Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 54 of 109
Found at i:10599023 original size:21 final size:21
Alignment explanation
Indices: 10598993--10599061 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
10598983 AGAATAAACT
*
10598993 TGCTGAAGGAAACCAGTAGTC
1 TGCTGCAGGAAACCAGTAGTC
*
10599014 TGCTGCAGGAAACCAGCAGTC
1 TGCTGCAGGAAACCAGTAGTC
10599035 TGCTGCAGGAAACCAGTAGTC
1 TGCTGCAGGAAACCAGTAGTC
10599056 TGCTGC
1 TGCTGC
10599062 TGTCTTTGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.19
Consensus pattern (21 bp):
TGCTGCAGGAAACCAGTAGTC
Found at i:10600534 original size:13 final size:13
Alignment explanation
Indices: 10600516--10600556 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10600506 TTTAAATTTT
*
10600516 TTATTTTTATATA
1 TTATTTTAATATA
10600529 TTATTTTAATATA
1 TTATTTTAATATA
**
10600542 AAATTTTAATATA
1 TTATTTTAATATA
10600555 TT
1 TT
10600557 TAAATAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:10600579 original size:22 final size:22
Alignment explanation
Indices: 10600533--10600580 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
10600523 TATATATTAT
*
10600533 TTTAATATAAAATTTTAATATA
1 TTTAATATAAAATTTTAATAAA
10600555 TTTAA-AT-AAATTTTGATATAAA
1 TTTAATATAAAATTTT-A-ATAAA
10600577 TTTA
1 TTTA
10600581 TTATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 3 0.13
22 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAATATAAAATTTTAATAAA
Found at i:10602367 original size:187 final size:188
Alignment explanation
Indices: 10602039--10602407 Score: 614
Period size: 187 Copynumber: 2.0 Consensus size: 188
10602029 GGGTTGTTTG
* * * * *
10602039 GGGTATTAAAAGTTTAAATTTTTTAGTTGTGGCATATGAATAATTTAGTTATATAAGCCAAAGAG
1 GGGTAATAAAAGTTTAAATTTCTTAGCTGTGGCATATGAATAATTTAGGTATAGAAGCCAAAGAG
* * *
10602104 AGTGTTGGGAAAGATCTTAGATTCTGTAAAAATCATGACTTTTTTGTTTAAATTTTGTATTTTTA
66 AGTGTTGGGAAAGATCTTAGATTCTGTAAAAATCATGACTTTTATGTTTAAAGTTTCTATTTTTA
* *
10602169 TGTTCTCTATGGCTGTTTAGCGAAAAGGGTATTTGAAAGTAATGAATTTTGGTGAGAA
131 TGTTCTCTATGGCTGTTTAGCAAAAAGGGTATTTGAAAGTAATGAATGTTGGTGAGAA
*
10602227 GGGTAATAAAA-TTTAAATTTCTTAGCTGTGGCATATGAATAATTTAGGTATAGGAGCCAAAGAG
1 GGGTAATAAAAGTTTAAATTTCTTAGCTGTGGCATATGAATAATTTAGGTATAGAAGCCAAAGAG
*
10602291 AGTGTTGGGAAAGATTTTAGATTCTGTAAAAATCATGACTTTTATGTTTAAAGTTTCTATTTTTA
66 AGTGTTGGGAAAGATCTTAGATTCTGTAAAAATCATGACTTTTATGTTTAAAGTTTCTATTTTTA
*
10602356 TGTTTTCTATGGCTGTTTAGCAAAAAGGGTATTTGAAAGTAATGAATGTTGG
131 TGTTCTCTATGGCTGTTTAGCAAAAAGGGTATTTGAAAGTAATGAATGTTGG
10602408 CTGTTGGGTA
Statistics
Matches: 168, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
187 158 0.94
188 10 0.06
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (188 bp):
GGGTAATAAAAGTTTAAATTTCTTAGCTGTGGCATATGAATAATTTAGGTATAGAAGCCAAAGAG
AGTGTTGGGAAAGATCTTAGATTCTGTAAAAATCATGACTTTTATGTTTAAAGTTTCTATTTTTA
TGTTCTCTATGGCTGTTTAGCAAAAAGGGTATTTGAAAGTAATGAATGTTGGTGAGAA
Found at i:10604984 original size:37 final size:37
Alignment explanation
Indices: 10604878--10604985 Score: 96
Period size: 36 Copynumber: 2.9 Consensus size: 37
10604868 TTACGGTATG
* *
10604878 GTGATATTATATAAAAATATTACGAATAAAAGATATA
1 GTGATATTATATAAAAATAATACGAATAAAAGATACA
* * * * ***
10604915 --AAAATAATATAATTTAA-AATTTTAATAAAAGATACA
1 GTGATATTATATAA--AAATAATACGAATAAAAGATACA
10604951 GTGATATTATATAAAAATAATACGAATAAAAGATA
1 GTGATATTATATAAAAATAATACGAATAAAAGATA
10604986 TGGAGATGAT
Statistics
Matches: 50, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
35 9 0.18
36 16 0.32
37 16 0.32
38 9 0.18
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (37 bp):
GTGATATTATATAAAAATAATACGAATAAAAGATACA
Found at i:10604998 original size:73 final size:73
Alignment explanation
Indices: 10604878--10605017 Score: 235
Period size: 73 Copynumber: 1.9 Consensus size: 73
10604868 TTACGGTATG
*
10604878 GTGATATTATATAAAAATATTACGAATAAAAGATATAAAAATAATATAATTTAAAATTTTAATAA
1 GTGATATTATATAAAAATAATACGAATAAAAGATATAAAAATAATATAATTTAAAATTTTAATAA
10604943 AAGATACA
66 AAGATACA
** * *
10604951 GTGATATTATATAAAAATAATACGAATAAAAGATATGGAGATGATATAATTTAAAATTTTAATAA
1 GTGATATTATATAAAAATAATACGAATAAAAGATATAAAAATAATATAATTTAAAATTTTAATAA
10605016 AA
66 AA
10605018 ATTATAAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (73 bp):
GTGATATTATATAAAAATAATACGAATAAAAGATATAAAAATAATATAATTTAAAATTTTAATAA
AAGATACA
Found at i:10611071 original size:30 final size:30
Alignment explanation
Indices: 10611013--10611088 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
10611003 TGGTCTTGCA
* * * *
10611013 AAGGTGGATGATATTGCGGCTCTTGTTGTG
1 AAGGCGGATAATACTGCGGCTCTGGTTGTG
*
10611043 AAGGCGGATAATACTGCGGTTCTGGTTGTG
1 AAGGCGGATAATACTGCGGCTCTGGTTGTG
*
10611073 -AGTGCAGATAATACTG
1 AAG-GCGGATAATACTG
10611089 TGGGGACGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.22, C:0.12, G:0.34, T:0.32
Consensus pattern (30 bp):
AAGGCGGATAATACTGCGGCTCTGGTTGTG
Found at i:10612519 original size:54 final size:50
Alignment explanation
Indices: 10612428--10612545 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 50
10612418 TAATTATTAT
* *
10612428 ATTAATAAATAATATTTTTATTATATAAATATTATATTAAGAAATAATAC
1 ATTAATAAATAATATATTTATTATATAAATATCATATTAAGAAATAATAC
* *
10612478 ATTAATAAATATTATTATATTTATTATATATAATATCATATTAATAAATAATAT
1 ATTAATAAATA--A-TATATTTATTATATA-AATATCATATTAAGAAATAATAC
*
10612532 TTTAATAAATAATA
1 ATTAATAAATAATA
10612546 CTTTAATCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
50 11 0.19
51 2 0.03
52 2 0.03
53 14 0.24
54 30 0.51
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (50 bp):
ATTAATAAATAATATATTTATTATATAAATATCATATTAAGAAATAATAC
Found at i:10612536 original size:15 final size:15
Alignment explanation
Indices: 10612518--10612552 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10612508 TAATATCATA
*
10612518 TTAATAAATAATATT
1 TTAATAAATAATACT
10612533 TTAATAAATAATACT
1 TTAATAAATAATACT
10612548 TTAAT
1 TTAAT
10612553 CTATCTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATAAATAATACT
Found at i:10619380 original size:18 final size:20
Alignment explanation
Indices: 10619357--10619397 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
10619347 TTGTCTTTCA
10619357 AAATAAAAA-ATTTT-AAAG
