Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 44 of 259
Found at i:13561855 original size:47 final size:47
Alignment explanation
Indices: 13561768--13561873 Score: 112
Period size: 47 Copynumber: 2.3 Consensus size: 47
13561758 TTCTTTGTAT
*
13561768 ATTATT-TATTATATTATTTATATATTATTATATATTATATTACTTAC
1 ATTATTATA-TATATTATTTATATATTATTATATATCATATTACTTAC
* * *
13561815 ATT-TTAATATATATATATTTTTATA-TATTACT-TATCATATTATTTAT
1 ATTATT-ATATATAT-TATTTATATATTATTA-TATATCATATTACTTAC
13561862 ATTATTATATAT
1 ATTATTATATAT
13561874 TGTGTTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
46 2 0.04
47 34 0.68
48 14 0.28
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (47 bp):
ATTATTATATATATTATTTATATATTATTATATATCATATTACTTAC
Found at i:13561857 original size:8 final size:8
Alignment explanation
Indices: 13561767--13561871 Score: 69
Period size: 8 Copynumber: 13.0 Consensus size: 8
13561757 TTTCTTTGTA
13561767 TATTAT-T
1 TATTATAT
13561774 TATTATAT
1 TATTATAT
13561782 TATT-TAT
1 TATTATAT
13561789 ATATTATTAT
1 -TATTA-TAT
13561799 ATATTATAT
1 -TATTATAT
*
13561808 TACTTACAT
1 TA-TTATAT
13561817 T-TTA-AT
1 TATTATAT
13561823 ATATATATAT
1 -TAT-TATAT
*
13561833 TTTTATA-
1 TATTATAT
*
13561840 TATTA-CT
1 TATTATAT
*
13561847 TATCATAT
1 TATTATAT
13561855 TATTTATAT
1 TA-TTATAT
13561864 TATTATAT
1 TATTATAT
13561872 ATTGTGTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
6 2 0.03
7 21 0.27
8 25 0.32
9 20 0.25
10 11 0.14
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:13574138 original size:44 final size:44
Alignment explanation
Indices: 13574083--13574310 Score: 366
Period size: 44 Copynumber: 5.2 Consensus size: 44
13574073 GATCCAAGAT
* *
13574083 GATTTGGCATCTCTATATTGTCAGAGAGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* *
13574127 GATTTGGCATCTCTGTATTATCAGAGAGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
13574171 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
13574215 GATTTGGCGTCTCTGTATTGTCAAAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
13574259 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGGAGATAACA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
13574303 GATTTGGC
1 GATTTGGC
13574311 GTTCGTGAGT
Statistics
Matches: 171, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 171 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:13574341 original size:88 final size:89
Alignment explanation
Indices: 13574083--13574345 Score: 346
Period size: 88 Copynumber: 3.0 Consensus size: 89
13574073 GATCCAAGAT
* *
13574083 GATTTGGCATCTCTATATTGTCAGAGAGCAGATTGAAGATAGCAGATTTGGCATCTCTGTA-TTA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTG-AGTT-
13574147 T-C-AGAGAGCAGATTGAAGATAGCA
64 TGCAAGAGAGCAGATTGAAGATAGCA
*
13574171 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCT--GTATT
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGAGT-TT
* *
13574234 GTCAA-AGAGTAGATCGAAGATAGCA
65 G-CAAGAGAGCAGATTGAAGATAGCA
* *
13574259 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGGAGATAACAGATTTGGCGT-TCGTGAGTTT
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTC-TGAGTTT
13574323 GCAAGA-AGCA-AGTTGAAGATAGC
65 GCAAGAGAGCAGA-TTGAAGATAGC
13574346 TAGTTTGACA
Statistics
Matches: 155, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
86 2 0.01
87 4 0.03
88 142 0.92
89 5 0.03
90 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (89 bp):
GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGAGTTTG
CAAGAGAGCAGATTGAAGATAGCA
Found at i:13575860 original size:12 final size:12
Alignment explanation
Indices: 13575843--13575915 Score: 83
Period size: 12 Copynumber: 5.8 Consensus size: 12
13575833 TTTTTCTTTG
13575843 TATATTATTTAT
1 TATATTATTTAT
13575855 TATATTATTTAT
1 TATATTATTTAT
13575867 ATATTATTATTTAT
1 -TA-TATTATTTAT
*
13575881 TATATTACTTACAT
1 TATATTA-TT-TAT
*
13575895 TATATTTTTTAT
1 TATATTATTTAT
*
13575907 TTTATTATT
1 TATATTATT
13575916 AAATAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
12 26 0.50
13 8 0.15
14 18 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:13575874 original size:26 final size:26
Alignment explanation
Indices: 13575843--13575915 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
13575833 TTTTTCTTTG
*
13575843 TATATTATTTATTATATTATTTATA-
1 TATATTATTTATTATATTATTTACAT
*
13575868 TATTATTATTTATTATATTACTTACAT
1 TA-TATTATTTATTATATTATTTACAT
* *
13575895 TATATTTTTTATTTTATTATT
1 TATATTATTTATTATATTATT
13575916 AAATAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.05
26 37 0.90
27 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (26 bp):
TATATTATTTATTATATTATTTACAT
Found at i:13575885 original size:38 final size:41
Alignment explanation
Indices: 13575824--13575915 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
13575814 TATAAAAGGG
* * *
13575824 TATATATTATTTTTCTTTGTATATTA-TT-TATTATATTATT
1 TATATATTATTATTCTATGTATATTACTTACATTATATT-TT
13575864 TATATATTATTATT-TAT-TATATTACTTACATTATATTTT
1 TATATATTATTATTCTATGTATATTACTTACATTATATTTT
*
13575903 T-TATTTTATTATT
1 TATATATTATTATT
13575916 AAATAAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 18 0.39
39 7 0.15
40 21 0.46
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (41 bp):
TATATATTATTATTCTATGTATATTACTTACATTATATTTT
Found at i:13575925 original size:26 final size:26
Alignment explanation
Indices: 13575844--13575925 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
13575834 TTTTCTTTGT
*
13575844 ATATTATTTATTATATTATT-TATATA
1 ATATTATTTATTATATTATTAAATA-A
* * *
13575870 TTATTATTTATTATATTACTTACAT-T
1 ATATTATTTATTATATTA-TTAAATAA
* *
13575896 ATATTTTTTATTTTATTATTAAATAA
1 ATATTATTTATTATATTATTAAATAA
13575922 ATAT
1 ATAT
13575926 GTGTAATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.11
26 36 0.80
27 2 0.04
28 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTATATTATTAAATAA
Found at i:13579068 original size:25 final size:25
Alignment explanation
Indices: 13579040--13579088 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13579030 CCAGAGGACC
* *
13579040 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
13579065 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
13579089 AATAATTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:13590969 original size:38 final size:38
Alignment explanation
Indices: 13590927--13591003 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
13590917 TTCATTGTTC
13590927 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
1 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
13590965 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
1 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
13591003 T
1 T
13591004 GGATTGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (38 bp):
TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
Found at i:13592453 original size:27 final size:29
Alignment explanation
Indices: 13592414--13592468 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
13592404 ACAAAAACAC
*
13592414 AAAAATCCAT-AAAATTAGAAAAAATTTAG
1 AAAAATCCATAAAAAATA-AAAAAATTTAG
13592443 AAAAAT-C-TAAAAAATAAAAAAATTTA
1 AAAAATCCATAAAAAATAAAAAAATTTA
13592469 TAGAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.46
28 7 0.29
29 6 0.25
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (29 bp):
AAAAATCCATAAAAAATAAAAAAATTTAG
Found at i:13596528 original size:22 final size:23
Alignment explanation
Indices: 13596503--13596548 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13596493 CAACCAAATC
13596503 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
13596525 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13596548 A
1 A
13596549 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13596554 original size:23 final size:23
Alignment explanation
Indices: 13596510--13596554 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13596500 ATCAATTCAA
*
13596510 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
13596533 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
13596555 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:13600285 original size:20 final size:20
Alignment explanation
Indices: 13600246--13600285 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13600236 TTAAATTCTA
*
13600246 AAAGACAAATACAAACAAAT
1 AAAGACAAATAAAAACAAAT
* *
13600266 AAAGATAAATAAAAATAAAT
1 AAAGACAAATAAAAACAAAT
13600286 CCTAAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAGACAAATAAAAACAAAT
Found at i:13622012 original size:40 final size:40
Alignment explanation
Indices: 13621938--13622158 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
13621928 AAACGTAGTA
* *
13621938 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
13621977 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
13622017 CCTTTGGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
13622057 CCTTCGGGACTTAGCCCGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
13622097 CCTTCGGGACTTAGCCCAAATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
