Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 53 of 77
Found at i:10372762 original size:17 final size:16
Alignment explanation
Indices: 10372718--10372774 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
10372708 CCTTTTTCTA
*
10372718 TATTTTT-TATTAGTT
1 TATTTTTATATTAATT
* *
10372733 TAGTATTATTATTAAATT
1 TATTTTTA-TATT-AATT
*
10372751 TATTTTTATATTATTT
1 TATTTTTATATTAATT
10372767 TATTTTTA
1 TATTTTTA
10372775 AAGTTTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 8 0.24
18 9 0.27
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
TATTTTTATATTAATT
Found at i:10374036 original size:24 final size:25
Alignment explanation
Indices: 10373999--10374045 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
10373989 TGTTTGTTTT
*
10373999 TTTTTTTTGGTATTTTGTATTTATA
1 TTTTTTTTGATATTTTGTATTTATA
10374024 TTTTTTTT-ATATTTTGTATTTA
1 TTTTTTTTGATATTTTGTATTTA
10374046 ATAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (25 bp):
TTTTTTTTGATATTTTGTATTTATA
Found at i:10374364 original size:47 final size:47
Alignment explanation
Indices: 10374296--10374572 Score: 335
Period size: 47 Copynumber: 5.8 Consensus size: 47
10374286 TTAAAATCTG
*
10374296 AAAAGACTCCTCTCAGTAGAGGCTCAACAACTTTAAAATCTCATTTGA
1 AAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGA
* * * *
10374344 AAAAGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAATTTAAAATCTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCT--CATTTGA
* * *
10374393 AATAGGCTCATTTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGA
1 AA-AAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-TTTGA
10374442 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TC-TCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TTGA
**
10374489 AAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATC-CATCTTGA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGA
* * * *
10374536 AAAAACGCCTCTCAGTAGAGGCTTAACAACTTTAAAA
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
10374573 CTCCATCTCA
Statistics
Matches: 200, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
46 7 0.04
47 106 0.53
48 36 0.18
49 18 0.09
50 33 0.17
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (47 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGA
Found at i:10381790 original size:21 final size:21
Alignment explanation
Indices: 10381749--10381790 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10381739 TTTGGATCAA
* *
10381749 GGATAAGCCTATCTTATTTTT
1 GGATAAGCCTATATTAGTTTT
10381770 GGATAAGTCCT-TATTAGTTTT
1 GGATAAG-CCTATATTAGTTTT
10381791 AGCGTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (21 bp):
GGATAAGCCTATATTAGTTTT
Found at i:10387178 original size:21 final size:21
Alignment explanation
Indices: 10387132--10387172 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10387122 TTAAACAAAA
* *
10387132 AAACCCTAAATGAATATAAAC
1 AAACCCAAAACGAATATAAAC
10387153 AAACCCAAAACGAATATAAA
1 AAACCCAAAACGAATATAAA
10387173 TGAACCTTAA
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:0.61, C:0.20, G:0.05, T:0.15
Consensus pattern (21 bp):
AAACCCAAAACGAATATAAAC
Found at i:10387248 original size:11 final size:11
Alignment explanation
Indices: 10387232--10387256 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10387222 GTATTATTAT
10387232 AAACGAATAAC
1 AAACGAATAAC
10387243 AAACGAATAAC
1 AAACGAATAAC
10387254 AAA
1 AAA
10387257 TGAACGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (11 bp):
AAACGAATAAC
Found at i:10388478 original size:285 final size:283
Alignment explanation
Indices: 10387970--10388542 Score: 1101
Period size: 285 Copynumber: 2.0 Consensus size: 283
10387960 TTATAAACAT
10387970 TTAAAGGATCAATATTGTTTCCTTCTAAGTATTTTCTGTGTAGCAGACTTGACCAAAAATCATAA
1 TTAAAGGATCAATATTGTTTCCTTCTAAGTATTTTCTGTGTAGCAGACTTGACCAAAAATCATAA
10388035 CCAGAAAGTTTGCTTTATGTTACCAATTCCATCTGTTAATTATGAACATATATAGGTGACAAACC
66 CCAGAAAGTTTGCTTTATGTTACCAATTCCATCTGTTAATTATGAACATATATAGGTGACAAACC
10388100 ACAAGTTTATTTTATTTCACAGCTCACCCTAGAATAACATAAGATTGACTTATAGTACATAATAT
131 ACAAGTTTATTTTATTTCACAGCTCACCCTAGAATAACATAAGATTGACTTATAGTACATAATAT
*
10388165 GGGAAACCATCACCAGAGACCATCTGGTTCTTATTGTTAAATCTTAATTATAAACCTAGAAGGCA
196 GGGAAACCATCACCAGAGACCATCTGGTTCTTATTGTTAAATCTTAATTATAAACCTAGAAGACA
10388230 AGCACTAAAAACCCACTTAATAA
261 AGCACTAAAAACCCACTTAATAA
*
10388253 TTAAAGGATCAATATTGTTTTCTTCTAAGTATTTTCTGTGTAGCAGAGACTTGACCAAAAATCAT
1 TTAAAGGATCAATATTGTTTCCTTCTAAGTATTTTCTGTGTAGC--AGACTTGACCAAAAATCAT
10388318 AACCAGAAAGTTTGCTTTATGTTACCAATTCCATCTGTTAATTATGAACATATATAGGTGACAAA
64 AACCAGAAAGTTTGCTTTATGTTACCAATTCCATCTGTTAATTATGAACATATATAGGTGACAAA
10388383 CCACAAGTTTATTTTATTTCACAGCTCACCCTAGAATAACATAAGATTGACTTATAGTACATAAT
129 CCACAAGTTTATTTTATTTCACAGCTCACCCTAGAATAACATAAGATTGACTTATAGTACATAAT
10388448 ATGGGAAACCATCACCAGAGACCATCTGGTTCTTATTGTTAAATCTTAATTATAAACCTAGAAGA
194 ATGGGAAACCATCACCAGAGACCATCTGGTTCTTATTGTTAAATCTTAATTATAAACCTAGAAGA
10388513 CAAGCACTAAAAACCCACTTAATAA
259 CAAGCACTAAAAACCCACTTAATAA
*
10388538 CTAAA
1 TTAAA
10388543 CATAGCTATC
Statistics
Matches: 285, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
283 43 0.15
285 242 0.85
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (283 bp):
TTAAAGGATCAATATTGTTTCCTTCTAAGTATTTTCTGTGTAGCAGACTTGACCAAAAATCATAA
CCAGAAAGTTTGCTTTATGTTACCAATTCCATCTGTTAATTATGAACATATATAGGTGACAAACC
ACAAGTTTATTTTATTTCACAGCTCACCCTAGAATAACATAAGATTGACTTATAGTACATAATAT
GGGAAACCATCACCAGAGACCATCTGGTTCTTATTGTTAAATCTTAATTATAAACCTAGAAGACA
AGCACTAAAAACCCACTTAATAA
Found at i:10388974 original size:2 final size:2
Alignment explanation
Indices: 10388963--10388994 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10388953 CTTAAGTCAC
10388963 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10388995 CTAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10393007 original size:13 final size:13
Alignment explanation
Indices: 10392989--10393025 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10392979 AACGAGAAGC
10392989 ATCACCAAAAAAA
1 ATCACCAAAAAAA
10393002 ATCACCAAAAAAA
1 ATCACCAAAAAAA
**
10393015 AAAACCAAAAA
1 ATCACCAAAAA
10393026 CAAAATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.73, C:0.22, G:0.00, T:0.05
Consensus pattern (13 bp):
ATCACCAAAAAAA
Found at i:10395358 original size:44 final size:46
Alignment explanation
Indices: 10395292--10395377 Score: 149
Period size: 44 Copynumber: 1.9 Consensus size: 46
10395282 AGGTTTTTTT
10395292 TTTTTTTTCTCATTAATAGTTGCTGTGTTACTCCT-ACTGGGCTAA
1 TTTTTTTTCTCATTAATAGTTGCTGTGTTACTCCTAACTGGGCTAA
*
10395337 TTTTTTTTC-CATTAATTGTTGCTGTGTTACTCCTAACTGGG
1 TTTTTTTTCTCATTAATAGTTGCTGTGTTACTCCTAACTGGG
10395378 TTATTAGTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 24 0.62
45 15 0.38
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.50
Consensus pattern (46 bp):
TTTTTTTTCTCATTAATAGTTGCTGTGTTACTCCTAACTGGGCTAA
Found at i:10398598 original size:23 final size:23
Alignment explanation
Indices: 10398558--10398601 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10398548 ATATTTCTAG
*
10398558 TTATTCATAAATTAAATTAAATC
1 TTATTCATAAATAAAATTAAATC
10398581 TTATT-ATAAATAATAATTAAA
1 TTATTCATAAATAA-AATTAAA
10398602 AATATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATTCATAAATAAAATTAAATC
Found at i:10399870 original size:15 final size:15
Alignment explanation
Indices: 10399842--10399887 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
10399832 AAAATTAATC
10399842 TAAAAATACA-AAAAA
1 TAAAAATA-AGAAAAA
10399857 TAAAAATAAGAAAACA
1 TAAAAATAAGAAAA-A
10399873 TAAACAA-AAGAAAAA
1 TAAA-AATAAGAAAAA
10399888 GTTGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 13 0.46
16 12 0.43
17 2 0.07
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (15 bp):
TAAAAATAAGAAAAA
Found at i:10399870 original size:16 final size:16
Alignment explanation
Indices: 10399842--10399887 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10399832 AAAATTAATC
*
10399842 TAAAAAT-ACAAAAAA
1 TAAAAATAAGAAAAAA
*
10399857 TAAAAATAAGAAAACA
1 TAAAAATAAGAAAAAA
10399873 TAAACAA-AAGAAAAA
1 TAAA-AATAAGAAAAA
10399888 GTTGAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.27
16 17 0.65
17 2 0.08
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (16 bp):
TAAAAATAAGAAAAAA
Found at i:10400962 original size:12 final size:12
Alignment explanation
Indices: 10400945--10400988 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
10400935 TTTTTATAAC
* *
10400945 AATAATGATTTT
1 AATAATAATTAT
10400957 AATAATAATTAT
1 AATAATAATTAT
*
10400969 AATAATAATAAT
1 AATAATAATTAT
10400981 AATAATAA
1 AATAATAA
10400989 AATATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
AATAATAATTAT
Found at i:10400964 original size:3 final size:3
Alignment explanation
Indices: 10400956--10400992 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
10400946 ATAATGATTT
*
10400956 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10400993 TATTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10400965 original size:15 final size:15
Alignment explanation
Indices: 10400940--10400992 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
10400930 TTCTTTTTTT
* *
10400940 ATAACAATAATGATT
1 ATAATAATAATGATA
* *
10400955 TTAATAATAATTATA
1 ATAATAATAATGATA
*
10400970 ATAATAATAATAATA
1 ATAATAATAATGATA
10400985 ATAA-AATA
1 ATAATAATA
10400993 TATTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAATAATAATGATA
Found at i:10402170 original size:3 final size:3
Alignment explanation