1 AAATAAAAACATTTTCAAAG
10619375 AAATAAAAATCATTTTCAAAG
1 AAATAAAAA-CATTTTCAAAG
10619396 AA
1 AA
10619398 TTCTTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATAAAAACATTTTCAAAG
Found at i:10622660 original size:64 final size:65
Alignment explanation
Indices: 10622589--10622882 Score: 172
Period size: 64 Copynumber: 4.5 Consensus size: 65
10622579 TAACATAGAA
*
10622589 ATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTTATATACAAGTCTTTCAATAGAAAAG
1 ATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTTTCAATAGAAAAG
* * * * * * * * * *
10622654 AT-GATTGTTGTGGTTTCATACACCACTTATGTCATTGTCATATACAAGTTTTATTAAGAGAAAA
1 ATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTT-TCAATAGAAAA
10622718 -
65 G
** * * * * * * * * *
10622718 ATTAATCGTTATGATCTCATGTGTCACTTTCATTATTTTCA-TAT-ATATATATATGTATTTTAA
1 ATCGATTGTTGTGGTCTCA--TG-CAC-TAC-TT-CTTTCACTCTCATATACA-A-GTCTTTCAA
*
10622781 TAGAGAAG
58 TAGAAAAG
* *
10622789 -TCGATTGTTGTGATCTCATGCACTACTT-TTGTCACTCTCATATACAAATC-TTCGAATA-AAA
1 ATCGATTGTTGTGGTCTCATGCACTACTTCTT-TCACTCTCATATACAAGTCTTTC-AATAGAAA
10622850 AG
64 AG
* ** *
10622852 GTCGATCATTGTGGTCTCATGCACTATTTCT
1 ATCGATTGTTGTGGTCTCATGCACTACTTCT
10622883 ATGCATTATT
Statistics
Matches: 171, Mismatches: 41, Indels: 34
0.70 0.17 0.14
Matches are distributed among these distances:
63 8 0.05
64 75 0.44
65 28 0.16
66 8 0.05
67 4 0.02
68 5 0.03
69 7 0.04
70 28 0.16
71 8 0.05
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (65 bp):
ATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTTTCAATAGAAAAG
Found at i:10622738 original size:193 final size:194
Alignment explanation
Indices: 10622390--10622841 Score: 514
Period size: 193 Copynumber: 2.3 Consensus size: 194
10622380 TTTTTTTACT
* ** * * * ** * *
10622390 ATAGAAGTCGATCCTTGTGGTTTTATGCACCACTTCCATCACTCTCGTAAACAAGTCTTCCAACA
1 ATAGAAATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTTCCAACA
* * * * *
10622455 GAAAAGTTGATTGTTGTGGTATCATACACAATTTCTATCATTTTCATATACAAGTTTTTTTAAGA
66 GAAAAGATGATTGTTGTGGTATCATACACAACTTATATCATTGTCATATACAAGTTTTATTAAGA
* * * * *
10622520 GAGAAATCAATAATTGTGGTCTCATGTGTCACTTCCGTTATTTTCATAGATATGTAT-TCTA-A
131 GAAAAATCAATAATTATGATCTCATGTGTCACTTCCATTATTTTCATAGATATATATATCTATA
* * *
10622582 CATAGAAATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTTATATACAAGTCTTTCAAT
1 -ATAGAAATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTTCCAAC
* * *
10622647 AGAAAAGATGATTGTTGTGGTTTCATACACCACTTATGTCATTGTCATATACAAGTTTTATTAAG
65 AGAAAAGATGATTGTTGTGGTATCATACACAACTTATATCATTGTCATATACAAGTTTTATTAAG
* ** * * *
10622712 AGAAAAATTAATCGTTATGATCTCATGTGTCACTTTCATTATTTTCATATATATATATATGTATT
130 AGAAAAATCAATAATTATGATCTCATGTGTCACTTCCATTATTTTCATAGATATATATATCTA--
10622777 TTA
193 -TA
* *
10622780 ATAGAGAAGTCGATTGTTGTGATCTCATGCACTACTT-TTGTCACTCTCATATACAAATCTTC
1 ATAGA-AA-TCGATTGTTGTGGTCTCATGCACTACTTCTT-TCACTCTCATATACAAGTCTTC
10622842 GAATAAAAAG
Statistics
Matches: 215, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
193 156 0.73
194 3 0.01
197 5 0.02
198 5 0.02
199 46 0.21
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (194 bp):
ATAGAAATCGATTGTTGTGGTCTCATGCACTACTTCTTTCACTCTCATATACAAGTCTTCCAACA
GAAAAGATGATTGTTGTGGTATCATACACAACTTATATCATTGTCATATACAAGTTTTATTAAGA
GAAAAATCAATAATTATGATCTCATGTGTCACTTCCATTATTTTCATAGATATATATATCTATA
Found at i:10622961 original size:78 final size:76
Alignment explanation
Indices: 10622820--10622966 Score: 179
Period size: 78 Copynumber: 1.9 Consensus size: 76
10622810 ACTACTTTTG
* * *
10622820 TCACTCTCATATACAAATCTTCGAATAAAAAGGTCGATCATTGTGGTCTCATGCACTATTTCTAT
1 TCACTCTCATATACAAATCTTCCAATAAAAAGGTCGACCATTGTGGTCTCATGCACTACTTCTAT
10622885 GCATTATTTCCA
66 -CATTATTTCCA
* * * * * *
10622897 TCACTCTCATATACAATTTCTTCCAATAGAGAA-GTTGACCGTTGTGGTTTCATTCACTACTTCT
1 TCACTCTCATATACAA-ATCTTCCAATA-AAAAGGTCGACCATTGTGGTCTCATGCACTACTTCT
10622961 ATCATT
64 ATCATT
10622967 CTTGTATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
77 20 0.34
78 36 0.61
79 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (76 bp):
TCACTCTCATATACAAATCTTCCAATAAAAAGGTCGACCATTGTGGTCTCATGCACTACTTCTAT
CATTATTTCCA
Found at i:10623255 original size:49 final size:49
Alignment explanation
Indices: 10623147--10623331 Score: 167
Period size: 49 Copynumber: 3.8 Consensus size: 49
10623137 ACTTGTTTTT
*
10623147 CTATTTCTTTTAATAATTTCTCTA-TTTTTAGAGAAATAC-TCTTT--T-A-
1 CTATTTCTTTTAATAATTTTTCTATTTTTTAG-GAAA-ACAT-TTTCATCAC
*
10623193 CT-TTT-TTTTAATAATTTATCTATTTTTTAGGAAAACA-TTTCTATCAC
1 CTATTTCTTTTAATAATTTTTCTATTTTTTAGGAAAACATTTTC-ATCAC
**
10623240 CTA-TTCATTTTAATAATTTTTCTATTTTTTACAAAAACATTTTCATCAC
1 CTATTTC-TTTTAATAATTTTTCTATTTTTTAGGAAAACATTTTCATCAC
* *
10623289 TTATTTCTTTTAATATATTTTTTTTATTTTTTAAGG-AAACATT
1 CTATTTCTTTTAATA-A-TTTTTCTATTTTTT-AGGAAAACATT
10623332 CCCATTATTT
Statistics
Matches: 116, Mismatches: 8, Indels: 25
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 2 0.02
44 20 0.17
45 11 0.09
46 3 0.03
47 4 0.03
49 44 0.38
50 8 0.07
51 20 0.17
52 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (49 bp):
CTATTTCTTTTAATAATTTTTCTATTTTTTAGGAAAACATTTTCATCAC
Found at i:10623344 original size:51 final size:49
Alignment explanation
Indices: 10623198--10623349 Score: 144
Period size: 49 Copynumber: 3.1 Consensus size: 49
10623188 TTTTACTTTT
* ** * * * *
10623198 TTTTAATAATTTATCTATTTTTTAGGAAAACATTTCTATCACCTATTCA
1 TTTTAATAATTTTTCTATTTTTTACAAAAACATTCCCATCACTTATTCC
** *
10623247 TTTTAATAATTTTTCTATTTTTTACAAAAACATTTTCATCACTTATTTC
1 TTTTAATAATTTTTCTATTTTTTACAAAAACATTCCCATCACTTATTCC
* * * *
10623296 TTTTAATATATTTTTTTTATTTTTTA-AGGAAACATTCCCATTATTTATTCC
1 TTTTAATA-A-TTTTTCTATTTTTTACA-AAAACATTCCCATCACTTATTCC
10623347 TTT
1 TTT
10623350 CAACTATTCT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 49 0.58
50 2 0.02
51 34 0.40
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.55
Consensus pattern (49 bp):
TTTTAATAATTTTTCTATTTTTTACAAAAACATTCCCATCACTTATTCC
Found at i:10623426 original size:36 final size:36
Alignment explanation
Indices: 10623362--10623468 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
10623352 ACTATTCTTT
* * * *
10623362 TATTTGTTAGGGAAATATT-CTTACTACTTAGTCTCA
