Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 283 of 425
Found at i:87698838 original size:10 final size:9
Alignment explanation
Indices: 87698815--87698840 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
87698805 TTTGGTGTTA
87698815 GTTTTTGAT
1 GTTTTTGAT
87698824 GTTTTTGAT
1 GTTTTTGAT
87698833 GTTTTTGA
1 GTTTTTGA
87698841 GATCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:87704886 original size:43 final size:43
Alignment explanation
Indices: 87704787--87704908 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
87704777 ACCGAGATGC
* * * * * *
87704787 GATTACATGTAAGGCCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTATAAGACCATGTCTGGGACATTGGCATCGTAATCA
*
87704830 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACGTATAAGACCATGTCTGGGACATTGGCATCG-TAATCA
* * *
87704874 -ATTTCGTATAAGACCCTGTCTGGGACAGT-GCATCG
1 GATTACGTATAAGACCATGTCTGGGACATTGGCATCG
87704909 ATATGTGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 6 0.09
43 59 0.86
44 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACGTATAAGACCATGTCTGGGACATTGGCATCGTAATCA
Found at i:87705057 original size:33 final size:33
Alignment explanation
Indices: 87705020--87705086 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
87705010 ATAAGTCGAG
87705020 AAAGAATGTGTTAATGAGTTAAACGACTCAGGT
1 AAAGAATGTGTTAATGAGTTAAACGACTCAGGT
*
87705053 AAAGAATGTGTTAATGAGTTAAATGACTCAGGT
1 AAAGAATGTGTTAATGAGTTAAACGACTCAGGT
87705086 A
1 A
87705087 CGTACGAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.28
Consensus pattern (33 bp):
AAAGAATGTGTTAATGAGTTAAACGACTCAGGT
Found at i:87706791 original size:27 final size:27
Alignment explanation
Indices: 87706705--87706793 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
87706695 AAATTACTTG
* **
87706705 AATACCCTCGACTTGTAAAATTACC-A
1 AATACCCTCGATTTACAAAATTACCGA
* * * *
87706731 AAGTACCCCCGATTTACAGAATTATCGT
1 AA-TACCCTCGATTTACAAAATTACCGA
**
87706759 TTTACCCTCGATTTACAAAATTACCGA
1 AATACCCTCGATTTACAAAATTACCGA
87706786 AATACCCT
1 AATACCCT
87706794 TGTAGGGTAG
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.29
Consensus pattern (27 bp):
AATACCCTCGATTTACAAAATTACCGA
Found at i:87706810 original size:27 final size:26
Alignment explanation
Indices: 87706775--87706860 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
87706765 CTCGATTTAC
87706775 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAA-TACCGAAATACCCTTGTAGGGT
87706802 AGAAATACCGAAATACCCCTT-TAGGGT
1 A-AAATACCGAAATA-CCCTTGTAGGGT
** * *
87706829 AAAATTACTTAGATACCCTTGTGGGGT
1 AAAA-TACCGAAATACCCTTGTAGGGT
87706856 AAAAT
1 AAAAT
87706861 TACCATTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.18
27 34 0.67
28 8 0.16
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (26 bp):
AAAATACCGAAATACCCTTGTAGGGT
Found at i:87707529 original size:19 final size:19
Alignment explanation
Indices: 87707507--87707555 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
87707497 CTGATACTAG
*
87707507 TTCTAATTCTGTCACCTAA
1 TTCTGATTCTGTCACCTAA
*
87707526 TTCTGATTCTGTCACCTGA
1 TTCTGATTCTGTCACCTAA
87707545 TTCTGATTCTG
1 TTCTGATTCTG
87707556 ATTCTCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.45
Consensus pattern (19 bp):
TTCTGATTCTGTCACCTAA
Found at i:87707553 original size:25 final size:24
Alignment explanation
Indices: 87707475--87707560 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
87707465 TTGCATTCAC
*
87707475 ATTCTAATTCTGATTCTGTTACCTG
1 ATTCT-ATTCTGATTCTGTCACCTG
* *
87707500 ATACTAGTTCTAATTCTGTCACCT-
1 ATTCTA-TTCTGATTCTGTCACCTG
87707524 A----ATTCTGATTCTGTCACCTG
1 ATTCTATTCTGATTCTGTCACCTG
87707544 ATTCTGATTCTGATTCT
1 ATTCT-ATTCTGATTCT
87707561 CATTTTGGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
19 16 0.32
20 2 0.04
24 2 0.04
25 30 0.60
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (24 bp):
ATTCTATTCTGATTCTGTCACCTG
Found at i:87711343 original size:22 final size:22
Alignment explanation
Indices: 87711315--87711360 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
87711305 TTAGTAAGTT
87711315 ATATGAAAACAATAAGCAACTC
1 ATATGAAAACAATAAGCAACTC
87711337 ATATGAAAACAATAAGCAACTC
1 ATATGAAAACAATAAGCAACTC
87711359 AT
1 AT
87711361 TAATATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (22 bp):
ATATGAAAACAATAAGCAACTC
Found at i:87713633 original size:17 final size:18
Alignment explanation
Indices: 87713585--87713634 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
87713575 GGTGACCAAA
*
87713585 TTTCATCTAATTTTGACT
1 TTTCAACTAATTTTGACT
87713603 TTTCAACTAATTTTGACT
1 TTTCAACTAATTTTGACT
87713621 TTTCAAC-AATTTTG
1 TTTCAACTAATTTTG
87713635 TCTCCCATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 7 0.23
18 24 0.77
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (18 bp):
TTTCAACTAATTTTGACT
Found at i:87716185 original size:46 final size:45
Alignment explanation
Indices: 87715912--87716256 Score: 179
Period size: 46 Copynumber: 7.5 Consensus size: 45
87715902 GTCGATGCCG
* * *
87715912 TGTCCCAGACAGGTCTTACACT-GACACATATCAA-GCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGACTCATCTCAATGCCGATG-CA
* * * **
87715956 TGTCCCAGACATGGTCTTACACTAG-CT-TTCACGATGTGGTTGATGCA
1 TGTCCCAGACAT-GTCTTACACTAGACTCATCTC-A-AT-GCCGATGCA
* * ** * *
87716003 TGTCCCAGACATGTCTTACACTAGCACACATATCTGTGCCAACGCCA
1 TGTCCCAGACATGTCTTACACTAG-ACTCATCTCAATGCCGATG-CA
* * * * *
87716050 TGTCCCAAACATGGTCTTACACT-GACACATCTC-GTAGCTGATACA
1 TGTCCCAGACAT-GTCTTACACTAGACTCATCTCAAT-GCCGATGCA
* * * * * * *
87716095 TATCCTAGACATGTCTTACACTAG-CTTACGTCCCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGAC-T-CATCTCAATGCCGATGCA
*
87716141 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAG-ACTCATCTCAATGCCGATG-CA
* * * *
87716188 TGTTCCAGACATGGTCTTGCACT-GGCTC-TCAT-AATGTGGTCGATGCA
1 TGTCCCAGACAT-GTCTTACACTAGACTCATC-TCAA--T-GCCGATGCA
87716235 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
87716257 GGCGCACATA
Statistics
Matches: 233, Mismatches: 44, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
44 24 0.10
45 30 0.13
46 86 0.37
47 59 0.25
48 32 0.14
49 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTAGACTCATCTCAATGCCGATGCA
Found at i:87716188 original size:138 final size:139
Alignment explanation
Indices: 87715904--87716211 Score: 367
Period size: 138 Copynumber: 2.2 Consensus size: 139
87715894 CCATCTGTGT
* * *
87715904 CGATGCCGTGTCCCAGACA-GGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGATGACATATCCCAGACAT
* *
87715968 GGTCTTACACTAGCTTTCACGATGTGGTTGATGCATGTCCCAGACATGTCTTACACTAGCACACA
66 GGTCTTACACTAGCTTTCACGATGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCACACA
**
87716033 TATCTGTGC
131 TATCAATGC
* * * * * * *
87716042 CAACGCCATGTCCCAAACATGGTCTTACACTGACACATCTCGTAGCTGAT-ACATATCCTAGACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATC-AAGCCGATGACATATCCCAGACA
87716106 T-GTCTTACACTAGC-TT-ACG-TCCCGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCA
65 TGGTCTTACACTAGCTTTCACGAT---GAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCA
* * *
87716167 CTCGTCTCAATGC
127 CACATATCAATGC
* *
87716180 CGATGCCATGTTCCAGACATGGTCTTGCACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
87716212 GCTCTCATAA
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
135 1 0.01
136 3 0.02
137 2 0.01
138 99 0.69
139 32 0.22
140 6 0.04
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (139 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGATGACATATCCCAGACAT
GGTCTTACACTAGCTTTCACGATGAGGCTGATGCATGTCCCAGACATGTCTTACACTAGCACACA
TATCAATGC
Found at i:87727146 original size:40 final size:40
Alignment explanation
Indices: 87727038--87727287 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
87727028 CGGGATTTAA
* * * * *
87727038 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
87727078 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87727118 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87727158 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87727198 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87727238 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87727278 CCGGATATAT
1 CCGGATATAT
87727288 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:87733527 original size:40 final size:40
Alignment explanation
Indices: 87733468--87733599 Score: 250
Period size: 40 Copynumber: 3.4 Consensus size: 40
87733458 CCCGTTCGGA
87733468 TAGCCCGG--ATATCAACTCGCACGAATGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
87733506 TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
87733546 TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
87733586 TAGCCCGGATATAT
1 TAGCCCGGATATAT
87733600 TTCCAATGTT
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
38 8 0.09
40 84 0.91
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (40 bp):
TAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCT
Found at i:87741630 original size:40 final size:40
Alignment explanation
Indices: 87741522--87741733 Score: 291
Period size: 40 Copynumber: 5.2 Consensus size: 40
87741512 CGGGATTTAA
* * * * *
87741522 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
87741562 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87741602 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87741642 CCGGATATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGG--ATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87741684 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
87741724 CCGGATATAT
1 CCGGATATAT
87741734 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.73
42 40 0.26
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:87741696 original size:82 final size:82
Alignment explanation
Indices: 87741522--87741733 Score: 304
Period size: 82 Copynumber: 2.6 Consensus size: 82
87741512 CGGGATTTAA
* * * * * * * *