Indices: 10402162--10402208 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
10402152 AAATGCTTAA
*
10402162 AAT AAT AAT AAT AAT AAT ATAT AA- AAT AAT AAT AAG AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
10402206 AAT
1 AAT
10402209 TTTTATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10402520 original size:16 final size:15
Alignment explanation
Indices: 10402439--10402558 Score: 61
Period size: 16 Copynumber: 7.9 Consensus size: 15
10402429 TAAAACCTTT
*
10402439 AAACCCTTAAATC-C
1 AAACCCTAAAATCTC
* *
10402453 AAACCCTTAAAATTTG
1 AAACCC-TAAAATCTC
** *
10402469 AGCCCCTTAAAATCTG
1 AAACCC-TAAAATCTC
*
10402485 AAACCCCAAAATC-C
1 AAACCCTAAAATCTC
10402499 AAAAACCCTAAAATCTCC
1 --AAACCCTAAAATCT-C
*
10402517 AAACTCTAAAAT-T-
1 AAACCCTAAAATCTC
*
10402530 AAACCCT-AAACCTTC
1 AAACCCTAAAATC-TC
10402545 TAAACCCTAAAATC
1 -AAACCCTAAAATC
10402559 GAAAACCTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
12 3 0.04
13 6 0.08
14 7 0.09
15 12 0.15
16 47 0.59
17 4 0.05
18 1 0.01
ACGTcount: A:0.45, C:0.31, G:0.03, T:0.22
Consensus pattern (15 bp):
AAACCCTAAAATCTC
Found at i:10402614 original size:29 final size:29
Alignment explanation
Indices: 10402553--10402614 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
10402543 TCTAAACCCT
*
10402553 AAAA-TCGAAAACCTAAGCCCAAAAACCT
1 AAAACTCGAAAACCTAAGCCCAAAAACCA
* *
10402581 GAAACTCGAAAACCTAA-CCCTAAAATCCA
1 AAAACTCGAAAACCTAAGCCC-AAAAACCA
10402610 AAAAC
1 AAAAC
10402615 CTTAAAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.53, C:0.29, G:0.06, T:0.11
Consensus pattern (29 bp):
AAAACTCGAAAACCTAAGCCCAAAAACCA
Found at i:10406448 original size:22 final size:22
Alignment explanation
Indices: 10406420--10406474 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10406410 GTCGATTCTG
10406420 TAAGACCTTCGAGCATAA-TTC
1 TAAGACCTTCGAGCATAATTTC
* * *
10406441 TTTAGACCTCCGAGCATGATTTC
1 -TAAGACCTTCGAGCATAATTTC
10406464 TAAGACCTTCG
1 TAAGACCTTCG
10406475 GACATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (22 bp):
TAAGACCTTCGAGCATAATTTC
Found at i:10406729 original size:19 final size:22
Alignment explanation
Indices: 10406707--10406749 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
10406697 TAATAATAAT
10406707 AATAAATA-T-ATT-TTAAAAA
1 AATAAATATTAATTATTAAAAA
*
10406726 AATAATTATTAATTATTAAAAA
1 AATAAATATTAATTATTAAAAA
10406748 AA
1 AA
10406750 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 3 0.15
22 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAAATATTAATTATTAAAAA
Found at i:10408264 original size:7 final size:8
Alignment explanation
Indices: 10408249--10408294 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 8
10408239 TCTAAAACCC
10408249 CCTAAAAT
1 CCTAAAAT
10408257 CC-AAAAT
1 CCTAAAAT
10408264 CTCTTAAAAT
1 C-C-TAAAAT
10408274 CC-AAAAT
1 CCTAAAAT
10408281 CCTAAAAAT
1 CCT-AAAAT
10408290 CCTAA
1 CCTAA
10408295 GGACACGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 13 0.39
8 5 0.15
9 9 0.27
10 6 0.18
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (8 bp):
CCTAAAAT
Found at i:10408290 original size:16 final size:17
Alignment explanation
Indices: 10408252--10408291 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
10408242 AAAACCCCCT
*
10408252 AAAATCCAAAATCTCTT
1 AAAATCCAAAATCTCTA
10408269 AAAATCCAAAATC-CTA
1 AAAATCCAAAATCTCTA
10408285 AAAATCC
1 AAAATCC
10408292 TAAGGACACG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATCCAAAATCTCTA
Found at i:10417055 original size:15 final size:16
Alignment explanation
Indices: 10417035--10417064 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10417025 GTAATTTTAG
10417035 TTTTATA-TTTAAATT
1 TTTTATATTTTAAATT
10417050 TTTTATATTTTAAAT
1 TTTTATATTTTAAAT
10417065 AAATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTAAATT
Found at i:10417867 original size:174 final size:176
Alignment explanation
Indices: 10417567--10417891 Score: 496
Period size: 174 Copynumber: 1.9 Consensus size: 176
10417557 TTTTTGTTGT
* *
10417567 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAACGGAAAAATGATACAATTGACTTG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGG-AAAATGATACAATTGACATG
* * * *
10417632 GCGCAGAGGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTGTGGGACCATACGTG
65 GCACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGTG
*
10417697 TAATAAAGGACAAATCATACTACACTCTGTCTTATTAATACGCTTTG
130 TAATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
* * *
10417744 CTCTATCGTCACTGTAATATTAATGCCGTCCTGTGTAATAAAGG-AAATGATATCTA-TGACATG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATA-CAATTGACATG
*
10417807 GCACAGACGAAAG-TTTTGGATTCTCATAA-TTTGATCTTATTTTGCATTTATGGAACCATACGT
65 GCACAGACGAAAGTTTTTGGA-TCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGT
10417870 GTAATAAAGGAAAAATCATACT
129 GTAATAAAGGAAAAATCATACT
10417892 GCATCTCTTG
Statistics
Matches: 135, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
174 59 0.44
175 33 0.24
176 2 0.01
177 41 0.30
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (176 bp):
CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATACAATTGACATGG
CACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGTGT
AATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
Found at i:10417999 original size:22 final size:22
Alignment explanation
Indices: 10417957--10418000 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10417947 TTTAATCACG
*
10417957 TTTATTAATGTGTTAATAAAAT
1 TTTATTAATGTGTGAATAAAAT
*
10417979 TTTATTACATTTGTGAA-AAAAT
1 TTTATTA-ATGTGTGAATAAAAT
10418001 ATCTACGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
TTTATTAATGTGTGAATAAAAT
Found at i:10426625 original size:16 final size:16
Alignment explanation
Indices: 10426606--10426639 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10426596 ATCAAAATCA
10426606 TATGTAATATAGCCTT
1 TATGTAATATAGCCTT
10426622 TATGTAATATAGCCTT
1 TATGTAATATAGCCTT
10426638 TA
1 TA
10426640 ATCTTCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TATGTAATATAGCCTT
Found at i:10431499 original size:52 final size:51
Alignment explanation
Indices: 10431428--10431571 Score: 189
Period size: 52 Copynumber: 2.8 Consensus size: 51
10431418 TATAACCATA
* * * * *
10431428 CAAACTTGCCCATTTAGAATCCCTTTCCTCTTTGAATTCTTCTCCTATAAGT
1 CAAACTTACCTATTAAGAATCCCTTT-CTCTTAGAATTCTTCTCCTACAAGT
* *
10431480 CAAACTTACCTATTAAGAATCCATTTTCTCTTAGAATTCTTCTCTTACAAGT
1 CAAACTTACCTATTAAGAATCC-CTTTCTCTTAGAATTCTTCTCCTACAAGT
*
10431532 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCT
1 CAAACTTACCTATTAAGAATC-CCTTTCTCTTAGAATTCT
10431572 CCTTTTGCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 78 0.96
53 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCCTTTCTCTTAGAATTCTTCTCCTACAAGT
Found at i:10431627 original size:11 final size:11
Alignment explanation
Indices: 10431608--10431650 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
10431598 AGTAATATCT
10431608 AACAAATCTCA
1 AACAAATCTCA
*
10431619 AATAAATCTCA
1 AACAAATCTCA
10431630 AACAAATCTCA
1 AACAAATCTCA
10431641 AACAAATCTC
1 AACAAATCTC
10431651 TTATAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:10431949 original size:24 final size:25
Alignment explanation
Indices: 10431894--10431977 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
10431884 ACCATGCACT
10431894 TTTCACAT-TCTAAACCTTTAGCTC
1 TTTCACATCTCTAAACCTTTAGCTC
*
10431918 TTCCCACATCTC-AAA-CTTTCAGCTC
1 TT-TCACATCTCTAAACCTTT-AGCTC
* *
10431943 TTTCACATCT-TGAACCTTTGGCTC
1 TTTCACATCTCTAAACCTTTAGCTC
10431967 TTTTCACATCT
1 -TTTCACATCT
10431978 TGAATCTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
24 19 0.38
25 29 0.58
26 2 0.04
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTCACATCTCTAAACCTTTAGCTC
Found at i:10431960 original size:49 final size:50
Alignment explanation
Indices: 10431906--10432017 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 50
10431896 TCACATTCTA
10431906 AACCTTTAGCTCTTCCCACATCTCAAA-CTTTCAGCTCTT-TCACATCTTG
1 AACCTTTAGCTCTTCCCACATCTCAAATC-TTCAGCTCTTCTCACATCTTG
* ** ** ** *
10431955 AACCTTTGGCTCTTTTCACATCTTGAATCTTCAGCTCTTCTCATGTTTTG
1 AACCTTTAGCTCTTCCCACATCTCAAATCTTCAGCTCTTCTCACATCTTG
*
10432005 AACCTTCAGCTCT
1 AACCTTTAGCTCT
10432018 GATACCACTT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
49 32 0.63
50 19 0.37
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (50 bp):
AACCTTTAGCTCTTCCCACATCTCAAATCTTCAGCTCTTCTCACATCTTG
Found at i:10431961 original size:25 final size:26
Alignment explanation
Indices: 10431906--10432017 Score: 101
Period size: 25 Copynumber: 4.5 Consensus size: 26
10431896 TCACATTCTA
* *
10431906 AACCTTT-AGCTCTTCCCACATC-TC
1 AACCTTTCAGCTCTTCTCACATCTTG
*
10431930 AAACTTTCAGCTCTT-TCACATCTTG
1 AACCTTTCAGCTCTTCTCACATCTTG
* *
10431955 AACCTTT-GGCTCTTTTCACATCTTG
1 AACCTTTCAGCTCTTCTCACATCTTG
* ** *
10431980 AATC-TTCAGCTCTTCTCATGTTTTG
1 AACCTTTCAGCTCTTCTCACATCTTG
10432005 AACC-TTCAGCTCT
1 AACCTTTCAGCTCT
10432018 GATACCACTT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
24 20 0.28
25 52 0.72
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (26 bp):
AACCTTTCAGCTCTTCTCACATCTTG
Found at i:10432616 original size:52 final size:52
Alignment explanation
Indices: 10432549--10432705 Score: 176
Period size: 52 Copynumber: 3.0 Consensus size: 52
10432539 TATAATCATA
* * * * * *
10432549 CAAACTTGCCCATTAAGAATCCCTTTCCTCCTT-GAATTTTTCTCA-TGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCT-ATTAAAATTCTTCT-ATTGCAAGT
