Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 97 of 259
Found at i:31547086 original size:14 final size:14
Alignment explanation
Indices: 31547032--31547086 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
31547022 ATTTAGTATT
31547032 GAAGAAAAAAAAGAA
1 GAAGAAAAAAAA-AA
***
31547047 GAAGAAAAAATTCA
1 GAAGAAAAAAAAAA
**
31547061 GAATTAAAAAAAAA
1 GAAGAAAAAAAAAA
31547075 GAAGAAAAAAAA
1 GAAGAAAAAAAA
31547087 TCAAAATTGA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (14 bp):
GAAGAAAAAAAAAA
Found at i:31547104 original size:30 final size:31
Alignment explanation
Indices: 31547036--31547106 Score: 110
Period size: 30 Copynumber: 2.3 Consensus size: 31
31547026 AGTATTGAAG
*
31547036 AAAAAAAAGAAGAAGAAAAAATTCAGAATTA
1 AAAAAAAAGAAGAAGAAAAAATTCAAAATTA
31547067 AAAAAAAAGAAGAA-AAAAAA-TCAAAATTGA
1 AAAAAAAAGAAGAAGAAAAAATTCAAAATT-A
31547097 AAAAAAAAGA
1 AAAAAAAAGA
31547107 GTGATTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 7 0.18
30 17 0.45
31 14 0.37
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.10
Consensus pattern (31 bp):
AAAAAAAAGAAGAAGAAAAAATTCAAAATTA
Found at i:31547939 original size:20 final size:20
Alignment explanation
Indices: 31547914--31547992 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
31547904 TCTTGAATGA
31547914 AAATGAGAGAAGAAAAAAAG
1 AAATGAGAGAAGAAAAAAAG
*
31547934 AAATGAGAGAAAAAGAAAAAG
1 AAATGAGAGAAGAA-AAAAAG
*
31547955 AAAT-A-A-AAGAAAAAGA-
1 AAATGAGAGAAGAAAAAAAG
* *
31547971 AAATGAGAG-TGAGAAAAAG
1 AAATGAGAGAAGAAAAAAAG
31547990 AAA
1 AAA
31547993 AAAGAATTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.08
17 5 0.10
18 11 0.23
19 4 0.08
20 14 0.29
21 10 0.21
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (20 bp):
AAATGAGAGAAGAAAAAAAG
Found at i:31547962 original size:15 final size:14
Alignment explanation
Indices: 31547923--31547973 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
31547913 AAAATGAGAG
31547923 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
* *
31547937 TGAGAGAAAAAGAAA
1 -AAGAAAAAAAGAAA
31547952 AAGAAATAAAAGAAA
1 AAGAAA-AAAAGAAA
31547967 AAGAAAA
1 AAGAAAA
31547974 TGAGAGTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 5 0.16
15 26 0.84
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:31548037 original size:27 final size:30
Alignment explanation
Indices: 31548007--31548063 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
31547997 AATTTGAGAT
* *
31548007 TGAGA-TTGAAAAAGAAAA-AGA-TGAAAA
1 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
31548034 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
1 TGAGATTTCAAAAACAAAAGAGAGTGAAAA
31548064 GCAAAAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 11 0.44
29 3 0.12
30 6 0.24
ACGTcount: A:0.60, C:0.04, G:0.21, T:0.16
Consensus pattern (30 bp):
TGAGATTTCAAAAACAAAAGAGAGTGAAAA
Found at i:31556156 original size:30 final size:30
Alignment explanation
Indices: 31556071--31556167 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
31556061 TAAACTAAAA
* *
31556071 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
31556101 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
31556131 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
31556160 ATGAGCTA
1 -TGAGCTA
31556168 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:31556432 original size:21 final size:21
Alignment explanation
Indices: 31556402--31556490 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
31556392 CTCACAAAGA
* *
31556402 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
31556422 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
31556443 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
31556464 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
31556488 AAA
1 AAA
31556491 TTTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:31556483 original size:24 final size:21
Alignment explanation
Indices: 31556402--31556470 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
31556392 CTCACAAAGA
* * *
31556402 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
31556422 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
31556443 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
31556464 AAAAAGA
1 AAAAAGA
31556471 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:31560049 original size:18 final size:18
Alignment explanation
Indices: 31560028--31560077 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
31560018 AAACTCTTTT
31560028 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
31560046 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
* *
31560064 TCAATCTCCTTTTC
1 TCATTCTCTTTTTC
31560078 TTTTTCTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.30, G:0.00, T:0.56
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:31560067 original size:24 final size:24
Alignment explanation
Indices: 31560003--31560084 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
31559993 GTTATTCACA
* *
31560003 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCATT
* * * *
31560027 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCATT
* *
31560051 TTCTTTTTCACTCTCAATCTCCTT
1 TTCTTTTTCTCTCTCAATCTCATT
31560075 TTCTTTTTCT
1 TTCTTTTTCT
31560085 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCATT
Found at i:31560136 original size:42 final size:42
Alignment explanation
Indices: 31560081--31560177 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
31560071 CCTTTTCTTT
* * *
31560081 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
31560122 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
31560164 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
31560178 CTCATAATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.14
42 44 0.86
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:31560155 original size:21 final size:21
Alignment explanation
Indices: 31560088--31560155 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31560078 TTTTTCTTTC
*
31560088 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
31560109 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
31560129 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
31560151 ATTTC
1 ATTTC
31560156 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:31571263 original size:30 final size:30
Alignment explanation
Indices: 31571229--31571325 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
31571219 AGCTCACTCC
31571229 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
31571259 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
31571289 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
31571319 TAGCTCA
1 TAGCTCA
31571326 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:31574456 original size:15 final size:14
Alignment explanation
Indices: 31574420--31574474 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
31574410 TCTATTGATC
31574420 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
31574434 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
31574448 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
31574463 GAAAGAAAAGAA
1 GAGA-AAAAGAA
31574475 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:31585926 original size:21 final size:21
Alignment explanation
Indices: 31585902--31585961 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
31585892 AAAAGCAAGA
31585902 AAAAAAATGAAAAAGAAAAAG
1 AAAAAAATGAAAAAGAAAAAG
*
31585923 AAAAGAAAGTGGAAAAA-AAAGAG
1 AAAA-AAA-T-GAAAAAGAAAAAG
*
31585946 AAAAAAGTGAGAAAAG
1 AAAAAAATGA-AAAAG
31585962 TGATTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.06
21 9 0.28
22 5 0.16
23 10 0.31
24 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (21 bp):
AAAAAAATGAAAAAGAAAAAG
Found at i:31589155 original size:27 final size:27
Alignment explanation
Indices: 31589124--31589301 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31589114 TGAATTGTAC
31589124 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31589151 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31589177 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31589205 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31589233 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31589260 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31589287 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31589302 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31589189 original size:54 final size:55
Alignment explanation
Indices: 31589099--31589301 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 55
31589089 GAGATTGGCG
* * *
31589099 CTAAGTGTGCGGGATTGAAT-TGTACAGCACTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGC-GAATTGAATATG-ATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * * **
31589155 CTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * * *
31589209 CTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCA
1 CTAAGTGTGCGA-ATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * *
31589264 CTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCG
31589302 GACTCAATAT
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
54 61 0.49
55 51 0.41
56 12 0.10
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
Found at i:31589292 original size:82 final size:81
Alignment explanation
Indices: 31589099--31589301 Score: 237
Period size: 82 Copynumber: 2.5 Consensus size: 81
31589089 GAGATTGGCG
* * *
31589099 CTAAGTGTGCGGGATTGAATTGTACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTG
1 CTAAGTGTGCGAG-TTG-ATTATACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTG
*
31589164 CGAAATGAATATGATGCA
64 CGAAATGAATACGATGCA
* ** * *
31589182 CTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGC
1 CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGC
** *
31589247 GATTTGATTACG-TAGCA
65 GAAATGAATACGAT-GCA
* *
31589264 CTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCG
31589302 GACTCAATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
81 19 0.19
82 69 0.70
83 11 0.11
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
AAATGAATACGATGCA
Found at i:31595318 original size:15 final size:16
Alignment explanation
Indices: 31595300--31595341 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
31595290 AGAAGTGAGC
31595300 AAAAAAAAAAGAAAA-
1 AAAAAAAAAAGAAAAG
*
31595315 AAAAGAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
31595331 AACAAAAAAAA
1 AA-AAAAAAAA
31595342 AGTGAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 2 0.09
17 7 0.30
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:31595323 original size:20 final size:21
Alignment explanation
Indices: 31595300--31595339 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
31595290 AGAAGTGAGC
31595300 AAAAAAAAAAGAA-AAAAAAG
1 AAAAAAAAAAGAACAAAAAAG
*
31595320 AAAAAGAAAAGAACAAAAAA
1 AAAAAAAAAAGAACAAAAAA
31595340 AAAGTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAACAAAAAAG
Found at i:31596447 original size:48 final size:47
Alignment explanation
Indices: 31596368--31596473 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
31596358 GAGTGTCATG
*
31596368 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
31596416 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
31596464 GAAAAAGAAA
1 GAAAAAGAAA
31596474 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:31609782 original size:1 final size:1
Alignment explanation
Indices: 31609776--31609804 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
31609766 TGGTATTGAA
31609776 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31609805 CATTTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31617386 original size:39 final size:40
Alignment explanation
Indices: 31617261--31617392 Score: 171
Period size: 40 Copynumber: 3.3 Consensus size: 40
31617251 GCTACTCGTT
* * *
31617261 CAAATGCTTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCA
*
31617301 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAA-TTAGTAACTCGCA
* *
31617341 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
31617380 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31617393 ATCTTAGTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
39 32 0.40
40 48 0.59
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCA
Found at i:31619375 original size:46 final size:46
Alignment explanation
Indices: 31619308--31619436 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
31619298 TGTAACCCGC
* * * * *
31619308 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31619354 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31619400 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31619437 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31619455 original size:46 final size:45
Alignment explanation
Indices: 31619316--31619455 Score: 122
Period size: 46 Copynumber: 3.0 Consensus size: 45
31619306 GCCCATAAGC
* * ** * *
31619316 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* *** *
31619362 GAACTCGGACTCAACTCAACAAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
31619408 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
31619454 GA
1 GA
31619456 CATGTCACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:31626851 original size:46 final size:47
Alignment explanation
Indices: 31626784--31626911 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 47
31626774 TGTAACCCAC
* * *
31626784 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGACATTCGCAT
31626830 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGACATTCGCAT
*
31626876 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
31626912 ATGCTCAACC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
45 3 0.04
46 72 0.95
47 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGACATTCGCAT
Found at i:31629628 original size:40 final size:40
Alignment explanation
Indices: 31629576--31629779 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
31629566 GCCGTCGAGT
* * *
31629576 CTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
* * *
31629616 CTTGGCCCGGATATAGTAACTCGTACAAATGCCTTCGAGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
31629656 CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA
31629696 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
* * * *
31629736 CTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA
31629776 CTTA
1 CTTA
31629780 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
39 2 0.01
40 145 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA
Found at i:31629662 original size:80 final size:80
Alignment explanation
Indices: 31629530--31629779 Score: 326
Period size: 80 Copynumber: 3.1 Consensus size: 80
31629520 ACCCAAGTAT
* *** * * * * *
31629530 CTTCGGGATTTAG-CCGGATATAACCACTTGCAC-AAGGCCGTCGAGTCTTAGCCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAAT-TAG
31629592 TCACTAGCACAAATGC
65 TCACTAGCACAAATGC
* *
31629608 CTTCGGGACTTGGCCCGGATATAGTAACTCGTACAAATGCCTTCGAGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGT
* *
31629673 AACTCGCACAAATGC
66 CACTAGCACAAATGC
* *
31629688 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGT
*
31629753 CACTAGCACAAATGT
66 CACTAGCACAAATGC
31629768 CTTCGGGACTTA
1 CTTCGGGACTTA
31629780 ACCCCGTTAG
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 11 0.07
79 15 0.10
80 121 0.81
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:31635389 original size:47 final size:47
Alignment explanation
Indices: 31635330--31635911 Score: 885
Period size: 47 Copynumber: 12.4 Consensus size: 47
31635320 GATGTACAAG
* ** *
31635330 GTGTGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
31635377 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
31635424 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
31635471 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31635518 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
31635565 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31635612 GTGTATATATGTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
31635659 GTGTATATATGTGATAAGGCCGAGTGGCAAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31635706 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
31635753 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
31635800 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31635847 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31635894 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31635912 TCCCGAAGGG
Statistics
Matches: 495, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 495 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:31635529 original size:25 final size:25
Alignment explanation
Indices: 31635501--31635626 Score: 79
Period size: 25 Copynumber: 5.3 Consensus size: 25
31635491 CTAATGGCCG
31635501 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGATGAATGTGAAAGTGTGTAT
* * *
31635526 ATGTGAT-AAGGCCG-AA-TG-GCCA-
1 ATGTGATGAATG-TGAAAGTGTG-TAT
31635548 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGATGAATGTGAAAGTGTGTAT
* *** ***
31635573 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTGTAT
*
31635595 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTAT
31635620 ATGTGAT
1 ATGTGAT
31635627 AAGGCCGAAT
Statistics
Matches: 70, Mismatches: 21, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
22 17 0.24
23 15 0.21
24 15 0.21
25 23 0.33
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTGTAT
Found at i:31637819 original size:40 final size:40
Alignment explanation
Indices: 31637764--31638035 Score: 456
Period size: 40 Copynumber: 6.8 Consensus size: 40
31637754 CAGTATGTTA
31637764 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
31637804 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
31637844 TATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* **
31637884 TATCCAGGCTAAGTTTCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
31637924 TATCTGGGCTAAGTCCCGTAGAGCACTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
31637964 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
31638004 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31638036 TGGACAAAAT
Statistics
Matches: 215, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 11 0.05
40 204 0.95
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:31642030 original size:47 final size:47
Alignment explanation
Indices: 31641971--31642646 Score: 1001
Period size: 47 Copynumber: 14.4 Consensus size: 47
31641961 GATGTACAAG
* ** *
31641971 GTGTGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
31642018 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAACGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* ** *
31642065 GTGTATATATGAGATAATACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
31642112 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
31642159 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
31642206 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
31642253 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31642300 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
