Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 321 of 349
Found at i:107215312 original size:16 final size:17
Alignment explanation
Indices: 107215286--107215319 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
107215276 CTAAAATACT
*
107215286 AAACCCTTAAACCCTAA
1 AAACCCTTAAACACTAA
107215303 AAACCC-TAAACACTAA
1 AAACCCTTAAACACTAA
107215319 A
1 A
107215320 GTATAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACCCTTAAACACTAA
Found at i:107215326 original size:53 final size:54
Alignment explanation
Indices: 107215231--107215345 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 54
107215221 ATAACCCCTA
* * * *
107215231 AAACCCCTAAACCCTAAAAAAATCATGAACACTAATCTATAACCCCTAAAATACT
1 AAACCCCTAAACCCT-AAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
* * * ** *
107215286 AAACCCTTAAACCCT-AAAAACCCTAAACACTAAAGTATAACTTCTAAAACCCT
1 AAACCCCTAAACCCTAAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
107215339 AAACCCC
1 AAACCCC
107215346 AAAAAACATC
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 35 0.71
55 14 0.29
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (54 bp):
AAACCCCTAAACCCTAAAAAACCATAAACACTAAACTATAACCCCTAAAACACT
Found at i:107215516 original size:15 final size:15
Alignment explanation
Indices: 107215472--107215522 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
107215462 CGGTTTAATA
*
107215472 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
107215486 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
107215501 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
107215516 TTAATGG
1 TTTATGG
107215523 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:107216083 original size:6 final size:7
Alignment explanation
Indices: 107216049--107216136 Score: 81
Period size: 7 Copynumber: 12.3 Consensus size: 7
107216039 CATTAAACCG
107216049 AAATAAA
1 AAATAAA
107216056 AAAT--A
1 AAATAAA
*
107216061 AACTCAAA
1 AAAT-AAA
107216069 AAATAAA
1 AAATAAA
107216076 AAATAAA
1 AAATAAA
107216083 AAATAAA
1 AAATAAA
*
107216090 AAATTTAA
1 AAA-TAAA
* *
107216098 AATTTAA
1 AAATAAA
*
107216105 AATTAAA
1 AAATAAA
107216112 AAATTAAA
1 AAA-TAAA
107216120 AAATTAAA
1 AAA-TAAA
107216128 AAATAAA
1 AAATAAA
107216135 AA
1 AA
107216137 CTTAAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
5 4 0.06
7 42 0.60
8 24 0.34
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AAATAAA
Found at i:107216083 original size:14 final size:14
Alignment explanation
Indices: 107216049--107216136 Score: 81
Period size: 15 Copynumber: 6.1 Consensus size: 14
107216039 CATTAAACCG
107216049 AAATAAAAAAT--A
1 AAATAAAAAATAAA
*
107216061 AACTCAAAAAATAAA
1 AAAT-AAAAAATAAA
107216076 AAATAAAAAATAAA
1 AAATAAAAAATAAA
* * *
107216090 AAATTTAAAATTTAA
1 AAA-TAAAAAATAAA
*
107216105 AATTAAAAAATTAAA
1 AAATAAAAAA-TAAA
107216120 AAATTAAAAAATAAA
1 AAA-TAAAAAATAAA
107216135 AA
1 AA
107216137 CTTAAAAATT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 18 0.30
15 25 0.42
16 7 0.12
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAAATAAA
Found at i:107216142 original size:8 final size:7
Alignment explanation
Indices: 107216067--107216146 Score: 79
Period size: 7 Copynumber: 11.0 Consensus size: 7
107216057 AATAAACTCA
*
107216067 AAAAATA
1 AAAAATT
*
107216074 AAAAATA
1 AAAAATT
*
107216081 AAAAATA
1 AAAAATT
107216088 AAAAATT
1 AAAAATT
*
107216095 TAAAATT
1 AAAAATT
*
107216102 TAAAATT
1 AAAAATT
107216109 AAAAAATT
1 -AAAAATT
107216117 AAAAAATT
1 -AAAAATT
*
107216125 AAAAAAT
1 AAAAATT
107216132 AAAAACTT
1 AAAAA-TT
107216140 AAAAATT
1 AAAAATT
107216147 TAATATTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
7 46 0.70
8 20 0.30
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:107216149 original size:8 final size:8
Alignment explanation
Indices: 107216088--107216149 Score: 60
Period size: 8 Copynumber: 8.2 Consensus size: 8
107216078 ATAAAAAATA
107216088 AAAAATTT
1 AAAAATTT
107216096 -AAAATTT
1 AAAAATTT
107216103 -AAAA-TT
1 AAAAATTT
*
107216109 AAAAAATT
1 AAAAATTT
*
107216117 AAAAAATT
1 AAAAATTT
*
107216125 AAAAA-AT
1 AAAAATTT
*
107216132 AAAAACTT
1 AAAAATTT
107216140 AAAAATTT
1 AAAAATTT
107216148 AA
1 AA
107216150 TATTTAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 2 0.04
7 21 0.44
8 25 0.52
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATTT
Found at i:107216149 original size:23 final size:23
Alignment explanation
Indices: 107216067--107216156 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 23
107216057 AATAAACTCA
*
107216067 AAAAATAAAAAA-TAAAAA-ATA
1 AAAAATAAAAAATTAAAAATTTA
** *
107216088 AAAAATTTAAAATTTAAAA-TTA
1 AAAAATAAAAAATTAAAAATTTA
*
107216110 AAAAATTAAAAAATTAAAAA-ATA
1 AAAAA-TAAAAAATTAAAAATTTA
* * * *
107216133 AAAACTTAAAAATTTAATATTTA
1 AAAAATAAAAAATTAAAAATTTA
107216156 A
1 A
107216157 TATTTTAGTC
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
21 10 0.19
22 23 0.43
23 20 0.38
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATAAAAAATTAAAAATTTA
Found at i:107216156 original size:15 final size:15
Alignment explanation
Indices: 107216066--107216156 Score: 76
Period size: 15 Copynumber: 6.1 Consensus size: 15
107216056 AAATAAACTC
* * *
107216066 AAAAAATAAAAAATA
1 AAAAATTAAAAATTT
*
107216081 AAAAATAAAAAATTT
1 AAAAATTAAAAATTT
* *
107216096 -AAAATTTAAAATTA
1 AAAAATTAAAAATTT
*
107216110 AAAAATTAAAAAATT
1 AAAAATTAAAAATTT
* *
107216125 AAAAAATAAAAACTT
1 AAAAATTAAAAATTT
* *
107216140 AAAAATTTAATATTT
1 AAAAATTAAAAATTT
107216155 AA
1 AA
107216157 TATTTTAGTC
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
14 11 0.19
15 48 0.81
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:107216224 original size:26 final size:27
Alignment explanation
Indices: 107216195--107216257 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
107216185 TTCAATATTC
*
107216195 AAAATTAAAAAA-A-ATTCAAAAAGAGA
1 AAAATTAAAAAATATATT-AAAAAGAAA
*
107216221 AAAA-TAAAAAATATATTAAAAATAAA
1 AAAATTAAAAAATATATTAAAAAGAAA
*
107216247 AAAATTTAAAA
1 AAAATTAAAAA
107216258 TTAATCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 7 0.23
26 16 0.52
27 8 0.26
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (27 bp):
AAAATTAAAAAATATATTAAAAAGAAA
Found at i:107216241 original size:18 final size:16
Alignment explanation
Indices: 107216220--107216257 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
107216210 TCAAAAAGAG
107216220 AAAAATAAAAAATATATT
1 AAAAATAAAAAA-AT-TT
107216238 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
107216254 AAAA
1 AAAA
107216258 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:107218133 original size:4 final size:4
Alignment explanation
Indices: 107218124--107218166 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
107218114 AAAAATAATA
107218124 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
107218167 ACTATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:107218183 original size:8 final size:8
Alignment explanation
Indices: 107218114--107218183 Score: 61
Period size: 8 Copynumber: 8.6 Consensus size: 8
107218104 CATTATTTTC
107218114 AAAAATAA
1 AAAAATAA
*
107218122 TAAAATAA
1 AAAAATAA
*
107218130 ATAAATAA
1 AAAAATAA
*
107218138 ATAAATAA
1 AAAAATAA
*
107218146 ATAAATAA
1 AAAAATAA
*
107218154 ATAAATAA
1 AAAAATAA
107218162 ATAAAACT-A
1 A-AAAA-TAA
*
107218171 TAAAATAA
1 AAAAATAA
107218179 AAAAA
1 AAAAA
107218184 AATATCATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
7 1 0.02
8 47 0.89
9 4 0.08
10 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAA
Found at i:107220141 original size:43 final size:42
Alignment explanation
Indices: 107220022--107220289 Score: 376
Period size: 43 Copynumber: 6.3 Consensus size: 42
107220012 TACCATTATT
* *
107220022 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTG-GAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
107220065 TTTAGCGGCGTTTGTAAAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
107220107 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTC
1 TTTAGCGGCGTTTG-GAAAAAAGCGCCGCTAAAGGTCATGGTC
*
107220150 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCGAAAGGTCATGGTC
1 TTTAGCGGCGTTTG-GAAAAAAGCGCCGCTAAAGGTCATGGTC
*** * *
107220193 TTTAGCGGCGTTT-TTTAAAAGCGCCGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAGGTCATGGTC
* *
107220234 TTTAGCGGCGTTTGCGAAAAAAGCGCCGTTAAAGGTCATGGTA
1 TTTAGCGGCGTTTG-GAAAAAAGCGCCGCTAAAGGTCATGGTC
107220277 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
107220290 TTTCAAAAAA
Statistics
Matches: 201, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
41 35 0.17
42 38 0.19
43 128 0.64
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:107220281 original size:127 final size:128
Alignment explanation
Indices: 107220022--107220289 Score: 430
Period size: 127 Copynumber: 2.1 Consensus size: 128
107220012 TACCATTATT
* * *
107220022 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAG
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAG
* * *
107220087 CGCCGCTAAAGGTCATGGTTTTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTC
66 CGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTA
**
107220150 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCGAAAGGTCATGGTCTTTAGCGGCGTTT-TTTAAAAG
1 TTTAGCGGCGTTTGTGAAAAAAGCGCCGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAG
* **
107220214 CGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGTTAAAGGTCATGGTA
66 CGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTA
107220277 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
107220290 TTTCAAAAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
127 76 0.59
128 53 0.41
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTGAAAAAAGCGCCGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAG
CGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTA
Found at i:107220292 original size:84 final size:84
Alignment explanation
Indices: 107220022--107220289 Score: 376
Period size: 84 Copynumber: 3.2 Consensus size: 84
107220012 TACCATTATT
* * *
