Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 42 of 59
Found at i:15042516 original size:31 final size:31
Alignment explanation
Indices: 15042478--15042896 Score: 504
Period size: 31 Copynumber: 13.5 Consensus size: 31
15042468 GTCAGCGTTA
* *
15042478 GCGTGTGACAACATTTGACTCGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* * * * *
15042509 GCGTGTGACAATATTTGGCTCGACATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* *
15042540 GCGTGTCACAATATTTGACTGGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
15042571 GCGTGTCACAACATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
*
15042602 GCGTGTCACAACATTTTACTCT-ATATGCATG
1 GCGTGTCACAACATTTGACT-TGATATGCATG
* **
15042633 GCGTGTCACAACATTTTACTCAATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* *
15042664 GCGTGTCACAACATTTTACTCGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* * *
15042695 GTGTGTCACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* ** * *
15042726 GCATGTCACAAGGTTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* *
15042757 GCGTGTCACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* *
15042788 GCGTGTCATAACATTTTG-CTTGCTATGCATG
1 GCGTGTCACAACA-TTTGACTTGATATGCATG
*
15042819 GCGTGTCACAACATTTTG-CTTGCTATGCATG
1 GCGTGTCACAACA-TTTGACTTGATATGCATG
*
15042850 GCGTGTCACAACATTTTG-CTTGTTATGCATG
1 GCGTGTCACAACA-TTTGACTTGATATGCATG
*
15042881 GCGTTTCACAACATTT
1 GCGTGTCACAACATTT
15042897 ATTCCTTATT
Statistics
Matches: 357, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
30 3 0.01
31 350 0.98
32 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (31 bp):
GCGTGTCACAACATTTGACTTGATATGCATG
Found at i:15045083 original size:31 final size:31
Alignment explanation
Indices: 15045048--15045253 Score: 243
Period size: 31 Copynumber: 6.6 Consensus size: 31
15045038 TTAGCATGTG
* *
15045048 ACAACAATTTACTTGTTATGCATGGTGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
15045079 ACAACGTTTAACTTGTTATGCATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * ** * *
15045110 AGAACATTTT-GTAGGGCATCCATGGGGTGTC
1 ACAACATTTTACT-TGTTATGCATGGCGTGTC
*
15045141 ACAACATTTTTCTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
** * *
15045172 ACAATGTTTTACTTGTTGTGCATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
15045203 ACAACATTTTACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
15045234 ACAACATTTTACTTGTTATG
1 ACAACATTTTACTTGTTATG
15045254 GTTTGTGGTA
Statistics
Matches: 142, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
30 1 0.01
31 140 0.99
32 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (31 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTC
Found at i:15045209 original size:93 final size:93
Alignment explanation
Indices: 15045048--15045253 Score: 279
Period size: 93 Copynumber: 2.2 Consensus size: 93
15045038 TTAGCATGTG
* * *
15045048 ACAACAATTTACTTGTTATGCATGGTGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCAGA
1 ACAACATTTTACTTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCACA
* *
15045113 ACATTTT-GTAGGGCATCCATGGGGTGTC
66 ACATTTTACT-GGGCATCCATGGCGTGTC
* * * *
15045141 ACAACATTTTTCTTGTTATGCATGGCGTGTCACAATGTTTTACTTGTTGTGCATGGCATGTCACA
1 ACAACATTTTACTTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCACA
* ** *
15045206 ACATTTTACTTGTTATGCATGGCGTGTC
66 ACATTTTACTGGGCATCCATGGCGTGTC
15045234 ACAACATTTTACTTGTTATG
1 ACAACATTTTACTTGTTATG
15045254 GTTTGTGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 97 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (93 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTCACA
ACATTTTACTGGGCATCCATGGCGTGTC
Found at i:15046845 original size:17 final size:18
Alignment explanation
Indices: 15046820--15046853 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15046810 CAATTAATTT
15046820 TATAAACAATTT-TTTTG
1 TATAAACAATTTATTTTG
*
15046837 TATACACAATTTATTTT
1 TATAAACAATTTATTTT
15046854 TTACAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (18 bp):
TATAAACAATTTATTTTG
Found at i:15046890 original size:22 final size:22
Alignment explanation
Indices: 15046864--15046916 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
15046854 TTACAATTCA
15046864 TTGTATACAGAATTAATTCTTT
1 TTGTATACAGAATTAATTCTTT
15046886 TTGTATACAGAATTAATTCTTT
1 TTGTATACAGAATTAATTCTTT
15046908 TTGTATACA
1 TTGTATACA
15046917 CAATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (22 bp):
TTGTATACAGAATTAATTCTTT
Found at i:15046926 original size:74 final size:73
Alignment explanation
Indices: 15046827--15046980 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 73
15046817 TTTTATAAAC
* * * *
15046827 AATTTTTTTGTATACACAATTTATTTTTTACAATTCATTGTATACAGAATTAATTCTTTTTG-TA
1 AATTTTTTTGTATACACAATATATTTTATACAATTAATTGTATACACAATTAATT-TTTTTGCTA
*
15046891 TACAGAATT
65 TACACAATT
* *
15046900 AATTCTTTTTGTATACACAATATATTTTATGCAATTAATTTTATACACAATTAATTTTTTTGCCT
1 AATT-TTTTTGTATACACAATATATTTTATACAATTAATTGTATACACAATTAATTTTTTTG-CT
15046965 ATACACAATT
64 ATACACAATT
15046975 AATTTT
1 AATTTT
15046981 ATACCAATAA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
73 10 0.14
74 47 0.66
75 14 0.20
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (73 bp):
AATTTTTTTGTATACACAATATATTTTATACAATTAATTGTATACACAATTAATTTTTTTGCTAT
ACACAATT
Found at i:15046992 original size:53 final size:52
Alignment explanation
Indices: 15046889--15046994 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
15046879 ATTCTTTTTG
* *
15046889 TATACAGAATTAATTCTTTTTGTATACACAATATATTTTATGCAATTAATTT
1 TATACACAATTAATTCTTTTTGTATACACAATATATTTTATCCAATTAATTT
15046941 TATACACAATTAATT-TTTTTGCCTATACACAAT-TAATTTTATACCAA-TAATTT
1 TATACACAATTAATTCTTTTTG--TATACACAATAT-ATTTTAT-CCAATTAATTT
15046994 T
1 T
15046995 TTTTCTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
51 6 0.12
52 15 0.31
53 24 0.50
54 3 0.06
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (52 bp):
TATACACAATTAATTCTTTTTGTATACACAATATATTTTATCCAATTAATTT
Found at i:15046995 original size:15 final size:16
Alignment explanation
Indices: 15046911--15046957 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
15046901 ATTCTTTTTG
15046911 TATACACAA-TATATTT
1 TATACACAATTA-ATTT
*
15046927 TAT--GCAATTAATTT
1 TATACACAATTAATTT
15046941 TATACACAATTAATTT
1 TATACACAATTAATTT
15046957 T
1 T
15046958 TTTGCCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
16 14 0.54
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (16 bp):
TATACACAATTAATTT
Found at i:15048041 original size:31 final size:31
Alignment explanation
Indices: 15047989--15048252 Score: 339
Period size: 31 Copynumber: 8.5 Consensus size: 31
15047979 GTCAACGTTA
*
15047989 GCGTGTGACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
15048020 GCGTATCAAAACAATTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
15048051 GCGTGTCACAACGTTTAAGTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
15048082 GCGTGTCAGAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
15048113 GCGTGTCACAGCGTTTAACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
15048144 GTGTATCAGAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
15048175 GCGTGTCAGAATATTTTACTTGATATGCACG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
*
15048206 ACGTGTCACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
15048237 GCGTGTCACAACATTT
1 GCGTGTCACAACATTT
15048253 ATTCCTTATT
Statistics
Matches: 194, Mismatches: 39, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 194 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:15049291 original size:31 final size:31
Alignment explanation
Indices: 15049250--15049385 Score: 200
Period size: 31 Copynumber: 4.4 Consensus size: 31
15049240 CTGTAAAAAG
* * *
15049250 TCAGCGTGTCACACCATAAGTCTGCATTAAG
1 TCAGCATGTCACACCATAAGTCTGAATTAAC
* *
15049281 TTAGCATGTCACACCATAAGTTTGAATTAAC
1 TCAGCATGTCACACCATAAGTCTGAATTAAC
15049312 TCAGCATGTCACACCATAAGTCTGAATTAAC
1 TCAGCATGTCACACCATAAGTCTGAATTAAC
*
15049343 TCAGCGTGTCACACCATAAGTCTGAATTAAC
1 TCAGCATGTCACACCATAAGTCTGAATTAAC
* *
15049374 TAAGCGTGTCAC
1 TCAGCATGTCAC
15049386 CACAATTGGC
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 96 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (31 bp):
TCAGCATGTCACACCATAAGTCTGAATTAAC
Found at i:15053146 original size:31 final size:31
Alignment explanation
Indices: 15053079--15053153 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
15053069 TCATGTTGTT
*
15053079 ACACGCCATGCATATAACGTAAAATGTTGTA
1 ACACGCCATGCATATAACGTAAAATGTCGTA
* * *
15053110 ACACGCCATGCATATCAA-GTCATATGTCGTG
1 ACACGCCATGCATAT-AACGTAAAATGTCGTA
*
15053141 GCACGCCATGCAT
1 ACACGCCATGCAT
15053154 CACTATCGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (31 bp):
ACACGCCATGCATATAACGTAAAATGTCGTA
Found at i:15053269 original size:55 final size:55
Alignment explanation
Indices: 15053200--15053497 Score: 339
Period size: 55 Copynumber: 5.4 Consensus size: 55
15053190 TCGTTACACT
* * * *
15053200 AACAGCCGTGACATGCTAAAAACCTAAAAAACTAATTTACCCACAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCAGG
* * ** * *
15053255 AATAGCCGTGACATGCCCAAAACCCAAAAAACCAGTTAACCCACGACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCAGG
* * * * *
15053310 AACGGCAGTGACACG-TCAAAAACCC-ATAAATTCAGTTAACCCACGACACGCCAGG
1 AACAGCCGTGACACGCT-AAAAACCCAAAAAACT-AGTTAACCCACAACACGCCAGG
* * * * *
15053365 AACAGCCGTGACATGCTAACAACCTAAAACACTAGTTAACCCATAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCAGG
* * *
15053420 AACAACCGTGACACGCTAAAATAACCCAAAAAACTAGTTAACCCACAACATGCCAAG
1 AACAGCCGTGACACGCT-AAA-AACCCAAAAAACTAGTTAACCCACAACACGCCAGG
15053477 AACAGCCGTGACACGCTAAAA
1 AACAGCCGTGACACGCTAAAA
15053498 TAACGCTAAC
