0.21, T:0.34
Consensus pattern (19 bp):
TGCCCCTGTTTGCACTCTG
Found at i:91739161 original size:120 final size:120
Alignment explanation
Indices: 91738943--91739171 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
91738933 GAAATGAAGA
* *** * * *
91738943 AGTGCCCCTATTTGCAGGACTGTGCCCCTGTTCACACTTTGGTGCCCCTGTATAGATTTTGGTGT
1 AGTGCCCCTATTTGCAGGACTATGCCCCTGTTCACACTTCAATGCCCCTGTATACACTTCGGTGT
* *
91739008 CTCTATTTGCATGACTATGCCCCTGTTCGCACTTCGGTGCCCCTATATACGCTTC
66 CCCTATTTGCATCACTATGCCCCTGTTCGCACTTCGGTGCCCCTATATACGCTTC
* * ***
91739063 AGTGTCCCTATTTGCATGACTATGGTGCTGTTCACACTTCAATGCCCCTGTATACACTTCGGTGT
1 AGTGCCCCTATTTGCAGGACTATGCCCCTGTTCACACTTCAATGCCCCTGTATACACTTCGGTGT
* * * *
91739128 CCCTGTTTGCA-CATCTGTGCCCCTGTTCTCACTTTGGTGCCCCT
66 CCCTATTTGCATCA-CTATGCCCCTGTTCGCACTTCGGTGCCCCT
91739172 GATTGCACGT
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
119 1 0.01
120 89 0.99
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (120 bp):
AGTGCCCCTATTTGCAGGACTATGCCCCTGTTCACACTTCAATGCCCCTGTATACACTTCGGTGT
CCCTATTTGCATCACTATGCCCCTGTTCGCACTTCGGTGCCCCTATATACGCTTC
Found at i:91748571 original size:2 final size:2
Alignment explanation
Indices: 91748564--91748595 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
91748554 GGTTGTGTAA
91748564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91748596 GCAAATGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91753716 original size:24 final size:24
Alignment explanation
Indices: 91753664--91753727 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
91753654 AGCTCTTCCC
* *
91753664 CAGCAATTTGAGTAGGTGCCCTAG
1 CAGCAACTTGAGTGGGTGCCCTAG
** **
91753688 CAGCAGGTTGAGTGGGTGCTTTAG
1 CAGCAACTTGAGTGGGTGCCCTAG
*
91753712 TAGCAACTTGAGTGGG
1 CAGCAACTTGAGTGGG
91753728 CTCCTTGGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.27
Consensus pattern (24 bp):
CAGCAACTTGAGTGGGTGCCCTAG
Found at i:91755142 original size:60 final size:60
Alignment explanation
Indices: 91755073--91755192 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
91755063 GAGGAAGAAA
91755073 AAAGAAAATTAAAAAGATTTTAGGAGCAAATGTGAAGTGCCCTAATCATTAACAAAAAGT
1 AAAGAAAATTAAAAAGATTTTAGGAGCAAATGTGAAGTGCCCTAATCATTAACAAAAAGT
*
91755133 AAAGAAAATTAAAAGGATTTTAGGAGCAAATGTGAAGTGCCCTAATCATTAACAAAAAGT
1 AAAGAAAATTAAAAAGATTTTAGGAGCAAATGTGAAGTGCCCTAATCATTAACAAAAAGT
91755193 TTAACTGCTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.23
Consensus pattern (60 bp):
AAAGAAAATTAAAAAGATTTTAGGAGCAAATGTGAAGTGCCCTAATCATTAACAAAAAGT
Found at i:91762117 original size:53 final size:52
Alignment explanation
Indices: 91762029--91762128 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 52
91762019 GAAGGAAAAG
*
91762029 ATGTGATATGTGTTCTCGTATAAGACCATAGCTGGGCTATGGCATTGGTACA
1 ATGTGATATGTGTTCTCGTATAAGACCATAGCTGGGATATGGCATTGGTACA
* *
91762081 ATGTGATAATGTGATTC-CGTATAAGACTATATCTGGGATATGGCATTG
1 ATGTGAT-ATGTG-TTCTCGTATAAGACCATAGCTGGGATATGGCATTG
91762129 ATATTATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 7 0.16
53 33 0.77
54 3 0.07
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (52 bp):
ATGTGATATGTGTTCTCGTATAAGACCATAGCTGGGATATGGCATTGGTACA
Found at i:91762319 original size:41 final size:41
Alignment explanation
Indices: 91762273--91762356 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
91762263 TGATAATGGA
91762273 AGTGAATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAAT
1 AGTGAATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAAT
91762314 AGTGAATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAAT
1 AGTGAATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAAT
91762355 AG
1 AG
91762357 CAACATGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.26
Consensus pattern (41 bp):
AGTGAATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAAT
Found at i:91762368 original size:41 final size:41
Alignment explanation
Indices: 91762277--91762369 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
91762267 AATGGAAGTG
**
91762277 AATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAATAGTG
1 AATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAATAGCA
91762318 AATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAATAGCA
1 AATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAATAGCA
91762359 ACATG-GAAATG
1 A-ATGAGAAATG
91762370 ATTCAAATGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 46 0.94
42 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.25
Consensus pattern (41 bp):
AATGAGAAATGGGCCCAAATGAGTTAAATTTGTGAATAGCA
Found at i:91763185 original size:30 final size:31
Alignment explanation
Indices: 91763145--91763203 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
91763135 GCAAGTCAGA
*
91763145 ATTCCACACGGGCTGGTCACACGGCCATGGG
1 ATTCCACACGGGCTGGCCACACGGCCATGGG
91763176 ATTCC-CACGGGCTGGCCACACGGCCATG
1 ATTCCACACGGGCTGGCCACACGGCCATG
91763204 TCCCAGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.15
Consensus pattern (31 bp):
ATTCCACACGGGCTGGCCACACGGCCATGGG
Found at i:91765992 original size:18 final size:18
Alignment explanation
Indices: 91765966--91766005 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