107220022 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAG
1 TTTAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGGAAAAAAG
*
107220087 CGCCGCTAAAGGTCATGGTT
65 CGCCGCTAAAGGTCATGGTA
* * *
107220107 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCGAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAAAA
1 TTTAGCGGCGTTTG-TATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-GAAAAAA
* *
107220172 GCGCCGCGAAAGGTCATGGTC
64 GCGCCGCTAAAGGTCATGGTA
* * *
107220193 TTTAGCGGCGTTT-TTTAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGCGGCGTTTGCGAAAAAAG
1 TTTAGCGGCGTTTGTATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-GAAAAAAG
*
107220257 CGCCGTTAAAGGTCATGGTA
65 CGCCGCTAAAGGTCATGGTA
107220277 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
107220290 TTTCAAAAAA
Statistics
Matches: 164, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
84 74 0.45
85 52 0.32
86 38 0.23
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (84 bp):
TTTAGCGGCGTTTGTATAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGGAAAAAAGC
GCCGCTAAAGGTCATGGTA
Found at i:107220361 original size:16 final size:16
Alignment explanation
Indices: 107220337--107220367 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107220327 ATAGCGACGT
*
107220337 TTTTTGCGGCGCTTAC
1 TTTTAGCGGCGCTTAC
107220353 TTTTAGCGGCGCTTA
1 TTTTAGCGGCGCTTA
107220368 AAAACGCCGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.42
Consensus pattern (16 bp):
TTTTAGCGGCGCTTAC
Found at i:107227584 original size:13 final size:13
Alignment explanation
Indices: 107227566--107227590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107227556 GAATAAACTG
107227566 TATTTAATGGCTA
1 TATTTAATGGCTA
107227579 TATTTAATGGCT
1 TATTTAATGGCT
107227591 GAACGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
TATTTAATGGCTA
Found at i:107227961 original size:21 final size:21
Alignment explanation
Indices: 107227902--107227962 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
107227892 GATTATATGA
* * *
107227902 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
107227923 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
107227944 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
107227963 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:107228952 original size:45 final size:45
Alignment explanation
Indices: 107228777--107228953 Score: 286
Period size: 45 Copynumber: 3.9 Consensus size: 45
107228767 TACTACTACT
* *
107228777 GTTACCAATTCGGCACTTTGTGTGTCGAATATTGTTACTGCTA-C
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
107228821 TGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
1 -GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
107228867 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
* *
107228912 GTTACCGATTCAGCACTTTGTGTG-CTGAATACTGTTACTGTT
1 GTTACCGATTCGGCACTTTGTGTGTC-GAATATTGTTACTGTT
107228954 CCGGATTTGT
Statistics
Matches: 126, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
44 1 0.01
45 124 0.98
46 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTATC
Found at i:107229158 original size:18 final size:18
Alignment explanation
Indices: 107229137--107229407 Score: 149
Period size: 18 Copynumber: 14.6 Consensus size: 18
107229127 TAACTGATTA
107229137 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
107229155 TTACTGGATAATTGACTA
1 TTACTGAATAATTGACTG
*
107229173 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
107229191 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
107229209 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
107229227 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* * *
107229245 TCACTGAATGAA-CGAATG
1 TTACTGAAT-AATTGACTG
* *
107229263 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
107229282 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
107229299 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
107229317 TTACTGGATAACCGATCAATTGATTG
1 TTACT-G---A---AT-AATTGACTG
* * ** *
107229343 ATACTGAATAACTGGTTA
1 TTACTGAATAATTGACTG
* *
107229361 TTATTGAATAATTGATTG
1 TTACTGAATAATTGACTG
* *
107229379 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
107229397 TTACTGAATAA
1 TTACTGAATAA
107229408 ATAATTGTTC
Statistics
Matches: 199, Mismatches: 34, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
17 19 0.10
18 145 0.73
19 18 0.09
22 2 0.01
25 3 0.02
26 12 0.06
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:107229190 original size:36 final size:36
Alignment explanation
Indices: 107229125--107229407 Score: 180
Period size: 36 Copynumber: 7.6 Consensus size: 36
107229115 AAAGGTATGA
*
107229125 AATAACTGATTATTACTGAATAATTGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * *
107229161 GATAATTGACTATTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
*
107229197 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * * * *
107229233 AATAACTGATTGTCACTGAATGAA-CGAATGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* *
107229269 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * * * *
107229305 AATAATTGACTGTTACTGGATAACCGATCAATTGATTGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACTGTTACTG
** * * *
107229349 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* *
107229385 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
107229408 ATAATTGTTC
Statistics
Matches: 190, Mismatches: 39, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
35 10 0.05
36 134 0.71
37 18 0.09
39 1 0.01
40 1 0.01
42 2 0.01
43 4 0.02
44 20 0.11
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:107229201 original size:54 final size:51
Alignment explanation
Indices: 107229137--107229327 Score: 168
Period size: 54 Copynumber: 3.6 Consensus size: 51
107229127 TAACTGATTA
* * *
107229137 TTACTGAATAATTGACTGTTACTGGATAATTGACTATTACTGGATATTAGACTG
1 TTACTGAATAATTGAATGTTACTGAATAATTGA-TATTACTGAATATT-GA-TG
* * *
107229191 TTACTGAATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTG
1 TTACTGAATAATTGAATGTTACTGAATAATTGAT-ATTACTGAAT-ATTGA-TG
* * * * *
107229245 TCACTGAATGAA-CGAATGCTACTGAATAACTTAATAGTTACTGAATATCTGATT
1 TTACTGAAT-AATTGAATGTTACTGAATAA-TTGATA-TTACTGAATAT-TGATG
* *
107229299 TTACTGAATAATTGACTGTTACTGGATAA
1 TTACTGAATAATTGAATGTTACTGAATAA
107229328 CCGATCAATT
Statistics
Matches: 111, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
53 3 0.03
54 88 0.79
55 20 0.18
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (51 bp):
TTACTGAATAATTGAATGTTACTGAATAATTGATATTACTGAATATTGATG
Found at i:107233161 original size:46 final size:46
Alignment explanation
Indices: 107232916--107233145 Score: 388
Period size: 46 Copynumber: 5.0 Consensus size: 46
107232906 AGTGTGCTCT
* *
107232916 CTGATGTGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
107232962 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
107233008 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
107233054 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
107233100 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
107233146 ATGACGGGAA
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 176 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:107233559 original size:16 final size:17
Alignment explanation
Indices: 107233538--107233570 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107233528 ATGATGGTGC
107233538 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
107233554 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
107233571 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:107241407 original size:20 final size:20
Alignment explanation
Indices: 107241338--107241400 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
107241328 TGTCAAAATA
107241338 ACACGGGCGTGCGCCTGTAT
1 ACACGGGCGTGCGCCTGTAT
107241358 ACACGGGCGTGCGCCTGTAT
1 ACACGGGCGTGCGCCTGTAT
*
107241378 ACACGGGCGTACGCCTGTAT
1 ACACGGGCGTGCGCCTGTAT
107241398 ACA
1 ACA
107241401 TAGGCGTGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (20 bp):
ACACGGGCGTGCGCCTGTAT
Found at i:107246287 original size:20 final size:20
Alignment explanation
Indices: 107246260--107246306 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
107246250 TAAATATAAG
*
107246260 ATAATAAAC-AAATAAAAAC
1 ATAATAAACAAAAGAAAAAC
107246279 ATGAATAAACTAAAAGAAAAAC
1 AT-AATAAAC-AAAAGAAAAAC
107246301 ATAATA
1 ATAATA
107246307 CATGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 4 0.17
22 11 0.46
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
ATAATAAACAAAAGAAAAAC
Found at i:107246973 original size:19 final size:19
Alignment explanation
Indices: 107246931--107246991 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
107246921 CATATCATAT
107246931 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
107246949 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
107246967 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
107246986 CATATC
1 CATATC
107246992 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:107248878 original size:30 final size:31
Alignment explanation
Indices: 107248766--107248879 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
107248756 TTAGTCTTGA
*
107248766 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
107248796 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
107248827 CATGTCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
107248858 CATATCACTGGG-CAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
107248880 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 14 0.18
31 65 0.82
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:107248950 original size:42 final size:42
Alignment explanation
Indices: 107248903--107248994 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
107248893 TGACCCTTAG
* *
107248903 GCCCATTTCAATGTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
107248945 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
107248987 GCCCATTT
1 GCCCATTT
107248995 AGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:107249170 original size:25 final size:25
