Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 52 of 292
Found at i:15043505 original size:2 final size:2
Alignment explanation
Indices: 15043494--15043524 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15043484 ATGTAAGCCC
15043494 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15043525 GGCATTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15051048 original size:18 final size:18
Alignment explanation
Indices: 15051021--15051063 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15051011 TCAAATTCTT
* *
15051021 GTGAGAGTTAAGAGCATG
1 GTGAGTGTTAAAAGCATG
*
15051039 GTGAGTGTTAAAAGCATT
1 GTGAGTGTTAAAAGCATG
15051057 GTGAGTG
1 GTGAGTG
15051064 AAAGAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (18 bp):
GTGAGTGTTAAAAGCATG
Found at i:15051293 original size:32 final size:32
Alignment explanation
Indices: 15051252--15051314 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
15051242 TTGGTTAGTG
15051252 GAAACATTATGATTAAGGGTATTAATAAGACC
1 GAAACATTATGATTAAGGGTATTAATAAGACC
15051284 GAAACATTATGATTAAGGGTATTAATAAGAC
1 GAAACATTATGATTAAGGGTATTAATAAGAC
15051315 TGATTGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (32 bp):
GAAACATTATGATTAAGGGTATTAATAAGACC
Found at i:15057496 original size:5 final size:5
Alignment explanation
Indices: 15057488--15057519 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
15057478 CAAAAATAAA
15057488 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT
15057520 GGTTGGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:15069027 original size:23 final size:23
Alignment explanation
Indices: 15068975--15069044 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 23
15068965 TCAACTCGTA
* *
15068975 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* *
15068999 AAAGCTTACCGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
15069022 AGAGCTTACTGTTCATCAGCTCA
1 AGAGCTTACTGTT--TCAGCTCA
15069045 GGAGGAGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 21 0.55
24 9 0.24
25 8 0.21
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:15072215 original size:18 final size:19
Alignment explanation
Indices: 15072189--15072228 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15072179 TGTTCTTTTA
15072189 TTGGACCTTTAGTTTT-GT
1 TTGGACCTTTAGTTTTAGT
* *
15072207 TTGGGCCTTTGGTTTTAGT
1 TTGGACCTTTAGTTTTAGT
15072226 TTG
1 TTG
15072229 CTTTGTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.07, C:0.10, G:0.28, T:0.55
Consensus pattern (19 bp):
TTGGACCTTTAGTTTTAGT
Found at i:15075411 original size:7 final size:7
Alignment explanation
Indices: 15075401--15075429 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
15075391 AAAATAAGAT
15075401 ATTATAA
1 ATTATAA
15075408 ATTATAA
1 ATTATAA
15075415 ATTATAA
1 ATTATAA
15075422 ATTATAA
1 ATTATAA
15075429 A
1 A
15075430 AATCGGTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTATAA
Found at i:15075624 original size:15 final size:16
Alignment explanation
Indices: 15075604--15075633 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15075594 TTTAAACAAA
15075604 AAAATTATAT-TTTTG
1 AAAATTATATATTTTG
15075619 AAAATTATATATTTT
1 AAAATTATATATTTT
15075634 TTAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATTATATATTTTG
Found at i:15077667 original size:7 final size:7
Alignment explanation
Indices: 15077655--15077680 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15077645 GATCACGTCT
15077655 TCCCACA
1 TCCCACA
15077662 TCCCACA
1 TCCCACA
15077669 TCCCACA
1 TCCCACA
15077676 TCCCA
1 TCCCA
15077681 TTCCCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.58, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACA
Found at i:15087680 original size:408 final size:408
Alignment explanation
Indices: 15086924--15087908 Score: 1648
Period size: 408 Copynumber: 2.4 Consensus size: 408
15086914 TTCATCCGGC
*
15086924 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACAATTATAATTACGTTCTTCAACCG
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAA-CG
* * * *
15086989 GGAGAAGGATGACTATCATTTGTAATATACATCAATGAAACTTTTTACTATCGTACAGTTGTTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
* *
15087054 TAATACTCAGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACATATGA
130 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
* * * *
15087119 ACGATGTCGACATTAATATTTAAGGTAAACTCGTGGATTATATAGTTAATGAAAGTTGGTAATAT
195 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
15087184 TGTAAAGTTATTTTTAATACTCAGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
260 TGTAAAGTTATTTTTAATACTCAGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
*
15087249 CCGCCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
325 CCACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
* *
15087314 GACGTATGAGTATATCTGT
390 GACGTATGAATATATATGT
* *
15087333 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTATTATTATAATTACGTTCTTCAATCG
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAA-CG
* *
15087398 GGGGAAGGATGACTATCCTTTGTAATATACGCCAATGAAACTTTTTAATATC-TATAGTTGTTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
15087462 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
130 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGA
15087527 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
195 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATAT
* * *
15087592 TGTAAAGTTGTTTTTAATACTCGGTTTTATAACAAGCAAACACCCGGAACAAGAAAGTCCAAAAT
260 TGTAAAGTTATTTTTAATACTCAGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAAT
** * * *
15087657 TTACCCTCAACGTTTGCACATTTTTGCATGTAATTCCTTATATAATTTACATTCGTAACCCGGAG
325 CCACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAG
15087722 GACGTATGAATATATATGT
390 GACGTATGAATATATATGT
* *
15087741 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAAGTACGTTCTTCAACTA
1 TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAAC-G
* *
15087806 GGGGAAGGATGACTATCCTTTGTAATATTCGTCAATGAAACTTTTTAATATCGTACAGTTATTAT
65 GGGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTAT
* *
15087871 TAATACTCGAATTTATAACAAGCCGTATGGAATGTTCA
130 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCA
15087909 TCCTCACACT
Statistics
Matches: 537, Mismatches: 37, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
407 1 0.00
408 382 0.71
409 154 0.29
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (408 bp):
TAATACATACTTCATCTGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAACGG
GGGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCGTACAGTTGTTATT
AATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATGAA
CGATGTCGACATTAATATTTAAGGCAAACTCGTGGATTATACAGTCAATGAAAGTTGGAAATATT
GTAAAGTTATTTTTAATACTCAGTTTTATAACAAGCAAACACCAGGAACAAGAAAGTCCAAAATC
CACCCTCAACGTTTGCACATTTTTGCATGTAAGTCCTTATACAATTTACATTCGTAACCCGAAGG
ACGTATGAATATATATGT
Found at i:15090129 original size:31 final size:31
Alignment explanation
Indices: 15090091--15090154 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15090081 AATCCAAGTT
15090091 GGCACTTAAAATCTAGTTGGACTACCACGTA
1 GGCACTTAAAATCTAGTTGGACTACCACGTA
*
15090122 GGCACTTAAAATCTAGTTGGACTGCCACGTA
1 GGCACTTAAAATCTAGTTGGACTACCACGTA
15090153 GG
1 GG
15090155 ATTACTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (31 bp):
GGCACTTAAAATCTAGTTGGACTACCACGTA
Found at i:15097446 original size:40 final size:40
Alignment explanation
Indices: 15097368--15097508 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
15097358 TCGCTTAAAA
* * *** * *
15097368 GCCTTCGGGACATAGCCCGGTTATAATAGCTCGTACAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGGAACTCGCACAAAT
* *
15097408 GCCTTCGGGACTTAACCCGGATTTGGGAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGGAACTCGCACAAAT
* ** *
15097448 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATATGGGAAC-TCGCACAAAT
15097488 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
15097509 CATCATTCGA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 68 0.83
41 11 0.13
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATGGGAACTCGCACAAAT
Found at i:15106753 original size:30 final size:29
Alignment explanation
Indices: 15106719--15106782 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
15106709 ATGAATCGGA
*
15106719 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATCT-AACT
15106749 AGCTTTGGCACTAAGTGTGCGATCTAACT
1 AGCTTTGGCACTAAGTGTGCGATCTAACT
15106778 AGCTT
1 AGCTT
15106783 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATCTAACT
Found at i:15108921 original size:50 final size:49
Alignment explanation
Indices: 15108803--15108986 Score: 235
Period size: 50 Copynumber: 3.7 Consensus size: 49
15108793 CTGGTACGCA
* * *
15108803 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTAT-CGATACACG
**
15108852 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC-GATACACG
* * * * *