31642347 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
31642394 GTGTATATATGTGATAAGGCCGAGTGGCAAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31642441 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATTAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
31642488 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
31642535 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
31642582 GTGTATATATGTGATAAGGCTGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31642629 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31642647 TCCCGAAGGG
Statistics
Matches: 586, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 586 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:31646009 original size:8 final size:8
Alignment explanation
Indices: 31645996--31646025 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
31645986 CTAGATCGGC
31645996 AAAAGCCG
1 AAAAGCCG
31646004 AAAAGCCG
1 AAAAGCCG
*
31646012 AAATGCCG
1 AAAAGCCG
31646020 AAAAGC
1 AAAAGC
31646026 TGGCATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:31646476 original size:27 final size:26
Alignment explanation
Indices: 31646438--31646524 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
31646428 TGGAGGAAGC
31646438 GTTCTGGTGGCTAC-GCCACAAATATCT
1 GTTCTGGTGGCT-CTGCCAC-AATATCT
31646465 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
31646491 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
31646518 GTTCTGG
1 GTTCTGG
31646525 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:31651150 original size:17 final size:18
Alignment explanation
Indices: 31651120--31651155 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
31651110 TATGAGAAAG
31651120 AAAAGAAAAATGAAATGA
1 AAAAGAAAAATGAAATGA
*
31651138 AAAAG-AAATTGAAATGA
1 AAAAGAAAAATGAAATGA
31651155 A
1 A
31651156 GAATGAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
AAAAGAAAAATGAAATGA
Found at i:31656105 original size:48 final size:47
Alignment explanation
Indices: 31656048--31656179 Score: 133
Period size: 47 Copynumber: 2.8 Consensus size: 47
31656038 TTGGGTTATG
31656048 TGTGATCCCATGTAAGATCATGTCTAGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCATCAATA
* * * * * *
31656096 TGTGATCCCATGTAAGACATATTTGGGATATGGCATTGGTATCGATA
1 TGTGATCCCATGTAAGACATGTCTAGGACATGGCATTGGCATCAATA
* * *
31656143 TATGA-CTTCGTGTAAGACCATGTC-AGGAACATGGCAT
1 TGTGATC-CCATGTAAGA-CATGTCTAGG-ACATGGCAT
31656180 CAATATGAGC
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
46 1 0.01
47 38 0.56
48 29 0.43
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACATGTCTAGGACATGGCATTGGCATCAATA
Found at i:31659460 original size:23 final size:23
Alignment explanation
Indices: 31659419--31659462 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
31659409 AACCACTAAT
*
31659419 ATGCATAATTGTATGATTTATGA
1 ATGCATAATTATATGATTTATGA
31659442 ATGCATAATTAT-TGCATTTAT
1 ATGCATAATTATATG-ATTTAT
31659463 TATTGGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (23 bp):
ATGCATAATTATATGATTTATGA
Found at i:31665321 original size:10 final size:10
Alignment explanation
Indices: 31665308--31665333 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31665298 TTTTAAAAAA
31665308 ATAAAATATT
1 ATAAAATATT
31665318 ATAAAATATT
1 ATAAAATATT
31665328 ATAAAA
1 ATAAAA
31665334 GTCATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:31665338 original size:45 final size:50
Alignment explanation
Indices: 31665284--31665377 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 50
31665274 GAAACGCCGC
* * *
31665284 TAAAGGTCAT-AAAATTTTAAAAAAA-TAAAA-T-ATTAT-AAAATATTA
1 TAAAAGTCATGAAAAATATAAAAAAATTAAAATTCATTATCAAAATATTA
31665329 TAAAAGTCATGAAAAATATAAAAAAATTAAAATTCATTATCAAAATATT
1 TAAAAGTCATGAAAAATATAAAAAAATTAAAATTCATTATCAAAATATT
31665378 GAGAAAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 9 0.22
46 13 0.32
47 5 0.12
48 1 0.02
49 5 0.12
50 8 0.20
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (50 bp):
TAAAAGTCATGAAAAATATAAAAAAATTAAAATTCATTATCAAAATATTA
Found at i:31666237 original size:21 final size:23
Alignment explanation
Indices: 31666200--31666252 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
31666190 AATCACAACT
31666200 TTTAGACACCATAAA-TTGCAGCA
1 TTTA-ACACCATAAATTTGCAGCA
*
31666223 TTTAACACC-TAAATTTTCAGCA
1 TTTAACACCATAAATTTGCAGCA
31666245 TTTAACAC
1 TTTAACAC
31666253 ATATAATGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (23 bp):
TTTAACACCATAAATTTGCAGCA
Found at i:31668160 original size:26 final size:26
Alignment explanation
Indices: 31668094--31668154 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
31668084 TATTTAAAAG
31668094 AATTA-GATAAAATTTGAAATCTTGAA
1 AATTATGA-AAAATTTGAAATCTTGAA
* *
31668120 AATTATTAAAAATTTGAAATCTTTAA
1 AATTATGAAAAATTTGAAATCTTGAA
31668146 AATT-TGAAA
1 AATTATGAAA
31668155 TTATTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 26 0.84
27 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (26 bp):
AATTATGAAAAATTTGAAATCTTGAA
Found at i:31668161 original size:17 final size:17
Alignment explanation
Indices: 31668105--31668162 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
31668095 ATTAGATAAA
*
31668105 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
31668124 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
*
31668140 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
31668157 ATTTAA
1 ATTTAA
31668163 TATATAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 14 0.42
17 9 0.27
18 3 0.09
19 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:31668932 original size:14 final size:14
Alignment explanation
Indices: 31668915--31668968 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
31668905 CTAATTAACT
*
31668915 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
31668929 CCTAAACCATATAT
1 CCTAAACCATAAAC
*
31668943 CATAAACCATAAAC
1 CCTAAACCATAAAC
*
31668957 CCTAAACTATAA
1 CCTAAACCATAA
31668969 TGATAATTAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:31669179 original size:7 final size:7
Alignment explanation
Indices: 31669111--31669250 Score: 59
Period size: 7 Copynumber: 19.7 Consensus size: 7
31669101 ATTAATTAAT
31669111 CTAAACC
1 CTAAACC
*
31669118 TTAAACTC
1 CTAAAC-C
* *
31669126 TTAATCC
1 CTAAACC
*
31669133 CTAATCC
1 CTAAACC
31669140 CTAAACC
1 CTAAACC
* *
31669147 ATAAGCC
1 CTAAACC
* *
31669154 TTAAATC
1 CTAAACC
*
31669161 CTAAAAC
1 CTAAACC
*
31669168 ATAAACC
1 CTAAACC
31669175 CTAAACC
1 CTAAACC
*
31669182 CT-TACAC
1 CTAAAC-C
*
31669189 CTAAACT
1 CTAAACC
*
31669196 TTAAACC
1 CTAAACC
31669203 CT-AACC
1 CTAAACC
31669209 CTTAAACC
1 C-TAAACC
* *
31669217 GTAATCC
1 CTAAACC
*
31669224 CTAAGCC
1 CTAAACC
*
31669231 CATAATCC
1 C-TAAACC
*
31669239 ATAAACC
1 CTAAACC
*
31669246 TTAAA
1 CTAAA
31669251 ATAGTATTCA
Statistics
Matches: 99, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
6 7 0.07
7 75 0.76
8 17 0.17
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (7 bp):
CTAAACC
Found at i:31669205 original size:14 final size:14
Alignment explanation
Indices: 31669112--31669216 Score: 77
Period size: 14 Copynumber: 7.4 Consensus size: 14
31669102 TTAATTAATC
*
31669112 TAAACCTTAAACTCT
1 TAAACCCTAAAC-CT
* * *
31669127 TAATCCCTAATCCC
1 TAAACCCTAAACCT
* *
31669141 TAAACCATAAGCCT
1 TAAACCCTAAACCT
* * *
31669155 TAAATCCTAAAACA
1 TAAACCCTAAACCT
31669169 TAAACCCTAAACCCT
1 TAAACCCTAAA-CCT
* *
31669184 TACA-CCTAAACTT
1 TAAACCCTAAACCT
*
31669197 TAAACCCTAACCCT
1 TAAACCCTAAACCT
31669211 TAAACC
1 TAAACC
31669217 GTAATCCCTA
Statistics
Matches: 67, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
13 5 0.07
14 49 0.73
15 13 0.19
ACGTcount: A:0.41, C:0.33, G:0.01, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:31671346 original size:46 final size:46
Alignment explanation
Indices: 31671279--31671456 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
31671269 TGTAACCCAC
*
31671279 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
31671325 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
31671371 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
31671418 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
31671457 CTCAACCATC
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
46 73 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:31671399 original size:93 final size:93
Alignment explanation
Indices: 31671287--31671457 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
31671277 ACCCATAAGT
****
31671287 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31671352 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
31671380 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31671445 CGAGTTCGGATGC
66 CGAGCTCGGATGC
31671458 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:31673879 original size:15 final size:15
Alignment explanation
Indices: 31673855--31673917 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
31673845 AGGAAACCGA
31673855 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
31673870 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
*
31673884 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
*
31673900 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31673915 ATA
1 ATA
31673918 CGATACTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 2 0.05
15 38 0.93
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.13, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31676995 original size:93 final size:93
Alignment explanation
Indices: 31676869--31677039 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