Alignment explanation
Indices: 107249142--107249211 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
107249132 CTCTTTTAAT
*
107249142 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
107249167 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
107249192 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
107249212 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:107250043 original size:27 final size:27
Alignment explanation
Indices: 107250013--107250077 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
107250003 GGGCATATTC
107250013 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
107250040 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
107250067 GTCTTTTTACC
1 GTCATTTTACC
107250078 TATTAGGGGT
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:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:107250161 original size:27 final size:27
Alignment explanation
Indices: 107250131--107250336 Score: 126
Period size: 27 Copynumber: 7.6 Consensus size: 27
107250121 GTAAATCTAC
*
107250131 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTAT
* * *
107250158 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACCAAGGGTATTTCAATAA-TTTTAT
* * * *
107250186 AAAGTCAAAGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCAATAATTTTAT
* * * * *
107250214 AAATCAGGGGTATTTTAGTAATTTTAC
1 AAACCAAGGGTATTTCAATAATTTTAT
*** ** *
107250241 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAATAATTTTAT
*
107250268 AAACC-AGTGGTATTTCAATAATTTTAC
1 AAACCAAG-GGTATTTCAATAATTTTAT
* * *** *
107250295 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAATAATTTTAT
* *
107250322 AAACTAGGGGTATTT
1 AAACCAAGGGTATTT
107250337 TGGTAATTCT
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.01
27 113 0.77
28 15 0.10
29 16 0.11
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTAT
Found at i:107250280 original size:54 final size:53
Alignment explanation
Indices: 107250137--107250344 Score: 166
Period size: 54 Copynumber: 3.8 Consensus size: 53
107250127 CTACAAACCA
* ** ** * *
107250137 AGGGTATTTCAATAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCA
1 AGGGTATTTCGATAATTTTACAAACCAGGGGTATTT-TAGTAA-TTTTACAAA-T-T
* * ** *
107250193 AAGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTAGTAATTTTACAAATT
1 AGGGTATTTCGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT
* * * * *
107250246 GAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTCAATAATTTTACAAACT
1 -AGGGTATTTCGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT
* * * *
107250300 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 A-GGGTATTTCGATAATTTTACAAACCAGGGGTATTTTAGTAATT
107250345 CTATCCTACA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 81 0.64
55 10 0.08
56 34 0.27
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT
Found at i:107250316 original size:81 final size:81
Alignment explanation
Indices: 107250195--107250344 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
107250185 GAAAGTCAAA
* ** *
107250195 GGTATTTCTATAATTTTGTAAATCAGGGGTATTTTAGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCAATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAG-GGGTATTTCGG
107250259 TAATTTTACAAACCAGT
65 TAATTTTACAAACCAGT
* *
107250276 GGTATTTCAATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCAATAATTTTACAAATC-AGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGG
107250340 TAATT
65 TAATT
107250345 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTCAATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTTACAAACCAGT
Found at i:107250337 original size:27 final size:27
Alignment explanation
Indices: 107250219--107250344 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
107250209 TTTGTAAATC
*
107250219 AGGGGTATTTTAGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
107250245 TGAGGGTATTTCGGTAATTTTACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* ***
107250273 AGTGGTATTTCAATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
107250300 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
107250327 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
107250345 CTATCCTACA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:107250361 original size:54 final size:54
Alignment explanation
Indices: 107250194--107250377 Score: 147
Period size: 54 Copynumber: 3.4 Consensus size: 54
107250184 AGAAAGTCAA
** ** * * * * *
107250194 AGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTAGTAATTTTACAAA-TTG
1 AGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAATAATTCTACAAACTAG
* *
107250247 AGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTCAATAATTTTACAAACTAG
1 A-GGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAATAATTCTACAAACTAG
* * * *** **
107250302 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTAC-AG
1 AGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAATAATTCTA-CAAACTAG
* *
107250356 AGGTATTTCAGTAATTTCACAA
1 AGGTATTTCGGTAATTTTACAA
107250378 TCGAGGGTAA
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 99 0.94
55 5 0.05
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
AGGTATTTCGGTAATTTTACAAACCAGGGGTATTTCAATAATTCTACAAACTAG
Found at i:107250361 original size:81 final size:81
Alignment explanation
Indices: 107250194--107250377 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
107250184 AGAAAGTCAA
* ** *
107250194 AGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGG
1 AGGTATTTCAATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATAGAGGGTATTTCGG
*
107250259 TAATTTTACAAACCAG
66 TAATTCTACAAACCAG
* * *
107250275 TGGTATTTCAATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 AGGTATTTCAATAATTTTACAAATC-AGGGGTATTTTAGTAATTTTACAAA-TAGAGGGTATTTC
**
107250338 GGTAATTCTATCCTA-CAG
64 GGTAATTCTA-CAAACCAG
* *
107250356 AGGTATTTCAGTAATTTCACAA
1 AGGTATTTCAATAATTTTACAA
107250378 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 82 0.94
82 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
AGGTATTTCAATAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATAGAGGGTATTTCGG
TAATTCTACAAACCAG
Found at i:107250413 original size:27 final size:27
Alignment explanation
Indices: 107250376--107250518 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
107250366 GTAATTTCAC
107250376 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
107250403 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* *
107250430 AATTGAGGGTAAAACGGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
107250457 AATCGAGGGTGAAACGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* **
107250483 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
107250510 AATCGAGGG
1 AATCGAGGG
107250519 CATTTCAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 23 0.23
27 78 0.77
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:107252646 original size:22 final size:23
Alignment explanation
Indices: 107252616--107252682 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
107252606 TGCACTATTG
*
107252616 AACAGAGAGCACTAAA-GTGCTA
1 AACAAAGAGCACTAAATGTGCTA
*
107252638 TACAAAGAGCAC-AAATGTGCTA
1 AACAAAGAGCACTAAATGTGCTA
** *
107252660 AACGGAGAGCACT-AATGAGCTA
1 AACAAAGAGCACTAAATGTGCTA
107252682 A
1 A
107252683 TAATCAGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 3 0.08
22 34 0.92
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (23 bp):
AACAAAGAGCACTAAATGTGCTA
Found at i:107260642 original size:12 final size:12
Alignment explanation
Indices: 107260625--107260654 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
107260615 CCTACTTGAT
107260625 GATGAATTCGAC
1 GATGAATTCGAC
107260637 GATGAATTCGAC
1 GATGAATTCGAC
107260649 GATGAA
1 GATGAA
107260655 GAGTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (12 bp):
GATGAATTCGAC
Found at i:107262733 original size:15 final size:15
Alignment explanation
Indices: 107262715--107262762 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
107262705 TTTAAAACAC
*
107262715 ATTAAAATGAAATAA
1 ATTAAAATGAAAAAA
*
107262730 ATTACAATGAGAGAAAA
1 ATTAAAATGA-A-AAAA
*
107262747 ATTAATATGAAAAAA
1 ATTAAAATGAAAAAA
107262762 A
1 A
107262763 CGTAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 14 0.52
16 2 0.07
17 11 0.41
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (15 bp):
ATTAAAATGAAAAAA
Found at i:107262795 original size:75 final size:75
Alignment explanation
Indices: 107262735--107262886 Score: 216
Period size: 75 Copynumber: 2.0 Consensus size: 75
107262725 AATAAATTAC
* *
107262735 AATGAGAGAAAAATTAATATGA-AAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAAATGA
1 AATGAAAGAAAAATGAA-ATGAGAAAAAA-GTAAATTAAAATGGAAAGAAAGATAATTTAAATGA
107262799 AATGAGAAAAAA
64 AATGAGAAAAAA
* *** *
107262811 AATTAAATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
1 AATGAAAGAAAAATGAAATGAGAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
107262876 TGAGAAAAAA
66 TGAGAAAAAA
107262886 A
1 A
107262887 TTAAATTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 51 0.75
76 17 0.25
ACGTcount: A:0.63, C:0.01, G:0.14, T:0.22
Consensus pattern (75 bp):
AATGAAAGAAAAATGAAATGAGAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAA
TGAGAAAAAA
Found at i:107262839 original size:21 final size:22
Alignment explanation
Indices: 107262815--107262953 Score: 110
Period size: 21 Copynumber: 6.1 Consensus size: 22
107262805 AAAAAAAATT
107262815 AAATTTAAA-TGAAATGAGAAA
1 AAATTTAAATTGAAATGAGAAA
*
107262836 AAA-TTAAATTAAAATGGAAAGAAA
1 AAATTTAAATTGAAAT-G--AGAAA
107262860 GATAATTTAAA-TGAAATGAGAAA
1 -A-AATTTAAATTGAAATGAGAAA
* *
107262883 AAAATTAAATTAAAATAGGAAGAAA
1 AAATTTAAATTGAAAT--G-AGAAA
107262908 GATAATTTAAA-TGAAATGAGAAA
1 -A-AATTTAAATTGAAATGAGAAA
*
107262931 AAA-TTAAATTTAAATG-GAAA
1 AAATTTAAATTGAAATGAGAAA
107262951 AAA
1 AAA
107262954 GAATAATTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
20 17 0.18
21 23 0.24
22 8 0.08
23 10 0.10
24 7 0.07
25 7 0.07
26 13 0.13
27 12 0.12
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.24
