Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 26 of 297
Found at i:8932563 original size:22 final size:21
Alignment explanation
Indices: 8932515--8932568 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
8932505 ATTTCCACAG
8932515 TTTTAATTTATAAACCCTAAA
1 TTTTAATTTATAAACCCTAAA
* * *
8932536 TATTTAATTTATACACCCATCAC
1 T-TTTAATTTATAAACCC-TAAA
8932559 TTTTAATTTA
1 TTTTAATTTA
8932569 CACCTAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTAATTTATAAACCCTAAA
Found at i:8937589 original size:42 final size:40
Alignment explanation
Indices: 8937481--8937605 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 40
8937471 TTTCGACATG
* *
8937481 TGATTTCGTGTAAGACCAC-GTCTGGGAAATTGGCATCGACT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACA-TGGCATCGACA
*
8937522 TGAGATTTACGTGTAAGACCATGTCTGGGACATAGGCATCGTACA
1 T--GATTT-CGTGTAAGACCCTGTCTGGGACAT-GGCATCG-ACA
8937567 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGA
1 TGATTTCGTGTAAGACCCTGTCTGGGACA-TGGCATCGA
8937606 TATTTGATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
41 2 0.03
42 29 0.40
43 12 0.16
44 27 0.37
45 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACATGGCATCGACA
Found at i:8937633 original size:43 final size:43
Alignment explanation
Indices: 8937481--8937645 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 43
8937471 TTTCGACATG
* *
8937481 TGATTTCGTGTAAGACCACGTCTGGGAAATTGGCATCGACT-TGA
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGA-TAT-A
* * *
8937525 -GATTTACGTGTAAGACCATGTCTGGGACATAGGCATCG-TACA
1 TGA-TTACGTGTAAGACCACGTCTGGGACATTGGCATCGATATA
* * *
8937567 TGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT
1 TGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATA
** *
8937610 TGATTACAAGTAAGACCACGTCTGAGACATTGGCAT
1 TGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
8937646 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
42 32 0.32
43 35 0.35
44 32 0.32
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATATA
Found at i:8937660 original size:86 final size:86
Alignment explanation
Indices: 8937481--8937650 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 86
8937471 TTTCGACATG
* ** *
8937481 TGATTTCGTGTAAGACCACGTCTGGGAAATTGGCATCGACTTGAGATTTACGTGTAAGACCATGT
1 TGATTTCGTGTAAGACCACGTCTGGGAAAGTGGCATCGACTTGAGATTTACAAGTAAGACCACGT
*
8937546 CTGGGACATAGGCATCGTACA
66 CTGAGACATAGGCATCGTACA
* **
8937567 TGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGA-TATTTGA-TTACAAGTAAGACCAC
1 TGATTTCGTGTAAGACCAC-GTCTGGGAAAGTGGCATCGACT-TGAGATTTACAAGTAAGACCAC
* *
8937629 GTCTGAGACATTGGCATTGTAC
64 GTCTGAGACATAGGCATCGTAC
8937651 GAGCTTTTCG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 34 0.47
86 38 0.53
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (86 bp):
TGATTTCGTGTAAGACCACGTCTGGGAAAGTGGCATCGACTTGAGATTTACAAGTAAGACCACGT
CTGAGACATAGGCATCGTACA
Found at i:8949746 original size:32 final size:32
Alignment explanation
Indices: 8949710--8949772 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8949700 AAGTTGAGAA
8949710 CTATATGGTTTAAATTAATATGGTCTTATGCG
1 CTATATGGTTTAAATTAATATGGTCTTATGCG
*
8949742 CTATATGGTTTAAGTTAATATGGTCTTATGC
1 CTATATGGTTTAAATTAATATGGTCTTATGC
8949773 ACATAGTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (32 bp):
CTATATGGTTTAAATTAATATGGTCTTATGCG
Found at i:8953324 original size:15 final size:17
Alignment explanation
Indices: 8953306--8953343 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
8953296 TTGCTCTCTA
8953306 TCTTTTTA-TTTC-TTC
1 TCTTTTTATTTTCTTTC
8953321 TCTTTTTATTTTCTTTC
1 TCTTTTTATTTTCTTTC
8953338 TCTTTT
1 TCTTTT
8953344 CTTTACACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 9 0.43
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (17 bp):
TCTTTTTATTTTCTTTC
Found at i:8967275 original size:55 final size:55
Alignment explanation
Indices: 8967188--8967294 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
8967178 CATGATTGGA
* * *
8967188 AATACCTTATAACCCTAATCCGGTGACGGATACGGGCTAGGGATGTTATACTGGT
1 AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACTGGT
*
8967243 AATACCTTATAACCCTAATCCAGTGACAGATACGGGGTAGGGATGTAATACT
1 AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACT
8967295 AATGACATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (55 bp):
AATACCTTATAACCCTAATCCAGTGACAGATACGGGCTAGGGATGTAATACTGGT
Found at i:8970273 original size:40 final size:41
Alignment explanation
Indices: 8970177--8970281 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
8970167 CGAATGATGT
*
8970177 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
8970217 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
8970257 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
8970282 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:8970720 original size:47 final size:47
Alignment explanation
Indices: 8970648--8970738 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
8970638 TTTGTTTCTC
*
8970648 TGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCGGGATTTTTGG
1 TGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCAGGATTTTTGG
* *
8970695 TGTTTTATAGATTTTGGTTCTTCAGCTATCGGACTCAGGATTTT
1 TGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCAGGATTTT
8970739 GAAGTCGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.45
Consensus pattern (47 bp):
TGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCAGGATTTTTGG
Found at i:8973796 original size:79 final size:81
Alignment explanation
Indices: 8973660--8973844 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
8973650 TTGAATGATG
*
8973660 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
8973724 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
8973739 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
8973801 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
8973819 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8973845 AATGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:8973858 original size:40 final size:40
Alignment explanation
Indices: 8973661--8973844 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
8973651 TGAATGATGT
* * * *
8973661 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
8973701 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
8973741 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8973779 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8973820 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
8973845 AATGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:8973866 original size:79 final size:79
Alignment explanation
Indices: 8973713--8973877 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
8973703 GGACTAAGAT
* **
8973713 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
8973778 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
8973792 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
8973855 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
8973871 CCGAAGG
1 CCGAAGG
8973878 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:8977161 original size:87 final size:87
Alignment explanation
Indices: 8977004--8977176 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 87
8976994 AAAATCTATA
* * *
8977004 AAACAGAGAAACAAAGAAACGGAGTAAGCAATTTATGCTTAGTAAGTTTTGAGCAAGGGATTCCA
1 AAACAGAGAAACAAAGAAACGGAGTAAGCAATTAATGCTTAGTAAGTTTTGAGCAAAGAATTCCA
8977069 GCACAACAAAAGTATAGCATTT
66 GCACAACAAAAGTATAGCATTT
* * *
8977091 AAACTGAGAATCAAAGAAACGGAGTAAGC-ATTAAATGCTTAGTAAGTTTTGAGCAAAGAATT-T
1 AAACAGAGAAACAAAGAAACGGAGTAAGCAATT-AATGCTTAGTAAGTTTTGAGCAAAGAATTCC
*
8977154 AGACACAACCAAAGTATAGCATT
65 AG-CACAACAAAAGTATAGCATT
8977177 CATGTAGCTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
86 5 0.06
87 72 0.94
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.23
Consensus pattern (87 bp):
AAACAGAGAAACAAAGAAACGGAGTAAGCAATTAATGCTTAGTAAGTTTTGAGCAAAGAATTCCA
GCACAACAAAAGTATAGCATTT
Found at i:8977562 original size:79 final size:79
Alignment explanation
Indices: 8977473--8977650 Score: 236
Period size: 79 Copynumber: 2.2 Consensus size: 79
8977463 AAATGCTTTT
* * *
8977473 GGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
1 GGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGATATAGTAAC
* *
8977537 -TCGCACCAATGCCTTC
64 TTAGCA-CAAAGCCTTC
* *
8977553 GGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTCACTT
1 GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGATATAGTAACTT
8977617 AGCACAAAGCCTTC
66 AGCACAAAGCCTTC
8977631 GGGACTTAGCCCGGACATTA
1 GGGACTTAGCCCGGA-ATTA
8977651 TTCGAATAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
78 29 0.33
79 50 0.57
80 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
GGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGATATAGTAACTT
AGCACAAAGCCTTC
Found at i:8977645 original size:40 final size:40
Alignment explanation
Indices: 8977443--8977645 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
8977433 CAGAATTTAA