15108902 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCGA-TACACG
15108953 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
15108987 CACAATAGCT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
49 32 0.27
50 46 0.39
51 39 0.33
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCGATACACG
Found at i:15108978 original size:101 final size:99
Alignment explanation
Indices: 15108803--15108986 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 99
15108793 CTGGTACGCA
* ** *
15108803 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
15108868 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
15108902 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAAGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAAGTACACATAGTAGCCTGCACT
15108967 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
15108987 CACAATAGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 29 0.38
100 3 0.04
101 44 0.58
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAAGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:15120033 original size:27 final size:26
Alignment explanation
Indices: 15120002--15120095 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
15119992 TTAGTTTACC
* *
15120002 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
*
15120029 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAA-TACCCTC-GATTTGTA
**
15120056 AAATTATCCAAATATTCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
*
15120083 AAATTACGAAATA
1 AAATTACCAAATA
15120096 AGATAGAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
26 10 0.18
27 40 0.71
28 6 0.11
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:15120128 original size:27 final size:27
Alignment explanation
Indices: 15120100--15120214 Score: 176
Period size: 27 Copynumber: 4.3 Consensus size: 27
15120090 GAAATAAGAT
* * *
15120100 AGAATTACCATTTTACCTTTGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* *
15120127 AGAATTATCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
15120154 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
15120181 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
15120208 AAAATTA
1 AGAATTA
15120215 TTGAAATACC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:15120224 original size:27 final size:27
Alignment explanation
Indices: 15120140--15120333 Score: 165
Period size: 27 Copynumber: 7.2 Consensus size: 27
15120130 ATTATCGTTT
* * ***
15120140 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
15120167 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
15120194 TACCCTCGATTTACAAAATTATTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
15120221 TACCATTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
15120248 TACCCTCGATTAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
15120275 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
15120302 TACCC-CTGATTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
15120329 TACCC
1 TACCC
15120334 CTGTAGGGTA
Statistics
Matches: 141, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:15120333 original size:54 final size:54
Alignment explanation
Indices: 15120194--15120333 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
15120184 ATTACCATTT
* * * * *
15120194 TACCCTCGATTTACAAAATTATTGAAATACCATTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTAATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* *
15120248 TACCCTCGATTAATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTAATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
**
15120302 TACCC-CTGATTTGTAAAATTACTAAAATACCC
1 TACCCTC-GATTAATAAAATTACTAAAATACCC
15120334 CTGTAGGGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 74 0.99
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTAATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:15120348 original size:27 final size:27
Alignment explanation
Indices: 15120291--15120459 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
15120281 TGGTTTGTAA
* ** *
15120291 AATTACCAAAATACCCCTG-ATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
**
15120318 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15120345 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15120372 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15120399 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
15120426 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
15120453 AATTACC
1 AATTACC
15120460 ATTTTTCCCC
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 122 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:15120349 original size:54 final size:53
Alignment explanation
Indices: 15120237--15120417 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 53
15120227 TGGTTTATAA
* * * ** *
15120237 AATTACCAAAATACCCTCGATTAATAAAATTACCAAAATACCCTTGGT-TTGTAA
1 AATTACCAAAATACCCT-GATTAGTAAAATTACTAAAATACCCCT-GTAGGGTAG
*
15120291 AATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATA-CCCTGATTAGTAAAATTACTAAAATACCCCTGTAGGGTAG
* * * *
15120345 AATTACCGAAATACCCTTA-TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTGATTA--GTAAAATTACTAAAATACCCCTGTAGGGTAG
*
15120399 AATTACCGAAATACTCCTG
1 AATTACCAAAATAC-CCTG
15120418 TAGGGTAGAA
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 94 0.86
55 7 0.06
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (53 bp):
AATTACCAAAATACCCTGATTAGTAAAATTACTAAAATACCCCTGTAGGGTAG
Found at i:15120349 original size:81 final size:82
Alignment explanation
Indices: 15120264--15120460 Score: 222
Period size: 81 Copynumber: 2.4 Consensus size: 82
15120254 CGATTAATAA
* * ** ** *
15120264 AATTACCAAAATACCCTTGGT-TTGTAAAATTACCAAAATACCCCTG-ATTTGTAAAATTACTAA
1 AATTACCGAAATACCCTTGATAGGGTAAAATTACCAAAATACCCCTGTA-GGGTAAAATTACCAA
15120327 AATACCCCTGTAGGGTAG
65 AATACCCCTGTAGGGTAG
* ** * *
15120345 AATTACCGAAATACCCTT-ATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTACCGAAATACCCTTGATAGGGTAAAATTACCAAAATACCCCTGTAGGGTAAAATTACCAAA
*
15120409 ATACTCCTGTAGGGTAG
66 ATACCCCTGTAGGGTAG
* *
15120426 AATTACCGAGATACCCTTG-TGGGGTAAAATTACCA
1 AATTACCGAAATACCCTTGATAGGGTAAAATTACCA
15120461 TTTTTCCCCT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 93 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (82 bp):
AATTACCGAAATACCCTTGATAGGGTAAAATTACCAAAATACCCCTGTAGGGTAAAATTACCAAA
ATACCCCTGTAGGGTAG
Found at i:15120893 original size:6 final size:6
Alignment explanation
Indices: 15120854--15120941 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
15120844 TTGCATTCAC
* * * *
15120854 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
15120903 ATTTTGG CA-CCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCT-G -ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
15120942 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:15123744 original size:28 final size:26
Alignment explanation
Indices: 15123652--15123763 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
15123642 AGGAAGCGTC
*
15123652 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGGCTCTGCCAC-ATTATCTG-TT
*
15123680 -TGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
15123706 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
15123734 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
15123760 CTGG
1 CTGG
15123764 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.12
27 49 0.65
28 17 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:15123756 original size:54 final size:54
Alignment explanation
Indices: 15123652--15123763 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
15123642 AGGAAGCGTC
* *
15123652 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * **
15123706 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
15123760 CTGG
1 CTGG
15123764 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:15131530 original size:27 final size:26
Alignment explanation
Indices: 15131488--15131591 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 26
15131478 AGGAAGCGTC
* *
15131488 CTGGTGGCTATTCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTAAT
**
15131515 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTAAT
*
15131542 CTGGT-GCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCT-AAT
* * *
15131569 ATGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
15131592 GTTCTAGTAG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 17 0.27
27 39 0.61
28 8 0.12
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTAAT
Found at i:15131563 original size:26 final size:25
Alignment explanation
Indices: 15131500--15131596 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 25
15131490 GGTGGCTATT
**
15131500 CCACAATTATCTAATCTGGTGGCTCTG
1 CCAC-ATTATCTGTTCTGGT-GCTCTG
15131527 CCACATATATCTGTTCTGGTGCTCTG
1 CCACAT-TATCTGTTCTGGTGCTCTG
*
15131553 CCACGATTATCTGTATATGGTGACTCTG