1 TATTTGTTAGGAAAATATTAC-CAGTACTTATTCTCA
*
10623398 TATGTT-TTAGGAAAATATTACCAGTACTTATTCCCA
1 TAT-TTGTTAGGAAAATATTACCAGTACTTATTCTCA
* * *
10623434 TATTTGTTAGGAGAATATTATCATTACTTATTCTC
1 TATTTGTTAGGAAAATATTACCAGTACTTATTCTC
10623469 TTTTTTTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
35 2 0.03
36 54 0.92
37 3 0.05
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (36 bp):
TATTTGTTAGGAAAATATTACCAGTACTTATTCTCA
Found at i:10623532 original size:50 final size:47
Alignment explanation
Indices: 10623478--10623594 Score: 119
Period size: 50 Copynumber: 2.4 Consensus size: 47
10623468 CTTTTTTTTT
10623478 TTTTTTTTAGGGAAACACTCCAAAAGTTATTACTTTTGATAATTATTCTA
1 TTTTTTTTAGGGAAACACTCCAAAAGTTATTACTTTTGAT--TT-TTCTA
* * * * * * *
10623528 TTTTTTTT-GAGAAACACTTTCAATAGTTGTTCCTTTTGATTTTTTTT
1 TTTTTTTTAGGGAAACAC-TCCAAAAGTTATTACTTTTGATTTTTCTA
10623575 TTATTTTTTAGGGAAACACT
1 TT-TTTTTTAGGGAAACACT
10623595 TTCATTAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
47 5 0.09
48 9 0.16
49 16 0.29
50 26 0.46
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (47 bp):
TTTTTTTTAGGGAAACACTCCAAAAGTTATTACTTTTGATTTTTCTA
Found at i:10623582 original size:49 final size:49
Alignment explanation
Indices: 10623469--10623606 Score: 145
Period size: 49 Copynumber: 2.8 Consensus size: 49
10623459 ACTTATTCTC
* * *
10623469 TTTTTTTTTT-TTTTTTTAGGGAAACAC-TCCAAAAGTTATTACTTTTGA
1 TTTTTTTTTTATTTTTTT-GGGAAACACTTTCAATAGTTGTTACTTTTGA
** * * * *
10623517 TAATTATTCTATTTTTTTTGAGAAACACTTTCAATAGTTGTTCCTTTTGA
1 TTTTTTTTTTA-TTTTTTTGGGAAACACTTTCAATAGTTGTTACTTTTGA
* *
10623567 TTTTTTTTTTATTTTTTAGGGAAACACTTTCATTAGTTGT
1 TTTTTTTTTTATTTTTTTGGGAAACACTTTCAATAGTTGT
10623607 ATTTTTTTAT
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
48 6 0.08
49 34 0.48
50 31 0.44
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (49 bp):
TTTTTTTTTTATTTTTTTGGGAAACACTTTCAATAGTTGTTACTTTTGA
Found at i:10623626 original size:49 final size:49
Alignment explanation
Indices: 10623529--10623629 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 49
10623519 ATTATTCTAT
* * * *
10623529 TTTTTTTGAGAAACACTTTCAATAGTTGTTCCTTTTGATTTTTTTTTTA
1 TTTTTTAGAGAAACACTTTCAATAGTTGTTCCTTTTGATGTATCTTTTA
* * * *
10623578 TTTTTTAGGGAAACACTTTCATTAGTTGTAT-TTTTTTATGTATCTTTTA
1 TTTTTTAGAGAAACACTTTCAATAGTTGT-TCCTTTTGATGTATCTTTTA
10623627 TTT
1 TTT
10623630 AAAAAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.09, G:0.11, T:0.59
Consensus pattern (49 bp):
TTTTTTAGAGAAACACTTTCAATAGTTGTTCCTTTTGATGTATCTTTTA
Found at i:10624072 original size:17 final size:18
Alignment explanation
Indices: 10624024--10624071 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
10624014 AATGGCAAAA
10624024 TATAAATATTTGATATTGAT
1 TATAAATATTT--TATTGAT
*
10624044 TATTAATATTTTATT-AT
1 TATAAATATTTTATTGAT
10624061 TATAAAT-TTTT
1 TATAAATATTTT
10624072 TTAAAATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 8 0.31
18 4 0.15
20 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
TATAAATATTTTATTGAT
Found at i:10635584 original size:21 final size:24
Alignment explanation
Indices: 10635539--10635593 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
10635529 AAATTTATAT
*
10635539 TTTTTATATATTATTTTAATAAAA
1 TTTTTATATATTATTTAAATAAAA
10635563 TTTTTA-ATA-TATTTAAAT-AAA
1 TTTTTATATATTATTTAAATAAAA
*
10635584 TTTATATATA
1 TTTTTATATA
10635594 AAATAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 3 0.11
24 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATAAAA
Found at i:10635642 original size:20 final size:17
Alignment explanation
Indices: 10635606--10635647 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
10635596 ATAATTATTT
10635606 TATAAAAATTTAAAATA
1 TATAAAAATTTAAAATA
10635623 TATAAAAATTAATAAAAATA
1 TATAAAAATT--T-AAAATA
10635643 TATAA
1 TATAA
10635648 TTCGATGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAATTTAAAATA
Found at i:10639769 original size:59 final size:61
Alignment explanation
Indices: 10639674--10639789 Score: 164
Period size: 59 Copynumber: 1.9 Consensus size: 61
10639664 AATAAAAGAT
* *
10639674 TAAAAATAAATTAAAAAAAAGGTAAAAAAGTAAAAGTGTTTACCAAAGTAACATTACTTAA
1 TAAAAATAAATGAAAAAAAAGGTAAAAAAGTAAAAGTGTCTACCAAAGTAACATTACTTAA
* * * *
10639735 TAAAAATAAA-GAACAAAAA-GTAAAAAATTAAAAGTGTCTACCATAGTAATATTAC
1 TAAAAATAAATGAAAAAAAAGGTAAAAAAGTAAAAGTGTCTACCAAAGTAACATTAC
10639790 CTAAAATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 32 0.65
60 7 0.14
61 10 0.20
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.24
Consensus pattern (61 bp):
TAAAAATAAATGAAAAAAAAGGTAAAAAAGTAAAAGTGTCTACCAAAGTAACATTACTTAA
Found at i:10641192 original size:2 final size:2
Alignment explanation
Indices: 10641185--10641209 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10641175 CAAGACATCA
10641185 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10641210 AAGTCAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10642477 original size:27 final size:27
Alignment explanation
Indices: 10642413--10642479 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
10642403 AAAATGACAT
**
10642413 AAAAAATATATAATTTAAAATTTTAAC
1 AAAAAATATATAATTTAAAATAATAAC
10642440 AAAAATTATATATAAATTTAATAA-AATAA-
1 AAAAA--ATATAT-AATTTAA-AATAATAAC
10642469 AAAAAATATAT
1 AAAAAATATAT
10642480 TTTATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
27 11 0.32
29 11 0.32
30 10 0.29
31 2 0.06
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAAATATATAATTTAAAATAATAAC
Found at i:10643008 original size:6 final size:6
Alignment explanation
Indices: 10642988--10643060 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
10642978 ACTAAAAAAA
* *
10642988 TAAATT T-AA-T TAAATT TAAA-T TAAATTT TAAATC T-AATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAA-TT TAAATT TAAATT TAAATT
10643033 TAAATT TAATATT ATATTAATT TAAATT
1 TAAATT TAA-ATT -TA--AATT TAAATT
10643061 CGATTTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
4 2 0.04
5 13 0.24
6 23 0.43
7 8 0.15
8 4 0.07
9 3 0.06
10 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:10643019 original size:12 final size:11
Alignment explanation
Indices: 10642988--10643060 Score: 71