13622136 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
13622159 CATCCGAATA
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 118 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:13633934 original size:28 final size:28
Alignment explanation
Indices: 13633858--13633976 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
13633848 CGGGAAGTAG
*
13633858 TTGGCCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
13633886 TTGGGCCT-ATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
13633913 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * * *
13633941 TTGGGCCTGATGGAACATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
13633969 TTGGGCCT
1 TTGGGCCT
13633977 AAAGGGGCCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 26 0.32
28 56 0.68
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:13634323 original size:27 final size:27
Alignment explanation
Indices: 13634292--13634499 Score: 236
Period size: 27 Copynumber: 7.7 Consensus size: 27
13634282 TAATGAAGAG
*
13634292 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* * * *
13634319 GAAATTATCGGAACACCCTCGATTTGA
1 AAAATTACCGAAACACCCTCGATTTGT
* *
13634346 AAAATTACTGAAACACCCTCAATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
** *
13634373 AAAATTATTGAAACACCCTCGATTTTT
1 AAAATTACCGAAACACCCTCGATTTGT
* * *
13634400 AAAATTACTGAAATACCCTCGATCTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* **
13634427 AAAATTACCTAAATGCCCTCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
*
13634454 AAAATTACCGAAACACCCCCGATTTGT
1 AAAATTACCGAAACACCCTCGATTTGT
* * *
13634481 AAATTTATCGAAATACCCT
1 AAAATTACCGAAACACCCT
13634500 TGTAGTGTAA
Statistics
Matches: 151, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAACACCCTCGATTTGT
Found at i:13634508 original size:27 final size:27
Alignment explanation
Indices: 13634478--13634539 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
13634468 ACCCCCGATT
* *
13634478 TGTAAATTTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
*
13634505 TGTAAAATTATTGAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
13634532 TGTAAAAT
1 TGTAAAAT
13634540 GACCGACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAG
Found at i:13634550 original size:27 final size:27
Alignment explanation
Indices: 13634489--13634551 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
13634479 GTAAATTTAT
* * *
13634489 CGAAATACCCTTGTAGTGTAAAATTAT
1 CGAAATACCATTGTAGTGTAAAATGAC
*
13634516 TGAAATACCATTGTAGTGTAAAATGAC
1 CGAAATACCATTGTAGTGTAAAATGAC
*
13634543 CGACATACC
1 CGAAATACC
13634552 CCTATAGGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (27 bp):
CGAAATACCATTGTAGTGTAAAATGAC
Found at i:13638056 original size:15 final size:16
Alignment explanation
Indices: 13638029--13638058 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13638019 AAAGCAGTGC
13638029 AAAAATTTCTCCTTAA
1 AAAAATTTCTCCTTAA
13638045 AAAAATTT-TCCTTA
1 AAAAATTTCTCCTTA
13638059 GTAACTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAATTTCTCCTTAA
Found at i:13639212 original size:41 final size:41
Alignment explanation
Indices: 13639167--13639256 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
13639157 AGTTAATTAT
* * *
13639167 CCCCTATTTGTACTTC-AGTACCATTGAATTGCACATCCGTG
1 CCCCTATTTGTACTTCGA-TACCACTGAATTGCACATACGAG
*
13639208 CCCCTGTTTGTACTTCGATACCACTGAATTGCACATACGAG
1 CCCCTATTTGTACTTCGATACCACTGAATTGCACATACGAG
13639249 -CCCTATTT
1 CCCCTATTT
13639257 ACACTTCGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 7 0.16
41 35 0.81
42 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (41 bp):
CCCCTATTTGTACTTCGATACCACTGAATTGCACATACGAG
Found at i:13648238 original size:56 final size:57
Alignment explanation
Indices: 13648159--13648295 Score: 222
Period size: 56 Copynumber: 2.4 Consensus size: 57
13648149 ATCGTATTAC
* *
13648159 AGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTTAGAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
**
13648216 AGGATTACCA-TTTAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
1 AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
*
13648272 AGGATTACTAGTCCAGGCTAAATC
1 AGGATTACCAGTCCAGGCTAAATC
13648296 CCAATTGTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 51 0.71
57 21 0.29
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCATTTATGTAACGTATGCTTAGAAGAACTCAATT
Found at i:13650378 original size:24 final size:24
Alignment explanation
Indices: 13650342--13650422 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
13650332 TTGGAGGCCT
* *
13650342 AGCCTCTTTTAATAACTGGGGAAAA
1 AGCC-CTTTTAATAACTGGGGCATA
13650367 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13650391 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13650414 AGCCCTTTT
1 AGCCCTTTT
13650423 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13650403 original size:23 final size:23
Alignment explanation
Indices: 13650349--13650421 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
13650339 CCTAGCCTCT
* *
13650349 TTTAATAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
13650372 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
13650396 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
13650419 TTT
1 TTT
13650422 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:13650507 original size:19 final size:20
Alignment explanation
Indices: 13650472--13650535 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
13650462 ATGAATACAC
13650472 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
13650492 CATGTGCATA-CATACATGT
1 CATGTGCATATCATACATAT
* *
13650511 CATGTGTATATCATACATAC
1 CATGTGCATATCATACATAT
13650531 CATGT
1 CATGT
13650536 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:13655088 original size:31 final size:31
Alignment explanation
Indices: 13655050--13655113 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13655040 CCTTTTCATA
13655050 TTTCATATTTCATAACACGGGGCCGAAGCCT
1 TTTCATATTTCATAACACGGGGCCGAAGCCT
** *
13655081 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACGGGGCCGAAGCCT
13655112 TT
1 TT
13655114 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACGGGGCCGAAGCCT
Found at i:13655373 original size:23 final size:24
Alignment explanation
Indices: 13655307--13655423 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
13655297 GCTTTATCAT
*
13655307 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
13655332 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13655356 ATAACT-GGGCATATGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13655378 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13655401 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13655424 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.12
23 44 0.52
24 18 0.21
25 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13655498 original size:20 final size:20
Alignment explanation
Indices: 13655473--13655537 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
13655463 ATGAATACAC
13655473 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
13655493 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
13655513 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
13655533 CATGT
1 CATGT
13655538 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:13655504 original size:11 final size:11
Alignment explanation
Indices: 13655473--13655526 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
13655463 ATGAATACAC
13655473 CATGTGCATAT
1 CATGTGCATAT
*
13655484 CA--TACATAT
1 CATGTGCATAT
13655493 CATGTGCATAT
1 CATGTGCATAT
* *
13655504 CA--TACATGT
1 CATGTGCATAT
13655513 CATGTGCATAT
1 CATGTGCATAT
13655524 CAT
1 CAT
13655527 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:13655613 original size:25 final size:25
Alignment explanation
Indices: 13655573--13655621 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
13655563 CATATTTAAA
* *
13655573 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCAAAATGGTCATTTTT
13655598 ACCTAGGGGCAAAATGGTCATTTT
1 ACCTAGGGGCAAAATGGTCATTTT
13655622 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (25 bp):
ACCTAGGGGCAAAATGGTCATTTTT
Found at i:13658033 original size:19 final size:18
Alignment explanation
Indices: 13657996--13658039 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
13657986 ATACTTACAG
13657996 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
13658013 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
13658032 TACTAATT
1 TAATAATT
13658040 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:13666100 original size:24 final size:25
Alignment explanation
Indices: 13666073--13666147 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
13666063 GCCTAGCCTC
*
13666073 TTTTAAT-AGCTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
13666097 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** *
13666122 TTTCGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
13666147 T
1 T
13666148 GTGTAGTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 6 0.13