1 CCAC-ATTATCTGT-TCTGGTG-CTCTG
*
15131581 TCACATTATCTGTTCT
1 CCACATTATCTGTTCT
15131597 AGTAGCCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
26 21 0.34
27 32 0.52
28 8 0.13
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (25 bp):
CCACATTATCTGTTCTGGTGCTCTG
Found at i:15133803 original size:20 final size:18
Alignment explanation
Indices: 15133760--15133804 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
15133750 TGTTCTTTGT
* *
15133760 TTTGTGAAAGAAATCAGA
1 TTTGTGAAACAAATCAAA
15133778 TTTGTGAAACATAATCAAA
1 TTTGTGAAACA-AATCAAA
15133797 CTTTGTGA
1 -TTTGTGA
15133805 GGATTCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 6 0.26
20 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (18 bp):
TTTGTGAAACAAATCAAA
Found at i:15142686 original size:20 final size:18
Alignment explanation
Indices: 15142661--15142697 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
15142651 ATTGCTAAGT
15142661 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
15142681 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
15142698 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:15144511 original size:50 final size:50
Alignment explanation
Indices: 15144453--15144557 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
15144443 TTTTAATGTG
15144453 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
15144502 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
15144552 AGTATT
1 AGTATT
15144558 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:15159415 original size:22 final size:22
Alignment explanation
Indices: 15159357--15159412 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
15159347 TCTTCAATGA
15159357 TATGCAATCTT---AGATATGT
1 TATGCAATCTTAGAAGATATGT
15159376 TATGCAATCTTAGAAGATATGAT
1 TATGCAATCTTAGAAGATATG-T
* *
15159399 TTTGTAATCTTAGA
1 TATGCAATCTTAGA
15159413 GATTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (22 bp):
TATGCAATCTTAGAAGATATGT
Found at i:15159703 original size:17 final size:17
Alignment explanation
Indices: 15159679--15159713 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15159669 TGTTTCTCGG
*
15159679 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
15159697 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
15159714 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:15164148 original size:75 final size:75
Alignment explanation
Indices: 15164025--15164163 Score: 269
Period size: 75 Copynumber: 1.9 Consensus size: 75
15164015 TCTTGTTACT
*
15164025 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTGTTATTTTTTAT
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
15164090 TAACAAAAAA
66 TAACAAAAAA
15164100 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
1 CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTA
15164164 ATAAAGCATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (75 bp):
CTAGAGCCTAGGAGTAATAGGATTTCATTTGTGAAATGGGCTTACAATCATCTATTATTTTTTAT
TAACAAAAAA
Found at i:15169097 original size:219 final size:220
Alignment explanation
Indices: 15168713--15169296 Score: 931
Period size: 219 Copynumber: 2.7 Consensus size: 220
15168703 GTAACATGCT
* * * ** * **
15168713 AAAG-CATAGCAGATTTGACCTTT-AGGTGTTTACACTGAAGTGGATCCAAGATGATTTAACATC
1 AAAGACATAGCAGATTTG-GCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATC
* *
15168776 TCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCATA
65 TCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGA
** *
15168841 TCGAAGACATAGCAGATCTAACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGC
130 TCGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGACGATTTGGC
*
15168906 ATCCTTGCGTTTACAAGGAGCAGATC
195 ATCCTTGCATTTACAAGGAGCAGATC
15168932 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
*
15168997 CTGTACTGTCAGAGAACAAATCGAAGAAA-AGATTTGGCATCTCCATATTCGATGGAGAGCAGAT
66 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
*
15169061 CGAAGACATAGTAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGACGATTTGGCA
131 CGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGACGATTTGGCA
15169126 TCCTTGCATTTACAAGGAGCAGATC
196 TCCTTGCATTTACAAGGAGCAGATC
* * * *
15169151 GAAGACATAGCAGATTTGGCTTTCACATGTTTACGCTAAAGCAGATCTAAGATGATTTGGCTTCT
1 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
* *
15169216 CTGTACTGTCAGAGAAAAAATCGAAGAAACAGATTTGGCATCTCCATATTCTACGGAGAGCAGAT
66 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
*
15169281 CGAAGACACAGCAGAT
131 CGAAGACATAGCAGAT
15169297 TGGACCTTCA
Statistics
Matches: 337, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
219 215 0.64
220 122 0.36
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (220 bp):
AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCT
CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
CGAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGACGATTTGGCA
TCCTTGCATTTACAAGGAGCAGATC
Found at i:15169357 original size:78 final size:78
Alignment explanation
Indices: 15169247--15169697 Score: 674
Period size: 78 Copynumber: 5.8 Consensus size: 78
15169237 CGAAGAAACA
* ** *
15169247 GATTTGGCATCTCCATATTCTACGGAGAGCAGATCGAAGACACAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
15169311 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
15169325 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGA
15169389 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * * * *
15169403 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATATGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
15169468 GCAGATCCAAGAT
66 GCAGATCCAAGAT
15169481 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
15169546 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
15169559 GATTTGGCATCTCTATATTAGACAGGGAGCAGATCAAAGACATAACAGAT-TGAACCTTCATTAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTG-ACCTTCATTGA
15169623 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
15169637 GATTTGGCATCTCTGTATTAAACGGGGCGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCAT
15169698 GTGTTTACAT
Statistics
Matches: 342, Mismatches: 28, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 337 0.99
79 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:15169537 original size:156 final size:155
Alignment explanation
Indices: 15169247--15169697 Score: 744
Period size: 156 Copynumber: 2.9 Consensus size: 155
15169237 CGAAGAAACA
* * *
15169247 GATTTGGCATCTCCATATTCTACGGAGAGCAGATCGAAGACACAGCAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATT-GACCTTCATTGAA
15169312 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGAT-T
65 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
15169376 GGACCTTCATTGAAGCAGATCCAAGAT
130 -GACCTTCATTGAAGCAGATCCAAGAT
15169403 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATATGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGAT-TGACCTTCATTGAA
*
15169468 GCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
65 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
15169533 GACCTTCATTGAAGCAGATCCAAGAT
130 GACCTTCATTGAAGCAGATCCAAGAT
* * * *
15169559 GATTTGGCATCTCTATATTAGACAGG-GAGCAGATCAAAGACATAACAGATTGAACCTTCATTAA
1 GATTTGGCATCTCCATATTCGAC-GGAGAGCAGATCAAAGACATAGCAGATTG-ACCTTCATTGA
* * *
15169623 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAAACGGGGCGCAGATCGAAGACATAGCAGATC
64 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATC
15169688 TGACCTTCAT
129 TGACCTTCAT
15169698 GTGTTTACAT
Statistics
Matches: 279, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
155 2 0.01
156 273 0.98
157 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (155 bp):
GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATTGACCTTCATTGAAG
CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTG
ACCTTCATTGAAGCAGATCCAAGAT
Found at i:15169777 original size:44 final size:44
Alignment explanation
Indices: 15169714--15169864 Score: 205
Period size: 44 Copynumber: 3.4 Consensus size: 44
15169704 ACATCGAAGT
* * * *
15169714 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGAGGAGT
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACG-GGAGC
* *
15169759 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGAGC
*
15169802 AGATCGAAGATAACAGATTTGGCGTCTCTGTACTAGACGGAGAGC
1 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGG-GAGC
*
15169847 AGATCAAAGATAACAGAT
1 AGATCGAAGATAACAGAT
15169865 ATCGCCTTCC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
43 13 0.14
44 52 0.55
45 29 0.31
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGAGC
Found at i:15170236 original size:14 final size:15
Alignment explanation
Indices: 15170217--15170272 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
15170207 AATCTTCAAT
15170217 GATATG-CAATCTTA
1 GATATGACAATCTTA
15170231 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