87741522 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGAT-T-TGGTGACTTGCACAAA
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATGATAACTCGCACAAA
87741585 GGCCTTCGGGTCTTAGC
66 GGCCTTCGGGTCTTAGC
*
87741602 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT-ATCAACTCGCACGA
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATGAT-AACTCGCACAA
*
87741666 ATGCCTTCGGGTCTTAGC
65 AGGCCTTCGGGTCTTAGC
87741684 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
87741734 TTCCAATGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
80 41 0.34
81 2 0.02
82 76 0.64
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (82 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATGATAACTCGCACAAA
GGCCTTCGGGTCTTAGC
Found at i:87748403 original size:38 final size:39
Alignment explanation
Indices: 87748289--87748470 Score: 194
Period size: 39 Copynumber: 4.6 Consensus size: 39
87748279 GCTACTCGTT
* *
87748289 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGTCCGGATT-TAGTAACTCGCA
**
87748329 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGTCCGGATTTAGTAACTCGCA
87748368 CAAATGCCTT-GGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTAACTCGCA
* * * *
87748406 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGTCCGGATTTAGTAAC-TCGCA
*
87748447 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGTCCGGA
87748471 CATCATTCGA
Statistics
Matches: 126, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
38 28 0.22
39 62 0.49
40 29 0.23
41 7 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGTCCGGATTTAGTAACTCGCA
Found at i:87756344 original size:40 final size:40
Alignment explanation
Indices: 87756307--87756492 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
87756297 GCTACTCGTT
*
87756307 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
87756347 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
87756387 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
87756427 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
87756468 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87756493 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:87756419 original size:80 final size:82
Alignment explanation
Indices: 87756274--87756492 Score: 242
Period size: 80 Copynumber: 2.7 Consensus size: 82
87756264 GAATCACGTA
** *
87756274 CCTTCGGAGT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGGA-TCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATT
87756334 ATAGTAACTCGCACAAATG
64 ATAGTAACTCGCACAAATG
* *
87756353 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTC-GGATCTTAGTCCGGATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGA-CTTAGCCCGGATT
*
87756415 -TAGTAACTCGCACGAATG
64 ATAGTAACTCGCACAAATG
** * *
87756433 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
87756493 CATCATTCGA
Statistics
Matches: 118, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
79 16 0.14
80 91 0.77
81 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (82 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
AGTAACTCGCACAAATG
Found at i:87761097 original size:31 final size:31
Alignment explanation
Indices: 87761059--87761207 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
87761049 ATAAATGACA
*
87761059 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
87761090 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87761121 AATGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
87761152 AGTGAAAAATGGTAGCTCCGGCTATCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87761183 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
87761208 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:87761299 original size:47 final size:47
Alignment explanation
Indices: 87761229--87761438 Score: 195
Period size: 47 Copynumber: 4.6 Consensus size: 47
87761219 GATTTCCGTA
* *
87761229 TAAGACCA-AATCTGGGATATGGCATCGGTGTGATATATGCTACTGTAG
1 TAAGACCATAA-CTGGGATATGGCATCGGTGTGATATGTGATACTGT-G
* * *
87761277 -AAGACCATAACTGGGATATGGCATCAGTGAGATATGTGATTC-GTG
1 TAAGACCATAACTGGGATATGGCATCGGTGTGATATGTGATACTGTG
* * *
87761322 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA-TGTG
1 TAAGACCATAACTGGGATATGGCATCG--GTGTGATATGTGA-TACTGTG
* * *
87761371 TAAGACCATAACTGGGCTATGGCATC-G-AT-ATATG-AATAC-GTG
1 TAAGACCATAACTGGGATATGGCATCGGTGTGATATGTGATACTGTG
* *
87761413 TAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATAACTGGGATATGGCATC
87761439 ATTATGTGAA
Statistics
Matches: 139, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
42 30 0.22
43 1 0.01
44 5 0.04
45 2 0.01
46 25 0.18
47 34 0.24
48 13 0.09
49 29 0.21
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (47 bp):
TAAGACCATAACTGGGATATGGCATCGGTGTGATATGTGATACTGTG
Found at i:87761386 original size:49 final size:47
Alignment explanation
Indices: 87761229--87761439 Score: 197
Period size: 42 Copynumber: 4.6 Consensus size: 47
87761219 GATTTCCGTA
* ** * *
87761229 TAAGACCA-AATCTGGGATATGGCATCGGTGTGATATATG-CTAC-TG
1 TAAGACCATAA-CTGGGCTATGGCATCAATGTGATATGTGATTACGTG
* * *
87761274 TAGAAGACCATAACTGGGATATGGCATCAGTGAGATATGTGATT-CGTG
1 T--AAGACCATAACTGGGCTATGGCATCAATGTGATATGTGATTACGTG
* *
87761322 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTATGTG
1 TAAGACCATAACTGGGCTATGGCATC-A-ATGTGATATGTGATTACGTG
* *
87761371 TAAGACCATAACTGGGCTATGGCATC-----GATATATGAATACGTG
1 TAAGACCATAACTGGGCTATGGCATCAATGTGATATGTGATTACGTG
*
87761413 TAAGACCATAGCTGGGCTATGGCATCA
1 TAAGACCATAACTGGGCTATGGCATCA
87761440 TTATGTGAAG
Statistics
Matches: 143, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
42 38 0.27
45 1 0.01
46 23 0.16
47 34 0.24
48 19 0.13
49 28 0.20
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (47 bp):
TAAGACCATAACTGGGCTATGGCATCAATGTGATATGTGATTACGTG
Found at i:87761445 original size:91 final size:93
Alignment explanation
Indices: 87761277--87761447 Score: 258
Period size: 91 Copynumber: 1.8 Consensus size: 93
87761267 GCTACTGTAG
* *
87761277 AAGACCATAACTGGGATATGGCATCAGTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTAT
1 AAGACCATAACTGGGATATGGCATCA--GAGATATGTAATACGTGTAAGACCATAGCTGGGCTAT
87761342 GGCATCGATATGTGATATGTGATTATGTGT
64 GGCATCGATATGTGATATGTGATTATGTGT
* *
87761372 AAGACCATAACTGGGCTATGGCATC-GATATATG-AATACGTGTAAGACCATAGCTGGGCTATGG
1 AAGACCATAACTGGGATATGGCATCAGAGATATGTAATACGTGTAAGACCATAGCTGGGCTATGG
87761435 CATC-ATTATGTGA
66 CATCGA-TATGTGA
87761448 AGATGTGTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
90 1 0.01
91 39 0.55
92 7 0.10
95 24 0.34
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (93 bp):
AAGACCATAACTGGGATATGGCATCAGAGATATGTAATACGTGTAAGACCATAGCTGGGCTATGG
CATCGATATGTGATATGTGATTATGTGT
Found at i:87761465 original size:42 final size:42
Alignment explanation
Indices: 87761355--87761465 Score: 161
Period size: 42 Copynumber: 2.6 Consensus size: 42
87761345 ATCGATATGT
* *
87761355 GATATGTGATTATGTGTAAGACCATAACTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
* *
87761397 GATATATGAATACGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
87761439 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
87761466 TTAAACTATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:87761475 original size:42 final size:42
Alignment explanation
Indices: 87761368--87761482 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
87761358 ATGTGATTAT
* *** *
87761368 GTGTAAGACCATAACTGGGCTATGGCATCGATATATGAATAC
1 GTGTAAGACCATAGCTAAACTATGGCATCGATATATGAAGAC
*** * *
87761410 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAAACTATGGCATCGA-TATATGAAGAC
*
87761452 GTGTAAGACCATAGTTAAACTATGGCATCGA
1 GTGTAAGACCATAGCTAAACTATGGCATCGA
87761483 GTAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATAGCTAAACTATGGCATCGATATATGAAGAC
Found at i:87763733 original size:48 final size:48
Alignment explanation
Indices: 87763662--87763758 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
87763652 AAATGAAAGG
*
87763662 AGGAATAGACCCTGTTTAAGAGTAGACTTAGTGTAATTGAGTAAAGTT
1 AGGAATAGACCCTGTGTAAGAGTAGACTTAGTGTAATTGAGTAAAGTT
*
87763710 AGGAATAGACCCTGTGTAAGAGTAGACTTAGTGTAATTGAGTAGAGTT
1 AGGAATAGACCCTGTGTAAGAGTAGACTTAGTGTAATTGAGTAAAGTT
87763758 A
1 A
87763759 CATGCAATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
AGGAATAGACCCTGTGTAAGAGTAGACTTAGTGTAATTGAGTAAAGTT
Found at i:87774347 original size:46 final size:44
Alignment explanation
Indices: 87774243--87774350 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
87774233 TGTCTTTGAC
** * * *
87774243 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
87774287 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
87774333 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
87774351 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:87776376 original size:28 final size:28
Alignment explanation
Indices: 87776330--87776443 Score: 156
Period size: 28 Copynumber: 4.1 Consensus size: 28
87776320 AATACCGTTG
* *
87776330 CATACTCAATGTCTTGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
87776358 CATAATCAATATCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
* * * *
87776386 CATTCTCAATGTTTCGCACACTAACTGC
1 CATACTCAATATCTCGCACACTAAGTGC
*
87776414 CATACTCGATATCTCGCACACTAAGTGC
1 CATACTCAATATCTCGCACACTAAGTGC
87776442 CA
1 CA
87776444 AATTTAGCTG
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
CATACTCAATATCTCGCACACTAAGTGC
Found at i:87776426 original size:56 final size:56
Alignment explanation
Indices: 87776334--87776443 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
87776324 CCGTTGCATA
*
87776334 CTCAATGTCTTGCACACTAAGTGCCATAATCAATATCTCGCACACTAAGTGCCATT
1 CTCAATGTCTTGCACACTAACTGCCATAATCAATATCTCGCACACTAAGTGCCATT
* *
87776390 CTCAATGT-TTCGCACACTAACTGCCATACTCGATATCTCGCACACTAAGTGCCA
1 CTCAATGTCTT-GCACACTAACTGCCATAATCAATATCTCGCACACTAAGTGCCA
87776444 AATTTAGCTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 2 0.04
56 48 0.96
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (56 bp):