Statistics
Matches: 201, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
54 4 0.02
55 141 0.70
56 10 0.05
57 46 0.23
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.12
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACAACACGCCAGG
Found at i:15061117 original size:66 final size:66
Alignment explanation
Indices: 15061011--15061143 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
15061001 TCTTAGCTTT
*
15061011 CTAACGGTCCAAAAATCAGGTCAATTAGACTTCTGCATCGGGAGATATGATAGAAAAACTGGAAC
1 CTAACGGTCCAAAAATCAGGTCAATTAGACTTCTACATCGGGAGATATGATAGAAAAACTGGAAC
15061076 A
66 A
* * *
15061077 CTAACGGTCTAAAAATCAGGTTAATTAGACTTCTACATCGGGAGATATGATAGAAAAATTGGAAC
1 CTAACGGTCCAAAAATCAGGTCAATTAGACTTCTACATCGGGAGATATGATAGAAAAACTGGAAC
15061142 A
66 A
15061143 C
1 C
15061144 ATGCAAACTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (66 bp):
CTAACGGTCCAAAAATCAGGTCAATTAGACTTCTACATCGGGAGATATGATAGAAAAACTGGAAC
A
Found at i:15061591 original size:2 final size:2
Alignment explanation
Indices: 15061584--15061623 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15061574 AACATATGTN
*
15061584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
15061624 CTTAAGCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15072956 original size:9 final size:9
Alignment explanation
Indices: 15072942--15072980 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15072932 ACACGATTTA
*
15072942 TAACACGTT
1 TAACACGAT
15072951 TAACACGAT
1 TAACACGAT
* *
15072960 CAACACGTT
1 TAACACGAT
15072969 TAACACGAT
1 TAACACGAT
15072978 TAA
1 TAA
15072981 ATAAAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
TAACACGAT
Found at i:15072966 original size:18 final size:18
Alignment explanation
Indices: 15072943--15072977 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
15072933 CACGATTTAT
15072943 AACACGTTTAACACGATC
1 AACACGTTTAACACGATC
15072961 AACACGTTTAACACGAT
1 AACACGTTTAACACGAT
15072978 TAAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (18 bp):
AACACGTTTAACACGATC
Found at i:15073055 original size:15 final size:15
Alignment explanation
Indices: 15073031--15073070 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15073021 TTTAAAATCT
* *
15073031 ATAATTATAAAAATA
1 ATAATAATAAAAAAA
*
15073046 ATTATAATAAAAAAA
1 ATAATAATAAAAAAA
15073061 ATAATAATAA
1 ATAATAATAA
15073071 CATCAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAATAATAAAAAAA
Found at i:15073268 original size:18 final size:18
Alignment explanation
Indices: 15073241--15073286 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
15073231 TATTACGTAT
* *
15073241 ACACATTTAAACTCGAGA
1 ACACAATTAAACACGAGA
* *
15073259 ACACGATTAAACACGATA
1 ACACAATTAAACACGAGA
15073277 ACACAATTAA
1 ACACAATTAA
15073287 GTAAACGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.20
Consensus pattern (18 bp):
ACACAATTAAACACGAGA
Found at i:15078268 original size:28 final size:27
Alignment explanation
Indices: 15078218--15078288 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 27
15078208 TATGATGTGG
*
15078218 CATGTAACAAC--T-TTTTTATCATGA
1 CATGTAACAACTATATTTTTAGCATGA
*
15078242 CATGTAACAACTATATTTTTCAGCATGG
1 CATGTAACAACTATATTTTT-AGCATGA
* * *
15078270 TATGTAATAACTAAATTTT
1 CATGTAACAACTATATTTT
15078289 CAATACAACG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 11 0.29
26 1 0.03
27 5 0.13
28 21 0.55
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (27 bp):
CATGTAACAACTATATTTTTAGCATGA
Found at i:15078374 original size:55 final size:54
Alignment explanation
Indices: 15078301--15078455 Score: 170
Period size: 53 Copynumber: 2.9 Consensus size: 54
15078291 ATACAACGTG
* *
15078301 TAATTACATTTTTCAACATGACGTATAATAACTAAATCTTT-AACATGATGTGTAA
1 TAATTACATTTTTCAACATG-CGTATAACAACTAAAT-TTTCAACATGATGTGAAA
* * *
15078356 TAATTACATTTTTCAACAT-TGTGTAACAATTAAATTTTCAACATGATGTGAAA
1 TAATTACATTTTTCAACATGCGTATAACAACTAAATTTTCAACATGATGTGAAA
* * * * * *
15078409 CAATTACATTTTTTAACATGGCATGTAACAATTATATTTTCAACATG
1 TAATTACATTTTTCAACAT-GCGTATAACAACTAAATTTTCAACATG
15078456 GTATGTAACA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.03
53 42 0.48
55 42 0.48
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (54 bp):
TAATTACATTTTTCAACATGCGTATAACAACTAAATTTTCAACATGATGTGAAA
Found at i:15078466 original size:55 final size:54
Alignment explanation
Indices: 15078302--15078469 Score: 196
Period size: 55 Copynumber: 3.1 Consensus size: 54
15078292 TACAACGTGT
* * * * *
15078302 AATTACATTTTTCAACATGACGTATAATAACTAAATCTTT-AACATGATGTGTAAT
1 AATTACATTTTTCAACATGGC-TGTAACAATTAAAT-TTTCAACATGATGTGTAAC
* *
15078357 AATTACATTTTTCAACATTG-TGTAACAATTAAATTTTCAACATGATGTGAAAC
1 AATTACATTTTTCAACATGGCTGTAACAATTAAATTTTCAACATGATGTGTAAC
* * * *
15078410 AATTACATTTTTTAACATGGCATGTAACAATTATATTTTCAACATGGTATGTAAC
1 AATTACATTTTTCAACATGGC-TGTAACAATTAAATTTTCAACATGATGTGTAAC
15078465 AATTA
1 AATTA
15078470 TTTCCAACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 3 0.03
53 42 0.43
55 52 0.54
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (54 bp):
AATTACATTTTTCAACATGGCTGTAACAATTAAATTTTCAACATGATGTGTAAC
Found at i:15078470 original size:27 final size:28
Alignment explanation
Indices: 15078302--15078469 Score: 157
Period size: 27 Copynumber: 6.2 Consensus size: 28
15078292 TACAACGTGT
* * *
15078302 AATTACATTTTTCAACATGACGTATAAT
1 AATTACATTTTTCAACATGATGTGTAAC
* * * *
15078330 AACTAAATCTTT-AACATGATGTGTAAT
1 AATTACATTTTTCAACATGATGTGTAAC
15078357 AATTACATTTTTCAACAT--TGTGTAAC
1 AATTACATTTTTCAACATGATGTGTAAC
* *
15078383 AATTA-AATTTTCAACATGATGTGAAAC
1 AATTACATTTTTCAACATGATGTGTAAC
* ***
15078410 AATTACATTTTTTAACATGGCATGTAAC
1 AATTACATTTTTCAACATGATGTGTAAC
* * *
15078438 AATTATA-TTTTCAACATGGTATGTAAC
1 AATTACATTTTTCAACATGATGTGTAAC
15078465 AATTA
1 AATTA
15078470 TTTCCAACAT
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
25 11 0.09
26 12 0.10
27 57 0.49
28 36 0.31
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (28 bp):
AATTACATTTTTCAACATGATGTGTAAC
Found at i:15078477 original size:25 final size:27
Alignment explanation
Indices: 15078377--15078482 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
15078367 TTCAACATTG
* *
15078377 TGTAACAATTAAATTTTCAACAT-G-A
1 TGTAACAATTATATTTCCAACATGGCA
* **
15078402 TGTGAAACAATTACATTTTTTAACATGGCA
1 TGT--AACAATTATA-TTTCCAACATGGCA
* *
15078432 TGTAACAATTATATTTTCAACATGGTA
1 TGTAACAATTATATTTCCAACATGGCA
15078459 TGTAACAA-T-TATTTCCAACATGGC
1 TGTAACAATTATATTTCCAACATGGC
15078483 GTGTGTTAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
25 16 0.23
26 1 0.01
27 29 0.42
28 18 0.26
29 1 0.01
30 4 0.06
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (27 bp):
TGTAACAATTATATTTCCAACATGGCA
Found at i:15080784 original size:31 final size:29
Alignment explanation
Indices: 15080746--15080813 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
15080736 CAACTTAGCC
* *
15080746 CTTAATTGTAAGGAATTGAAAATGTTTGGCT
1 CTTAATTGTAA-CAATTG-AAACGTTTGGCT
*
15080777 CTTAATTGTTACAATTGAAACGTTTGGCT
1 CTTAATTGTAACAATTGAAACGTTTGGCT
*
15080806 TTTAATTG
1 CTTAATTG
15080814 AAAAAGTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.55
30 5 0.15
31 10 0.30
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (29 bp):
CTTAATTGTAACAATTGAAACGTTTGGCT
Found at i:15086364 original size:33 final size:36
Alignment explanation
Indices: 15086283--15086370 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 36
15086273 TGTTTACTAC
*
15086283 AAAAAGAAAATAAATAAATAAATAATTAATTAATGTAA
1 AAAAAGAAAATAAAT-AATAAATAA-TAAATAATGTAA
* *
15086321 AAAAATAAAATAAATAATAAATAA-AAATAAT-T-T
1 AAAAAGAAAATAAATAATAAATAATAAATAATGTAA
*
15086354 GAAAAGAAAATAAATAA
1 AAAAAGAAAATAAATAA
15086371 AGAAAAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 15 0.33
34 1 0.02
35 6 0.13
37 9 0.20
38 14 0.31
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.24
Consensus pattern (36 bp):
AAAAAGAAAATAAATAATAAATAATAAATAATGTAA
Found at i:15086370 original size:4 final size:4
Alignment explanation
Indices: 15086290--15086345 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
15086280 TACAAAAAGA
* * * *
15086290 AAAT AAAT AAAT AAAT AATT AATT AATGT AAAA AAAT AAAAT AAAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT -AAAT AAAT AAAT
15086339 AAAT AAA
1 AAAT AAA
15086346 AATAATTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
3 3 0.07
4 34 0.77
5 7 0.16
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:15086548 original size:18 final size:19
Alignment explanation
Indices: 15086521--15086558 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
15086511 AGCTCAATTC
15086521 GGGGGAAGGG-GGGGGGGG
1 GGGGGAAGGGTGGGGGGGG
*
15086539 GGGGGGAGGGTTGGGGGGGG
1 GGGGGAAGGG-TGGGGGGGG
15086559 CGGGTGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.87, T:0.05
Consensus pattern (19 bp):
GGGGGAAGGGTGGGGGGGG
Found at i:15086760 original size:15 final size:16
Alignment explanation
Indices: 15086742--15086801 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
15086732 TTTTTTTTGA
15086742 ATTTTTTTT-AAAAAT
1 ATTTTTTTTGAAAAAT
15086757 ATTTTTTTTTGAAATATAT
1 A-TTTTTTTTGAAA-A-AT
*
15086776 ATATTTTTTTGAAATAT
1 AT-TTTTTTTGAAAAAT
15086793 ATTTTTTTT
1 ATTTTTTTT
15086802 CTTGAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 1 0.03
16 15 0.38
17 7 0.18
18 2 0.05
19 14 0.36
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTTTTTTGAAAAAT
Found at i:15086765 original size:19 final size:18
Alignment explanation
Indices: 15086743--15086807 Score: 80
Period size: 19 Copynumber: 3.6 Consensus size: 18
15086733 TTTTTTTGAA
*
15086743 TTTTTTTT-AAAAATA-T
1 TTTTTTTTGAAATATATT
15086759 TTTTTTTTGAAATATATAT