25 39 0.87
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:13666114 original size:25 final size:25
Alignment explanation
Indices: 13666082--13666147 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
13666072 CTTTTAATAG
*
13666082 CTGGGGCAAAGCCCTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
13666107 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
13666132 CTAGGGCAAAGCCCTT
1 CTGGGGCAAAGCCCTT
13666148 GTGTAGTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:13666223 original size:20 final size:21
Alignment explanation
Indices: 13666198--13666245 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
13666188 AAATGAATAC
*
13666198 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
13666218 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
13666239 ATCATGT
1 ATCATGT
13666246 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:13673690 original size:31 final size:30
Alignment explanation
Indices: 13673616--13673699 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 30
13673606 AATCAGTCTC
13673616 AACATATACTGGGCCGAAGCC-TTTCATTA
1 AACATATACTGGGCCGAAGCCTTTTCATTA
13673645 AACGAT-TACTGGGCCGAAGCCTTTTCA-TA
1 AAC-ATATACTGGGCCGAAGCCTTTTCATTA
*
13673674 ATTCATATCACTGGGCCGAAGCCTTT
1 A-ACATAT-ACTGGGCCGAAGCCTTT
13673700 ACTGTAAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 23 0.47
30 9 0.18
31 17 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (30 bp):
AACATATACTGGGCCGAAGCCTTTTCATTA
Found at i:13673974 original size:24 final size:25
Alignment explanation
Indices: 13673919--13673983 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
13673909 CTTTTAATAG
* *
13673919 CTGGGGCAAAGCACTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
*
13673944 CTGGGGCAAAGCCCTTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
13673969 CT-GGGCAAAGCCCTT
1 CTGGGGCAAAGCCCTT
13673984 GTGCACTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 13 0.35
25 24 0.65
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:13686701 original size:33 final size:30
Alignment explanation
Indices: 13686604--13686717 Score: 92
Period size: 33 Copynumber: 3.7 Consensus size: 30
13686594 TGTTAAAATT
* *
13686604 ATAATAATA-A-AGATAA-AGATAAACAAC
1 ATAATAATATATATATAATAGATAAATAAC
* *
13686631 ATAATAAATAATATATGATAAAATATAAATAA-
1 ATAAT-AAT-ATATAT-ATAATAGATAAATAAC
13686663 ATAATAGATAGTATATATAATAGATAACATAAC
1 ATAATA-ATA-TATATATAATAGATAA-ATAAC
13686696 ATAATAATATAAATATATAATA
1 ATAATAATAT--ATATATAATA
13686718 AAATAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
27 5 0.07
28 3 0.04
29 1 0.01
30 1 0.01
31 13 0.19
32 23 0.33
33 24 0.34
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (30 bp):
ATAATAATATATATATAATAGATAAATAAC
Found at i:13686707 original size:13 final size:12
Alignment explanation
Indices: 13686634--13686725 Score: 54
Period size: 13 Copynumber: 7.8 Consensus size: 12
13686624 AAACAACATA
13686634 ATAAATAAT-AT
1 ATAAATAATAAT
*
13686645 AT-GATAA-AAT
1 ATAAATAATAAT
13686655 ATAAAT-A-AAT
1 ATAAATAATAAT
* *
13686665 AATAGATAGT-AT
1 -ATAAATAATAAT
*
13686677 ATATAATAGATAAC
1 ATA-AATA-ATAAT
13686691 ATAACATAATAAT
1 ATAA-ATAATAAT
13686704 ATAAATATATAAT
1 ATAAATA-ATAAT
13686717 A-AAATAATA
1 ATAAATAATA
13686726 TACGACAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
10 12 0.19
11 15 0.24
12 13 0.21
13 16 0.25
14 7 0.11
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:13686717 original size:16 final size:16
Alignment explanation
Indices: 13686631--13686727 Score: 62
Period size: 16 Copynumber: 6.1 Consensus size: 16
13686621 GATAAACAAC
13686631 ATAATAA-ATAATATAT
1 ATAATAATATAA-ATAT
*
13686647 GATAA-AATATAAATAA
1 -ATAATAATATAAATAT
13686663 ATAATAGATAGT--ATAT
1 ATAATA-ATA-TAAATAT
* *
13686679 ATAATAGATA-ACATAAC
1 ATAATA-ATATAAAT-AT
13686696 ATAATAATATAAATAT
1 ATAATAATATAAATAT
*
13686712 ATAATAAAAT-AATAT
1 ATAATAATATAAATAT
13686727 A
1 A
13686728 CGACAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.15
16 34 0.52
17 21 0.32
18 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATAATATAAATAT
Found at i:13686787 original size:16 final size:16
Alignment explanation
Indices: 13686766--13686810 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
13686756 TGTTTATAGC
*
13686766 AAAATAAATAATATTT
1 AAAATAAATAAAATTT
13686782 AAAATAAA-AAAATTT
1 AAAATAAATAAAATTT
*
13686797 AGAAATATATAAAA
1 A-AAATAAATAAAA
13686811 ATGGATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATAAATAAAATTT
Found at i:13688420 original size:79 final size:80
Alignment explanation
Indices: 13688251--13688433 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
13688241 CTCCCCGTTG
* * ** * *
13688251 AATACAGAGACGCCCAAATCATCTTGAATTAGCCTTGATGAAGATCAGATCTACTAATGTCTTCG
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
*
13688316 ATTTGCTCTCTGTCC
66 ATTTGCTCTCTGTCA
* * * * *
13688331 ATTACAGAGATGCCCAAATTATCTTGGATTTGCCTCGACAAAGATCAGATCTGCT-ATATCTTCA
1 AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
13688395 ATTTGCT-TCCTGTCA
66 ATTTGCTCT-CTGTCA
13688410 AATACAGAGATG-CCAAATCATCTT
1 AATACAGAGATGCCCAAATCATCTT
13688434 CTTGGTTTTG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.14
79 30 0.34
80 46 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (80 bp):
AATACAGAGATGCCCAAATCATCTTGAATTAGCCTCGACAAAGATCAGATCTACTAATATCTTCA
ATTTGCTCTCTGTCA
Found at i:13688503 original size:45 final size:44
Alignment explanation
Indices: 13688454--13688578 Score: 150
Period size: 44 Copynumber: 2.9 Consensus size: 44
13688444 CTACCGGTCG
13688454 AATACGGGGATGCCAAATCTGTCATCTTGGATCTGCTCCCCATCA
1 AATACGGGGATGCCAAATCTGTC-TCTTGGATCTGCTCCCCATCA
* * * *
13688499 AATACGGGGATACCAAATCTG-CTTCTTGGATTTACTCCTCATCA
1 AATACGGGGATGCCAAATCTGTC-TCTTGGATCTGCTCCCCATCA
**
13688543 AATACGAAGATGCCAAATC--T-TCTTGGATCTGCTCCC
1 AATACGGGGATGCCAAATCTGTCTCTTGGATCTGCTCCC
13688579 TGATGCCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 13 0.19
44 35 0.51
45 20 0.29
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
AATACGGGGATGCCAAATCTGTCTCTTGGATCTGCTCCCCATCA
Found at i:13688630 original size:44 final size:43
Alignment explanation
Indices: 13688580--13688807 Score: 191
Period size: 44 Copynumber: 5.3 Consensus size: 43
13688570 TCTGCTCCCT
* *
13688580 GATGCCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAA
1 GATGCCAAATCTGCTTCTTGGATCTGCTC-TCGTCAAATACGAA
* * * *
13688624 GATGCCAAA--T-CATCTTGGATCTGCTCCCTGTCGAATACGGA
1 GATGCCAAATCTGCTTCTTGGATCTGCTCTC-GTCAAATACGAA
* *
13688665 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAA
1 GATGCCAAATCTGCTTCTTGGATCTGCT-CTCGTCAAATACGAA
* * * *
13688709 GATGCCAAATCTACTATCTTCGATCTGCTCTC-TGACGATAC-AGA
1 GATGCCAAATCTGCT-TCTTGGATCTGCTCTCGTCA-AATACGA-A
* * *
13688753 GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATATA--AA
1 GATGCCAAATCTGCT-TCTTGGATCTGCTCTC-GTCAA-ATACGAA
13688797 GATGCCAAATC
1 GATGCCAAATC
13688808 ATCTTGGATC
Statistics
Matches: 150, Mismatches: 23, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.21
42 1 0.01
43 4 0.03
44 94 0.63
45 14 0.09
46 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (43 bp):
GATGCCAAATCTGCTTCTTGGATCTGCTCTCGTCAAATACGAA
Found at i:13688630 original size:73 final size:73
Alignment explanation
Indices: 13688511--13688653 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 73
13688501 TACGGGGATA
* * *
13688511 CCAAATCTGCTTCTTGGATTTACTCCTCATCAAATACGAAGATGCCAAATCTTCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
13688576 CCCTGATG
66 CCCTGATG
* *
13688584 CCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
13688649 CCCTG
66 CCCTG
13688654 TCGAATACGG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (73 bp):
CCAAATCTGCTTCTTGGATTTACTCATCATAAAATACGAAGATGCCAAATCATCTTGGATCTGCT
CCCTGATG
Found at i:13688649 original size:41 final size:40
Alignment explanation
Indices: 13688595--13688719 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 40
13688585 CAAATCTGCT
*
13688595 TCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCA
1 TCTTGGATTTGCTC-TCGTCAAATACGAAGATGCCAAATCA
* * * * *
13688636 TCTTGGATCTGCTCCCTGTCGAATACGGAGATGCCAAATCTGCT
1 TCTTGGATTTGCTCTC-GTCAAATACGAAGATGCCAAA--T-CA
*
13688680 TCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATC
1 TCTTGGATTTGCT-CTCGTCAAATACGAAGATGCCAAATC
13688720 TACTATCTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 32 0.47
42 1 0.01
43 1 0.01
44 31 0.46
45 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
TCTTGGATTTGCTCTCGTCAAATACGAAGATGCCAAATCA
Found at i:13688704 original size:85 final size:84
Alignment explanation
Indices: 13688580--13688818 Score: 286
Period size: 85 Copynumber: 2.8 Consensus size: 84
13688570 TCTGCTCCCT
* * *
13688580 GATGCCAAATCTGCTTCTTGGATTTGCTCATCGTAAAATACGAAGATGCCAAATCATCTTGGATC
1 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATC
* *
13688645 TGCTCCCTGTCGAATACGGA
66 TGCTCCCTGACG-ATACAGA
*
13688665 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCTACTATCTTC
1 GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAA--T-C-ATCTTG
*
13688730 GATCTGCTCTCTGACGATACAGA
62 GATCTGCTCCCTGACGATACAGA
* * * *
13688753 GACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATATA--AAGATGCCAAATCATCTTGG
1 GATGCCAAATCTGCT-TCTTGGATTTGCTC-CTCATCAA-ATACGAAGATGCCAAATCATCTTGG
13688815 ATCT
63 ATCT
13688819 ACTTCAGCGT
Statistics
Matches: 135, Mismatches: 12, Indels: 15
0.83 0.07 0.09
Matches are distributed among these distances:
84 10 0.07
85 51 0.38
86 1 0.01
87 1 0.01
88 32 0.24
89 34 0.25
90 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (84 bp):
GATGCCAAATCTGCTTCTTGGATTTGCTCCTCATCAAATACGAAGATGCCAAATCATCTTGGATC
TGCTCCCTGACGATACAGA
Found at i:13700752 original size:16 final size:16
Alignment explanation
Indices: 13700699--13700795 Score: 83
Period size: 16 Copynumber: 5.9 Consensus size: 16
13700689 GATAAACAAC
13700699 ATAATAAATAATATAT
1 ATAATAAATAATATAT
*
13700715 GATAA-AATATAA-ATAA
1 -ATAATAA-ATAATATAT
*
13700731 ATAATAGATAATATAT
1 ATAATAAATAATATAT
* * *
13700747 ATAATAGATAACATAAC
1 ATAATAAATAATAT-AT
13700764 ATAATAATATAA-ATAT
1 ATAATAA-ATAATATAT
13700780 ATAATAAAATAATATA
1 ATAAT-AAATAATATA
13700796 CGATAAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
15 8 0.12
16 32 0.48
17 22 0.33
18 4 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAATAAATAATATAT
Found at i:13700752 original size:29 final size:29
Alignment explanation
Indices: 13700672--13700791 Score: 95
Period size: 33 Copynumber: 4.0 Consensus size: 29
13700662 TGTTAAAATT
* * *
13700672 ATAATAATAA-AGATA-AAGATAAACAAC
1 ATAATAATAATATATATAATATAAATAAC
13700699 ATAATAAATAATATATGATAAAATATAAATAA-
1 ATAAT-AATAATATAT-AT--AATATAAATAAC
13700731 ATAATAGATAATATATATAATAGATAACATAAC
1 ATAATA-ATAATATATATAAT--ATAA-ATAAC
*
13700764 ATAATAATATAAATATATAATA-AAATAA
1 ATAATAATA-ATATATATAATATAAATAA
13700792 TATACGATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
27 5 0.06
28 5 0.06
29 10 0.13
30 3 0.04
31 8 0.10
32 21 0.27
33 25 0.32
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (29 bp):
ATAATAATAATATATATAATATAAATAAC
Found at i:13700775 original size:13 final size:12
Alignment explanation
Indices: 13700702--13700793 Score: 63
Period size: 13 Copynumber: 7.8 Consensus size: 12
13700692 AAACAACATA
13700702 ATAAATAAT-AT
1 ATAAATAATAAT
*
13700713 AT-GATAA-AAT
1 ATAAATAATAAT
13700723 ATAAAT-A-AAT
1 ATAAATAATAAT
*
13700733 AATAGATAAT-AT
1 -ATAAATAATAAT
*
13700745 ATATAATAGATAAC
1 ATA-AATA-ATAAT
13700759 ATAACATAATAAT
1 ATAA-ATAATAAT
13700772 ATAAATATATAAT
1 ATAAATA-ATAAT
13700785 A-AAATAATA
1 ATAAATAATA
13700794 TACGATAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
10 12 0.18
11 15 0.23
12 14 0.22
13 17 0.26
14 7 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:13700801 original size:60 final size:62
Alignment explanation
Indices: 13700667--13700791 Score: 146
Period size: 65 Copynumber: 2.0 Consensus size: 62
13700657 ACAAGTGTTA
*
13700667 AAATTATA-ATAATAAAGATAAAGATAAACAACATAATAAATAATATATGATAAAATATAAAT
1 AAATAATAGATAATAAAGATAAAGATAAACAACATAATAAATAATATATGAT-AAATATAAAT
* * * *
13700729 AAATAATAGATAATATATATAATAGATAACATAACATAATAATATAAATATATAATAAA-ATAA
1 AAATAATAGATAATAAAGATAA-AGATAA-ACAACATAATAA-AT-AATATATGATAAATATAA
13700792 TATACGATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
62 7 0.13
63 11 0.21
64 6 0.11
65 15 0.28
66 5 0.09
67 9 0.17
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (62 bp):
AAATAATAGATAATAAAGATAAAGATAAACAACATAATAAATAATATATGATAAATATAAAT
Found at i:13700865 original size:25 final size:22
Alignment explanation
Indices: 13700832--13700893 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 22
13700822 AATGTTTATA
13700832 TTAAAATAAATAATATATAAAATAT
1 TTAAAATAAATAA-ATA-AAAA-AT
13700857 TTAAAATAAATAAATAAAAAAT
1 TTAAAATAAATAAATAAAAAAT
*
13700879 TTAGAAATATATAAA
1 TTA-AAATAAATAAA
13700894 AATGGATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
22 5 0.14
23 14 0.40
24 3 0.09
25 13 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAATAAATAAATAAAAAAT
Found at i:13702194 original size:17 final size:17
Alignment explanation
Indices: 13702172--13702204 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13702162 TAAATGGACT
*
13702172 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
13702189 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
13702205 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:13702651 original size:19 final size:17
Alignment explanation
Indices: 13702627--13702669 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
13702617 TGGGCCTTGT
*
13702627 TGGGCCGAGTTGGGCTATG
1 TGGGCCCAG-TGGGC-ATG
*
13702646 TGGGCCCAGTGGGCCTG
1 TGGGCCCAGTGGGCATG
13702663 TGGGCCC
1 TGGGCCC
13702670 CCACAGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 5 0.23
19 8 0.36
ACGTcount: A:0.07, C:0.26, G:0.47, T:0.21
Consensus pattern (17 bp):
TGGGCCCAGTGGGCATG
Found at i:13703330 original size:28 final size:28
Alignment explanation
Indices: 13703298--13703365 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
13703288 CATATTTACA
* *
13703298 CTACACTGATACTGTATTGGGCTTAGGC
1 CTACACTGATACTGTATAGGGCTAAGGC
*
13703326 CTACACT-ATTATTGTATAGGGCTAAGGC
1 CTACACTGA-TACTGTATAGGGCTAAGGC
* *
13703354 CCAGACTGATAC
1 CTACACTGATAC
13703366 CGAATGCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.03
28 30 0.94
29 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (28 bp):
CTACACTGATACTGTATAGGGCTAAGGC
Found at i:13718792 original size:47 final size:47
Alignment explanation
Indices: 13718729--13719188 Score: 812
Period size: 47 Copynumber: 9.7 Consensus size: 47
13718719 ATGATAGTAT
13718729 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13718776 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
13718823 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13718870 GGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13718917 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13718964 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13719011 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
13719058 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
13719107 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
13719156 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
13719189 CCCGAAGGGC
Statistics
Matches: 399, Mismatches: 11, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
47 305 0.76
49 90 0.23
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:13719362 original size:37 final size:37
Alignment explanation
Indices: 13719306--13719384 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13719296 CCGAGCTCTA
* * *
13719306 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13719343 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13719380 AAGAC
1 AAGAC
13719385 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13721410 original size:1 final size:1
Alignment explanation
Indices: 13721404--13721451 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
13721394 TCTTTTATTG
* * * * *
13721404 TTTTTTTTTATTTTTTTGTTGTTTTTTTTTTGTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13721452 GATTTTCGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:13721414 original size:13 final size:12
Alignment explanation
Indices: 13721396--13721457 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 12
13721386 CTCTTCTCTC
13721396 TTTTATTGTTTTT
1 TTTTATT-TTTTT
13721409 TTTTATTTTTTT
1 TTTTATTTTTTT
13721421 GTTGTT-TTTTTTT
1 -TT-TTATTTTTTT
*
13721434 TGTTTTTTTTTCTT
1 T-TTTATTTTT-TT
13721448 TTTTGATTTT
1 TTTT-ATTTT
13721458 CGAAACCTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
12 8 0.19
13 25 0.60
14 9 0.21
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:13721418 original size:11 final size:11
Alignment explanation
Indices: 13721404--13721444 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
13721394 TCTTTTATTG
*
13721404 TTTTTTTTTAT
1 TTTTTTTTTGT
*
13721415 TTTTTTGTTGT
1 TTTTTTTTTGT
13721426 TTTTTTTTTGT
1 TTTTTTTTTGT
13721437 TTTTTTTT
1 TTTTTTTT
13721445 CTTTTTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:13721425 original size:21 final size:21
Alignment explanation
Indices: 13721396--13721451 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
13721386 CTCTTCTCTC
13721396 TTTTATTGTTTTTTTTTAT-TT
1 TTTTATTGTTTTTTTTT-TGTT
*
13721417 TTTTGTTGTTTTTTTTTTGTT
1 TTTTATTGTTTTTTTTTTGTT
* *
13721438 TTTTTTTCTTTTTT
1 TTTTATTGTTTTTT
13721452 GATTTTCGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.04, C:0.02, G:0.07, T:0.88
Consensus pattern (21 bp):
TTTTATTGTTTTTTTTTTGTT
Found at i:13721433 original size:14 final size:13
Alignment explanation
Indices: 13721404--13721444 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
13721394 TCTTTTATTG
*
13721404 TTTTT-TTTTATT
1 TTTTTGTTTTTTT
13721416 TTTTTGTTGTTTTT
1 TTTTTGTT-TTTTT
13721430 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
13721443 TT