Period size: 12 Copynumber: 6.5 Consensus size: 11
10642978 ACTAAAAAAA
10642988 TAAATTT-AAT
1 TAAATTTAAAT
10642998 TAAATTTAAAT
1 TAAATTTAAAT
10643009 TAAATTTTAAAT
1 TAAA-TTTAAAT
10643021 CT-AATTTAAACT
1 -TAAATTTAAA-T
10643033 TAAATTTAATAT
1 TAAATTTAA-AT
* *
10643045 TATA-TTAATT
1 TAAATTTAAAT
10643055 TAAATT
1 TAAATT
10643061 CGATTTATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
10 11 0.21
11 19 0.36
12 21 0.40
13 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:10643195 original size:15 final size:15
Alignment explanation
Indices: 10643170--10643212 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
10643160 GGTGATTGCT
* *
10643170 AGAAAACAAAAGACA
1 AGAAAAAAAAAGAAA
* *
10643185 TGAAAAAAAAAAAAA
1 AGAAAAAAAAAGAAA
10643200 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
10643213 GACAGACAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (15 bp):
AGAAAAAAAAAGAAA
Found at i:10644967 original size:20 final size:19
Alignment explanation
Indices: 10644924--10644960 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
10644914 TTATTATTTG
10644924 TTATTTTTAAAATTTTTAAT
1 TTATTTTT-AAATTTTTAAT
10644944 TTATTTTT-AATTTTTAA
1 TTATTTTTAAATTTTTAA
10644961 ATCTTATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTAAATTTTTAAT
Found at i:10646622 original size:25 final size:25
Alignment explanation
Indices: 10646594--10646641 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10646584 TACAATCTTA
* *
10646594 TTAAAAAATATGATTTTTTTTTACC
1 TTAAAAAACATGATTGTTTTTTACC
* *
10646619 TTAAACAACGTGATTGTTTTTTA
1 TTAAAAAACATGATTGTTTTTTA
10646642 ATTACACAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (25 bp):
TTAAAAAACATGATTGTTTTTTACC
Found at i:10646650 original size:24 final size:25
Alignment explanation
Indices: 10646604--10646650 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10646594 TTAAAAAATA
* *
10646604 TGATTTTTTTTTACCTTAAACAACG
1 TGATTGTTTTTTACATTAAACAACG
*
10646629 TGATTGTTTTTTA-ATTACACAA
1 TGATTGTTTTTTACATTAAACAA
10646651 ATTTAACCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (25 bp):
TGATTGTTTTTTACATTAAACAACG
Found at i:10647090 original size:24 final size:23
Alignment explanation
Indices: 10647047--10647091 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
10647037 TCTCCATACT
*
10647047 AAAAACTATTTTCTTTTTCATTA
1 AAAAACTATTTTCTTCTTCATTA
10647070 AAAAACATATATTT-TTCTTCAT
1 AAAAAC-TAT-TTTCTTCTTCAT
10647092 CAAGTGTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAAACTATTTTCTTCTTCATTA
Found at i:10654285 original size:15 final size:17
Alignment explanation
Indices: 10654254--10654285 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10654244 AGGTAACTCT
10654254 CCAAAAACAATATAAAA
1 CCAAAAACAATATAAAA
10654271 CCAAAAA-AA-ATAAAA
1 CCAAAAACAATATAAAA
10654286 ATTCTTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.75, C:0.16, G:0.00, T:0.09
Consensus pattern (17 bp):
CCAAAAACAATATAAAA
Found at i:10659164 original size:23 final size:22
Alignment explanation
Indices: 10659138--10659221 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 22
10659128 AAAGTCATTT
*
10659138 AATTTTATAATTTTATTTAGATA
1 AATTTT-TAATTTTATTTAAATA
**
10659161 AATTTTTATATTTTTATTATATTTA
1 AATTTTTA-A-TTTTATT-TAAATA
*
10659186 AA-ATTTAATTTATATTTAAATA
1 AATTTTTAATTT-TATTTAAATA
*
10659208 AATTTTTATTTTTA
1 AATTTTTAATTTTA
10659222 AATTTGTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
22 13 0.27
23 19 0.39
24 11 0.22
25 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
AATTTTTAATTTTATTTAAATA
Found at i:10659169 original size:24 final size:24
Alignment explanation
Indices: 10659140--10659216 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
10659130 AGTCATTTAA
*
10659140 TTTTATAATTTTATTTAGATAAAT
1 TTTTATAATTTTATTTAAATAAAT
* **
10659164 TTTTATATTTTTATTATATTTAAA-
1 TTTTATAATTTTATT-TAAATAAAT
*
10659188 -ATT-TAATTTATATTTAAATAAAT
1 TTTTATAATTT-TATTTAAATAAAT
10659211 TTTTAT
1 TTTTAT
10659217 TTTTAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 16 0.40
25 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTTATAATTTTATTTAAATAAAT
Found at i:10659221 original size:29 final size:29
Alignment explanation
Indices: 10659189--10659274 Score: 111
Period size: 29 Copynumber: 2.9 Consensus size: 29
10659179 ATATTTAAAA
*
10659189 TTTAATTTATATTTAAATAAATTTTTATT
1 TTTAATTTGTATTTAAATAAATTTTTATT
* *
10659218 TTTAAATTTGTATATGAAT-AATATTTTATT
1 TTT-AATTTGTATTTAAATAAAT-TTTTATT
*
10659248 TTTAATTTGTATTTAAATAAAATTTTA
1 TTTAATTTGTATTTAAATAAATTTTTA
10659275 ATATAAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 24 0.50
30 24 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTAATTTGTATTTAAATAAATTTTTATT
Found at i:10659271 original size:17 final size:16
Alignment explanation
Indices: 10659251--10659321 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 16
10659241 TTTTATTTTT
10659251 AATTTGTATTTAAATAA
1 AATTT-TATTTAAATAA
* *
10659268 AATTTTAATATAAAT-C
1 AATTTT-ATTTAAATAA
*
10659284 ATTTTTATTTAAAATAA
1 AATTTTATTT-AAATAA
10659301 AATTTTATTTAAATACA
1 AATTTTATTTAAATA-A
10659318 AATT
1 AATT
10659322 AAAAGATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
15 3 0.07
16 15 0.34
17 26 0.59
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (16 bp):
AATTTTATTTAAATAA
Found at i:10664898 original size:6 final size:6
Alignment explanation
Indices: 10664887--10664918 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10664877 TTTGTGGTAC
10664887 ATAAAT ATAAAT ATAAAT ATAAAT AT-AAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATA
10664919 TTTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATAAAT
Found at i:10666521 original size:22 final size:23
Alignment explanation
Indices: 10666491--10666564 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 23
10666481 TATTAGTTTG
10666491 AAAGATAAAAAATTTTAATTTTT
1 AAAGATAAAAAATTTTAATTTTT
* * *
10666514 AAAG-T--AAAATATT-AGTTTG
1 AAAGATAAAAAATTTTAATTTTT
*
10666533 AAAGATAAAAAATTTTAATTCTT
1 AAAGATAAAAAATTTTAATTTTT
10666556 AAAG-TAAAA
1 AAAGATAAAA
10666565 TTTCAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
19 8 0.20
20 8 0.20
22 13 0.32
23 11 0.28