Consensus pattern (22 bp):
AAATTTAAATTGAAATGAGAAA
Found at i:107262888 original size:48 final size:47
Alignment explanation
Indices: 107262798--107263022 Score: 305
Period size: 48 Copynumber: 4.7 Consensus size: 47
107262788 AATTTAAATG
*
107262798 AAATGAGAAAAAAAATTAAATTTAAATGAAATGAG-AAAAAATTAAATTA
1 AAATG-GAAAAAAGA-T-AATTTAAATGAAATGAGAAAAAAATTAAATTA
107262847 AAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTA
1 AAATGGAAA-AAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTA
* *
107262895 AAATAGGAAGAAAGATAATTTAAATGAAATGAG-AAAAAATTAAATTT
1 AAAT-GGAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTA
* * *
107262942 AAATGGAAAAAAGAATAATTTAAATAAAATGAGAAAAAAAATAAATTT
1 AAATGGAAAAAAG-ATAATTTAAATGAAATGAGAAAAAAATTAAATTA
*
107262990 AAAT-GAAAAAAGATAATTTAAATAAAATG-GAAA
1 AAATGGAAAAAAGATAATTTAAATGAAATGAGAAA
107263023 TGGAAATGAA
Statistics
Matches: 165, Mismatches: 6, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
45 4 0.02
46 25 0.15
47 60 0.36
48 63 0.38
49 13 0.08
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (47 bp):
AAATGGAAAAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTA
Found at i:107262929 original size:95 final size:93
Alignment explanation
Indices: 107262816--107263022 Score: 319
Period size: 95 Copynumber: 2.2 Consensus size: 93
107262806 AAAAAAATTA
*
107262816 AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAG-ATAATTTAAATGAAATGAG
1 AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAA-AAAGAATAATTTAAATAAAATGAG
* *
107262880 AAAAAAATTAAATTAAAATAGGAAGAAAGAT
65 AAAAAAAATAAATTAAAAT--GAAAAAAGAT
*
107262911 AATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGAAAAAAGAATAATTTAAATAAAATGAGA
1 AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAAAAGAATAATTTAAATAAAATGAGA
*
107262976 AAAAAAATAAATTTAAATGAAAAAAGAT
66 AAAAAAATAAATTAAAATGAAAAAAGAT
*
107263004 AATTTAAATAAAATG-GAAA
1 AATTTAAATGAAATGAGAAA
107263023 TGGAAATGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
92 4 0.04
93 23 0.22
94 4 0.04
95 74 0.70
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (93 bp):
AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAAAAGAATAATTTAAATAAAATGAGA
AAAAAAATAAATTAAAATGAAAAAAGAT
Found at i:107262961 original size:21 final size:21
Alignment explanation
Indices: 107262937--107263012 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 21
107262927 GAAAAAATTA
107262937 AATTTAAATGGAAAAAAGAAT
1 AATTTAAATGGAAAAAAGAAT
107262958 AATTTAAATAAAATGAGAAAAAA-AAT
1 AA-TT---T-AAATG-GAAAAAAGAAT
107262984 AAATTTAAAT-GAAAAAAG-AT
1 -AATTTAAATGGAAAAAAGAAT
107263004 AATTTAAAT
1 AATTTAAAT
107263013 AAAATGGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
19 9 0.19
20 9 0.19
21 2 0.04
22 6 0.13
23 1 0.02
25 1 0.02
26 10 0.21
27 9 0.19
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.26
Consensus pattern (21 bp):
AATTTAAATGGAAAAAAGAAT
Found at i:107263000 original size:19 final size:18
Alignment explanation
Indices: 107262975--107263016 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
107262965 ATAAAATGAG
*
107262975 AAAAAAAATAAATTTAAAT
1 AAAAAAGAT-AATTTAAAT
107262994 GAAAAAAGATAATTTAAAT
1 -AAAAAAGATAATTTAAAT
107263013 AAAA
1 AAAA
107263017 TGGAAATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAAAGATAATTTAAAT
Found at i:107263046 original size:47 final size:46
Alignment explanation
Indices: 107262798--107263049 Score: 276
Period size: 47 Copynumber: 5.3 Consensus size: 46
107262788 AATTTAAATG
*
107262798 AAATGAGAAAAAAAATTAAATTTAAATGAAATGAGAAAAAATTAAATTA
1 AAATGA-AAAAAAGA-T-AATTTAAATGAAATGAGAAAAAATTAAATTA
*
107262847 AAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTA
1 AAAT-GAAAAAAAGATAATTTAAATGAAATGAG-AAAAAATTAAATTA
* * *
107262895 AAATAGGAAGAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTT
1 AAAT-GAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTA
* * * *
107262942 AAATGGAAAAAAGAATAATTTAAATAAAATGAGAAAAAAAATAAATTT
1 AAATGAAAAAAAG-ATAATTTAAATGAAATGAG-AAAAAATTAAATTA
* * *
107262990 AAATG-AAAAAAGATAATTTAAATAAAATG-GAAATGGAAATGAAA-TG
1 AAATGAAAAAAAGATAATTTAAATGAAATGAGAAA---AAATTAAATTA
107263036 AAATGAAAAAAAGA
1 AAATGAAAAAAAGA
107263050 AAAAAGAAAA
Statistics
Matches: 184, Mismatches: 11, Indels: 18
0.86 0.05 0.08
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 31 0.17
47 73 0.40
48 64 0.35
49 10 0.05
50 2 0.01
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (46 bp):
AAATGAAAAAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTA
Found at i:107263047 original size:95 final size:93
Alignment explanation
Indices: 107262798--107263049 Score: 285
Period size: 95 Copynumber: 2.6 Consensus size: 93
107262788 AATTTAAATG
* * * * *
107262798 AAATGAGAAAAAAAATTAAATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AAAT-AGAAAAAAGA-T-AATTTAAATAAAATGAGAAAAAATGAAATTGAAAT-GAAAAAAAGAT
* *
107262863 AATTTAAATGAAATGAGAAAAAAATTAAATTA
62 AATTTAAATAAAATGAGAAAAAAAATAAATTA
* * * * *
107262895 AAATAGGAAGAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTTAAATGGAAAAAAGAATAA
1 AAATA-GAAAAAAGATAATTTAAATAAAATGAGAAAAAATGAAATTGAAATGAAAAAAAG-ATAA
*
107262960 TTTAAATAAAATGAGAAAAAAAATAAATTT
64 TTTAAATAAAATGAGAAAAAAAATAAATTA
107262990 AAAT-GAAAAAAGATAATTTAAATAAAATG-GAAATGGAAATGAAA-TGAAATGAAAAAAAGA
1 AAATAGAAAAAAGATAATTTAAATAAAATGAGAAA---AAATGAAATTGAAATGAAAAAAAGA
107263050 AAAAAGAAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
92 4 0.03
93 24 0.18
94 20 0.15
95 76 0.55
96 2 0.01
97 11 0.08
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATAGAAAAAAGATAATTTAAATAAAATGAGAAAAAATGAAATTGAAATGAAAAAAAGATAATT
TAAATAAAATGAGAAAAAAAATAAATTA
Found at i:107263389 original size:18 final size:19
Alignment explanation
Indices: 107263353--107263393 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
107263343 CGTATATTAG
*
107263353 GAAAAAAATAAATTTAAAT
1 GAAAAAAATAAATTGAAAT
*
107263372 GAAAAAAATTAA-TGAAAT
1 GAAAAAAATAAATTGAAAT
107263390 GAAA
1 GAAA
107263394 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (19 bp):
GAAAAAAATAAATTGAAAT
Found at i:107263392 original size:5 final size:5
Alignment explanation
Indices: 107263382--107263482 Score: 67
Period size: 5 Copynumber: 18.0 Consensus size: 5
107263372 GAAAAAAATT
* *
107263382 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
* *
107263434 AATGA ATAAGA AATGA AATGA AATGTTA AATGA ATATAA AATGA AATGA
1 AATGA A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA
107263483 TGATTATGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
5 42 0.54
6 21 0.27
7 15 0.19
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (5 bp):
AATGA
Found at i:107263403 original size:12 final size:12
Alignment explanation
Indices: 107263384--107263495 Score: 50
Period size: 12 Copynumber: 9.0 Consensus size: 12
107263374 AAAAAATTAA
107263384 TGAAATGAAATG
1 TGAAATGAAATG
* *
107263396 TTAAATGAAATA
1 TGAAATGAAATG
107263408 TGAATATGAAA--
1 TGAA-ATGAAATG
* *
107263419 TGAAATGTAATT
1 TGAAATGAAATG
* *
107263431 TGTAATGAATAAG
1 TGAAATGAA-ATG
107263444 AAATGAAATGAAATG
1 ---TGAAATGAAATG
* *
107263459 TTAAATG-AATA
1 TGAAATGAAATG
*
107263470 TAAAATGAAATG
1 TGAAATGAAATG
*
107263482 ATGATTATGAAATG
1 -TGA-AATGAAATG
107263496 GAATGGAAGT
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
10 5 0.07
11 13 0.18
12 29 0.39
13 9 0.12
14 8 0.11
15 2 0.03
16 8 0.11
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (12 bp):
TGAAATGAAATG
Found at i:107263447 original size:28 final size:28
Alignment explanation
Indices: 107263386--107263482 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 28
107263376 AAAATTAATG
*
107263386 AAATGAAATGTTAAATGAAATATGAATATG
1 AAATGAAATGTTAAATG-AATAAGAA-ATG
*
107263416 AAATGAAATGTAATTTGTAATGAATAAGAAATG
1 AAATGAAATG----TT-AAATGAATAAGAAATG
107263449 AAATGAAATGTTAAATGAATATA-AAATG
1 AAATGAAATGTTAAATGAATA-AGAAATG
107263477 AAATGA
1 AAATGA
107263483 TGATTATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
28 19 0.33
29 3 0.05
30 10 0.17
33 13 0.22
34 9 0.16
35 4 0.07
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (28 bp):
AAATGAAATGTTAAATGAATAAGAAATG
Found at i:107263604 original size:25 final size:25
Alignment explanation
Indices: 107263576--107263623 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
107263566 TTGAAATAAG
*
107263576 AAATAA-TTAAATTTAAATGGAAAAA
1 AAATAATTTAAA-TGAAATGGAAAAA
107263601 AAATAATTTAAATGAAATGGAAA
1 AAATAATTTAAATGAAATGGAAA
107263624 TGTAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATAATTTAAATGAAATGGAAAAA
Found at i:107263646 original size:11 final size:11
Alignment explanation
Indices: 107263610--107263697 Score: 63
Period size: 11 Copynumber: 7.7 Consensus size: 11
107263600 AAAATAATTT
*
107263610 AAATGAAATGG
1 AAATGAAATGA
107263621 AAATGTAAATG-
1 AAATG-AAATGA
107263632 AAATGAAATGA
1 AAATGAAATGA
* *
107263643 AAATACAAATAA
1 AAAT-GAAATGA
107263655 AAATGAAATGGA
1 AAATGAAAT-GA
*
107263667 AATATAAATATG-
1 AA-ATGAA-ATGA
**
107263679 AAATGAAAAAA
1 AAATGAAATGA
107263690 AAATGAAA
1 AAATGAAA
107263698 GGACTTGTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
10 6 0.10
11 30 0.48
12 19 0.31
13 5 0.08
14 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.15, T:0.19
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:107263686 original size:5 final size:5
Alignment explanation
Indices: 107263610--107263644 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
107263600 AAAATAATTT
107263610 AAATG AAATGG AAATG TAAATG AAATG AAATG AAA
1 AAATG AAAT-G AAATG -AAATG AAATG AAATG AAA
107263645 ATACAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:107264045 original size:17 final size:18
Alignment explanation
Indices: 107264011--107264049 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
107264001 TGTATATTAG
*
107264011 GAAAAAATAAATTTAAAT
1 GAAAAAATAAATTCAAAT
*
107264029 GAAAAAATTAA-TCAAAT
1 GAAAAAATAAATTCAAAT
107264046 GAAA
1 GAAA
107264050 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (18 bp):
GAAAAAATAAATTCAAAT
Found at i:107264202 original size:17 final size:17