1 TTTTTTTTGAAATATAT-T
*
15086778 ATTTTTTTGAAATATATT
1 TTTTTTTTGAAATATATT
15086796 TTTTTTCTTGAA
1 TTTTTT-TTGAA
15086808 TTTTTTTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 8 0.19
17 6 0.14
18 6 0.14
19 22 0.52
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTTTTGAAATATATT
Found at i:15090662 original size:42 final size:42
Alignment explanation
Indices: 15090574--15090699 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
15090564 TCTCCCATCG
* * * * * *
15090574 TCATCAGCTCATGTGCACTCCCCACTAGCACATGGCTGGGTTA
1 TCATCGGCTTATGTGCACT-CCCACTCGCACATAGCCGGGTCA
*
15090617 TCATCGGCTTATGTGCACTCCCACTCGCACATAGTCGGGTCA
1 TCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
* * *
15090659 TCATCGGCTTATGTACACTCCTACTCACACATAGCCGGGTC
1 TCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTC
15090700 CACATCAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 55 0.76
43 17 0.24
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (42 bp):
TCATCGGCTTATGTGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:15095351 original size:33 final size:34
Alignment explanation
Indices: 15095310--15095439 Score: 127
Period size: 33 Copynumber: 3.8 Consensus size: 34
15095300 AGGTAGTTGC
15095310 ATAGGTTCTACTTGAGCCTTGAAAAAACAAGTG-
1 ATAGGTTCTACTTGAGCCTTGAAAAAACAAGTGT
*
15095343 ATAGGTTCTACTTGATCCTTGAAAAAACAAGTGT
1 ATAGGTTCTACTTGAGCCTTGAAAAAACAAGTGT
* * * * * ***
15095377 AAAAGTTATGCTTGAGCCTATGAAAAAGCTCTTTGT
1 ATAGGTTCTACTTGAGCCT-TGAAAAAAC-AAGTGT
* * *
15095413 ATAGGTTATACTTCAACCTTGAAAAAA
1 ATAGGTTCTACTTGAGCCTTGAAAAAA
15095440 TATTTGAGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
33 32 0.41
34 14 0.18
35 15 0.19
36 17 0.22
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (34 bp):
ATAGGTTCTACTTGAGCCTTGAAAAAACAAGTGT
Found at i:15097438 original size:28 final size:29
Alignment explanation
Indices: 15097391--15097447 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
15097381 AAATTTATAT
* *
15097391 GCCTTTTCAAGGATCAGACATAA-CTTTA
1 GCCTTTCCAAGGATCAGACAGAACCTTTA
15097419 GCCTTTCCAAGGATTC-GACAGAACCTTTA
1 GCCTTTCCAAGGA-TCAGACAGAACCTTTA
15097448 TAACACTGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (29 bp):
GCCTTTCCAAGGATCAGACAGAACCTTTA
Found at i:15097994 original size:43 final size:44
Alignment explanation
Indices: 15097924--15098018 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 44
15097914 TTTTGCTTTC
* * *
15097924 TAAGAATCGATTCTTCATTCTTGAGATATTAGTTTTTCTT-GTT
1 TAAGAATCGATTCTTCATTCTTGAGATATCAGTTCTTCTTACTT
*
15097967 TAAGAATCGATTCTTGC-CTCTCT-AGATATCAGTTCTTCTTACTT
1 TAAGAATCGATTCTT-CATTCT-TGAGATATCAGTTCTTCTTACTT
15098011 TAAGAATC
1 TAAGAATC
15098019 AACATCTGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 33 0.73
44 12 0.27
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (44 bp):
TAAGAATCGATTCTTCATTCTTGAGATATCAGTTCTTCTTACTT
Found at i:15098029 original size:44 final size:43
Alignment explanation
Indices: 15097947--15098035 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 43
15097937 TTCATTCTTG
* * * * *
15097947 AGATATTAGTTTTTCTTGTTTAAGAATCGATTCTTGCCTCTCT
1 AGATATCAGTTCTTCTTCTTTAAGAATCAAATCTTGCCTCTCT
*
15097990 AGATATCAGTTCTTCTTACTTTAAGAATCAACATC-TGCCTTTCT
1 AGATATCAGTTCTTCTT-CTTTAAGAATCAA-ATCTTGCCTCTCT
15098034 AG
1 AG
15098036 GAATTGATTC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 15 0.39
44 21 0.55
45 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (43 bp):
AGATATCAGTTCTTCTTCTTTAAGAATCAAATCTTGCCTCTCT
Found at i:15104518 original size:35 final size:35
Alignment explanation
Indices: 15104479--15104593 Score: 167
Period size: 35 Copynumber: 3.3 Consensus size: 35
15104469 GAGTGCATGT
* * *
15104479 GATGATATTGAAGTGTGCAAGTAAGGAGTACACAC
1 GATGATATTGAAGTATGCAAGTAGGGAGTGCACAC
*
15104514 GATGATATTGAGGTATGCAAGTAGGGAGTGCACAC
1 GATGATATTGAAGTATGCAAGTAGGGAGTGCACAC
* *
15104549 GATGATATTGAAGTATGCGAGTAGGGAGTGCACAT
1 GATGATATTGAAGTATGCAAGTAGGGAGTGCACAC
*
15104584 AATGATATTG
1 GATGATATTG
15104594 CCTTGTGCGT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (35 bp):
GATGATATTGAAGTATGCAAGTAGGGAGTGCACAC
Found at i:15104608 original size:70 final size:69
Alignment explanation
Indices: 15104479--15104616 Score: 159
Period size: 70 Copynumber: 2.0 Consensus size: 69
15104469 GAGTGCATGT
* * *
15104479 GATGATATTGAAGTGTGCAAGTAAGGAGTACACACGATGATATTGAGGTATGCAAGTAGGGAGTG
1 GATGATATTGAAGTATGCAAGTAAGGAGTACACACAATGATATTGACGTATGCAAGTA-GGAGTG
15104544 CACAC
65 CACAC
* * * * * * * **
15104549 GATGATATTGAAGTATGCGAGTAGGGAGTGCACATAATGATATTGCCTTGTGCGTGTAGGAGTGC
1 GATGATATTGAAGTATGCAAGTAAGGAGTACACACAATGATATTGACGTATGCAAGTAGGAGTGC
15104614 ACA
66 ACA
15104617 TTGGCTAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
69 10 0.18
70 46 0.82
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (69 bp):
GATGATATTGAAGTATGCAAGTAAGGAGTACACACAATGATATTGACGTATGCAAGTAGGAGTGC
ACAC
Found at i:15107052 original size:43 final size:43
Alignment explanation
Indices: 15106982--15107113 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
15106972 GTAATTATAT
* *
15106982 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAAGCTGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTG-GTGA
* * * *
15107025 TGACCCGGTTATGTGCGAGTAGAGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
* * *
15107068 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
15107111 TGA
1 TGA
15107114 TGATGATGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 74 0.99
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCTGGTGA
Found at i:15108182 original size:47 final size:46
Alignment explanation
Indices: 15108113--15108206 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 46
15108103 GTGTCCATCT
* *
15108113 TTTGGTAGGTGTCTCGGCATTCAGTAGCTGTACATTCATCTGAGTC
1 TTTGGTAGGTGTCTCGGCATTCAGTAGCTATACATTCATCAGAGTC
15108159 NTTTGGT-GTGTGTCTCGGCATTCAGTAGCTATACATTCATCAGAGTC
1 -TTTGGTAG-GTGTCTCGGCATTCAGTAGCTATACATTCATCAGAGTC
15108206 T
1 T
15108207 CTCCGCTGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 2 0.05
47 42 0.95
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.37
Consensus pattern (46 bp):
TTTGGTAGGTGTCTCGGCATTCAGTAGCTATACATTCATCAGAGTC
Found at i:15109057 original size:26 final size:26
Alignment explanation
Indices: 15109010--15109061 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15109000 AAGCTAAAGC
* *
15109010 TTTATTTCTTCTGAGTTTTGTTTTTA
1 TTTATTTATTCTGAATTTTGTTTTTA
15109036 TTTATTTATT-TGAATTTATGTTTTTA
1 TTTATTTATTCTGAATTT-TGTTTTTA
15109062 GGCTTTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.17, C:0.04, G:0.10, T:0.69
Consensus pattern (26 bp):
TTTATTTATTCTGAATTTTGTTTTTA
Found at i:15111045 original size:20 final size:20
Alignment explanation
Indices: 15111020--15111088 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
15111010 CAATTCTATT
*
15111020 GATACATTTTGGAATGTATC
1 GATACATTTAGGAATGTATC
** * *
15111040 GATACATGCAAGGAATCTATT
1 GATACAT-TTAGGAATGTATC
*
15111061 GATACCTTTAGGAATGTATC
1 GATACATTTAGGAATGTATC
15111081 GATACATT
1 GATACATT
15111089 GCACACAGAA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
GATACATTTAGGAATGTATC
Found at i:15111933 original size:81 final size:80
Alignment explanation
Indices: 15111670--15111948 Score: 416
Period size: 80 Copynumber: 3.5 Consensus size: 80
15111660 ATAACATTTC
* * * * *
15111670 CATAAATCA-TCATCATACTTAGCCCATAATGTATATGACTATCTCAACACATACATCTCAAGGC
1 CATAAATCACTTA-CATGCTTAGCCCATAGTGTATATGACTATCTCAACATATACATCTCATGGC
15111734 ATACATTTCATAACCT
65 ATACATTTCATAACCT
* * *
15111750 CATAAATCATTTATATGCTTAGCCCATAGTATATATGACTATCTCAACATATACATCTCATGGCA
1 CATAAATCACTTACATGCTTAGCCCATAGTGTATATGACTATCTCAACATATACATCTCATGGCA
15111815 TACATTTCATAACCT
66 TACATTTCATAACCT
*
15111830 CATAAATCACTTACATGCTTAGCCTATAGTGTATATGACTATCTCAACATATACATCTCATTGGC
1 CATAAATCACTTACATGCTTAGCCCATAGTGTATATGACTATCTCAACATATACATCTCA-TGGC
*
15111895 ATATATTTCATAACCT
65 ATACATTTCATAACCT
* * *
15111911 CATAAATCACTTACATGTTTAGCCTATAGTGTACATGA
1 CATAAATCACTTACATGCTTAGCCCATAGTGTATATGA
15111949 TACACTTACA
Statistics
Matches: 183, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
80 126 0.69
81 57 0.31
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (80 bp):
CATAAATCACTTACATGCTTAGCCCATAGTGTATATGACTATCTCAACATATACATCTCATGGCA
TACATTTCATAACCT
Found at i:15117054 original size:3 final size:3
Alignment explanation
Indices: 15117046--15117073 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15117036 ATACATCTAA
15117046 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
15117074 AACGAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:15119913 original size:27 final size:28
Alignment explanation
Indices: 15119855--15119915 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
15119845 GTGTGTGTGT
* *
15119855 ATATATATAGTATATATATAGTTTCAAT
1 ATATATATAGTATATATATAGTTACAAA
*
15119883 ATATATATA-TATATATATAGTTAGAAA
1 ATATATATAGTATATATATAGTTACAAA
15119910 ATATAT
1 ATATAT
15119916 TTACCTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.70
28 9 0.30
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (28 bp):
ATATATATAGTATATATATAGTTACAAA
Found at i:15119915 original size:2 final size:2
Alignment explanation
Indices: 15119854--15119901 Score: 53
Period size: 2 Copynumber: 23.0 Consensus size: 2
15119844 AGTGTGTGTG
*
15119854 TA TA TA TA TA GTA TA TA TA TA GTT TCA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA
15119896 TA TA TA
1 TA TA TA
15119902 GTTAGAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 1 0.03
2 36 0.90
3 3 0.08
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15126262 original size:180 final size:180