** * * *
8977443 CCGGATATAGCT-ACTCGTTCAAATGCTTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
8977483 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
8977523 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
8977562 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
8977601 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
8977641 CCGGA
1 CCGGA
8977646 CATTATTCGA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 62 0.43
40 81 0.57
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:8984672 original size:125 final size:125
Alignment explanation
Indices: 8984447--8984695 Score: 462
Period size: 125 Copynumber: 2.0 Consensus size: 125
8984437 CTCTTTTCGA
8984447 TGCTCAAATGATTAAATCAATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCG
1 TGCTCAAATGATTAAATCAATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCG
* *
8984512 ATAAAGAGAAGGAAAAAGTGGTCGAATAGCTATCGAAATCGTTCGAAAACATCCGAGGTC
66 ATAAAGAGAAGGAAAAAATGGTCGAATAGCCATCGAAATCGTTCGAAAACATCCGAGGTC
8984572 TGCTCAAATGATTAAATCAATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCG
1 TGCTCAAATGATTAAATCAATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCG
* *
8984637 ATAAAGGGAAGGAAAAAATGGTCGAATAGCCATCGAAATCGTTCGACAACATCCGAGGT
66 ATAAAGAGAAGGAAAAAATGGTCGAATAGCCATCGAAATCGTTCGAAAACATCCGAGGT
8984696 AAGTTTTCGA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (125 bp):
TGCTCAAATGATTAAATCAATTTATTTGTTAAATTAAGCTCAAGAGCAAAGGGGAACTAAATCCG
ATAAAGAGAAGGAAAAAATGGTCGAATAGCCATCGAAATCGTTCGAAAACATCCGAGGTC
Found at i:8985091 original size:40 final size:41
Alignment explanation
Indices: 8984893--8985077 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
8984883 TCGAATGATG
* * * *
8984893 TCCGGGCTAAGTTCTGAAGGC-TTTGTGCTAAGTGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
8984933 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8984973 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8985012 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8985053 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8985078 AACAAGTTGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:8985110 original size:79 final size:79
Alignment explanation
Indices: 8984922--8985102 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 79
8984912 GCTTTGTGCT
* * * *
8984922 AAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 AAGTTACTAAATCCGGATTAA-ATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCC
**
8984986 CGAAGGCATTGGTGC
65 CGAAGGCATTGGAAC
* * * * *
8985001 GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 AAGTTACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-C
*
8985065 CCGAAGGCATTTGAAC
64 CCGAAGGCATTGGAAC
* *
8985081 AAGTTGCTATATCC-GATTAAAT
1 AAGTTACTAAATCCGGATTAAAT
8985103 TCTGAAGGTA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
78 3 0.04
79 54 0.66
80 25 0.30
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (79 bp):
AAGTTACTAAATCCGGATTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCC
GAAGGCATTGGAAC
Found at i:8986600 original size:29 final size:29
Alignment explanation
Indices: 8986539--8986628 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
8986529 CACATACCTG
*
8986539 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
8986567 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
8986596 TATATGGCCTATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
8986625 TATA
1 TATA
8986629 GTCATGTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:8987610 original size:31 final size:31
Alignment explanation
Indices: 8987575--8987633 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
8987565 GCGATTGAAG
8987575 CACACAAAAACAACAAATGCCCTTACTCCCC
1 CACACAAAAACAACAAATGCCCTTACTCCCC
*
8987606 CACACAAGAACAACAAATGCCCTTACTC
1 CACACAAAAACAACAAATGCCCTTACTC
8987634 GACTGTACGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.39, G:0.05, T:0.14
Consensus pattern (31 bp):
CACACAAAAACAACAAATGCCCTTACTCCCC
Found at i:8987670 original size:4 final size:4
Alignment explanation
Indices: 8987661--8987686 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8987651 ATTTATACAA
8987661 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
8987687 TACACCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:8995539 original size:53 final size:53
Alignment explanation
Indices: 8995459--8995562 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
8995449 TGCAAGCGAA
*
8995459 TAATGTCCCTAAAGAAAATATTAGAAATATGAACGGCACCGTCAGTCTTTGAC
1 TAATGTCCCTAAAGAAAAGATTAGAAATATGAACGGCACCGTCAGTCTTTGAC
* *
8995512 TAATGTCCCTAAAGAAAAGATTGGAAATATGAACGGCATCGTCAGTCTTTG
1 TAATGTCCCTAAAGAAAAGATTAGAAATATGAACGGCACCGTCAGTCTTTG
8995563 TACAAGCAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (53 bp):
TAATGTCCCTAAAGAAAAGATTAGAAATATGAACGGCACCGTCAGTCTTTGAC
Found at i:8999047 original size:79 final size:80
Alignment explanation
Indices: 8998878--8999062 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
8998868 GCTACTCGTT
* * *
8998878 CAAATGCCTTCGGAACATAGCCCGG-TTATAGTAACTCCCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCCCACAAATGCCTTCGGGACTTAACCCG
* *
8998942 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
** * **
8998959 CAATTCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCCCACAAATGCCTTCGGGA-CTTAACCCGG
* *
8999022 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
8999038 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
8999063 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 23 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCCCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:8999062 original size:40 final size:40
Alignment explanation
Indices: 8998860--8999062 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 40
8998850 GGAATTTAAT
** * *
8998860 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGAACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
8998900 CGGTTATAGTAACTCCCACAAATGCCTTCGGGACTTAACC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
8998940 CGGATTTAGTAACTCGCACCAATTCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
*
8998979 CGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
* * *
8999019 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
8999059 CGGA
1 CGGA
8999063 CATCATTCGA
Statistics
Matches: 135, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 89 0.66
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:8999665 original size:24 final size:23
Alignment explanation
Indices: 8999638--8999689 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
8999628 CACACAAATG
*
8999638 GCATACATTTTACTAACTCAATAC
1 GCATACATATTA-TAACTCAATAC
8999662 GCATTACATATTATAACTCAATAC
1 GCA-TACATATTATAACTCAATAC
8999686 GCAT
1 GCAT
8999690 CCATCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.65
25 8 0.31
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (23 bp):
GCATACATATTATAACTCAATAC
Found at i:9003316 original size:88 final size:88
Alignment explanation
Indices: 9003167--9003342 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
9003157 GGGGGGGAAA
9003167 ATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATCAC
1 ATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATCAC
9003232 ATTTCAAAAATGTCACCCATAAG
66 ATTTCAAAAATGTCACCCATAAG
9003255 ATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATCAC
1 ATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATCAC
9003320 ATTTCAAAAATGTCACCCATAAG
66 ATTTCAAAAATGTCACCCATAAG
9003343 TCCTTTTAAC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (88 bp):
ATTGACATGCAAGTCCTCCCTTTTGATTACATGCACTATTAGGTCCTTGTAGATTAGCCTATCAC
ATTTCAAAAATGTCACCCATAAG
Found at i:9003616 original size:21 final size:21
Alignment explanation
Indices: 9003575--9003682 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 21
9003565 TATTTTCACT
*
9003575 TTCTTTTTCTTTTTCTTTTTC
1 TTCTTTTTCATTTTCTTTTTC
9003596 TTCTTTTCTCATTTTC-TTTTC
1 TTCTTTT-TCATTTTCTTTTTC
* * ** *
9003617 -GCTTTTTTAGCTACTTTTTC
1 TTCTTTTTCATTTTCTTTTTC
*
9003637 TTTCTTTTTCACATTTCTCATTTTTT
1 -TTCTTTTT--CATTT-TC-TTTTTC
*
9003663 TTCATTTTC-TTTTCTTTTTC
1 TTCTTTTTCATTTTCTTTTTC
9003683 AACTTCATTC
Statistics
Matches: 65, Mismatches: 14, Indels: 17
0.68 0.15 0.18
Matches are distributed among these distances:
19 4 0.06
20 15 0.23
21 14 0.22
22 16 0.25
23 1 0.02
24 2 0.03
25 8 0.12
26 5 0.08
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCTTTTTCATTTTCTTTTTC
Found at i:9003668 original size:17 final size:17
Alignment explanation
Indices: 9003632--9003697 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
9003622 TTTAGCTACT
9003632 TTTTC-TTTCTTTTTCACA
1 TTTTCATTTCTTTTT--CA
9003650 TTTCTCATTT-TTTTTCA
1 TTT-TCATTTCTTTTTCA
*
9003667 TTTTCTTTTCTTTTTCA
1 TTTTCATTTCTTTTTCA
**
9003684 ACTTCA-TTCTTTTT
1 TTTTCATTTCTTTTT
9003698 TTCTTTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 13 0.32
17 15 0.37
18 3 0.07
19 7 0.17
20 3 0.07
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTCATTTCTTTTTCA
Found at i:9008081 original size:24 final size:24
Alignment explanation
Indices: 9008054--9008101 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9008044 CTTTAGTCCC
* * * *
9008054 TAGGCTTTTTTAGTTTAGGGTTTT
1 TAGGATTTTTAAGGTTAAGGTTTT
9008078 TAGGATTTTTAAGGTTAAGGTTTT
1 TAGGATTTTTAAGGTTAAGGTTTT
9008102 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.25, T:0.54
Consensus pattern (24 bp):
TAGGATTTTTAAGGTTAAGGTTTT
Found at i:9008264 original size:34 final size:35
Alignment explanation
Indices: 9008186--9008269 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 35
9008176 TTTAGTGTTC
* * * *
9008186 TTTTTTAA-AAATTAATTAAATTAGGGTTTTATGG
1 TTTTTAAATAAATTAAGTAAATAAGGGTTTTAAGG
9008220 TTTTTAAATAAATTAAGTAAATAAGGG-TTTAAGAG
1 TTTTTAAATAAATTAAGTAAATAAGGGTTTTAAG-G
9008255 -TTTTAAATAAATTAA
1 TTTTTAAATAAATTAA
9008270 TGTTTAGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
34 27 0.61
35 17 0.39
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (35 bp):
TTTTTAAATAAATTAAGTAAATAAGGGTTTTAAGG
Found at i:9008508 original size:126 final size:126
Alignment explanation
Indices: 9008360--9008738 Score: 465
Period size: 126 Copynumber: 3.0 Consensus size: 126
9008350 CTATTTTTAC
* * **
9008360 CTTGAAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTTAAAAACGCTTCAAAAAGGA
1 CTTG-AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGCAGGA
* * * *
9008425 TGCATTATCAGTAAAATTACTGAAAAAAGCTCACACGTAAACGCTCTTTTTCTATGGTAGTT
65 TGCATTATCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTCTTTTTCTATAGTAGTT
** * * *
9008487 CTTGAAAAAATAATTTTGAGAAGATGTTTTTGAACAAATAGTGTCAAAAATGCTTTAAGCAGGAT
1 CTTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGCAGGAT
* * * * * * * *
9008552 GCACTGTCAGTAAAAGTACTGAAAAATGCTCCCACATGGAA-GCTATTTTTCTACAATAGCT
66 GCATTATCAGTAAAATTACTGAAAAAAGCTCCCACAT-GAACGCTCTTTTTCTATAGTAGTT
* * * * *
9008613 CCTGAAAAAATAATTTTCAGAAGACATTTCTGAA-AATTAGCGTAAAAAATGCTTCAAGCAGCAT
1 CTTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGCAGGAT
* * *
9008677 GCATTATCAGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTTTCTATAGTAGTT
66 GCATTATCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTCTTTTTCTATAGTAGTT
9008738 C
1 C
9008739 ATGTTTGGCC
Statistics
Matches: 209, Mismatches: 41, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
124 2 0.01
125 73 0.35
126 128 0.61
127 6 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
CTTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTAAAAAATGCTTCAAGCAGGAT
GCATTATCAGTAAAATTACTGAAAAAAGCTCCCACATGAACGCTCTTTTTCTATAGTAGTT
Found at i:9014524 original size:24 final size:23
Alignment explanation
Indices: 9014492--9014581 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 23
9014482 TCTTACTCAT
9014492 TCGCACACATAGTGCCGTGTTTCC
1 TCGCACACATAGTGCCGTGTTT-C
** * *
9014516 TCGCACACATAGTGCTATATAATC
1 TCGCACACATAGTGCCGTGT-TTC
9014540 TCGCACACATAGTGCCATGTAGTTT-
1 TCGCACACATAGTGCC--GT-GTTTC
*
9014565 TTGCACACATAGTGCCG
1 TCGCACACATAGTGCCG
9014582 CATAACCACG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
23 1 0.02
24 33 0.62
25 16 0.30
26 2 0.04
27 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (23 bp):
TCGCACACATAGTGCCGTGTTTC
Found at i:9014571 original size:49 final size:47
Alignment explanation
Indices: 9014468--9014603 Score: 132
Period size: 49 Copynumber: 2.8 Consensus size: 47
9014458 TTTAAAGGTC
* *
9014468 CGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGTGTTTCCT
1 CGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CT
9014517 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-T
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCT
* *** * *
9014566 TGCACACATAGTGCCGCATAACCACGCACACATAGTGC
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGC
9014604 TGAAATTTCT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
48 16 0.21
49 49 0.65
50 6 0.08
51 4 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (47 bp):
CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCT
Found at i:9024946 original size:24 final size:23
Alignment explanation
Indices: 9024890--9024946 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
9024880 AAGAACTTCT
*
9024890 ATTTTATTAATAATATAAAAATA
1 ATTTTATTAATAATATAAAAACA
9024913 ATTTACTATTAA-AATATTAAAAACA
1 ATTT--TATTAATAATA-TAAAAACA
9024938 ACTTTTATT
1 A-TTTTATT
9024947 TTATTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 8 0.28
25 14 0.48
26 3 0.10
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAATAATATAAAAACA
Found at i:9025405 original size:18 final size:18
Alignment explanation
Indices: 9025365--9025408 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9025355 GATTGGGAAA
* *
9025365 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
9025383 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
9025401 AGGATACA
1 AGGATACA
9025409 CACTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:9025970 original size:38 final size:38
Alignment explanation
Indices: 9025927--9026002 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9025917 TTTATCCTTT
9025927 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
9025965 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
9026003 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:9027279 original size:40 final size:40
Alignment explanation
Indices: 9027210--9027335 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
9027200 CTATGTCCCA
* * *
9027210 AAGGCTTTTGTGCTAAGCGACTACATCCGGACTAAGATCCG
1 AAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGATCCG
9027251 AAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCTCG
1 AAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGATC-CG
* * * * * *
9027291 AATGCATTTATGCTAGTGACCATATCCGGGTTAAGACCCG
1 AAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGATCCG
9027331 AAGGC
1 AAGGC
9027336 CTTGTGCAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.03
40 57 0.78
41 14 0.19
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
AAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGATCCG
Found at i:9036638 original size:15 final size:15
Alignment explanation
Indices: 9036613--9036653 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9036603 GATATTGTAT
9036613 TTTGAATTTCTATATC
1 TTTG-ATTTCTATATC
*
9036629 TTTGATTTCTTTATC
1 TTTGATTTCTATATC
*
9036644 TTAGATTTCT
1 TTTGATTTCT
9036654 TTGTCCTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (15 bp):
TTTGATTTCTATATC
Found at i:9036654 original size:15 final size:15
Alignment explanation
Indices: 9036618--9036655 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9036608 TGTATTTTGA
* *
9036618 ATTTCTATATCTTTG
1 ATTTCTTTATCTTAG
9036633 ATTTCTTTATCTTAG
1 ATTTCTTTATCTTAG
9036648 ATTTCTTT
1 ATTTCTTT
9036656 GTCCTGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (15 bp):
ATTTCTTTATCTTAG
Found at i:9039552 original size:38 final size:38
Alignment explanation
Indices: 9039509--9039717 Score: 141
Period size: 38 Copynumber: 5.0 Consensus size: 38
9039499 TTTCAAATTA
9039509 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
9039547 ACATGTTTAACCGTGGCATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* *
9039588 GAATCAATATATTTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* *
9039632 ACATGTATCAA-TATGTGTAATCGTGGTATATCCACTTAGCACCACATT
1 ACATGTAT-AACCATG-G----C-----ATATCCACTTAGCACCACGTT
** *
9039680 ACACATATAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
9039718 TTTTCATTCC
Statistics
Matches: 135, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
38 56 0.41
39 4 0.03
40 4 0.03
41 2 0.01
42 1 0.01
43 2 0.01
44 2 0.01
45 3 0.02
46 1 0.01
47 31 0.23
48 29 0.21
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:9039663 original size:48 final size:48
Alignment explanation
Indices: 9039549--9039682 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
9039539 ACCACGTTAC
*
9039549 ATGTTTAACCGTGGCATATCCACTTAGCACCATGTTA-ATGAATCAAT
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAAT
* *
9039596 ATATTTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAAT
* * * *
9039644 ATGTGTAATCGTGGTATATCCACTTAGCACCACATTACA
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTACA
9039683 CATATAACCA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 35 0.45
48 43 0.55
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (48 bp):
ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:9045495 original size:38 final size:38
Alignment explanation
Indices: 9045452--9045741 Score: 175
Period size: 38 Copynumber: 6.9 Consensus size: 38
9045442 TTTCAAATTA
*
9045452 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* * * *
9045490 ACATGTTTAACTGTGGTATATCCACTTAGTACCACATTTGTGA
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC----GT-T
* * *
9045533 ATCAATATATGTAACCGTGGCATATCCACTTAGCACCACATT
1 A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
9045575 ACATGTTTAACTGTGGTATATCCATTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* * * * *
9045616 GAATCAATATATGTAATCATGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
9045660 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
9045708 ACATGTATAACCGTGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGTATATCCACTTAGCACCA
9045742 TGTTTTTTCA
Statistics
Matches: 195, Mismatches: 31, Indels: 52
0.70 0.11 0.19
Matches are distributed among these distances:
38 82 0.42
39 1 0.01
40 5 0.03
41 3 0.02
42 6 0.03
43 3 0.02
44 3 0.02
45 6 0.03
46 3 0.02
47 48 0.25
48 35 0.18
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:9045554 original size:85 final size:85
Alignment explanation
Indices: 9045459--9045665 Score: 333
Period size: 85 Copynumber: 2.4 Consensus size: 85
9045449 TTAACATGTA
*
9045459 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGTACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
**
9045524 CATTTGTGAATCAATATATG
66 CATTAATGAATCAATATATG
* *
9045544 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGGTATATCCATTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
*
9045609 CGTTAATGAATCAATATATG
66 CATTAATGAATCAATATATG
* * *
9045629 TAATCATGGCATATCCACTTAGCACCATGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
9045666 ATCAATATGT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
CATTAATGAATCAATATATG
Found at i:9045691 original size:48 final size:48
Alignment explanation
Indices: 9045587--9045715 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
9045577 ATGTTTAACT
* *
9045587 GTGGTATATCCATTTAGCACCACGTTA-ATGAATCAATATATGTAATC
1 GTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATC
* * * *
9045634 ATGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATC
1 GTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATC
9045682 GTGGTATATCCACTTAGCACCACGTTACATGTAT
1 GTGGTATATCCACTTAGCACCACGTTACATGTAT
9045716 AACCGTGGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 23 0.32
48 49 0.68
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (48 bp):
GTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATC
Found at i:9049104 original size:44 final size:44
Alignment explanation
Indices: 9048982--9049105 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
9048972 GAAATCCAAA
* * * *
9048982 CTTGTTGAGTTGGTCTGAGTTCGTGATATGTATGAG-GCATCTGAG
1 CTTGTTGAGTTGGTCTGAGTTCAT--TATGAATGCGAGCATCCGAG
* **
9049027 CTCGTTGAGTTGGTCTGAGTTCATTACAAATGCGAGCATCCGAG
1 CTTGTTGAGTTGGTCTGAGTTCATTATGAATGCGAGCATCCGAG
* *
9049071 CTTGTTGAGTTGGTCCGAGTTCATTATGGATGCGA
1 CTTGTTGAGTTGGTCTGAGTTCATTATGAATGCGA
9049106 TACATGTAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 6 0.09
44 38 0.58
45 22 0.33
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (44 bp):
CTTGTTGAGTTGGTCTGAGTTCATTATGAATGCGAGCATCCGAG
Found at i:9054192 original size:31 final size:32
Alignment explanation
Indices: 9054154--9054213 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
9054144 GAAACGGGCC
*
9054154 TGCTCACATGAGTTGAAG-GTATTCACAATAT
1 TGCTCACATGAGCTGAAGAGTATTCACAATAT
*
9054185 TGCTCACATGAGCTGTAGAGTATTCACAA
1 TGCTCACATGAGCTGAAGAGTATTCACAA
9054214 CAAATGCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (32 bp):
TGCTCACATGAGCTGAAGAGTATTCACAATAT
Found at i:9064834 original size:29 final size:29
Alignment explanation
Indices: 9064800--9064876 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
9064790 ATCCATATTC
* *
9064800 ATATGGTCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* * *
9064829 ATATGGCCCATTAGACACAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
9064858 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
9064877 GTCACATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:9066370 original size:16 final size:16
Alignment explanation
Indices: 9066345--9066377 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9066335 AAAAATTCAA
9066345 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
9066361 GATTTTAGGATTTTTG
1 GATTTCAGGATTTTTG
9066377 G
1 G
9066378 GGCGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:9076359 original size:28 final size:28
Alignment explanation
Indices: 9076291--9076555 Score: 435
Period size: 28 Copynumber: 9.5 Consensus size: 28
9076281 ATATTAAGTC
*
9076291 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9076318 CGCACAGTT-GTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9076345 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
9076373 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
9076401 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
9076429 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
9076457 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
9076485 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
9076513 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
9076542 CGCACACTTAGTGC
1 CGCACACTTAGTGC
9076556 CAATCTCATG
Statistics
Matches: 224, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
26 13 0.06
27 19 0.08
28 173 0.77
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:9089213 original size:16 final size:16
Alignment explanation
Indices: 9089192--9089223 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9089182 TCATTCATAT
9089192 GGCCCATCAAGCCCAA
1 GGCCCATCAAGCCCAA
*
9089208 GGCCCATCAGGCCCAA
1 GGCCCATCAAGCCCAA
9089224 ATCACATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.44, G:0.22, T:0.06
Consensus pattern (16 bp):
GGCCCATCAAGCCCAA
Found at i:9090739 original size:16 final size:16
Alignment explanation
Indices: 9090715--9090746 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9090705 AAGTTCAGGA
9090715 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
9090731 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
9090747 GCATTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:9093590 original size:29 final size:29
Alignment explanation
Indices: 9093526--9093665 Score: 124
Period size: 29 Copynumber: 4.9 Consensus size: 29
9093516 TACATACACG
*
9093526 CATATGGCCCA-CATGGCCC--ATCTCATT
1 CATATGGCCCATCA-GGCCCAAATCACATT
*
9093553 CATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAAATCACATT
* ***
9093582 CATATGGCCCATCAGGCCCAATTCTTTTT
1 CATATGGCCCATCAGGCCCAAATCACATT
* * * *
9093611 CATATGGCCTATTAGGCTCAAATCACCTT
1 CATATGGCCCATCAGGCCCAAATCACATT
* * * *
9093640 TATATGACTCATTAGGCCCAAATCAC
1 CATATGGCCCATCAGGCCCAAATCAC
9093666 CTTATATTCA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
27 16 0.17
28 2 0.02
29 75 0.81
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAAATCACATT
Found at i:9093657 original size:58 final size:58
Alignment explanation
Indices: 9093551--9093660 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
9093541 GCCCATCTCA
* *
9093551 TTCATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATCAGGCCCAATTCTTT
1 TTCATATGGCCCATCAGGCCCAAATCACATTCATATGACCCATCAGGCCCAATTCTTT
* * * * * * *
9093609 TTCATATGGCCTATTAGGCTCAAATCACCTTTATATGACTCATTAGGCCCAA
1 TTCATATGGCCCATCAGGCCCAAATCACATTCATATGACCCATCAGGCCCAA
9093661 ATCACCTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (58 bp):
TTCATATGGCCCATCAGGCCCAAATCACATTCATATGACCCATCAGGCCCAATTCTTT
Found at i:9107845 original size:15 final size:15
Alignment explanation
Indices: 9107813--9107841 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9107803 ATATTTTGTG
9107813 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
9107828 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
9107842 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:9109937 original size:49 final size:49
Alignment explanation
Indices: 9109817--9110248 Score: 679
Period size: 49 Copynumber: 9.0 Consensus size: 49
9109807 CCCTTCGGGA
* * * * *
9109817 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9109864 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9109911 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9109960 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9110007 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9110056 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9110105 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGAAT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-ATTAGGC
* *
9110154 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9110201 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9110248 C
1 C
9110249 ATACTATCAT
Statistics
Matches: 361, Mismatches: 16, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
46 3 0.01
47 169 0.47
49 187 0.52
50 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9109979 original size:96 final size:96
Alignment explanation
Indices: 9109817--9110248 Score: 703
Period size: 96 Copynumber: 4.5 Consensus size: 96
9109807 CCCTTCGGGA
* * * * * * *
9109817 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
9109880 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9109911 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