Alignment explanation
Indices: 107264180--107264213 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
107264170 AAACAAAAAC
107264180 TGAAATCAGAAATAAAT
1 TGAAATCAGAAATAAAT
*
107264197 TGAAATGAGAAATAAAT
1 TGAAATCAGAAATAAAT
107264214 AAATTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.24
Consensus pattern (17 bp):
TGAAATCAGAAATAAAT
Found at i:107264214 original size:21 final size:20
Alignment explanation
Indices: 107264189--107264229 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
107264179 CTGAAATCAG
107264189 AAATAAATTGAAATGAGAAAT
1 AAATAAATTGAAATG-GAAAT
*
107264210 AAATAAATTTAAATGGAAAT
1 AAATAAATTGAAATGGAAAT
107264230 TTTTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (20 bp):
AAATAAATTGAAATGGAAAT
Found at i:107264246 original size:5 final size:5
Alignment explanation
Indices: 107264236--107264298 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
107264226 AAATTTTTTT
* *
107264236 AATGA AATGA AGATGAA AATGA AATGA AATGA GAA--A AA-AA AAGGGA
1 AATGA AATGA A-ATG-A AATGA AATGA AATGA -AATGA AATGA AA-TGA
107264282 AATGA AATGA AATGA AA
1 AATGA AATGA AATGA AA
107264299 AAACAAAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 2 0.04
4 4 0.08
5 31 0.62
6 11 0.22
7 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.14
Consensus pattern (5 bp):
AATGA
Found at i:107264258 original size:17 final size:16
Alignment explanation
Indices: 107264236--107264299 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
107264226 AAATTTTTTT
107264236 AATGAAATGAAGATGAA
1 AATGAAATGAA-ATGAA
107264253 AATGAAATGAAATGAGA
1 AATGAAATGAAATGA-A
* *
107264270 AA--AAA--AAAGGGA
1 AATGAAATGAAATGAA
107264282 AATGAAATGAAATGAA
1 AATGAAATGAAATGAA
107264298 AA
1 AA
107264300 AACAAAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
12 3 0.08
13 4 0.11
14 3 0.08
15 3 0.08
16 11 0.29
17 14 0.37
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (16 bp):
AATGAAATGAAATGAA
Found at i:107266988 original size:90 final size:90
Alignment explanation
Indices: 107266894--107267213 Score: 500
Period size: 90 Copynumber: 3.6 Consensus size: 90
107266884 TACGGATTAA
* * *
107266894 ATTAAATTTGCAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
107266959 GAAACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* * * *
107266984 ATTAAATTTATAGATGTAAAAAAATACAAACATTCTAAGAAATTAATATACAAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
*
107267049 GAAATCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* *
107267074 ATTAAATTTAAAAATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATA-AAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
107267138 GAAACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* *
107267163 ATTAAATTTACAGGTGTAAAAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATAT-AAAAAAATACAAACATTCT-AAGAAATTAATACA
107267214 ATTATTTTGA
Statistics
Matches: 210, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
89 43 0.20
90 161 0.77
91 6 0.03
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACCTTAAATCCTAAACAACTAC
Found at i:107267812 original size:74 final size:74
Alignment explanation
Indices: 107267716--107267854 Score: 235
Period size: 74 Copynumber: 1.9 Consensus size: 74
107267706 CCCGAAAAAG
*
107267716 GTGGTGCCAGCCATCAGTGTCCCAAAGT-AAAAAAAATGCATTGGGAGGCAAAAAATGTACTTGG
1 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCATTGGGAGGC-AAAAATGTACTTGG
107267780 TGTCGGTCAT
65 TGTCGGTCAT
* *
107267790 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCATTTGGAGGCGAAAATGTACTTGGT
1 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCATTGGGAGGCAAAAATGTACTTGGT
107267855 ACCGGCCATT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 41 0.67
75 20 0.33
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (74 bp):
GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAATGCATTGGGAGGCAAAAATGTACTTGGT
GTCGGTCAT
Found at i:107268135 original size:73 final size:72
Alignment explanation
Indices: 107268010--107268163 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 72
107268000 AATTTATATG
* *
107268010 CACTGGTGCCAGCAATCAGTGTTCCAAAAAAATTTGCATTGGGAGCCTAAATTGTACTTAAATTT
1 CACTGGTGCCAGCAATCAGTGCTCCAAAAAAA-TTGCATTGGGAGCCAAAATTGTAC---AATTT
107268075 TTTTT-AAATA
62 TTTTTAAAATA
* * *
107268085 CACTGGTGCCGATC-ATTAGTGCTCCAAAAAAA-TGCATTGGGAGCCAAAATTTTACAATTTTTT
1 CACTGGTGCC-AGCAATCAGTGCTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACAATTTTTT
107268148 TTAAAATA
65 TTAAAATA
*
107268156 CATTGGTG
1 CACTGGTG
107268164 TCGACCATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
70 10 0.14
71 12 0.17
73 21 0.30
75 26 0.37
76 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (72 bp):
CACTGGTGCCAGCAATCAGTGCTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACAATTTTTTT
TAAAATA
Found at i:107272720 original size:132 final size:132
Alignment explanation
Indices: 107272481--107272741 Score: 387
Period size: 132 Copynumber: 2.0 Consensus size: 132
107272471 TAAGTATCCA
* *
107272481 TTTAAAAATTCTTTAAAACGAAGGTGAAATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGTGAAATCCGATATTTAGAAATTCGCGGAATAGTGCCCTAAC
* * * * *
107272546 GTGTTGGGTTGTAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAGATTTCACTCATGC
66 GTGCTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGC
107272611 CT
131 CT
** * *
107272613 TTTAAAAATTCTTTAAAACGAAGGTGACGTGCGATATTTAGAAATTCGCGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGTGAAATCCGATATTTAGAAATTCGCGGAATAGTGCCCTAAC
* * * *
107272678 GTGCTGGGTTGCAATTTCTCGGTTGCTTAAAATAATCAAATATTCCTTCAAAATTTCATTCATG
66 GTGCTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATG
107272742 TCTTCTAATT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 114 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGTGAAATCCGATATTTAGAAATTCGCGGAATAGTGCCCTAAC
GTGCTGGGTTGCAATTTCGCGGTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGC
CT
Found at i:107273127 original size:132 final size:132
Alignment explanation
Indices: 107272512--107273143 Score: 429
Period size: 132 Copynumber: 4.8 Consensus size: 132
107272502 AGGTGAAATC
* * * * * *
107272512 CGATATTTGGCAATTCGCGGAATAGTGCCCTAACGTGTTGGGTTGTAATTTCGCGTTTGCTCAAA
1 CGATATTTGGCAATTCGAGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
* * * ** * * ** *
107272577 ATAATCGAATATCCCTTCAAGATTTCACTCATGCCTTT-TAAAAATTCTTTAAAACGAAGGTGAC
66 ATAATCGAATATCTCTTTAAAATTTCACTCAT-ATTTTCTAAAAACTCTTTAAAACGAAAGCAAT
*
107272641 GTG
130 GTT
* * * * * *
107272644 CGATATTTAGAAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGGTTGCTT-AA
1 CGATATTTGGCAATTCGAGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTG-TTCAA
* * * * * **** *
107272708 AATAATCAAATAT-TCCTTCAAAATTTCATTCATGTCTTCTAATTTTTTTTTAAAACGAAAGCAA
65 AATAATCGAATATCT-CTTTAAAATTTCACTCATATTTTCTAAAAACTCTTTAAAACGAAAGCAA
*
107272772 TATT
129 TGTT
*** * * * ** *
107272776 CGGCGTTTGACAATTC-AAGAATCA-TGCGCTATCGTGCTGGGTTGTGATCTCTCGTTT-TCTCA
1 CGATATTTGGCAATTCGAGGAAT-AGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGT-TCA
* * * * * *
107272838 AAACAATTGAATATTTCTTT-ATATTCTCACTCATGTTTAT-TAAAAACACTTTAAAACG-AAGA
64 AAATAATCGAATATCTCTTTAAAATT-TCACTCATATTT-TCTAAAAACTCTTTAAAACGAAAG-
*
107272900 CGATGTT
126 CAATGTT
* * * * * * * ** * * * *
107272907 CAATGTTTGGCGATTTGA-GAATCGTGCCCTATCGCGGTGGGTTGCGCTTTTTCATTAGTTCGAA
1 CGATATTTGGCAATTCGAGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
* * * * * * * * * *
107272971 ACAATTGAAGATCCCTTCAGAATTTCACTCACATTTTCTAAAGACTCTTAAAAATGAAAGCAATG
66 ATAATCGAATATCTCTTTAAAATTTCACTCATATTTTCTAAAAACTCTTTAAAACGAAAGCAATG
107273036 TT
131 TT
* *
107273038 CGATATTTGGCAATTCGAGGAATAGTGCCCTATTGTGCTGGGTTGCAATCTCTCGTTTGTTCAAA
1 CGATATTTGGCAATTCGAGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
**
107273103 ATAATCGAATATCTCTTTGGAATTTCACTCATATTTTCTAA
66 ATAATCGAATATCTCTTTAAAATTTCACTCATATTTTCTAA
107273144 GGCGAGGCAA
Statistics
Matches: 376, Mismatches: 107, Indels: 34
0.73 0.21 0.07
Matches are distributed among these distances:
129 1 0.00
130 9 0.02
131 175 0.47
132 190 0.51
133 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (132 bp):
CGATATTTGGCAATTCGAGGAATAGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
ATAATCGAATATCTCTTTAAAATTTCACTCATATTTTCTAAAAACTCTTTAAAACGAAAGCAATG
TT
Found at i:107284730 original size:44 final size:44
Alignment explanation
Indices: 107284667--107285436 Score: 709
Period size: 44 Copynumber: 17.1 Consensus size: 44
107284657 CGAATCCTGT
** *
107284667 AGATTTGGCGTCTCTGTATTTTCAGAGGGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
** *
107284711 AGATTTGGCGTCTCTGTATTGGTGGAGGGCAGATCGAATATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * * * *
107284755 AGATTCGGCGTCTCTGTATTGGTAGAGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * * * *
107284799 ATATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* *
107284843 AAATTTGGCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
107284887 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * * ** * * ** **
107284931 AGATTTGGCATCTCTGTATTGGCCGCGTCTCTGTATTGGCGGAGGGC
1 AGATTTGGCGTCTCTGTATTGGCAGAG-GGCAG-A-TCGAAGATAGC
* ** ** * * * ** *
107284978 AGA-TCGAAGATAGCAG-ATTTGGCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCG-TCTCTGTA-TT-G-G---C-AGA-GGGCAGATCGAAGAT---AG----C
* * * *
107285036 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* *
107285080 AGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* *
107285124 AGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* *
107285168 AGATTTGGCGTCTCTGTATTGGCGGAGGGTAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * **
107285212 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAAT
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * *
107285256 AGATTTGGCATCTTTGTATTGTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* ** *
107285300 AGATTTGACGTCTCTGTATTGGTGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
* * * * *
107285344 AGATTTGGCATCTCTGTGTTGACAGAGAGCAAATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAG-C