Alignment explanation
Indices: 15125960--15126325 Score: 599
Period size: 180 Copynumber: 2.0 Consensus size: 180
15125950 TCAGAGGTGT
* * * *
15125960 CTTAAGAGATGATTATGGTAAGATCTTTCTTCAATTTTCTAAATCAACCAATTAGGGTGACGAGG
1 CTTAAGAGATGATTATGATAAGATCCTTCTTCAATTTTCTAAATCAACCAATTAAGGTGACAAGG
*
15126025 GTTTGGCTAAACTACTTGTTATTAAAAAAACCATGCTCCTCTCTGTTGCTTCTATGTGG-GTCAA
66 GTTTGGCTAAACTACTTGCTATTAAAAAAACCATGCTCCTCTCTGTTGCTTCTATGTGGAG-CAA
* * *
15126089 AACTCATGAACTCATCATCGAAAGTTACTCTTCAATTGTTGTGGAATGGAC
130 AACTCATGAACTCATCATCGAAAGTTACTCTTCAAATATGGTGGAATGGAC
* * *
15126140 CTTAAGAGATGATTGTGATAAGATCCTTCTTCAATTTTCTAAATCAACCGATTAAGGTGATAAGG
1 CTTAAGAGATGATTATGATAAGATCCTTCTTCAATTTTCTAAATCAACCAATTAAGGTGACAAGG
* *
15126205 GTTTGGCTAAACTACTTGCTATTAAAGAAACCATGCTCCTTTCTGTTGCTTCTATGTGGAGCAAA
66 GTTTGGCTAAACTACTTGCTATTAAAAAAACCATGCTCCTCTCTGTTGCTTCTATGTGGAGCAAA
15126270 ACTCATGAACTCATCATCGAAAGTTACTCTTCAAATATGGTGGAATGGAC
131 ACTCATGAACTCATCATCGAAAGTTACTCTTCAAATATGGTGGAATGGAC
15126320 CTTAAG
1 CTTAAG
15126326 TCCTGAATTT
Statistics
Matches: 172, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
180 171 0.99
181 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (180 bp):
CTTAAGAGATGATTATGATAAGATCCTTCTTCAATTTTCTAAATCAACCAATTAAGGTGACAAGG
GTTTGGCTAAACTACTTGCTATTAAAAAAACCATGCTCCTCTCTGTTGCTTCTATGTGGAGCAAA
ACTCATGAACTCATCATCGAAAGTTACTCTTCAAATATGGTGGAATGGAC
Found at i:15154691 original size:35 final size:35
Alignment explanation
Indices: 15154620--15154693 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
15154610 TTCCCTCAGC
* * *
15154620 TCATGTGCACTCCCACACCACACACAACTAGGTCA
1 TCATGAGCACTCCCACACCACACACAACAAGATCA
* ** *
15154655 TCATGAGCACTCCCACACCGCACATTACAATATCA
1 TCATGAGCACTCCCACACCACACACAACAAGATCA
15154690 TCAT
1 TCAT
15154694 CAACATCATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.38, G:0.09, T:0.20
Consensus pattern (35 bp):
TCATGAGCACTCCCACACCACACACAACAAGATCA
Found at i:15155406 original size:2 final size:2
Alignment explanation
Indices: 15155399--15155429 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15155389 AGCCTATCTT
*
15155399 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15155430 AAAATGTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:15162618 original size:12 final size:12
Alignment explanation
Indices: 15162601--15162637 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
15162591 ATTTTCATGA
15162601 ACATGTATCGAT
1 ACATGTATCGAT
15162613 ACATGT-TC-AT
1 ACATGTATCGAT
15162623 -CATGTATCGAT
1 ACATGTATCGAT
15162634 ACAT
1 ACAT
15162638 TACCCCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.23
10 4 0.18
11 4 0.18
12 9 0.41
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (12 bp):
ACATGTATCGAT
Found at i:15166697 original size:18 final size:19
Alignment explanation
Indices: 15166668--15166714 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
15166658 GTTACGGGTG
15166668 AAAA-AATATTTTA-AAAT
1 AAAATAATATTTTATAAAT
*
15166685 AAAATATTATTTTATAAAT
1 AAAATAATATTTTATAAAT
15166704 AAAATAATATT
1 AAAATAATATT
15166715 AAAATAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAATATTTTATAAAT
Found at i:15167093 original size:16 final size:15
Alignment explanation
Indices: 15167072--15167104 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
15167062 ATTTGAAAGG
15167072 AATAAAATAAATAAAT
1 AATAAAAT-AATAAAT
15167088 AATAAAATAATAAAT
1 AATAAAATAATAAAT
15167103 AA
1 AA
15167105 ATGAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:15167514 original size:32 final size:34
Alignment explanation
Indices: 15167478--15167546 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
15167468 AGTGAGAAAG
15167478 AAAGGCTG-TGTT-GCTACCAGTTTGTGAAGGAA
1 AAAGGCTGTTGTTGGCTACCAGTTTGTGAAGGAA
* ** * *
15167510 AAAGGGTGTTGTTGGCTGTCGGTTTGTGCAGGAA
1 AAAGGCTGTTGTTGGCTACCAGTTTGTGAAGGAA
15167544 AAA
1 AAA
15167547 TTAAGGTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 7 0.23
33 4 0.13
34 19 0.63
ACGTcount: A:0.26, C:0.10, G:0.35, T:0.29
Consensus pattern (34 bp):
AAAGGCTGTTGTTGGCTACCAGTTTGTGAAGGAA
Found at i:15168464 original size:59 final size:60
Alignment explanation
Indices: 15168332--15168570 Score: 333
Period size: 60 Copynumber: 4.0 Consensus size: 60
15168322 TTTGATTTAA
* *
15168332 AAAAGGGGACCTGAAGCCCCGATTTATATATGATGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * *
15168392 AAAAAGGGACCTGAAGCCCCAATTTATGTATGGTGGCGT-GGTAGTTCCCACGGGTAGGT
1 AAAAGGGGACCTGAAGCCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
*
15168451 -AAAGGGAGACCTGAAGCCCCGATTTATGTATAGTGGCGTGGGTAGTTCCCACGAGTAGGT
1 AAAAGGG-GACCTGAAGCCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
* * * *
15168511 AAAAAAGGGGACCTGAAGCCTCGATTCAT-T-TGGTGGCGTGGGCAGTTCCCACAAGTAGGT
1 --AAAAGGGGACCTGAAGCCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
15168571 GATGATGTCG
Statistics
Matches: 160, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
58 5 0.03
59 49 0.31
60 81 0.51
61 1 0.01
62 18 0.11
63 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (60 bp):
AAAAGGGGACCTGAAGCCCCGATTTATGTATGGTGGCGTGGGTAGTTCCCACGAGTAGGT
Found at i:15168550 original size:119 final size:119
Alignment explanation
Indices: 15168333--15168562 Score: 351
Period size: 119 Copynumber: 1.9 Consensus size: 119
15168323 TTGATTTAAA
15168333 AAAGGGGACCTGAAGCCCCGATTTATATATGATGGCGTGGGTAGTTCCCACGAGTAGGTAAAAAG
1 AAAGGGGACCTGAAGCCCCGATTTATATATGATGGCGTGGGTAGTTCCCACGAGTAGGTAAAAAG
* *
15168398 GGACCTGAAGCCCCAATTTATGTATGGTGGCGT-GGTAGTTCCCACGGGTAGGT
66 GGACCTGAAGCCCCAATTCATGTATGGTGGCGTGGGCAGTTCCCACGGGTAGGT
*
15168451 AAAGGGAGACCTGAAGCCCCGATTTATGTAT-AGTGGCGTGGGTAGTTCCCACGAGTAGGTAAAA
1 AAAGGG-GACCTGAAGCCCCGATTTATATATGA-TGGCGTGGGTAGTTCCCACGAGTAGGT-AAA
* *
15168515 AAGGGGACCTGAAGCCTCGATTCAT-T-TGGTGGCGTGGGCAGTTCCCAC
63 AA-GGGACCTGAAGCCCCAATTCATGTATGGTGGCGTGGGCAGTTCCCAC
15168563 AAGTAGGTGA
Statistics
Matches: 102, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
118 7 0.07
119 59 0.58
120 17 0.17
121 19 0.19
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (119 bp):
AAAGGGGACCTGAAGCCCCGATTTATATATGATGGCGTGGGTAGTTCCCACGAGTAGGTAAAAAG
GGACCTGAAGCCCCAATTCATGTATGGTGGCGTGGGCAGTTCCCACGGGTAGGT
Found at i:15176398 original size:103 final size:102
Alignment explanation
Indices: 15176219--15176423 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 102
15176209 ATATATCAAT
15176219 CACATGAGCCAAGTATGCCGAATATCCCTTTCGCACCAATTTCAAAGCTTCGAGGGCTGAGATTA
1 CACATGAGCCAAGTATGCCGAATATCCCTTTCGCACCAATTTCAAAGCTTCGAGGGCTGAGATTA
15176284 CACAAAACGGTAATACTCGACATTCCCCCGTAAAGAC
66 CACAAAACGGTAATACTCGACATTCCCCCGTAAAGAC
15176321 NCACATGAGCCAAGTATGCCGAATATCCCTTTCGCACCAATTTCAAAGCTTCGAGGGCTGAGATT
1 -CACATGAGCCAAGTATGCCGAATATCCCTTTCGCACCAATTTCAAAGCTTCGAGGGCTGAGATT
15176386 ACACAAAACGGTAATACTCGACATTCCCCCGTAAAGAC
65 ACACAAAACGGTAATACTCGACATTCCCCCGTAAAGAC
15176424 AACTTCTGCT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (102 bp):
CACATGAGCCAAGTATGCCGAATATCCCTTTCGCACCAATTTCAAAGCTTCGAGGGCTGAGATTA
CACAAAACGGTAATACTCGACATTCCCCCGTAAAGAC
Found at i:15182152 original size:20 final size:21
Alignment explanation
Indices: 15182122--15182160 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15182112 AAAAACGCGA
15182122 TTTTCCCTTTGAATTTTCTAG
1 TTTTCCCTTTGAATTTTCTAG
*
15182143 TTTT-CCTTTGATTTTTCT
1 TTTTCCCTTTGAATTTTCT
15182161 CTTTTCTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.18, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTTCCCTTTGAATTTTCTAG
Found at i:15191727 original size:43 final size:43
Alignment explanation
Indices: 15191680--15191781 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 43
15191670 AATCATTATG
** * * *
15191680 CTTGATATTCTTAATATGCAATGCTACGTTTCCAAGCATAATA
1 CTTGATAACCTTAATATGCAATACTACGGTTCCAAGAATAATA
* * *
15191723 CTTGATAACCTTGATTTGGAATACTACGGTTCCAAGAATAATA
1 CTTGATAACCTTAATATGCAATACTACGGTTCCAAGAATAATA
* *
15191766 GTTAATAACCTTAATA
1 CTTGATAACCTTAATA
15191782 CTGTTTAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (43 bp):
CTTGATAACCTTAATATGCAATACTACGGTTCCAAGAATAATA
Found at i:15197124 original size:20 final size:19
Alignment explanation
Indices: 15197099--15197140 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
15197089 CTATTAGGAC
15197099 ATTCACAATTATTAAAATAA
1 ATTCACAATTATTAAAA-AA
*
15197119 ATTCACAATTATTTAAAAA
1 ATTCACAATTATTAAAAAA
15197138 ATT
1 ATT
15197141 TTACAGACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCACAATTATTAAAAAA
Found at i:15201715 original size:19 final size:20
Alignment explanation
Indices: 15201691--15201730 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15201681 CTCTCTCATC
*
15201691 CCACCCA-TTAAAATTGGAA
1 CCACCCATTTAAAATTAGAA
15201710 CCACCCATTTAAAATTAGAA
1 CCACCCATTTAAAATTAGAA
15201730 C
1 C
15201731 TTAGGATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (20 bp):
CCACCCATTTAAAATTAGAA
Found at i:15205882 original size:21 final size:19
Alignment explanation
Indices: 15205846--15205886 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
15205836 ACATGTTGAG
15205846 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
15205865 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
15205886 T
1 T
15205887 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:15221063 original size:25 final size:25
Alignment explanation
Indices: 15221024--15221073 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15221014 TATGAGCTAC
** *
15221024 AGTTTTATTTCTTTTGGGTTATGTT
1 AGTTTTATTGATTTTGAGTTATGTT
*
15221049 AGTTTTATTGATTTTGATTTATGTT
1 AGTTTTATTGATTTTGAGTTATGTT
15221074 TTTATTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (25 bp):