9109976 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9110007 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
9110072 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
9110105 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGAAT-GGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC-ATTAGGCCTTATCACATATATA
* *
9110169 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
9110201 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
9110249 ATACTATCAT
Statistics
Matches: 320, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
93 2 0.01
94 46 0.14
95 1 0.00
96 177 0.55
98 92 0.29
99 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9123596 original size:27 final size:27
Alignment explanation
Indices: 9123524--9123615 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
9123514 ATGGAGGAAG
*
9123524 TGTTCTGGTGGCTATGCCACAAATGTC
1 TGTTCTGGTGGCTATGCCACAAATATC
*
9123551 TATTTCTGGTGGCTATGCCACAAATATC
1 T-GTTCTGGTGGCTATGCCACAAATATC
*
9123579 TGTTCTGGTGGCTCTGCCAC-AATATC
1 TGTTCTGGTGGCTATGCCACAAATATC
9123605 TGTATCTGGTG
1 TGT-TCTGGTG
9123616 ACTCGGTCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 9 0.15
27 25 0.42
28 25 0.42
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
TGTTCTGGTGGCTATGCCACAAATATC
Found at i:9123626 original size:27 final size:26
Alignment explanation
Indices: 9123567--9123639 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
9123557 TGGTGGCTAT
* *
9123567 GCCACAAATATCTGTTCTGGTGGCTCT
1 GCCAC-AATATCTGTTCTGGTGACTCG
9123594 GCCACAATATCTGTATCTGGTGACTCG
1 GCCACAATATCTGT-TCTGGTGACTCG
* * *
9123621 GTCACAGTGTCTGTTCTGG
1 GCCACAATATCTGTTCTGG
9123640 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 14 0.35
27 26 0.65
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGGTGACTCG
Found at i:9125634 original size:56 final size:56
Alignment explanation
Indices: 9125543--9125704 Score: 193
Period size: 56 Copynumber: 2.9 Consensus size: 56
9125533 TTGTACATGT
** * * * *
9125543 AATCACATATCGATGCC-ACTGTCCCAGACAGGGTCTTACTCAGACATATAAATC-G
1 AATCACATATCGATGCCAAC-GTCTTAAACATGGTCTTACTCACACACATAAATCAG
* *
9125598 AAATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCACACACATATATCAG
1 -AATCACATATCGATGCCAACGTCTTAAACATGGTCTTACTCACACACATAAATCAG
* * *
9125655 AATCACCTATCGATGCCAACGTCTTAAACGTGGTCTTACTCGCACACATA
1 AATCACATATCGATGCCAACGTCTTAAACATGGTCTTACTCACACACATA
9125705 TATCGATGCC
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
56 89 0.97
57 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTCTTAAACATGGTCTTACTCACACACATAAATCAG
Found at i:9132601 original size:39 final size:40
Alignment explanation
Indices: 9132547--9132723 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
9132537 AAACCAAGTA
* * * *
9132547 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
9132586 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9132626 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
9132666 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
9132705 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
9132724 TTATCATCCG
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.38
40 77 0.61
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:9132700 original size:79 final size:80
Alignment explanation
Indices: 9132547--9132723 Score: 245
Period size: 79 Copynumber: 2.2 Consensus size: 80
9132537 AAACCAAGTA
* * * * *
9132547 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
9132611 TAACTCGCACAAATG
66 TAACTAGCACAAATG
9132626 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
9132688 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
9132705 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
9132724 TTATCATCCG
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:9140666 original size:40 final size:40
Alignment explanation
Indices: 9140622--9140809 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
9140612 GCTACTTGCT
9140622 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9140662 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
9140702 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
9140742 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
9140781 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
9140810 CATCCGAATA
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 104 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:9140800 original size:119 final size:119
Alignment explanation
Indices: 9140589--9140809 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
9140579 AAACCAAGTA
* * * *
9140589 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
9140654 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
9140708 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
9140770 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
9140810 CATCCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 1 0.01
119 62 0.67
120 29 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:9145984 original size:40 final size:40
Alignment explanation
Indices: 9145906--9146086 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
9145896 ACCCAAGTAT
* *
9145906 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
9145945 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
9145985 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
9146025 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
9146065 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
9146087 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.08
40 118 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:9155632 original size:39 final size:40
Alignment explanation
Indices: 9155470--9155642 Score: 169
Period size: 40 Copynumber: 4.3 Consensus size: 40
9155460 AGGTATACAA
** * *
9155470 CACTAAGTGTGCGATTTGAAATAGTTTTGGTTATAAAT-A-G
1 CACTAAGTGTGCGAAATGAAATAGCTTTGGCTAT--ATGAGG
9155510 CACTAAGTGTGCGAAATGAAATAGCTTTGGCTATATGAGG
1 CACTAAGTGTGCGAAATGAAATAGCTTTGGCTATATGAGG
* ** * *
9155550 CACTAAGTTTGCGATTTGAAATAG-TTGCGGTTATAAAT-A-G
1 CACTAAGTGTGCGAAATGAAATAGCTT-TGGCTAT--ATGAGG
*
9155590 CACTAAGTGTG-GAAATGGAATAGCTTTGGCTATATGAGG
1 CACTAAGTGTGCGAAATGAAATAGCTTTGGCTATATGAGG
9155629 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
9155643 TACTGATGTT
Statistics
Matches: 109, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 29 0.27
40 72 0.66
41 1 0.01
42 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (40 bp):
CACTAAGTGTGCGAAATGAAATAGCTTTGGCTATATGAGG
Found at i:9155642 original size:79 final size:80
Alignment explanation
Indices: 9155470--9155643 Score: 305
Period size: 80 Copynumber: 2.2 Consensus size: 80
9155460 AGGTATACAA
**
9155470 CACTAAGTGTGCGATTTGAAATAGTTTTGGTTATAAATAGCACTAAGTGTGCGAAATGAAATAGC
1 CACTAAGTGTGCGATTTGAAATAGTTGCGGTTATAAATAGCACTAAGTGTGCGAAATGAAATAGC
9155535 TTTGGCTATATGAGG
66 TTTGGCTATATGAGG
* *
9155550 CACTAAGTTTGCGATTTGAAATAGTTGCGGTTATAAATAGCACTAAGTGTG-GAAATGGAATAGC
1 CACTAAGTGTGCGATTTGAAATAGTTGCGGTTATAAATAGCACTAAGTGTGCGAAATGAAATAGC
9155614 TTTGGCTATATGAGG
66 TTTGGCTATATGAGG
9155629 CACTAAGTGTGCGAT
1 CACTAAGTGTGCGAT
9155644 ACTGATGTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 41 0.46
80 48 0.54
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (80 bp):
CACTAAGTGTGCGATTTGAAATAGTTGCGGTTATAAATAGCACTAAGTGTGCGAAATGAAATAGC
TTTGGCTATATGAGG
Found at i:9161848 original size:29 final size:29
Alignment explanation
Indices: 9161809--9161887 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
9161799 CTTAATAATC
*
9161809 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
9161839 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
9161868 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
9161888 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:9170004 original size:40 final size:40
Alignment explanation
Indices: 9169963--9170390 Score: 761
Period size: 40 Copynumber: 10.7 Consensus size: 40
9169953 GCTACTTGCT
* *
9169963 CAAATGCCTTCGGGACTTAGCCGGGTTATAGTAACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170003 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170043 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170083 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170123 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170163 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170203 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170243 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
9170283 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
9170323 CAAATGCCTTCGGG-CTTAGCTCAG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
9170362 CAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
9170391 CATCCGAATA
Statistics
Matches: 374, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
38 1 0.00
39 31 0.08
40 341 0.91
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:9175638 original size:18 final size:18
Alignment explanation
Indices: 9175615--9175650 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9175605 TTCGATGTAA