15170248 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
15170266 GATATGA
1 GATATGA
15170273 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:15170261 original size:35 final size:37
Alignment explanation
Indices: 15170215--15170293 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
15170205 ATAATCTTCA
15170215 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
15170251 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
15170287 A-GATATG
1 ATGATATG
15170294 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:15170293 original size:17 final size:19
Alignment explanation
Indices: 15170215--15170286 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
15170205 ATAATCTTCA
15170215 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15170234 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15170251 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
15170269 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
15170287 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:15170312 original size:22 final size:22
Alignment explanation
Indices: 15170215--15170309 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
15170205 ATAATCTTCA
15170215 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15170234 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15170251 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
15170269 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
15170291 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
15170310 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:15170600 original size:18 final size:17
Alignment explanation
Indices: 15170577--15170610 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15170567 GTTTCCCTGT
*
15170577 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
15170595 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
15170611 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:15172083 original size:20 final size:19
Alignment explanation
Indices: 15172058--15172096 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
15172048 ACAGATATAA
15172058 GTAGTCAAACCACCAGAAAC
1 GTAGTCAAACCACCA-AAAC
*
15172078 GTAGTCAAACTACCAAAAC
1 GTAGTCAAACCACCAAAAC
15172097 AAATAAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.46, C:0.28, G:0.13, T:0.13
Consensus pattern (19 bp):
GTAGTCAAACCACCAAAAC
Found at i:15181051 original size:2 final size:2
Alignment explanation
Indices: 15181044--15181073 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15181034 TTCACAAGGT
15181044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15181074 CACACATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15182093 original size:27 final size:28
Alignment explanation
Indices: 15182053--15182192 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
15182043 AGCATGGCTG
* * *
15182053 CCAGA-ACAAATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
15182079 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
15182107 CCAGA-ACAGATATATGTGGCAAAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
15182134 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
15182161 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
15182188 CCAGA
1 CCAGA
15182193 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:15183846 original size:26 final size:26
Alignment explanation
Indices: 15183808--15183891 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
15183798 CATGAAATTC
* *
15183808 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
15183834 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
15183860 TTATCATCGAACATTTACCTAATCTA
1 TTATCATGGAACATTTACCTAACCTA
15183886 TTATCA
1 TTATCA
15183892 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:15184552 original size:2 final size:2
Alignment explanation
Indices: 15184545--15184587 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15184535 CAAGATTTGC
15184545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15184587 A
1 A
15184588 AGCCATAGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15185398 original size:41 final size:43
Alignment explanation
Indices: 15185291--15185416 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 43
15185281 ATTCCATACA
* *
15185291 ATGCCAAC-ATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTATCCCAGACATGGTCTTACATGTAATCAAATATCG
* * *
15185334 ATGCCACTATCCTAGATAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCACTATCCCAGACATGGTCTTACATGTAATCAAATATCG
* * *
15185375 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAATCACATATC
1 ATGCC-ACTATCCCAGACATGGTCTTACATGTAATCAAATATC
15185417 ATTAATCCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 25 0.37
42 19 0.28
43 24 0.35
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCACTATCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:15193361 original size:39 final size:40
Alignment explanation
Indices: 15193239--15193420 Score: 160
Period size: 40 Copynumber: 4.6 Consensus size: 40
15193229 GACTCACTCA
* **
15193239 AATGCCTTCGGGAC-GAAGCCCGG-TTATAGCGACTCGCACG
1 AATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCACG
* *
15193279 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
15193318 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* ** * * *
15193357 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
*
15193397 AAAGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15193421 CATCATTCGA
Statistics
Matches: 117, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 24 0.21
39 21 0.18
40 60 0.51
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:15193364 original size:78 final size:80
Alignment explanation
Indices: 15193270--15193420 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
15193260 GGTTATAGCG
* * * *
15193270 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
*
15193332 TAGCCCGGATTTATTA
65 TAACCCGGATTTATTA
** *
15193348 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
15193413 AACCCGGA
66 AACCCGGA
15193421 CATCATTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.55
79 15 0.24
80 10 0.16
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AACCCGGATTTATTA
Found at i:15195124 original size:21 final size:20
Alignment explanation
Indices: 15195096--15195135 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15195086 GGCTGTCACA
15195096 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
15195116 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
15195136 AAAGCACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:15195781 original size:18 final size:18
Alignment explanation
Indices: 15195758--15195821 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
15195748 ACATCGTGAT
15195758 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
15195776 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* * *
15195797 CGGAAGCCCGACGGCTAA
1 CTGAAGCCCGAAGTCTAA
15195815 CTGAAGC
1 CTGAAGC
15195822 TCACCAGAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
18 15 0.43
19 7 0.20
20 5 0.14
21 8 0.23
ACGTcount: A:0.34, C:0.27, G:0.25, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:15199127 original size:46 final size:47
Alignment explanation
Indices: 15199033--15199191 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 47
15199023 CATAGTAAAA
* ** * * *
15199033 CTATGGTCTTGCACATAGTCACATATCACACACCGAAGCCATAGCCCAG
1 CTATGGTCTTACACGGAATCACATAT--CACACTGATGCCATAGCCCAG
* *
15199082 CCATGGTCTTACAC-GAATCACATATCACACTGATGCCATATCCCAG
1 CTATGGTCTTACACGGAATCACATATCACACTGATGCCATAGCCCAG
* * *
15199128 ATATGGTCTTATACGGAAGCACATAATCACATATCTCTGATGCCATAGCCCAG
1 CTATGGTCTTACACGGAATCACAT-ATCAC--A---CTGATGCCATAGCCCAG
15199181 CTATGGTCTTA
1 CTATGGTCTTA
15199192 TATGGAAATC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
46 29 0.32
47 8 0.09
48 14 0.16
49 12 0.13
50 1 0.01
53 26 0.29
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
CTATGGTCTTACACGGAATCACATATCACACTGATGCCATAGCCCAG
Found at i:15199255 original size:31 final size:31
Alignment explanation
Indices: 15199220--15199352 Score: 239
Period size: 31 Copynumber: 4.3 Consensus size: 31
15199210 CTTGTCACTT
* *
15199220 GTAGCCGAAGCTACCACTTTTTACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
15199251 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
15199282 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
15199313 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
15199344 GTAGCCGGA
1 GTAGCCGGA
15199353 ACATTCATAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:15210097 original size:20 final size:19
Alignment explanation
Indices: 15210074--15210132 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
15210064 AAGTGTAGGC
15210074 AGAGGCACCAATGTGCAATT
1 AGAGGCACCAA-GTGCAATT
* *
15210094 AGAGGCATCGAAGTGCAAAT
1 AGAGGCA-CCAAGTGCAATT