* * * *
107285388 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAAATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
107285432 AGATT
1 AGATT
107285437 GGTGTTCCCG
Statistics
Matches: 592, Mismatches: 111, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.00
44 531 0.90
45 2 0.00
46 4 0.01
47 14 0.02
48 2 0.00
49 1 0.00
51 15 0.03
52 4 0.01
53 3 0.01
54 1 0.00
56 1 0.00
57 1 0.00
58 9 0.02
59 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGC
Found at i:107284967 original size:61 final size:61
Alignment explanation
Indices: 107284894--107285014 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
107284884 AGCAGATTTG
*
107284894 GCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
1 GCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTATATTGGCC
* *
107284955 GCGTCTCTGTATTGGCGGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGC
1 GCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTATATTGGC
107285015 AGAGGGCAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (61 bp):
GCGTCTCTGTATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTATATTGGCC
Found at i:107284980 original size:105 final size:105
Alignment explanation
Indices: 107284850--107285058 Score: 391
Period size: 105 Copynumber: 2.0 Consensus size: 105
107284840 AACAAATTTG
*
107284850 GCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGG
1 GCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGCAGAGG
107284915 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
66 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
* *
107284955 GCGTCTCTGTATTGGCGGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGCAGAGG
1 GCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGCAGAGG
107285020 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGC
66 GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGC
107285059 AGAGAGCAGA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (105 bp):
GCGTCTCTATATTGGCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATTGGCAGAGG
GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
Found at i:107287391 original size:24 final size:24
Alignment explanation
Indices: 107287347--107287397 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
107287337 TTAAAATACC
* *
107287347 TTTCTTTGTGATTTATCAAAT-AT
1 TTTCTTTATGATATATCAAATAAT
*
107287370 TTTCTTTATGTATATATGAAATAAT
1 TTTCTTTATG-ATATATCAAATAAT
107287395 TTT
1 TTT
107287398 AGAAACTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCTTTATGATATATCAAATAAT
Found at i:107288700 original size:132 final size:130
Alignment explanation
Indices: 107288081--107288711 Score: 429
Period size: 132 Copynumber: 4.8 Consensus size: 130
107288071 AGGCGGAATC
* * *
107288081 CGATATTTGGCAATTCGCG-GAATAGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAA
1 CGATATTTGGCAATTCG-GAGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
* * * * **
107288145 AATAATCGAATATCCCTTCAAGATTTCACTCATGCCTTTT-AAAAATTCTTTAAAACGAAGGTGA
65 AATAATCGAATATCTCTTCAA-ATTTCACTCAT--ATTTTCTAAAATTCTTTAAAACGAAAGAAA
* *
107288209 CGTG
127 TGTT
* ** *
107288213 CGATATTTAGCAATTCACAGAATCA-TGCCCTAACGTGCTGGGTTGCAATTTCTCGGTTGCTT-A
1 CGATATTTGGCAATTCGGAGAAT-AGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTG-TTCA
* * * * ** * * *
107288276 AAATAATCAAATAT-TCCTTCAAAATTTCATTCATGTCTTCTAATTTTTTTTAAAACGAAGGCAA
64 AAATAATCGAATATCT-CTTC-AAATTTCACTCATATTTTCTAAAATTCTTTAAAACGAAAGAAA
*
107288340 TATT
127 TGTT
*** * * * ** * *
107288344 CGGCGTTTGACAATTC-GAGAATCA-TGCCCTATCGTGTTGGGTTGTGATCTCTCGTTTGCTCAA
1 CGATATTTGGCAATTCGGAGAAT-AGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAA
* * * * * *
107288407 AACAATCAAATAT-TCCTTTATATTCTCACTCATGTTTAT-TAAAAATACTTTAAAACG-AAGAC
65 AATAATCGAATATCT-CTTCAAATT-TCACTCATATTT-TCT-AAAATTCTTTAAAACGAAAGA-
*
107288469 GATGTT
125 AATGTT
* * * * * * * * ** * * * *
107288475 CAATGTTTGGCGATT-TGAGAATCGTGCCCTACCGCGCTAGGTTGCGCTTTTTCATTAGTTCGAA
1 CGATATTTGGCAATTCGGAGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
* * * * * * *
107288539 ACAATTGAAGATCCCTTCAGAATTTCACTCACATTTTCTAAAGACTCTTAAAAACGAAAGAAATG
66 ATAATCGAATATCTCTTCA-AATTTCACTCATATTTTCTAAA-ATTCTTTAAAACGAAAGAAATG
107288604 TT
129 TT
* * *
107288606 CGATATTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTGCAATCTCTCGTTTGTTCAAA
1 CGATATTTGGCAATTCGGAGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
*
107288671 ATAATCGAATATCTCTTCGGAATTTCACTCATATTTTCTAA
66 ATAATCGAATATCTCTTC-AAATTTCACTCATATTTTCTAA
107288712 GGCGAGGCAA
Statistics
Matches: 380, Mismatches: 99, Indels: 40
0.73 0.19 0.08
Matches are distributed among these distances:
129 5 0.01
130 74 0.19
131 142 0.37
132 155 0.41
133 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (130 bp):
CGATATTTGGCAATTCGGAGAATAGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAA
ATAATCGAATATCTCTTCAAATTTCACTCATATTTTCTAAAATTCTTTAAAACGAAAGAAATGTT
Found at i:107289392 original size:31 final size:31
Alignment explanation
Indices: 107289305--107289392 Score: 87
Period size: 31 Copynumber: 3.0 Consensus size: 31
107289295 AATGTACAAT
* *
107289305 TATATACAT-AAATTTTAA-TTTAATGT-AA
1 TATATACATGAAATTTTAATTTTGATTTAAA
* *
107289333 T-TATACGTGAAATTTTAATTGTCG-TTTAAA
1 TATATACATGAAATTTTAATT-TTGATTTAAA
*
107289363 TATATACTTGAAATTTTAATTTTGATTTAA
1 TATATACATGAAATTTTAATTTTGATTTAA
107289393 TCTAACACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 6 0.12
28 10 0.21
29 3 0.06
30 6 0.12
31 23 0.48
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.49
Consensus pattern (31 bp):
TATATACATGAAATTTTAATTTTGATTTAAA
Found at i:107294547 original size:19 final size:20
Alignment explanation
Indices: 107294504--107294557 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
107294494 TAAACTTTAA
* *
107294504 TAAAAAATATTAAAAATTAG
1 TAAAAAATATAAAAAAATAG
*
107294524 GAAAAAATATAAAAAAAT-G
1 TAAAAAATATAAAAAAATAG
**
107294543 TAAAATTTATAAAAA
1 TAAAAAATATAAAAA
107294558 CTTATAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (20 bp):
TAAAAAATATAAAAAAATAG
Found at i:107294563 original size:29 final size:29
Alignment explanation
Indices: 107294484--107294566 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
107294474 ATAAGATTTA
*
107294484 TAAAATTTAT-TAAACTTTAATAAAAAATAT
1 TAAAATTTATAAAAAC-TT-ATAAAAAATAT
* * *
107294514 TAAAAATTAGGAAAAA-ATATAAAAAA-AT
1 TAAAATTTA-TAAAAACTTATAAAAAATAT
107294542 GTAAAATTTATAAAAACTTATAAAA
1 -TAAAATTTATAAAAACTTATAAAA
107294567 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
28 7 0.17
29 23 0.55
30 9 0.21
32 3 0.07
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (29 bp):
TAAAATTTATAAAAACTTATAAAAAATAT
Found at i:107294792 original size:38 final size:38
Alignment explanation
Indices: 107294750--107294844 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
107294740 TTGGTACGAT
* ****
107294750 AATTTTTATAATTTTTTTATGAATTTTATATTTCTTTA-
1 AATTTTTATAATTTTTTTACG-ATTTTATAAAAATTTAC
*
107294788 AATTTATTATAATTTTCTTACGATTTTATAAAAATTTAC
1 AATTT-TTATAATTTTTTTACGATTTTATAAAAATTTAC
*
107294827 AATTTTTATATTTTTTTT
1 AATTTTTATAATTTTTTT
107294845 TCTAATTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
38 28 0.60
39 19 0.40
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (38 bp):
AATTTTTATAATTTTTTTACGATTTTATAAAAATTTAC
Found at i:107294806 original size:21 final size:21
Alignment explanation
Indices: 107294750--107294806 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
107294740 TTGGTACGAT
107294750 AATTTTTATAATTTT-TTTATG
1 AATTTTTATAATTTTCTTTA-G
107294771 AA-TTTTAT-A-TTTCTTTA-
1 AATTTTTATAATTTTCTTTAG
107294788 AATTTATTATAATTTTCTT
1 AATTT-TTATAATTTTCTT
107294807 ACGATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.06
18 5 0.16
19 9 0.29
20 7 0.23
21 8 0.26
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
AATTTTTATAATTTTCTTTAG
Found at i:107295240 original size:14 final size:13
Alignment explanation
Indices: 107295216--107295253 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
107295206 TCAAGTACCC
107295216 AATTAAATAAAAA
1 AATTAAATAAAAA
*
107295229 AACTTAATTAAAAA
1 AA-TTAAATAAAAA
107295243 AATTAAA-AAAA
1 AATTAAATAAAA
107295254 TTCACCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 12 0.55
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTAAATAAAAA
Found at i:107295828 original size:51 final size:51
Alignment explanation
Indices: 107295765--107295890 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
107295755 CAATCAAATC
* * * *
107295765 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
107295816 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
107295867 TCTAAGATTATAAAATCATATCTT
1 TCTAAGATTATAAAATCATATCTT
107295891 TCAAGATCAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:107300231 original size:41 final size:41
Alignment explanation
Indices: 107300076--107300221 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
107300066 TGATTCAGTA
107300076 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
107300117 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
107300158 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
107300199 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
107300222 GAAACGTCTG
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 93 0.93
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:107307795 original size:41 final size:41
Alignment explanation
Indices: 107307640--107307785 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
107307630 TGATTCAGTA
107307640 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
107307681 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
107307722 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
107307763 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
107307786 GAAACGTCTG
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 93 0.93
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:107311257 original size:51 final size:51
Alignment explanation