9175615 GGCACATGGCCGTGTCCT
1 GGCACATGGCCGTGTCCT
*
9175633 GGCACATGGCTGTGTCCT
1 GGCACATGGCCGTGTCCT
9175651 AGCCCATGTC
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:0.11, C:0.31, G:0.33, T:0.25
Consensus pattern (18 bp):
GGCACATGGCCGTGTCCT
Found at i:9175658 original size:18 final size:18
Alignment explanation
Indices: 9175616--9175658 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9175606 TCGATGTAAG
*
9175616 GCACATGGCCGTGTCCTG
1 GCACATGGCCGTGTCCTA
*
9175634 GCACATGGCTGTGTCCTA
1 GCACATGGCCGTGTCCTA
*
9175652 GCCCATG
1 GCACATG
9175659 TCCTTACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.23
Consensus pattern (18 bp):
GCACATGGCCGTGTCCTA
Found at i:9176397 original size:24 final size:23
Alignment explanation
Indices: 9176358--9176407 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
9176348 CGAGCACTAA
9176358 TAAAACAGAGAAAGAAAACCTAG
1 TAAAACAGAGAAAGAAAACCTAG
* *
9176381 TAAAACTGAGTAAAGAAAATCTAG
1 TAAAACAGAG-AAAGAAAACCTAG
9176405 TAA
1 TAA
9176408 GCATTTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.58, C:0.10, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAAACAGAGAAAGAAAACCTAG
Found at i:9178644 original size:13 final size:13
Alignment explanation
Indices: 9178628--9178653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9178618 TTATTTACCG
9178628 AAATTATTATAAT
1 AAATTATTATAAT
9178641 AAATTATTATAAT
1 AAATTATTATAAT
9178654 TATGATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:9183876 original size:28 final size:27
Alignment explanation
Indices: 9183816--9183964 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
9183806 ATTAAGTCCG
* *
9183816 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
9183843 ACACTTAGTGCTACATAATCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
*
9183871 ACACTTAGTGCTACATAGTCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
9183898 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
* *
9183926 ACACTTAGTGCTACATATTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
9183953 ACACTTAGTGCT
1 ACACTTAGTGCT
9183965 GCACAATTTA
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:9183900 original size:55 final size:55
Alignment explanation
Indices: 9183816--9183989 Score: 249
Period size: 55 Copynumber: 3.1 Consensus size: 55
9183806 ATTAAGTCCG
* *
9183816 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGC
* *
9183871 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGC
* * * * * *
9183926 ACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACCCGC
1 ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACTCGC
9183982 ACACTTAG
1 ACACTTAG
9183990 CGCCAATCTC
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 91 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
ACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGC
Found at i:9187282 original size:21 final size:22
Alignment explanation
Indices: 9187236--9187288 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
9187226 GTTAAGCCAG
* *
9187236 CATCAAGCTTCTATATACCAAT
1 CATCAAGCTTCCAGATACCAAT
*
9187258 -ATCAAGCTTCCAGATA-CTAT
1 CATCAAGCTTCCAGATACCAAT
*
9187278 CATCAAACTTC
1 CATCAAGCTTC
9187289 ATAAAACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (22 bp):
CATCAAGCTTCCAGATACCAAT
Found at i:9189804 original size:19 final size:19
Alignment explanation
Indices: 9189768--9189885 Score: 132
Period size: 19 Copynumber: 6.2 Consensus size: 19
9189758 GGGTGGTACA
*
9189768 CATACTAGCACACGAAGTG
1 CATACTAGCACACAAAGTG
* *
9189787 CATCCTAACACACAAAGTG
1 CATACTAGCACACAAAGTG
*
9189806 CATACTAGCACACAAAGGG
1 CATACTAGCACACAAAGTG
9189825 CATACTAGCACACAAAGTG
1 CATACTAGCACACAAAGTG
* * *
9189844 CATCCTAGCATATGAAA-TG
1 CATACTAGCACA-CAAAGTG
*
9189863 CATACTGGCACACGAAA-TG
1 CATACTAGCACAC-AAAGTG
9189882 CATA
1 CATA
9189886 AACTCGTACA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 80 0.96
20 3 0.04
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (19 bp):
CATACTAGCACACAAAGTG
Found at i:9192513 original size:25 final size:25
Alignment explanation
Indices: 9192422--9192537 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
9192412 TCCTGTACAT
* * *
9192422 GTATGCTCAT-ACAAGCTTTGAATCG
1 GTATGCTC-TCACAAGCTATAAATCA
* * * *
9192447 GTATGCTCACTCGAGCTGTAAATCA
1 GTATGCTCTCACAAGCTATAAATCA
* * * ** *
9192472 GAATACTCGCATGAGCTATAAATCG
1 GTATGCTCTCACAAGCTATAAATCA
9192497 GTATGCTCTCACAAGCTGATAAATCA
1 GTATGCTCTCACAAGCT-ATAAATCA
*
9192523 ATATGCTCTCACAAG
1 GTATGCTCTCACAAG
9192538 ATGTGGGTTG
Statistics
Matches: 69, Mismatches: 20, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
25 48 0.70
26 21 0.30
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
GTATGCTCTCACAAGCTATAAATCA
Found at i:9192520 original size:26 final size:25
Alignment explanation
Indices: 9192485--9192537 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
9192475 TACTCGCATG
**
9192485 AGCTATAAATCGGTATGCTCTCACA
1 AGCTATAAATCAATATGCTCTCACA
9192510 AGCTGATAAATCAATATGCTCTCACA
1 AGCT-ATAAATCAATATGCTCTCACA
9192536 AG
1 AG
9192538 ATGTGGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
AGCTATAAATCAATATGCTCTCACA
Found at i:9202290 original size:40 final size:40
Alignment explanation
Indices: 9202179--9202302 Score: 196
Period size: 40 Copynumber: 3.1 Consensus size: 40
9202169 CGGATGATAA
*
9202179 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9202219 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
9202259 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
9202299 CCGG
1 CCGG
9202303 TTAAATTCCG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.03
40 77 0.97
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:9210227 original size:40 final size:40
Alignment explanation
Indices: 9210168--9210290 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
9210158 TGTTCGGATG
*
9210168 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGACT
* * * *
9210208 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
*
9210248 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGTCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
9210288 ATA
1 ATA
9210291 TCCCGCTAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 66 0.94
41 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACT
Found at i:9216332 original size:28 final size:28
Alignment explanation
Indices: 9216292--9216349 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
9216282 ACAAGAATTT
*
9216292 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
*
9216320 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
9216348 CC
1 CC
9216350 TTAGGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:9216499 original size:28 final size:27
Alignment explanation
Indices: 9216458--9216547 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
9216448 AGGAAGCGTC
9216458 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
9216486 CTGGTGGCCCTGCCGCATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
9216513 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
9216542 CTGGTG
1 CTGGTG
9216548 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:9216516 original size:27 final size:28
Alignment explanation
Indices: 9216458--9216547 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
9216448 AGGAAGCGTC
*
9216458 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
9216486 CTGGTGGCCCTGCCGC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
9216513 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
9216542 CTGGTG
1 CTGGTG
9216548 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:9216558 original size:29 final size:28
Alignment explanation
Indices: 9216468--9216558 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
9216458 CTGGTGGCTA
* * *
9216468 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* * *
9216496 TGCCGC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
9216523 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
9216552 TGTCACA
1 TGCCACA
9216559 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:9216566 original size:55 final size:56
Alignment explanation
Indices: 9216458--9216572 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
9216448 AGGAAGCGTC
* * *
9216458 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCGCATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
9216513 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
9216569 CTGG
1 CTGG
9216573 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:9217035 original size:19 final size:19
Alignment explanation
Indices: 9217011--9217049 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9217001 TTTTAATTAT
* *
9217011 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
9217030 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
9217049 T
1 T
9217050 ATGATGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:9223547 original size:8 final size:8
Alignment explanation