AGTTTTATTGATTTTGAGTTATGTT
Found at i:15221079 original size:22 final size:22
Alignment explanation
Indices: 15221051--15221099 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
15221041 GTTATGTTAG
15221051 TTTTATTGATTTTG-ATTTATGT
1 TTTTATTGA-TTTGCATTTATGT
*
15221073 TTTTATTTATTTGCATTTATGT
1 TTTTATTGATTTGCATTTATGT
15221095 TTTTA
1 TTTTA
15221100 GGTTTTAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.18, C:0.02, G:0.10, T:0.69
Consensus pattern (22 bp):
TTTTATTGATTTGCATTTATGT
Found at i:15226970 original size:59 final size:56
Alignment explanation
Indices: 15226859--15227022 Score: 175
Period size: 59 Copynumber: 2.8 Consensus size: 56
15226849 TGGCAGCTTT
* * * * *
15226859 AATATGTTTTGACTTAATTTAGACAAGAAAATGTGTTTGATCTTAATTTAGATAAAAA
1 AATATG-TTTGTCTTAATTTAGACAAAAAAATATTTTTG-TCTTAATCTAGATAAAAA
*
15226917 AATATGTTTGTCTTAATTTAAGACAATAAAAATATTTTTTGTCTTAATCTAGATAAGAA
1 AATATGTTTGTCTTAATTT-AGACAA-AAAAATA-TTTTTGTCTTAATCTAGATAAAAA
** * *
15226976 AGCATATTTGTCTCAATTTAGACAAGATAAAATATTTTTGTCTTAAT
1 AATATGTTTGTCTTAATTTAGACAA-A-AAAATATTTTTGTCTTAAT
15227023 TAAAGACAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 12 0.13
58 32 0.35
59 42 0.46
60 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (56 bp):
AATATGTTTGTCTTAATTTAGACAAAAAAATATTTTTGTCTTAATCTAGATAAAAA
Found at i:15227010 original size:28 final size:27
Alignment explanation
Indices: 15226866--15227033 Score: 122
Period size: 28 Copynumber: 5.8 Consensus size: 27
15226856 TTTAATATGT
* * *
15226866 TTTGACTTAATTTAGACAAGAAAATGTG
1 TTTGTCTTAATTTAGACAAGAAAA-ATA
*
15226894 TTTGATCTTAATTTAGATAA-AAAAATA
1 TTTG-TCTTAATTTAGACAAGAAAAATA
*
15226921 TGTTTGTCTTAATTTAAGACAATAAAAATA
1 --TTTGTCTTAATTT-AGACAAGAAAAATA
* * *
15226951 TTTTTTGTCTTAATCTAGATAAGAAAGCATA
1 ---TTTGTCTTAATTTAGACAAGAAA-AATA
*
15226982 TTTGTCTCAATTTAGACAAGATAAAATA
1 TTTGTCTTAATTTAGACAAGA-AAAATA
*
15227010 TTTTTGTCTTAATTAAAGACAAGA
1 --TTTGTCTTAATT-TAGACAAGA
15227034 GTTGTCTTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 38 0.34
29 24 0.21
30 26 0.23
31 24 0.21
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (27 bp):
TTTGTCTTAATTTAGACAAGAAAAATA
Found at i:15227032 original size:31 final size:29
Alignment explanation
Indices: 15226859--15227033 Score: 135
Period size: 29 Copynumber: 5.9 Consensus size: 29
15226849 TGGCAGCTTT
* *
15226859 AATATGTTTTGACTTAATTTAGACAAG-AA
1 AATAT-TTTTGTCTTAATTAAGACAAGAAA
* * * *
15226888 AATGTGTTTGATCTTAATTTAGATAA-AAA
1 AATATTTTTG-TCTTAATTAAGACAAGAAA
* *
15226917 AATATGTTTGTCTTAATTTAAGACAATAAA
1 AATATTTTTGTCTTAA-TTAAGACAAGAAA
*
15226947 AATATTTTTTGTCTTAATCT-AGATAAGAAA
1 AATA-TTTTTGTCTTAAT-TAAGACAAGAAA
* * *
15226977 GCATA--TTTGTCTCAATTTAGACAAGATAA
1 -AATATTTTTGTCTTAATTAAGACAAGA-AA
15227006 AATATTTTTGTCTTAATTAAAGACAAGA
1 AATATTTTTGTCTTAATT-AAGACAAGA
15227034 GTTGTCTTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
27 1 0.01
28 30 0.25
29 37 0.31
30 27 0.23
31 23 0.19
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (29 bp):
AATATTTTTGTCTTAATTAAGACAAGAAA
Found at i:15227197 original size:17 final size:17
Alignment explanation
Indices: 15227175--15227207 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15227165 ATAACAATAA
15227175 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
15227192 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
15227208 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:15228282 original size:16 final size:16
Alignment explanation
Indices: 15228263--15228296 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15228253 GAAAAAGAAT
*
15228263 TTTTCTTATTTTAAAA
1 TTTTCTTATTATAAAA
*
15228279 TTTTGTTATTATAAAA
1 TTTTCTTATTATAAAA
15228295 TT
1 TT
15228297 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTCTTATTATAAAA
Found at i:15239306 original size:2 final size:2
Alignment explanation
Indices: 15239299--15239334 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15239289 ATCATTTGAA
15239299 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
15239335 TAGACGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15245188 original size:34 final size:35
Alignment explanation
Indices: 15245126--15245196 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 35
15245116 TTGGTTGCTG
* *
15245126 AAAATTTGAGCTGTTTGCTGCCAATTTGTGC-AGA
1 AAAATTGGAGCTGTTTACTGCCAATTTGTGCAAGA
** *
15245160 AAAATTGGAGCTGTTTACTGGTAGTTTGTGCAAGA
1 AAAATTGGAGCTGTTTACTGCCAATTTGTGCAAGA
15245195 AA
1 AA
15245197 TTTGGACAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
AAAATTGGAGCTGTTTACTGCCAATTTGTGCAAGA
Found at i:15245365 original size:22 final size:22
Alignment explanation
Indices: 15245337--15245384 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
15245327 GAGAGGAAAG
15245337 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
*
15245359 GAAGAGAGGAAGCCATGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
15245381 GAAG
1 GAAG
15245385 GGAGTGACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.46, T:0.10
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:15248800 original size:15 final size:15
Alignment explanation
Indices: 15248769--15248806 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
15248759 AATTTTCCAT
*
15248769 TTTCTTTT-CCTTTC
1 TTTCTTTTCCCTTCC
15248783 TTTCTTTTCCCTTCC
1 TTTCTTTTCCCTTCC
15248798 TTTCTTTTC
1 TTTCTTTTC
15248807 TTACTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTCTTTTCCCTTCC
Found at i:15249040 original size:2 final size:2
Alignment explanation
Indices: 15249033--15249071 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15249023 TTTATGGGTG
15249033 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
15249072 TCAGATTTTA
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:15249807 original size:74 final size:77
Alignment explanation
Indices: 15249684--15249855 Score: 242
Period size: 77 Copynumber: 2.3 Consensus size: 77
15249674 GTGCGTTTGT
* * * *
15249684 GGTGTGGGAGTGCACATGACGGTGATGATGGTGTGCTGTGTGGGAGTGCACACG-G-TGATGATA
1 GGTGTGGGAGTGCACATGATGGGGATGATGGTGTGCGGGGTGGGAGTGCACACGAGATGATGATA
*
15249747 TTTGCCATGTGC
66 TATGCCATGTGC
*
15249759 GGTGTGGGAGTGCACATGATGGGGATG-TGGTGTGCGGGGTGGGAGTGCACACGACGATGATTAT
1 GGTGTGGGAGTGCACATGATGGGGATGATGGTGTGCGGGGTGGGAGTGCACACGA-GATGATGAT
15249823 ATATGCCATGTGC
65 ATATGCCATGTGC
* *
15249836 GTTGCGGGAGTGCACATGAT
1 GGTGTGGGAGTGCACATGAT
15249856 ATTTTCCATG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 24 0.28
75 25 0.29
76 1 0.01
77 36 0.42
ACGTcount: A:0.19, C:0.13, G:0.42, T:0.26
Consensus pattern (77 bp):
GGTGTGGGAGTGCACATGATGGGGATGATGGTGTGCGGGGTGGGAGTGCACACGAGATGATGATA
TATGCCATGTGC
Found at i:15251363 original size:15 final size:13
Alignment explanation
Indices: 15251329--15251355 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15251319 AAGTCAAGAT
15251329 ATGAAAAAAATGA
1 ATGAAAAAAATGA
15251342 ATGAAAAAAATGA
1 ATGAAAAAAATGA
15251355 A
1 A
15251356 AATGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAAAATGA
Found at i:15254963 original size:67 final size:67
Alignment explanation
Indices: 15254776--15254963 Score: 200
Period size: 68 Copynumber: 2.8 Consensus size: 67
15254766 GAATTCCATA
* * * * * *
15254776 ATGCTAAGTATATGATGTAAATTCCATATACTATATGAGATAATTAAGAATGCATGATAAATGGC
1 ATGCT-AGTATATGATGTAAATTCCATATACCACATGAGATAATAAAGAGTACATGATAAATGGA
*
15254841 TTT
65 TTG
* * *
15254844 AAGCTATGTATATGATGTAAATTTCATATACCACATGAGATGATGAAA-AGTACATGATAAAT-G
1 ATGCTA-GTATATGATGTAAATTCCATATACCACATGAGATAAT-AAAGAGTACATGATAAATGG
15254907 ATATG
64 AT-TG
* * * *
15254912 ATGCTAGTATGTGAGGCAAATTCCACATACCACATGAGATAATAAAGAGTAC
1 ATGCTAGTATATGATGTAAATTCCATATACCACATGAGATAATAAAGAGTAC
15254964 TTATTGAAGG
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
66 3 0.03
67 39 0.39
68 55 0.56
69 2 0.02
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (67 bp):
ATGCTAGTATATGATGTAAATTCCATATACCACATGAGATAATAAAGAGTACATGATAAATGGAT
TG
Found at i:15255212 original size:32 final size:32
Alignment explanation
Indices: 15255171--15255243 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
15255161 TATTAGATAT
*
15255171 GCCCAAGGTGCAATGGGGTTTATACATTACTG
1 GCCCAAGGTGCAATGGGGTTTATACATTACTA
15255203 GCCCAAGGTGCAATGGGGTTTATACATTACTA
1 GCCCAAGGTGCAATGGGGTTTATACATTACTA
*
15255235 GCCGAAGGT
1 GCCCAAGGT
15255244 TGATGGGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (32 bp):
GCCCAAGGTGCAATGGGGTTTATACATTACTA
Found at i:15259409 original size:42 final size:42
Alignment explanation
Indices: 15259342--15259446 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
15259332 GTTGTGTAAT
* * *
15259342 GATATTGACCCGGCTATGTGAGAGTAAGAGTGTGCATAAGCC
1 GATACTGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCC
* * * *
15259384 GATGCTGACCCGACTATGTGCGAGTAGGAGTGCGTATAAGCC
1 GATACTGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCC
*
15259426 GATACTGACCCGGTTATGTGC
1 GATACTGACCCGGCTATGTGC
15259447 TAATGGGAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (42 bp):
GATACTGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCC
Found at i:15259456 original size:42 final size:42
Alignment explanation
Indices: 15259342--15259458 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
15259332 GTTGTGTAAT
* * * * * * *
15259342 GATATTGACCCGGCTATGTGAGAGTAAGAGTGTGCATAAGCC
1 GATACTGACCCGACTATGTGCGAATAGGAGTGCGTATAAGCC
* *
15259384 GATGCTGACCCGACTATGTGCGAGTAGGAGTGCGTATAAGCC
1 GATACTGACCCGACTATGTGCGAATAGGAGTGCGTATAAGCC
** * *
15259426 GATACTGACCCGGTTATGTGCTAATGGGAGTGC
1 GATACTGACCCGACTATGTGCGAATAGGAGTGC
15259459 ATAGGAGCTG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (42 bp):