CTCAATGTCTTGCACACTAACTGCCATAATCAATATCTCGCACACTAAGTGCCATT
Found at i:87777801 original size:31 final size:31
Alignment explanation
Indices: 87777761--87777834 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
87777751 CGGGTTAGGG
* * *
87777761 ACACAGGCGTGTATGACCACACGGCTTACCC
1 ACACGGGCGTGTATGACCACACGACCTACCC
* *
87777792 ACACGGGCGTGTATGTCCACACGACCTGCCC
1 ACACGGGCGTGTATGACCACACGACCTACCC
87777823 ACACGGGCGTGT
1 ACACGGGCGTGT
87777835 GACCCCTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (31 bp):
ACACGGGCGTGTATGACCACACGACCTACCC
Found at i:87778108 original size:5 final size:5
Alignment explanation
Indices: 87778094--87778130 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
87778084 TATCTTTTGA
*
87778094 ATTTT A-TTT ATTTT ATTTT ATGTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
87778131 ACTCTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:87778121 original size:15 final size:14
Alignment explanation
Indices: 87778094--87778130 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
87778084 TATCTTTTGA
87778094 ATTTTATTTATTTT
1 ATTTTATTTATTTT
87778108 ATTTTATGTTATTTT
1 ATTTTAT-TTATTTT
87778123 ATTTTATT
1 ATTTTATT
87778131 ACTCTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:87779149 original size:14 final size:14
Alignment explanation
Indices: 87779130--87779159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87779120 TTCACAATTA
*
87779130 TGTCTTTTTTATTT
1 TGTCTTTTATATTT
87779144 TGTCTTTTATATTT
1 TGTCTTTTATATTT
87779158 TG
1 TG
87779160 CATGCATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (14 bp):
TGTCTTTTATATTT
Found at i:87780605 original size:48 final size:48
Alignment explanation
Indices: 87780550--87780675 Score: 207
Period size: 48 Copynumber: 2.6 Consensus size: 48
87780540 GTGCGAATGA
* *
87780550 TACCTTGATTTGGCTACAGGCCGTGGTTTAGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTCAGAGAGGAGT
87780598 TACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTCAGAGAGGAGT
* * *
87780646 TAACTTGATTTGGCTACGGGCGATGGTATA
1 TACCTTGATTTGGCTACAGGCCATGGTATA
87780676 TGTACTAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (48 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTCAGAGAGGAGT
Found at i:87791965 original size:15 final size:15
Alignment explanation
Indices: 87791932--87791975 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
87791922 GAAGCCGAGA
87791932 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
87791947 ATAAATAAATCCATT
1 ATAAAGAAATCCAAG
*
87791962 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
87791976 TTTACAACAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:87811053 original size:40 final size:39
Alignment explanation
Indices: 87810970--87811152 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
87810960 TCGAATGATG
* * * *
87810970 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-AAGTTAATAAA
* * *
87811010 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCAAGTTAATAAA
* * *
87811050 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTAATAAA
* * * * *
87811089 CCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTCACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCAAGTTAATA-AA
**
87811130 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATT
87811153 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCAAGTTAATAAA
Found at i:87811110 original size:79 final size:82
Alignment explanation
Indices: 87810970--87811154 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
87810960 TCGAATGATG
* * *
87810970 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
87811034 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
87811050 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
87811112 TCGTGCTAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
87811130 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
87811155 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:87811185 original size:79 final size:79
Alignment explanation
Indices: 87810970--87811187 Score: 174
Period size: 79 Copynumber: 2.7 Consensus size: 79
87810960 TCGAATGATG
* * * * ** *
87810970 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
87811033 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
87811050 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
* *
87811115 TGCTAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
87811130 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
87811188 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
79 68 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:87813469 original size:45 final size:46
Alignment explanation
Indices: 87813372--87813480 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 46
87813362 AGCTTAAGAT
*
87813372 CGAATGGCCAATGTGATGAATGTCAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTCAAAG-GTGAATATGTGATAAGGC
**
87813419 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTCAAAGGTGAATATGTGATAAGGC
*
87813464 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
87813481 AAAGTGTGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 27 0.48
46 6 0.11
47 23 0.41
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTCAAAGGTGAATATGTGATAAGGC
Found at i:87816388 original size:25 final size:24
Alignment explanation
Indices: 87816339--87816389 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
87816329 TAAATTAAAT
*
87816339 ATTTATCTTAATAGTATTTTATTA
1 ATTTATCTTAATAGTATTATATTA
*
87816363 ATTTAATCTTAA-AGTGATTATCTTA
1 ATTT-ATCTTAATAGT-ATTATATTA
87816388 AT
1 AT
87816390 ATTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (24 bp):
ATTTATCTTAATAGTATTATATTA
Found at i:87821134 original size:6 final size:6
Alignment explanation
Indices: 87821125--87821197 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
87821115 AAACATTATG
* *
87821125 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
87821174 AGGTAA-C AGAATC AAAATT AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
87821198 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.06
6 43 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:87821161 original size:31 final size:31
Alignment explanation
Indices: 87821125--87821197 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
87821115 AAACATTATG
*
87821125 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
87821156 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
87821187 AAAATTAGAAT
1 AGAATCAGAAT
87821198 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:87821391 original size:27 final size:27
Alignment explanation
Indices: 87821317--87821393 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
87821307 TGCTGCCAAA
* * *
87821317 ACAGATATTGTGACAGAGTCACCAGAT
1 ACAGATATTGTGGCAAAGCCACCAGAT
*
87821344 ACAGATATTTGTGGCATAGCCACCAGA-
1 ACAGATA-TTGTGGCAAAGCCACCAGAT
*
87821371 ATCAGATAATGTGGCAAAGCCAC
1 A-CAGATATTGTGGCAAAGCCAC
87821394 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 21 0.49
28 22 0.51
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
ACAGATATTGTGGCAAAGCCACCAGAT
Found at i:87821599 original size:22 final size:22
Alignment explanation
Indices: 87821551--87821609 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
87821541 GTAAATACGT
*
87821551 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
87821573 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
87821595 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
87821610 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:87822043 original size:54 final size:53
Alignment explanation
Indices: 87821975--87822151 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 53
87821965 TACCCCACGA
* * *
87821975 GGTATCTCGGTAATTCTACTCTACAGGGGTATTTCAGTATTTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTC-GTATTTCTACCCTACAAG
* * * * *
87822029 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTC-GTATTTCTACCCTACAAG
* * *
87822083 GGTATTTCGGTATTTCTACCCTATAGGGGTATTTCGATATTTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCG-TATTTCTACCCTACAAG
87822137 GGTATTTCGATAATT
1 GGTATTTCGATAATT
87822152 TTTTAAATCG
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 102 0.99
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (53 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGTATTTCTACCCTACAAG
Found at i:87822073 original size:81 final size:81
Alignment explanation
Indices: 87821975--87822151 Score: 257
Period size: 81 Copynumber: 2.2 Consensus size: 81
87821965 TACCCCACGA
*
87821975 GGTATCTCGGTAATTCTA-CTCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAA
1 GGTATTTCGGTAATTCTACCT-TACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAA
*
87822039 TAATTCTACCCTACAGG
65 TAATTCTACCCTACAAG
* * * * *
87822056 GGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGGTATTTCTACCCTATAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAAT
*
87822121 ATTTCTACCCTACAAG
66 AATTCTACCCTACAAG
*
87822137 GGTATTTCGATAATT
1 GGTATTTCGGTAATT
87822152 TTTTAAATCG
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 84 0.98
82 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAAT
AATTCTACCCTACAAG
Found at i:87822145 original size:27 final size:27
Alignment explanation
Indices: 87821988--87822148 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
87821978 ATCTCGGTAA
*
87821988 TTCTACTCTACAGGGGTATTTC-AGTAT
1 TTCTACCCTACAGGGGTATTTCGA-TAT
* * *
87822015 TTCTACCCTACAAGGGTATTTCAATAA
1 TTCTACCCTACAGGGGTATTTCGATAT
* *
87822042 TTCTACCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGATAT
* * *
87822069 TTCTACCTTATAGGGGTATTTCGGTAT
1 TTCTACCCTACAGGGGTATTTCGATAT
*
87822096 TTCTACCCTATAGGGGTATTTCGATAT
1 TTCTACCCTACAGGGGTATTTCGATAT
*
87822123 TTCTACCCTACAAGGGTATTTCGATA
1 TTCTACCCTACAGGGGTATTTCGATA