31676859 GCCCATAAGT
*
31676869 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
31676934 CGAGCTCGGATGCCTAGTTAGATCTCTC
66 CGAGCTCGGATGCCTAGTTAGATCTCTC
* * *
31676962 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
*
31677027 CGAGTTCGGATGC
66 CGAGCTCGGATGC
31677040 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCAA
CGAGCTCGGATGCCTAGTTAGATCTCTC
Found at i:31677036 original size:46 final size:46
Alignment explanation
Indices: 31676861--31677036 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31676851 TGTAACCCGC
*
31676861 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
31676907 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGATGCCTAGTTAG-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
31676957 CTC-T---CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
31677000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31677037 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
44 1 0.01
46 63 0.58
47 26 0.24
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:31680059 original size:16 final size:16
Alignment explanation
Indices: 31680038--31680072 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31680028 ACTGTTACGA
* *
31680038 AAATATATATTTTTAT
1 AAATATAAAATTTTAT
31680054 AAATATAAAATTTTAT
1 AAATATAAAATTTTAT
31680070 AAA
1 AAA
31680073 GATTATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATAAAATTTTAT
Found at i:31680578 original size:43 final size:43
Alignment explanation
Indices: 31680508--31680594 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
31680498 AAAGTTGTCA
* *
31680508 ACATTTACTGTATAAAATATTTTTAAAACGATTAAAATTATAT
1 ACATCTACCGTATAAAATATTTTTAAAACGATTAAAATTATAT
*
31680551 ACATCTACCGTATAAAATATTTTTAAAACTATTAAAATTATAT
1 ACATCTACCGTATAAAATATTTTTAAAACGATTAAAATTATAT
31680594 A
1 A
31680595 TTTTCTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (43 bp):
ACATCTACCGTATAAAATATTTTTAAAACGATTAAAATTATAT
Found at i:31681134 original size:34 final size:34
Alignment explanation
Indices: 31681090--31681155 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
31681080 CAGGAAAAGA
31681090 AGTTACATTATTTCATTAATTATTAAATTATAGC
1 AGTTACATTATTTCATTAATTATTAAATTATAGC
* *
31681124 AGTTAGATTATTTTATTAATTATTAAATTATA
1 AGTTACATTATTTCATTAATTATTAAATTATA
31681156 AGTTCCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (34 bp):
AGTTACATTATTTCATTAATTATTAAATTATAGC
Found at i:31682931 original size:29 final size:29
Alignment explanation
Indices: 31682891--31682949 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
31682881 AAGGACTAAA
31682891 TTGCTATTTTTATAGTAGAGGAGCTAATT
1 TTGCTATTTTTATAGTAGAGGAGCTAATT
31682920 TTGCTATTTTTATAGTAGAGGAGCTAATT
1 TTGCTATTTTTATAGTAGAGGAGCTAATT
31682949 T
1 T
31682950 ACTCCTAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (29 bp):
TTGCTATTTTTATAGTAGAGGAGCTAATT
Found at i:31685082 original size:13 final size:14
Alignment explanation
Indices: 31685052--31685089 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
31685042 GTTTACATGT
* *
31685052 AAAAGATTTTATGA
1 AAAATATTTTACGA
31685066 AAAATATTTTACGA
1 AAAATATTTTACGA
31685080 AAAATATTTT
1 AAAATATTTT
31685090 CTACATTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (14 bp):
AAAATATTTTACGA
Found at i:31693827 original size:20 final size:21
Alignment explanation
Indices: 31693798--31693849 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
31693788 CGGGTTAGGG
31693798 ACACGGGCGTGTC-CCAAAGC
1 ACACGGGCGTGTCTCCAAAGC
*
31693818 ACACGAGCGTG-CTCCAAAGC
1 ACACGGGCGTGTCTCCAAAGC
*
31693838 ATACGGGCGTGT
1 ACACGGGCGTGT
31693850 GCATTGTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGGGCGTGTCTCCAAAGC
Found at i:31700602 original size:29 final size:29
Alignment explanation
Indices: 31700560--31700638 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
31700550 TATATATGTG
31700560 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
31700589 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
31700618 AACTATCGAGCACTAAGTGTG
1 AATTATCGAGCACTAAGTGTG
31700639 TGATCTCATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:31703603 original size:10 final size:10
Alignment explanation
Indices: 31703590--31703625 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
31703580 GGCCCATTTC
31703590 GGCCCATAGA
1 GGCCCATAGA
31703600 GGCCCATAGA
1 GGCCCATAGA
31703610 GGCCCAT-GA
1 GGCCCATAGA
31703619 CGGCCCA
1 -GGCCCA
31703626 AGCCCATGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 2 0.08
10 23 0.92
ACGTcount: A:0.25, C:0.36, G:0.31, T:0.08
Consensus pattern (10 bp):
GGCCCATAGA
Found at i:31703886 original size:49 final size:49
Alignment explanation
Indices: 31703814--31703930 Score: 198
Period size: 49 Copynumber: 2.4 Consensus size: 49
31703804 GTTACAGAAT
** *
31703814 GGTGTACGGTTACACACCTACATTCATCATTGAACATAGAGTAAGGTTG
1 GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
*
31703863 GGTGTACGACTACACACCTACATTCATCATTGCACACAGAGTAAGGTTG
1 GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
31703912 GGTGTACGACTACACACCT
1 GGTGTACGACTACACACCT
31703931 TGATTTGCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (49 bp):
GGTGTACGACTACACACCTACATTCATCATTGAACACAGAGTAAGGTTG
Found at i:31704590 original size:27 final size:27
Alignment explanation
Indices: 31704523--31704593 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
31704513 GAGAAGGGGT
* *
31704523 ATTACGATCACTTTACCCTACAGGGGC
1 ATTACGATCATTTTACCCTACAAGGGC
*
31704550 TTTACGATCATTTTACCCTACAAGGGC
1 ATTACGATCATTTTACCCTACAAGGGC
* *
31704577 ATTACGGTCTTTTTACC
1 ATTACGATCATTTTACC
31704594 TATTAGGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTACAAGGGC
Found at i:31704685 original size:27 final size:27
Alignment explanation
Indices: 31704652--31704915 Score: 113
Period size: 27 Copynumber: 9.7 Consensus size: 27
31704642 TCTACAACCC
*
31704652 AAGGGTATTTCAGTAATTTTGCAAACT
1 AAGGGTATTTCAGTAATTTTGCAAATT
*
31704679 AATGGTATTTCTA-TAATTTATG-AAAGTT
1 AAGGGTATTTC-AGTAATTT-TGCAAA-TT
*
31704707 AAGGGTATTTCTGTAATTTT-CTAAATT
1 AAGGGTATTTCAGTAATTTTGC-AAATT
* * ** *
31704734 AAGGGTATTTTAGTACTTTTTTAAATC
1 AAGGGTATTTCAGTAATTTTGCAAATT
* ** * * *
31704761 AGGGGTATTTTGGTAACTTTACAAATC
1 AAGGGTATTTCAGTAATTTTGCAAATT
** * * * *
31704788 GTGGGTATTTCGGTAATTTTACAAGTCG
1 AAGGGTATTTCAGTAATTTTGCAAAT-T
* ** ** *
31704816 AA-GGTATTTCAATAATTTTATAGGTC
1 AAGGGTATTTCAGTAATTTTGCAAATT
* ** *
31704842 GAGGGTATTTCAGTAATTTCACAAATC
1 AAGGGTATTTCAGTAATTTTGCAAATT
* ** * *
31704869 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCAGTAATTTTGCAAATT
* **
31704896 AGGGGTATTTTGGTAATTTT
1 AAGGGTATTTCAGTAATTTT
31704916 ATAAACCAAG
Statistics
Matches: 187, Mismatches: 41, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
26 1 0.01
27 163 0.87
28 23 0.12
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTTTGCAAATT
Found at i:31704794 original size:54 final size:53
Alignment explanation
Indices: 31704736--31704967 Score: 178
Period size: 54 Copynumber: 4.3 Consensus size: 53
31704726 TCTAAATTAA
* * ** *
31704736 GGGTATTTTAGTACTTTTTTAAATCAGGGGTATTTTGGTAACTTTACAAATCG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCG
* * * *** * **
31704789 TGGGTATTTCGGTAATTTTACAAGTC-GAAGGTATTTCAATAATTTTATAGGTCG
1 -GGGTATTTCAGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATCG
* *
31704843 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAA-TCG
** * * * * ** *
31704898 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTA-CAAATCG
*
31704952 GGGTATTTCAATAATT
1 GGGTATTTCAGTAATT
31704968 CTATCCTATA
Statistics
Matches: 136, Mismatches: 38, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
53 1 0.01
54 130 0.96
55 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCG
Found at i:31704807 original size:81 final size:81
Alignment explanation
Indices: 31704709--31704940 Score: 231
Period size: 81 Copynumber: 2.9 Consensus size: 81
31704699 TGAAAGTTAA
* * *
31704709 GGGTATTTCTGTAATTTT-CTAAATTAAGGGTATTTTAGTACTTTTTTAAATCAGGGGTATTTTG
1 GGGTATTTCGGTAATTTTAC-AAATTAAGGGTATTTTAGTAATTTTATAAATCAGGGGTATTTTG
31704773 GTAACTTT-ACAAATC-G
65 GTAA-TTTCACAAATCAG
* * * * **
31704789 TGGGTATTTCGGTAATTTTACAAGTCGAA-GGTATTTCAATAATTTTATAGGTC-GAGGGTATTT
1 -GGGTATTTCGGTAATTTTACAAAT-TAAGGGTATTTTAGTAATTTTATAAATCAG-GGGTATTT
**
31704852 CAGTAATTTCACAAATCAG
63 TGGTAATTTCACAAATCAG
* * * * * *
31704871 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTATAAATCAGGGGTATTTTGG
31704936 TAATT
66 TAATT
31704941 CTACCCTATA
Statistics
Matches: 119, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
80 5 0.04
81 110 0.92
82 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTATAAATCAGGGGTATTTTGG
TAATTTCACAAATCAG
Found at i:31704916 original size:27 final size:26
Alignment explanation
Indices: 31704709--31704959 Score: 146
Period size: 27 Copynumber: 9.3 Consensus size: 26
31704699 TGAAAGTTAA
*
31704709 GGGTATTTCT-GTAATTTT-CTAAATTAA
1 GGGTATTT-TGGTAATTTTAC-AAA-TAG
* * **
31704736 GGGTATTTTAGTACTTTTTTAAATCAG
1 GGGTATTTTGGTAATTTTACAAAT-AG
* *
31704763 GGGTATTTTGGTAACTTTACAAATCG
1 GGGTATTTTGGTAATTTTACAAATAG
* * *
31704789 TGGGTATTTCGGTAATTTTACAAGTCG
1 -GGGTATTTTGGTAATTTTACAAATAG
* *** * ** *
31704816 AAGGTATTTCAATAATTTTATAGGTCG
1 -GGGTATTTTGGTAATTTTACAAATAG
** *
31704843 AGGGTATTTCAGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAAT-AG
31704871 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAG
* * *
31704898 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-TAG
* **
31704925 GGGTATTTTGGTAATTCTACCCTATAG
1 GGGTATTTTGGTAATTTTA-CAAATAG