Indices: 107311189--107311326 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 51
107311179 ATCTACAATC
* * * * *
107311189 AAATCTCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* * ** *
107311240 AGATATGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* *
107311291 AAATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 AAATATCTAAGATTATAAAATCATATCTTATAAGAT
107311327 CATGTTTCCA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (51 bp):
AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
Found at i:107314274 original size:19 final size:21
Alignment explanation
Indices: 107314238--107314284 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
107314228 ATTATAATGC
**
107314238 TTTACATTTTACCTCAAACTTT
1 TTTAC-TTTTACCTCAAAAATT
107314260 TTTACTTTT-CC-CAAAAATT
1 TTTACTTTTACCTCAAAAATT
107314279 TTTACT
1 TTTACT
107314285 CCCTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 2 0.09
21 4 0.17
22 5 0.22
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTACTTTTACCTCAAAAATT
Found at i:107315465 original size:20 final size:20
Alignment explanation
Indices: 107315442--107315480 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
107315432 GAATTATTTT
107315442 TATTCAAAT-TTAATTATAAA
1 TATTCAAATATTAA-TATAAA
*
107315462 TATTTAAATATTAATATAA
1 TATTCAAATATTAATATAA
107315481 TTATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTCAAATATTAATATAAA
Found at i:107315799 original size:10 final size:11
Alignment explanation
Indices: 107315782--107315832 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
107315772 ACTAAAGGAA
107315782 ATTTTTTTGTT
1 ATTTTTTTGTT
107315793 ATTTTTTTGTT
1 ATTTTTTTGTT
107315804 ATTTTTTAATGTT
1 ATTTTTT--TGTT
*
107315817 ATTTTCTTGTT
1 ATTTTTTTGTT
*
107315828 GTTTT
1 ATTTT
107315833 CTCCCTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 26 0.72
13 10 0.28
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (11 bp):
ATTTTTTTGTT
Found at i:107315816 original size:24 final size:22
Alignment explanation
Indices: 107315782--107315832 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
107315772 ACTAAAGGAA
*
107315782 ATTTTTTTGTTATTTTTTTGTT
1 ATTTTTTTGTTATTTTCTTGTT
107315804 ATTTTTTAATGTTATTTTCTTGTT
1 ATTTTTT--TGTTATTTTCTTGTT
*
107315828 GTTTT
1 ATTTT
107315833 CTCCCTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
24 18 0.72
ACGTcount: A:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (22 bp):
ATTTTTTTGTTATTTTCTTGTT
Found at i:107316061 original size:12 final size:12
Alignment explanation
Indices: 107316044--107316082 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
107316034 CCTGCTCGTA
107316044 TTAATATTTTTT
1 TTAATATTTTTT
*
107316056 TTAATA-TTATT
1 TTAATATTTTTT
*
107316067 TTAATATTATTT
1 TTAATATTTTTT
107316079 TTAA
1 TTAA
107316083 ATACATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTAATATTTTTT
Found at i:107316070 original size:11 final size:11
Alignment explanation
Indices: 107316044--107316079 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
107316034 CCTGCTCGTA
*
107316044 TTAATATTTTTT
1 TTAATA-TTATT
107316056 TTAATATTATT
1 TTAATATTATT
107316067 TTAATATTATT
1 TTAATATTATT
107316078 TT
1 TT
107316080 TAAATACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTAATATTATT
Found at i:107316413 original size:11 final size:11
Alignment explanation
Indices: 107316387--107316425 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
107316377 TGTTTTCATA
*
107316387 TCGGGCC-AGA
1 TCGGGCCGAGC
107316397 TCGGGCCGAGC
1 TCGGGCCGAGC
107316408 TCGGGCCGAGC
1 TCGGGCCGAGC
107316419 TCGGGCC
1 TCGGGCC
107316426 TAAAAAGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.10, C:0.36, G:0.44, T:0.10
Consensus pattern (11 bp):
TCGGGCCGAGC
Found at i:107319159 original size:28 final size:28
Alignment explanation
Indices: 107319111--107319166 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
107319101 TTATCAACCT
107319111 CATAAGTTATAAAACTCTTCCTATACCC
1 CATAAGTTATAAAACTCTTCCTATACCC
* * *
107319139 CATAAGTTATGAGACTTTTCCTATACCC
1 CATAAGTTATAAAACTCTTCCTATACCC
107319167 TATTAATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (28 bp):
CATAAGTTATAAAACTCTTCCTATACCC
Found at i:107324272 original size:28 final size:28
Alignment explanation
Indices: 107324232--107324294 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
107324222 GTCATTATCA
107324232 ACCCCATAAGTTATAAAACTCTTCATAT
1 ACCCCATAAGTTATAAAACTCTTCATAT
* * * *
107324260 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCATAT
107324288 ACCCCAT
1 ACCCCAT
107324295 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCATAT
Found at i:107333207 original size:21 final size:21
Alignment explanation
Indices: 107333181--107333224 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
107333171 ATGAGTGAAA
107333181 TCACAGTTTCATATAATCTCT
1 TCACAGTTTCATATAATCTCT
107333202 TCACAGTTTCATATAATCTCT
1 TCACAGTTTCATATAATCTCT
107333223 TC
1 TC
107333225 TCTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (21 bp):
TCACAGTTTCATATAATCTCT
Found at i:107333319 original size:27 final size:26
Alignment explanation
Indices: 107333289--107333347 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
107333279 ATGGTGTCGA
*
107333289 AAAAATTGAAT-TTGAATAGTATTTAAT
1 AAAAATT-AATATTG-ATAGCATTTAAT
* *
107333316 AAAAAATATTATTGATAGCATTTAAT
1 AAAAATTAATATTGATAGCATTTAAT
107333342 AAAAAT
1 AAAAAT
107333348 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (26 bp):
AAAAATTAATATTGATAGCATTTAAT
Found at i:107333359 original size:26 final size:26
Alignment explanation
Indices: 107333303--107333359 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
107333293 ATTGAATTTG
* * *
107333303 AATAGTATTTAATAAAAAATATTATT
1 AATAGCATTTAATAAAAAACATTATA
*
107333329 GATAGCATTTAATAAAAATACATTA-A
1 AATAGCATTTAATAAAAA-ACATTATA
107333355 AATAG
1 AATAG
107333360 ATAGATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (26 bp):
AATAGCATTTAATAAAAAACATTATA
Found at i:107335256 original size:24 final size:24
Alignment explanation
Indices: 107335228--107335279 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
107335218 TTAGCAAGTC
* *
107335228 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
107335252 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
107335276 AAAT
1 AAAT
107335280 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:107336113 original size:7 final size:7
Alignment explanation
Indices: 107336101--107336128 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
107336091 AATGATACCA
107336101 TTTTTAT
1 TTTTTAT
107336108 TTTTTAT
1 TTTTTAT
107336115 TTTTTAT
1 TTTTTAT
107336122 TTTTTAT
1 TTTTTAT
107336129 AGCAATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:107341290 original size:42 final size:43
Alignment explanation
Indices: 107341239--107341344 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
107341229 CCTGATCAGT
* *
107341239 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGGCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
107341281 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
107341325 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
107341345 GATCAGTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 35 0.67
44 17 0.33
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:107341291 original size:23 final size:21
Alignment explanation
Indices: 107341264--107341334 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
107341254 TGCCTAAAAT
*
107341264 GACACACGAGGTGGCTGATAC
1 GACACACGAGGTGCCTGATAC
107341285 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
107341306 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
107341329 GACACA
1 GACACA
107341335 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 37 0.79
23 10 0.21
ACGTcount: A:0.32, C:0.27, G:0.28, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:107343248 original size:22 final size:23
Alignment explanation
Indices: 107343216--107343277 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
107343206 TTATGCACTA
*
107343216 TTAAACAGAGAGCACTAAA-GTG
1 TTAAACAGAGAGCACTAAATATG
*
107343238 TTATACAGAGAGCA-TAAATATG
1 TTAAACAGAGAGCACTAAATATG
107343260 TTAAACAGAGAGCACTAA
1 TTAAACAGAGAGCACTAA
107343278 TGTACTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.11
22 28 0.80
23 3 0.09
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (23 bp):
TTAAACAGAGAGCACTAAATATG
Found at i:107352306 original size:22 final size:23
Alignment explanation
Indices: 107352281--107352326 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
107352271 CAACCAAACC
107352281 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
107352303 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
107352326 A
1 A
107352327 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:107352332 original size:23 final size:23
Alignment explanation
Indices: 107352288--107352332 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107352278 ACCAATTCAA
*
107352288 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
107352311 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
107352333 CACATACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:107360077 original size:22 final size:23
Alignment explanation
Indices: 107360052--107360097 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
107360042 CAACCAAACC
107360052 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
107360074 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
107360097 A
1 A
107360098 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:107360103 original size:23 final size:23
Alignment explanation
Indices: 107360059--107360103 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107360049 ACCAATTCAA
*
107360059 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
107360082 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
107360104 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:107361731 original size:14 final size:15
Alignment explanation
Indices: 107361708--107361841 Score: 64