87822149 ATTTTTTAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 119 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTCGATAT
Found at i:87822428 original size:27 final size:27
Alignment explanation
Indices: 87822190--87822423 Score: 288
Period size: 27 Copynumber: 8.7 Consensus size: 27
87822180 TGTAAATCAG
* ** *
87822190 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * * *
87822217 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
87822244 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
87822271 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
87822298 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
87822325 GGGTATTTTGGTAATTTCATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAA
87822352 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
87822379 GGGTATTTGGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
87822406 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
87822424 GTAAATCGAG
Statistics
Matches: 181, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:87822435 original size:27 final size:27
Alignment explanation
Indices: 87822133--87822437 Score: 265
Period size: 27 Copynumber: 11.3 Consensus size: 27
87822123 TTCTACCCTA
* * **
87822133 CAAGGGTATTTCGATAATTTTTTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** * **
87822160 CGAGGGTAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
87822187 CAGGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
87822214 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
87822241 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
87822267 CTAGGGGTATTTTGATAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
87822294 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
87822322 CAAGGGTATTTTGGTAATTTCATAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
87822348 CAAAGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* * *
87822376 CAAGGGTATTTGGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
87822403 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
87822430 CGAGGGTA
1 CAAGGGTA
87822438 AAACAGTAAT
Statistics
Matches: 231, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 227 0.98
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:87822437 original size:81 final size:80
Alignment explanation
Indices: 87822133--87822428 Score: 304
Period size: 81 Copynumber: 3.7 Consensus size: 80
87822123 TTCTACCCTA
* ** * * *** * * *
87822133 CAAGGGTATTTCGATAATTTTTTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAGGGGTACTT
1 CAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAA-CAGGGGTATTT
**
87822198 TGGTAATTTTACAAGT
65 TGGTAATTTTACAAAC
* * * * * *
87822214 CGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAAC-AGGGGTATTT
*
87822279 TGATAATTTTACAAAC
65 TGGTAATTTTACAAAC
* * * * *
87822295 TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTCATAAACAAAGGGTATTT
1 CAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAAC-AGGGGTATTT
87822360 TGGTAATTTTACAAAC
65 TGGTAATTTTACAAAC
* * * *
87822376 CAAGGGTATTTGGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAA
87822429 TCGAGGGTAA
Statistics
Matches: 176, Mismatches: 38, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
80 1 0.01
81 175 0.99
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (80 bp):
CAAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAGGGGTATTTT
GGTAATTTTACAAAC
Found at i:87822445 original size:27 final size:27
Alignment explanation
Indices: 87822416--87822888 Score: 649
Period size: 27 Copynumber: 17.5 Consensus size: 27
87822406 GGGTATTTTA
* *
87822416 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
87822443 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822470 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
87822497 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
87822524 GTAATTTTGTAAATCAAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822551 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87822578 ATAATTCTGTCAATCGAGGGTAGAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
87822605 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822632 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
87822659 GTAATTTTGTAAATCAAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87822686 GTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87822713 ATAATTCTGTCAATCGAGGGTAGAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822740 GTAACTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822767 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
87822794 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822821 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87822848 GTAATTTTGTAACTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87822875 GTAATTTTGTAAAT
1 GTAATTCTGTAAAT
87822889 TAAGGATATT
Statistics
Matches: 388, Mismatches: 58, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 388 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:87822934 original size:135 final size:135
Alignment explanation
Indices: 87822414--87822888 Score: 736
Period size: 135 Copynumber: 3.5 Consensus size: 135
87822404 AAGGGTATTT
* * * *
87822414 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTG
1 TAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAAAACGGTAATTCTG
87822479 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
66 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
87822544 TAAAA
131 TAAAA
* *
87822549 TGGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAGAACGGTAATTCTG
1 TAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAAAACGGTAATTCTG
*
87822614 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
66 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
87822679 TAAAA
131 TAAAA
* * * * *
87822684 TGGTAATTCTATAAATTGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAGAACGGTAACTCTG
1 TAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAAAACGGTAATTCTG
* * * * * *
87822749 TAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
66 TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
87822814 TAAAA
131 TAAAA
* * * *
87822819 TAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGT-AACTCGAGGGTAAAATGGTAATTTT
1 TAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAA-TCGAGGGTAAAACGGTAATTCT
87822883 GTAAAT
65 GTAAAT
87822889 TAAGGATATT
Statistics
Matches: 315, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
134 2 0.01
135 313 0.99
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (135 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAAAACGGTAATTCTG
TAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAAGG
TAAAA
Found at i:87825523 original size:26 final size:26
Alignment explanation
Indices: 87825494--87825546 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
87825484 AGTAAACATG
87825494 TAATTGTTTTCTATTTATTTGAACGA
1 TAATTGTTTTCTATTTATTTGAACGA
87825520 TAATTGTTTTCTATTTATTTGAACGA
1 TAATTGTTTTCTATTTATTTGAACGA
87825546 T
1 T
87825547 GAATAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (26 bp):
TAATTGTTTTCTATTTATTTGAACGA
Found at i:87835039 original size:16 final size:16
Alignment explanation
Indices: 87835018--87835050 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
87835008 ACCATAGAGG
*
87835018 AAGAAGTCTTCGGGTT
1 AAGAAGACTTCGGGTT
87835034 AAGAAGACTTCGGGTT
1 AAGAAGACTTCGGGTT
87835050 A
1 A
87835051 TGTCGCTTGG
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:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (16 bp):
AAGAAGACTTCGGGTT
Found at i:87841221 original size:27 final size:26
Alignment explanation
Indices: 87841132--87841232 Score: 103
Period size: 29 Copynumber: 3.6 Consensus size: 26
87841122 GTGACAAGAT
*
87841132 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCGAGCTT--AAA-TA
**
87841161 TGGCACTAAGTGTGCGAATTTAAATTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TA
*
87841188 TACGGCACTATGTGTGCGAGCTTAAATCA
1 T--GGCACTAAGTGTGCGAGCTTAAAT-A
87841217 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87841233 TGATCGATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
27 20 0.33
28 1 0.02
29 40 0.66
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (26 bp):
TGGCACTAAGTGTGCGAGCTTAAATA
Found at i:87849117 original size:29 final size:29
Alignment explanation
Indices: 87849085--87849157 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
87849075 TGAAAAGTAT
* * *
87849085 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
87849114 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
87849143 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
87849158 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:87851194 original size:27 final size:27
Alignment explanation
Indices: 87851181--87851536 Score: 448
Period size: 27 Copynumber: 13.2 Consensus size: 27
87851171 ATTACTAAAA
87851181 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
87851208 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
87851235 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
87851262 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
87851289 TACCCTTGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * * *
87851316 TACCTTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
87851343 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
87851370 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
**
87851397 TACCCTTAATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
87851424 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* ** * *
87851451 TACTCTTAATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
87851478 TACCCTCAATTTACAGAATTA-TAGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* **
87851505 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
87851532 TACCC
1 TACCC
87851537 CTAGGGTGTT
Statistics
Matches: 291, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 286 0.98