*
15210114 AGGGGCACCAAAGTGCAAT
1 AGAGGCACC-AAGTGCAAT
15210133 CTTGTACAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (19 bp):
AGAGGCACCAAGTGCAATT
Found at i:15211234 original size:17 final size:19
Alignment explanation
Indices: 15211212--15211246 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
15211202 TTACTTTCAA
15211212 TTCACTT-AT-TATTCTTT
1 TTCACTTAATCTATTCTTT
15211229 TTCACTTAATCTATTCTT
1 TTCACTTAATCTATTCTT
15211247 AAATATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (19 bp):
TTCACTTAATCTATTCTTT
Found at i:15214368 original size:2 final size:2
Alignment explanation
Indices: 15214363--15214390 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15214353 CTTTTTTAAG
15214363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15214391 TAAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15216488 original size:35 final size:35
Alignment explanation
Indices: 15216440--15216598 Score: 183
Period size: 35 Copynumber: 4.5 Consensus size: 35
15216430 GTATGTACAT
15216440 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * *
15216475 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
15216510 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
15216545 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
15216580 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
15216599 CTTGAGTATT
Statistics
Matches: 100, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:15218799 original size:30 final size:30
Alignment explanation
Indices: 15218765--15218824 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15218755 ATTTAATACG
15218765 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15218795 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15218825 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15220123 original size:2 final size:2
Alignment explanation
Indices: 15220089--15220115 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15220079 ATGTTGATTG
15220089 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 T
15220116 GCATATATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15227889 original size:12 final size:13
Alignment explanation
Indices: 15227861--15227893 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15227851 TTATTTCTTT
15227861 TTCTCCATCTACC
1 TTCTCCATCTACC
*
15227874 TTCTCC-TCTTCC
1 TTCTCCATCTACC
15227886 TTCTCCAT
1 TTCTCCAT
15227894 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:15228932 original size:28 final size:28
Alignment explanation
Indices: 15228900--15228964 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
15228890 ATTTACTAGA
*
15228900 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
15228928 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
15228956 ATACCCCTA
1 ATACCCCTA
15228965 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:15229171 original size:29 final size:28
Alignment explanation
Indices: 15229070--15229160 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
15229060 AGGAAGCGTC
15229070 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
15229098 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
15229126 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
15229155 CTGGTG
1 CTGGTG
15229161 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:15229185 original size:56 final size:55
Alignment explanation
Indices: 15229070--15229185 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
15229060 AGGAAGCGTC
* * *
15229070 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AAGTATCTGTT
* * *
15229126 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-AGTCTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAAGTATCTGT-T
15229182 CTGG
1 CTGG
15229186 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 8 0.16
56 29 0.57
57 14 0.27
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAAGTATCTGTT
Found at i:15235672 original size:12 final size:13
Alignment explanation
Indices: 15235644--15235676 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15235634 TTATTTCTTT
15235644 TTCTCCATCTACC
1 TTCTCCATCTACC
*
15235657 TTCTCC-TCTTCC
1 TTCTCCATCTACC
15235669 TTCTCCAT
1 TTCTCCAT
15235677 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:15236773 original size:28 final size:28
Alignment explanation
Indices: 15236741--15236805 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
15236731 ATTTACTAGA
*
15236741 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
15236769 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
15236797 ATACCCCTA
1 ATACCCCTA
15236806 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:15236969 original size:27 final size:27
Alignment explanation
Indices: 15236911--15237000 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
15236901 AGGAAGCGTC
15236911 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
15236939 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
15236966 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
15236995 CTGGTG
1 CTGGTG
15237001 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:15237019 original size:55 final size:56
Alignment explanation
Indices: 15236911--15237025 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
15236901 AGGAAGCGTC
* *
15236911 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
15236966 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
15237022 CTGG
1 CTGG
15237026 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:15245696 original size:3 final size:3
Alignment explanation
Indices: 15245688--15245740 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
15245678 TTTATTTATG
* * * *
15245688 TTA TTA TTA TTG TTA TTG TTA TTA TTT TTA TTA TTA TGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
15245736 GTA TT
1 TTA TT
15245741 TTCCTCCAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15268897 original size:14 final size:14
Alignment explanation
Indices: 15268856--15268898 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
15268846 CTTATTCTTC
15268856 ATATTATTATTTTT
1 ATATTATTATTTTT
15268870 -TATGTATTAATTTTT
1 ATAT-TATT-ATTTTT
*
15268885 ATATTATTCTTTTT
1 ATATTATTATTTTT
15268899 TCTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 3 0.12
14 9 0.36
15 10 0.40
16 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:15268898 original size:15 final size:15
Alignment explanation
Indices: 15268856--15268899 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
15268846 CTTATTCTTC
15268856 ATATTATTATTTTTT
1 ATATTATTATTTTTT
* *
15268871 AT-GTATTAATTTTT
1 ATATTATTATTTTTT
*
15268885 ATATTATTCTTTTTT
1 ATATTATTATTTTTT
15268900 CTTATTTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (15 bp):
ATATTATTATTTTTT
Found at i:15270541 original size:24 final size:24
Alignment explanation
Indices: 15270483--15270542 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
15270473 TTCTTTTTCT
*
15270483 TTTATTTTTATTTTTTTAGACTAA
1 TTTATTTTTATTTTTTGAGACTAA
15270507 TTTCATTTTTATTTTTTGA-ACTATA
1 TTT-ATTTTTATTTTTTGAGACTA-A
*
15270532 TTTAATTTTAT
1 TTTATTTTTAT
15270543 GGTTGTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 14 0.44
25 18 0.56
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (24 bp):
TTTATTTTTATTTTTTGAGACTAA
Found at i:15276467 original size:40 final size:38
Alignment explanation
Indices: 15276385--15276493 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 38
15276375 GAAATTATAA
*
15276385 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGTTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACAT
* *
15276425 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTCTAT
1 CCGGGTTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC-AT
* * *
15276465 CCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 CCGGGTTAAGACCCGAAGGCATT-GTGCG
15276494 GGTTACCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 52 0.90
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (38 bp):
CCGGGTTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:15281207 original size:40 final size:38
Alignment explanation
Indices: 15281125--15281233 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 38
15281115 GAAATTATAA
*
15281125 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGTTAAGACCCGAAGGC-ATTGTGCGAGT-GCTACAT
* *
15281165 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-CATTCTAT
1 CCGGGTTAAGACCCGAAGGCATT-GTGCGAGTGC-TAC-AT
* * *
15281205 CCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 CCGGGTTAAGACCCGAAGGCATT-GTGCG
15281234 GGTTACCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 5 0.09
40 52 0.90
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (38 bp):
CCGGGTTAAGACCCGAAGGCATTGTGCGAGTGCTACAT
Found at i:15289345 original size:46 final size:46
Alignment explanation