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.36
Consensus pattern (23 bp):
AAAGATAAAAAATTTTAATTTTT
Found at i:10666528 original size:42 final size:42
Alignment explanation
Indices: 10666480--10666573 Score: 163
Period size: 42 Copynumber: 2.2 Consensus size: 42
10666470 ATATCAACAT
*
10666480 ATATTAGTTTGAAAGATAAAAAATTTTAATTTTTAAAGTAAA
1 ATATTAGTTTGAAAGATAAAAAATTTTAATTCTTAAAGTAAA
10666522 ATATTAGTTTGAAAGATAAAAAATTTTAATTCTTAAAGTAAA
1 ATATTAGTTTGAAAGATAAAAAATTTTAATTCTTAAAGTAAA
10666564 AT-TTCAGTTT
1 ATATT-AGTTT
10666574 CAAGTCTTGT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (42 bp):
ATATTAGTTTGAAAGATAAAAAATTTTAATTCTTAAAGTAAA
Found at i:10666541 original size:20 final size:20
Alignment explanation
Indices: 10666480--10666542 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
10666470 ATATCAACAT
10666480 ATATTAGTTTGAAAGATAAAAA
1 ATATTAGTTTGAAAGAT--AAA
* * *
10666502 ATTTTAATTTTTAAAG-TAAA
1 ATATT-AGTTTGAAAGATAAA
10666522 ATATTAGTTTGAAAGATAAA
1 ATATTAGTTTGAAAGATAAA
10666542 A
1 A
10666543 AATTTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 8 0.24
20 12 0.36
22 5 0.15
23 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (20 bp):
ATATTAGTTTGAAAGATAAA
Found at i:10666566 original size:20 final size:19
Alignment explanation
Indices: 10666499--10666567 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
10666489 TGAAAGATAA
10666499 AAAATTTTAATTTTTAAAGT
1 AAAATTTTAA-TTTTAAAGT
* * *
10666519 AAAATATTAGTTTGAAAGAT
1 AAAATTTTAATTTTAAAG-T
10666539 AAAAAATTTTAATTCTTAAAGT
1 --AAAATTTTAATT-TTAAAGT
10666561 AAAATTT
1 AAAATTT
10666568 CAGTTTCAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 7 0.18
20 16 0.41
22 11 0.28
23 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.42
Consensus pattern (19 bp):
AAAATTTTAATTTTAAAGT
Found at i:10682398 original size:65 final size:66
Alignment explanation
Indices: 10682317--10682445 Score: 233
Period size: 65 Copynumber: 2.0 Consensus size: 66
10682307 ACTCATTCAA
10682317 AATAAAAGATTTAATACTTAATTATAATAAAATATTAGGAACTTAAATGATTATTGAA-CTTTTA
1 AATAAAAGATTTAATACTTAATTATAATAAAATATTAGGAACTTAAATGATTATTGAATCTTTTA
10682381 T
66 T
* *
10682382 AATAAAAGATTTAATACTTGATTATAATAAAATATTATGAACTTAAATGATTATTGAATCTTTT
1 AATAAAAGATTTAATACTTAATTATAATAAAATATTAGGAACTTAAATGATTATTGAATCTTTT
10682446 GACGCTTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (66 bp):
AATAAAAGATTTAATACTTAATTATAATAAAATATTAGGAACTTAAATGATTATTGAATCTTTTA
T
Found at i:10682425 original size:25 final size:23
Alignment explanation
Indices: 10682361--10682425 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
10682351 TTAGGAACTT
10682361 AAATGATTATTGAACTTTTATAATA
1 AAAT-ATTA-TGAACTTTTATAATA
* *
10682386 AAAGATT-TAATACTTGATTATAATA
1 AAATATTATGA-ACTT--TTATAATA
10682411 AAATATTATGAACTT
1 AAATATTATGAACTT
10682426 AAATGATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.06
23 4 0.12
24 3 0.09
25 21 0.66
26 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (23 bp):
AAATATTATGAACTTTTATAATA
Found at i:10688818 original size:22 final size:22
Alignment explanation
Indices: 10688793--10688835 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10688783 TTTTTTGTCA
**
10688793 TTAATTCTAGGGATACAAATAC
1 TTAATTCTAGAAATACAAATAC
*
10688815 TTAATTTTAGAAATACAAATA
1 TTAATTCTAGAAATACAAATA
10688836 TAAGTATACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAAATACAAATAC
Found at i:10690264 original size:5 final size:5
Alignment explanation
Indices: 10690254--10690297 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
10690244 TAGTATTATT
* *
10690254 ATATA ATATA ATATA ATATA ATATA TTATA TTAT- ATATTA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA ATAT
10690298 TGTAATCTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 2 0.06
5 30 0.86
6 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (5 bp):
ATATA
Found at i:10690319 original size:3 final size:3
Alignment explanation
Indices: 10690311--10690427 Score: 77
Period size: 3 Copynumber: 40.3 Consensus size: 3
10690301 AATCTACTAG
* *
10690311 TAT TAT TAT T-T TAT TTT TAT TAT TA- TATT TAT TAT TAT TA- TACCG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA--T
* * * * * * *
10690356 TAT T-G TAT TAT TAT TA- CAA TAT TA- TAA TAA TAA TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10690401 TA- TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10690428 GGTCTTATGC
Statistics
Matches: 95, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
2 12 0.13
3 79 0.83
4 2 0.02
5 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10697980 original size:39 final size:39
Alignment explanation
Indices: 10697906--10697983 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
10697896 CATGCATCAT
* * **
10697906 GCATCTGCTCGATTCTTTCATACATGTGCACACACACAA
1 GCATCTGCTCGATCCTTCCATACATGCACACACACACAA
* *
10697945 GCATTTGCTCGATCCTTCCATACATGCACATACACACAA
1 GCATCTGCTCGATCCTTCCATACATGCACACACACACAA
10697984 ACACGAGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (39 bp):
GCATCTGCTCGATCCTTCCATACATGCACACACACACAA
Found at i:10699035 original size:9 final size:9
Alignment explanation
Indices: 10699021--10699046 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10699011 TTGATCGATT
10699021 TTAATTTTA
1 TTAATTTTA
10699030 TTAATTTTA
1 TTAATTTTA
10699039 TTAATTTT
1 TTAATTTT
10699047 TGAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTAATTTTA
Found at i:10704394 original size:11 final size:11
Alignment explanation
Indices: 10704362--10704395 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10704352 ATTATGTTCA
*
10704362 TATATTAAATA
1 TATATTAAATT
10704373 TATATTAAATT
1 TATATTAAATT
*
10704384 TATATCAAATT
1 TATATTAAATT
10704395 T
1 T
10704396 TGAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (11 bp):
TATATTAAATT
Found at i:10704463 original size:18 final size:19
Alignment explanation
Indices: 10704440--10704481 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
10704430 TTAAATTAAA
10704440 TTATATA-TTTTTAAATTT
1 TTATATATTTTTTAAATTT
10704458 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
10704477 TTATA
1 TTATA