28 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:87851872 original size:2 final size:2
Alignment explanation
Indices: 87851867--87851892 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87851857 ACACACACAC
87851867 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
87851893 CTGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87852102 original size:31 final size:31
Alignment explanation
Indices: 87852067--87852146 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
87852057 TTGCATTCGC
* * *
87852067 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
* * *
87852098 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
87852129 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
87852147 ATTCTGATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:87852132 original size:6 final size:6
Alignment explanation
Indices: 87852067--87852209 Score: 89
Period size: 6 Copynumber: 23.3 Consensus size: 6
87852057 TTGCATTCGC
* * * *
87852067 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
87852116 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
87852165 -TCACCTG TTTCTG ATTCTG ATTCTC A-TCTTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTC-TG ATTCTG A-TTCTG AT
87852210 AATGTTTCTT
Statistics
Matches: 105, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
5 7 0.07
6 84 0.80
7 11 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:87852151 original size:49 final size:49
Alignment explanation
Indices: 87852089--87852188 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
87852079 ATTCTGTTAC
87852089 CTGATACTAATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATT
1 CTGATACTAATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATT
* * * * **
87852138 CTGATTCTGATTCTGATTTTGATTCTGTCACCTGTTTCTGATTCTGATT
1 CTGATACTAATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATT
87852187 CT
1 CT
87852189 CATCTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (49 bp):
CTGATACTAATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATT
Found at i:87852198 original size:49 final size:49
Alignment explanation
Indices: 87852098--87852200 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
87852088 CCTGATACTA
*
87852098 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTCATTCTG
* * **
87852147 ATTCTGATTTTGATTCTGTCACCTGTTTCTGATTCTGATTCTCA-TCTTG
1 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTCATTC-TG
87852196 ATTCT
1 ATTCT
87852201 AGTTCTGATA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 2 0.04
49 46 0.96
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (49 bp):
ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTGATTCTCATTCTG
Found at i:87854978 original size:21 final size:21
Alignment explanation
Indices: 87854954--87854996 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
87854944 CAGAAGGGAA
87854954 AGTGGAAACACACAAAGCTAG
1 AGTGGAAACACACAAAGCTAG
87854975 AGTGGAAACACACAAAGCTAG
1 AGTGGAAACACACAAAGCTAG
87854996 A
1 A
87854997 CTTGTAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (21 bp):
AGTGGAAACACACAAAGCTAG
Found at i:87855856 original size:23 final size:23
Alignment explanation
Indices: 87855830--87855881 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
87855820 ACATAGTGCT
87855830 CACTTACCCATATGCCAATGCCA
1 CACTTACCCATATGCCAATGCCA
87855853 CACTTACCCATATGCCAATGCCA
1 CACTTACCCATATGCCAATGCCA
87855876 CACTTA
1 CACTTA
87855882 ACATTAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (23 bp):
CACTTACCCATATGCCAATGCCA
Found at i:87856772 original size:21 final size:21
Alignment explanation
Indices: 87856746--87856786 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87856736 CTACCATAGT
87856746 CGAATGCTATCACAACCATAA
1 CGAATGCTATCACAACCATAA
87856767 CGAATGCTATCACAACCATA
1 CGAATGCTATCACAACCATA
87856787 TTCACCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (21 bp):
CGAATGCTATCACAACCATAA
Found at i:87860652 original size:30 final size:30
Alignment explanation
Indices: 87860618--87860678 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87860608 TCCTTAACTC
87860618 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
87860648 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
87860678 A
1 A
87860679 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:87865533 original size:25 final size:27
Alignment explanation
Indices: 87865504--87865567 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 27
87865494 TTTTACTGTA
87865504 TTTATTATTACG-GATATTT-T-AAATT
1 TTTATTATTA-GAGATATTTATAAAATT
* *
87865529 TTTATGATTAGATATATTTATAAAATT
1 TTTATTATTAGAGATATTTATAAAATT
*
87865556 ATTATTATTAGA
1 TTTATTATTAGA
87865568 TAGGAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.47
26 1 0.03
27 15 0.47
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (27 bp):
TTTATTATTAGAGATATTTATAAAATT
Found at i:87865565 original size:27 final size:25
Alignment explanation
Indices: 87865517--87865569 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
87865507 ATTATTACGG
*
87865517 ATATTTTAAATTTTTATGATTAGAT
1 ATATTTTAAATTATTATGATTAGAT
*
87865542 ATATTTATAAAATTATTATTATTAGAT
1 ATATTT-T-AAATTATTATGATTAGAT
87865569 A
1 A
87865570 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 1 0.04
27 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (25 bp):
ATATTTTAAATTATTATGATTAGAT
Found at i:87866520 original size:3 final size:3
Alignment explanation
Indices: 87866514--87866624 Score: 51
Period size: 3 Copynumber: 38.7 Consensus size: 3
87866504 AGTTTTTTTT
* * * * * *
87866514 TTC TTC TTC TATT TTC TT- TTT TTC TCC TCTC TTC ATC TAC TTC CT-
1 TTC TTC TTC T-TC TTC TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC
87866559 TTC TTC TTC TTC TT- TCTC TTC TT- TTC TT- TTC -TC TTC TT- TTC
1 TTC TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
87866600 -TC TTC ATC TAC TT- TCTC TTC TTC TT
1 TTC TTC TTC TTC TTC T-TC TTC TTC TT
87866625 TTCCCCCATA
Statistics
Matches: 80, Mismatches: 15, Indels: 26
0.66 0.12 0.21
Matches are distributed among these distances:
2 15 0.19
3 59 0.74
4 6 0.08
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:87866580 original size:15 final size:15
Alignment explanation
Indices: 87866560--87866624 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
87866550 CTACTTCCTT
87866560 TCTTCTTCTTCTTTC
1 TCTTCTTCTTCTTTC
87866575 TCTTCTT-TTCTTT-
1 TCTTCTTCTTCTTTC
87866588 TC-TCTTC-T-TTTC
1 TCTTCTTCTTCTTTC
* *
87866600 TCTTCATCTACTTTC
1 TCTTCTTCTTCTTTC
87866615 TCTTCTTCTT
1 TCTTCTTCTT
87866625 TTCCCCCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 3 0.07
12 7 0.17
13 6 0.15
14 6 0.15
15 19 0.46
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (15 bp):
TCTTCTTCTTCTTTC
Found at i:87866584 original size:10 final size:10
Alignment explanation
Indices: 87866512--87866604 Score: 57
Period size: 10 Copynumber: 9.0 Consensus size: 10
87866502 TCAGTTTTTT
87866512 TTTTCTTCTTC
1 TTTTC-TCTTC
*
87866523 TATTT-TCTTT
1 T-TTTCTCTTC
*
87866533 TTTTCTCCTC
1 TTTTCTCTTC
* *
87866543 TCTTCATCTAC
1 TTTTC-TCTTC
87866554 TTCCTT-TCTTC
1 TT--TTCTCTTC
87866565 TTCTTCT-TTC
1 TT-TTCTCTTC
* *
87866575 TCTTCTTTTC
1 TTTTCTCTTC
87866585 TTTTCTCTTC
1 TTTTCTCTTC
87866595 TTTTCTCTTC
1 TTTTCTCTTC
87866605 ATCTACTTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
9 7 0.11
10 40 0.62
11 12 0.19
12 3 0.05
13 2 0.03
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTCTCTTC
Found at i:87866585 original size:20 final size:20
Alignment explanation
Indices: 87866512--87866621 Score: 69
Period size: 20 Copynumber: 5.1 Consensus size: 20
87866502 TCAGTTTTTT
* *
87866512 TTTTCTTCTTCTATTTTCTTT
1 TTTTCTTCTTCT-TTCTCTTC
*
87866533 TTTTCTCCTCTCTTCATCTACTTCC
1 TTTTCTTCT-TCTT--TCT-CTT-C
87866558 TTTCTTCTTCTTCTTTCTCTTC
1 -TT-TTCTTCTTCTTTCTCTTC
*
87866580 TTTTCTT-TTCTCTTCTTTTC
1 TTTTCTTCTTCT-TTCTCTTC
* * *
87866600 TCTTCATCTACTTTCTCTTC
1 TTTTCTTCTTCTTTCTCTTC
87866620 TT
1 TT
87866622 CTTTTCCCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
19 4 0.06
20 25 0.36
21 14 0.20
22 4 0.06
23 5 0.07
24 6 0.09
26 6 0.09
27 6 0.09
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTCTTCTTCTTTCTCTTC
Found at i:87870278 original size:25 final size:27
Alignment explanation
Indices: 87870249--87870310 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
87870239 TTTTACTGTA
87870249 TTTATTATTACG-GATATTT-T-AAATT
1 TTTATTATTA-GAGATATTTATAAAATT
* *
87870274 TTTATAATTAGATATATTTATAAAATT
1 TTTATTATTAGAGATATTTATAAAATT
*
87870301 ATTATTATTA
1 TTTATTATTA
87870311 TAATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 15 0.50
26 1 0.03
27 13 0.43
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTATTATTAGAGATATTTATAAAATT
Found at i:87870306 original size:3 final size:3
Alignment explanation
Indices: 87870298--87870328 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
87870288 TATTTATAAA
*
87870298 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
87870329 GATAGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:87870315 original size:15 final size:15
Alignment explanation
Indices: 87870297--87870326 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87870287 ATATTTATAA
87870297 AATTATTATTATTAT
1 AATTATTATTATTAT
87870312 AATTATTATTATTAT
1 AATTATTATTATTAT
87870327 TAGATAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:87871036 original size:14 final size:14
Alignment explanation
Indices: 87871014--87871056 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
87871004 GCTTCATCTA
*
87871014 CTTCCTTTCTTCTT
1 CTTCTTTTCTTCTT
87871028 CTTCTTTTCCTTCTT
1 CTTCTTTT-CTTCTT
87871043 -TTCTTTTCTT-TT
1 CTTCTTTTCTTCTT
87871055 CT
1 CT
87871057 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 4 0.15
14 14 0.54
15 6 0.23
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
CTTCTTTTCTTCTT