Period size: 14 Copynumber: 8.9 Consensus size: 15
107361698 AAAAAAGGAT
*
107361708 ATATACATAATAA-A
1 ATATATATAATAAGA
107361722 ATATATATAA-AAGA
1 ATATATATAATAAGA
107361736 ATATATA-AGA-AA-A
1 ATATATATA-ATAAGA
* *
107361749 ATAAATATTATAAGGA
1 ATATATATAATAA-GA
*
107361765 ATGTTATATAATAAGA
1 AT-ATATATAATAAGA
*
107361781 TATAGTATGTAATAA-A
1 -ATA-TATATAATAAGA
* * *
107361797 ATATAAATAATTATA
1 ATATATATAATAAGA
* * *
107361812 ATGAAATATAATATGGT
1 AT-ATATATAATA-AGA
107361829 ATATATATAATAA
1 ATATATATAATAA
107361842 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 11 0.12
14 29 0.33
15 6 0.07
16 22 0.25
17 21 0.24
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (15 bp):
ATATATATAATAAGA
Found at i:107362213 original size:21 final size:22
Alignment explanation
Indices: 107362183--107362225 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
107362173 CATTAAAGCT
107362183 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
107362205 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
107362226 CAAGAAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:107375421 original size:14 final size:15
Alignment explanation
Indices: 107375398--107375531 Score: 64
Period size: 14 Copynumber: 8.9 Consensus size: 15
107375388 AAAAAGATAT
*
107375398 ATATACATAATAA-A
1 ATATATATAATAAGA
107375412 ATATATATAA-AAGA
1 ATATATATAATAAGA
107375426 ATATATA-AGA-AA-A
1 ATATATATA-ATAAGA
* *
107375439 ATAAATATTATAAGGA
1 ATATATATAATAA-GA
*
107375455 ATGTTATATAATAAGA
1 AT-ATATATAATAAGA
*
107375471 TATAGTATGTAATAA-A
1 -ATA-TATATAATAAGA
* * *
107375487 ATATAAATAATTATA
1 ATATATATAATAAGA
* * *
107375502 ATGAAATATAATATGGT
1 AT-ATATATAATA-AGA
107375519 ATATATATAATAA
1 ATATATATAATAA
107375532 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 11 0.12
14 29 0.33
15 6 0.07
16 22 0.25
17 21 0.24
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (15 bp):
ATATATATAATAAGA
Found at i:107375896 original size:21 final size:22
Alignment explanation
Indices: 107375866--107375908 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
107375856 CATTAAAGCT
107375866 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
107375888 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
107375909 CAAGAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:107378498 original size:20 final size:20
Alignment explanation
Indices: 107378470--107378508 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
107378460 AAAATATTTT
107378470 TATTCAAAT-TTAATTATAAA
1 TATTCAAATATTAA-TATAAA
*
107378490 TATTTAAATATTAATATAA
1 TATTCAAATATTAATATAA
107378509 TTTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTCAAATATTAATATAAA
Found at i:107379804 original size:8 final size:8
Alignment explanation
Indices: 107379777--107379820 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
107379767 TATCTAATTA
107379777 TAAATATT
1 TAAATATT
*
107379785 TAATTA-T
1 TAAATATT
107379792 T--ATATT
1 TAAATATT
107379798 TAAATATT
1 TAAATATT
107379806 TAAATATT
1 TAAATATT
107379814 TAAATAT
1 TAAATAT
107379821 AGTTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 2 0.06
7 2 0.06
8 25 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TAAATATT
Found at i:107380114 original size:13 final size:13
Alignment explanation
Indices: 107380098--107380137 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
107380088 TCAAAAATAT
107380098 TTTTTCAAAA-CA
1 TTTTTCAAAAGCA
*
107380110 CTTTTCAAAAGCA
1 TTTTTCAAAAGCA
107380123 TTTTTCAAAAGCA
1 TTTTTCAAAAGCA
107380136 TT
1 TT
107380138 GCCAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (13 bp):
TTTTTCAAAAGCA
Found at i:107385546 original size:17 final size:17
Alignment explanation
Indices: 107385526--107385624 Score: 135
Period size: 17 Copynumber: 5.6 Consensus size: 17
107385516 CAATGATATG
107385526 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
107385543 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
107385561 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
107385578 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
107385596 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
107385615 CAATCTTAGA
1 CAATCTTAGA
107385625 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
17 30 0.42
18 30 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:107385564 original size:35 final size:35
Alignment explanation
Indices: 107385518--107385622 Score: 174
Period size: 35 Copynumber: 2.9 Consensus size: 35
107385508 ATAATCTTCA
107385518 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
107385554 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
107385589 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
107385623 GAAGATATGA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.76
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:107385566 original size:18 final size:18
Alignment explanation
Indices: 107385526--107385624 Score: 148
Period size: 18 Copynumber: 5.6 Consensus size: 18
107385516 CAATGATATG
107385526 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
107385543 CAATCTTAAATATGATTG
1 CAATCTTAGATATGATTA
107385561 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
107385578 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
107385596 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
107385615 CAATCTTAGA
1 CAATCTTAGA
107385625 AGATATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 30 0.41
18 32 0.44
19 11 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:107386165 original size:24 final size:23
Alignment explanation
Indices: 107386125--107386169 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
107386115 TTTTATATAA
107386125 TTATTATTCTTATAATTATATTTT
1 TTATTATTCTTATAATT-TATTTT
*
107386149 TTATTATATTTTA-AATTTATT
1 TTATTAT-TCTTATAATTTATT
107386170 ATTAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTATTCTTATAATTTATTTT
Found at i:107394733 original size:29 final size:29
Alignment explanation
Indices: 107394694--107394792 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
107394684 GAAGAACTCT
107394694 CACACACAGTGCCTCAATTACCGATCTCG
1 CACACACAGTGCCTCAATTACCGATCTCG
* ** **
107394723 CACACATAGTG-CTCGGTTAAAGGAAT-TCG
1 CACACACAGTGCCTCAATT-ACCG-ATCTCG
*
107394752 CACACACAGTGCCTCAATTACTGATCTCG
1 CACACACAGTGCCTCAATTACCGATCTCG
*
107394781 CACACATAGTGC
1 CACACACAGTGC
107394793 TCGGTTAAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.13
29 41 0.75
30 7 0.13
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (29 bp):
CACACACAGTGCCTCAATTACCGATCTCG
Found at i:107394772 original size:58 final size:58
Alignment explanation
Indices: 107394658--107394824 Score: 273
Period size: 58 Copynumber: 2.9 Consensus size: 58
107394648 GCCCACTGAT
* * * *
107394658 CGATCTCGCACACATAGTGCTTGGTTGAA-GAACTCTCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
107394715 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
* *
107394773 TGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
107394825 TAATCATTCG
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 27 0.26
58 76 0.74
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC
Found at i:107394812 original size:29 final size:29
Alignment explanation
Indices: 107394720--107394821 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
107394710 ATTACCGATC
*
107394720 TCGCACACATAGTGCTCGGTTAAAGGAAT
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
107394749 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
107394777 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
107394807 TTGCACACACAGTGC
1 TCGCACACACAGTGC
107394822 CTCTAATCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
28 7 0.12
29 43 0.75
30 7 0.12
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:107395372 original size:43 final size:43
Alignment explanation
Indices: 107394978--107395371 Score: 590
Period size: 43 Copynumber: 9.2 Consensus size: 43
107394968 CCTTGCTCGA
** **
107394978 ATCACCGGCATTAAGCCTGCTAGGCACGAAAACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
107395021 ATCACCGGCATGAAGCCTGCTAGGCACGAAAGCCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
107395064 ATCACCGACACGAAGCCTACTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
107395107 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
107395150 ATTATCGGCACGAAGCCTACTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
107395193 ATCATCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
107395236 ATCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * *
107395279 ATTATCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
*
107395322 ATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
107395365 ATCACCG
1 ATCACCG
107395372 AGATTCATGC
Statistics
Matches: 318, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 318 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:107409886 original size:27 final size:26
Alignment explanation
Indices: 107409846--107409950 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
107409836 AGGAAGCGTC
*
107409846 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
107409873 CTGGTGGCCCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
107409900 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* **
107409928 CTGGTGACTCTATCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
107409951 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.04
27 47 0.70
28 16 0.24
29 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:107409950 original size:54 final size:54
Alignment explanation
Indices: 107409846--107409957 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
107409836 AGGAAGCGTC
* *
107409846 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCCCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACCCTACCACATATATCTATT
* * * *
107409900 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACCCTACCACATATATCTATT
107409954 CTGG
1 CTGG
107409958 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACCCTACCACATATATCTATT
Done.