Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 219 of 295
Found at i:75427841 original size:27 final size:26
Alignment explanation
Indices: 75427801--75427906 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
75427791 AGGAAGCGTC
*
75427801 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
75427828 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
75427855 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
75427883 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
75427907 TTCTAGTAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 51 0.74
28 16 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:75427905 original size:54 final size:54
Alignment explanation
Indices: 75427801--75427910 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
75427791 AGGAAGCGTC
*
75427801 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
75427855 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
75427909 CT
1 CT
75427911 AGTAGCCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:75433997 original size:24 final size:24
Alignment explanation
Indices: 75433965--75434015 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
75433955 AAGTCTGTCA
**
75433965 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
75433989 GGATAGGATTTAGGAGCAGATAAG
1 GGATAGGATTTAGGAGCAGATAAG
75434013 GGA
1 GGA
75434016 GTAAATCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (24 bp):
GGATAGGATTTAGGAGCAGATAAG
Found at i:75435470 original size:27 final size:26
Alignment explanation
Indices: 75435430--75435541 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
75435420 AGGAAGCGTC
*
75435430 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
75435457 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
75435484 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
75435512 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
75435538 CTGG
1 CTGG
75435542 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.11
27 49 0.66
28 16 0.22
29 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:75435534 original size:54 final size:54
Alignment explanation
Indices: 75435430--75435541 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
75435420 AGGAAGCGTC
*
75435430 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * * *
75435484 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
75435538 CTGG
1 CTGG
75435542 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:75437729 original size:17 final size:19
Alignment explanation
Indices: 75437687--75437730 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
75437677 ATGAAATTTT
*
75437687 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
75437706 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
75437724 AA-TATTA
1 AATTATTA
75437731 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:75440156 original size:25 final size:25
Alignment explanation
Indices: 75440127--75440174 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
75440117 TTATAATATG
* *
75440127 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
75440152 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
75440175 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:75440258 original size:11 final size:11
Alignment explanation
Indices: 75440222--75440277 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
75440212 CATGGTATGT
75440222 ATGATATGCAC
1 ATGATATGCAC
* *
75440233 ATGACATG--T
1 ATGATATGCAC
75440242 ATGATATGCAC
1 ATGATATGCAC
*
75440253 ATGATATG--T
1 ATGATATGCAC
75440262 ATGATATGCAC
1 ATGATATGCAC
75440273 ATGAT
1 ATGAT
75440278 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:75440277 original size:20 final size:20
Alignment explanation
Indices: 75440211--75440277 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
75440201 ATTTTGATAA
*
75440211 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
75440231 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
75440251 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
75440271 ACATGAT
1 ACATGAT
75440278 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:75440410 original size:24 final size:24
Alignment explanation
Indices: 75440326--75440481 Score: 242
Period size: 24 Copynumber: 6.4 Consensus size: 24
75440316 GGAGGAAGTG
75440326 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
75440350 GATAAAGGGCTTATGCCTCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
75440375 GATAAAGGGCTTATACCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
75440400 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
75440424 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
75440448 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
75440471 TAAAAGAGGCT
1 TAAAAG-GGCT
75440482 AGGCCTCCAG
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 18 0.15
24 61 0.49
25 45 0.36
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:75440724 original size:31 final size:31
Alignment explanation
Indices: 75440689--75440752 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
75440679 CGTTTACAGT
*
75440689 AAAGGCTTCGGCCCAGTAATGTGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
75440720 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
75440751 AA
1 AA
75440753 TATGAAAAGG
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:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:75442438 original size:16 final size:16
Alignment explanation
Indices: 75442414--75442465 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
75442404 TGGTTCACTC
*
75442414 TAATGGAATAGGGCTG
1 TAATGGAATAGAGCTG
* *
75442430 TAATTGAATAGAGTTG
1 TAATGGAATAGAGCTG
*
75442446 TAATGGAATAGAACTG
1 TAATGGAATAGAGCTG
75442462 TAAT
1 TAAT
75442466 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:75442644 original size:25 final size:26
Alignment explanation
Indices: 75442611--75442661 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
75442601 GTTGGTAGAT
*
75442611 GATTATTGTT-ATTAAATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
*
75442636 GATTATTGTTAAATATATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
75442662 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
GATTATTGTTAAATAAATTTTAATAA
Found at i:75442949 original size:25 final size:26
Alignment explanation
Indices: 75442910--75442958 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
75442900 ATGATTATTG
**
75442910 TTATTATTATTAAAT-TTTAATAAGA
1 TTATTATTAAAAAATATTTAATAAGA
75442935 TTATTATTAAAAAATATTTAATAA
1 TTATTATTAAAAAATATTTAATAA
75442959 AAATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TTATTATTAAAAAATATTTAATAAGA
Found at i:75443013 original size:58 final size:57
Alignment explanation
Indices: 75442923--75443034 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 57
75442913 TTATTATTAA
* *
75442923 ATTTTAATAAGATTATTATTAAAAAATATTTAATAAAAATAATAAATAATTTAATCAT
1 ATTTTAACAAGATTATTACTAAAAAATATTTAAT-AAAATAATAAATAATTTAATCAT
* * *
75442981 ATTTTAACATGATTATTACT-AAATATAATTTAATAAAATAATATATAATTTAAT
1 ATTTTAACAAGATTATTACTAAAAAAT-ATTTAATAAAATAATAAATAATTTAAT
75443035 AAAATTCTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (57 bp):
ATTTTAACAAGATTATTACTAAAAAATATTTAATAAAATAATAAATAATTTAATCAT
Found at i:75443054 original size:58 final size:58
Alignment explanation
Indices: 75442921--75443056 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 58
75442911 TATTATTATT
* *
75442921 AAATTTTAATA-AGATTATTATTAAAAAATATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAATATA-ATTATTACTAAAAAATATTTAATAAAAATAATAAATAATTTAATA
* * * * *
75442979 ATATTTTAACATGATTATTACT-AAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTACTAAAAAAT-ATTTAATAAAAATAATAAATAATTTAATA
75443036 AAATTCTTAATATAATTATTA
1 AAATT-TTAATATAATTATTA
75443057 TTATATGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
57 28 0.43
58 37 0.57
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
AAATTTTAATATAATTATTACTAAAAAATATTTAATAAAAATAATAAATAATTTAATA
Found at i:75454519 original size:33 final size:32
Alignment explanation
Indices: 75454446--75454523 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
75454436 CAGTATTCGT
* *
75454446 ATGTAAGACCATAGCTGGGCTATGGCCTTCAA
1 ATGTAAGACCATAACTGGGCTATGGCCTTAAA
*
75454478 ATGATAAGACCATAACTGGGTTATGGCAC-TAAGA
1 ATG-TAAGACCATAACTGGGCTATGGC-CTTAA-A
75454512 ATGTAAGACCAT
1 ATGTAAGACCAT
75454524 GGAGATTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 3 0.08
33 32 0.80
34 5 0.12
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGGCCTTAAA
Found at i:75455532 original size:19 final size:19
Alignment explanation
Indices: 75455508--75455545 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
75455498 CTCAGCCGTG
75455508 TGTGACACATAGCCAGGGT
1 TGTGACACATAGCCAGGGT
*
75455527 TGTGACACATGGCCAGGGT
1 TGTGACACATAGCCAGGGT
75455546 ACACAACTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (19 bp):
TGTGACACATAGCCAGGGT
Found at i:75467399 original size:20 final size:23
Alignment explanation
Indices: 75467358--75467400 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
75467348 TAGATGTTAA
75467358 AATTGGCTTGGTTATAATGTTTG
1 AATTGGCTTGGTTATAATGTTTG
75467381 AATTGGC-TGG-TAT-ATGTTTG
1 AATTGGCTTGGTTATAATGTTTG
75467401 CAAGTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 3 0.15
23 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (23 bp):
AATTGGCTTGGTTATAATGTTTG
Found at i:75475208 original size:40 final size:40
Alignment explanation
Indices: 75475122--75475244 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
75475112 TGATGACATA
* *
75475122 TCGGCTAAATATGACACTTAGTGTGCGATTCG-GTATAACTT
1 TCGGCTAAATATGACACTTAGTGTGCGATTTGAG-AT-AGTT
* * *
75475163 T-GGCTAAATTTGGCACTTAGTATGCGATTTGAGATAGTT
1 TCGGCTAAATATGACACTTAGTGTGCGATTTGAGATAGTT
** ** *
75475202 TCGGCTATGTACAACACTTAGTGTGCAATTTGAGATAGTT