Found at i:87871039 original size:19 final size:19
Alignment explanation
Indices: 87871015--87871074 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
87871005 CTTCATCTAC
87871015 TTCCTT-TCTTCTTCTTCTT
1 TTCCTTCTCTTCTT-TTCTT
*
87871034 TTCCTTCTTTTCTTTTCTT
1 TTCCTTCTCTTCTTTTCTT
*
87871053 TTCTCTTCATCTACTTTCTCTT
1 TTC-CTTC-TCTTCTTT-TCTT
87871075 CTTCTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.41
20 10 0.29
21 6 0.18
22 4 0.12
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCCTTCTCTTCTTTTCTT
Found at i:87873580 original size:29 final size:29
Alignment explanation
Indices: 87873518--87873620 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
87873508 GTGACGAGAT
* * *
87873518 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
87873547 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
87873576 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
87873605 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87873621 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:87881598 original size:29 final size:29
Alignment explanation
Indices: 87881536--87881638 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
87881526 GTGACGAGAT
* * *
87881536 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
87881565 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
87881594 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
87881623 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87881639 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:87884634 original size:43 final size:43
Alignment explanation
Indices: 87884573--87884693 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
87884563 ATCATTTCAC
* *
87884573 CGGCATTACGCCTGCTAGGCACGAAGGCC-GAAATACACATCAT
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCTG-AATACACATCAT
*
87884616 CGGCATGAAGCCTGCTAGGCACAAAGGCCTGAATACACATCAT
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCTGAATACACATCAT
* *
87884659 CGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 CGGCATGAAGCCTGCTAGGCACGAAGGCCTGAATA
87884694 TAATAGCAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 70 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.26, T:0.14
Consensus pattern (43 bp):
CGGCATGAAGCCTGCTAGGCACGAAGGCCTGAATACACATCAT
Found at i:87892935 original size:29 final size:29
Alignment explanation
Indices: 87892829--87892990 Score: 150
Period size: 29 Copynumber: 5.6 Consensus size: 29
87892819 GTGACGAGAT
*
87892829 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
87892858 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
87892887 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* ** ***
87892916 CGGCACTGGGTGTGCGAGCTCGG-AGGGTA
1 TGGCACTAAGTGTGCGAGCT-GGAAATATA
** *
87892945 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
87892972 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
87892991 AATCGAGTAG
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.02
28 1 0.01
29 105 0.95
30 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:87898869 original size:27 final size:27
Alignment explanation
Indices: 87898418--87898881 Score: 608
Period size: 27 Copynumber: 17.2 Consensus size: 27
87898408 AGAGTACTCC
87898418 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
87898445 CGATTTACAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
87898472 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
87898499 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
87898526 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
87898553 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
87898580 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
87898607 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
87898634 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
87898661 CAATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
87898688 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
87898715 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
87898742 CGATTTACAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
87898769 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
87898796 TGATTTACATAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
87898823 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
87898850 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
87898877 TGATT
1 CGATT
87898882 GTGAAATTAC
Statistics
Matches: 379, Mismatches: 54, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 375 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:87898916 original size:27 final size:27
Alignment explanation
Indices: 87898886--87899080 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
87898876 TTGATTGTGA
87898886 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
87898913 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * **
87898940 AATTACTGAAATACCCTTATAGGAAAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
87898967 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
87898994 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* ** *
87899021 AAATACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
87899048 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
87899075 AATTAC
1 AATTAC
87899081 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 138 0.99
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:87898954 original size:54 final size:54
Alignment explanation
Indices: 87898886--87899082 Score: 261
Period size: 54 Copynumber: 3.6 Consensus size: 54
87898876 TTGATTGTGA
* * *
87898886 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* ** * *
87898940 AATTACTGAAATACCCTTATAGGAAAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
*
87898994 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* * * *
87899048 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
87899083 TTTTGCCCCT
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.99
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
Found at i:87899062 original size:81 final size:82
Alignment explanation
Indices: 87898886--87899079 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 82
87898876 TTGATTGTGA
* **
87898886 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAA
*
87898950 ATACCCTTATAGGAAAG
66 ATACCCCTATAGGAAAG
* * *
87898967 AATTACTAAAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAA
**
87899031 ATACCCCTATAGGGTAG
66 ATACCCCTATAGGAAAG
* * * * *
87899048 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTA
87899080 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (82 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAA
ATACCCCTATAGGAAAG
Found at i:87899318 original size:27 final size:26
Alignment explanation
Indices: 87899280--87899362 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
87899270 CGGAGGAAGC
*
87899280 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
87899307 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
87899333 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
87899360 GTT
1 GTT
87899363 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:87899695 original size:27 final size:27
Alignment explanation
Indices: 87899673--87899746 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
87899663 TAGGTGGGTT
*
87899673 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
87899700 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
87899727 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
87899747 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:87899873 original size:6 final size:6
Alignment explanation
Indices: 87899864--87900135 Score: 215
Period size: 6 Copynumber: 44.8 Consensus size: 6
87899854 TTGTATTCAC
* *
87899864 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
87899913 -TTACTA ATACTG ATTCTG ATTTTG ATTCTG -TTACTG ATTCTA ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
87899961 ATTCTG -TCACCTA ATTCTG ATTCTG ATTTTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
* * *
87900010 ATCCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
87900059 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
87900107 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
87900136 CATTTTGGTT
Statistics
Matches: 213, Mismatches: 28, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
5 16 0.08
6 177 0.83
7 15 0.07
8 5 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:87900004 original size:85 final size:85
Alignment explanation
Indices: 87899864--87900135 Score: 490
Period size: 85 Copynumber: 3.2 Consensus size: 85
87899854 TTGTATTCAC
* *
87899864 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
*
87899929 TGATTTTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
87899949 ATTCTAATTCTGATTCTGTCACCTAATTCTGATTCTGATTTTGATTCTGTTACTAATATTGATCC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
87900014 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
87900034 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
87900099 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
87900119 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
87900136 CATTTTGGTT
Statistics
Matches: 178, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
TGATTCTGATTCTGTTACTG
Found at i:87900153 original size:30 final size:30
Alignment explanation
Indices: 87899864--87900156 Score: 283
Period size: 30 Copynumber: 10.1 Consensus size: 30
87899854 TTGTATTCAC
* *
87899864 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* *
87899895 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
87899925 ATTCTGATTTTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
87899949 ATTCTAATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
* *
87899980 ATTCTGATTTTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
*
87900010 ATCCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