1 TT
13721445 CTTTTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 9 0.35
14 12 0.46
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.90
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:13731111 original size:28 final size:28
Alignment explanation
Indices: 13731063--13731153 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
13731053 GTGACAAAGT
*
13731063 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
13731092 CACCAGAACAGATAATTTGTGGCTGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
13731120 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
13731148 CACCAG
1 CACCAG
13731154 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:13731302 original size:28 final size:28
Alignment explanation
Indices: 13731259--13731319 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
13731249 AAATTAACCC
13731259 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
13731287 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
13731315 TAGGG
1 TAGGG
13731320 TATTCTAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:13742371 original size:64 final size:64
Alignment explanation
Indices: 13742270--13742397 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
13742260 ACACGAACTT
13742270 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
1 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
13742334 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
1 ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
13742398 CTCTTTATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (64 bp):
ACCTCGACACTTGTTCGTGTATGAAAATCTGTTAATCCAACACATTTTCTTTTCCTCGATCTAA
Found at i:13745011 original size:32 final size:32
Alignment explanation
Indices: 13744965--13745037 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
13744955 GACTAGATGA
*
13744965 GGCCATGTGATACACACGAGCTCGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
* * *
13744997 GGCCGTGTGATACACACGTGTTAGACCAATTG
1 GGCCATGTGATACACACGAGCTAGACCAATTG
*
13745029 GGTCATGTG
1 GGCCATGTG
13745038 GGCCAAACGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (32 bp):
GGCCATGTGATACACACGAGCTAGACCAATTG
Found at i:13752262 original size:17 final size:18
Alignment explanation
Indices: 13752240--13752274 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13752230 TAACTTGGGC
13752240 TGTGTGGG-CCACACGGG
1 TGTGTGGGCCCACACGGG
13752257 TGTGTGGGCCCACACGGG
1 TGTGTGGGCCCACACGGG
13752275 CATGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
TGTGTGGGCCCACACGGG
Found at i:13757972 original size:43 final size:43
Alignment explanation
Indices: 13757898--13758019 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 43
13757888 CTGAATTCAT
* * * *
13757898 TCACCGATATTAT-GCCTGTTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
*
13757940 TCACCGGTATTATAGCCTGCTAGGCTTAAAGCCCGATATTAAA
1 TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
* *
13757983 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGTATTATAGCCTGCTAGGCTC-AAAGCCCGA
13758020 ATAGCACTGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 12 0.17
43 50 0.71
44 8 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (43 bp):
TCACCGGTATTATAGCCTGCTAGGCTCAAAGCCCGATATTAAA
Found at i:13765900 original size:43 final size:43
Alignment explanation
Indices: 13765853--13765935 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
13765843 GCCACGCTCG
* * * *
13765853 AAGCCCGATATTAACTGACTGACATTATAGCCTGCTAGGCATA
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCATA
*
13765896 AAGCCCGATATTAAATCACCGGCATTACAGCCTGCTAGGC
1 AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGC
13765936 TCGAAGGCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
AAGCCCGATATTAAATCACCGACATTACAGCCTGCTAGGCATA
Found at i:13785063 original size:48 final size:48
Alignment explanation
Indices: 13784976--13785272 Score: 335
Period size: 48 Copynumber: 6.1 Consensus size: 48
13784966 GGAAATCTTA
* * *
13784976 CACATATTGATGCCGATGCCATATCCCAGATATGCTCTTACACTGGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* * *
13785024 CCCATAATAATGTCGATGCCATA-CCCTAGATATGGTCTTACATTGGCT
1 CACATAATAATGCCGATGCCATATCCC-AGATATGGTCTTACACTGGCT
* * *
13785072 CACATAATAATGTCGATGCCATATCCTAGATATGGTCTTACACTAGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* *
13785120 CACATAATAATGCCAATGCCATATCCCAGACATGGTCTTACACTGGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* * * * * * *
13785168 CTCATAATAATGCCAATGCCATGTTCCAAACATGGTCTTACACTAGCT
1 CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
* ** * * *
13785216 CTCATACATCGGTGCCGATACCATGTCCCAGACATGGTCTTACACTGGCT
1 CACATA-AT-AATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
*
13785266 CGCATAA
1 CACATAA
13785273 CAGCAGTGTC
Statistics
Matches: 217, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.01
48 171 0.79
49 5 0.02
50 38 0.18
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CACATAATAATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCT
Found at i:13792542 original size:27 final size:27
Alignment explanation
Indices: 13792434--13792741 Score: 299
Period size: 27 Copynumber: 11.6 Consensus size: 27
13792424 TTAGTTTACC
* *
13792434 AAATTACTGAAATACTCC-C-AGTTGTA
1 AAATTACTAAAATAC-CCTCGATTTGTA
* * *
13792460 AAATTACCAAAGTACCC-CGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
13792486 AAATTACCGAAATACCATCG--TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
13792511 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
13792538 AAATTACCGAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
*
13792565 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* *
13792592 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
13792619 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
13792646 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
13792673 AAATTA-TCAAAATACCCTC-AGTTTGCA
1 AAATTACT-AAAATACCCTCGA-TTTGTA
13792700 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
13792727 AAATTACTGAAATAC
1 AAATTACTAAAATAC
13792742 TCCTGTAAGA
Statistics
Matches: 234, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
25 23 0.10
26 33 0.14
27 175 0.75
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:13792605 original size:81 final size:79
Alignment explanation
Indices: 13792434--13792741 Score: 331
Period size: 81 Copynumber: 3.8 Consensus size: 79
13792424 TTAGTTTACC
* *
13792434 AAATTACTGAAATACTCC-CAGTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAA
1 AAATTACTAAAATAC-CCTCATTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAA
*
13792498 TACCATCG--TTGTA
65 TACCCTCGATTTGTA
* ** *
13792511 AAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAA-TACCCTC-AGTTTGCAAAATTACTG
1 AAATTACTAAAATACCC-TCATTTGTAAAATTACC-AAAGTACCC-CGA-TTTATAAAATTACCG
13792574 AAATACCCTCGATTTGTA
62 AAATACCCTCGATTTGTA
* * *
13792592 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTAAAATACCCTC-ATTTGTAAAATTACCAAAGTA-CCCCGATTTATAAAATTACCGAA
* *
13792657 ATATCCTCAATTTGTA
64 ATACCCTCGATTTGTA
* * * * *
13792673 AAATTA-TCAAAATACCCTCAGTTTGCAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGA
1 AAATTACT-AAAATACCCTCA-TTTGTAAAATTACCAAAGTACCC-CGATTTATAAAATTACCGA
13792737 AATAC
63 AATAC
13792742 TCCTGTAAGA
Statistics
Matches: 192, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
76 2 0.01
77 14 0.07
78 20 0.10
79 26 0.14
80 9 0.05
81 117 0.61
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (79 bp):
AAATTACTAAAATACCCTCATTTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCGAAAT
ACCCTCGATTTGTA
Found at i:13792785 original size:27 final size:27
Alignment explanation
Indices: 13792755--13792922 Score: 237
Period size: 27 Copynumber: 6.2 Consensus size: 27
13792745 TGTAAGATAA
13792755 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
13792782 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
13792809 AATTACCATTTTACCATCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
13792836 AATTACCATTTTATCTTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
13792863 AATTACCGTCTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
13792890 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAG
13792917 AATTAC
1 AATTAC
13792923 TGAAATATCC
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:13792840 original size:81 final size:81
Alignment explanation
Indices: 13792753--13792922 Score: 277
Period size: 81 Copynumber: 2.1 Consensus size: 81
13792743 CCTGTAAGAT
* *
13792753 AAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
*
13792818 TTTACCATCGATTTAT
66 TTTACCATCGATTTAC
* * *
13792834 AGAATTACCATTTTATCTTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
*
13792899 TTTACCCTCGATTTAC
66 TTTACCATCGATTTAC
13792915 AAAATTAC
1 AAAATTAC
13792923 TGAAATATCC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACCATTTTACCCTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCAT
TTTACCATCGATTTAC
Found at i:13792948 original size:54 final size:54
Alignment explanation