* *
10432601 CAAACTTACCTATTAAGAATCTCTTTTCTATTAAAATTCTTCTATTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTATTAAAATTCTTCTATTGCAAGT
* *
10432653 CAAACTTACCTATTAAGAATCTCCTTT-CTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-CCTTTCCTATTAAAATTCTTCTATTGCAAGT
10432705 C
1 C
10432706 TTCTTGCTCA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 3 0.03
52 84 0.92
53 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.41
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTATTAAAATTCTTCTATTGCAAGT
Found at i:10432748 original size:11 final size:11
Alignment explanation
Indices: 10432729--10432771 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
10432719 AGTAATATCT
10432729 AACAAATCTCA
1 AACAAATCTCA
* *
10432740 AATAAATCTCT
1 AACAAATCTCA
10432751 AACAAAT-TCCA
1 AACAAATCT-CA
10432762 AACAAATCTC
1 AACAAATCTC
10432772 TTATAGGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 24 0.92
12 1 0.04
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
AACAAATCTCA
Found at i:10432751 original size:22 final size:22
Alignment explanation
Indices: 10432726--10432772 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
10432716 TTAAGTAATA
*
10432726 TCTAACAAA-TCTCAAATAAATC
1 TCTAACAAATTC-CAAACAAATC
10432748 TCTAACAAATTCCAAACAAATC
1 TCTAACAAATTCCAAACAAATC
10432770 TCT
1 TCT
10432773 TATAGGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
TCTAACAAATTCCAAACAAATC
Found at i:10435061 original size:357 final size:348
Alignment explanation
Indices: 10434415--10435159 Score: 931
Period size: 357 Copynumber: 2.1 Consensus size: 348
10434405 TATAACAAAT
* * * *
10434415 TATTGAAGGCATTTTATAATAAAAGACACCTTTAATAATTCAAAAAAAATTTTGGAAAATTATTG
1 TATTGAAGGCATTTCATAATAAAAGACACATTTAATAATTCAAAAAAAATTTTGAAAAATTATTA
* * * *
10434480 AATGTGTTGTTATCTGTAACCGCCTTCAGTAATTATCTACAAACTATGATAGAAATTATTAAAGA
66 AAGGTGTTGTTATCTGCAACCGCCTTCACTAATTATATACAAACTATGATAGAAATTATTAAAGA
* * * * *
10434545 CATTTTTCTTACGCCTTCAATAACAATGTTAATATTTGTGTGACGGTATACAAAAGATATTTTAT
131 CATTTTTATTACACCTTCAATAACAATGTTAAAATTTATGTGACAGTATACAAAAGATATTTTAT
* * *
10434610 AGTAAAAGATACTTTTAATAATTTCTAAATTTTTTAGTGAGAAAATTTTGAAGGCGTCTGTTATT
196 AGTAAAAGATACTTTTAATAATTTCTAAAATATTTAGTGAGAAAATTTTGAAGGCGTCTATTATT
*
10434675 AACAAAAACCTTCAATAATGGATTACTAAGTTTAAAGGTATATTGAAGGCT-CATTTTCGAATAA
261 AACAAAAACCTTCAATAATGAATTACTAAGTTTAAAGGTATATTGAAGG-TGCATTTTCGAATAA
* **
10434739 ACGCCTTCCATAACTATTGTGGTA
325 ACGCCTTCCATAACCATCATGGTA
*
10434763 TATTGAAGGCATGTCATAATAAAAGACACATTTAATAA-TCTAAAAAAAATTTTTTAGAAAAATT
1 TATTGAAGGCATTTCATAATAAAAGACACATTTAATAATTC-AAAAAAAA--TTTT-GAAAAATT
* * *
10434827 ATTAAAGGTGTTGTTATCTGCAACTGCCTTCACTAATTATATACAAATTATGATAGGAATTATTA
62 ATTAAAGGTGTTGTTATCTGCAACCGCCTTCACTAATTATATACAAACTATGATAGAAATTATTA
** * * * *
10434892 AAGGTGTATTTCTTGGATATACACCTTCAATAACCATGTTAAAATTTATGTGGCAGTATATAGAA
127 AA-G-ACATTT-TT--AT-TACACCTTCAATAACAATGTTAAAATTTATGTGACAGTATACAAAA
* * * *
10434957 GGTATTTTATAGTAGAAGATGCTTTTAATGA-TTCTCAAAATATTTAGT-AGAAAAATTTTGAAG
186 GATATTTTATAGTAAAAGATACTTTTAATAATTTCT-AAAATATTTAGTGAG-AAAATTTTGAAG
* ** * *
10435020 GTGTCTATTATTAACAAACGCCTTTAATAATGAATTACTAAGTTTAAAGGTATATTGAAGGTGCC
249 GCGTCTATTATTAACAAAAACCTTCAATAATGAATTACTAAGTTTAAAGGTATATTGAAGGTGCA
* *
10435085 TTTTCGAATAAATGCCTTTCATAACCATCATGGTA
314 TTTTCGAATAAACGCCTTCCATAACCATCATGGTA
* * ** *
10435120 TACTGAAGGCGTTTCATAATAAAAGATGCCTTTAATAATT
1 TATTGAAGGCATTTCATAATAAAAGACACATTTAATAATT
10435160 AGAAAAGCTT
Statistics
Matches: 336, Mismatches: 47, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
347 2 0.01
348 43 0.13
350 4 0.01
351 66 0.20
352 1 0.00
353 4 0.01
354 2 0.01
356 8 0.02
357 205 0.61
358 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (348 bp):
TATTGAAGGCATTTCATAATAAAAGACACATTTAATAATTCAAAAAAAATTTTGAAAAATTATTA
AAGGTGTTGTTATCTGCAACCGCCTTCACTAATTATATACAAACTATGATAGAAATTATTAAAGA
CATTTTTATTACACCTTCAATAACAATGTTAAAATTTATGTGACAGTATACAAAAGATATTTTAT
AGTAAAAGATACTTTTAATAATTTCTAAAATATTTAGTGAGAAAATTTTGAAGGCGTCTATTATT
AACAAAAACCTTCAATAATGAATTACTAAGTTTAAAGGTATATTGAAGGTGCATTTTCGAATAAA
CGCCTTCCATAACCATCATGGTA
Found at i:10435230 original size:23 final size:23
Alignment explanation
Indices: 10435204--10435253 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
10435194 TTAACGTAGA
* *
10435204 AAATGCTTTCACTAATTATGTAC
1 AAATGCCTTCACTAATTATCTAC
10435227 AAATGCCTTCACTAATTATCTAC
1 AAATGCCTTCACTAATTATCTAC
10435250 AAAT
1 AAAT
10435254 TGTGATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (23 bp):
AAATGCCTTCACTAATTATCTAC
Found at i:10442931 original size:17 final size:16
Alignment explanation
Indices: 10442892--10442932 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
10442882 GGTATTTTAA
10442892 AGATATAAATACTTTT
1 AGATATAAATACTTTT
10442908 A-ATATAATGATA-TTTT
1 AGATATAA--ATACTTTT
10442924 AGATATAAA
1 AGATATAAA
10442933 CACCGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.41
Consensus pattern (16 bp):
AGATATAAATACTTTT
Found at i:10443971 original size:15 final size:16
Alignment explanation
Indices: 10443946--10443975 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10443936 CCTAAAATTT
10443946 ATTTAAAATATAAAAA
1 ATTTAAAATATAAAAA
10443962 ATTT-AAATATAAAA
1 ATTTAAAATATAAAA
10443976 CTAAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTAAAATATAAAAA
Found at i:10451401 original size:21 final size:21
Alignment explanation
Indices: 10451358--10451426 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
10451348 AAATGTTTTA
* *
10451358 AAAAT-ATATAATTAAATGAAT
1 AAAATAATATAAATAAAAG-AT
10451379 AAAATAATATAAATAAAAGAT
1 AAAATAATATAAATAAAAGAT
* ** *
10451400 -AAATAAAATTCATAAAAAAT
1 AAAATAATATAAATAAAAGAT
10451420 AAAATAA
1 AAAATAA
10451427 AAGAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 16 0.40
21 13 0.32
22 11 0.28
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (21 bp):
AAAATAATATAAATAAAAGAT
Found at i:10452731 original size:17 final size:16
Alignment explanation
Indices: 10452699--10452747 Score: 71
Period size: 17 Copynumber: 3.0 Consensus size: 16
10452689 CGTGTCCTTA
*
10452699 GGATTTTTAGGATTTT
1 GGATTTTAAGGATTTT
10452715 GGATTTTAAGAGATTTT
1 GGATTTTAAG-GATTTT
*
10452732 GGATTTTAAGGGTTTT
1 GGATTTTAAGGATTTT
10452748 AGAAACCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (16 bp):
GGATTTTAAGGATTTT
Found at i:10457997 original size:20 final size:21
Alignment explanation
Indices: 10457969--10458009 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
10457959 AAAAACAAAT
10457969 AATGATTAAAAAT-ATATTAA
1 AATGATTAAAAATAATATTAA
*
10457989 AATGCTTAAAAATAATATTAA
1 AATGATTAAAAATAATATTAA
10458010 TAATTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
AATGATTAAAAATAATATTAA
Found at i:10458626 original size:142 final size:142
Alignment explanation
Indices: 10458459--10459025 Score: 1028
Period size: 142 Copynumber: 4.0 Consensus size: 142
10458449 TCGTAATTCA
10458459 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
10458524 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
10458589 TAAATTGCATTT
131 TAAATTGCATTT
10458601 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
*
10458666 CACCTAAGCTCTACCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
*
10458731 TAAATTGTATTT
131 TAAATTGCATTT
*
10458743 TATTAATAATAAGATTAATAAAAAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
*
10458808 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTTGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
10458873 TAAATTGCATTT
131 TAAATTGCATTT
* * *
10458885 CATTAATAATAATATTAATAAAT-AAAAATAATAATAAAATTAGGATCTTAAATATAAACAGTCG
1 TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
* * *
10458949 CACCTAAGCTCTGTCTAGATGTTGGAGAGTCGAGGTGGTCTCATTATATTTAAGAATCTAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
*
10459014 TAAATTACATTT
131 TAAATTGCATTT
10459026 CATTTTACAT
Statistics
Matches: 410, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
141 112 0.27
142 298 0.73
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (142 bp):
TATTAATAATAAGATTAATAAATAAAAAATAAAAATAAAATTAGGATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
TAAATTGCATTT
Found at i:10458914 original size:16 final size:16
Alignment explanation
Indices: 10458889--10458922 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10458879 GCATTTCATT
* *
10458889 AATAATAATATTAATA
1 AATAAAAATAATAATA
10458905 AATAAAAATAATAATA
1 AATAAAAATAATAATA
10458921 AA
1 AA
10458923 ATTAGGATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAAATAATAATA
Found at i:10459977 original size:13 final size:14
Alignment explanation
Indices: 10459953--10459983 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
10459943 ATTAAAAGAG
10459953 TTTTTTATTTATAA
1 TTTTTTATTTATAA
10459967 TTTTTTA-TTATAA
1 TTTTTTATTTATAA
10459980 TTTT
1 TTTT
10459984 ATAATTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTATTTATAA
Found at i:10460155 original size:16 final size:18
Alignment explanation
Indices: 10460136--10460177 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
10460126 TTCTAAGTTT
10460136 TTTTTTTTACAA-AA-AC
1 TTTTTTTTACAACAAGAC
*
10460152 TTTTTTTTACAACAAGTC
1 TTTTTTTTACAACAAGAC
10460170 TTTTTTTT
1 TTTTTTTT
10460178 TTTGTTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 9 0.39
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTTTTACAACAAGAC
Found at i:10460174 original size:19 final size:18
Alignment explanation
Indices: 10460130--10460178 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