31704952 GGGTATTT
1 GGGTATTT
31704960 CAATAATTCT
Statistics
Matches: 180, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 174 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:31704966 original size:27 final size:27
Alignment explanation
Indices: 31704923--31705029 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
31704913 TTTATAAACC
**
31704923 AAGGGTATTTTGGTAATTCTACCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTAT
* * *
31704950 AGGGGTATTTCAATAATTCTATCCTAT
1 AAGGGTATTTCAGTAATTCTACCCTAT
* *
31704977 AAGGGTATTTCAGTAATTCTACCTTAC
1 AAGGGTATTTCAGTAATTCTACCCTAT
* *
31705004 AAGGGTATTTCAGTAATGCTAGCCTA
1 AAGGGTATTTCAGTAATTCTACCCTA
31705030 CAGATATGAG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTCAGTAATTCTACCCTAT
Found at i:31717433 original size:22 final size:22
Alignment explanation
Indices: 31717385--31717434 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
31717375 AAGCTTTATT
* * * *
31717385 AAGCTGAATGGGAAGCTCTTTC
1 AAGCTAAACGGGAAGCTCATAC
*
31717407 TAGCTAAACGGGAAGCTCATAC
1 AAGCTAAACGGGAAGCTCATAC
31717429 AAGCTA
1 AAGCTA
31717435 TGGTGAGTCC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
AAGCTAAACGGGAAGCTCATAC
Found at i:31719320 original size:64 final size:65
Alignment explanation
Indices: 31719147--31719351 Score: 197
Period size: 64 Copynumber: 3.2 Consensus size: 65
31719137 CATAATTTTG
* * * * *
31719147 GCTCTCTTGTAC-ACATAGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGTAACACCCATGTGACCTAGCTACA-TATATTCTCG
31719208 TA
64 TA
* * * ** *
31719210 GCTCTCTTGTCTACATGGTGTCCACCT-GGAACTACGTATGCGACCTAGCTACATATATTC-CGT
1 GCTCTCTTGTCTACATGGTGTACACATAGTAAC-ACCCATGTGACCTAGCTACATATATTCTCGT
31719273 A
65 A
* *
31719274 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTAACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTAACACCCATGTGACCTAGCTACAT-AT-AT-TCTC
31719339 GTA
63 GTA
31719342 GCTCTCTTGT
1 GCTCTCTTGT
31719352 ACACATGATG
Statistics
Matches: 114, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 4 0.04
63 34 0.30
64 49 0.43
65 9 0.08
66 2 0.02
67 2 0.02
68 14 0.12
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTAACACCCATGTGACCTAGCTACATATATTCTCGTA
Found at i:31719382 original size:68 final size:64
Alignment explanation
Indices: 31719206--31719391 Score: 151
Period size: 64 Copynumber: 2.8 Consensus size: 64
31719196 CAGTTTATCT
* * * * * * ** **
31719206 CGTAGCTCTCTTGTCTACATGGTGTCCACCTGGAACTACGTATGCGACCTAGCTACATATATTC
1 CGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTAACCTAGCTACATATATTC
* * * *
31719270 CGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTAACCTAGCTACATCATAATG
1 CGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTAACCTAGCTACAT-AT-AT-
31719335 TC
63 TC
* * *
31719337 TCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCT
1 -CGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCACACATGTAACCTAGCT
31719392 TGTAACACCC
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
64 48 0.48
65 2 0.02
66 2 0.02
67 3 0.03
68 43 0.43
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (64 bp):
CGTAGCTCTCTTGTCTACATGATGTACACATAGCACCACACATGTAACCTAGCTACATATATTC
Found at i:31726727 original size:40 final size:40
Alignment explanation
Indices: 31726682--31727306 Score: 1027
Period size: 40 Copynumber: 15.6 Consensus size: 40
31726672 CAAGCTCAAT
* * * * *
31726682 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
31726722 TGCCTTTGGGTCTTAGCCCGGATATATCGACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATC-AATTCGCACAAA
31726762 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
31726802 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
31726842 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
31726882 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
31726922 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
31726962 TGCCTTCAGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
31727002 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
31727042 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
31727082 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
31727122 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCGCAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
31727162 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
31727202 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
31727242 TGCCTTCGGGTCTTAGCCCGAATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
31727282 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
31727307 CATTCAAATG
Statistics
Matches: 544, Mismatches: 39, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
39 3 0.01
40 539 0.99
41 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:31743015 original size:1 final size:1
Alignment explanation
Indices: 31743009--31743141 Score: 248
Period size: 1 Copynumber: 133.0 Consensus size: 1
31742999 ATGCATTGAA
* *
31743009 TTTTTTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31743074 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31743139 TTT
1 TTT
31743142 GTACCAGGAT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 128 1.00
ACGTcount: A:0.00, C:0.02, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:31744482 original size:45 final size:45
Alignment explanation
Indices: 31744410--31744581 Score: 192
Period size: 45 Copynumber: 3.8 Consensus size: 45
31744400 TGTAACCCGC
*
31744410 CCATAAGCGAACTC-GACTCAACTCAACGAGCTCGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGCAT
* *
31744454 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--G-C--GTTCGCAT
* * *
31744504 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGCAT
*
31744546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
31744582 ATGCTCAACA
Statistics
Matches: 106, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 15 0.14
45 45 0.42
46 2 0.02
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCGTTCGCAT
Found at i:31744527 original size:92 final size:91
Alignment explanation
Indices: 31744417--31744585 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 91
31744407 CGCCCATAAG
* *
31744417 CGAACTCGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 CGAACTCGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31744482 GAGTTCGGATGCCTAGTTACATCTCA
66 GAGTTCGGATGCCTAGTTACATCTCA
*
31744508 CGAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTC-GACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31744573 CGAGTTCGGATGC
65 CGAGTTCGGATGC
31744586 TCAACATCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 7 0.09
92 67 0.91
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (91 bp):
CGAACTCGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCA
Found at i:31752081 original size:93 final size:93
Alignment explanation
Indices: 31751969--31752140 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
31751959 CGCCCATAAG
* *
31751969 CGAACTCGGACTCAACTCAACGAGATCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGATC-GGACATTCGCATCCATAAGTGAACTAGGACTCAACTC
31752033 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
31752062 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
31752127 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31752141 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31752135 original size:46 final size:46
Alignment explanation
Indices: 31751962--31752137 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31751952 TGTAACCCGC
* *
31751962 CCATAAGCGAACTCGGACTCAACTCAACGAGATCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
31752008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31752058 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31752101 CCATAAGTGAACTAGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31752138 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31766093 original size:47 final size:47
Alignment explanation
Indices: 31766012--31766685 Score: 1003
Period size: 47 Copynumber: 14.4 Consensus size: 47
31766002 TAATTGAATA
* *
31766012 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGTG-ATAAGGCCGAATGGCCAATGTGATG
** * *
31766060 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
31766107 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31766154 AAAGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766201 AAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
** * *
31766248 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
31766295 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31766342 AAAGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766389 AAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
** * *
31766436 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
31766483 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
31766530 AAAGTGAACATGTATATGTGTGATAAAGTCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766577 AAAGTGAACATGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
31766624 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
31766671 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
31766686 AAATGTGATA
Statistics
Matches: 570, Mismatches: 55, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 545 0.96
48 17 0.03
49 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31766595 original size:23 final size:23
Alignment explanation
Indices: 31766522--31766596 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
31766512 CGAATGGCCA
*
31766522 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTGT
*
31766545 ATGTG-TGATAAAGTCG-A-ATG-GCCA