Indices: 15289259--15289375 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
15289249 TATGAGAACC
* * *
15289259 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-AGTGAT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGACGAAGT--T
*
15289307 AGTGTAAGACGTGTCTGGGACAT-GCATCAGCATCGAGACGTAAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACG-AAGTT
15289353 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
15289376 ACATTGGCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
46 38 0.61
47 12 0.19
48 12 0.19
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAAGTT
Found at i:15293823 original size:39 final size:39
Alignment explanation
Indices: 15293698--15293802 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
15293688 GAGATTGGAA
15293698 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
*
15293737 ATATTCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* * *
15293776 ATATCCGGGCTTGAGGTCCGCAGGCTA
1 ATATCCGGACATGAGATCCGCAGGCTA
15293803 CGTGCTGGGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:15295227 original size:53 final size:53
Alignment explanation
Indices: 15295147--15295350 Score: 205
Period size: 53 Copynumber: 3.8 Consensus size: 53
15295137 TAGGGTTTAC
* *
15295147 GGATACCAAGTAAGGCCATG-CTAAGACATGGCATTGGTAAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTC-AAGACATGGCATTGGTAAGTTCATAAGGCAA
* ** * *
15295200 GGATATCATGTAAGACCATGTCAAGACATGGCATTGACAAACTACTATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTG-GTAAGTTC-ATAAGGCAA
* * * * * * *
15295255 AGATCCCATGTAATACCATGCCAAGGCATGGCGA-TGGTGAGTTCATAAGACAA
1 GGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAAGTTCATAAGGCAA
* * *
15295308 GGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
15295351 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
52 1 0.01
53 72 0.61
54 8 0.07
55 37 0.31
56 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAA
Found at i:15300833 original size:40 final size:40
Alignment explanation
Indices: 15300750--15301039 Score: 193
Period size: 40 Copynumber: 7.3 Consensus size: 40
15300740 ACCCAAGTAT
* * * *
15300750 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATGC
* * *
15300788 CTTCGGGTCTTAGCCCGGATATGGTC-TCTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
15300828 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
* * * * *
15300868 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACCAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAATGC
* * * * * *
15300908 CTTCGAGACTCAGCTCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAATGC
* * * * *
15300948 CTTCGGGACTCAGCCCAGA-ATTAGTAACTGGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAATGC
* * * *
15300988 CTTCGGGACTCAGCCCGGA-ATTAATC-ACTAGCACAAATGT
1 CTTCGGGTCTTAGCCCGGATA-T-AGCAACTAGCACAAATGC
*
15301028 CTTCGGGACTTA
1 CTTCGGGTCTTA
15301040 ACCCCGTTAG
Statistics
Matches: 216, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.00
38 11 0.05
39 17 0.08
40 184 0.85
41 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:15300907 original size:80 final size:80
Alignment explanation
Indices: 15300775--15301039 Score: 288
Period size: 80 Copynumber: 3.3 Consensus size: 80
15300765 GGATATAACC
* * * * ** * *
15300775 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCG-GATATGGTCTCTAGCATAAATGCCTTCGGGTCT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAAT-TAGTAACTAGCACAAATGCCTTCGGGACT
*
15300838 TAGCCCGG-ATATAGCA
65 CAGCCCGGAAT-TAGCA
* * *
15300854 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACCAATGCCTTCGAGACTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGACTC
* *
15300919 AGCTCGGAATTAGTA
66 AGCCCGGAATTAGCA
* *
15300934 ACTCGCACAAATGCCTTCGGGACTCAGCCC-AGAATTAGTAACTGGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGA-AATTAGTAACTAGCACAAATGCCTTCGGGACT
*
15300998 CAGCCCGGAATTAATC-
65 CAGCCCGGAATT-AGCA
* *
15301014 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
15301040 ACCCCGTTAG
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
79 9 0.06
80 143 0.91
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGACTC
AGCCCGGAATTAGCA
Found at i:15300982 original size:120 final size:120
Alignment explanation
Indices: 15300822--15301037 Score: 299
Period size: 120 Copynumber: 1.8 Consensus size: 120
15300812 TCTCTAGCAT
* * * *
15300822 AAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGAA
1 AAATGCCTTCGGGACTCAGCCCGAATATAGCAACTCGCACAAATGCCTTCGGGACTCAGCCCGAA
* * *
15300887 ATTAGTAACTCGCACCAATGCCTTCGAGACTCAGCTCGGAATTAGTAACTCGCAC
66 ATTAATAACTAGCACAAATGCCTTCGAGACTCAGCTCGGAATTAGTAACTCGCAC
* * *
15300942 AAATGCCTTCGGGACTCAGCCCAGAAT-TAGTAACTGGCACAAATGCCTTCGGGACTCAGCCCGG
1 AAATGCCTTCGGGACTCAGCCC-GAATATAGCAACTCGCACAAATGCCTTCGGGACTCAGCCCGA
* * *
15301006 AATTAATCACTAGCACAAATGTCTTCGGGACT
65 AATTAATAACTAGCACAAATGCCTTCGAGACT
15301038 TAACCCCGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
120 79 0.96
121 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (120 bp):
AAATGCCTTCGGGACTCAGCCCGAATATAGCAACTCGCACAAATGCCTTCGGGACTCAGCCCGAA
ATTAATAACTAGCACAAATGCCTTCGAGACTCAGCTCGGAATTAGTAACTCGCAC
Found at i:15302572 original size:40 final size:40
Alignment explanation
Indices: 15302527--15302693 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15302517 CGGAATATAA
15302527 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
15302567 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
15302607 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
15302647 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15302686 CCGGATAT
1 CCGGATAT
15302694 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:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15302677 original size:80 final size:79
Alignment explanation
Indices: 15302527--15302693 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
15302517 CGGAATATAA
* *
15302527 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
15302592 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
15302607 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
15302669 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
15302686 CCGGATAT
1 CCGGATAT
15302694 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:15303541 original size:17 final size:19
Alignment explanation
Indices: 15303518--15303563 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
15303508 AAGAAGCATG
15303518 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
15303536 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
15303554 AATCATGCTC
1 AATCATGCTC
15303564 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:15310571 original size:40 final size:40
Alignment explanation
Indices: 15310526--15310691 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
15310516 CGGAATATAA
15310526 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
15310566 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
15310606 CCGGATATAACCACTAGCACAATTGCC-TCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
15310645 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15310684 CCGGATAT
1 CCGGATAT
15310692 TCATTCAATT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 45 0.43
40 60 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15310675 original size:79 final size:79
Alignment explanation
Indices: 15310526--15310691 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
15310516 CGGAATATAA
* *
15310526 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
15310591 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
15310606 CCGGATATAACCAC-TAGCACAATTGCC-TCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
15310667 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
15310684 CCGGATAT
1 CCGGATAT
15310692 TCATTCAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 17 0.23
79 35 0.47
80 23 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:15319255 original size:46 final size:46
Alignment explanation
Indices: 15319202--15319377 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
15319192 TATTTGGGCA
15319202 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
15319248 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
15319295 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
15319341 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15319378 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:15319357 original size:93 final size:93
Alignment explanation
Indices: 15319198--15319369 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
15319188 GGGATATTTG
* *
15319198 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
15319263 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
15319291 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
15319356 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