10460120 GATTTTTTCT
*
10460130 AAGTTTTTTTTTTTACAA
1 AAGTCTTTTTTTTTACAA
*
10460148 AA-AC-TTTTTTTTACAA
1 AAGTCTTTTTTTTTACAA
10460164 CAAGTCTTTTTTTTT
1 -AAGTCTTTTTTTTT
10460179 TTGTTCTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 3 0.12
19 8 0.32
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.59
Consensus pattern (18 bp):
AAGTCTTTTTTTTTACAA
Found at i:10462499 original size:73 final size:73
Alignment explanation
Indices: 10462357--10462559 Score: 241
Period size: 73 Copynumber: 2.8 Consensus size: 73
10462347 ATGAAATCTA
* * * * * * * * *
10462357 ACTT-ATCTTCAAGGACAATAATTTCAAATGGATCGTGTAAATCATATAGATATATATTGCAGTT
1 ACTTGATCTTCAAGGACAATAATTT-AAATGAATCATATCAATCAAATAAATAAATATTACAGCT
10462421 GTTGACAGC
65 GTTGACAGC
* * *
10462430 AC-TGATCTTCAAGGACAATAATTTTAATGAATCATATCAATCAAATATATAAATGTTACAGCTG
1 ACTTGATCTTCAAGGACAATAATTTAAATGAATCATATCAATCAAATAAATAAATATTACAGCTG
10462494 TTTGACAGC
66 -TTGACAGC
* *
10462503 ACTTG-TCTTCAAGGACAATAATTTCATTGAATCATATCAATCAAATAAATAAATATT
1 ACTTGATCTTCAAGGACAATAATTTAAATGAATCATATCAATCAAATAAATAAATATT
10462560 GCAATTTTCG
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
72 30 0.27
73 80 0.71
74 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (73 bp):
ACTTGATCTTCAAGGACAATAATTTAAATGAATCATATCAATCAAATAAATAAATATTACAGCTG
TTGACAGC
Found at i:10463067 original size:22 final size:21
Alignment explanation
Indices: 10463041--10463089 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
10463031 TAAAATTTTT
10463041 TTATTTTTTGAA-TATTTAATA
1 TTATTTTTT-AATTATTTAATA
*
10463062 TATATTTTTTAATTTTTTAATA
1 T-TATTTTTTAATTATTTAATA
10463084 TTATTT
1 TTATTT
10463090 GATACTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTTTAATTATTTAATA
Found at i:10463071 original size:29 final size:28
Alignment explanation
Indices: 10463037--10463140 Score: 88
Period size: 29 Copynumber: 3.5 Consensus size: 28
10463027 TCAGTAAAAT
10463037 TTTTTTATTTTTTGAATATTTAATATATA
1 TTTTTTATTTTTT-AATATTTAATATATA
*
10463066 TTTTTTAATTTTTTAATA-TTATTTGATACTA
1 TTTTTT-ATTTTTTAATATTTA-AT-ATA-TA
*
10463097 TTTTTTATTTTTTTAAAAATTTAAT-TA-A
1 TTTTTTA-TTTTTT-AATATTTAATATATA
10463125 TTTTTTTATATTTTTA
1 -TTTTTTAT-TTTTTA
10463141 TCAAACCCAC
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
28 6 0.10
29 23 0.37
30 13 0.21
31 14 0.22
32 4 0.06
33 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTTTATTTTTTAATATTTAATATATA
Found at i:10463079 original size:31 final size:29
Alignment explanation
Indices: 10463035--10463140 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 29
10463025 TTTCAGTAAA
10463035 ATTTTTTTATTTTTTGAATATTTAATATAT
1 ATTTTTTTATTTTTT-AATATTTAATATAT
* *
10463065 ATTTTTTAATTTTTTAATA-TT-ATTTGAT
1 ATTTTTTTATTTTTTAATATTTAATAT-AT
*
10463093 ACTATTTTTTATTTTTTTAAAAATTTAAT-TA-
1 A-T-TTTTTTA-TTTTTT-AATATTTAATATAT
10463124 ATTTTTTTATATTTTTA
1 ATTTTTTTAT-TTTTTA
10463141 TCAAACCCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
27 3 0.05
28 7 0.11
29 17 0.27
30 21 0.33
31 7 0.11
32 4 0.06
33 3 0.05
34 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTTTTTATTTTTTAATATTTAATATAT
Found at i:10470144 original size:21 final size:21
Alignment explanation
Indices: 10470103--10470145 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10470093 TAATGTAGCC
*
10470103 GCTCAAAAATCTTCAATTGCT
1 GCTCAAAAATCTTCAACTGCT
*
10470124 GCTCAAAAATCTTCTACTGCT
1 GCTCAAAAATCTTCAACTGCT
10470145 G
1 G
10470146 GATGCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (21 bp):
GCTCAAAAATCTTCAACTGCT
Found at i:10472794 original size:16 final size:14
Alignment explanation
Indices: 10472763--10472792 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10472753 TCTCTTTTCT
10472763 AATATATTTTATAA
1 AATATATTTTATAA
10472777 AATATATTTTATAA
1 AATATATTTTATAA
10472791 AA
1 AA
10472793 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATATTTTATAA
Found at i:10472948 original size:17 final size:17
Alignment explanation
Indices: 10472915--10472947 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10472905 TATTATTATC
10472915 AATAAAAAACTAATTTT
1 AATAAAAAACTAATTTT
*
10472932 AATAGAAAA-TAATTTT
1 AATAAAAAACTAATTTT
10472948 TTTTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AATAAAAAACTAATTTT
Found at i:10480934 original size:16 final size:16
Alignment explanation
Indices: 10480915--10480948 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10480905 TATCGAAATG
10480915 AAATAATTA-ATTCAAT
1 AAATAATTATATT-AAT
10480931 AAATAATTATATTAAT
1 AAATAATTATATTAAT
10480947 AA
1 AA
10480949 CTTTGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATTATATTAAT
Found at i:10484000 original size:32 final size:30
Alignment explanation
Indices: 10483963--10484036 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 30
10483953 ATTGTTATAC
10483963 AAATATTAAATTTATAATTAATTTAATTTAAA
1 AAATATTAAATTT-TAATTAATTTAA-TTAAA
* ** *
10483995 TAATATTTTTATTTTAATTATTTTAATTAAA
1 AAATA-TTAAATTTTAATTAATTTAATTAAA
*
10484026 AAATATAAAAT
1 AAATATTAAAT
10484037 AAAAGTCGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
30 3 0.09
31 9 0.27
32 15 0.45
33 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATATTAAATTTTAATTAATTTAATTAAA
Found at i:10484198 original size:12 final size:12
Alignment explanation
Indices: 10484181--10484205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10484171 TTGCTATGCC
10484181 CAACAACAACTA
1 CAACAACAACTA
10484193 CAACAACAACTA
1 CAACAACAACTA
10484205 C
1 C
10484206 TTGCATCCCA
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:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (12 bp):
CAACAACAACTA
Found at i:10487955 original size:16 final size:16
Alignment explanation
Indices: 10487931--10487961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10487921 TCTTTCAGCT
*
10487931 CTGACTTTGACAAACA
1 CTGAATTTGACAAACA
10487947 CTGAATTTGACAAAC
1 CTGAATTTGACAAAC
10487962 TTGGTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (16 bp):
CTGAATTTGACAAACA
Found at i:10496414 original size:31 final size:31
Alignment explanation
Indices: 10496349--10496415 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 31
10496339 ATCAAATTTT
* *
10496349 AAAAATTTATAAAAAATATTTATTAAATGTAA
1 AAAAATTTATAAAAAATAATGA-TAAATGTAA
10496381 AAAAATTTGATAAAAAATAATGA-AAAT-TAA
1 AAAAATTT-ATAAAAAATAATGATAAATGTAA
10496411 AAAAA
1 AAAAA
10496416 AAACGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 8 0.25
31 4 0.12
32 8 0.25
33 12 0.38
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (31 bp):
AAAAATTTATAAAAAATAATGATAAATGTAA
Found at i:10499181 original size:16 final size:18
Alignment explanation
Indices: 10499160--10499193 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
10499150 TGTTACTTTA
10499160 TAAAAAAT-T-TTATAAT
1 TAAAAAATATATTATAAT
10499176 TAAAAAATATATTATAAT
1 TAAAAAATATATTATAAT
10499194 GAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAAATATATTATAAT
Found at i:10499962 original size:31 final size:31
Alignment explanation
Indices: 10499917--10499978 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
10499907 TATAATCTAA
* *
10499917 ATTTTATAACAAAGAATT-AGAGTTTATTTGT
1 ATTTTAAAACAAAG-ATTGAAAGTTTATTTGT
*
10499948 ATTTTAAAATAAAGATTGAAAGTTTATTTGT
1 ATTTTAAAACAAAGATTGAAAGTTTATTTGT
10499979 GTATTAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (31 bp):
ATTTTAAAACAAAGATTGAAAGTTTATTTGT
Found at i:10501218 original size:24 final size:23
Alignment explanation
Indices: 10501191--10501238 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
10501181 TAAATTAAAT
* *
10501191 AAAATCTTATTATAAAAATAATTA
1 AAAATATTATTAAAAAAAT-ATTA
*
10501215 AAAATATTTTTAAAAAAATATTA
1 AAAATATTATTAAAAAAATATTA
10501238 A
1 A
10501239 TTTAAAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTATTAAAAAAATATTA
Found at i:10501519 original size:32 final size:35
Alignment explanation
Indices: 10501482--10501545 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 35
10501472 AAATATGATT
* *
10501482 TAAAATTTTAACAATA-AT-TTAT-ATGAATTGAA
1 TAAAATTTAAAAAATATATATTATAATGAATTGAA
10501514 TAAAATTTAAAAAATATATATTATAATGAATT
1 TAAAATTTAAAAAATATATATTATAATGAATT
10501546 ATTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 14 0.52
33 2 0.07
34 4 0.15
35 7 0.26
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (35 bp):
TAAAATTTAAAAAATATATATTATAATGAATTGAA
Found at i:10502194 original size:12 final size:12
Alignment explanation
Indices: 10502129--10502194 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
10502119 ATATAAAATT
10502129 TTTAATTATT-TA
1 TTTAATT-TTATA
10502141 TTTAATTTTATA
1 TTTAATTTTATA
** *
10502153 ACTATTTTTATA
1 TTTAATTTTATA
**
10502165 TTTTTTTATATATA
1 TTTAATT-T-TATA
10502179 TTTAATTTTATA
1 TTTAATTTTATA
10502191 TTTA
1 TTTA
10502195 TATTAAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 2 0.05
12 30 0.70
13 2 0.05
14 9 0.21
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:10504696 original size:19 final size:19
Alignment explanation
Indices: 10504672--10504717 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10504662 AGAAAAAGAT
*
10504672 AAACAAAAAAAAGTTGAAA
1 AAACAAAAAAAAGTTAAAA
*
10504691 AAACAAAAAAGAGTTAAAA
1 AAACAAAAAAAAGTTAAAA
10504710 AAGACAAA
1 AA-ACAAA
10504718 TAAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (19 bp):
AAACAAAAAAAAGTTAAAA
Found at i:10504700 original size:18 final size:18
Alignment explanation
Indices: 10504672--10504723 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