GATACTGACCCGACTATGTGCGAATAGGAGTGCGTATAAGCC
Found at i:15264537 original size:29 final size:31
Alignment explanation
Indices: 15264480--15264538 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
15264470 ATTAGTTACT
* *
15264480 AATTTACTAGATTATATACTATTTCAAAAGA
1 AATTTACTAGAATATATACAATTTCAAAAGA
*
15264511 AATTTGCTAGAATATATA-AATTT-AAAAG
1 AATTTACTAGAATATATACAATTTCAAAAG
15264539 TAGTCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 16 0.64
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.37
Consensus pattern (31 bp):
AATTTACTAGAATATATACAATTTCAAAAGA
Found at i:15274067 original size:7 final size:7
Alignment explanation
Indices: 15274055--15274081 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15274045 AAGATTGTAC
15274055 AAGATTG
1 AAGATTG
15274062 AAGATTG
1 AAGATTG
15274069 AAGATTG
1 AAGATTG
15274076 AAGATT
1 AAGATT
15274082 TAACAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (7 bp):
AAGATTG
Found at i:15279806 original size:20 final size:20
Alignment explanation
Indices: 15279781--15279821 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15279771 ATAAGCCTTG
*
15279781 TTGATTTTTATGAAATGAAA
1 TTGATTTATATGAAATGAAA
15279801 TTGATTTATATGAAATGAAA
1 TTGATTTATATGAAATGAAA
15279821 T
1 T
15279822 GAGATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGATTTATATGAAATGAAA
Found at i:15279837 original size:25 final size:25
Alignment explanation
Indices: 15279790--15279839 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15279780 GTTGATTTTT
*
15279790 ATGAAATGAAATTGATTTATATGAA
1 ATGAAATGAAATTGATGTATATGAA
*
15279815 ATGAAATGAGATTTGATGT-TATGAA
1 ATGAAATGA-AATTGATGTATATGAA
15279840 TCATATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGAAATGAAATTGATGTATATGAA
Found at i:15285376 original size:23 final size:23
Alignment explanation
Indices: 15285331--15285389 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
15285321 TTTATTGAAA
*
15285331 AAATAAATAGAGAT-TAATGAAAAT
1 AAATAAATA-A-ATATAATAAAAAT
15285355 AAATAAATAAATATAATAAAAAT
1 AAATAAATAAATATAATAAAAAT
*
15285378 AACTAAA-AAATA
1 AAATAAATAAATA
15285390 AGAGTTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.22
23 16 0.50
24 9 0.28
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (23 bp):
AAATAAATAAATATAATAAAAAT
Found at i:15285887 original size:20 final size:21
Alignment explanation
Indices: 15285864--15285916 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
15285854 TTCTTCTTGA
*
15285864 CTTTG-AATGATGGCATCAGT
1 CTTTGTAATGAAGGCATCAGT
* *
15285884 CTTTGTCATGAAGGCATCTGT
1 CTTTGTAATGAAGGCATCAGT
*
15285905 CTTTGTCATGAA
1 CTTTGTAATGAA
15285917 TTGCATGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (21 bp):
CTTTGTAATGAAGGCATCAGT
Found at i:15285899 original size:21 final size:21
Alignment explanation
Indices: 15285870--15285916 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15285860 TTGACTTTGA
*
15285870 ATGATGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
*
15285891 ATGAAGGCATCTGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
15285912 ATGAA
1 ATGAA
15285917 TTGCATGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:15298705 original size:120 final size:117
Alignment explanation
Indices: 15298492--15298728 Score: 447
Period size: 120 Copynumber: 2.0 Consensus size: 117
15298482 TCATCAATAC
15298492 TCATCACAAATTTCCAACAAAATTAATAATGTGAAGTAAGTCAACAATATTTATTAAAAAAATGA
1 TCATCACAAATTTCCAACAAAATTAATAATGTGAAGTAAGTCAACAATATTTATTAAAAAAATGA
15298557 AAAAAAAACAAGAAAAAAAGAATATATACACATATATATAAATATAGAAAGAAA
66 AAAAAAAACAAGAAAAAAAGAATATATACACATATATATAAATAT-G-AAGAAA
15298611 NTCATCACAAATTTCCAACAAAATTAATAATGTGAAGTAAGTCAACAATATTTATTAAAAAAATG
1 -TCATCACAAATTTCCAACAAAATTAATAATGTGAAGTAAGTCAACAATATTTATTAAAAAAATG
15298676 AAAAAAAAACAAGAAAAAAAGAATATATACACATATATATAAATATGAAGAAA
65 AAAAAAAAACAAGAAAAAAAGAATATATACACATATATATAAATATGAAGAAA
15298729 AGAAATATTG
Statistics
Matches: 117, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
118 6 0.05
119 1 0.01
120 110 0.94
ACGTcount: A:0.59, C:0.09, G:0.08, T:0.24
Consensus pattern (117 bp):
TCATCACAAATTTCCAACAAAATTAATAATGTGAAGTAAGTCAACAATATTTATTAAAAAAATGA
AAAAAAAACAAGAAAAAAAGAATATATACACATATATATAAATATGAAGAAA
Found at i:15302566 original size:25 final size:25
Alignment explanation
Indices: 15302538--15302586 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15302528 TTTCTTTTTA
* *
15302538 ATTGGGTCATG-CCCATTCTTCCTTT
1 ATTGGATCATGTCCAATT-TTCCTTT
15302563 ATTGGATCATGTCCAATTTTCCTT
1 ATTGGATCATGTCCAATTTTCCTT
15302587 GCTTGTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTGGATCATGTCCAATTTTCCTTT
Found at i:15302628 original size:5 final size:5
Alignment explanation
Indices: 15302618--15302678 Score: 81
Period size: 5 Copynumber: 12.4 Consensus size: 5
15302608 TTCCTTCTTA
* *
15302618 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTA TTTTA TTTTC TTTTC -TTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
15302667 -TTTC TTTCTC TT
1 TTTTC TTT-TC TT
15302679 CCTTCTTCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
4 8 0.15
5 40 0.77
6 4 0.08
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:15303025 original size:34 final size:34
Alignment explanation
Indices: 15302987--15303066 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
15302977 CACTTTTTGG
*
15302987 CCTCCAAAATCAACAGAAAAAT-GACACTTTCCAA
1 CCTCCAAAATCAACAAAAAAATAG-CACTTTCCAA
* ** *
15303021 CCTCCAAAACCAGTAAAAAAATAGCTCTTTCCAA
1 CCTCCAAAATCAACAAAAAAATAGCACTTTCCAA
15303055 CCTCCAAAATCA
1 CCTCCAAAATCA
15303067 GCCCTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.45, C:0.31, G:0.05, T:0.19
Consensus pattern (34 bp):
CCTCCAAAATCAACAAAAAAATAGCACTTTCCAA
Found at i:15303082 original size:34 final size:34
Alignment explanation
Indices: 15302987--15303082 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 34
15302977 CACTTTTTGG
* * * * *
15302987 CCTCCAAAATCAACAGAAAAATGACACTTTCCAA
1 CCTCCAAAACCAGCAAAAAAATGGCTCTTTCCAA
* *
15303021 CCTCCAAAACCAGTAAAAAAATAGCTCTTTCCAA
1 CCTCCAAAACCAGCAAAAAAATGGCTCTTTCCAA
* ***
15303055 CCTCCAAAATCAGCCCTAAAATGGCTCT
1 CCTCCAAAACCAGCAAAAAAATGGCTCT
15303083 CTTTCCCTTC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.42, C:0.31, G:0.07, T:0.20
Consensus pattern (34 bp):
CCTCCAAAACCAGCAAAAAAATGGCTCTTTCCAA
Found at i:15307764 original size:17 final size:17
Alignment explanation
Indices: 15307737--15307778 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
15307727 TCCAAACACA
15307737 TAAAAATTAAAGA-TTAAT
1 TAAAAA-TAAA-ATTTAAT
15307755 TAAAAATAAAATTTAAT
1 TAAAAATAAAATTTAAT
*
15307772 TACAAAT
1 TAAAAAT
15307779 CTTAAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
18 6 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
TAAAAATAAAATTTAAT
Found at i:15316566 original size:21 final size:22
Alignment explanation
Indices: 15316542--15316588 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
15316532 CTACCAAAAT
* *
15316542 AGAATG-TTTCTCGCTGCAGCG
1 AGAATGCTTTCCCACTGCAGCG
15316563 AGAATGCTTTCCCACTGCAGCG
1 AGAATGCTTTCCCACTGCAGCG
15316585 AGAA
1 AGAA
15316589 GCAGGGCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (22 bp):
AGAATGCTTTCCCACTGCAGCG
Found at i:15323899 original size:16 final size:16
Alignment explanation
Indices: 15323878--15323909 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15323868 TCAAAATTTA
*
15323878 GATTTTGGTTTTTTTG
1 GATTTTGATTTTTTTG
15323894 GATTTTGATTTTTTTG
1 GATTTTGATTTTTTTG
15323910 AAATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.22, T:0.69
Consensus pattern (16 bp):
GATTTTGATTTTTTTG
Found at i:15325249 original size:68 final size:68
Alignment explanation
Indices: 15325140--15325331 Score: 294
Period size: 68 Copynumber: 2.8 Consensus size: 68
15325130 CATGTTTGGT
*
15325140 ATGATGAATGCTATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATTAAGAA
1 ATGATGAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATTAAGAA
15325205 AGC
66 AGC
* * * *
15325208 ATGATGAATGCCATGAGATTATGTATACGGTGTATATTCCATATACTACTTGAGATAATTGAGAA
1 ATGATGAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATTAAGAA
15325273 AGC
66 AGC
* * * * *
15325276 ATGATGAAGGCCATGAGATGATGTATATGATGTATTTTCCATATACCATATGAGAT
1 ATGATGAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGAT
15325332 GAGCAAGCAT
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 111 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (68 bp):
ATGATGAATGCCATGAGATTATGTATATGATGTATATTCCATATACTACATGAGATAATTAAGAA
AGC
Found at i:15328541 original size:727 final size:722
Alignment explanation
Indices: 15327144--15329303 Score: 2765
Period size: 727 Copynumber: 3.0 Consensus size: 722
15327134 CAAATATGAT
* * * *
15327144 AAGAGCTTGGTGTAGTGCCTATTCTTATTGATCTTCATATTTGTTCCAGCAGTTAGATCATTAGC
1 AAGAGCTTAGTGTAGTGCCTACTCTTATTGA-CTCCAT-TTTGTTCCTGCAGTTAGATCATTAGC
* * *
15327209 TTTTTGGAGACTTATAAAACTCATTTCATAATCTCCTAATCACCTTGGCCAAGGATTTGATTAAG
64 TTTATGGAGGCTTATGAAACTCATTTCATAATCTCCTAATCACCTTGGCCAAGGATTTGATTAAG
* * * * * *
15327274 CTAATGGCAACCAAGAACTAATAAGATATTTCCCCTTGAATCACTTTGGCTGATGACTTTTTCTC
129 CTAATGTCAACCAAGAACTAATAAGATATTTCCCCTTGAATCACTTGGGGTGAT-AATTCTTATC
15327339 TTAACCACTCATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCATCGTT
193 TTAACCACTCATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCATCGTT
* * * * * * *
15327404 CGTTTCGCACCCTTAGGGATGAAATCCAAGCATAGTACTCCACATACAAGAGAACCTAGTGTTTC
258 AGTTTAGCACCCGTA-GGATGAAATCAAAGCATAGTACTCCACATACAAGACAACCTGGTGTCTC
* * *
15327469 AAGAATAGGGAGTAGTTAAACAACTAACACATGAGAAGTATTGCATAGACACTTGAGTGAGGTAC
322 TAGTATAGGGAGTAGTTAAACAACTAACACATGAGAAGTATTGCATAGACACTTAAGTGAGGTAC