87900034 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
87900065 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
87900095 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
87900125 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
87900155 AT
1 AT
87900157 AATGTTTCTT
Statistics
Matches: 222, Mismatches: 21, Indels: 39
0.79 0.07 0.14
Matches are distributed among these distances:
24 40 0.18
26 2 0.01
29 3 0.01
30 105 0.47
31 72 0.32
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:87903599 original size:22 final size:20
Alignment explanation
Indices: 87903573--87903631 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
87903563 AGTTTATACA
*
87903573 TAATTTATATATTACAAATTT
1 TAATTTATATATTA-AAATAT
*
87903594 TCAATTTAAAATATTAAAATAT
1 T-AATTT-ATATATTAAAATAT
87903616 TAATTT-TATAGTTAAA
1 TAATTTATATA-TTAAA
87903632 TTACAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 6 0.19
22 11 0.34
23 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTTATATATTAAAATAT
Found at i:87905685 original size:32 final size:32
Alignment explanation
Indices: 87905619--87905686 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
87905609 TTTTTGTTAA
* *
87905619 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
87905651 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
87905683 TGTT
1 TGTT
87905687 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:87905712 original size:27 final size:27
Alignment explanation
Indices: 87905682--87905754 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
87905672 TGTCTTGATT
87905682 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
87905709 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
87905741 TTGTTGGATATTGA
1 TTGTTAGATATTGA
87905755 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:87905734 original size:32 final size:32
Alignment explanation
Indices: 87905695--87905755 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
87905685 TTAGATATTG
87905695 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
87905727 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
87905756 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:87907500 original size:30 final size:30
Alignment explanation
Indices: 87907464--87907623 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
87907454 GACAAGATTG
* * * * *
87907464 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
87907494 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
87907522 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
87907551 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
87907581 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
87907610 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
87907624 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:87907592 original size:59 final size:57
Alignment explanation
Indices: 87907464--87907623 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
87907454 GACAAGATTG
* * * * * *
87907464 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
87907522 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
87907581 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
87907624 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:87910138 original size:40 final size:40
Alignment explanation
Indices: 87910093--87910259 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87910083 CGGAATATAA
87910093 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87910133 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87910173 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87910213 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87910252 CCGGATAT
1 CCGGATAT
87910260 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87918110 original size:40 final size:40
Alignment explanation
Indices: 87918065--87918232 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87918055 CGGAATATAA
87918065 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87918105 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87918145 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
87918185 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87918225 CCGGATAT
1 CCGGATAT
87918233 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87922019 original size:40 final size:40
Alignment explanation
Indices: 87921974--87922140 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87921964 CGGAATATAA
87921974 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87922014 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87922054 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87922094 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87922133 CCGGATAT
1 CCGGATAT
87922141 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87930014 original size:40 final size:40
Alignment explanation
Indices: 87929969--87930136 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
87929959 CGGAATATAA
87929969 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87930009 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87930049 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
87930089 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87930129 CCGGATAT
1 CCGGATAT
87930137 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87933053 original size:22 final size:22
Alignment explanation
Indices: 87932985--87933073 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
87932975 GATACTTTTA
87932985 ATGTGGTGTAATATTAGTTATGC
1 ATGTGGTGTAATATTAGTTAT-C
** *
87933008 ACT-TGG-ACAATATTGTTGTTATC
1 A-TGTGGTGTAATA-T-TAGTTATC
87933031 ATGTGGTGTAATATTAGTTATC
1 ATGTGGTGTAATATTAGTTATC
*
87933053 ATATGGTGTAATATTAGTTAT
1 ATGTGGTGTAATATTAGTTAT
87933074 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 32 0.59
23 11 0.20
24 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
ATGTGGTGTAATATTAGTTATC
Found at i:87933133 original size:68 final size:68
Alignment explanation
Indices: 87932988--87933136 Score: 210
Period size: 68 Copynumber: 2.2 Consensus size: 68
87932978 ACTTTTAATG
* * *
87932988 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
87933053 ATA
66 ATA
* * *
87933056 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
* *
87933121 TATT
65 CATA
87933125 TGG-ATAATATTA
1 TGGTATAATATTA
87933137 TTAATTTCTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 68 0.93
69 5 0.07
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:87933552 original size:14 final size:14
Alignment explanation
Indices: 87933533--87933599 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
87933523 CCAGAAAAGT
87933533 AAATCATTTTCCAG
1 AAATCATTTTCCAG
87933547 AAATCATTTTCCAAG
1 AAATCATTTTCC-AG
* *
87933562 AAATTATTTTTCAG
1 AAATCATTTTCCAG
*
87933576 AAATCATTTTCTAG
1 AAATCATTTTCCAG
*
87933590 AAAACATTTT
1 AAATCATTTT
87933600 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:87935747 original size:43 final size:41
Alignment explanation
Indices: 87935700--87935851 Score: 117
Period size: 43 Copynumber: 3.6 Consensus size: 41
87935690 GTTTTCATGC
* *
87935700 AAGACCACGTCTGGGACTTTGGCATCAATATGTGGTTACGTGT
1 AAGACCACGTCTGGGACATTGGCATC-ATATGTGATT-CGTGT
* * * * *
87935743 AAGACCATGTTTGGGACATCGGCATCGTATTTGATTCGTGT
1 AAGACCACGTCTGGGACATTGGCATCATATGTGATTCGTGT
* * * * *
87935784 AAGACC-CTGTCTGGGACAGTGGCATCGGTATGAGATAGCATGT
1 AAGACCAC-GTCTGGGACATTGGCATC-ATATGTGAT-TCGTGT
* **
87935827 AAGACCACGTTTGGGATGTTGGCAT
1 AAGACCACGTCTGGGACATTGGCAT
87935852 TGTGTGATAA
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 26 0.30
42 14 0.16
43 45 0.52
44 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (41 bp):
AAGACCACGTCTGGGACATTGGCATCATATGTGATTCGTGT
Found at i:87936520 original size:2 final size:2
Alignment explanation
Indices: 87936513--87936551 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87936503 TACTATTGCG
87936513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87936552 GTAAATCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87936969 original size:22 final size:21
Alignment explanation
Indices: 87936923--87936970 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
87936913 TTGATGTATA
* *
87936923 TATATATTGGTTTATTAAATG
1 TATATATTGGCTTATTAAAAG
*
87936944 -ATATTTTGGCTTATTATAAAG
1 TATATATTGGCTTATTA-AAAG
87936965 TATATA
1 TATATA
87936971 AAATTTGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 14 0.67
21 3 0.14
22 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (21 bp):
TATATATTGGCTTATTAAAAG
Found at i:87939000 original size:45 final size:45
Alignment explanation
Indices: 87938905--87939266 Score: 527
Period size: 45 Copynumber: 8.1 Consensus size: 45
87938895 TTTTCTCAAA
* * *
87938905 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-AT-ATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* * *
87938947 TCACCGGCATTATATCCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAATATC
87938992 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
87939037 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
87939082 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATTATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
87939127 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * * *
87939172 TCACCGGCATTATAGCCTACTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
87939217 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
87939262 TCACC
1 TCACC
87939267 AGTTCTTTCC
Statistics
Matches: 295, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
42 11 0.04
43 12 0.04
44 8 0.03
45 263 0.89
46 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:87941584 original size:47 final size:47
Alignment explanation
Indices: 87941488--87941876 Score: 611
Period size: 47 Copynumber: 8.3 Consensus size: 47
87941478 ATGATATACA