10504662 AGAAAAAGAT
*
10504672 AAACAAAAAAAAGTTGAAA
1 AAAC-AAAAAAAGTTAAAA
10504691 AAACAAAAAAGAGTTAAAA
1 AAACAAAAAA-AGTTAAAA
*
10504710 AAGACAAATAAAGT
1 AA-ACAAAAAAAGT
10504724 AAATAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.21
19 16 0.55
20 7 0.24
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (18 bp):
AAACAAAAAAAGTTAAAA
Found at i:10506322 original size:19 final size:19
Alignment explanation
Indices: 10506284--10506322 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10506274 ATTTATCCTA
* **
10506284 TTTATTCTTTTTTATTATT
1 TTTATCCTTTTTTAAAATT
10506303 TTTATCCTTTTTTAAAATT
1 TTTATCCTTTTTTAAAATT
10506322 T
1 T
10506323 ATTTGTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATCCTTTTTTAAAATT
Found at i:10506675 original size:16 final size:17
Alignment explanation
Indices: 10506654--10506687 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10506644 GATCAGGGGA
10506654 AATTT-GTTTTTTAGGG
1 AATTTGGTTTTTTAGGG
10506670 AATTTGGTTTTTTAGGG
1 AATTTGGTTTTTTAGGG
10506687 A
1 A
10506688 GTTGGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (17 bp):
AATTTGGTTTTTTAGGG
Found at i:10506692 original size:16 final size:17
Alignment explanation
Indices: 10506659--10506692 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10506649 GGGGAAATTT
*
10506659 GTTTTTTAGGGAATTTG
1 GTTTTTTAGGGAAGTTG
10506676 GTTTTTTAGGG-AGTTG
1 GTTTTTTAGGGAAGTTG
10506692 G
1 G
10506693 ATTTGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (17 bp):
GTTTTTTAGGGAAGTTG
Found at i:10507160 original size:22 final size:22
Alignment explanation
Indices: 10507126--10507167 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10507116 CGTTCCGCAT
* * *
10507126 TTTTCCTTTTTTTTTTTTTTTC
1 TTTTACTTATTTTATTTTTTTC
10507148 TTTTACTTATTTTATTTTTT
1 TTTTACTTATTTTATTTTTT
10507168 ATGGATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTACTTATTTTATTTTTTTC
Found at i:10507195 original size:20 final size:21
Alignment explanation
Indices: 10507158--10507201 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
10507148 TTTTACTTAT
*
10507158 TTTATTTTTTATGGA-TTTTA
1 TTTATCTTTTATGGATTTTTA
**
10507178 TTTATCTTTTATTTATTTTTA
1 TTTATCTTTTATGGATTTTTA
10507199 TTT
1 TTT
10507202 TCGAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTATCTTTTATGGATTTTTA
Found at i:10507563 original size:37 final size:37
Alignment explanation
Indices: 10507522--10507593 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
10507512 ATATAATGAT
* *
10507522 AAGATTTTTAAAAATTTTAAACGATCAATTTTCTAGA
1 AAGATTTTTAAAAATTTCAAAAGATCAATTTTCTAGA
* * *
10507559 AAGATTTTTAGAAATTTCAAAATATCAGTTTTCTA
1 AAGATTTTTAAAAATTTCAAAAGATCAATTTTCTA
10507594 AAAAACCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (37 bp):
AAGATTTTTAAAAATTTCAAAAGATCAATTTTCTAGA
Found at i:10508004 original size:13 final size:12
Alignment explanation
Indices: 10507978--10508030 Score: 63
Period size: 12 Copynumber: 4.2 Consensus size: 12
10507968 TTTTAGATAT
10507978 ATTAAAAATAAA
1 ATTAAAAATAAA
10507990 ATTAAAAATATAA
1 ATTAAAAATA-AA
*
10508003 A-TAAATTATAAA
1 ATTAAA-AATAAA
10508015 ATTCAAAAATAAA
1 ATT-AAAAATAAA
10508028 ATT
1 ATT
10508031 TTTAATAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 17 0.49
13 15 0.43
14 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAAATAAA
Found at i:10509126 original size:2 final size:2
Alignment explanation
Indices: 10509119--10509154 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10509109 ATAACTACAA
10509119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10509155 TGAATAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10509463 original size:17 final size:18
Alignment explanation
Indices: 10509430--10509466 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10509420 TTTCTAGTAT
10509430 AAAATATAAAAGGAAATAA
1 AAAATATAAAA-GAAATAA
10509449 AAAATATAAAA-AAATAA
1 AAAATATAAAAGAAATAA
10509466 A
1 A
10509467 TTTGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAATATAAAAGAAATAA
Found at i:10511751 original size:20 final size:20
Alignment explanation
Indices: 10511713--10511751 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10511703 CATTAATCAA
* * *
10511713 AATTAAATAAATGTTATTAT
1 AATTAAAGAAATATAATTAT
10511733 AATTAAAGAAATATAATTA
1 AATTAAAGAAATATAATTA
10511752 GTTTAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AATTAAAGAAATATAATTAT
Found at i:10512123 original size:14 final size:15
Alignment explanation
Indices: 10512104--10512132 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10512094 TGTAATTTAG
10512104 TTTTATA-TTTAAAT
1 TTTTATATTTTAAAT
10512118 TTTTATATTTTAAAT
1 TTTTATATTTTAAAT
10512133 AAATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTATATTTTAAAT
Found at i:10512934 original size:174 final size:176
Alignment explanation
Indices: 10512634--10512958 Score: 512
Period size: 174 Copynumber: 1.9 Consensus size: 176
10512624 TTTTTGTTGT
* *
10512634 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAACGGAAAAATGATACAATTGACTTG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGG-AAAATGATACAATTGACATG
* * * *
10512699 GCGCAGAGGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTGTGGGACCATACGTG
65 GCACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGTG
*
10512764 TAATAAAGGACAAATCATACTACACTCTGTCTTATTAATACGCTTTG
130 TAATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
* * *
10512811 CTCTATCGTCACTGTAATATTAATGCCGTCCTGTGTAATAAAGG-AAATGATATCTA-TGACATG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATA-CAATTGACATG
*
10512874 GCACAGACGAAAG-TTTTGGATCTCATAATTTTGATCTTATTTTGCATTTATGGAACCATACGTG
65 GCACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGTG
10512938 TAATAAAGGAAAAATCATACT
130 TAATAAAGGAAAAATCATACT
10512959 GCATCTCTTG
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
174 68 0.50
175 25 0.18
176 2 0.01
177 41 0.30
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (176 bp):
CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATACAATTGACATGG
CACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGAACCATACGTGT
AATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
Found at i:10520962 original size:23 final size:23
Alignment explanation
Indices: 10520936--10520985 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
10520926 TTCTATCACA
* *
10520936 ATTTGTAGATAATTAGTGAAGGC
1 ATTTGTACATAATTAGTGAAAGC
10520959 ATTTGTACATAATTAGTGAAAGC
1 ATTTGTACATAATTAGTGAAAGC
10520982 ATTT
1 ATTT
10520986 TCTACGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATTTGTACATAATTAGTGAAAGC
Found at i:10526403 original size:15 final size:16
Alignment explanation
Indices: 10526383--10526412 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10526373 GTAATTTTAG
10526383 TTTTATA-TTTAAATT
1 TTTTATATTTTAAATT
10526398 TTTTATATTTTAAAT
1 TTTTATATTTTAAAT
10526413 AAATTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTAAATT
Found at i:10535736 original size:15 final size:16
Alignment explanation
Indices: 10535716--10535745 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10535706 GTAATTTTAG
10535716 TTTTATA-TTTAAATT
1 TTTTATATTTTAAATT
10535731 TTTTATATTTTAAAT
1 TTTTATATTTTAAAT
10535746 AAATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTAAATT
Found at i:10536555 original size:174 final size:175
Alignment explanation
Indices: 10536246--10536568 Score: 517
Period size: 174 Copynumber: 1.9 Consensus size: 175
10536236 TTTTTGTTGT
* *
10536246 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAACGGAAAATGATACAATTGACTTGG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATACAATTGACATGG
* * *
10536311 CGCAGAGGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTGTGGACCATACGTGTA
66 CACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGACCATACGTGTA
*
10536376 ATAAAGGACAAATCATACTACACTCTGTCTTATTAATACGCTTTG
131 ATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
* * *
10536421 CTCTATCGTCACTGTAATATTAATGCCGTCCTGTGTAATAAAGG-AAATGATATCTA-TGACATG
1 CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATA-CAATTGACATG
*
10536484 GCACAGACGAAAG-TTTTGGATCTCATAATTTTGATCTTATTTTGCATTTATGGAACCATACGTG
65 GCACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGG-ACCATACGTG
10536548 TAATAAAGGAAAAATCATACT
129 TAATAAAGGAAAAATCATACT
10536569 GCATCTCTTT
Statistics
Matches: 136, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
173 38 0.28
174 55 0.40
175 43 0.32
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (175 bp):
CTCTAACGTCACTGTAATATTAATGCCGTCCTGTGCAATAAAGGAAAATGATACAATTGACATGG
CACAGACGAAAGTTTTTGGATCTCATAATTTTGATCTTATCTTGCATTTATGGACCATACGTGTA
ATAAAGGAAAAATCATACTACACTCTGTCTTATTAATACGCTTTG
Found at i:10544570 original size:23 final size:23
Alignment explanation
Indices: 10544544--10544593 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
10544534 TTCTATCACA
* *
10544544 ATTTGTAGATAATTAGTGAAGGC
1 ATTTGTACATAATTAGTGAAAGC
10544567 ATTTGTACATAATTAGTGAAAGC
1 ATTTGTACATAATTAGTGAAAGC
10544590 ATTT
1 ATTT
10544594 TCTACGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATTTGTACATAATTAGTGAAAGC
Found at i:10550003 original size:15 final size:16
Alignment explanation
Indices: 10549983--10550012 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10549973 GTAATTTTAG
10549983 TTTTATA-TTTAAATT
1 TTTTATATTTTAAATT
10549998 TTTTATATTTTAAAT
1 TTTTATATTTTAAAT
10550013 AAATTTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTAAATT
Found at i:10553077 original size:21 final size:22
Alignment explanation
Indices: 10553037--10553082 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
10553027 TTTATTTTAA
10553037 TATTTTATTTTTAAAATATT-T
1 TATTTTATTTTTAAAATATTAT
*
10553058 TATTTTA-TTTTAAATTTATTAT
1 TATTTTATTTTTAAA-ATATTAT
10553080 TAT
1 TAT
10553083 ATAAATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 11 0.50
22 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTTTAAAATATTAT
Found at i:10553295 original size:18 final size:19
Alignment explanation
Indices: 10553272--10553307 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10553262 CTCTATGCCT
10553272 AATATTTTAAAAT-TTTAA
1 AATATTTTAAAATATTTAA
10553290 AATATTTTAAAATATTTA
1 AATATTTTAAAATATTTA
10553308 TTAGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTTTAAAATATTTAA
Found at i:10553298 original size:10 final size:10
Alignment explanation
Indices: 10553272--10553306 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10553262 CTCTATGCCT
10553272 AATATTTT-A
1 AATATTTTAA
10553281 AA-ATTTTAA
1 AATATTTTAA
10553290 AATATTTTAA
1 AATATTTTAA
10553300 AATATTT
1 AATATTT
10553307 ATTAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.21
9 5 0.21
10 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
AATATTTTAA
Found at i:10556451 original size:18 final size:17
Alignment explanation
Indices: 10556411--10556451 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10556401 CTCTTTTTTC
10556411 TTTTTTTTTGTTCTATA
1 TTTTTTTTTGTTCTATA
10556428 TATTTTTTCTT-TTCTAT-
1 T-TTTTTT-TTGTTCTATA
10556445 TTTTTTT
1 TTTTTTT
10556452 GCTAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 12 0.55
19 2 0.09
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTGTTCTATA
Found at i:10556546 original size:23 final size:24
Alignment explanation
Indices: 10556515--10556563 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
10556505 TATAAAGCTG
* *
10556515 TTTTGGGATTTAAATCCTA-AATT
1 TTTTAGGATTGAAATCCTAGAATT
10556538 TTTTAGGATTGAAATCCTAGAATT
1 TTTTAGGATTGAAATCCTAGAATT
10556562 TT
1 TT
10556564 AAACTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (24 bp):
TTTTAGGATTGAAATCCTAGAATT
Found at i:10558177 original size:51 final size:51
Alignment explanation
Indices: 10558101--10558220 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
10558091 AATTATTGTT
* *
10558101 ACAAGTGCTGTCAACAACAGCAATAATGCATTGAAATTATTGTCCTTGAAG
1 ACAAGTGCTGTCAACAACAGAAATAATGCATTGAAATTATTGTCCCTGAAG
* * *
10558152 ACAAGTGCTGTCAACAACAGAAATAATTCATTGACATTGTTGTCCCTGAAG
1 ACAAGTGCTGTCAACAACAGAAATAATGCATTGAAATTATTGTCCCTGAAG
*
10558203 ATAAGTGCTGTCAACAAC
1 ACAAGTGCTGTCAACAAC
10558221 TACAATATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (51 bp):
ACAAGTGCTGTCAACAACAGAAATAATGCATTGAAATTATTGTCCCTGAAG
Found at i:10558773 original size:13 final size:14
Alignment explanation
Indices: 10558751--10558779 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10558741 TAAAAGAGTA
10558751 TTTTATTTATAATT
1 TTTTATTTATAATT
10558765 TTTTA-TTATAATT
1 TTTTATTTATAATT
10558778 TT
1 TT
10558780 ATAATTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTTATAATT
Found at i:10559765 original size:14 final size:14
Alignment explanation
Indices: 10559695--10559766 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
10559685 ATTAATTTTT
* *
10559695 AATTTAATTATTTAA
1 AATTAAATTAATT-A
*
10559710 AATTAAATTAATCA
1 AATTAAATTAATTA
*
10559724 AATTATATTATATT-
1 AATTAAATTA-ATTA
**
10559738 AATTTTATTAATTA
1 AATTAAATTAATTA
*
10559752 AATTAAATTTATTA
1 AATTAAATTAATTA
10559766 A
1 A
10559767 TATAAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
13 3 0.07
14 31 0.67
15 12 0.26
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAAATTAATTA
Found at i:10559839 original size:18 final size:16
Alignment explanation
Indices: 10559808--10559842 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
10559798 GATTAATTTT
10559808 TAAAATAATTAAATAA
1 TAAAATAATTAAATAA
10559824 TAAAATATATTTAAATAA
1 TAAAATA-A-TTAAATAA
10559842 T
1 T
10559843 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAATAATTAAATAA
Found at i:10564760 original size:18 final size:18
Alignment explanation
Indices: 10564739--10564787 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
10564729 TGCATAATTA
10564739 TTATTATATTACT-TATTT
1 TTATTATATT-CTATATTT
10564757 TTATTATTATTCTCATATTT
1 TTATTA-TATTCT-ATATTT
10564777 TTATATATATT
1 TTAT-TATATT
10564788 TTTAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.30
19 4 0.15
20 13 0.48
21 2 0.07
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTATATTCTATATTT
Found at i:10568242 original size:7 final size:8
Alignment explanation
Indices: 10568215--10568243 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10568205 TAGGTTGACC
10568215 AAATTTGA
1 AAATTTGA
10568223 AAATTTGA
1 AAATTTGA
10568231 AAATTT-A
1 AAATTTGA
10568238 AAATTT
1 AAATTT
10568244 TTTCTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (8 bp):
AAATTTGA
Found at i:10572646 original size:22 final size:23
Alignment explanation
Indices: 10572620--10572665 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10572610 AAAAAATTTC
*
10572620 TTTTATAAATA-AATTATGTAAT
1 TTTTATAAATATAATTATGGAAT
*
10572642 TTTTATAATTATAATTATGGAAT
1 TTTTATAAATATAATTATGGAAT
10572665 T
1 T
10572666 AAGGACTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
TTTTATAAATATAATTATGGAAT
Found at i:10574908 original size:15 final size:15
Alignment explanation
Indices: 10574861--10574912 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
10574851 ACAAAAATTA
10574861 AATTTATAATTAATTTT
1 AATTT-TAATT-ATTTT
*
10574878 -ATTTAAATAATATTTT
1 AATTTTAAT--TATTTT
10574894 AATTTTAATTATTTT
1 AATTTTAATTATTTT
10574909 AATT
1 AATT
10574913 AAAAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 13 0.43
16 9 0.30
17 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTAATTATTTT
Found at i:10576559 original size:126 final size:126
Alignment explanation
Indices: 10576334--10576586 Score: 488
Period size: 126 Copynumber: 2.0 Consensus size: 126
10576324 TATTGCTGCT
10576334 TCTGATAATAGAATGCTATGGCGAGAGAAGATGAAGAATATGAAGATGAGATTCTTGAAGAGCAT
1 TCTGATAATAGAATGCTATGGCGAGAGAAGATGAAGAATATGAAGATGAGATTCTTGAAGAGCAT
* *
10576399 CAAGGCAATCCTTCAACTTCCAACACCCAAGTAAGTCAATATCCTATGAATCTACCTTTCA
66 CAAGGCAATCCTTCAACTTCCAACACCCAAGTAAGCCAATATCCTAGGAATCTACCTTTCA
10576460 TCTGATAATAGAATGCTATGGCGAGAGAAGATGAAGAATATGAAGATGAGATTCTTGAAGAGCAT
1 TCTGATAATAGAATGCTATGGCGAGAGAAGATGAAGAATATGAAGATGAGATTCTTGAAGAGCAT
10576525 CAAGGCAATCCTTCAACTTCCAACACCCAAGTAAGCCAATATCCTAGGAATCTACCTTTCA
66 CAAGGCAATCCTTCAACTTCCAACACCCAAGTAAGCCAATATCCTAGGAATCTACCTTTCA
10576586 T
1 T
10576587 ATATATTACA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (126 bp):
TCTGATAATAGAATGCTATGGCGAGAGAAGATGAAGAATATGAAGATGAGATTCTTGAAGAGCAT
CAAGGCAATCCTTCAACTTCCAACACCCAAGTAAGCCAATATCCTAGGAATCTACCTTTCA
Found at i:10577829 original size:10 final size:9
Alignment explanation
Indices: 10577802--10577828 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10577792 CGATAAGGTG
10577802 ATTTTTTTT
1 ATTTTTTTT
10577811 ATTTTTTTT
1 ATTTTTTTT
10577820 ATTTTTTTT
1 ATTTTTTTT
10577829 TTGGTCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:10583723 original size:20 final size:19
Alignment explanation
Indices: 10583685--10583723 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10583675 ATTTCGTGAT
* *
10583685 ATAAAATAAAATGATAATA
1 ATAAAAAAAAATGAGAATA
10583704 ATAAAAAAAAATAGAGAATA
1 ATAAAAAAAAAT-GAGAATA
10583724 TACTTAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
ATAAAAAAAAATGAGAATA
Found at i:10600229 original size:31 final size:31
Alignment explanation
Indices: 10600179--10600244 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
10600169 AAGAACATTT
*
10600179 TCTAATGAGTAGGACAACAACTAGAAAAATG
1 TCTAATAAGTAGGACAACAACTAGAAAAATG
* *
10600210 TCTAATAAGTGGGATAACAACTAGAAAAATG
1 TCTAATAAGTAGGACAACAACTAGAAAAATG
10600241 TCTA
1 TCTA
10600245 CATGATGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (31 bp):
TCTAATAAGTAGGACAACAACTAGAAAAATG
Found at i:10603481 original size:23 final size:24
Alignment explanation
Indices: 10603457--10603503 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10603447 TAGGTGTAAA
10603457 TTATACATTTTTTTAAATATCAAT
1 TTATACATTTTTTTAAATATCAAT
* * *
10603481 TTGTATATTTTTTTAAATTTCAA
1 TTATACATTTTTTTAAATATCAA
10603504 ATACAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATACATTTTTTTAAATATCAAT
Found at i:10608059 original size:22 final size:22
Alignment explanation
Indices: 10608034--10608075 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10608024 TCCTTTTTTT
*
10608034 TTTTGTTTTCTGCAATTTTTGC
1 TTTTATTTTCTGCAATTTTTGC
* *
10608056 TTTTATTTTTTGTAATTTTT
1 TTTTATTTTCTGCAATTTTT
10608076 TGTTGAGTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (22 bp):
TTTTATTTTCTGCAATTTTTGC
Found at i:10610615 original size:18 final size:18
Alignment explanation
Indices: 10610568--10610616 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
10610558 TTTCTTTTAA
10610568 AATATATATAAAAATATGAG
1 AATATA-ATAAAAATA-GAG
10610588 AATAATAATAAAAATA-AG
1 AAT-ATAATAAAAATAGAG
10610606 TAATATAATAA
1 -AATATAATAA
10610617 TAATTATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.33
19 3 0.11
20 12 0.44
21 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AATATAATAAAAATAGAG
Found at i:10616041 original size:15 final size:15
Alignment explanation