Indices: 13792472--13792951 Score: 183
Period size: 54 Copynumber: 8.9 Consensus size: 54
13792462 ATTACCAAAG
* * * ***
13792472 TACCC-CGATTTATAAAATTACCGAAATACCATCG-TTGT--AAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATT-TACAAAATTACCATTT
* ** * * **
13792523 TACCCTTGATTTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAATTACTGA-AA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGA-TTTACAAAATTAC-CATTT
** * * ** ***
13792577 TACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* * * * * ** * ***
13792631 TACCCCCGATTTATAAAATTACCCAAATATCCTCAATTTGTAAAATTATCAAAA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* ** ** * **
13792685 TACCCTC-AGTTTGCAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGA-AA
1 TACCCTCGA-TTTACAAAATTACCGAAATACCCTCGATTTACAAAATTAC-CATTT
** * ** * * *
13792739 TACTCCT-G-TAAGATAAAATTACC-ATTTTACCCTCGATTTACAGAATTATCGTTT
1 TAC-CCTCGAT-TTACAAAATTACCGA-AATACCCTCGATTTACAAAATTACCATTT
* * ** * * *
13792793 TACCCTCGATTTATAGAATTACC-ATTTTACCATCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGA-AATACCCTCGATTTACAAAATTACCATTT
* * * *** * *
13792847 TATCTTCGATTTACAGAATTACCGTCTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
* * * *
13792901 TACCCTCGATTTACAAAATTACTGAAATATCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCA
13792952 AAATATCCTC
Statistics
Matches: 343, Mismatches: 68, Indels: 33
0.77 0.15 0.07
Matches are distributed among these distances:
51 5 0.01
52 26 0.08
53 9 0.03
54 296 0.86
55 7 0.02
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGAAATACCCTCGATTTACAAAATTACCATTT
Found at i:13792962 original size:54 final size:53
Alignment explanation
Indices: 13792904--13793009 Score: 122
Period size: 54 Copynumber: 2.0 Consensus size: 53
13792894 ACCATTTTAC
** ** * *
13792904 CCTCGATTTACAAAATTACTGAAATATCCTTGGTTTACAAAATTACCAAAATAT
1 CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAA-TACCAAAATAT
* **
13792958 CCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATACCAAAATA
1 CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAATACCAAAATA
13793010 CCCCTGATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
53 10 0.23
54 33 0.77
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
CCTCGATCAACAAAATTACCAAAATACCCCTGGTTTACAAAATACCAAAATAT
Found at i:13792962 original size:81 final size:81
Alignment explanation
Indices: 13792793--13792978 Score: 196
Period size: 81 Copynumber: 2.3 Consensus size: 81
13792783 ATTATCGTTT
* * **
13792793 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTATAGAATTACCATTTTATCTTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
* ****
13792858 TACAGAATTACCGTCT
66 TACAAAATTACCAAAA
* * *
13792874 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATATCCTT-GG
1 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTAC-CATAATAT-CTTCGA
13792937 TTTACAAAATTACCAAAA
64 TTTACAAAATTACCAAAA
* ** *
13792955 TATCCTCGATCAATAAAATTACCA
1 TACCCTCGATTTATAGAATTACCA
13792979 AAATACCCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 83 0.95
82 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAAAATTACCATAATATCTTCGATT
TACAAAATTACCAAAA
Found at i:13792998 original size:27 final size:27
Alignment explanation
Indices: 13792942--13793039 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
13792932 CTTGGTTTAC
* ***
13792942 AAAATTACCAAAATA-TCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
13792969 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
13792996 AAAA-TACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
13793022 GAAATTACCGAAATACCC
1 AAAATTACCAAAATACCC
13793040 TTGTAGGGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.39
27 34 0.56
28 3 0.05
ACGTcount: A:0.43, C:0.23, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:13793040 original size:26 final size:26
Alignment explanation
Indices: 13792970--13793039 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
13792960 TCGATCAATA
*
13792970 AAATTACCAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
13792996 AAAATACCAAAATACCCCTGATTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
13793022 GAAATTACCGAAATACCC
1 -AAATTACCAAAATACCC
13793040 TTGTAGGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTTGT
Found at i:13793054 original size:27 final size:27
Alignment explanation
Indices: 13793024--13793378 Score: 464
Period size: 27 Copynumber: 13.3 Consensus size: 27
13793014 TGATTTGTGA
*
13793024 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13793051 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
13793078 AATTACTGGAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13793105 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13793132 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13793159 AATTATCGCAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
13793186 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
13793213 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13793240 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
13793267 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
13793294 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
13793321 AATTACCGAGATA-CCTTGTGGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13793347 AATTACCGAGATA-CCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
13793372 AATTACC
1 AATTACC
13793379 ATTTTGCCCC
Statistics
Matches: 298, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
25 7 0.02
26 35 0.12
27 256 0.86
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13793341 original size:21 final size:24
Alignment explanation
Indices: 13793316--13793367 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 24
13793306 ACCCCTGTAG
13793316 GGTGGAATTACCGAGATACCTTGT
1 GGTGGAATTACCGAGATACCTTGT
13793340 GGGGTGGAATTACCGAGATACCTTGT
1 --GGTGGAATTACCGAGATACCTTGT
13793366 GG
1 GG
13793368 GGTAAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
26 24 0.92
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (24 bp):
GGTGGAATTACCGAGATACCTTGT
Found at i:13793833 original size:31 final size:31
Alignment explanation
Indices: 13793787--13793897 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
13793777 TTGCATTCAC
*
13793787 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
13793819 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
13793850 ATTTTGATTATGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
13793881 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
13793898 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:13793886 original size:6 final size:6
Alignment explanation
Indices: 13793787--13793906 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
13793777 TTGCATTCAC
* * * *
13793787 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
13793837 -TTACCTG ATACTG ATTTTG ATTATG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
13793887 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
13793907 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 62 0.73
7 14 0.16
8 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13801962 original size:12 final size:12
Alignment explanation
Indices: 13801945--13801972 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13801935 GAGAATAAAA
13801945 AAAATAAAATGG
1 AAAATAAAATGG
13801957 AAAATAAAATGG
1 AAAATAAAATGG
13801969 AAAA
1 AAAA
13801973 ACTACTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATAAAATGG
Found at i:13810698 original size:20 final size:21
Alignment explanation
Indices: 13810673--13810711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13810663 TTCTTGAAAC
13810673 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
13810693 AGGGCAACATGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
13810712 ATCCTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:13812745 original size:18 final size:19
Alignment explanation
Indices: 13812722--13812762 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
13812712 TTACATCAAC
13812722 ATTTTAATCAGAAT-AAAT
1 ATTTTAATCAGAATAAAAT
*
13812740 ATTTTAATCGGAATAAAAT
1 ATTTTAATCAGAATAAAAT
13812759 ATTT
1 ATTT
13812763 GGACTAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
ATTTTAATCAGAATAAAAT
Found at i:13813582 original size:21 final size:21
Alignment explanation
Indices: 13813557--13813598 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13813547 GTTTTAGCTA
* *
13813557 TTTGAATTGGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
13813578 TTTGAACTCGTTAATAATATT
1 TTTGAACTCGTTAATAATATT
13813599 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTGAACTCGTTAATAATATT
Found at i:13823308 original size:19 final size:19
Alignment explanation
Indices: 13823272--13823310 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13823262 TTTTCATCAT
* *
13823272 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
13823291 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
13823310 A
1 A