10704482 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:10704485 original size:11 final size:10
Alignment explanation
Indices: 10704447--10704483 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
10704437 AAATTATATA
10704447 TTTT-TAAAT
1 TTTTATAAAT
*
10704456 TTTTATATAT
1 TTTTATAAAT
10704466 TTTT-TAAAT
1 TTTTATAAAT
10704475 TTTTATAAA
1 TTTTATAAA
10704484 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 12 0.50
10 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:10704536 original size:13 final size:13
Alignment explanation
Indices: 10704518--10704557 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10704508 ATTTACTTAA
10704518 ATATATTAAAATT
1 ATATATTAAAATT
*
10704531 ATATATTAAAATA
1 ATATATTAAAATT
* *
10704544 ATATGTAAAAATT
1 ATATATTAAAATT
10704557 A
1 A
10704558 AAAATTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:10710329 original size:16 final size:16
Alignment explanation
Indices: 10710310--10710358 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10710300 AATTATTAAA
10710310 ATTATTTATTCAATTT
1 ATTATTTATTCAATTT
* *
10710326 ATTATTTATTTATTTT
1 ATTATTTATTCAATTT
* *
10710342 ACATATCTATTCAATTT
1 A-TTATTTATTCAATTT
10710359 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTTATTCAATTT
Found at i:10719315 original size:14 final size:14
Alignment explanation
Indices: 10719298--10719328 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10719288 ATAAAATATA
10719298 TATTGAAAAAAAGT
1 TATTGAAAAAAAGT
*
10719312 TATTGAAAAAAATT
1 TATTGAAAAAAAGT
10719326 TAT
1 TAT
10719329 GTATAATACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
TATTGAAAAAAAGT
Found at i:10719763 original size:21 final size:22
Alignment explanation
Indices: 10719715--10719773 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
10719705 ATAATTTTTT
* *
10719715 AAATAAAGTTATTTA-GTAAAC
1 AAATAAAATTATTTATTTAAAC
*
10719736 AACTAAAATTATTTATTTAAA-
1 AAATAAAATTATTTATTTAAAC
*
10719757 AAATAAAA-TATATATTT
1 AAATAAAATTATTTATTT
10719774 TTTATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 8 0.25
21 20 0.62
22 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (22 bp):
AAATAAAATTATTTATTTAAAC
Found at i:10742065 original size:14 final size:14
Alignment explanation
Indices: 10742046--10742072 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10742036 ACTTCGGATA
10742046 TTGGACATCATTGC
1 TTGGACATCATTGC
10742060 TTGGACATCATTG
1 TTGGACATCATTG
10742073 GGACCAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
TTGGACATCATTGC
Found at i:10747451 original size:10 final size:9
Alignment explanation
Indices: 10747436--10747469 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
10747426 AAATGTAAAA
10747436 AAAAAAAGGC
1 AAAAAAA-GC
10747446 AAAAAAAG-
1 AAAAAAAGC
10747454 AAAAAAAGC
1 AAAAAAAGC
10747463 AAAAAAA
1 AAAAAAA
10747470 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:10747470 original size:10 final size:9
Alignment explanation
Indices: 10747435--10747485 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
10747425 GAAATGTAAA
10747435 AAAAAAAAGG
1 AAAAAAAA-G
*
10747445 CAAAAAAAG
1 AAAAAAAAG
10747454 -AAAAAAAG
1 AAAAAAAAG
*
10747462 CAAAAAAAAAA
1 --AAAAAAAAG
10747473 AAAAAAAAG
1 AAAAAAAAG
10747482 AAAA
1 AAAA
10747486 CTTAAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 8 0.23
9 13 0.37
10 7 0.20
11 7 0.20
ACGTcount: A:0.86, C:0.04, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:10747478 original size:18 final size:17
Alignment explanation
Indices: 10747432--10747477 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
10747422 AAAGAAATGT
*
10747432 AAAAAAAAAAAGGCAAA
1 AAAAAAAAAAAAGCAAA
*
10747449 AAAAGAAAAAAAGCAAA
1 AAAAAAAAAAAAGCAAA
10747466 AAAAAAAAAAAA
1 AAAAAAAAAAAA
10747478 AAAGAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAGCAAA
Found at i:10747485 original size:17 final size:18
Alignment explanation
Indices: 10747432--10747478 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
10747422 AAAGAAATGT
*
10747432 AAAAAAAAAAAGGC-AAA
1 AAAAAAAAAAAAGCAAAA
*
10747449 AAAAGAAAAAAAGCAAAA
1 AAAAAAAAAAAAGCAAAA
10747467 AAAAAAAAAAAA
1 AAAAAAAAAAAA
10747479 AAGAAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAGCAAAA
Found at i:10749031 original size:25 final size:25
Alignment explanation
Indices: 10748997--10749046 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
10748987 TATGGGGGAG
*
10748997 CATTTTATTT-TTTAAAAGTTTCAAA
1 CATTTTATTTGTCT-AAAGTTTCAAA
10749022 CATTTTATTTGTCTAAAGTTTCAAA
1 CATTTTATTTGTCTAAAGTTTCAAA
10749047 GCCTTAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (25 bp):
CATTTTATTTGTCTAAAGTTTCAAA
Found at i:10749100 original size:42 final size:42
Alignment explanation
Indices: 10749020--10749142 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
10749010 AAAAGTTTCA
* *
10749020 AACATTTTATTTGTCTAAAGTTTCAAAGCCTTAGTTGTAGAGG
1 AACATTTTATTT-TCAAAAGTTTCAAAGACTTAGTTGTAGAGG
* * *
10749063 AACATTTTAGTTTTC-AAAGTTCCAAA-ACTTCGATTGTAGATG
1 AACATTTTA-TTTTCAAAAGTTTCAAAGACTTAG-TTGTAGAGG
* * *
10749105 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGT
1 AACATTTTA-TTTTCAAAAGTTTCAAAGACTTAGTTGT
10749143 GGGAGTGCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
41 4 0.06
42 31 0.47
43 25 0.38
44 6 0.09
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (42 bp):
AACATTTTATTTTCAAAAGTTTCAAAGACTTAGTTGTAGAGG
Found at i:10749153 original size:43 final size:41
Alignment explanation
Indices: 10749022--10749155 Score: 103
Period size: 43 Copynumber: 3.1 Consensus size: 41
10749012 AAGTTTCAAA
* * *
10749022 CATTTTATTTGTCTAAAGTTTCAAAGCCTTAGTTGTAGAGGA-A
1 CATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGT-G-GGAGG
* * * * *
10749065 CATTTTAGTTTTCAAAGTTCCAAAACTTC-GATTGT-AGATGAG
1 CATTTTATTTTTCAAAGTTTCAAAGCCTCAG-TTGTGGGA-G-G
10749107 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGTG
1 CATTTTATTTTTC-AAAGTTTCAAAGCCTCAGTTGTGGGAG-G
10749150 CATTTT
1 CATTTT
10749156 TCAAAAAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
39 2 0.03
41 1 0.01
42 28 0.40
43 36 0.51
44 3 0.04
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (41 bp):
CATTTTATTTTTCAAAGTTTCAAAGCCTCAGTTGTGGGAGG