1 TCGGCTAAATATGACACTTAGTGTGCGATTTGAGATAGTT
75475242 TCG
1 TCG
75475245 ACTATGTACA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.06
40 61 0.91
41 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
TCGGCTAAATATGACACTTAGTGTGCGATTTGAGATAGTT
Found at i:75475250 original size:40 final size:40
Alignment explanation
Indices: 75475176--75475269 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
75475166 CTAAATTTGG
* * *
75475176 CACTTAGTATGCGATTTGAGATAGTTTCGGCTATGTACAA
1 CACTTAGTGTGCAATTTGAGATAGTTTCGACTATGTACAA
*
75475216 CACTTAGTGTGCAATTTGAGATAGTTTCGACTATGTACAG
1 CACTTAGTGTGCAATTTGAGATAGTTTCGACTATGTACAA
*
75475256 CATTTAGTGTGCAA
1 CACTTAGTGTGCAA
75475270 GACATCAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (40 bp):
CACTTAGTGTGCAATTTGAGATAGTTTCGACTATGTACAA
Found at i:75475315 original size:28 final size:28
Alignment explanation
Indices: 75475284--75475343 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
75475274 TCAAATATGG
*
75475284 CACTTACTGTGCGAGATATTGAGAATGA
1 CACTTACTGTGAGAGATATTGAGAATGA
*
75475312 CACTTAGTGTGAGAGATATTGAGAATGA
1 CACTTACTGTGAGAGATATTGAGAATGA
75475340 CACT
1 CACT
75475344 GTGACAGCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (28 bp):
CACTTACTGTGAGAGATATTGAGAATGA
Found at i:75483998 original size:17 final size:17
Alignment explanation
Indices: 75483978--75484035 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
75483968 ATATTTAATG
75483978 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
*
75483995 ATAT--T-TATAAGAAT
1 ATATAATATATAAAAAT
75484009 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
75484026 ATAAAATATA
1 ATATAATATA
75484036 ATGGTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 1 0.03
16 1 0.03
17 17 0.52
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:75484346 original size:23 final size:23
Alignment explanation
Indices: 75484332--75484456 Score: 74
Period size: 26 Copynumber: 4.9 Consensus size: 23
75484322 AAATGACATA
75484332 ATAATATAAAATAAATATAATAT
1 ATAATATAAAATAAATATAATAT
*
75484355 ATAATATAAAAGTATATATGTGAA-A-
1 ATAATATAAAA-TA-A-ATAT-AATAT
*
75484380 ATAATATATAATATATATAAATAATAT
1 ATAATATA-AA-ATA-A-ATATAATAT
75484407 GAGTAATATATAAAATAATTATATAATAT
1 -A-TAATAT--AAAATAA--ATATAATAT
*
75484436 ATAATATAAAAATAAAAATAA
1 ATAATAT-AAAATAAATATAA
75484457 AGCAAATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
23 11 0.13
24 7 0.08
25 11 0.13
26 21 0.25
27 9 0.11
28 3 0.04
29 18 0.22
30 2 0.02
31 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATATAAAATAAATATAATAT
Found at i:75484356 original size:7 final size:7
Alignment explanation
Indices: 75484329--75484443 Score: 81
Period size: 7 Copynumber: 17.1 Consensus size: 7
75484319 ATAAAATGAC
75484329 ATAATAAT
1 ATAAT-AT
75484337 ATAA-A-
1 ATAATAT
75484342 ATAA-AT
1 ATAATAT
75484348 ATAATAT
1 ATAATAT
75484355 ATAATAT
1 ATAATAT
75484362 A-AA-AGT
1 ATAATA-T
75484368 AT-ATAT
1 ATAATAT
*
75484374 GTGAA-A-
1 AT-AATAT
75484380 ATAATAT
1 ATAATAT
75484387 ATAATAT
1 ATAATAT
*
75484394 AT-ATAA
1 ATAATAT
75484400 ATAATAT
1 ATAATAT
75484407 GAGTAATAT
1 -A-TAATAT
75484416 ATAA-A-
1 ATAATAT
75484421 ATAATTAT
1 ATAA-TAT
75484429 ATAATAT
1 ATAATAT
75484436 ATAATAT
1 ATAATAT
75484443 A
1 A
75484444 AAAATAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 31
0.72 0.03 0.25
Matches are distributed among these distances:
5 12 0.14
6 20 0.23
7 39 0.44
8 11 0.12
9 6 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:75484393 original size:20 final size:19
Alignment explanation
Indices: 75484329--75484444 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 19
75484319 ATAAAATGAC
75484329 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
75484348 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
75484368 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
75484387 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
75484407 GAGTAATATATAAAATAATTAT
1 -A-TAATATATAAAATAA-TAT
*
75484429 ATAATATATAATATAA
1 ATAATATATAAAATAA
75484445 AAATAAAAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.12
19 15 0.18
20 38 0.46
21 8 0.10
22 12 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:75486398 original size:205 final size:205
Alignment explanation
Indices: 75486046--75486422 Score: 700
Period size: 205 Copynumber: 1.8 Consensus size: 205
75486036 AATCTGCTTT
75486046 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
* * *
75486111 TGAAAGTCAAATTAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCAAAATCATCTTG
* *
75486176 GATCTCCTTCAGTATAAACATCTGATGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGA
131 GATCTCCTTCAGTATAAAAATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGA
75486241 GATGCCAGAC
196 GATGCCAGAC
75486251 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
75486316 TGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCAAAATCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCAAAATCATCTTG
*
75486381 GATCTTCTTCAGTATAAAAATCTGAAGGTGAGATCTGCTATG
131 GATCTCCTTCAGTATAAAAATCTGAAGGTGAGATCTGCTATG
75486423 CTGCGGCCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 166 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACG
TGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCAAAATCATCTTG
GATCTCCTTCAGTATAAAAATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTCGAAGTGGA
GATGCCAGAC
Found at i:75498611 original size:23 final size:23
Alignment explanation
Indices: 75498598--75498731 Score: 70
Period size: 22 Copynumber: 5.9 Consensus size: 23
75498588 AAATGACATA
75498598 ATAATATAAAATAAATATAATAT
1 ATAATATAAAATAAATATAATAT
*
75498621 ATAATATAAAAGT--ATAT-ATGT
1 ATAATATAAAA-TAAATATAATAT
* *
75498642 GA-AA-ATAATATATAATATATATAA
1 -ATAATATAAAATA-AATATA-ATAT
* * *
75498666 ATAATAT-GAGT-AATATGAGTA-
1 ATAATATAAAATAAATAT-AATAT
75498687 AT-ATATAAAATAATTATATAATAT
1 ATAATATAAAATAA--ATATAATAT
*
75498711 ATAATATAAAAATAAAAATAA
1 ATAATAT-AAAATAAATATAA
75498732 AGCAAATAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 33
0.65 0.09 0.26
Matches are distributed among these distances:
19 1 0.01
20 9 0.11
21 9 0.11
22 17 0.21
23 16 0.20
24 17 0.21
25 6 0.07
26 7 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAATATAAAATAAATATAATAT
Found at i:75498622 original size:18 final size:18
Alignment explanation
Indices: 75498558--75498731 Score: 83
Period size: 18 Copynumber: 9.1 Consensus size: 18
75498548 TAATGATAAC
*
75498558 AATATATAAATAAAAATATTT
1 AATATATAAA-ATAAATA--T
* *
75498579 AATAGTATAAAAT-GACAT
1 AATA-TATAAAATAAATAT
75498597 AATAATATAAAATAAATAT
1 AAT-ATATAAAATAAATAT
*
75498616 AATATATAATATAAA-AGT
1 AATATATAAAATAAATA-T
*
75498634 ATATATGTGAAAATAATATAT
1 A-ATATAT-AAAATAA-ATAT
75498655 AATATATATAAATAATATGAGT
1 AATATATA-AAATAA-AT-A-T
75498677 AATATGAGTAATATATAAA-AT
1 AATAT-A-TAA-A-ATAAATAT
*
75498698 AAT-TATATAAT--ATAT
1 AATATATAAAATAAATAT
*
75498713 AATATA-AAAATAAAAAT
1 AATATATAAAATAAATAT
75498730 AA
1 AA
75498732 AGCAAATAAC
Statistics
Matches: 122, Mismatches: 12, Indels: 42
0.69 0.07 0.24
Matches are distributed among these distances:
14 1 0.01
15 9 0.07
16 4 0.03
17 7 0.06
18 27 0.22
19 14 0.11
20 23 0.19
21 13 0.11
22 14 0.11
23 2 0.02
24 4 0.03
25 4 0.03
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (18 bp):
AATATATAAAATAAATAT
Found at i:75498659 original size:20 final size:19
Alignment explanation
Indices: 75498595--75498725 Score: 87
Period size: 18 Copynumber: 6.8 Consensus size: 19
75498585 ATAAAATGAC
75498595 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
75498614 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
75498634 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
75498653 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
75498673 GAGTAATATGAGT--AAT-ATAT
1 -A-TAATAT-A-TAAAATAATAT
* * *
75498693 AAAATA-ATTATATAATAT
1 ATAATATATAAAATAATAT
75498711 ATAATATA-AAAATAA
1 ATAATATATAAAATAA
75498726 AAATAAAGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
15 1 0.01
16 1 0.01
17 2 0.02
18 28 0.31
19 17 0.19
20 28 0.31
21 4 0.04
22 6 0.07
23 1 0.01
24 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:75498704 original size:11 final size:12
Alignment explanation
Indices: 75498595--75498725 Score: 69
Period size: 13 Copynumber: 10.3 Consensus size: 12
75498585 ATAAAATGAC
75498595 ATAATAATATAAA
1 ATAAT-ATATAAA
75498608 ATAA-ATATAATA
1 ATAATATATAA-A
75498620 TATAATATA-AAA
1 -ATAATATATAAA
* *
75498632 GTATATATGTGAAA
1 ATA-ATATAT-AAA
75498646 ATAATATAT--A
1 ATAATATATAAA
75498656 AT-ATATAT-AA
1 ATAATATATAAA
75498666 ATAATATGAGTAATA
1 ATAATAT-A-TAA-A
75498681 TGAGTAATATATAAA
1 --A-TAATATATAAA
75498696 ATAATTATATAATA
1 ATAA-TATATAA-A
75498710 TATAATATA-AAA
1 -ATAATATATAAA
75498722 ATAA
1 ATAA
75498726 AAATAAAGCA
Statistics
Matches: 96, Mismatches: 4, Indels: 38
0.70 0.03 0.28
Matches are distributed among these distances:
9 6 0.06
10 6 0.06
11 16 0.17
12 11 0.11
13 26 0.27
14 14 0.15
15 6 0.06
16 3 0.03
17 2 0.02
18 6 0.06
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:75498708 original size:38 final size:36
Alignment explanation
Indices: 75498647--75498717 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
75498637 TATGTGAAAA
*
75498647 TAATATATAATATATATAAATAATATGAGTAATATGAG
1 TAATATATAAAATATATAAATAATAT-A-TAATATGAG
*
75498685 TAATATATAAAATA-ATTATATAATATATAATAT
1 TAATATATAAAATATA-TAAATAATATATAATAT
75498718 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 2 0.07
38 22 0.73
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (36 bp):
TAATATATAAAATATATAAATAATATATAATATGAG
Found at i:75506133 original size:15 final size:14
Alignment explanation
Indices: 75506115--75506169 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
75506105 TATAATATAA
75506115 TTTAAAATAAAAAAT
1 TTTAAAA-AAAAAAT
*
75506130 TTTAAAAAAAATAT
1 TTTAAAAAAAAAAT
* *