13823311 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:13823860 original size:28 final size:27
Alignment explanation
Indices: 13823774--13823863 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
13823764 GTGACAGAGT
*
13823774 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
13823803 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
13823830 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
13823858 CACCAG
1 CACCAG
13823864 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:13824016 original size:28 final size:28
Alignment explanation
Indices: 13823970--13824033 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13823960 AATTAACCCT
*
13823970 AGGGGTATAAATGTCATTTTGCATACAC
1 AGGGGTATAAATGTAATTTTGCATACAC
* *
13823998 AGGGGTAT-AATGGTAATTTTTCATACAT
1 AGGGGTATAAAT-GTAATTTTGCATACAC
13824026 AGGGGTAT
1 AGGGGTAT
13824034 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (28 bp):
AGGGGTATAAATGTAATTTTGCATACAC
Found at i:13832255 original size:16 final size:16
Alignment explanation
Indices: 13832234--13832265 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13832224 AATCTATATT
13832234 TATTATAAATTTTTTA
1 TATTATAAATTTTTTA
*
13832250 TATTATTAATTTTTTA
1 TATTATAAATTTTTTA
13832266 GATAAAAATA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATAAATTTTTTA
Found at i:13833474 original size:22 final size:22
Alignment explanation
Indices: 13833433--13833474 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13833423 TAATTTCCTC
*
13833433 ATTTAATTTTGAAATTAATTTT
1 ATTTAATTTTGAAATAAATTTT
**
13833455 ATTTAATTTTGGTATAAATT
1 ATTTAATTTTGAAATAAATT
13833475 CTTTTAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTAATTTTGAAATAAATTTT
Found at i:13844066 original size:25 final size:25
Alignment explanation
Indices: 13844027--13844074 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
13844017 CAAGCGAGTC
13844027 ATATCAGGAAGCTCA-CAAAGAGCCT
1 ATATCAGGAAGCTCATC-AAGAGCCT
13844052 ATATCAGGACA-CTCATCAAGAGC
1 ATATCAGGA-AGCTCATCAAGAGC
13844075 TGCATTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (25 bp):
ATATCAGGAAGCTCATCAAGAGCCT
Found at i:13846764 original size:14 final size:15
Alignment explanation
Indices: 13846733--13846781 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
13846723 ACTAGAAGAA
13846733 AAAGAAAAAAGGAAG
1 AAAGAAAAAAGGAAG
* *
13846748 AAAG-AAAATGGAGG
1 AAAGAAAAAAGGAAG
*
13846762 AAA-AAGAAAGGAAG
1 AAAGAAAAAAGGAAG
13846776 -AAGAAA
1 AAAGAAA
13846782 TTAGCACCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
13 2 0.08
14 20 0.77
15 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAGGAAG
Found at i:13858866 original size:15 final size:15
Alignment explanation
Indices: 13858848--13858891 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
13858838 GAAGCCCAGA
13858848 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13858863 ATAAAGAATTCCATG
1 ATAAAGAAATCCAAG
*
13858878 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
13858892 TTTACAGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13868217 original size:40 final size:40
Alignment explanation
Indices: 13868180--13868405 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
13868170 GCTACTCGTT
* *
13868180 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
13868220 CAAATGCCTTCGGGACTTAAACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
13868260 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
13868300 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
13868340 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
13868381 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13868406 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.01
40 151 0.90
41 14 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13868389 original size:120 final size:120
Alignment explanation
Indices: 13868180--13868405 Score: 289
Period size: 120 Copynumber: 1.9 Consensus size: 120
13868170 GCTACTCGTT
13868180 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAACCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAACCGG
* *
13868245 ATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
* * * **
13868300 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAAAC
* * * *
13868362 CGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CGGATATAGT-AACTAGCACAAATGCCTTCGAGACTTAACCCGGA
13868406 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 6 0.07
120 73 0.80
121 12 0.13
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAACCGG
ATATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13868399 original size:80 final size:79
Alignment explanation
Indices: 13868147--13868405 Score: 292
Period size: 80 Copynumber: 3.3 Consensus size: 79
13868137 AAATCACGTA
* * * * * *
13868147 CCTTCGGAATTTA-ACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAGACCGGATTTAG-TAACTCGTACAAATGCCTTC-GGACTTAGCCCGGATATA
13868210 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* * * *
13868226 CCTTCGGGACTTAAACCGGATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAGACCGGATTTAGTAACTCGTACAAATGCCTTCG-GACTTAGCCCGGATATAG
13868291 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * *
13868306 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGGATATG
1 CCTTCGGGA-CTTAGACCGGATTTAGTAACTCGTACAAATGCCTTCGGA-CTTAGCCCGGATATA
* *
13868370 GTCACCTAGCACAAA-G
64 GT-AACTCGCACAAATG
*
13868386 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGACCGGA
13868406 CATCATTCAA
Statistics
Matches: 154, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
79 18 0.12
80 123 0.80
81 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGACCGGATTTAGTAACTCGTACAAATGCCTTCGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:13875580 original size:80 final size:80
Alignment explanation
Indices: 13875435--13875640 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 80
13875425 AAATCACGTA
* ** * * *
13875435 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGCCCGGTTAT
1 CCTTC-GAATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGATTAT
13875497 AGTAACTCACACAAATG
64 AGTAACTCACACAAATG
* *
13875514 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATT-T
1 CCTTC-GAATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCC-GATTAT
*
13875577 AGTAACTCGCACAAATG
64 AGTAACTCACACAAATG
** *
13875594 CCTTCGAATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTCGG
1 CCTTCGAATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
13875641 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
79 15 0.14
80 91 0.83
81 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (80 bp):
CCTTCGAATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGATTATAG
TAACTCACACAAATG
Found at i:13875645 original size:40 final size:39
Alignment explanation
Indices: 13875468--13875693 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 39
13875458 GCTACTCGTT
* * *
13875468 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCC-TTCGGACTTAGCCCGGATT-TAGTAACTCGCA
*
13875508 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
13875548 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * *
13875588 CAAATGCCTTCGAATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
13875628 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AACTCGCA
13875669 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
13875694 CATCATTCAA
Statistics
Matches: 164, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.02
40 146 0.89
41 14 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13883036 original size:50 final size:50
Alignment explanation
Indices: 13882959--13883056 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
13882949 TAATTTTGCC
*
13882959 GGATTAGGGTGAAACCTAATAAGGGAATCCATAAATCGAGTTAATGCACT
1 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCACT
13883009 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCA
1 GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCA
13883057 ACACTAGGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (50 bp):
GGATTAGGGTGAAACCTAATAAAGGAATCCATAAATCGAGTTAATGCACT
Found at i:13892366 original size:19 final size:18
Alignment explanation
Indices: 13892332--13892367 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13892322 GGTTTCTAAA
*
13892332 AAATGGAAATTGAAATGG
1 AAATGAAAATTGAAATGG
13892350 AAATGAAAATGTGAAATG
1 AAATGAAAAT-TGAAATG
13892368 ATCCATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AAATGAAAATTGAAATGG
Found at i:13896856 original size:30 final size:30
Alignment explanation
Indices: 13896798--13896856 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13896788 GATTTTCAGG
* * * **
13896798 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAAAGGACATTTTACCAAAGT
13896828 CTAGGGGCAAAAAGGACATTTTACCAAAG
1 CTAGGGGCAAAAAGGACATTTTACCAAAG
13896857 ATATGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (30 bp):
CTAGGGGCAAAAAGGACATTTTACCAAAGT
Found at i:13898582 original size:21 final size:20
Alignment explanation