15319370 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:15322503 original size:40 final size:40
Alignment explanation
Indices: 15322401--15322584 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
15322391 AAATTGAATG
* * * * *
15322401 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
15322441 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
15322481 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * * *
15322521 AAATCCAGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
15322561 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
15322585 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.95
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:15325660 original size:53 final size:53
Alignment explanation
Indices: 15325586--15325791 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
15325576 ATTAGGGTTT
* * * *
15325586 AAGGATACCAAGTAAGACCATG-CTAAGGCATGGCATTGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATAGTAAGTTCATAAGGC
* * * * * *
15325639 AAGGATATCATGTAAGGCCATGTCAAGACATGGCATTAATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGT-AAGTTC-ATAAGGC
* * * * *
15325694 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATAGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
* * *
15325747 AATGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAAGTT
15325792 TAAAAAGGAA
Statistics
Matches: 124, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 77 0.62
54 8 0.06
55 39 0.31
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
Found at i:15331267 original size:55 final size:56
Alignment explanation
Indices: 15331202--15331316 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
15331192 AGCATGGCTG
* *
15331202 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
15331258 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
15331313 CCAG
1 CCAG
15331317 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:15331279 original size:27 final size:27
Alignment explanation
Indices: 15331227--15331316 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
15331217 GTGACAGAGT
15331227 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
15331256 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
15331283 CACCAGAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
15331311 CACCAG
1 CACCAG
15331317 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:15331312 original size:28 final size:27
Alignment explanation
Indices: 15331227--15331316 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
15331217 GTGACAGAGT
*
15331227 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
15331256 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
15331283 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
15331311 CACCAG
1 CACCAG
15331317 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:15331468 original size:28 final size:28
Alignment explanation
Indices: 15331424--15331513 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
15331414 TTAACCCTAG
* *
15331424 GGGTATAAAGGTCATTTTGCATACATAA
1 GGGTATAATGGTAATTTTGCATACATAA
15331452 GGGTATAATGGTAATTTTGCATACATAA
1 GGGTATAATGGTAATTTTGCATACATAA
* *
15331480 GGGTAAAATGGTAATTTTGCATACATAG
1 GGGTATAATGGTAATTTTGCATACATAA
15331508 GGGTAT
1 GGGTAT
15331514 TCTAGTACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.33
Consensus pattern (28 bp):
GGGTATAATGGTAATTTTGCATACATAA
Found at i:15344668 original size:28 final size:27
Alignment explanation
Indices: 15344636--15344708 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
15344626 GTTTGCTAAG
15344636 GACTATCTTATGC-GAAAAGTCCACCAC
1 GACTATCTTATGCGGAAAA-TCCACCAC
**
15344663 AGACTATCTTATGCGGAAAATCTGCCAC
1 -GACTATCTTATGCGGAAAATCCACCAC
*
15344691 GAACTATCTTATGTGGAA
1 G-ACTATCTTATGCGGAA
15344709 TGTCTGCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 34 0.85
29 5 0.12
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (27 bp):
GACTATCTTATGCGGAAAATCCACCAC
Found at i:15346737 original size:40 final size:40
Alignment explanation
Indices: 15346628--15346808 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
15346618 TATTCGGATG
* *
15346628 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
15346668 A-ATTCCAGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
15346707 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
15346747 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
* * *
15346787 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
15346809 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 50 0.40
40 75 0.60
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:15346759 original size:79 final size:80
Alignment explanation
Indices: 15346628--15346808 Score: 244
Period size: 79 Copynumber: 2.3 Consensus size: 80
15346618 TATTCGGATG
* *
15346628 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
*
15346692 TTTGTGCAAGTTA-CT
66 TTTGAGCAAG-TAGCT
* *
15346707 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCAGGCTAAGTCCCGAAGGC
15346771 ATTTGAGCAAGTAGCT
65 ATTTGAGCAAGTAGCT
* * *
15346787 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
15346809 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 63 0.69
80 26 0.29
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
TTTGAGCAAGTAGCT
Found at i:15350604 original size:88 final size:88
Alignment explanation
Indices: 15350424--15350606 Score: 253
Period size: 87 Copynumber: 2.1 Consensus size: 88
15350414 CCTGCATCAT
* *
15350424 CTCATTATCTTTTGTCGATCGAATAACAGAAAATGATGCACTGCTGCAAATCTTTTTCTGCATTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
* * *
15350489 TAACCTCTCACTTAATAAGAGTT
66 AAACCTCCCACTTAATAAGAGTA
* * * *
15350512 CTCATTGTC-TTTGTTGATCGAATAACAGAAAAAGATGCACTGCTGCAATTCTTTTTCTACGTTT
1 CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
15350576 GAAACCTCCCACTTAATAAGA-TAA
66 -AAACCTCCCACTTAATAAGAGT-A
15350600 CTCATTA
1 CTCATTA
15350607 CCTCGAAATG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
87 51 0.61
88 32 0.39
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (88 bp):
CTCATTATCTTTTGTCGATCGAATAACAGAAAAAGATGCACTGCTGCAAATCTTTTTCTACATTT
AAACCTCCCACTTAATAAGAGTA
Found at i:15353060 original size:3 final size:3
Alignment explanation
Indices: 15353054--15353084 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15353044 ATAATAAAAT
15353054 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
15353085 TGATCGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15362118 original size:28 final size:28
Alignment explanation
Indices: 15362059--15362129 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
15362049 ATCAACCACA
* *
15362059 CACACTTAGTGCCATGTACTTTAAACTCG
1 CACACTTAGTG-CATGCACTTTAAACCCG
*
15362088 CACACTTAGTGCATGCA-TTTCAAGCCCG
1 CACACTTAGTGCATGCACTTT-AAACCCG
15362116 CACACTTAGTGCAT
1 CACACTTAGTGCAT
15362130 TTCTCAACCG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 24 0.63
29 11 0.29
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCATGCACTTTAAACCCG
Found at i:15365187 original size:40 final size:40
Alignment explanation
Indices: 15365045--15365217 Score: 193
Period size: 40 Copynumber: 4.3 Consensus size: 40
15365035 GTATCTGGGC
* * * * * *
15365045 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGAGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGT
* * * *
15365086 CAATTCCCGAAGGCATTTGTGTGAGTTACCAAAACCAGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
15365126 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* * * * *
15365166 TAAGTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
*
15365206 TATGTCCCGAAG
1 TAAGTCCCGAAG
15365218 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 94 0.84
41 18 0.16
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
Found at i:15365238 original size:40 final size:40
Alignment explanation
Indices: 15365126--15365243 Score: 101
Period size: 40 Copynumber: 3.0 Consensus size: 40
15365116 AAAACCAGGT
* * * * * * * *
15365126 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGACAATCGAGCGAATTACTATAACCGGGC
* * *
15365166 TAAGTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGC
1 TAAGTCCCGAAGACAATCGAGCGAATTACTATAACCGGGC
* * * *
15365206 TATGTCCCGAAGACAATCGAGCGAGTTGCTATATCCGG
1 TAAGTCCCGAAGACAATCGAGCGAATTACTATAACCGG
15365244 TTAAATTCAG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TAAGTCCCGAAGACAATCGAGCGAATTACTATAACCGGGC
Found at i:15373273 original size:29 final size:29
Alignment explanation
Indices: 15373234--15373313 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
15373224 CTTAATAATC
*
15373234 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
15373264 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
15373293 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