Indices: 10616021--10616064 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
10616011 TTAAAAATTT
10616021 ATTTTAAATATAAAA
1 ATTTTAAATATAAAA
*
10616036 ATTTTAAATTTTAAAA
1 ATTTTAAA-TATAAAA
*
10616052 TTGTTTAAATATA
1 AT-TTTAAATATA
10616065 TTTTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATTTTAAATATAAAA
Found at i:10616148 original size:9 final size:9
Alignment explanation
Indices: 10616136--10616183 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
10616126 ATTAATAAAT
10616136 TTAATTTAA
1 TTAATTTAA
**
10616145 TTAATAAAA
1 TTAATTTAA
*
10616154 TTAATATAA
1 TTAATTTAA
*
10616163 TATAATTTGA
1 T-TAATTTAA
10616173 TTAATTTAA
1 TTAATTTAA
10616182 TT
1 TT
10616184 TTAAATAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (9 bp):
TTAATTTAA
Found at i:10616149 original size:18 final size:18
Alignment explanation
Indices: 10616121--10616183 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
10616111 AGTTAAATTT
*
10616121 TTTATATTAATAAATTTAA
1 TTTA-ATTAATAAAATTAA
10616140 TTTAATTAATAAAATTAA
1 TTTAATTAATAAAATTAA
* ***
10616158 TATAATATAATTTGATTAA
1 TTTAAT-TAATAAAATTAA
10616177 TTTAATT
1 TTTAATT
10616184 TTAAATAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 19 0.51
19 18 0.49
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATTAATAAAATTAA
Found at i:10616462 original size:19 final size:22
Alignment explanation
Indices: 10616420--10616462 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 22
10616410 TAAACGCTTT
*
10616420 TTTTCTTTTTCTTGCTTGATAA
1 TTTTCTTTTTCTTGCTTGAAAA
10616442 TTTT-TTTTT-TTGC-TGAAAA
1 TTTTCTTTTTCTTGCTTGAAAA
10616461 TT
1 TT
10616463 GTATGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 5 0.25
22 4 0.20
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (22 bp):
TTTTCTTTTTCTTGCTTGAAAA
Found at i:10616986 original size:13 final size:14
Alignment explanation
Indices: 10616968--10616996 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10616958 AAGTAATTAT
10616968 AAAATTAT-AATAA
1 AAAATTATAAATAA
10616981 AAAATTATAAATAA
1 AAAATTATAAATAA
10616995 AA
1 AA
10616997 TACTCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTATAAATAA
Found at i:10617596 original size:45 final size:44
Alignment explanation
Indices: 10617532--10617618 Score: 156
Period size: 45 Copynumber: 2.0 Consensus size: 44
10617522 TTGTAGTTGT
10617532 TGACAGCACTTATCTTCAAGGACAATAATTTCAATGAATTATTTC
1 TGACAGCACTTATCTTCAAGGACAATAATTTCAATG-ATTATTTC
*
10617577 TGACAGCACTTGTCTTCAAGGACAATAATTTCAATGATTATT
1 TGACAGCACTTATCTTCAAGGACAATAATTTCAATGATTATT
10617619 GCTGTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 6 0.15
45 35 0.85
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (44 bp):
TGACAGCACTTATCTTCAAGGACAATAATTTCAATGATTATTTC
Found at i:10618668 original size:19 final size:19
Alignment explanation
Indices: 10618626--10618675 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
10618616 ATCATAATAA
***
10618626 ATTAAAAATAAAATATTTT
1 ATTAAAAATAAAATAAAAT
*
10618645 TTTAAAAATAAAATAAAAT
1 ATTAAAAATAAAATAAAAT
10618664 ATT-AAAATAAAA
1 ATTAAAAATAAAA
10618676 ATTTGCATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAAAATAAAATAAAAT
Found at i:10630370 original size:427 final size:427
Alignment explanation
Indices: 10629053--10631183 Score: 4098
Period size: 428 Copynumber: 5.0 Consensus size: 427
10629043 TTTTTTATTT
10629053 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10629118 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10629183 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
131 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
10629248 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
196 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
10629313 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
261 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
10629378 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
326 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
10629443 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
391 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
10629480 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTT-AAAA
10629545 AAAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATT
65 AAAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATT
10629610 AAAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
130 AAAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
10629675 CCCACAATCCTTACTGCTTACTATTACAACCCAAAACTC-AAAAAAAAAAAAAAAGTCATTGTGG
195 CCCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGG
* *
10629739 TAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAAT--AAAATAATGATAAGAATTCGCGAACC
260 TAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACT
10629802 TTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATT
325 TTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATT
10629867 TTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
390 TTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
10629905 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10629970 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10630035 AAATGACTTGGT-AAAACAAATAGTAAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
131 AAATGACTTGGTAAAAACAAATAGT-AAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
10630099 -CCACAATCCTTACTGCTTACTATTACAACCCAAAAACTCAAAAAAAAAAAAAAAAAGTCATTGT
195 CCCACAATCCTTACTGCTTACTATTACAACCC-AAAACTC-AAAAAAAAAAAAAAAAGTCATTGT
10630163 GGTAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAA
258 GGTAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAA
10630228 CTTTTTTTCCTTTTCTTCGAACCCC-TACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATA
323 CTTTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATA
10630292 TTTTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
388 TTTTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
10630332 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTT-AAAA
10630397 AAAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATT
65 AAAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATT
10630462 AAAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
130 AAAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
10630527 CCCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGG
195 CCCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGG
* *
10630592 TAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCGAACC
260 TAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACT
10630657 TTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGGTATGGTTTATA
325 TTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCC-GTATGG-TTATA
10630722 TTTTA-TTTAAGAAATTTTCTTTTTCCTCCTTCACCTGAAA
388 TTTTATTTTAAGAAA-TTTCTTTTTCCTCCTTCACCTGAAA
10630762 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10630827 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10630892 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
131 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
10630957 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTC-AAAAAAAAAAAAAAAGTCATTGTGGT
196 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
10631021 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
261 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
10631086 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
326 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
10631151 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCT
391 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCT
10631184 CTTTGAAAAA
Statistics
Matches: 1681, Mismatches: 8, Indels: 31
0.98 0.00 0.02
Matches are distributed among these distances:
423 43 0.03
424 128 0.08
425 187 0.11
426 93 0.06
427 388 0.23
428 516 0.31
429 231 0.14
430 95 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (427 bp):
TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAA
Found at i:10630726 original size:852 final size:853
Alignment explanation
Indices: 10629053--10631183 Score: 4132
Period size: 852 Copynumber: 2.5 Consensus size: 853
10629043 TTTTTTATTT
10629053 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10629118 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10629183 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
131 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
10629248 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
196 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
10629313 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
261 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
10629378 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
326 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
10629443 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAATTTAACTTTAATATCAGTACATACAATT
391 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAATTTAACTTTAATATCAGTACATACAATT
10629508 ATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAAAAAAAATTGTATTGAAAGGAGATTTACC
456 ATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAAAAAAAATTGTATTGAAAGGAGATTTACC
10629573 CAATAACATATCTATATTTTAAGCAACCGATTCAATTAAAATGACTTGGTAAAAACAAATAGTAA
521 CAATAACATATCTATATTTTAAGCAACCGATTCAATTAAAATGACTTGGTAAAAACAAATAGTAA
10629638 AAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATCCCACAATCCTTACTGCTTACTATTACA
586 AAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATCCCACAATCCTTACTGCTTACTATTACA