1 ATGTGATG--AAAGT-GAACATGTG--T
31766569 ATGTGATGAAAGTGAACATGTGT
1 ATGTGATGAAAGTGAACATGTGT
31766592 ATGTG
1 ATGTG
31766597 TGATAAGGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 18
0.66 0.05 0.30
Matches are distributed among these distances:
22 3 0.08
23 19 0.47
24 14 0.35
25 4 0.10
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTGT
Found at i:31766697 original size:188 final size:188
Alignment explanation
Indices: 31766026--31766685 Score: 1198
Period size: 188 Copynumber: 3.5 Consensus size: 188
31766016 TGAAAGTGTA
31766026 TATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
1 TATGTGTG-ATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCG
31766091 AATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
65 AATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
31766156 AGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
130 AGTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
31766215 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
1 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
31766280 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
66 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
31766345 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
131 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
31766403 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
1 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
31766468 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
66 ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
* * *
31766533 GTGAACATGTATATGTGTGATAAAGTCGAATGGCCAATGTGATGAAAGTGAACATGTG
131 GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
* * * ** * *
31766591 TATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTA
1 TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
*
31766656 ATGGCCGATGTGATGAATGTGAA-A-GTGTAT
66 ATGGCCAATGTGATGAATGTGAACATGTGTAT
31766686 AAATGTGATA
Statistics
Matches: 460, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
186 6 0.01
187 1 0.00
188 445 0.97
189 8 0.02
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (188 bp):
TATGTGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAA
GTGAACACGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTG
Found at i:31766872 original size:37 final size:37
Alignment explanation
Indices: 31766816--31766895 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
31766806 CCGGGCTATA
* * *
31766816 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
31766853 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
31766890 AAGACT
1 AAGACT
31766896 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:31775821 original size:19 final size:19
Alignment explanation
Indices: 31775797--31775841 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
31775787 GCAAAAGCTA
31775797 AAAAATTACTTTTGAATTC
1 AAAAATTACTTTTGAATTC
* * *
31775816 AAAAA-TATTTTTGACTTT
1 AAAAATTACTTTTGAATTC
31775834 AAAAATTA
1 AAAAATTA
31775842 TGGTCCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (19 bp):
AAAAATTACTTTTGAATTC
Found at i:31775985 original size:12 final size:14
Alignment explanation
Indices: 31775965--31776003 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
31775955 GAAAAAAAAA
31775965 TATTTTAATTTTTC
1 TATTTTAATTTTTC
*
31775979 -A-TTTAATTTCTC
1 TATTTTAATTTTTC
31775991 TATTTTAATTTTT
1 TATTTTAATTTTT
31776004 AAATTTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTAATTTTTC
Found at i:31789726 original size:20 final size:20
Alignment explanation
Indices: 31789701--31789743 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
31789691 CAACCCAATT
*
31789701 TTTTATTTTTCT-TTATTTTA
1 TTTTATTTTT-TATTACTTTA
31789721 TTTTATTTTTTATTACTTTA
1 TTTTATTTTTTATTACTTTA
31789741 TTT
1 TTT
31789744 GGATATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTTTATTACTTTA
Found at i:31791568 original size:30 final size:31
Alignment explanation
Indices: 31791532--31791600 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
31791522 TTGCACAAGA
* *
31791532 GTAAATACTCAAA-ATTTGAGGGGCTAA-AGT
1 GTAAATA-TCAAATATTTGAAGGACTAATAGT
*
31791562 GTAAATATGAAATATTTGAAGGACTAATAGT
1 GTAAATATCAAATATTTGAAGGACTAATAGT
*
31791593 ATAAATAT
1 GTAAATAT
31791601 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 4 0.12
30 19 0.58
31 10 0.30
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (31 bp):
GTAAATATCAAATATTTGAAGGACTAATAGT
Found at i:31791865 original size:24 final size:25
Alignment explanation
Indices: 31791832--31791879 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
31791822 TTAATTAGAT
31791832 AAATATTATTTTATTAATATTTTAA
1 AAATATTATTTTATTAATATTTTAA
*
31791857 AAATA-TATTTTATTATTATTTTA
1 AAATATTATTTTATTAATATTTTA
31791880 TTAGTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
AAATATTATTTTATTAATATTTTAA
Found at i:31793185 original size:24 final size:24
Alignment explanation
Indices: 31793153--31793223 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
31793143 CTATCAGGAG
31793153 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
31793177 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
31793201 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
31793224 GGAAATCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:31793235 original size:48 final size:48
Alignment explanation
Indices: 31793153--31793246 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
31793143 CTATCAGGAG
** * *
31793153 AGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATCAAGGGAT
31793201 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGATCAAGG
31793247 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
48 32 0.82
49 4 0.10
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.23
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATCAAGGGAT
Found at i:31794696 original size:27 final size:26
Alignment explanation
Indices: 31794638--31794750 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
31794628 AGGAAGCGTC
* *
31794638 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
31794666 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
31794693 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
31794721 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
31794747 CTGG
1 CTGG
31794751 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.50
28 31 0.41
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:31794723 original size:55 final size:54
Alignment explanation
Indices: 31794638--31794750 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
31794628 AGGAAGCGTC
*
31794638 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
31794693 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
31794747 CTGG
1 CTGG
31794751 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:31797545 original size:94 final size:95
Alignment explanation
Indices: 31797435--31797636 Score: 298
Period size: 94 Copynumber: 2.1 Consensus size: 95
31797425 GTTATGTGAA
* * *
31797435 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACATG
*
31797500 TCTGGGACATGCATCAGCCAC-ATTATGAT
66 TCTGGGACATGCATCAGCCACGATGATGAT
* * * * *
31797529 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACGTAGAGATGAGTGCCAGTGTTAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACATG
* *
31797594 TCTGGGACATGCATCGGCCTCGATGATGAT
66 TCTGGGACATGCATCAGCCACGATGATGAT
31797624 AGCCAGTGTAAGA
1 AGCCAGTGTAAGA
31797637 TGTGTCTAGG
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
94 76 0.79
95 20 0.21
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGAGGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCACGATGATGAT
Found at i:31797547 original size:47 final size:47
Alignment explanation
Indices: 31797435--31797651 Score: 164
Period size: 47 Copynumber: 4.6 Consensus size: 47
31797425 GTTATGTGAA
* *
31797435 AGCCAGTATAAGACCATGTCTGGGACATGGCATCG--ACATTGA-GACG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGCCACA-TGATGACT
* *
31797481 AGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATTATGA-T
1 A--GCCAGTGTAAGACATGTCTGGGACATGGCATC-GCCACATGATGACT
* * * *
31797529 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACGTAGA-GATGAGT
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG-C-CACATGATGACT
* *
31797578 -GCCAGTGTTAGACATGTCTGGGACAT-GCATCGGCCTCGATGATGA-T
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GCCAC-ATGATGACT
** *
31797624 AGCCAGTGTAAGATGTGTCTAGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
31797652 TATTGGCTAA
Statistics
Matches: 137, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
46 25 0.18
47 70 0.51
48 34 0.25
49 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGCCACATGATGACT
Found at i:31803735 original size:28 final size:28
Alignment explanation
Indices: 31803671--31803877 Score: 326
Period size: 28 Copynumber: 7.4 Consensus size: 28
31803661 GAGATTGGCG
* * * *
31803671 CTAAGTGTGCGGGTTTAAATTGTATAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
*
31803700 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
31803728 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
31803756 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
31803784 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
31803812 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
31803840 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
31803867 CTGAGTGTGCG
1 CTAAGTGTGCG
31803878 GACTTAATAT
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.14
28 131 0.77
29 15 0.09