15373314 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:15380994 original size:39 final size:39
Alignment explanation
Indices: 15380940--15381069 Score: 206
Period size: 39 Copynumber: 3.3 Consensus size: 39
15380930 ATGATATTTA
*
15380940 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
*
15380979 GAAACATATCAGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
* * *
15381018 GAAATATATCCGGACTTGAGGTCTGCAGGCTACGTGCTA
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
*
15381057 GAAATATATCCGG
1 GAAACATATCCGG
15381070 GCCTAAAGAC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (39 bp):
GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
Found at i:15381285 original size:2 final size:2
Alignment explanation
Indices: 15381278--15381309 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15381268 TCAAAGAATG
*
15381278 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15381310 GTGTAGATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15385262 original size:27 final size:28
Alignment explanation
Indices: 15385232--15385301 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
15385222 ATAATAAGTC
*
15385232 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
15385259 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
15385287 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15385302 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15393184 original size:27 final size:28
Alignment explanation
Indices: 15393154--15393223 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
15393144 ATAATAAGTC
*
15393154 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
15393181 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
15393209 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15393224 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15395686 original size:16 final size:16
Alignment explanation
Indices: 15395665--15395699 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15395655 CAATTTTCTA
*
15395665 AGATAGAAGACTGCTG
1 AGATAGAAGACTACTG
15395681 AGATAGAAGACTACTG
1 AGATAGAAGACTACTG
15395697 AGA
1 AGA
15395700 ATGGAGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (16 bp):
AGATAGAAGACTACTG
Found at i:15399652 original size:41 final size:41
Alignment explanation
Indices: 15399607--15399724 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
15399597 TGAAAGATAA
15399607 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
15399648 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15399678 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15399719 ATGTAG
1 ATGTAG
15399725 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:15399663 original size:71 final size:71
Alignment explanation
Indices: 15399575--15399738 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
15399565 GAGATGTATC
15399575 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15399640 AGGACA
66 AGGACA
15399646 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15399711 AGGACA
66 AGGACA
15399717 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15399739 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15401776 original size:20 final size:21
Alignment explanation
Indices: 15401751--15401818 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 21
15401741 GGATTCAATT
15401751 TTTTCTTCTTCTTTTC-CTTC
1 TTTTCTTCTTCTTTTCTCTTC
*
15401771 TTTTCTT-TTCTTTTCTATTC
1 TTTTCTTCTTCTTTTCTCTTC
* *
15401791 TTTTCATCTACTTTCTCTTCTTC
1 TTTTCTTCTTCTTT-TC-TCTTC
15401814 TTTTC
1 TTTTC
15401819 CTCCATAGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 8 0.20
20 16 0.40
21 5 0.12
22 2 0.05
23 9 0.22
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCTTCTTCTTTTCTCTTC
Found at i:15401778 original size:5 final size:5
Alignment explanation
Indices: 15401751--15401818 Score: 57
Period size: 5 Copynumber: 13.0 Consensus size: 5
15401741 GGATTCAATT
* * * *
15401751 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TATTC TTTTC ATCTAC
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
15401802 TTTCTC TTCTTC TTTTC
1 TTT-TC TT-TTC TTTTC
15401819 CTCCATAGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 3 0.06
5 31 0.62
6 15 0.30
7 1 0.02
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.69
Consensus pattern (5 bp):
TTTTC
Found at i:15405327 original size:17 final size:19
Alignment explanation
Indices: 15405285--15405328 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15405275 ATGAAATTTT
*
15405285 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
15405304 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
15405322 AA-TATTA
1 AATTATTA
15405329 CTCTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:15406266 original size:9 final size:10
Alignment explanation
Indices: 15406245--15406306 Score: 56
Period size: 10 Copynumber: 6.2 Consensus size: 10
15406235 GGATTCAGTT
15406245 TTTTCTTCTTC
1 TTTTC-TCTTC
15406256 TTTTC-CTTC
1 TTTTCTCTTC
*
15406265 TTTTCTTTTC
1 TTTTCTCTTC
*
15406275 TTTTCTTTTC
1 TTTTCTCTTC
* *
15406285 TCTTCATCTAC
1 TTTTC-TCTTC
15406296 -TTTCTCTTC
1 TTTTCTCTTC
15406305 TT
1 TT
15406307 CTTTCCCTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 13 0.31
10 21 0.50
11 8 0.19
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTCTCTTC
Found at i:15406272 original size:5 final size:5
Alignment explanation
Indices: 15406245--15406285 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
15406235 GGATTCAGTT
*
15406245 TTTTC TTCTTC TTTTC -CTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
15406286 CTTCATCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:15406274 original size:25 final size:27
Alignment explanation
Indices: 15406245--15406310 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 27
15406235 GGATTCAGTT
* *
15406245 TTTTCTTCTTCTTTTC-CTTC-TTTTC
1 TTTTCTTCTTCTTTTCTCTTCATCTAC
15406270 TTTTCTT-TTCTTTTCTCTTCATCTAC
1 TTTTCTTCTTCTTTTCTCTTCATCTAC
15406296 TTTCTCTTCTTCTTT
1 TTT-TCTTCTTCTTT
15406311 CCCTCCATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 8 0.23
25 11 0.31
26 6 0.17
27 4 0.11
28 6 0.17
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTCTTCTTCTTTTCTCTTCATCTAC
Found at i:15407067 original size:8 final size:8
Alignment explanation
Indices: 15407054--15407085 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
15407044 CTAGATCGGC
15407054 AAAAGCCG
1 AAAAGCCG
15407062 AAAAGCCG
1 AAAAGCCG
*
15407070 AAATGCCG
1 AAAAGCCG
15407078 AAAAGCCG
1 AAAAGCCG
15407086 GTATTTTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:15408311 original size:11 final size:11
Alignment explanation
Indices: 15408295--15408319 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15408285 TTTAGATAAA
15408295 ACAAGACCTAT
1 ACAAGACCTAT
15408306 ACAAGACCTAT
1 ACAAGACCTAT
15408317 ACA
1 ACA
15408320 GTAATGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (11 bp):
ACAAGACCTAT
Found at i:15412401 original size:60 final size:60
Alignment explanation
Indices: 15412308--15412428 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
15412298 GAGAAACCTT
15412308 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
1 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
*
15412368 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATATGGACTTCAGATACATTTC
1 TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
15412428 T
1 T
15412429 TAGAGGCTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (60 bp):
TCACAAATAATCTATAATAGCCGGCTAGTCCCAGAAAAATACGGACTTCAGATACATTTC
Found at i:15413240 original size:35 final size:35
Alignment explanation
Indices: 15413194--15413266 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
15413184 TGGATACTCG
15413194 CACACAACTTGTACTGATTCAATCTTTGTTTT-TGT
1 CACACAACTTGTACTGATTCAATCTTT-TTTTCTGT
* *
15413229 CACACAACTTGTACTGTTTCGATCTTTTTTTCTGT
1 CACACAACTTGTACTGATTCAATCTTTTTTTCTGT
15413264 CAC
1 CAC
15413267 TTTCTTATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (35 bp):
CACACAACTTGTACTGATTCAATCTTTTTTTCTGT
Found at i:15416926 original size:43 final size:43
Alignment explanation
Indices: 15416861--15417026 Score: 156
Period size: 43 Copynumber: 3.9 Consensus size: 43
15416851 AACTCGTACA
* * * *
15416861 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA-CG
* * ** * **
15416903 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCATAATGTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* *
15416946 ATGCCAATGTCCCAGACCTGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* * **
15416989 ATGCCAATGTCCCATACATGGCCTTACTTGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
15417027 TCTCAATAAG
Statistics
Matches: 97, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
42 5 0.05
43 90 0.93
44 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
Done.