75506144 TGTAAAAACAAATAT
1 TTTAAAAA-AAAAAT
*
75506159 TATAAAAAAAA
1 TTTAAAAAAAA
75506170 CTTGATTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.44
15 20 0.56
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
TTTAAAAAAAAAAT
Found at i:75512001 original size:29 final size:29
Alignment explanation
Indices: 75511958--75512014 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
75511948 ATACCGTATG
*
75511958 AAAAATAATACGCATTTATCAACTTGCTA
1 AAAAATAATAAGCATTTATCAACTTGCTA
75511987 AAAAATAATAAGCATTTATCAACTTGCT
1 AAAAATAATAAGCATTTATCAACTTGCT
75512015 CCTCCAGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (29 bp):
AAAAATAATAAGCATTTATCAACTTGCTA
Found at i:75523061 original size:44 final size:43
Alignment explanation
Indices: 75522998--75523154 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 43
75522988 TGTGTTATCG
75522998 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATGATTTACA
* * * *
75523042 TGTAAGACCATGTCTGGGACATTGGCATTGTATT-TGATTT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTATGATTTACA
* * **
75523084 TGTAAGACC-C-TATTCGAGACAG-TGGCATCGA-TATTTTCTTACA
1 TGTAAGACCACGT-CT-GGGAC-GTTGGCATCGATTATGAT-TTACA
75523127 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
75523155 TATACGAGCT
Statistics
Matches: 89, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
42 24 0.27
43 26 0.29
44 31 0.35
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTATGATTTACA
Found at i:75532819 original size:321 final size:321
Alignment explanation
Indices: 75532237--75532881 Score: 1227
Period size: 321 Copynumber: 2.0 Consensus size: 321
75532227 CACCTACCGA
75532237 TTTGGCTCAAAATGGGCAAACATAATTTATTCGTTGATCACTATAGAGGTGCTGCTGCTTTGATC
1 TTTGGCTCAAAATGGGCAAACATAATTTATTCGTTGATCACTATAGAGGTGCTGCTGCTTTGATC
*
75532302 ATTATGTTGTTATATCCAAGTACCATAGGAGCGGCCGAATCTGTCTTAAGGAAACTGAGTTAAAC
66 ATTATGTTGTTATATCCAAGTACCATAGGAGCGGCCGAATCTATCTTAAGGAAACTGAGTTAAAC
75532367 AGGCCTCAATGTTTAGTAAATATCTATTCTTGCTTTCGATTTCAACTTATTGTTACGGTTTTTTA
131 AGGCCTCAATGTTTAGTAAATATCTATTCTTGCTTTCGATTTCAACTTATTGTTACGGTTTTTTA
*
75532432 TTGGTTTACATATTTGACAATTTAAATATAAATTATTCTATTTATATTTTATTTCATATATAAAT
196 TTAGTTTACATATTTGACAATTTAAATATAAATTATTCTATTTATATTTTATTTCATATATAAAT
* *
75532497 ATGTGTTTATTTATATTTAAATATTTTATTTACTAACGTGTTTTGTCCAACAAATAGTTTC
261 ATATGTTTATTTATATTTAAATATTTTATTTACTAACGTGTTTTGTCCAACAAATAGTTCC
*
75532558 TTTGGCTCAAAATGGGCAAACATAATTTATTCGTTGATCACTGTAGAGGTGCTGCTGCTTTGATC
1 TTTGGCTCAAAATGGGCAAACATAATTTATTCGTTGATCACTATAGAGGTGCTGCTGCTTTGATC
75532623 ATTATGTTGTTATATCCAAGTACCATAGGAGCGGCCGAATCTATCTTAAGGAAACTGAGTTAAAC
66 ATTATGTTGTTATATCCAAGTACCATAGGAGCGGCCGAATCTATCTTAAGGAAACTGAGTTAAAC
75532688 AGGCCTCAATGTTTAGTAAATATCTATTCTTGCTTTCGATTTCAACTTATTGTTACGGTTTTTTA
131 AGGCCTCAATGTTTAGTAAATATCTATTCTTGCTTTCGATTTCAACTTATTGTTACGGTTTTTTA
*
75532753 TTAGTTTACATATTTGACAATTTAAATATAAATTATTCTATTTATATTTTATTTCATGTATAAAT
196 TTAGTTTACATATTTGACAATTTAAATATAAATTATTCTATTTATATTTTATTTCATATATAAAT
*
75532818 ATATGTTTATTTATATTTAAATATTTTATTTACTAACGTGTTTTGTCCAATAAATAGTTCC
261 ATATGTTTATTTATATTTAAATATTTTATTTACTAACGTGTTTTGTCCAACAAATAGTTCC
75532879 TTT
1 TTT
75532882 TTAATTCTAC
Statistics
Matches: 317, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
321 317 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (321 bp):
TTTGGCTCAAAATGGGCAAACATAATTTATTCGTTGATCACTATAGAGGTGCTGCTGCTTTGATC
ATTATGTTGTTATATCCAAGTACCATAGGAGCGGCCGAATCTATCTTAAGGAAACTGAGTTAAAC
AGGCCTCAATGTTTAGTAAATATCTATTCTTGCTTTCGATTTCAACTTATTGTTACGGTTTTTTA
TTAGTTTACATATTTGACAATTTAAATATAAATTATTCTATTTATATTTTATTTCATATATAAAT
ATATGTTTATTTATATTTAAATATTTTATTTACTAACGTGTTTTGTCCAACAAATAGTTCC
Found at i:75532838 original size:22 final size:22
Alignment explanation
Indices: 75532795--75532848 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
75532785 TTATTCTATT
*
75532795 TATATTTTATTTCATGTATAAA
1 TATATTTTATTTCATATATAAA
*
75532817 TATATGTTTATTT-ATAT-TTAA
1 TATAT-TTTATTTCATATATAAA
75532838 -ATATTTTATTT
1 TATATTTTATTT
75532849 ACTAACGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 4 0.14
21 3 0.10
22 8 0.28
23 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (22 bp):
TATATTTTATTTCATATATAAA
Found at i:75534647 original size:18 final size:19
Alignment explanation
Indices: 75534610--75534647 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
75534600 ATTTTAATTT
75534610 TTTTATAAAATTATCATAA
1 TTTTATAAAATTATCATAA
*
75534629 TTTTATAATATTA-CATAA
1 TTTTATAAAATTATCATAA
75534647 T
1 T
75534648 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTATAAAATTATCATAA
Found at i:75537022 original size:26 final size:26
Alignment explanation
Indices: 75536986--75537095 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
75536976 TGATACAAAT
*
75536986 TGATAATAGGTTAAGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
* *
75537012 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
75537038 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
75537064 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
75537090 TGATAA
1 TGATAA
75537096 GAATTTCATG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 75 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:75538814 original size:27 final size:27
Alignment explanation
Indices: 75538712--75538819 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
75538702 GAGGAAGCGT
* *
75538712 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
75538739 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
75538766 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
75538794 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACATTATCTGT
75538820 TCTAGCAGCC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.01
27 55 0.75
28 17 0.23
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:75538817 original size:54 final size:54
Alignment explanation
Indices: 75538710--75538822 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
75538700 TGGAGGAAGC
*
75538710 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
75538764 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
75538818 GTTCT
1 GTTCT
75538823 AGCAGCCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:75541277 original size:26 final size:26
Alignment explanation
Indices: 75541248--75541355 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
75541238 TGATACAAAT
75541248 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
75541274 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
75541300 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
75541326 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
75541352 TGAT
1 TGAT
75541356 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:75545504 original size:2 final size:2
Alignment explanation
Indices: 75545492--75545527 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
75545482 ATGATATACT
*
75545492 CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
75545528 TATATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:75556069 original size:23 final size:24
Alignment explanation
Indices: 75556030--75556074 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
75556020 TTATTCAATT
*
75556030 TAATTGAGGAGCTTAG-TAAAATA
1 TAATTGACGAGCTTAGTTAAAATA
75556053 TAATTGACGA-CTCTAGTTAAAA
1 TAATTGACGAGCT-TAGTTAAAA
75556075 AAATTAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 12 0.63
24 5 0.26
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (24 bp):
TAATTGACGAGCTTAGTTAAAATA
Found at i:75556514 original size:15 final size:15
Alignment explanation
Indices: 75556494--75556526 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
75556484 TCATTGTAAA
75556494 ATAACTTTTTATACT
1 ATAACTTTTTATACT
75556509 ATAACTTTTTATACT
1 ATAACTTTTTATACT
75556524 ATA
1 ATA
75556527 GTTTATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAACTTTTTATACT
Found at i:75558350 original size:24 final size:24
Alignment explanation
Indices: 75558162--75558357 Score: 91
Period size: 23 Copynumber: 8.0 Consensus size: 24
75558152 ACACACCTTA
*
75558162 GCTC-TTATGAGCATCCCGATTATAG
1 GCTCTTTATGAGCTTCCCG-TTAT-G
*
75558187 GCTCTTTATGAGCTTCCTGTTAAATTG
1 GCTCTTTATGAGCTTCCCGTT--A-TG
* ***
75558214 GCTCTTTGTGAGCTTCCCAACA-G
1 GCTCTTTATGAGCTTCCCGTTATG
* * *
75558237 TGCT-TGCT-TGAACTTCCTGGTATATG
1 -GCTCT-TTATGAGCTTCC-CGT-TATG
* * *
75558263 GCTATTCA-GAGCTTCCCGTTACATT
1 GCTCTTTATGAGCTTCCCGTT--ATG
* * *
75558288 GCTCTTTAGGAGCTTCCTGATA-G
1 GCTCTTTATGAGCTTCCCGTTATG
*
75558311 GCTCTTTGTGAGCTTCCCGATTATG
1 GCTCTTTATGAGCTTCCCG-TTATG
75558336 GCTC-TTATGAGCTTCCCGTTAT
1 GCTCTTTATGAGCTTCCCGTTAT
75558358 ATAGCCCGGA
Statistics
Matches: 127, Mismatches: 28, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
23 31 0.24
24 22 0.17
25 31 0.24
26 24 0.19
27 18 0.14
28 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCCGTTATG
Found at i:75560686 original size:37 final size:37
Alignment explanation
Indices: 75560636--75560710 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
75560626 TATTGCATGT
75560636 AAGCCAAGACCACCTTCAATAAATTCTATAGCCAAGA
1 AAGCCAAGACCACCTTCAATAAATTCTATAGCCAAGA
*
75560673 AAGCCAAGACCACCTTCAGTAAATTCTATAGCCAAGA
1 AAGCCAAGACCACCTTCAATAAATTCTATAGCCAAGA
75560710 A
1 A
75560711 TGATAAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.19
Consensus pattern (37 bp):
AAGCCAAGACCACCTTCAATAAATTCTATAGCCAAGA
Found at i:75566720 original size:44 final size:44
Alignment explanation
Indices: 75566657--75566747 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
75566647 GTAGGTCAAA
*
75566657 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAAC
* * *
75566701 TAATATTAAAATAACCTACATTAATTAGAGTTTAAGTGGAAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAAC
75566745 TAA
1 TAA
75566748 AAAACAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAAC
Found at i:75567527 original size:24 final size:24