Indices: 9223534--9223565 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
9223524 CTAGATCGGC
9223534 AAAAGCCG
1 AAAAGCCG
9223542 AAAAGCCG
1 AAAAGCCG
*
9223550 AAATGCCG
1 AAAAGCCG
9223558 AAAAGCCG
1 AAAAGCCG
9223566 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9223844 original size:28 final size:28
Alignment explanation
Indices: 9223812--9223876 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
9223802 ATTTACTAGA
*
9223812 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
9223840 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
9223868 ATACCCCTA
1 ATACCCCTA
9223877 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:9224040 original size:27 final size:27
Alignment explanation
Indices: 9223982--9224071 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
9223972 AGGAAGCGTC
9223982 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
9224010 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
9224037 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
9224066 CTGGTG
1 CTGGTG
9224072 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:9224090 original size:55 final size:56
Alignment explanation
Indices: 9223982--9224096 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
9223972 AGGAAGCGTC
* *
9223982 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
9224037 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
9224093 CTGG
1 CTGG
9224097 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:9224559 original size:19 final size:19
Alignment explanation
Indices: 9224535--9224573 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9224525 TTTTAATTAT
* *
9224535 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
9224554 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
9224573 T
1 T
9224574 ATGATGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:9224867 original size:101 final size:101
Alignment explanation
Indices: 9224689--9224890 Score: 377
Period size: 101 Copynumber: 2.0 Consensus size: 101
9224679 CCGGTAAACA
*
9224689 AACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACGGTTTTCTCAAAATTATAC
1 AACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACGGTTTTCTCAAAATTACAC
* *
9224754 GAGTCGTTAGGGTGTGGCAATGGTGGTGTGCATGTC
66 GAGTCGTCAGGGTGTGGCAATGGTGGTGTCCATGTC
9224790 AACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACGGTTTTCTCAAAATTACAC
1 AACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACGGTTTTCTCAAAATTACAC
9224855 GAGTCGTCAGGGTGTGGCAATGGTGGTGTCCATGTC
66 GAGTCGTCAGGGTGTGGCAATGGTGGTGTCCATGTC
9224891 TAGGATTGGA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (101 bp):
AACGTTTTCAAACTTAATCATTTTCTTAAGATAGACATAACCAAACGGTTTTCTCAAAATTACAC
GAGTCGTCAGGGTGTGGCAATGGTGGTGTCCATGTC
Found at i:9232277 original size:14 final size:14
Alignment explanation
Indices: 9232258--9232285 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9232248 TAACTCAGCT
9232258 AAATCACATAACCC
1 AAATCACATAACCC
9232272 AAATCACATAACCC
1 AAATCACATAACCC
9232286 CTAATGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATCACATAACCC
Found at i:9237315 original size:46 final size:46
Alignment explanation
Indices: 9237265--9237439 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
9237255 TGGTTGAGCA
9237265 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
9237311 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
9237357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9237403 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9237440 GCGGGTTACA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9246282 original size:20 final size:20
Alignment explanation
Indices: 9246240--9246282 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9246230 TATGGATGTA
*
9246240 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
9246260 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
9246280 TAT
1 TAT
9246283 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:9247060 original size:57 final size:55
Alignment explanation
Indices: 9246971--9247076 Score: 160
Period size: 57 Copynumber: 1.9 Consensus size: 55
9246961 CTGATATAAT
* *
9246971 ACCTCTCGAGCATATGTTATGATTAAGGTTTAGCCTGGACTGGTAATCCTAATTG
1 ACCTCTCGAGCATACGTTATGATGAAGGTTTAGCCTGGACTGGTAATCCTAATTG
9247026 ACCTCTTCTGAGCATACGTTAT-ATGAAGGATTTAGCCTGGACTGGTAATCC
1 ACCTC-TC-GAGCATACGTTATGATGAAGG-TTTAGCCTGGACTGGTAATCC
9247077 CATTGTACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
55 5 0.11
56 8 0.17
57 33 0.72
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (55 bp):
ACCTCTCGAGCATACGTTATGATGAAGGTTTAGCCTGGACTGGTAATCCTAATTG
Found at i:9256540 original size:16 final size:16
Alignment explanation
Indices: 9256499--9256540 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9256489 AGCTGAAATA
**
9256499 CCGAAAAGTAAAAACG
1 CCGAAAAGCCAAAACG
9256515 CCGAAAAGCCAAAACG
1 CCGAAAAGCCAAAACG
9256531 CCGAAAAGCC
1 CCGAAAAGCC
9256541 GAAAGTCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.29, G:0.19, T:0.02
Consensus pattern (16 bp):
CCGAAAAGCCAAAACG
Found at i:9256543 original size:8 final size:9
Alignment explanation
Indices: 9256509--9256544 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
9256499 CCGAAAAGTA
9256509 AAAACGCCG
1 AAAACGCCG
9256518 AAAA-GCC-
1 AAAACGCCG
9256525 AAAACGCCG
1 AAAACGCCG
9256534 AAAA-GCCG
1 AAAACGCCG
9256542 AAA
1 AAA
9256545 GTCTGGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.53, C:0.28, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAACGCCG
Found at i:9256797 original size:29 final size:28
Alignment explanation
Indices: 9256754--9256848 Score: 109
Period size: 29 Copynumber: 3.3 Consensus size: 28
9256744 GAATGCATGT
*
9256754 ATATGAATATTATTTGAGTCTAATGGGCC
1 ATATGAATATGATTTG-GTCTAATGGGCC
* *
9256783 GTATGAATGTGATTTGGTCCTAATGGGCC
1 ATATGAATATGATTTGGT-CTAATGGGCC
* *
9256812 ATACGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGATTT-GGTCTAATGGGCC
*
9256841 ATGTGAAT
1 ATATGAAT
9256849 GAGATTGGGC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.04
29 51 0.93
30 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (28 bp):
ATATGAATATGATTTGGTCTAATGGGCC
Found at i:9256865 original size:28 final size:29
Alignment explanation
Indices: 9256773--9256866 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
9256763 TTATTTGAGT
* * *
9256773 CTAATGGGCCGTATGAATGTGATTTGGTC
1 CTAATGGGCCATATGAATGAGATTTGGGC
*
9256802 CTAATGGGCCATACGAAT-ATGATTTGGGC
1 CTAATGGGCCATATGAATGA-GATTTGGGC
*
9256831 CTAATGGGCCATGTGAATGAGA-TTGGGC
1 CTAATGGGCCATATGAATGAGATTTGGGC
*
9256859 CTCATGGG
1 CTAATGGG
9256867 ATATATGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 13 0.23
29 42 0.75
30 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
CTAATGGGCCATATGAATGAGATTTGGGC
Found at i:9261370 original size:29 final size:29
Alignment explanation
Indices: 9261327--9261422 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
9261317 GAAAGCATGT
*
9261327 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
9261356 GTATGAATGTGATTTGGGCCAAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
9261385 ATATGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
9261413 ATATGCATGT
1 ATATGAATGT
9261423 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:9264583 original size:23 final size:22
Alignment explanation
Indices: 9264507--9264592 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 22
9264497 GATATATGAA
*
9264507 TCATAAGAGCTTTCTGTTCTCAGC
1 TCAT-AGAGCTTACTGTT-TCAGC
*
9264531 TCATATGAGCTTACTG-TTCATC
1 TCATA-GAGCTTACTGTTTCAGC
* *
9264553 TCGTTAGAGCTTACCGTTTCAGC
1 TC-ATAGAGCTTACTGTTTCAGC
9264576 TCAATAGAGCTTACTGT
1 TC-ATAGAGCTTACTGT
9264593 CCATCAGTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.29
23 23 0.45
24 13 0.25
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (22 bp):
TCATAGAGCTTACTGTTTCAGC
Found at i:9268143 original size:45 final size:45
Alignment explanation
Indices: 9268089--9268184 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
9268079 TTTTTTCCAA
* *
9268089 CTTTCAAGCTTGATAGTAAGTGCATTCTATCCCCGTTTTCAATGTT
1 CTTT-AAGCTTGAAAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
* * *
9268135 TTTTAAGCTTGAAAGTAAGTGCATTGTAGCCCCGTTTTTAATGTT
1 CTTTAAGCTTGAAAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
9268180 CTTTA
1 CTTTA
9268185 CATTTTTGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 41 0.93
46 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (45 bp):
CTTTAAGCTTGAAAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
Found at i:9268935 original size:42 final size:42
Alignment explanation
Indices: 9268886--9269005 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
9268876 TGAGATTAGG
* **
9268886 TGTAAGACCATATCTGGGATATGACATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGAGATCCCA
* *
9268928 TGTAAGACCATAGT-TGGGTTAATGGCATCGATATGAGATCCCA
1 TGTAAGACCATA-TCTGGGAT-ATGGCATTGATATGAGATCCCA
* * *
9268971 CGTAAGACCATATCTAGGATATGGCATTGGTATGA