Found at i:10750384 original size:41 final size:41
Alignment explanation
Indices: 10750322--10750558 Score: 268
Period size: 41 Copynumber: 5.8 Consensus size: 41
10750312 GTTAAATAGA
* * *
10750322 ATTTGCATGTTTTGTAGTGTTAATTGCATAATAATATATTT
1 ATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
**
10750363 ATTTGCATGTTTTATATTGTTAATTATATGATAATATATTT
1 ATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
* ** *
10750404 AATTATATGTTTTATATTGTTTATTTGCATGATAATATATTT
1 ATTTGCATGTTTTATATTG-TTAATTGCATGATAATATATTT
*
10750446 ATTTACATGTTTTATATTGTTAATTGCATGATAATATATTT
1 ATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
* *
10750487 ATTTGCATG-ATTATATAT-TTAATTGCATGAT-TTATATTGT
1 ATTTGCATGTTTTATAT-TGTTAATTGCATGATAATATATT-T
* *
10750527 TTATTGCATG-ATTATATAT-TTAATTGCATGAT
1 AT-TTGCATGTTTTATAT-TGTTAATTGCATGAT
10750559 TTATATTGTT
Statistics
Matches: 174, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 6 0.03
40 21 0.12
41 111 0.64
42 36 0.21
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.54
Consensus pattern (41 bp):
ATTTGCATGTTTTATATTGTTAATTGCATGATAATATATTT
Found at i:10750410 original size:10 final size:11
Alignment explanation
Indices: 10750374--10750414 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
10750364 TTTGCATGTT
10750374 TTATATTGTTAA
1 TTATA-TGTTAA
*
10750386 TTATATGATAA
1 TTATATGTTAA
10750397 -TATAT-TTAA
1 TTATATGTTAA
10750406 TTATATGTT
1 TTATATGTT
10750415 TTATATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 3 0.12
10 10 0.40
11 7 0.28
12 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
TTATATGTTAA
Found at i:10750445 original size:83 final size:82
Alignment explanation
Indices: 10750328--10750487 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 82
10750318 TAGAATTTGC
* * *
10750328 ATGTTTTGTAGTGTTAATTGCATAATAATATATTTATTTGCATGTTTTATATTGTTAATTATATG
1 ATGTTTTATAGTGTTAATTGCATAATAATATATTTATTTACATGTTTTATATTGTTAATTACATG
10750393 ATAATATATTTAATTAT
66 ATAATATATTTAATTAT
* * * *
10750410 ATGTTTTATATTGTTTATTTGCATGATAATATATTTATTTACATGTTTTATATTGTTAATTGCAT
1 ATGTTTTATAGTG-TTAATTGCATAATAATATATTTATTTACATGTTTTATATTGTTAATTACAT
10750475 GATAATATATTTA
65 GATAATATATTTA
10750488 TTTGCATGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 11 0.16
83 59 0.84
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (82 bp):
ATGTTTTATAGTGTTAATTGCATAATAATATATTTATTTACATGTTTTATATTGTTAATTACATG
ATAATATATTTAATTAT
Found at i:10750463 original size:61 final size:59
Alignment explanation
Indices: 10750341--10750669 Score: 216
Period size: 61 Copynumber: 5.4 Consensus size: 59
10750331 TTTTGTAGTG
* * ** * *
10750341 TTAATTGCATAATAATATATTTATTTGCATG-TTTTATATTGTTAATTATATGATAATATAT
1 TTAATTACATGATAATATATTTATTTGCATGATAATATA-T-TTAATTACATGAT-TTATAT
* * * * * *
10750402 TTAATTATATGTTTTATATTGTTTATTTGCATGATAATATATTTATTTACATGTTTTATATT
1 TTAATTACATG-ATAATA-TATTTATTTGCATGATAATATATTTAATTACATGATTTATA-T
* * *
10750464 GTTAATTGCATGATAATATATTTATTTGCATGATTATATATTTAATTGCATGATTTATATT
1 -TTAATTACATGATAATATATTTATTTGCATGATAATATATTTAATTACATGATTTATA-T
* * * * * *
10750525 GTTTATTGCATGATTATATATTTAATTGCATGAT-TTATATTGTTAATTGCATGATTATATAT
1 -TTAATTACATGATAATATATTTATTTGCATGATAATATA-T-TTAATTACATGATT-TATAT
* * ** * * * *
10750587 TTAGTTGCATG-TTTTATATTTAATTGCATGATCATATATTTAATTGA-ATGTTTTACATTT
1 TTAATTACATGATAATATATTTATTTGCATGATAATATATTTAATT-ACATGATTT--ATAT
* *
10750647 TTAATTACATGATTAGATATTTA
1 TTAATTACATGATAATATATTTA
10750670 ATGGCATGTT
Statistics
Matches: 219, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
58 1 0.00
59 11 0.05
60 37 0.17
61 104 0.47
62 34 0.16
63 27 0.12
64 5 0.02
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (59 bp):
TTAATTACATGATAATATATTTATTTGCATGATAATATATTTAATTACATGATTTATAT
Found at i:10750559 original size:41 final size:41
Alignment explanation
Indices: 10750457--10750717 Score: 318
Period size: 41 Copynumber: 6.5 Consensus size: 41
10750447 TTTACATGTT
* *
10750457 TTATAT-TGTTAATTGCATGA-TAATATAT-TTATTTGCATGA
1 TTATATAT-TTAATTGCATGATTTATAT-TGTTAATTGCATGA
*
10750497 TTATATATTTAATTGCATGATTTATATTGTTTATTGCATGA
1 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
10750538 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
1 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
* *
10750579 TTATATATTTAGTTGCATGTTTTATA-T-TTAATTGCATGA
1 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
* * * * * *
10750618 TCATATATTTAATTGAATGTTTTACATTTTTAATTACATGA
1 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
* * *
10750659 TTAGATATTTAATGGCATG-TTTACATTGTTAATTGCATGA
1 TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
* *
10750699 TTATATAATTACTTGCATG
1 TTATATATTTAATTGCATG
10750718 TCTATTTGCA
Statistics
Matches: 195, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
39 34 0.17
40 55 0.28
41 106 0.54
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (41 bp):
TTATATATTTAATTGCATGATTTATATTGTTAATTGCATGA
Found at i:10750571 original size:102 final size:103
Alignment explanation
Indices: 10750390--10750618 Score: 345
Period size: 102 Copynumber: 2.2 Consensus size: 103
10750380 TGTTAATTAT
* ** * *
10750390 ATGATAATATATTTAATTATATGTTTTATATTGTTTATTTGCATGATAATATATTTATTTACATG
1 ATGATTATATATTTAATTGCATGATTTATATTGTTTATTTGCATGATAATATATTTAATTACATG
* *
10750455 TTTTATATTGTTAATTGCATGATAATATATTTATTTGC
66 ATTTATATTGTTAATTGCATGATAATATATTTAGTTGC
* *
10750493 ATGATTATATATTTAATTGCATGATTTATATTGTTTA-TTGCATGATTATATATTTAATTGCATG
1 ATGATTATATATTTAATTGCATGATTTATATTGTTTATTTGCATGATAATATATTTAATTACATG
*
10750557 ATTTATATTGTTAATTGCATGATTATATATTTAGTTGC
66 ATTTATATTGTTAATTGCATGATAATATATTTAGTTGC
*
10750595 ATG-TTTTATATTTAATTGCATGAT
1 ATGATTATATATTTAATTGCATGAT
10750619 CATATATTTA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
101 20 0.17
102 62 0.54
103 33 0.29
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.53
Consensus pattern (103 bp):
ATGATTATATATTTAATTGCATGATTTATATTGTTTATTTGCATGATAATATATTTAATTACATG
ATTTATATTGTTAATTGCATGATAATATATTTAGTTGC
Found at i:10750677 original size:20 final size:20
Alignment explanation
Indices: 10750341--10750717 Score: 307
Period size: 20 Copynumber: 18.6 Consensus size: 20