Alignment explanation
Indices: 75567498--75567547 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
75567488 TTCAAGTGGT
* * *
75567498 TTTCGGTTACATTCAAGGGGGACA
1 TTTCGGTTACATACAAGAGAGACA
75567522 TTTCGGTTACATACAAGAGAGACA
1 TTTCGGTTACATACAAGAGAGACA
75567546 TT
1 TT
75567548 ATACATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (24 bp):
TTTCGGTTACATACAAGAGAGACA
Found at i:75571211 original size:18 final size:19
Alignment explanation
Indices: 75571188--75571232 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
75571178 TTTAAAATTC
75571188 TTATATTTTAAAATTA-AT
1 TTATATTTTAAAATTATAT
* *
75571206 TTATA-TTTATATTTATAT
1 TTATATTTTAAAATTATAT
75571224 TTATATTTT
1 TTATATTTT
75571233 TAATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.35
18 12 0.52
19 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTAAAATTATAT
Found at i:75571213 original size:6 final size:6
Alignment explanation
Indices: 75571204--75571231 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
75571194 TTTAAAATTA
75571204 ATTTAT ATTTAT ATTTAT ATTTAT ATTT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTT
75571232 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTAT
Found at i:75581720 original size:11 final size:11
Alignment explanation
Indices: 75581704--75581731 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
75581694 GTCGCCTCTT
75581704 CCTTCGTTCTA
1 CCTTCGTTCTA
75581715 CCTTCGTTCTA
1 CCTTCGTTCTA
75581726 CCTTCG
1 CCTTCG
75581732 CCTCTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:75585125 original size:18 final size:17
Alignment explanation
Indices: 75585097--75585131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75585087 ATTATTAAGA
*
75585097 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
75585114 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
75585132 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:75585183 original size:120 final size:120
Alignment explanation
Indices: 75585047--75585268 Score: 435
Period size: 120 Copynumber: 1.9 Consensus size: 120
75585037 TTGGTCCAAT
*
75585047 TCATATATTATGATTTGAGTCAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
75585112 ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
66 ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
75585167 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
1 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
75585232 ATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 ATATTTTAATTAAAATATATTTAATAATAATTATGTT
75585269 TAAATATGAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTAT
ATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTA
Found at i:75585245 original size:18 final size:17
Alignment explanation
Indices: 75585217--75585251 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75585207 ATTATTAAGA
*
75585217 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
75585234 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
75585252 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:75585481 original size:44 final size:45
Alignment explanation
Indices: 75585416--75585506 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
75585406 ACCTCTATTC
* * *
75585416 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
75585460 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
75585505 CA
1 CA
75585507 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:75585508 original size:16 final size:16
Alignment explanation
Indices: 75585487--75585555 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
75585477 GATTAGCTAT
75585487 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
75585503 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
75585520 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
75585536 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
75585552 TACA
1 TACA
75585556 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:75585529 original size:33 final size:32
Alignment explanation
Indices: 75585487--75585555 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
75585477 GATTAGCTAT
75585487 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
75585520 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
75585552 TACA
1 TACA
75585556 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:75586358 original size:23 final size:23
Alignment explanation
Indices: 75586328--75586382 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
75586318 ACATCATTCG
75586328 CCCTCCTTAAAACTGCCACTTAC
1 CCCTCCTTAAAACTGCCACTTAC
75586351 CCCTCCTTAAAACTGCCACTTAC
1 CCCTCCTTAAAACTGCCACTTAC
*
75586374 TCCTCCTTA
1 CCCTCCTTA
75586383 CTCTTCTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.24, C:0.44, G:0.04, T:0.29
Consensus pattern (23 bp):
CCCTCCTTAAAACTGCCACTTAC
Found at i:75586528 original size:12 final size:12
Alignment explanation
Indices: 75586511--75586535 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75586501 ATGTTACTTT
75586511 ACCATTAGTGTA
1 ACCATTAGTGTA
75586523 ACCATTAGTGTA
1 ACCATTAGTGTA
75586535 A
1 A
75586536 TGATAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ACCATTAGTGTA
Found at i:75587318 original size:17 final size:17
Alignment explanation
Indices: 75587296--75587344 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
75587286 AATTATAATT
*
75587296 ATTTTAATTAAATTTTA
1 ATTTTAATTTAATTTTA
*
75587313 ATTTT-ATTTAATTTAA
1 ATTTTAATTTAATTTTA
*
75587329 AATTTAATTTAATTTT
1 ATTTTAATTTAATTTT
75587345 TTATAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAATTTAATTTTA
Found at i:75587328 original size:22 final size:21
Alignment explanation
Indices: 75587285--75587343 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
75587275 GCAAATTAAA
* *
75587285 AAATTATAATTAT-TTTAATT
1 AAATTTTAATTTTATTTAATT
75587305 AAATTTTAATTTTATTTAATTT
1 AAATTTTAATTTTATTTAA-TT
* *
75587327 AAAATTTAATTTAATTT
1 AAATTTTAATTTTATTT
75587344 TTTATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.33
21 5 0.15
22 17 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AAATTTTAATTTTATTTAATT
Found at i:75591546 original size:15 final size:15
Alignment explanation
Indices: 75591528--75591580 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
75591518 ATATAATTGT
75591528 TTTTATATTAAAATA
1 TTTTATATTAAAATA
*
75591543 TTTTATTTTAAATTATA
1 TTTTATATTAAA--ATA
*
75591560 TTTTGAAATT-AAATA
1 TTTT-ATATTAAAATA
75591575 TTTTAT
1 TTTTAT
75591581 TTTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
17 9 0.29
18 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTTATATTAAAATA
Found at i:75593350 original size:27 final size:27
Alignment explanation
Indices: 75593327--75593752 Score: 307
Period size: 27 Copynumber: 15.7 Consensus size: 27
75593317 TTAGTTTACC
*
75593327 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
75593354 AAATTACCAAAAATACCCCTAGTTTATA
1 AAATTACC-AAAATACCCTTGGTTTATA
* * *
75593382 AAATTACTAGAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
75593409 AAATCACCAAAATACCCCTT-TTTTGTA
1 AAATTACCAAAATA-CCCTTGGTTTATA
* *
75593436 AAATTATCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
75593463 AAATTACCAAAATACCCTTTGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * **
75593490 AAATTACTAAAATACCATTTATTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
75593517 AAATTACCAAAATACCCCTGG-TTAGTA
1 AAATTACCAAAATACCCTTGGTTTA-TA
* * * * *
75593544 AAATTACCATAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
75593571 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* ** * *
75593598 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTATA
** * *** *
75593625 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*** * ** *
75593652 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
75593679 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
***** * *
75593706 AAATTACTGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTTGGTTTATA
*
75593733 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
75593753 TAGGGTAGAA
Statistics
Matches: 320, Mismatches: 74, Indels: 10
0.79 0.18 0.02
Matches are distributed among these distances:
26 8 0.03
27 283 0.88
28 29 0.09
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:75593615 original size:54 final size:54
Alignment explanation
Indices: 75593327--75593749 Score: 353
Period size: 54 Copynumber: 7.8 Consensus size: 54
75593317 TTAGTTTACC
* * * *
75593327 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACC-AAAATACCCCTGGTTTGTA
* * * * * **
75593382 AAATTACTAGAATACTCTTGGTTTATAAAATCACCAAAATACCCCTTTTTTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
75593436 AAATTATCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTTGTTTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * *
75593490 AAATTACTAAAATACCATTTATTTATAAAATTACCAAAATACCCCTGGTTAGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * *
75593544 AAATTACCATAATACCCCTGATTTGTGAAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
* * * * ** ***
75593598 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCT-GGTTTGTA
*** * * * * * * **
75593652 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
***** * *
75593706 AAATTACTGTTTTACCCTCGATTTATAAAATTACCGAAATACCC
1 AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCC
75593750 TTGTAGGGTA
Statistics
Matches: 302, Mismatches: 64, Indels: 5
0.81 0.17 0.01
Matches are distributed among these distances:
53 4 0.01
54 265 0.88
55 33 0.11
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:75593770 original size:27 final size:26
Alignment explanation
Indices: 75593734--75593927 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 26
75593724 CGATTTATAA
*
75593734 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
75593761 AAATATCGAAATACCCCTGTAAGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
*
75593788 AATTACCGAAATACCCCTATAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
75593815 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTA-CGAAATACCCCTGTAGGGTAG
* *
75593842 AATTACTGAAATACCCCTATAGTGTAG
1 AATTAC-GAAATACCCCTGTAGGGTAG
*
75593869 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTAC-GAAATACCCCTGTAGGGTAG
* * * *
75593895 AAATTACCAAGATA-CCTTGTGGGGTAA
1 -AATTACGAA-ATACCCCTGTAGGGTAG
75593922 AATTAC
1 AATTAC
75593928 CATTTTACCC
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 19 0.13
27 122 0.87
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (26 bp):
AATTACGAAATACCCCTGTAGGGTAG
Found at i:75593792 original size:54 final size:53
Alignment explanation
Indices: 75593734--75593910 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 53
75593724 CGATTTATAA
* * * *
75593734 AATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAAATA-CAAAATACCCCTGTAGGGTAG
* *
75593788 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAGAAATA-CAAAATACCCCTGTAGGGTAG
* * *
75593842 AATTACTGAAATACCCCTATAGTGTAGAATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTATAGGGTAGAAATAC-AAAATACCCCTGTAGGGTAG
75593895 AAATTACC-AAGATACC
1 -AATTACCGAA-ATACC
75593911 TTGTGGGGTA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
53 4 0.04
54 105 0.96
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (53 bp):
AATTACCGAAATACCCCTATAGGGTAGAAATACAAAATACCCCTGTAGGGTAG
Found at i:75593792 original size:81 final size:81
Alignment explanation
Indices: 75593730--75593924 Score: 220
Period size: 81 Copynumber: 2.4 Consensus size: 81
75593720 CCCTCGATTT
* *
75593730 ATAAAATTACCGAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGTAAG-GTAGAATTA
1 ATAAAATTACCAAAATACCCTTGTAGGGTAGAAATACT-GAAATACCCCTAT-AGTGTAGAATTA
* *
75593793 CCGAAATACCCCTATAGG
64 CTGAAATACCCCGATAGG
* * *
75593811 GTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTATAGTGTAGAATTACT
1 ATAAAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGTGTAGAATTACT
*
75593876 AAAATACCCCTG-TAGG
66 GAAATACCCC-GATAGG
* * * *
75593892 GTGAAATTACCAAGATA-CCTTGTGGGGTA-AAAT
1 ATAAAATTACCAAAATACCCTTGTAGGGTAGAAAT
75593925 TACCATTTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.03
80 13 0.13
81 81 0.83
82 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (81 bp):
ATAAAATTACCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGTGTAGAATTACT
GAAATACCCCGATAGG
Found at i:75594185 original size:27 final size:27
Alignment explanation
Indices: 75594155--75594256 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
75594145 ATTCTGTTAA
* * *
75594155 GTGGCTTTACCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
75594182 GTGGCTCTGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
75594209 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
75594236 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
75594257 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:75594431 original size:6 final size:6
Alignment explanation
Indices: 75594393--75594518 Score: 98
Period size: 6 Copynumber: 20.3 Consensus size: 6
75594383 TTGCATTCAC
* * *
75594393 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTC-G
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
75594442 GTTACCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TCATCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
75594493 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
75594519 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.07
6 72 0.75
7 13 0.14
8 4 0.04
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:75594439 original size:31 final size:31
Alignment explanation
Indices: 75594393--75594473 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
75594383 TTGCATTCAC
75594393 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
75594425 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
75594456 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
75594474 ATTCTGTCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.85
32 7 0.15
ACGTcount: A:0.19, C:0.16, G:0.17, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:75594457 original size:37 final size:37
Alignment explanation
Indices: 75594416--75594509 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
75594406 ATTCTGTTAC
* * * *
75594416 CTGATACTGATTCTGATTTTGATTCGGTTACCTGATA
1 CTGATTCTGATTCTGATTCTGATTCGGTCACCTAATA
* * *
75594453 CTGATTCTGATTCTGATTCTGATTCTGTCATCTAATT
1 CTGATTCTGATTCTGATTCTGATTCGGTCACCTAATA
75594490 CTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
75594510 AGTTCTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTCGGTCACCTAATA
Found at i:75596225 original size:18 final size:17
Alignment explanation
Indices: 75596197--75596230 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
75596187 GGCTTTAACC
75596197 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
75596214 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
75596231 TTAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:75596230 original size:6 final size:6
Alignment explanation
Indices: 75596218--75596351 Score: 87
Period size: 6 Copynumber: 21.8 Consensus size: 6
75596208 AAGAAACATT
* * * *
75596218 ATCAGA ATTAGA ATTAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
75596267 ATTAGA ATCAGT ATTAGGTA A-CAGG ATCAAA ATCAGA ATCA-A TATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A
*
75596318 A-CAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
75596352 GTAACAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 5 0.05
6 84 0.84
7 7 0.07
8 3 0.03
9 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:75596274 original size:31 final size:31
Alignment explanation
Indices: 75596235--75596345 Score: 152
Period size: 31 Copynumber: 3.6 Consensus size: 31
75596225 TTAGAATTAG
*
75596235 AATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
75596266 AATTAGAATCAGTATTAGGTAACAGGATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
*
75596297 AATCAGAATCA-ATATCAGGTAACAGAATCAG
1 AATCAGAATCAGA-ATCAGGTAACAGAATCAA
75596328 AATCAGAATCAGAATCAG
1 AATCAGAATCAGAATCAG
75596346 TATCAGGTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
31 67 0.99
32 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:75596301 original size:37 final size:35
Alignment explanation
Indices: 75596239--75596366 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 35
75596229 AATTAGAATC
* *
75596239 AGAATCAGAATCAGGTGACAGAATCAAAAT----T
1 AGAATCAGTATCAGGTAACAGAATCAAAATCAAAT
* *
75596270 AGAATCAGTATTAGGTAACAGGATCAAAATC----
1 AGAATCAGTATCAGGTAACAGAATCAAAATCAAAT
* *
75596301 AGAATCAATATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGTATCAGGTAACAGAATCAAAATCA-AAT
* *
75596337 CAGAATCAGTATCAGGTAACAAAAACAAAA
1 -AGAATCAGTATCAGGTAACAGAATCAAAA
75596367 ATCAGAATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
31 53 0.68
37 25 0.32
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (35 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATCAAAT
Found at i:75596580 original size:27 final size:27
Alignment explanation
Indices: 75596511--75596581 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
75596501 GCTCAGTTAT
*
75596511 CAGATATTGTGACAAAGTCACTAGATG
1 CAGATATTGTGACAGAGTCACTAGATG
75596538 CAGATATTGTGACAGAGTCACTAGATG
1 CAGATATTGTGACAGAGTCACTAGATG
*
75596565 CAGATATTGTGGCAGAG
1 CAGATATTGTGACAGAG
75596582 CCACCAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (27 bp):
CAGATATTGTGACAGAGTCACTAGATG
Found at i:75596601 original size:27 final size:27
Alignment explanation
Indices: 75596511--75596639 Score: 116
Period size: 27 Copynumber: 4.8 Consensus size: 27
75596501 GCTCAGTTAT
* * * **
75596511 CAGATATTGTGACAAAGTCACTAGATG
1 CAGATATTGTGGCAAAGCCACCAGAAA
* * * * **
75596538 CAGATATTGTGACAGAGTCACTAGATG
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
75596565 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
75596591 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAGAAA
*
75596619 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
75596640 TTAACAGAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
26 7 0.08
27 75 0.82
28 9 0.10
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:75596832 original size:22 final size:22
Alignment explanation
Indices: 75596798--75596862 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
75596788 GCAAATACGT
*
75596798 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
75596820 TTGGCGCAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
75596842 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
75596863 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:75597347 original size:27 final size:27
Alignment explanation
Indices: 75597307--75597463 Score: 226
Period size: 27 Copynumber: 5.9 Consensus size: 27
75597297 TACCCCACAA
* *
75597307 GGTATCTCGATAATTCTACCATACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
75597334 GGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
75597361 GGTATTTCGGTAATTCTACCCTACA-G
1 GGTATTTCGATAATTCTACCCTACAGG
* *
75597387 GATATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
75597414 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
75597441 GGTATTTCGATAATTCTACCCTA
1 GGTATTTCGATAATTCTACCCTA
75597464 TATTTCGGTA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.21
27 93 0.79
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:75597397 original size:53 final size:54
Alignment explanation
Indices: 75597307--75597465 Score: 239
Period size: 53 Copynumber: 3.0 Consensus size: 54
75597297 TACCCCACAA
* * *
75597307 GGTATCTCGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGG
* * *
75597361 GGTATTTCGGTAATTCTACCCTACA-GGATATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGG
* *
75597414 GGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATA
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATA
75597466 TTTCGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 48 0.52
54 45 0.48
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGG
Found at i:75597412 original size:80 final size:80
Alignment explanation
Indices: 75597289--75597463 Score: 244
Period size: 80 Copynumber: 2.2 Consensus size: 80
75597279 GGGGCAAAAT
* * * *
75597289 GGTAATTTTACCCCACAAGGTATCTCGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACC
1 GGTAATTCTACCCTACAAGGTATCTCGATAATTCTACCATACAGGGGTATTGCGATAATTCTACC
* *
75597354 TTATAGGGGTATTTC
66 CTACAGGGGTATTTC
* * *
75597369 GGTAATTCTACCCTAC-AGGATATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
1 GGTAATTCTACCCTACAAGG-TATCTCGATAATTCTACCATACAGGGGTATTGCGATAATTCTAC
75597433 CCTACAGGGGTATTTC
65 CCTACAGGGGTATTTC
*
75597449 GATAATTCTACCCTA
1 GGTAATTCTACCCTA
75597464 TATTTCGGTA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 3 0.04
80 81 0.96
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (80 bp):
GGTAATTCTACCCTACAAGGTATCTCGATAATTCTACCATACAGGGGTATTGCGATAATTCTACC
CTACAGGGGTATTTC
Found at i:75597494 original size:27 final size:27
Alignment explanation
Indices: 75597464--75597530 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
75597454 TTCTACCCTA
* *
75597464 TATTTCGGTAATTCCACAAATCAGGGG
1 TATTTTGGTAATTCCACAAACCAGGGG
** *
75597491 TATTTTGGTAATTTTATAAACCAGGGG
1 TATTTTGGTAATTCCACAAACCAGGGG
75597518 TATTTTGGTAATT
1 TATTTTGGTAATT
75597531 TTATTAATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TATTTTGGTAATTCCACAAACCAGGGG
Found at i:75597531 original size:27 final size:27
Alignment explanation
Indices: 75597488--75597878 Score: 227
Period size: 27 Copynumber: 14.5 Consensus size: 27
75597478 CACAAATCAG
*
75597488 GGGTATTTTGGTAATTTTATAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
75597514 GGGGTATTTTGGTAATTTTATTAATTGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
75597542 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
** *
75597569 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
75597596 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * *
75597623 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * * **
75597650 GGGTAAAATGATAATTCTAT-CTTAC-A
1 GGGTATTTTGGTAATTTTATAAAT-CGA
** *
75597676 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTATAAATCGA
** ** *
75597704 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTTGGTAATTTTATAAATC-GA
* * *
75597731 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
75597758 GGATATTTAGGTAATTTTATAAACCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
75597785 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
75597812 GGGTATTTCAATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
75597838 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
75597865 GGGGTATTTTGGTA
1 -GGGTATTTTGGTA
75597879 GCTTCGCATG
Statistics
Matches: 294, Mismatches: 61, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
26 7 0.02
27 281 0.96
28 6 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:75597546 original size:54 final size:54
Alignment explanation
Indices: 75597464--75597878 Score: 266
Period size: 54 Copynumber: 7.7 Consensus size: 54
75597454 TTCTACCCTA
** *
75597464 TATTTCGGTAATTCCACAAATC-AGGGGTATTTTGGTAATTTTATAAACCAGGGG
1 TATTTCGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATAAACCAGGGG
* * * * *
75597518 TATTTTGGTAATTTTATTAATTGAGGGTATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGG
* * *** * * *
75597572 TATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATC-GAGGG
1 TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAG-GGG
*** * * *** * * ** *
75597626 TAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTATCTTA-CAGGAG
1 TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAT-AAACCAGGGG
* * ** ** * *
75597680 TATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTAAGGG
1 TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGG
* * * *
75597734 TATTTCGATAATTTTACAAATCGAGGATATTTAGGTAATTTTATAAACC-GAGGG
1 TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAG-GGG
* * *** * * *
75597788 TACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAATAATTTCACAAATCAGGGG
1 TA-TTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGG
* * *
75597842 TATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGTA
1 TATTTCGGTAATTTTATAAATCGA-GGGTATTTTGGTA
75597879 GCTTCGCATG
Statistics
Matches: 278, Mismatches: 73, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
53 6 0.02
54 265 0.95
55 7 0.03
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
TATTTCGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGG
Found at i:75597583 original size:81 final size:81
Alignment explanation
Indices: 75597464--75597857 Score: 260
Period size: 81 Copynumber: 4.9 Consensus size: 81
75597454 TTCTACCCTA
*** * * ** *
75597464 TATTTCGGTAATTCCACAAATCAGGGGTATTTTGGTAATTTTATAAACCAGGGGTATTTTGGTAA
1 TATTTCGGTAATTTTGCAAACCAAGGGTATTTCAGTAATTTTATAAATCAGGGGTATTTTGGTAA
* *
75597529 TTTTATTAATTGAGGG
66 TTTTATAAATCGAGGG
* * * ***
75597545 TATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTAAAATGGTA
1 TATTTCGGTAATTTTGCAAACCAAGGGTATTTCAGTAATTTTATAAATCAG-GGGTATTTTGGTA
* *
75597609 ATTCTGTAAATCGAGGG
65 ATTTTATAAATCGAGGG
*** * * * * ** * * ** * **
75597626 TAAAACGGTAATTCTGTAAATCGAGGGTAAAATGA-TAATTCTAT-CTTACAGGAGTATTTCAGT
1 TATTTCGGTAATTTTGCAAACCAAGGGT-ATTTCAGTAATTTTATAAAT-CAGGGGTATTTTGGT
*
75597689 AATTTTACAAATCGAGGG
64 AATTTTATAAATCGAGGG
* * * * *
75597707 TATTTCAGTAATTTTGCAAACTAAGGGTATTTC-GATAATTTTACAAATC-GAGGATATTTAGGT
1 TATTTCGGTAATTTTGCAAACCAAGGGTATTTCAG-TAATTTTATAAATCAG-GGGTATTTTGGT
*
75597770 AATTTTATAAACCGAGGG
64 AATTTTATAAATCGAGGG
* ** * * * *
75597788 TACTTT-GGTAATTTTACAAGTCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGGTA
1 TA-TTTCGGTAATTTTGCAAACCAAGGGTATTTCAGTAATTTTATAAATCAGGGGTATTTTGGTA
75597852 ATTTTA
65 ATTTTA
75597858 CAAACCAGGG
Statistics
Matches: 229, Mismatches: 73, Indels: 22
0.71 0.23 0.07
Matches are distributed among these distances:
80 5 0.02
81 215 0.94
82 9 0.04
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
TATTTCGGTAATTTTGCAAACCAAGGGTATTTCAGTAATTTTATAAATCAGGGGTATTTTGGTAA
TTTTATAAATCGAGGG
Found at i:75601292 original size:25 final size:25
Alignment explanation
Indices: 75601244--75601292 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
75601234 TTAGGTTAAT
* *
75601244 CAGAGTTTAAGTGGGAAACTAAAAA
1 CAGAGTTTAACTGGGAAACGAAAAA
75601269 CAGAGTTTAACTGGGAGAA-GAAAA
1 CAGAGTTTAACTGGGA-AACGAAAA
75601293 GCTTTGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.47, C:0.08, G:0.27, T:0.18
Consensus pattern (25 bp):
CAGAGTTTAACTGGGAAACGAAAAA
Found at i:75602214 original size:15 final size:16
Alignment explanation
Indices: 75602188--75602220 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
75602178 CGGAATGTCT
75602188 ATCTCTCAAAATTTTC
1 ATCTCTCAAAATTTTC
75602204 ATCTC-CAAAATTTTC
1 ATCTCTCAAAATTTTC
75602219 AT
1 AT
75602221 TATTGCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ATCTCTCAAAATTTTC
Found at i:75607792 original size:22 final size:23
Alignment explanation
Indices: 75607762--75607810 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
75607752 TTCCTTTGAA
75607762 AATAGACTCATTAAGATTTTAGG
1 AATAGACTCATTAAGATTTTAGG
75607785 AATA-ACTCATTAAGATTTTAGG
1 AATAGACTCATTAAGATTTTAGG
75607807 AATA
1 AATA
75607811 TAAATATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (23 bp):
AATAGACTCATTAAGATTTTAGG
Found at i:75626320 original size:21 final size:21
Alignment explanation
Indices: 75626296--75626336 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
75626286 AAACTATGAT
*
75626296 TAAACTAAGATTAATTAAACA
1 TAAAATAAGATTAATTAAACA
*
75626317 TAAAATATGATTAATTAAAC
1 TAAAATAAGATTAATTAAAC
75626337 TAATGAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (21 bp):
TAAAATAAGATTAATTAAACA
Found at i:75627241 original size:8 final size:8
Alignment explanation
Indices: 75627228--75627257 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
75627218 CATGTAATTA
75627228 GTGGGTAG
1 GTGGGTAG
75627236 GTGGGTAG
1 GTGGGTAG
75627244 GTGGGTAG
1 GTGGGTAG
75627252 GTGGGT
1 GTGGGT
75627258 TAGCTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.63, T:0.27
Consensus pattern (8 bp):
GTGGGTAG
Found at i:75634839 original size:44 final size:45
Alignment explanation
Indices: 75634781--75635087 Score: 207
Period size: 47 Copynumber: 6.6 Consensus size: 45
75634771 TACGTGTGCT
* *
75634781 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTTAGCC
** * *
75634825 GATGTGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCTCTT-A-GCC
*
75634872 TATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCT-TAGCC
* * * *
75634918 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGT-ATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCAT-CTCTTAGCC
** * * *
75634966 GATGCATGTCTTAGACATGTCTTACACTAGC--CCTCGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATC-TCT-TA-GCC
* * * *
75635012 GATGCCATGCCCCAGACATAGTTTTACACTGGC-TC-TCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCATCATC-T-CT-TAGCC
* *
75635060 GAAGCATGTCCCAGACAAGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
75635088 AGCGCACAAA
Statistics
Matches: 206, Mismatches: 37, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.01
44 27 0.13
45 5 0.02
46 36 0.17
47 82 0.40
48 47 0.23
49 6 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTTAGCC
Found at i:75634887 original size:47 final size:44
Alignment explanation
Indices: 75634727--75635087 Score: 176
Period size: 47 Copynumber: 7.8 Consensus size: 44
75634717 TGGGATATAT
* ** *
75634727 TGCCGATGCCATGTCCCAGACATGGTCTTACACCGTTTCTCATATACGTG
1 TGCCGATGCCATGTCCCAGACA-CGTCTTACA-C-TGGCT-ATCT-C-TG
* * * * *
75634777 TGCTGATG-CATGTCCCAGACATGTCTTACACTAGCACAACTCT-