87941488 TATATGTGTGATAAGGCCGAATGGCCAATG-GATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87941534 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
87941581 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87941628 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
87941675 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
87941722 TATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87941768 TATATGTGTGATAAGGCCGAACGGCCAACGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87941815 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
87941862 CATATGTGTGATAAG
1 TATATGTGTGATAAG
87941877 TCCCGAAGGG
Statistics
Matches: 310, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
46 70 0.23
47 240 0.77
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:87941648 original size:94 final size:94
Alignment explanation
Indices: 87941488--87941876 Score: 719
Period size: 94 Copynumber: 4.2 Consensus size: 94
87941478 ATGATATACA
*
87941488 TATATGTGTGATAAGGCCGAATGGCCAATG-GATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
87941552 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
87941581 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
87941646 TAATGGCCCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
87941675 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
87941740 TAATGG-CCATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
* *
87941768 TATATGTGTGATAAGGCCGAACGGCCAACGTGATGGATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
87941833 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCCATGTGATGAATGTGAAAGTG
*
87941862 CATATGTGTGATAAG
1 TATATGTGTGATAAG
87941877 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 120 0.42
94 169 0.58
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (94 bp):
TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCCATGTGATGAATGTGAAAGTG
Found at i:87941810 original size:187 final size:187
Alignment explanation
Indices: 87941488--87941876 Score: 717
Period size: 187 Copynumber: 2.1 Consensus size: 187
87941478 ATGATATACA
*
87941488 TATATGTGTGATAAGGCCGAATGGCCAATGGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 TATATGTGTGATAAGGCCGAACGGCCAATGGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
87941553 AATGGCCCATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCGAACGGCCAATGTGATGAA
66 AATGGCCCATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCGAACGGCCAACGTGATGAA
87941618 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
87941675 TATATGTGTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATGTGTGATAAGGCCGAACGGCCAATG-GATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
87941740 TAATGG-CCATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCGAACGGCCAACGTGATGG
65 TAATGGCCCATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCGAACGGCCAACGTGATGA
*
87941804 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
130 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
*
87941862 CATATGTGTGATAAG
1 TATATGTGTGATAAG
87941877 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
187 156 0.80
188 40 0.20
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (187 bp):
TATATGTGTGATAAGGCCGAACGGCCAATGGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCCATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCGAACGGCCAACGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
Found at i:87946730 original size:77 final size:79
Alignment explanation
Indices: 87946581--87946800 Score: 261
Period size: 77 Copynumber: 2.8 Consensus size: 79
87946571 TCGAATGATG
* * * * *
87946581 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
87946645 TGTGGAGTTACTAAA
65 GGTGGAGTTACTAAA
*
87946660 TTCGGACTAAGAT-CCGAAGGCATTT-TGCGAGTTACTA-ATCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
87946721 GGTGCGAGTTACTAAA
65 GGTG-GAGTTACTAAA
** * * * *
87946737 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
87946801 TGAACGAGTA
Statistics
Matches: 121, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
76 15 0.12
77 42 0.35
78 18 0.15
79 30 0.25
80 16 0.13
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGGAGTTACTAAA
Found at i:87946816 original size:40 final size:40
Alignment explanation
Indices: 87946582--87946802 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
87946572 CGAATGATGT
* * *
87946582 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
87946622 CCGGACTAAGAT-CCGAAGGCATTTGTG-GAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
87946660 TTCGGACTAAGAT-CCGAAGGCATTT-TGCGAGTTACTA-AT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87946699 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
87946737 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
87946778 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
87946803 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
37 11 0.07
38 24 0.15
39 49 0.31
40 64 0.41
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:87954360 original size:40 final size:39
Alignment explanation
Indices: 87954303--87954527 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 39
87954293 TCGAATGATG
* * *
87954303 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
87954343 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
**
87954383 TCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
87954422 TCCAGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCC-GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
87954462 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
87954503 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
87954528 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 36 0.22
40 121 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:87954534 original size:119 final size:120
Alignment explanation
Indices: 87954306--87954534 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 120
87954296 AATGATGTCC
*
87954306 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
**
87954371 CGAGTTACTAAATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCA
66 CGAGTTACTAAATCCGAACTAAGATCCGAAGGCATTTGAACGAGTTACTAATCCA
* * **
87954426 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
** *
87954488 TGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGT
64 TGCGAGTTACTA-AATCCGAACTAAGAT-CCGAAGGCATTTGAACGAGT
87954535 AGCTATATCC
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 76 0.80
120 17 0.18
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAAATCCGAACTAAGATCCGAAGGCATTTGAACGAGTTACTAATCCA
Found at i:87954549 original size:79 final size:79
Alignment explanation
Indices: 87954310--87954562 Score: 293
Period size: 79 Copynumber: 3.2 Consensus size: 79
87954300 ATGTCCGGGC
* * *
87954310 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
**
87954373 AGTTACTAAATCCGAAC
64 AGTTACTAAATCCG-GT
87954390 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCAGGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCG
87954452 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
87954469 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
87954534 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
87954548 TAAATTCCGAAGGCA
1 TAAGTCCCGAAGGCA
87954563 CGTGATTCGG
Statistics
Matches: 152, Mismatches: 12, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 88 0.58
80 55 0.36
81 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:87957797 original size:13 final size:13
Alignment explanation
Indices: 87957779--87957803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87957769 CCCAATGGGT
87957779 AATTGAACTTAAA
1 AATTGAACTTAAA
87957792 AATTGAACTTAA
1 AATTGAACTTAA
87957804 GATCGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTGAACTTAAA
Found at i:87958688 original size:14 final size:13
Alignment explanation
Indices: 87958653--87958684 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
87958643 TTTTTCATTC
*
87958653 TGTTTTCAAAACT
1 TGTTTTCCAAACT
87958666 TGTTTTCCAAACT
1 TGTTTTCCAAACT
87958679 TGTTTT
1 TGTTTT
87958685 TCCAGCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (13 bp):
TGTTTTCCAAACT
Found at i:87958947 original size:36 final size:36
Alignment explanation
Indices: 87958900--87958972 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
87958890 TAGAAAATAA
87958900 ACCGTGGACTATCATATCCACGTAGGGCTATTTTTT
1 ACCGTGGACTATCATATCCACGTAGGGCTATTTTTT
*
87958936 ACCGTGGACTATCATATCCATGTAGGGCTATTTTTT
1 ACCGTGGACTATCATATCCACGTAGGGCTATTTTTT
87958972 A
1 A
87958973 AAAGAATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (36 bp):
ACCGTGGACTATCATATCCACGTAGGGCTATTTTTT
Found at i:87960927 original size:18 final size:18
Alignment explanation
Indices: 87960904--87960938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87960894 CCCTTCTCCT
* *
87960904 CTAAGGGGAAATAGAAAG
1 CTAAGGGAAAAAAGAAAG
87960922 CTAAGGGAAAAAAGAAA
1 CTAAGGGAAAAAAGAAA
87960939 TCGGGTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.29, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAAAAGAAAG
Found at i:87964282 original size:26 final size:26
Alignment explanation
Indices: 87964246--87964300 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
87964236 AGTAAACATG
*
87964246 TAATTGTTTTCTATTTAATTGAACGA
1 TAATTGTTTTCTATTTAATTGAAAGA
*
87964272 TAATTGTTTTCTATTTATTTGAAAGA
1 TAATTGTTTTCTATTTAATTGAAAGA
87964298 TAA
1 TAA
87964301 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (26 bp):
TAATTGTTTTCTATTTAATTGAAAGA
Found at i:87964339 original size:19 final size:19
Alignment explanation
Indices: 87964315--87964359 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
87964305 ATAAATAAAG
87964315 TTAATTTCACATTTCACTA
1 TTAATTTCACATTTCACTA
87964334 TTAATTTCACATTTCACTA
1 TTAATTTCACATTTCACTA
87964353 TT-ATTTC
1 TTAATTTC
87964360 TTTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATTTCACATTTCACTA
Done.