Indices: 13898558--13898597 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13898548 GTCGAAATGG
13898558 CCACACGGACGTGTTGCCCTT
1 CCACACGGACGTG-TGCCCTT
* *
13898579 CCACATGGGCGTGTGCCCT
1 CCACACGGACGTGTGCCCT
13898598 GTTTCAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGACGTGTGCCCTT
Found at i:13907791 original size:51 final size:52
Alignment explanation
Indices: 13907714--13907816 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 52
13907704 CCATAAAAGT
13907714 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
1 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
* *
13907766 TCATTCAATTC-AAACCATTTATTCACATGCATATCGTCCCTTATATGGGCC
1 TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
13907817 CACGAGGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 38 0.78
52 11 0.22
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (52 bp):
TCATTCAATTCAAAACCATTTATTCACATACATATCATCCCTTATATGGGCC
Found at i:13910218 original size:20 final size:20
Alignment explanation
Indices: 13910183--13910220 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13910173 CGTTTCTCTA
13910183 ACCATAAACATGCAAAATCT
1 ACCATAAACATGCAAAATCT
13910203 ACCATTAAACAT-CAAAAT
1 ACCA-TAAACATGCAAAAT
13910221 ACAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (20 bp):
ACCATAAACATGCAAAATCT
Found at i:13913376 original size:25 final size:25
Alignment explanation
Indices: 13913335--13913405 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
13913325 AGCTGTAAAC
*
13913335 GGTAAGCTCCT-CTGAGCTGAATAAT
1 GGTAAGCTCATAC-GAGCTGAATAAT
* * *
13913360 GGTAGGCTCATACGAGCTGAGTATT
1 GGTAAGCTCATACGAGCTGAATAAT
*
13913385 GGTAAGCTCATACAAGCTGAA
1 GGTAAGCTCATACGAGCTGAA
13913406 ATTAGTAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTGAATAAT
Found at i:13916826 original size:40 final size:40
Alignment explanation
Indices: 13916767--13916982 Score: 305
Period size: 40 Copynumber: 5.4 Consensus size: 40
13916757 AAACCAAGTA
* * *
13916767 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* **
13916806 CCTTCGAGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13916846 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13916886 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
13916926 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
13916966 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
13916983 CGTTATCATC
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13920255 original size:43 final size:43
Alignment explanation
Indices: 13920187--13920270 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
13920177 GTTACATGAA
* * * *
13920187 TCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGATGC
13920230 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGAT
1 TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGAT
13920271 ACCACATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATAAAATCGAACCTCTCAACGAGCTCGGATGC
Found at i:13925650 original size:15 final size:15
Alignment explanation
Indices: 13925631--13925675 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
13925621 AACTAGGATT
*
13925631 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
13925646 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
13925661 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
13925676 CAATATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:13925651 original size:30 final size:30
Alignment explanation
Indices: 13925617--13925675 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13925607 ATAGATAACA
* * * *
13925617 AGAAAACTAGGATTAAGAAGTCCAAGATAG
1 AGAAAACCAAGATAAAGAAATCCAAGATAG
*
13925647 AGAAATCCAAGATAAAGAAATCCAAGATA
1 AGAAAACCAAGATAAAGAAATCCAAGATA
13925676 CAATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAATCCAAGATAG
Found at i:13929691 original size:43 final size:43
Alignment explanation
Indices: 13929618--13929703 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
13929608 GTTACATGAA
* * * *
13929618 TCGCATCCATTATGAACTCGAACCTTTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGC
* * *
13929661 TCGCATCCATAATGAACTTGGACATCTCAACAAGCTTGGATGC
1 TCGCATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGC
13929704 CACATATATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACATCTCAACAAGCTCGGATGC
Found at i:13930884 original size:30 final size:30
Alignment explanation
Indices: 13930826--13930884 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13930816 ATTTTCGAGC
**
13930826 CTAGGGACAAAATGGTCATTTTGTCAAAGT
1 CTAGGGACAAAATGGTCATTTTACCAAAGT
* * *
13930856 CTAGGGGCAACATGGTCGTTTTACCAAAG
1 CTAGGGACAAAATGGTCATTTTACCAAAG
13930885 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGGGACAAAATGGTCATTTTACCAAAGT
Found at i:13931400 original size:46 final size:45
Alignment explanation
Indices: 13931228--13931445 Score: 235
Period size: 46 Copynumber: 4.7 Consensus size: 45
13931218 TGTCTGAGCT
* * *
13931228 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCC
* * *
13931274 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-AAGTACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAAG--CC
*
13931322 AGTGTAAGA-ATGTCTGGGACATGCATCTGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
13931367 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* * *
13931413 AGTGTAAGATCATATTTGGGATATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
13931446 ACAGATATGC
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
45 23 0.16
46 68 0.46
47 29 0.20
48 27 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:13931433 original size:93 final size:93
Alignment explanation
Indices: 13931270--13931442 Score: 219
Period size: 93 Copynumber: 1.8 Consensus size: 93
13931260 ACATTATGAG
* * *
13931270 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGTACTAGTGTAAGAATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAG-ACCAGTGTAAGAATAT
13931335 CTGGGACAT-GCATCTGCCTCGAGACGTA
65 CTGGGACATGGCATCTGCCTCGAGACGTA
*
13931363 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAG-CCAGTGTAAGATCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGAC--AAGACCAGTGTAAGA--A
* *
13931425 TATTTGGGATATGGCATC
62 TATCTGGGACATGGCATC
13931443 GGCACAGATA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
91 24 0.35
92 14 0.20
93 26 0.38
94 5 0.07
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGACCAGTGTAAGAATATC
TGGGACATGGCATCTGCCTCGAGACGTA
Found at i:13935764 original size:30 final size:30
Alignment explanation
Indices: 13935679--13935767 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
13935669 GACCCAACAT
* * * * * *
13935679 AGGGTATGAAAGGTAAATGTAAATGGTTAT
1 AGGGTATGATATGTAAATATGAATGATTAC
*
13935709 AGGGTATGATATGT--ATTTGAAAATGATTAC
1 AGGGTATGATATGTAAATATG--AATGATTAC
13935739 AGGGTATGATATGTAAATATGAATGATTA
1 AGGGTATGATATGTAAATATGAATGATTA
13935768 TATGGTTGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.06
30 41 0.85
32 4 0.08
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.34
Consensus pattern (30 bp):
AGGGTATGATATGTAAATATGAATGATTAC
Found at i:13938997 original size:26 final size:26
Alignment explanation
Indices: 13938961--13939025 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
13938951 ATCAATGCTT
*
13938961 ATAAGAGCTGTGGAATGGGTCTACTC
1 ATAAGAGCTGTGGAATGGGCCTACTC
13938987 ATAAGAGCTGTGGAATGGGCCTACTC
1 ATAAGAGCTGTGGAATGGGCCTACTC
*
13939013 ATACGAGCTGTGG
1 ATAAGAGCTGTGG
13939026 GCAGAATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (26 bp):
ATAAGAGCTGTGGAATGGGCCTACTC
Found at i:13950894 original size:15 final size:15
Alignment explanation
Indices: 13950874--13950904 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13950864 GTTAAATGTT
13950874 TAAGTTTTGTAACAG
1 TAAGTTTTGTAACAG
13950889 TAAGTTTTGTAACAG
1 TAAGTTTTGTAACAG
13950904 T
1 T
13950905 CGATATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (15 bp):
TAAGTTTTGTAACAG
Found at i:13951140 original size:5 final size:5
Alignment explanation
Indices: 13951130--13951159 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
13951120 GTGTTCTAAC
13951130 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
13951160 GCATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:13951215 original size:14 final size:14
Alignment explanation
Indices: 13951198--13951224 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13951188 TAGTTATGTA
13951198 AATATTTTTATTTT
1 AATATTTTTATTTT
13951212 AATATTTTTATTT
1 AATATTTTTATTT
13951225 ACCTTATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATATTTTTATTTT
Found at i:13951800 original size:27 final size:27
Alignment explanation
Indices: 13951762--13951825 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
13951752 TGTTAGAATT
13951762 AGGAGAAATAAGGTTTTTGGATGTAAC
1 AGGAGAAATAAGGTTTTTGGATGTAAC
13951789 AGGAGAAATAAGGTTTTTGGATGTAAC
1 AGGAGAAATAAGGTTTTTGGATGTAAC
*
13951816 AGGACAAATA
1 AGGAGAAATA
13951826 GAAGCTAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.28, T:0.27
Consensus pattern (27 bp):
AGGAGAAATAAGGTTTTTGGATGTAAC
Done.