1 TGTAAGACCATATCTGGGATATGGCATTGATATGA
9269006 TACTATGCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATTGATATGAGATCCCA
Found at i:9274302 original size:18 final size:17
Alignment explanation
Indices: 9274279--9274313 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9274269 ATTGGGTCGA
9274279 AATGGGCCATGTGGGCCC
1 AATGGG-CATGTGGGCCC
*
9274297 AATGGGCTTGTGGGCCC
1 AATGGGCATGTGGGCCC
9274314 CACACAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (17 bp):
AATGGGCATGTGGGCCC
Found at i:9274575 original size:27 final size:27
Alignment explanation
Indices: 9274540--9274603 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
9274530 AAACCCCTGC
* * *
9274540 AGGGAAAAATGATCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
9274567 AGGGTAAAATGACCGTAATATCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
9274594 ATGGTAAAAT
1 AGGGTAAAAT
9274604 AACGATTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTAT
Found at i:9274621 original size:27 final size:28
Alignment explanation
Indices: 9274545--9274622 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 28
9274535 CCTGCAGGGA
* *
9274545 AAAATGATCGT-A-ATGCCCCTATAGGGT
1 AAAATGAACGTAATATG-CCCTATATGGT
*
9274572 AAAATGACCGTAATAT-CCCTATATGGT
1 AAAATGAACGTAATATGCCCTATATGGT
*
9274599 AAAAT-AACG-ATTATGCCCTTATAT
1 AAAATGAACGTAATATGCCC-TATAT
9274623 TTCGTATGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 4 0.09
26 6 0.14
27 30 0.70
28 1 0.02
29 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (28 bp):
AAAATGAACGTAATATGCCCTATATGGT
Found at i:9274799 original size:27 final size:27
Alignment explanation
Indices: 9274739--9274842 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
9274729 GATATAGAGG
*
9274739 AATTACTG-TACTGGT-GACTATGTCAC
1 AATTACTGTTACTGGTAG-CTATGCCAC
*
9274765 -ATTCACTGTTACTGGTGGCTATGCCAC
1 AATT-ACTGTTACTGGTAGCTATGCCAC
* * *
9274792 AATTACTGATGCTGGTAGCTTTGCCAC
1 AATTACTGTTACTGGTAGCTATGCCAC
* * *
9274819 ATTTACTGTTTCTGGCAGCTATGC
1 AATTACTGTTACTGGTAGCTATGC
9274843 TGCATTATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.05
26 4 0.06
27 53 0.83
28 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (27 bp):
AATTACTGTTACTGGTAGCTATGCCAC
Found at i:9277710 original size:39 final size:36
Alignment explanation
Indices: 9277652--9277747 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 36
9277642 AAATGGTTTG
* * *
9277652 GGCCTAAGCCCGTTTCAATAACAGTCTAGTATCAGTGTA
1 GGCCTTAGCCCATTACAATAACA--C-AGTATCAGTGTA
*
9277691 GGCCTTAGCCCATTACAAT-A-ACAGTATCAGTGTG
1 GGCCTTAGCCCATTACAATAACACAGTATCAGTGTA
*
9277725 GGCCTTAGCCCATTACAGTAACA
1 GGCCTTAGCCCATTACAATAACA
9277748 ATAACAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 29 0.58
35 2 0.04
36 1 0.02
37 1 0.02
38 1 0.02
39 16 0.32
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (36 bp):
GGCCTTAGCCCATTACAATAACACAGTATCAGTGTA
Found at i:9277722 original size:34 final size:34
Alignment explanation
Indices: 9277679--9277747 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
9277669 ATAACAGTCT
9277679 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
* *
9277713 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
9277747 A
1 A
9277748 ATAACAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (34 bp):
AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
Found at i:9288189 original size:34 final size:34
Alignment explanation
Indices: 9288151--9288217 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
9288141 GTAACAGTCC
*
9288151 AGTATCAATGTGGGCCTTAGCCCATTACAGTAAT
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
**
9288185 AGTATCCGTGTGGGCCTTAGCACATTACAGTAA
1 AGTATCAATGTGGGCCTTAGCACATTACAGTAA
9288218 CAATAACAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (34 bp):
AGTATCAATGTGGGCCTTAGCACATTACAGTAAT
Found at i:9289905 original size:18 final size:18
Alignment explanation
Indices: 9289878--9289918 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9289868 ACACACACTA
9289878 CTAC-TCCATTCAAATCC
1 CTACTTCCATTCAAATCC
9289895 CTACTTCCATTCAAATCC
1 CTACTTCCATTCAAATCC
9289913 CTACTT
1 CTACTT
9289919 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.27, C:0.39, G:0.00, T:0.34
Consensus pattern (18 bp):
CTACTTCCATTCAAATCC
Found at i:9297440 original size:45 final size:45
Alignment explanation
Indices: 9297354--9297441 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
9297344 GAACTATGTT
* **
9297354 ATCTAAACTCATTAAGTTGTGGTCTGAGTTCATGGTATATGTGAC
1 ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTGAC
* * *
9297399 ATCTGAACTCATTGAGTTGTGGCCTGAGTTCATAATGTATGTG
1 ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTG
9297442 GCACATGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTAAACTCATTAAGTTGTGGCCTGAGTTCATAATATATGTGAC
Found at i:9299743 original size:27 final size:27
Alignment explanation
Indices: 9299712--9299880 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
9299702 TAAATTGTAC
9299712 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9299739 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9299765 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9299793 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9299821 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9299848 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
9299875 AGCACT
1 AGCACT
9299881 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9299826 original size:82 final size:81
Alignment explanation
Indices: 9299713--9299868 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9299703 AAATTGTACA
* *
9299713 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9299777 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9299794 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9299859 TGCGAGTTGA
65 TGCGAATTGA
9299869 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9309151 original size:39 final size:39
Alignment explanation
Indices: 9308987--9309169 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
9308977 TTGAATGCTG
* * * * * * *
9308987 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
9309027 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
9309067 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
9309107 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
9309146 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
9309170 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:9309189 original size:79 final size:80
Alignment explanation
Indices: 9309023--9309204 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
9309013 GCTAAGTGAA
* * * *
9309023 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
9309087 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
9309103 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
9309167 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
9309182 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
9309205 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:9312304 original size:42 final size:42
Alignment explanation
Indices: 9312245--9312356 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
9312235 GATGTTACAT
* *
9312245 TGAGA-TTATGTGTAAGACTATATCTGGGATATGGCATCTATA
1 TGAGACTTA-GTGTAAGACCATATCTGGGATATGGCATCGATA
9312287 TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
9312329 TGAGACTTCGTGTAAGACCATAGCTGGG
1 TGAGACTTAGTGTAAGACCATATCTGGG
9312357 CTATTGGTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
42 62 0.95
43 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
TGAGACTTAGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:9315405 original size:37 final size:37
Alignment explanation
Indices: 9315350--9315423 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
9315340 TGTATGTTAG
9315350 TTTACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCC
1 TTTACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCC
*
9315387 TTTACGTTTAAGCTTGGTAATGCCTCGAACCCTGTCC
1 TTTACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCC
9315424 CAGCGTCGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (37 bp):
TTTACGTTTAAGCCTGGTAATGCCTCGAACCCTGTCC
Found at i:9317715 original size:57 final size:57
Alignment explanation
Indices: 9317613--9317776 Score: 240
Period size: 57 Copynumber: 2.9 Consensus size: 57
9317603 CGATATAATA
* ** *
9317613 CCTCTCGAGCATACGTTATGAT-TAGGATTTAGATTGGACTAGTAATCCTAATCGAGCT
1 CCTCT-GAGCATACGTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
* *
9317671 CCTCTGAGCATACGTTATATAAAGGAGTTAGCCTGGATTGGTAATCCTAATCGAGCT
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
*
9317728 CCTCTGAGCATACATTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
1 CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTA
9317777 TTATACGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.02
57 89 0.93
58 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (57 bp):
CCTCTGAGCATACGTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATCGAGCT
Done.