1 TGCCGATGCCATGTCCCAGACACGTCTTACACTGGC-TATCTCTG
**
75634820 TAGCCGATG-TGTGTCCCAGACACGTCTTACACTGGCTATCTCTG
1 T-GCCGATGCCATGTCCCAGACACGTCTTACACTGGCTATCTCTG
* *
75634864 TTGAGGCCTATG-CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
1 -T---GCCGATGCCATGTCCCAGACACGTCTTACACTGG--CT-ATCTCTG
* * *
75634914 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA
1 TGCCGATGCCATGTCCCAGACA-CGTCTTACACTGGCTATC-T-CTG
* ** * * **
75634961 TGGCTGATG-CATGTCTTAGACATGTCTTACACTAGCCCTCGTCTGG
1 T-GCCGATGCCATGTCCCAGACACGTCTTACACTGGCTATC-TCT-G
* * * * *
75635007 ATGCCGATGCCATGCCCCAGACATAGTTTTACACTGGCTCTCATAATG
1 -TGCCGATGCCATGTCCCAGACA-CGTCTTACACTGGCTATC-T-CTG
* *
75635055 TGGCCGAAG-CATGTCCCAGACAAGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACACGTCTTACACT
75635088 AGCGCACAAA
Statistics
Matches: 245, Mismatches: 46, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
43 6 0.02
44 30 0.12
45 6 0.02
46 44 0.18
47 80 0.33
48 48 0.20
49 17 0.07
50 14 0.06
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCCGATGCCATGTCCCAGACACGTCTTACACTGGCTATCTCTG
Found at i:75634984 original size:94 final size:94
Alignment explanation
Indices: 75634727--75635090 Score: 361
Period size: 94 Copynumber: 3.9 Consensus size: 94
75634717 TGGGATATAT
* ** *
75634727 TGCCGATGCCATGTCCCAGACATGGTCTTACACCGTTTCTCATA-TACGTGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTGATGCATGTC
*
75634791 CCAGACATGTCTTACACTAGCA--CAACTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
** * *
75634820 TAGCCGATG-TGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGT-TGAGGCCT-ATGCATG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTAT--GG-CTGATGCATG
*
75634880 TCCCAGACATGTCTTACACTGGCACTCATCTCTG
61 TCCCAGACATGTCTTACACTAGCACTCATCTCTG
**
75634914 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCTTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
* * *
75634979 GACATGTCTTACACTAGCCCTCGTCT-GG
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * * * * *
75635007 ATGCCGATGCCATGCCCCAGACATAGTTTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCC
*
75635072 AGACAAGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
75635091 GCACAAATCA
Statistics
Matches: 225, Mismatches: 31, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
90 1 0.00
91 32 0.14
92 16 0.07
93 29 0.13
94 126 0.56
95 19 0.08
96 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:75636613 original size:16 final size:17
Alignment explanation
Indices: 75636582--75636614 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
75636572 TTCATAAGTA
75636582 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
75636599 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
75636615 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:75636958 original size:46 final size:46
Alignment explanation
Indices: 75636898--75637217 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
75636888 TTTGACATGA
* * * * * *
75636898 TGCCATAGTGTCTTTCATCTATGGTCTTACTCATTTTC-TATTATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * * *
75636944 TGCCATGTTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *** *
75636990 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
75637036 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
75637082 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * *
75637128 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATGAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
75637174 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
75637218 AGAGCACACT
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 244 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:75646285 original size:47 final size:48
Alignment explanation
Indices: 75646214--75646352 Score: 160
Period size: 47 Copynumber: 2.9 Consensus size: 48
75646204 ACTAGAACAA
* * *
75646214 CTCTTAGCCAATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-T
1 CTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCAT
* * *
75646261 GTC-GAGGCCGATGCATGTCCCAGACATGTCTTACACTGAC-A-CTCAT
1 CTCTGA-GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCAT
*
75646307 CTCTGAGCCGATGCCATATCCCAGACACGGTCTTACACTGGCTATC
1 CTCTGAGCCGATG-CATGTCCCAGACAC-GTCTTACACTGGCTATC
75646353 ATAGTATGGC
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
45 3 0.04
46 12 0.16
47 46 0.61
48 12 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (48 bp):
CTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCAT
Found at i:75646368 original size:48 final size:46
Alignment explanation
Indices: 75646231--75646488 Score: 132
Period size: 47 Copynumber: 5.5 Consensus size: 46
75646221 CCAATGCGTG
* *
75646231 TCCCAGACACGTCTTACACTGGCTATCTCTGTCGA-GGCCGATG-CATG
1 TCCCAGACACGTCTTACACTGGCTATC-ATGT--ATGGCCGATGCCATA
* * * *
75646278 TCCCAGACATGTCTTACACTGAC-ACTCATCTCTGAGCCGATGCCATA
1 TCCCAGACACGTCTTACACTGGCTA-TCATGTATG-GCCGATGCCATA
* *
75646325 TCCCAGACACGGTCTTACACTGGCTATCATAGTATGGCTGATG-CATG
1 TCCCAGACAC-GTCTTACACTGGCTATCAT-GTATGGCCGATGCCATA
* * * * ** * * *
75646372 TCTCAAACATGTCTTACACTAGCCCTCGTTTGGAT-GCCGATGCCATG
1 TCCCAGACACGTCTTACACTGGCTATC--ATGTATGGCCGATGCCATA
* * * * * * * *
75646419 CCCCAGACATAGTTTTACACTGGCTTTCATAATGTGGCCGAAG-CATG
1 TCCCAGACA-CGTCTTACACTGGCTATCAT-GTATGGCCGATGCCATA
* *
75646466 TCCTAGACACGTCTTATACTGGC
1 TCCCAGACACGTCTTACACTGGC
75646489 GCACAAATCA
Statistics
Matches: 159, Mismatches: 39, Indels: 27
0.71 0.17 0.12
Matches are distributed among these distances:
45 1 0.01
46 42 0.26
47 70 0.44
48 42 0.26
49 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
TCCCAGACACGTCTTACACTGGCTATCATGTATGGCCGATGCCATA
Found at i:75646371 original size:94 final size:95
Alignment explanation
Indices: 75646126--75646486 Score: 298
Period size: 94 Copynumber: 3.9 Consensus size: 95
75646116 GGGATATATT
* * * * * *
75646126 GCCGGTGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-TACATGTGCTGATGCATATCC
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCATAGT-CATG-GCCGATGCATGTCC
* *
75646190 CAAACATGTCTTACACTAGA-A--CAACTCTTA
64 CAAACATGTCTTACACT-GACACTCATCTCTGA
* * *
75646220 GCCAATG-CGTGTCCCAGACAC-GTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTCC
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCAT-AGTC-ATGGCCGATGCATGTCC
*
75646281 CAGACATGTCTTACACTGACACTCATCTCTGA
64 CAAACATGTCTTACACTGACACTCATCTCTGA
* * *
75646313 GCCGATGCCATATCCCAGACACGGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCTCA
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCATAGTCATGGCCGATGCATGTCCCA
* *
75646377 AACATGTCTTACACT-AGCCCTCGT-T-TGGA
66 AACATGTCTTACACTGA-CACTCATCTCT-GA
* ** * * * * * *
75646406 TGCCGATGCCATGCCCCAGACATAGTTTTACACTGGCTTTCATAAT-GTGGCCGAAGCATGTCCT
1 -GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCATAGTCATGGCCGATGCATGTCCC
* * *
75646470 AGACACGTCTTATACTG
65 AAACATGTCTTACACTG
75646487 GCGCACAAAT
Statistics
Matches: 217, Mismatches: 36, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
90 2 0.01
91 30 0.14
92 19 0.09
93 31 0.14
94 115 0.53
95 19 0.09
96 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACACTGGCTATCATAGTCATGGCCGATGCATGTCCCA
AACATGTCTTACACTGACACTCATCTCTGA
Found at i:75651197 original size:13 final size:11
Alignment explanation
Indices: 75651170--75651211 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
75651160 GTTAAATATC
75651170 ATTTTATTAAT
1 ATTTTATTAAT
75651181 ATTTTACTTAGAT
1 ATTTTA-TTA-AT
*
75651194 A-TTTATTATT
1 ATTTTATTAAT
75651204 ATTTTATT
1 ATTTTATT
75651212 TAGAAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.07
11 15 0.56
12 7 0.26
13 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
ATTTTATTAAT
Found at i:75651198 original size:23 final size:23
Alignment explanation
Indices: 75651172--75651215 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
75651162 TAAATATCAT
75651172 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
75651195 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
75651216 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:75653436 original size:57 final size:57
Alignment explanation
Indices: 75653323--75653442 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 57
75653313 TAAAACACCA
* * * ** *
75653323 GTTAAATGACAACCTTTGTGGAAAAACTCTGGAAAGGAAAGCCTTTGTGGCGAACCT
1 GTTAAAAGACAACCTTTGTGGAAAAACTCTAGAAAGGAAACCCTTCATGGCAAACCT
* * * *
75653380 GTTAAAAGACCACCTTTGTGGTAAAACTCTAGAAATGCAACCCTTCATGGCAAACCT
1 GTTAAAAGACAACCTTTGTGGAAAAACTCTAGAAAGGAAACCCTTCATGGCAAACCT
75653437 GTTAAA
1 GTTAAA
75653443 GGATGCCTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (57 bp):
GTTAAAAGACAACCTTTGTGGAAAAACTCTAGAAAGGAAACCCTTCATGGCAAACCT
Found at i:75654492 original size:43 final size:43
Alignment explanation
Indices: 75654397--75654481 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
75654387 TACAGCCATG
**
75654397 TCACTAGACCGTGTGTGATTCGAAATAGGGTCACACGACCGTT
1 TCACTAGACCGTGTGCAATTCGAAATAGGGTCACACGACCGTT
* * * *
75654440 TCACCAGACCGTGTGCAATTTGAAATAGGTTCACACGGCCGT
1 TCACTAGACCGTGTGCAATTCGAAATAGGGTCACACGACCGT
75654482 GTTGCTAGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (43 bp):
TCACTAGACCGTGTGCAATTCGAAATAGGGTCACACGACCGTT
Found at i:75658702 original size:48 final size:46
Alignment explanation
Indices: 75658592--75658810 Score: 165
Period size: 49 Copynumber: 4.6 Consensus size: 46
75658582 TGATATGTGT
* * *
75658592 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAATATGAAA
* * *
75658638 GCTAATGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-A-ATATGA-AA
* * *
75658686 GCTAGTGTAAGACATGTTTAGGACATGGCATC-GACACCAATGGATGAGA
1 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCA-CAAT--ATGAAA
* * * * * *
75658735 GCCAGTGTAAGACCTGCCTGGGACATGTCATTGGCCTCAACATATGAAA
1 GCTAGTGTAAGACATGTCTAGGACATG-CATCGGCCAC-A-ATATGAAA
* *