** *
15327534 CAAACACACTTCTCATGGCGAGTCATGTTCAGTGAACTCGCTCTCCCATGGCAAGCA-CCAGTAT
387 CAAATGCACTTCTCATGGCAAGTCATGTTCAGTGAACTCGCTCTCCCATGGCAAGCACCCA-TAT
* * * *
15327598 GCTAGTTTCAAGTATCCCCATACTTCAAACTATGAGAGCGGTTGCTTACTTCACAAGTAAAGAAC
451 GCTAGTTTTAAGTATCTCTATACTTCAAACTATGAGAGCAGTTGCTTACTTCACAAGTAAAGAAC
* * * * * * * * *
15327663 ACAGCATTTGCCAATCTTTGAGGATAATTTATGCCTCGTCTTAATAACAGAATAATTAGGAACTT
516 ATAGCATGTGCCTATCTTTGAGCATTATTCATG-CTCGT-TCAATAACACAATGATTAGGAACTT
* *
15327728 TTAGGAACAATGCTTTCATGCATAAGGATCTCATAATTGTATCCTAATATAATTCCTTTGCAAGG
579 TTAGGAACAATGCTTT-ATGCATAAAGATCTCATAATTGTATCCTAATACAATTCCTTTGCAAGG
* *
15327793 CATATATAGTTTCATGGGCTTTATCTACATAAGTATAAATAATAATTAAATCATAAAC-TATTGG
643 CATATATAGTTTCATGGGCTTTATCTACATAAGTATAAATAGTAATTAAATCACAAACTTA-TGG
15327857 ATAAAGAACTACCTCA
707 ATAAAGAACTACCTCA
15327873 AAGAGCTTAGTGTAGTGCCTACTCTTATTGACCTCCATGTTTGTTCCTGCAAG-TAGATCATTAG
1 AAGAGCTTAGTGTAGTGCCTACTCTTATTGA-CTCCAT-TTTGTTCCTGC-AGTTAGATCATTAG
* *
15327937 CTTTATGGAGGCTTATGAAACTCATTTCATAATCCCCTAATCACCTTAGCCAAGGATTTGATTAA
63 CTTTATGGAGGCTTATGAAACTCATTTCATAATCTCCTAATCACCTTGGCCAAGGATTTGATTAA
* * *
15328002 GCTAATGTCAACCAAGAACTAACAAGATATTTCCCCTTAAATCACTTGGGGTGATAATTCTTATA
128 GCTAATGTCAACCAAGAACTAATAAGATATTTCCCCTTGAATCACTTGGGGTGATAATTCTTATC
* * * * *
15328067 TTAAACACTTATTTGCCTTTATATGCTTCAT-GTATACC-CAAAACATCCTATTTTGGCATCGTT
193 TTAACCACTCATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCATCGTT
* *
15328130 AGTTTTAGCACCCGTAGCAATGAAATCAAAGCATAGTACTCCACATACAAGACAACCCGGTGTCT
258 AG-TTTAGCACCCGTAG-GATGAAATCAAAGCATAGTACTCCACATACAAGACAACCTGGTGTCT
* * *
15328195 CTAGTATAGGGAGTAGTTACACAACTAACACATGAGAAGTATTGCACAGACACTTAAATGAGGTA
321 CTAGTATAGGGAGTAGTTAAACAACTAACACATGAGAAGTATTGCATAGACACTTAAGTGAGGTA
* * * *
15328260 CTAAATGCACTTCTCATGGCAAGTCATGTTCAATAAACTCACTCTCCCATGGCAAGCACCCATAT
386 CCAAATGCACTTCTCATGGCAAGTCATGTTCAGTGAACTCGCTCTCCCATGGCAAGCACCCATAT
* * ** *
15328325 GCTAGTTTTAAGTATCTTTATACTTTAATTTATGAGAGCAGTTGCTTACTTCACAAGTAAGGAAC
451 GCTAGTTTTAAGTATCTCTATACTTCAAACTATGAGAGCAGTTGCTTACTTCACAAGTAAAGAAC
* *
15328390 ATATCATGTGCCTATCTTTGAGCATTATTGATGCATCGTGTCAATAACACAATGATTAGGAACTT
516 ATAGCATGTGCCTATCTTTGAGCATTATTCATGC-TCGT-TCAATAACACAATGATTAGGAACTT
* * *
15328455 TTAGGAAAAATGCTTTGATGCATAAAGATCTCATAATTGTATCCCAATACAATTCCTTTGCAGGG
579 TTAGGAACAATGCTTT-ATGCATAAAGATCTCATAATTGTATCCTAATACAATTCCTTTGCAAGG
* * *
15328520 CATATATAGTTTCATGGGCTTTATCAATATAAGTATAAATAGTAATTAATTCACAAACTTATGGA
643 CATATATAGTTTCATGGGCTTTATCTACATAAGTATAAATAGTAATTAAATCACAAACTTATGGA
15328585 TAAAGAACTACCTCA
708 TAAAGAACTACCTCA
* ** ** ** **** * * *
15328600 AAAAGCTTGGCCAAG-GATTTTG-AAAC-CTTA-TGAC-GAATACAATTCCTACAGTTATATTAT
1 AAGAGCTT-----AGTG-TAGTGCCTACTCTTATTGACTCCATTTTGTTCCTGCAGTTAGATCAT
** *
15328660 TAGCTTTATGGAGGCTTATGAAACTCATCTT-ATAATCTTTTAATCACCTTGGTCAAGGATTTGA
60 TAGCTTTATGGAGGCTTATGAAACTCAT-TTCATAATCTCCTAATCACCTTGGCCAAGGATTTGA
* * * * *
15328724 TTAAGCTAATGTCAATCAAGAACTAATAAGATATTTCTCCTTGAATAATTTGGGGTGATGATTCT
124 TTAAGCTAATGTCAACCAAGAACTAATAAGATATTTCCCCTTGAATCACTTGGGGTGATAATTCT
*
15328789 TATCTTAACCACACATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCAT
189 TATCTTAACCACTCATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCAT
* * * * * * *
15328854 CTTTGGTTTGGCACCTGTAAGGATGAATTGAAAGCATAGTACTCCATATACAAGACAACCTGGTG
254 CGTTAGTTTAGCACCCGT-AGGATGAAATCAAAGCATAGTACTCCACATACAAGACAACCTGGTG
* ** * * *
15328919 TCTCTAGTCTAAAGAGTAGTTAGACAACTGACACATGAGAAGTATTGCATACACACTTAAGTGAG
318 TCTCTAGTATAGGGAGTAGTTAAACAACTAACACATGAGAAGTATTGCATAGACACTTAAGTGAG
* * * ** *
15328984 GTACCAAATGCACTTCTCATGGTAGGTCATGTTCAGTGAACTTGCTCTCCCATAACAAGCACCTA
383 GTACCAAATGCACTTCTCATGGCAAGTCATGTTCAGTGAACTCGCTCTCCCATGGCAAGCACCCA
* * * * * * *
15329049 CATGTTAGTTCTAAATATCTCTATACTTCAACCTATGGGAGCAGTTGCTTACTTCACAAGTAAAA
448 TATGCTAGTTTTAAGTATCTCTATACTTCAAACTATGAGAGCAGTTGCTTACTTCACAAGTAAAG
*
15329114 AACATAGCATGTG-CTAATCTTTAAGCATTATTCATGC-C--TC-AT---ACAATGATTAGGAAC
513 AACATAGCATGTGCCT-ATCTTTGAGCATTATTCATGCTCGTTCAATAACACAATGATTAGGAAC
* * * *
15329171 TTTTAGGAACAATGCTTTACTGCATAAAGACCTTATAATTATATCCTAATACATTTCCTTTGCAA
577 TTTTAGGAACAATGCTTTA-TGCATAAAGATCTCATAATTGTATCCTAATACAATTCCTTTGCAA
* *
15329236 GGCATATGTAGTTTCATGGGCTTTATCTACATAAGTATAAATAGTAAGTAAATCACAAACTTATG
641 GGCATATATAGTTTCATGGGCTTTATCTACATAAGTATAAATAGTAATTAAATCACAAACTTATG
15329301 GAT
706 GAT
15329304 GCATAACTAT
Statistics
Matches: 1248, Mismatches: 164, Indels: 49
0.85 0.11 0.03
Matches are distributed among these distances:
717 1 0.00
718 134 0.11
721 2 0.00
722 2 0.00
725 3 0.00
726 185 0.15
727 673 0.54
728 66 0.05
729 168 0.13
730 6 0.00
731 3 0.00
732 5 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (722 bp):
AAGAGCTTAGTGTAGTGCCTACTCTTATTGACTCCATTTTGTTCCTGCAGTTAGATCATTAGCTT
TATGGAGGCTTATGAAACTCATTTCATAATCTCCTAATCACCTTGGCCAAGGATTTGATTAAGCT
AATGTCAACCAAGAACTAATAAGATATTTCCCCTTGAATCACTTGGGGTGATAATTCTTATCTTA
ACCACTCATTTGCCTTCATATGCTTCATACTATACCTAAAAACATCCTATTTTGGCATCGTTAGT
TTAGCACCCGTAGGATGAAATCAAAGCATAGTACTCCACATACAAGACAACCTGGTGTCTCTAGT
ATAGGGAGTAGTTAAACAACTAACACATGAGAAGTATTGCATAGACACTTAAGTGAGGTACCAAA
TGCACTTCTCATGGCAAGTCATGTTCAGTGAACTCGCTCTCCCATGGCAAGCACCCATATGCTAG
TTTTAAGTATCTCTATACTTCAAACTATGAGAGCAGTTGCTTACTTCACAAGTAAAGAACATAGC
ATGTGCCTATCTTTGAGCATTATTCATGCTCGTTCAATAACACAATGATTAGGAACTTTTAGGAA
CAATGCTTTATGCATAAAGATCTCATAATTGTATCCTAATACAATTCCTTTGCAAGGCATATATA
GTTTCATGGGCTTTATCTACATAAGTATAAATAGTAATTAAATCACAAACTTATGGATAAAGAAC
TACCTCA
Found at i:15331300 original size:2 final size:2
Alignment explanation
Indices: 15331295--15331345 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
15331285 TATATAGCAA
* *
15331295 AT AT AT AT AC AT AT AT AT AT AT AT AC 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
*
15331337 AC AT AT AT A
1 AT AT AT AT A
15331346 AACACATACA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:15331316 original size:16 final size:16
Alignment explanation
Indices: 15331295--15331345 Score: 84
Period size: 16 Copynumber: 3.1 Consensus size: 16
15331285 TATATAGCAA
15331295 ATATATATACATATAT
1 ATATATATACATATAT
15331311 ATATATATACATATATAT
1 ATATATATAC--ATATAT
15331329 ATATATATACATATAT
1 ATATATATACATATAT
15331345 A
1 A
15331346 AACACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 17 0.52
18 16 0.48
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATACATATAT
Found at i:15333564 original size:25 final size:25
Alignment explanation
Indices: 15333530--15333584 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
15333520 ACAGTCCAAT
15333530 AAATCCATCTACATCATTAGGAATC
1 AAATCCATCTACATCATTAGGAATC
15333555 AAATCCATCTACATCATTAGGAATC
1 AAATCCATCTACATCATTAGGAATC
15333580 AAATC
1 AAATC
15333585 ATCATCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (25 bp):
AAATCCATCTACATCATTAGGAATC
Found at i:15346043 original size:26 final size:26
Alignment explanation
Indices: 15345983--15346044 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
15345973 ACCATATACC
*
15345983 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
15346009 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
15346035 CATCATCATC
1 CATCATCATC
15346045 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:15346338 original size:42 final size:42
Alignment explanation
Indices: 15346280--15346360 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
15346270 ACGGAGGCAA
15346280 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
* *
15346322 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGT
15346361 TCAAATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
Found at i:15349538 original size:102 final size:102
Alignment explanation
Indices: 15349418--15349681 Score: 314
Period size: 102 Copynumber: 2.6 Consensus size: 102
15349408 GAAATAAATT
* * * *
15349418 ATAAAGCTTGCGACCAATAGCATAACATCATTATAGCCAAATTATAAGTGATAAAGCTAGTGGTT
1 ATAAAGCTTGCGACCAATAGAATAATATCATTATAGCCAAAATATAAGCGATAAAGCTAGTGGTT
* * * *
15349483 GGAA-TATGAATGATAAATTATGGTCAAAGAATGAGTG
66 -GAAGCAAGAATGATAAACTATGGTCAAAGAATGAATG
* * * * * *
15349520 ATAAAGCTTGCGACCAATAGAAAAATATCCTTGTAGCCAAAATATGAGCGGTAAAGCTTGTGGTT
1 ATAAAGCTTGCGACCAATAGAATAATATCATTATAGCCAAAATATAAGCGATAAAGCTAGTGGTT
* * *
15349585 GAAGCAAGAGTGATGAACTATGGTCAAATAATGAATG
66 GAAGCAAGAATGATAAACTATGGTCAAAGAATGAATG
* * * **
15349622 ATAAAGCTTGCAACCAATAGTATAATATAATTACGGCCAAAATATAAGCGATAAAGCTAG
1 ATAAAGCTTGCGACCAATAGAATAATATCATTATAGCCAAAATATAAGCGATAAAGCTAG
15349682 CGGCTAAATA
Statistics
Matches: 133, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
101 3 0.02
102 130 0.98
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (102 bp):
ATAAAGCTTGCGACCAATAGAATAATATCATTATAGCCAAAATATAAGCGATAAAGCTAGTGGTT
GAAGCAAGAATGATAAACTATGGTCAAAGAATGAATG
Found at i:15350448 original size:29 final size:29
Alignment explanation
Indices: 15350405--15350508 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
15350395 AAAAAAAAGG
*
15350405 TATACATGAA-AGGTACAAGAGAAAACGT
1 TATACGTGAACAGGTACAAGAGAAAACGT
* *
15350433 TATACGTGAACAGGTAGAAGATAAGAAAC--
1 TATACGTGAACAGGTACAAGA-GA-AAACGT
* * *
15350462 TATTCGTGAATAGGTACAAGAGAAAAAGT
1 TATACGTGAACAGGTACAAGAGAAAACGT
* *
15350491 TGTATGTGAACAGGTACA
1 TATACGTGAACAGGTACA
15350509 CTAGAACAGG
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 3 0.05
28 10 0.17
29 41 0.69
30 1 0.02
31 4 0.07
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (29 bp):
TATACGTGAACAGGTACAAGAGAAAACGT
Found at i:15358933 original size:37 final size:37
Alignment explanation
Indices: 15358881--15358994 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
15358871 ATATACATAC