10629703 ACCCAAAACTCAAAAAAAAAAAAAAAGTCATTGTGGTAAATTTAATTTCAAAGGAAGGGTAGTCT
651 ACCCAAAACTCAAAAAAAAAAAAAAAGTCATTGTGGTAAATTTAATTTCAAAGGAAGGGTAGTCT
10629768 GGTAAAATAAAATAATGATAAGAATTCGCGAACCTTTTTTCCTTTTCTTCGAACCCCTTACTTTG
716 GGTAAAATAAAATAATGATAAGAATTCGCGAACCTTTTTTCCTTTTCTTCGAACCCCTTACTTTG
10629833 AAATCTGAACACAGGTTGGCCGTATGGTTATATT-TTATTTTAAGAAA-TTTCTTTTTCCTCCTT
781 AAATCTGAACACAGGTTGGCCGTATGGTTATATTATTA-TTTAAGAAATTTTCTTTTTCCTCCTT
10629896 CACCTGAAA
845 CACCTGAAA
10629905 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10629970 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10630035 AAATGACTTGGT-AAAACAAATAGTAAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
131 AAATGACTTGGTAAAAACAAATAGT-AAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAAT
10630099 -CCACAATCCTTACTGCTTACTATTACAACCCAAAAACTCAAAAAAAAAAAAAAAAAGTCATTGT
195 CCCACAATCCTTACTGCTTACTATTACAACCC-AAAACTC-AAAAAAAAAAAAAAAAGTCATTGT
10630163 GGTAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAA
258 GGTAAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAA
10630228 CTTTTTTTCCTTTTCTTCGAACCCC-TACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATA
323 CTTTTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATA
10630292 TTTTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAATTTAACTTTAATATCAGTACATACA
388 TTTTATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAATTTAACTTTAATATCAGTACATACA
10630357 ATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAAAAAAAATTGTATTGAAAGGAGATTT
453 ATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAAAAAAAATTGTATTGAAAGGAGATTT
10630422 ACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTAAAATGACTTGGTAAAAACAAATAG
518 ACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTAAAATGACTTGGTAAAAACAAATAG
10630487 TAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATCCCACAATCCTTACTGCTTACTATT
583 TAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATCCCACAATCCTTACTGCTTACTATT
10630552 ACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGTAAATTTAATTTCAAAGGAAGGGTA
648 ACAACCCAAAACTC-AAAAAAAAAAAAAAAGTCATTGTGGTAAATTTAATTTCAAAGGAAGGGTA
10630617 GTCTGGTAAAATAAAAAATAATGATAAGAATTCGCGAACCTTTTTTCCTTTTCTTCGAACCCCTT
712 GTCTGGTAAAAT--AAAATAATGATAAGAATTCGCGAACCTTTTTTCCTTTTCTTCGAACCCCTT
10630682 ACTTTGAAATCTGAACACAGGTTGGCCGGTATGGTTTATATT-TTATTTAAGAAATTTTCTTTTT
775 ACTTTGAAATCTGAACACAGGTTGGCC-GTATGG-TTATATTATTATTTAAGAAATTTTCTTTTT
10630746 CCTCCTTCACCTGAAA
838 CCTCCTTCACCTGAAA
10630762 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
1 TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
10630827 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
66 AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
10630892 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
131 AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
10630957 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTC-AAAAAAAAAAAAAAAGTCATTGTGGT
196 CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
10631021 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
261 AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
10631086 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
326 TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
10631151 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCT
391 TATTTTAAGAAATTTCTTTTTCCTCCTTCACCT
10631184 CTTTGAAAAA
Statistics
Matches: 1267, Mismatches: 0, Indels: 20
0.98 0.00 0.02
Matches are distributed among these distances:
851 43 0.03
852 501 0.40
853 176 0.14
855 191 0.15
856 90 0.07
857 223 0.18
858 43 0.03
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (853 bp):
TTTAACTTTAATATCAGTACATACAATTATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAA
AAAAATTGTATTGAAAGGAGATTTACCCAATAACATATCTATATTTTAAGCAACCGATTCAATTA
AAATGACTTGGTAAAAACAAATAGTAAAAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATC
CCACAATCCTTACTGCTTACTATTACAACCCAAAACTCAAAAAAAAAAAAAAAAGTCATTGTGGT
AAATTTAATTTCAAAGGAAGGGTAGTCTGGTAAAATAAAAAATAATGATAAGAATTCGCTAACTT
TTTTTCCTTTTCTTCGAACCCCTTACTTTGAAATCTGAACACAGGTTGGCCGTATGGTTATATTT
TATTTTAAGAAATTTCTTTTTCCTCCTTCACCTGAAATTTAACTTTAATATCAGTACATACAATT
ATTTCTTTTATTTTTTTCTCAAATTGTGATTTAAAAAAAAAAATTGTATTGAAAGGAGATTTACC
CAATAACATATCTATATTTTAAGCAACCGATTCAATTAAAATGACTTGGTAAAAACAAATAGTAA
AAAAACCTCTGGCCTGGTTTGGGTTAGAAAGTGCAATCCCACAATCCTTACTGCTTACTATTACA
ACCCAAAACTCAAAAAAAAAAAAAAAGTCATTGTGGTAAATTTAATTTCAAAGGAAGGGTAGTCT
GGTAAAATAAAATAATGATAAGAATTCGCGAACCTTTTTTCCTTTTCTTCGAACCCCTTACTTTG
AAATCTGAACACAGGTTGGCCGTATGGTTATATTATTATTTAAGAAATTTTCTTTTTCCTCCTTC
ACCTGAAA
Found at i:10640084 original size:34 final size:34
Alignment explanation
Indices: 10640021--10640086 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
10640011 GCCCATAGTT
* *
10640021 AGATTGACTTGCGTGTGATATCACGAACTTAACA
1 AGATTGACTTGAGTGTGATATCACAAACTTAACA
* * *
10640055 AGATTTACTTGAGTGTGATGTCATAAACTTAA
1 AGATTGACTTGAGTGTGATATCACAAACTTAA
10640087 TAATTGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (34 bp):
AGATTGACTTGAGTGTGATATCACAAACTTAACA
Found at i:10648184 original size:16 final size:16
Alignment explanation
Indices: 10648165--10648198 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10648155 TATCGAAATG
10648165 AAATAATTA-ATTCAAT
1 AAATAATTATATT-AAT
10648181 AAATAATTATATTAAT
1 AAATAATTATATTAAT
10648197 AA
1 AA
10648199 CTTTGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATTATATTAAT
Found at i:10654384 original size:3 final size:3
Alignment explanation
Indices: 10654376--10654489 Score: 52
Period size: 3 Copynumber: 40.7 Consensus size: 3
10654366 TAGTTTTAAT
* * * * *
10654376 TTA TTA TTA TTT TTT TTA TT- TTT TTT TTCA TTA TT- TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
*
10654419 TT- TTCA TTA TT- TT- TTA TTA TT- TTA TTA TT- TTC TTA TT- TTCA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
10654460 TTA TT- TTA TTT TTA TT- TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10654490 TATTTTTTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
2 22 0.24
3 62 0.69
4 6 0.07
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (3 bp):
TTA
Found at i:10654391 original size:19 final size:20
Alignment explanation
Indices: 10654349--10654490 Score: 111
Period size: 20 Copynumber: 7.2 Consensus size: 20
10654339 TTTTTGTTTA
10654349 ATTTTTAATTTTA--ATT-TT
1 ATTTTT-ATTTTATTATTATT
* *
10654367 AGTTTTAATTTATTATTATT
1 ATTTTTATTTTATTATTATT
* * *
10654387 TTTTTTATTTTTTTTTTCATT
1 ATTTTTATTTTATTATT-ATT
10654408 ATTTTT-TTTTATT-TTCATT
1 ATTTTTATTTTATTATT-ATT
10654427 ATTTTTTATTATT-TTATTATT
1 A-TTTTTATT-TTATTATTATT
*
10654448 -TTCTTATTTTCATTATT-TT
1 ATTTTTATTTT-ATTATTATT
*
10654467 ATTTTTATTTTATTATTTTT
1 ATTTTTATTTTATTATTATT
10654487 ATTT
1 ATTT
10654491 ATTTTTTTTG
Statistics
Matches: 101, Mismatches: 11, Indels: 22
0.75 0.08 0.16
Matches are distributed among these distances:
17 5 0.05
18 7 0.07
19 25 0.25
20 45 0.45
21 15 0.15
22 4 0.04
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (20 bp):
ATTTTTATTTTATTATTATT
Found at i:10654391 original size:25 final size:25
Alignment explanation
Indices: 10654363--10654496 Score: 91
Period size: 26 Copynumber: 5.4 Consensus size: 25
10654353 TTAATTTTAA
*
10654363 TTTTAGTTTTAATTTATTATTATTTT
1 TTTTATTTTTAATTTATTATTA-TTT
**
10654389 TTTTATTTTTTTTTTCATTATT-TTT
1 TTTTATTTTTAATTT-ATTATTATTT
* *
10654414 TTTTATTTTCATTATTTTTTATTATTT
1 TTTTATTTT--TAATTTATTATTATTT
* * *
10654441 TATTA-TTTT--CTTATT-TTCATTA
1 TTTTATTTTTAATTTATTATT-ATTT
*
10654463 TTTTATTTTTATTTTATTATT-TTT
1 TTTTATTTTTAATTTATTATTATTT
*
10654487 ATTTATTTTT
1 TTTTATTTTT
10654497 TTTGGTCCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.02
22 11 0.13
23 4 0.05
24 12 0.14
25 17 0.20
26 22 0.26
27 18 0.21
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTTATTTTTAATTTATTATTATTT
Found at i:10654482 original size:54 final size:52
Alignment explanation
Indices: 10654356--10654495 Score: 171
Period size: 54 Copynumber: 2.7 Consensus size: 52
10654346 TTAATTTTTA
* * *
10654356 ATTTTAATTTTAGTTTTA--ATTTATTATTATTTTTTTTATTTTTTTTTTCATT
1 ATTTTATTTTTA-TTTTATTATTTTTTATTA-TTTTATTATTTTTTTTTTCATT
10654408 ATTTT-TTTTTATTTTCATTATTTTTTATTATTTTATTATTTTCTTATTTTCATT
1 ATTTTATTTTTATTTT-ATTATTTTTTATTATTTTATTATTTT-TT-TTTTCATT
10654462 ATTTTATTTTTATTTTATTA-TTTTTATTTATTTT
1 ATTTTATTTTTATTTTATTATTTTTTA-TTATTTT
10654496 TTTTGGTCCG
Statistics
Matches: 78, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
50 4 0.05
51 6 0.08
52 16 0.21
53 18 0.23
54 24 0.31
55 10 0.13
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (52 bp):
ATTTTATTTTTATTTTATTATTTTTTATTATTTTATTATTTTTTTTTTCATT
Found at i:10654496 original size:19 final size:19
Alignment explanation
Indices: 10654369--10654496 Score: 104
Period size: 19 Copynumber: 6.8 Consensus size: 19
10654359 TTAATTTTAG
* * *
10654369 TTTTAATTTATTATTATTT
1 TTTTTATTTATTTTTATTA
*
10654388 TTTTTATTTTTTTTTTCATTA
1 TTTTTA-TTTATTTTT-ATTA
* *
10654409 TTTTTTTTTATTTTCATTA
1 TTTTTATTTATTTTTATTA
10654428 TTTTT-TATTA-TTTTATTA
1 TTTTTAT-TTATTTTTATTA
* *
10654446 -TTTT-CTTATTTTCATTA
1 TTTTTATTTATTTTTATTA
*
10654463 -TTTTATTTTTATTTTATTA
1 TTTTTATTTAT-TTTTATTA
10654482 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
10654497 TTTGGTCCGA
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
16 3 0.03
17 15 0.17
18 11 0.12
19 28 0.32
20 23 0.26
21 8 0.09
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTATTTATTTTTATTA
Done.