75658784 G-TCAGTGTAAGACTTGTCTCGGACATG
1 GCT-AGTGTAAGACATGTCTAGGACATG
75658811 GCGTCGGCAT
Statistics
Matches: 135, Mismatches: 25, Indels: 23
0.74 0.14 0.13
Matches are distributed among these distances:
46 33 0.24
47 4 0.03
48 32 0.24
49 60 0.44
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACAATATGAAA
Found at i:75658808 original size:98 final size:95
Alignment explanation
Indices: 75658592--75658812 Score: 243
Period size: 98 Copynumber: 2.3 Consensus size: 95
75658582 TGATATGTGT
* * * * *
75658592 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCTAATGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGACATGCC
* *
75658656 TAGGACATGCATTGGCCTCGAGATATACAA
66 TAGGACATGCATTGGCCTCAACATATACAA
* * *
75658686 GCTAGTGTAAGACATGTTTAGGACATGGCATCGA-CACCAATGGATGAGAGCCAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTAGGACATGGCATCGACCA-C-AT-GATGAGAGCCAATGTAAGACAT
*
75658750 GCCTGGGACATGTCATTGGCCTCAACATATGA-AA
63 GCCTAGGACATG-CATTGGCCTCAACATAT-ACAA
* *
75658784 G-TCAGTGTAAGACTTGTCTCGGACATGGC
1 GCT-AGTGTAAGACATGTCTAGGACATGGC
75658813 GTCGGCATCT
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
94 26 0.25
95 7 0.07
96 2 0.02
97 29 0.27
98 41 0.39
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTAGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGACATGCC
TAGGACATGCATTGGCCTCAACATATACAA
Found at i:75664857 original size:64 final size:64
Alignment explanation
Indices: 75664662--75664978 Score: 282
Period size: 64 Copynumber: 4.9 Consensus size: 64
75664652 CATAATTTTG
* * * * * * *
75664662 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
* * * * * * * * * *
75664725 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGTTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACATATATCTCG
75664790 TA
63 TA
*
75664792 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
* *
75664856 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCCACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTA---CAT-ATATCTC
75664921 GTA
62 GTA
* ** * * *
75664924 GCTCTCTTGTAC-ACATGGTATACATCCCA-TATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTATCACCCATGCGACCTAGCTACATA
75664979 CCATCTGTAT
Statistics
Matches: 210, Mismatches: 33, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
63 18 0.09
64 85 0.40
65 3 0.01
66 22 0.10
67 32 0.15
68 47 0.22
69 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:75664941 original size:132 final size:129
Alignment explanation
Indices: 75664662--75664978 Score: 318
Period size: 132 Copynumber: 2.4 Consensus size: 129
75664652 CATAATTTTG
* * * * * *
75664662 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATAG
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAG
* * * * * *
75664726 CTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGTTACATTTATCTCGT
66 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATATATCTCGT
75664791 A
129 A
* *
75664792 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCATA
* * * * *
75664856 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCCACCTAGCTACCTCATAATGTCT
65 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTA---CAT-ATATCT
75664920 CGTA
126 CGTA
* ** * *
75664924 GCTCTCTTGTACACATGGTATACATCCCA-TATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACA-CATAGTATCACCCATGTGACCTAGCTACATA
75664979 CCATCTGTAT
Statistics
Matches: 154, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
128 23 0.15
129 1 0.01
130 45 0.29
131 30 0.19
132 52 0.34
133 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (129 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCATAG
CTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATATATCTCGTA
Found at i:75672840 original size:30 final size:30
Alignment explanation
Indices: 75672783--75672841 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
75672773 GCCTACTGGA
*
75672783 TTATTATTAATTAAATTCAAATTATATATT
1 TTATTATTAATTAAATTCAAATAATATATT
* *
75672813 TTATTATT-ATTATATTTAAATAAATATAT
1 TTATTATTAATTAAATTCAAAT-AATATAT
75672842 ATATTTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TTATTATTAATTAAATTCAAATAATATATT
Found at i:75674021 original size:33 final size:33
Alignment explanation
Indices: 75673974--75674040 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
75673964 GAAGGGAGCA
*
75673974 AGGACAATGCGTCATTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
*
75674007 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
75674040 A
1 A
75674041 CTAACTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (33 bp):
AGGACAATGCGTCATTTGGCAAGTAACAGCTGG
Found at i:75685942 original size:30 final size:32
Alignment explanation
Indices: 75685883--75685942 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
75685873 AAGATCCACT
* *
75685883 TTCAAAGTTTGCTATTAATAGATTTTAATTGGA
1 TTCAAAGTCTACTATTAATAGA-TTTAATTGGA
75685916 TTCAAAGTCTACTATTAA-AG-TTTAATT
1 TTCAAAGTCTACTATTAATAGATTTAATT
75685943 TGCTTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
32 2 0.08
33 16 0.64
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (32 bp):
TTCAAAGTCTACTATTAATAGATTTAATTGGA
Found at i:75692856 original size:14 final size:14
Alignment explanation
Indices: 75692837--75692868 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
75692827 AGAAGAAAAC
*
75692837 ATACGATTTATAGA
1 ATACGATTTACAGA
75692851 ATACGATTTACAGA
1 ATACGATTTACAGA
75692865 ATAC
1 ATAC
75692869 ACCATAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (14 bp):
ATACGATTTACAGA
Found at i:75696367 original size:26 final size:24
Alignment explanation
Indices: 75696333--75696380 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
75696323 TAAATAAAAA
* *
75696333 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
75696359 ATTTAAAAACATAAAAACAAAT
1 ATTTAAAAACATAAAAACAAAT
75696381 TATTAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:75702702 original size:13 final size:15
Alignment explanation
Indices: 75702678--75702709 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
75702668 ATCCTATATT
75702678 TATTATTAATTAA-A
1 TATTATTAATTAACA
75702692 TATTA-TAATTAACA
1 TATTATTAATTAACA
75702706 TATT
1 TATT
75702710 TTCACTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:75704793 original size:14 final size:14
Alignment explanation
Indices: 75704769--75704802 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
75704759 AGTCGTAAAC
75704769 AAGTAATAAAGTAGT
1 AAGT-ATAAAGTAGT
75704784 AAGTATAAAGTAGT
1 AAGTATAAAGTAGT
75704798 AAGTA
1 AAGTA
75704803 AATCAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (14 bp):
AAGTATAAAGTAGT
Found at i:75706991 original size:49 final size:49
Alignment explanation
Indices: 75706917--75707066 Score: 185
Period size: 49 Copynumber: 3.1 Consensus size: 49
75706907 AAATGGGCCT
* *
75706917 ACATGCTTGTGTGACCCACATGACCCAAATAACCCAACCTGTGTGGTCC
1 ACATGCTCGTGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCC
* * * *
75706966 ACATGCTCATGTGACTCACACGACCCAAATAACCTAACCTGTGTGGTCT
1 ACATGCTCGTGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCC
* * * * *
75707015 ACATGCTCGTGTGGCCCACAC-AGCCTAAATAACCCAGCCTATGTGGCCC
1 ACATGCTCGTGTGACCCACACGA-CCCAAATAACCCAACCTGTGTGGTCC
75707064 ACA
1 ACA
75707067 CGACCTGGCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 84 0.99
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (49 bp):
ACATGCTCGTGTGACCCACACGACCCAAATAACCCAACCTGTGTGGTCC
Found at i:75716344 original size:22 final size:22
Alignment explanation
Indices: 75716319--75716364 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
75716309 CCAAACTTGT
75716319 TCAAAATATACCAAATCAATCA
1 TCAAAATATACCAAATCAATCA
75716341 TCAAAATATACCAAATCAATCA
1 TCAAAATATACCAAATCAATCA
75716363 TC
1 TC
75716365 CTATATGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (22 bp):
TCAAAATATACCAAATCAATCA
Found at i:75720189 original size:17 final size:18
Alignment explanation
Indices: 75720167--75720201 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
75720157 ATTATGGGTT
75720167 GTGTGGGC-CACACGGGC
1 GTGTGGGCTCACACGGGC
*
75720184 GTGTGGGCTCACATGGGC
1 GTGTGGGCTCACACGGGC
75720202 CTCCAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
GTGTGGGCTCACACGGGC
Found at i:75720391 original size:12 final size:13
Alignment explanation
Indices: 75720368--75720400 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
75720358 ATTTTGGCCC
75720368 TATATGATATGCA
1 TATATGATATGCA
75720381 TATAT-ATATGCA
1 TATATGATATGCA
*
75720393 TGTATGAT
1 TATATGAT
75720401 CGTATTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (13 bp):
TATATGATATGCA
Found at i:75731969 original size:23 final size:23
Alignment explanation
Indices: 75731898--75731989 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
75731888 CAAAATGTTG
* * *
75731898 CATATAATATGCCACGAAGGCAT
1 CATAGAATACGCCACAAAGGCAT
* * *
75731921 CATA-ACATACACCGCAAAGGCTT
1 CATAGA-ATACGCCACAAAGGCAT
* * *
75731944 CATAGAATATGCCATAACGGCAT
1 CATAGAATACGCCACAAAGGCAT
75731967 CATAGAATACGCCACAAAGGCAT
1 CATAGAATACGCCACAAAGGCAT
75731990 TTCCAAAGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
22 1 0.02
23 51 0.96
24 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.18
Consensus pattern (23 bp):
CATAGAATACGCCACAAAGGCAT
Found at i:75731970 original size:46 final size:46
Alignment explanation
Indices: 75731898--75731987 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
75731888 CAAAATGTTG
* *
75731898 CATATAATATGCCACGAAGGCATCATA-ACATACACCGCAAAGGCTT
1 CATAGAATATGCCACGAAGGCATCATAGA-ATACACCACAAAGGCTT
* *
75731944 CATAGAATATGCCA-TAACGGCATCATAGAATACGCCACAAAGGC
1 CATAGAATATGCCACGAA-GGCATCATAGAATACACCACAAAGGC
75731988 ATTTCCAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 2 0.05
46 35 0.92
47 1 0.03
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.18
Consensus pattern (46 bp):
CATAGAATATGCCACGAAGGCATCATAGAATACACCACAAAGGCTT
Done.