15358881 ATCGTCATCATGTGTGCACTCCCTACTCGCACACTCT
1 ATCGTCATCATGTGTGCACTCCCTACTCGCACACTCT
* * *
15358918 GTCGTCATCACGTGTGCACTCCCTACTCGCACACTCC
1 ATCGTCATCATGTGTGCACTCCCTACTCGCACACTCT
*
15358955 ATCATCATCATGTGTGCACTCCCTACTCGCACACTCT
1 ATCGTCATCATGTGTGCACTCCCTACTCGCACACTCT
15358992 ATC
1 ATC
15358995 ATCTCACCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.19, C:0.39, G:0.13, T:0.28
Consensus pattern (37 bp):
ATCGTCATCATGTGTGCACTCCCTACTCGCACACTCT
Found at i:15363197 original size:49 final size:49
Alignment explanation
Indices: 15363127--15363344 Score: 301
Period size: 49 Copynumber: 4.4 Consensus size: 49
15363117 TAATCTTGTG
* *
15363127 TGATGATGATGATCCGGCTATGTGCGAGTAGGGAGGGCGCATAGGCCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
* * *
15363176 TGATGATGATGACCCGACTATGTGCGAGTACGGAGTGCGCATAGGTCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
* ** * *
15363225 TGATGATGATGACCTGGCTATGTGTAAGTAGGAAGTACGCATAGGCCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
* * * *
15363274 TGATGATGGTGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAGGTCGA
1 TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
*
15363323 TGATGATGATGATCCGGCTATG
1 TGATGATGATGACCCGGCTATG
15363345 ATGATGAATG
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 144 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (49 bp):
TGATGATGATGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAGGCCGA
Found at i:15368959 original size:49 final size:49
Alignment explanation
Indices: 15368840--15368949 Score: 211
Period size: 49 Copynumber: 2.2 Consensus size: 49
15368830 TAATCTTGTG
*
15368840 TGATGATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAGGTCGA
1 TGATGATGATGACCCGACTATGTACGAGTAGGGAGTGCGCATAGGTCGA
15368889 TGATGATGATGACCCGACTATGTACGAGTAGGGAGTGCGCATAGGTCGA
1 TGATGATGATGACCCGACTATGTACGAGTAGGGAGTGCGCATAGGTCGA
15368938 TGATGATGATGA
1 TGATGATGATGA
15368950 TCTGGCTATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (49 bp):
TGATGATGATGACCCGACTATGTACGAGTAGGGAGTGCGCATAGGTCGA
Found at i:15373509 original size:17 final size:17
Alignment explanation
Indices: 15373473--15373506 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15373463 TTTTATTAAG
*
15373473 GCACATACTTAAGGGAA
1 GCACATACTCAAGGGAA
15373490 GCACATACTCAGAGGGA
1 GCACATACTCA-AGGGA
15373507 GCAATCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (17 bp):
GCACATACTCAAGGGAA
Found at i:15377025 original size:21 final size:20
Alignment explanation
Indices: 15376999--15377040 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15376989 TAATTTAAAA
15376999 TAAAATAACATAAAATTTAAC
1 TAAAATAAC-TAAAATTTAAC
*
15377020 TAAAATAACTTAAA-TTAAC
1 TAAAATAACTAAAATTTAAC
15377039 TA
1 TA
15377041 CTCAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATAACTAAAATTTAAC
Found at i:15382382 original size:28 final size:28
Alignment explanation
Indices: 15382350--15382404 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
15382340 TCTTGGAATA
**
15382350 TAGTG-TCTATTTCCAGTACTAATAGACT
1 TAGTGATC-ATTTCCAACACTAATAGACT
*
15382378 TAGTGATCATTTCTAACACTAATAGAC
1 TAGTGATCATTTCCAACACTAATAGAC
15382405 CCGATTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (28 bp):
TAGTGATCATTTCCAACACTAATAGACT
Found at i:15385285 original size:18 final size:17
Alignment explanation
Indices: 15385264--15385297 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15385254 ATCAAAAAAA
*
15385264 CTTATTTTACTTTTTATT
1 CTTATCTTA-TTTTTATT
15385282 CTTATCTTATTTTTAT
1 CTTATCTTATTTTTAT
15385298 AAATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTATCTTATTTTTATT
Found at i:15385332 original size:16 final size:16
Alignment explanation
Indices: 15385307--15385337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15385297 TAAATTTAAT
*
15385307 TTATATATAAAAAAAA
1 TTATAAATAAAAAAAA
15385323 TTATAAATAAAAAAA
1 TTATAAATAAAAAAA
15385338 TAAATTAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTATAAATAAAAAAAA
Found at i:15393277 original size:3 final size:3
Alignment explanation
Indices: 15393269--15393299 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15393259 TATAACTCAA
15393269 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15393300 TGATTAAAAA
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:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15402546 original size:22 final size:22
Alignment explanation
Indices: 15402521--15402591 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
15402511 AGTATTAAAA
*
15402521 TATTTAAAATATTAATATTTAC
1 TATTTAAAATATTAATATATAC
* *
15402543 TA-TTAAAATCATTAA-ATGTAT
1 TATTTAAAAT-ATTAATATATAC
**
15402564 TATTTATTATATTAATATATAC
1 TATTTAAAATATTAATATATAC
15402586 TATTTA
1 TATTTA
15402592 TTGTTAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 18 0.45
22 22 0.55
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (22 bp):
TATTTAAAATATTAATATATAC
Found at i:15402548 original size:21 final size:21
Alignment explanation
Indices: 15402524--15402589 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
15402514 ATTAAAATAT
*
15402524 TTAAAATATTAATATTTACTA
1 TTAAAATATTAATATATACTA
* *
15402545 TTAAAATCATTAA-ATGTATTA
1 TTAAAAT-ATTAATATATACTA
**
15402566 TTTATTATATTAATATATACTA
1 -TTAAAATATTAATATATACTA
15402588 TT
1 TT
15402590 TATTGTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAAAATATTAATATATACTA
Found at i:15405599 original size:17 final size:16
Alignment explanation
Indices: 15405566--15405603 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15405556 TTGCATCACT
15405566 TATT-ATTTTATTTAA
1 TATTAATTTTATTTAA
*
15405581 TATTAATTTTTTTTAAA
1 TATTAATTTTATTT-AA
15405598 TATTAA
1 TATTAA
15405604 ATCAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTAATTTTATTTAA
Found at i:15405865 original size:23 final size:23
Alignment explanation
Indices: 15405839--15405910 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 23
15405829 AATTTTTTTA
15405839 TAAAATTAATAATAATAAATTAT
1 TAAAATTAATAATAATAAATTAT
15405862 TAAAATTATATAATAAT-AATT-T
1 TAAAATTA-ATAATAATAAATTAT
*
15405884 TAAAATTTAATTAAAAATAAAATTAT
1 TAAAA-TTAA-TAATAAT-AAATTAT
15405910 T
1 T
15405911 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 7 0.17
23 21 0.50
24 8 0.19
25 4 0.10
26 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTAATAATAATAAATTAT
Found at i:15406048 original size:34 final size:34
Alignment explanation
Indices: 15406010--15406075 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
15406000 CATACAAAAC
15406010 TTAAGGGTAAGATATTTTAGCATTGTTTTTAAAT
1 TTAAGGGTAAGATATTTTAGCATTGTTTTTAAAT
* * * *
15406044 TTAAGGGTTATATATTTTCGCCTTGTTTTTAA
1 TTAAGGGTAAGATATTTTAGCATTGTTTTTAA
15406076 TATATACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.50
Consensus pattern (34 bp):
TTAAGGGTAAGATATTTTAGCATTGTTTTTAAAT
Found at i:15411472 original size:142 final size:141
Alignment explanation
Indices: 15411211--15411494 Score: 417
Period size: 142 Copynumber: 2.0 Consensus size: 141
15411201 AAATGCAACA
* * * * *
15411211 TATATATATTTATGTATGTATTTATTTATTTGAAAATGTCTAATTATTTTTTTGATAACAATAAA
1 TATATACATGTATGTATGTATGTATTTATTTGAAAATGTCTAAATATTTTTTTGATAAAAATAAA
* * * *
15411276 TTACATCATTAAATATATATTAAAAAAGACAGTATTCTCTGTCAGTGTGATATGGACATAGATAT
66 TTACACCATTAAATATATATTAAAAAAGACAATATTCTCGGTCAGTGTGATATGGACATAGATAA
15411341 ACATATATATG
131 ACATATATATG
15411352 TATATACATGTATGTATGTATGTATTTATTTGAAAATGTCTAAATA-TTTTTTGATAAAAATAAA
1 TATATACATGTATGTATGTATGTATTTATTTGAAAATGTCTAAATATTTTTTTGATAAAAAT-AA
* * * *
15411416 ATTTCGGCCATTAAATATATATTGAAAAAGACAATATTCTCGGTCAGTGTGATATGGACATATAT
65 ATTAC-ACCATTAAATATATATTAAAAAAGACAATATTCTCGGTCAGTGTGATATGGACATAGAT
*
15411481 AAATATATATATG
129 AAACATATATATG
15411494 T
1 T
15411495 GTACGTATGT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
140 14 0.11
141 48 0.38
142 65 0.51
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (141 bp):
TATATACATGTATGTATGTATGTATTTATTTGAAAATGTCTAAATATTTTTTTGATAAAAATAAA
TTACACCATTAAATATATATTAAAAAAGACAATATTCTCGGTCAGTGTGATATGGACATAGATAA
ACATATATATG
Found at i:15411513 original size:9 final size:9
Alignment explanation
Indices: 15411499--15411524 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15411489 ATATGTGTAC
15411499 GTATGTATT
1 GTATGTATT
15411508 GTATGTATT
1 GTATGTATT
15411517 GTATGTAT
1 GTATGTAT
15411525 AATATTTTAT
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GTATGTATT
Found at i:15413620 original size:21 final size:20
Alignment explanation
Indices: 15413596--15413637 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
15413586 TTTTCTTGGC
15413596 ATATCACTT-AAAAAAATCTTT
1 ATATCA-TTCAAAAAAAT-TTT
*
15413617 ATATTATTCAAAAAAATTTT
1 ATATCATTCAAAAAAATTTT
15413637 A
1 A
15413638 AATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATCATTCAAAAAAATTTT
Found at i:15414549 original size:19 final size:21
Alignment explanation
Indices: 15414512--15414551 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15414502 ATGATTTTTA
15414512 ATATTATATTTTAGTTTTATAC
1 ATATTATATTTTAG-TTTATAC
15414534 ATATTAT-TTTTA-TTTATA
1 ATATTATATTTTAGTTTATA
15414552 AATTCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
ATATTATATTTTAGTTTATAC
Found at i:15424970 original size:29 final size:29
Alignment explanation
Indices: 15424928--15424986 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
15424918 GGGTTAGACT
15424928 TAGAAACCAAGACAGCCATTAACGCTCTA
1 TAGAAACCAAGACAGCCATTAACGCTCTA
* *
15424957 TAGAACCCAAGACAGCCATTAAGGCTCTA
1 TAGAAACCAAGACAGCCATTAACGCTCTA
15424986 T
1 T
15424987 GTTCCCATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (29 bp):
TAGAAACCAAGACAGCCATTAACGCTCTA
Done.