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:31812934 original size:20 final size:20
Alignment explanation
Indices: 31812909--31812949 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31812899 GGCAAATGGA
31812909 AAGTTAGAAAAATGAATTAT
1 AAGTTAGAAAAATGAATTAT
31812929 AAGTTAGAAAAATGAATTAT
1 AAGTTAGAAAAATGAATTAT
31812949 A
1 A
31812950 TTCTTTCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (20 bp):
AAGTTAGAAAAATGAATTAT
Found at i:31813242 original size:66 final size:70
Alignment explanation
Indices: 31813115--31813249 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 70
31813105 TATTAATTTT
* * *
31813115 CATGTCTTTTATATTTTGACTGAATTAATTAATATAAATGTTTATATTAATAAATTAGGTAAAAT
1 CATGTCTTTTACATTTTGACCGAA-TAATTAATATAAATGTTTATATTAATAAATTAGGTAAAAC
31813180 ATATTC
65 ATATTC
* *
31813186 CATGTCTTTTACATTTTGACCG-A-AATT-A-ATAACTGTTTATATTAATAAATTCGGTAAAACA
1 CATGTCTTTTACATTTTGACCGAATAATTAATATAAATGTTTATATTAATAAATTAGGTAAAACA
31813247 TAT
66 TAT
31813250 ACAATTAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
66 33 0.56
67 1 0.02
68 4 0.07
70 1 0.02
71 20 0.34
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.44
Consensus pattern (70 bp):
CATGTCTTTTACATTTTGACCGAATAATTAATATAAATGTTTATATTAATAAATTAGGTAAAACA
TATTC
Found at i:31813281 original size:204 final size:204
Alignment explanation
Indices: 31813010--31813387 Score: 620
Period size: 204 Copynumber: 1.9 Consensus size: 204
31813000 ATTAATTAAT
* *
31813010 ATAACTTTTCATATTAATAAAGTCATTAAAATATATACAATTAATATCTTGTATGAATCAAATTC
1 ATAACTTTTCATATTAATAAAGTCAGTAAAACATATACAATTAATATCTTGTATGAATCAAATTC
* *
31813075 ATATATTAATTATATTTTTTTCCGAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTG-AA
66 ATATATTAATTATA-TTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAA
*
31813139 TTAATTAATATAAATGTTTATATTAATAAATT-AGGTAAAATATATTCCATGTCTTTTACATTTT
130 TTAATTAATATAAATGTTTATATTAATAAATTCA-ATAAAATATATTCCATGTCTTTTACATTTT
31813203 GACCGAAATTA
194 GACCGAAATTA
* *
31813214 ATAACTGTTT-ATATTAATAAATTCGGTAAAACATATACAATTAATAT-TTCGTATGAATCAAAT
1 ATAACT-TTTCATATTAATAAAGTCAGTAAAACATATACAATTAATATCTT-GTATGAATCAAAT
31813277 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAA
64 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAA
*
31813342 ATTAATTAATATAATTGTTTATATTAATAAATTCAATAAAATATAT
129 ATTAATTAATATAAATGTTTATATTAATAAATTCAATAAAATATAT
31813388 ACAATTAATA
Statistics
Matches: 162, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
203 47 0.29
204 111 0.69
205 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (204 bp):
ATAACTTTTCATATTAATAAAGTCAGTAAAACATATACAATTAATATCTTGTATGAATCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAAT
TAATTAATATAAATGTTTATATTAATAAATTCAATAAAATATATTCCATGTCTTTTACATTTTGA
CCGAAATTA
Found at i:31813328 original size:132 final size:136
Alignment explanation
Indices: 31813186--31813431 Score: 356
Period size: 138 Copynumber: 1.8 Consensus size: 136
31813176 AAATATATTC
**
31813186 CATGTCTTTTACATTTTGACCG-A-AATT-A-ATAACTGTTTATATTAATAAATTCGGTAAAACA
1 CATGTCTTTTACATTTTGACCGAATAATTAATATAACTGTTTATATTAATAAATTCAATAAAACA
* *
31813247 TATACAATTAATATTTCGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATT
66 TATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATATTCTTTCCAAAAGAATATT
31813312 AATTTT
131 AATTTT
* * *
31813318 CATGTCTTTTATATTTTGACTGAAATTAATTAATATAATTGTTTATATTAATAAATTCAATAAAA
1 CATGTCTTTTACATTTTGACCG-AA-TAATTAATATAACTGTTTATATTAATAAATTCAATAAAA
* * *
31813383 TATATACAATTAATATTTTGTATAAATTAAATTCAGATATTAATTATAT
64 CATATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATAT
31813432 CTATGTTCTC
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
132 20 0.20
134 1 0.01
136 4 0.04
137 1 0.01
138 72 0.73
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (136 bp):
CATGTCTTTTACATTTTGACCGAATAATTAATATAACTGTTTATATTAATAAATTCAATAAAACA
TATACAATTAATATTTCGTATAAATCAAATTCAGATATTAATTATATTCTTTCCAAAAGAATATT
AATTTT
Found at i:31814164 original size:27 final size:27
Alignment explanation
Indices: 31814126--31814182 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
31814116 TACTATTGTG
31814126 ACTATTACACAATAATCCAAGAAACAT
1 ACTATTACACAATAATCCAAGAAACAT
31814153 ACTATTACACAATAATCCAAGAAACAT
1 ACTATTACACAATAATCCAAGAAACAT
31814180 ACT
1 ACT
31814183 CATAGCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
ACTATTACACAATAATCCAAGAAACAT
Found at i:31817677 original size:20 final size:20
Alignment explanation
Indices: 31817652--31817691 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
31817642 CAGCTTGTGT
31817652 GAGCAGCTCATGTAGCTACA
1 GAGCAGCTCATGTAGCTACA
31817672 GAGCAGCTCATGTAGCTACA
1 GAGCAGCTCATGTAGCTACA
31817692 CCTTGACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGCAGCTCATGTAGCTACA
Found at i:31825737 original size:46 final size:45
Alignment explanation
Indices: 31825670--31825844 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
31825660 TGTAACCCGC
*
31825670 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
31825716 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
31825762 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
31825809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
31825845 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:31825789 original size:93 final size:93
Alignment explanation
Indices: 31825677--31825849 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
31825667 CGCCCATAAG
* * *
31825677 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31825742 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
31825770 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31825835 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
31825850 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:31833822 original size:44 final size:44
Alignment explanation
Indices: 31833759--31833843 Score: 136
Period size: 44 Copynumber: 1.9 Consensus size: 44
31833749 ACCTGTTGAG
*
31833759 TCTACCGAATTTATAATTAAAGTGTCAAAT-TCATTAGGAAAACA
1 TCTACCAAATTTATAATTAAAGTGTCAAATCT-ATTAGGAAAACA
*
31833803 TCTACCAAATTTATGATTAAAGTGTCAAATCTATTAGGAAA
1 TCTACCAAATTTATAATTAAAGTGTCAAATCTATTAGGAAA
31833844 GCATGTGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (44 bp):
TCTACCAAATTTATAATTAAAGTGTCAAATCTATTAGGAAAACA
Found at i:31842482 original size:18 final size:19
Alignment explanation
Indices: 31842459--31842497 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31842449 TTTATCTCAA
*
31842459 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
31842477 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
31842496 TT
1 TT
31842498 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:31842525 original size:30 final size:30
Alignment explanation
Indices: 31842491--31842557 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31842481 TTGTTCACAT
**
31842491 TCTTTTTCTCTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
31842521 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
31842551 TCTTTTT
1 TCTTTTT
31842558 GTTTTTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.64
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:31842557 original size:18 final size:18
Alignment explanation
Indices: 31842515--31842566 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
31842505 AAACTCTTTT
*
31842515 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
31842533 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
31842551 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
31842567 AAGCTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:31842564 original size:12 final size:12
Alignment explanation
Indices: 31842533--31842557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31842523 TTTTTCAATC
31842533 TCATTTTCTTTT
1 TCATTTTCTTTT
31842545 TCATTTTCTTTT
1 TCATTTTCTTTT
31842557 T
1 T
31842558 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:31845406 original size:10 final size:10
Alignment explanation
Indices: 31845391--31845420 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
31845381 GTTGAGCTAA
31845391 GGTTTAGCTC
1 GGTTTAGCTC
31845401 GGTTTAGCTC
1 GGTTTAGCTC
31845411 GGTTTAGCTC
1 GGTTTAGCTC
31845421 AGGCAACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.20, G:0.30, T:0.40
Consensus pattern (10 bp):
GGTTTAGCTC
Found at i:31845459 original size:11 final size:11
Alignment explanation
Indices: 31845443--31845474 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
31845433 TGCGCTCGAA
31845443 TGAGCTGGATT
1 TGAGCTGGATT
31845454 TGAGCTGGATT
1 TGAGCTGGATT
31845465 TGAGCTGGAT
1 TGAGCTGGAT
31845475 GGAACTCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.09, G:0.38, T:0.34
Consensus pattern (11 bp):
TGAGCTGGATT
Found at i:31848678 original size:18 final size:18
Alignment explanation
Indices: 31848655--31848690 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31848645 TTTAATGTGT
*
31848655 TATAAATTACATAATATA
1 TATAAATAACATAATATA
31848673 TATAAATAACATAATATA
1 TATAAATAACATAATATA
31848691 AAGTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAATAACATAATATA
Found at i:31849697 original size:16 final size:15
Alignment explanation
Indices: 31849676--31849731 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
31849666 CAAGAGAAAG
31849676 TAATTTAAAATTAAAA
1 TAATTTAAAA-TAAAA
31849692 TAATTT-AAATAAAA
1 TAATTTAAAATAAAA
* *
31849706 CAA-CTAACAATAAAA
1 TAATTTAA-AATAAAA
31849721 TAATTTAAAAT
1 TAATTTAAAAT
31849732 TAAACCCGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 8 0.24
15 15 0.45
16 9 0.27
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATTTAAAATAAAA
Found at i:31853748 original size:16 final size:16
Alignment explanation
Indices: 31853723--31853762 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
31853713 AATTTGAACG
*
31853723 TTAAATTAGGGTATGT
1 TTAAAATAGGGTATGT
31853739 TTAAAATAGGGTATGT
1 TTAAAATAGGGTATGT
31853755 TTAAAATA
1 TTAAAATA
31853763 AGTAAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (16 bp):
TTAAAATAGGGTATGT
Found at i:31860962 original size:14 final size:14
Alignment explanation
Indices: 31860945--31860984 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31860935 CGAATGGAAT
*
31860945 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
31860959 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
31860973 GATATGAACAAA
1 GGTAGGAACAAA
31860985 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:31866841 original size:93 final size:93
Alignment explanation
Indices: 31866732--31866903 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
31866722 CGCCCATAAG
*
31866732 CGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31866797 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
31866825 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31866890 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31866904 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31866900 original size:46 final size:46
Alignment explanation
Indices: 31866725--31866900 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
31866715 TGTAACCCGC
* * *
31866725 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
31866771 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31866821 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31866864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31866901 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31870372 original size:54 final size:54
Alignment explanation
Indices: 31870297--31870490 Score: 205
Period size: 54 Copynumber: 3.6 Consensus size: 54
31870287 TTGGTAAGAT
* *
31870297 AAGGATATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATGAGTTCTATAAGGC
* * *
31870351 AAGGAAATCTTGTAAGACCATGTCAAGACATGGA-ATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACAT-GACATTGATGAGTT-CTATAAGGC
** * * * * *
31870406 AAAGG-TCGCATGTAAGACTATGCAAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATGAGTTCTATAAGGC
* * *
31870459 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATATCATGTAAGACCATGCCAAGACATG
31870491 GCAATGGTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
52 4 0.04
53 27 0.24
54 39 0.35
55 39 0.35
56 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGACATTGATGAGTTCTATAAGGC
Found at i:31870422 original size:55 final size:53
Alignment explanation
Indices: 31870305--31870491 Score: 186
Period size: 55 Copynumber: 3.5 Consensus size: 53
31870295 ATAAGGATAT
* * *
31870305 CATGTAAGACCATGCCAAGGCAT-GACATTGATAAGTTCTATAAGGCAAGGAAAT-
1 CATGTAAGACCATGTCAAGACATGGA-ATTGATGAGTTCTATAAGGCAAGG--ATC
*
31870359 CTTGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGCAAAGG-TC
1 CATGTAAGACCATGTCAAGACATGGAATTGATGAGTT-CTATAAGGC-AAGGATC
* * * *
31870413 GCATGTAAGACTATG-CAAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 -CATGTAAGACCATGTC-AAGACATGGAATTGATGAGTTCTATAAGGCAAGGAT-C
*
31870467 CACGTAAGACCATGTCAAGACATGG
1 CATGTAAGACCATGTCAAGACATGG
31870492 CAATGGTAAG
Statistics
Matches: 112, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
52 4 0.04
53 29 0.26
54 34 0.30
55 41 0.37
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGAATTGATGAGTTCTATAAGGCAAGGATC
Found at i:31874389 original size:48 final size:48
Alignment explanation
Indices: 31874323--31874995 Score: 1149
Period size: 48 Copynumber: 14.1 Consensus size: 48
31874313 GTGGAAATTG
* *
31874323 ATGTACGAGATATGTATATGTGGTAAAGCCGAATGGATAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
31874371 ATGTATGAGATAAGTATATGTGGTAAACCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
31874419 ATGTATGAGATAAGTATATGTGGTAAACCCAAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
31874467 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
31874515 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
31874563 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
31874611 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
31874659 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
31874707 ATGTATGAGATAAGTATATGTGGTAAAGCGGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
31874755 ATGTATGAGATAAGTATATGTGGTAAAGCGGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
31874803 ATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCGAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
31874851 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
31874899 A--TAT---ATATGAGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATG-TATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
31874943 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
31874991 ATGTA
1 ATGTA
31874996 GGCGATGTGT
Statistics
Matches: 597, Mismatches: 22, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
43 5 0.01
44 33 0.06
46 6 0.01
48 548 0.92
49 5 0.01
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:31875250 original size:37 final size:37
Alignment explanation
Indices: 31875142--31875250 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
31875132 GGAAATATAT
*
31875142 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
31875179 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
31875216 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
31875251 CATCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31878573 original size:44 final size:44
Alignment explanation
Indices: 31878525--31878613 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
31878515 GCTAATAAAG
*
31878525 TATAAATAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
1 TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
*
31878569 TATAAACAGTTGAAGATATTGACAATTGAAGTATCCATTATGAT
1 TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
31878613 T
1 T
31878614 CAGCTTGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (44 bp):
TATAAACAGTTGAAGATATTAACAATTGAAGTATCCATTATGAT
Found at i:31881366 original size:55 final size:54
Alignment explanation
Indices: 31881232--31881434 Score: 223
Period size: 54 Copynumber: 3.8 Consensus size: 54
31881222 GCATTGGCAC
* * ** *
31881232 TAAGACAAGAATACCATGTAAGACCATGCCAAGGTATGGCATTGATAAGTTCTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * ** *
31881286 TAAGGCAAGGAAATCATGTAAGACCATGTTAAGACAGGGCATTGATGAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * *
31881341 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAA-AGCATGGCATTGGTGAGGTC-A
1 TAAGGC-AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGATGAGTTCTA
* *
31881394 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCA
31881435 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 44 0.36
55 39 0.32
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:31885431 original size:53 final size:54
Alignment explanation
Indices: 31885302--31885443 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 54
31885292 TACAAGGCAT
* * * * * *
31885302 GTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAAGATCCCAT
1 GTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCGATAAGGCAAAGATACCAC
* * * *
31885357 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAAGATACCAC
*
31885410 GTAAAACCATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGTCAAGACATGGCAATGGTAAGTT
31885444 TGGAAAGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 45 0.62
54 3 0.04
55 25 0.34
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGTCAAGACATGGCAATGGTAAGTTCGATAAGGCAAAGATACCAC
Found at i:31889721 original size:15 final size:14
Alignment explanation
Indices: 31889695--31889724 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
31889685 ATCATTTAAC
31889695 ATGTAATTAACATA
1 ATGTAATTAACATA
31889709 ATGTAAGTTAACATA
1 ATGTAA-TTAACATA
31889724 A
1 A
31889725 ATGCTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (14 bp):
ATGTAATTAACATA
Found at i:31889804 original size:164 final size:162
Alignment explanation
Indices: 31889514--31889844 Score: 391
Period size: 164 Copynumber: 2.0 Consensus size: 162
31889504 TAATAAGCAT
* * * *
31889514 CATAACCAAACAATTAACATACAATTAACATGATGAAGATTAGCATGAATGTTATCAAAATCTCA
1 CATAACCAAACAATTAACATACAATTAACATAATGAAGATTAACATAAATGCTATCAAAATCTCA
* * * * *
31889579 TAGTCATAACTTACTCGATCACAATCCCATCAAGAGTTCATCACATAACGAGCTCATTACTTATG
66 TAATCATAACTTACTCAATCACAATCCAACCAAGAATTCATCACATAACGAGCTCATTACTTATG
*
31889644 A-G-TTTTACGTGCATACCTGTACCAACTCGTAA
131 AGGTTTTTAC--ACATACCTGTACCAACTCGTAA
* * ** *
31889676 CATAACCATATCATTTAACATGTAATTAACATAATGTAAG-TTAACATAAATGCTATTAAAATCT
1 CATAACCA-AACAATTAACATACAATTAACATAATG-AAGATTAACATAAATGCTATCAAAATCT
* * * * *
31889740 CATAATCATAAATTTGCTCAATCACAA-CCTAACCGAGAATTCATCACATACCGAGTTCATTACT
64 CATAATCAT-AACTTACTCAATCACAATCC-AACCAAGAATTCATCACATAACGAGCTCATTACT
*
31889804 TATGAGGTTTTTACACATACTTGTACCAACTCGTAA
127 TATGAGGTTTTTACACATACCTGTACCAACTCGTAA
31889840 CATAA
1 CATAA
31889845 TTACATCCTT
Statistics
Matches: 142, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
162 8 0.06
163 52 0.37
164 75 0.53
165 1 0.01
166 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (162 bp):
CATAACCAAACAATTAACATACAATTAACATAATGAAGATTAACATAAATGCTATCAAAATCTCA
TAATCATAACTTACTCAATCACAATCCAACCAAGAATTCATCACATAACGAGCTCATTACTTATG
AGGTTTTTACACATACCTGTACCAACTCGTAA
Done.