91765956 TGGTGGATTG
91765966 ATGACTCATGTTATTTGA
1 ATGACTCATGTTATTTGA
*
91765984 ATGATTCATGTTATTTGA
1 ATGACTCATGTTATTTGA
91766002 ATGA
1 ATGA
91766006 GAAATGGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (18 bp):
ATGACTCATGTTATTTGA
Found at i:91766913 original size:40 final size:40
Alignment explanation
Indices: 91766858--91767060 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
91766848 TGAATGATAC
* * * *
91766858 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
91766898 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
91766938 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
91766978 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
91767017 CCCGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
91767057 CCGG
1 CCGG
91767061 CTAAATTCGA
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.22
40 111 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:91775050 original size:40 final size:40
Alignment explanation
Indices: 91774932--91775132 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
91774922 TGAATGATAC
* * * *
91774932 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
91774972 CCGGGTTAAGA-CCGAAGGCATTT-TGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
91775010 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
91775050 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
91775089 CCCGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
91775129 CCGG
1 CCGG
91775133 CTAAATTCCG
Statistics
Matches: 142, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
38 21 0.15
39 58 0.41
40 63 0.44
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:91775145 original size:39 final size:39
Alignment explanation
Indices: 91774935--91775136 Score: 230
Period size: 39 Copynumber: 5.2 Consensus size: 39
91774925 ATGATACCCG
* * *
91774935 GGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCC
* *
91774974 GGGTTAAGA-CCGAAGGCATTT-TGCGAGTTGCTATATCC
1 -GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
*
91775012 GGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
1 -GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
* *
91775052 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCC
1 -GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
* * ** *
91775092 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
91775131 GGCTAA
1 GGCTAA
91775137 ATTCCGAAGA
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 21 0.15
39 63 0.44
40 59 0.41
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC
Found at i:91782030 original size:40 final size:40
Alignment explanation
Indices: 91781903--91782032 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
91781893 ATGCTGGAAA
* *
91781903 TTATATCCGGGTTAAGACCTGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGTGG
* * * *
91781943 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGTGG
*
91781983 TTCTATCCGGGCTAAGACCTGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCTGAAGGCATTCGTGCGA-GTGG
91782023 TTATATCCGG
1 TTATATCCGG
91782033 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGTGG
Found at i:91784808 original size:13 final size:13
Alignment explanation
Indices: 91784775--91784808 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
91784765 ATCAAAGAAT
91784775 ATTGAAGAAAACA
1 ATTGAAGAAAACA
*
91784788 ACTTGAAGAAAACC
1 A-TTGAAGAAAACA
91784802 ATTGAAG
1 ATTGAAG
91784809 CCGACTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (13 bp):
ATTGAAGAAAACA
Found at i:91785325 original size:19 final size:19
Alignment explanation
Indices: 91785301--91785338 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91785291 TACTCTCGAA
*
91785301 AGAGATGTTAGTATAATTT
1 AGAGATATTAGTATAATTT
91785320 AGAGATATTAGTATAATTT
1 AGAGATATTAGTATAATTT
91785339 TACATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
AGAGATATTAGTATAATTT
Found at i:91787976 original size:25 final size:25
Alignment explanation
Indices: 91787948--91787996 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
91787938 GCTAGGGACC
*
91787948 TATATATAAATT-GGTCAAGCATGGG
1 TATATA-AAATTCGATCAAGCATGGG
*
91787973 TATATAGAATTCGATCAAGCATGG
1 TATATAAAATTCGATCAAGCATGG
91787997 TTTTGTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (25 bp):
TATATAAAATTCGATCAAGCATGGG
Found at i:91790903 original size:23 final size:23
Alignment explanation
Indices: 91790875--91790923 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
91790865 ACCAAACTAG
91790875 AAAAATAAACAAATGCTGAATGA
1 AAAAATAAACAAATGCTGAATGA
*
91790898 AAAAATAAACAAATGCTGAATTA
1 AAAAATAAACAAATGCTGAATGA
91790921 AAA
1 AAA
91790924 GAAAACACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (23 bp):
AAAAATAAACAAATGCTGAATGA
Found at i:91792044 original size:15 final size:16
Alignment explanation
Indices: 91792024--91792055 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
91792014 AATAAAACAT
91792024 AAAAAC-AAAAAGAAA
1 AAAAACTAAAAAGAAA
91792039 AAAAACTAAAAAGAAA
1 AAAAACTAAAAAGAAA
91792055 A
1 A
91792056 GAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAACTAAAAAGAAA
Done.