10750331 TTTTGTAGTG
* *
10750341 TTAATTGCATAATAATATAT
1 TTAATTGCATGATTATATAT
* *
10750361 TTATTTGCATG-TTTTATATT
1 TTAATTGCATGATTATATA-T
** *
10750381 GTTAATTATATGATAATATAT
1 -TTAATTGCATGATTATATAT
** * *
10750402 TTAATTATATGTTTTATATTGT
1 TTAATTGCATG-ATTATA-TAT
* *
10750424 TTATTTGCATGATAATATAT
1 TTAATTGCATGATTATATAT
* * *
10750444 TTATTTACATG-TTTTATATT
1 TTAATTGCATGATTATATA-T
*
10750464 GTTAATTGCATGATAATATAT
1 -TTAATTGCATGATTATATAT
*
10750485 TTATTTGCATGATTATATAT
1 TTAATTGCATGATTATATAT
10750505 TTAATTGCATGATT-TATATT
1 TTAATTGCATGATTATATA-T
*
10750525 GTTTATTGCATGATTATATAT
1 -TTAATTGCATGATTATATAT
10750546 TTAATTGCATGATT-TATATT
1 TTAATTGCATGATTATATA-T
10750566 GTTAATTGCATGATTATATAT
1 -TTAATTGCATGATTATATAT
* *
10750587 TTAGTTGCATG-TTTTATAT
1 TTAATTGCATGATTATATAT
*
10750606 TTAATTGCATGATCATATAT
1 TTAATTGCATGATTATATAT
* * * *
10750626 TTAATTGAATGTTTTACATTT
1 TTAATTGCATG-ATTATATAT
* *
10750647 TTAATTACATGATTAGATAT
1 TTAATTGCATGATTATATAT
* * *
10750667 TTAATGGCATGTTTACAT-T
1 TTAATTGCATGATTATATAT
*
10750686 GTTAATTGCATGATTATATAA
1 -TTAATTGCATGATTATATAT
*
10750707 TTACTTGCATG
1 TTAATTGCATG
10750718 TCTATTTGCA
Statistics
Matches: 285, Mismatches: 54, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
19 36 0.13
20 151 0.53
21 70 0.25
22 28 0.10
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (20 bp):
TTAATTGCATGATTATATAT
Found at i:10750677 original size:61 final size:60
Alignment explanation
Indices: 10750423--10750677 Score: 266
Period size: 61 Copynumber: 4.2 Consensus size: 60
10750413 TTTTATATTG
* * * *
10750423 TTTATTTGCATGATAATATATTT-ATTTACATGTTTTATATTGTTAATTGCATGATAATATA
1 TTTAATTGCATGAT-ATATATTTAATTGA-ATGTTTTATATTTTTAATTGCATGATTATATA
* * *
10750484 TTTATTTGCATGATTATATATTTAATTGCATGATTTATATTGTTT-ATTGCATGATTATATA
1 TTTAATTGCATGA-TATATATTTAATTGAATGTTTTATATT-TTTAATTGCATGATTATATA
* * * * * *
10750545 TTTAATTGCATGATTTATATTGTTAATTGCATG-ATTATATATTTAGTTGCATG-TTTTATA
1 TTTAATTGCATGATATATA-T-TTAATTGAATGTTTTATATTTTTAATTGCATGATTATATA
* * *
10750605 TTTAATTGCATGATCATATATTTAATTGAATGTTTTACATTTTTAATTACATGATTAGATA
1 TTTAATTGCATGAT-ATATATTTAATTGAATGTTTTATATTTTTAATTGCATGATTATATA
*
10750666 TTTAATGGCATG
1 TTTAATTGCATG
10750678 TTTACATTGT
Statistics
Matches: 164, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
59 10 0.06
60 44 0.27
61 93 0.57
62 17 0.10
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (60 bp):
TTTAATTGCATGATATATATTTAATTGAATGTTTTATATTTTTAATTGCATGATTATATA
Found at i:10750799 original size:32 final size:32
Alignment explanation
Indices: 10750727--10750788 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
10750717 GTCTATTTGC
* **
10750727 ATGATTATTAATTTATTTATTTGTGTGATTGT
1 ATGATTATTAATATATTTATTTGCATGATTGT
10750759 ATGATTATTAATATATTTATTTGCATGATT
1 ATGATTATTAATATATTTATTTGCATGATT
10750789 TTATATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTGCATGATTGT
Found at i:10750813 original size:19 final size:20
Alignment explanation
Indices: 10750771--10750814 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10750761 GATTATTAAT
* *
10750771 ATATTTATTTGCATGATTTT
1 ATATTTATTTGCATGATATG
10750791 ATATTTA-TTGCATGATATG
1 ATATTTATTTGCATGATATG
10750810 ATATT
1 ATATT
10750815 ATGTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
ATATTTATTTGCATGATATG
Found at i:10752507 original size:20 final size:21
Alignment explanation
Indices: 10752450--10752508 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
10752440 CCCTATATAT
* *
10752450 ATATATATTATATATTTAATA
1 ATATAAATTTTATATTTAATA
* *
10752471 A-ATTAATTTTTTATTTAATA
1 ATATAAATTTTATATTTAATA
10752491 ATATAAATTTTAT-TTTAA
1 ATATAAATTTTATATTTAA
10752509 ATTTATTAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATAAATTTTATATTTAATA
Found at i:10754394 original size:2 final size:2
Alignment explanation
Indices: 10754389--10754417 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10754379 ACACACACAC
10754389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10754418 AGAATAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10755459 original size:2 final size:2
Alignment explanation
Indices: 10755452--10755478 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10755442 ATTTAATGCT
10755452 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10755479 TCTTCTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10759616 original size:14 final size:15
Alignment explanation
Indices: 10759593--10759628 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10759583 TATGCCAAAC
*
10759593 ATAATATTAAAATTT
1 ATAATCTTAAAATTT
10759608 A-AATCTTAAAATTT
1 ATAATCTTAAAATTT
10759622 ATAATCT
1 ATAATCT
10759629 CTTCTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATCTTAAAATTT
Found at i:10767494 original size:33 final size:31
Alignment explanation
Indices: 10767427--10767507 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 31
10767417 TTTTATAAAA
* *
10767427 TAAAAA-TAATAAATTTATATCAAAATTTATT
1 TAAAAACTAA-AATTTTATATCAAAATATATT
*
10767458 TAAATAGACTAAAATTTTATATTAAAATA-ATAT
1 TAAA-A-ACTAAAATTTTATATCAAAATATAT-T
*
10767491 TAAAAATTAAAATTTTA
1 TAAAAACTAAAATTTTA
10767508 AAATCGATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
31 15 0.36
32 4 0.10
33 20 0.48
34 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (31 bp):
TAAAAACTAAAATTTTATATCAAAATATATT
Found at i:10769461 original size:22 final size:21
Alignment explanation
Indices: 10769418--10769461 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10769408 CGAATTTTTA
* * *
10769418 TATTTTAATATATATTATTAT
1 TATTTTAATAAAAATTAGTAT
10769439 TATTTTAATGAAAAATTAGTAT
1 TATTTTAAT-AAAAATTAGTAT
10769461 T
1 T
10769462 TTACCATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TATTTTAATAAAAATTAGTAT
Found at i:10769673 original size:25 final size:25
Alignment explanation
Indices: 10769626--10769675 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10769616 TTAAAACTTG
* * **
10769626 AACAAATTTGAATTGAATTTCAAAT
1 AACAAATTTCAATTCAAACTCAAAT
10769651 AACAAATTTCAATTCAAACTCAAAT
1 AACAAATTTCAATTCAAACTCAAAT
10769676 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.32
Consensus pattern (25 bp):
AACAAATTTCAATTCAAACTCAAAT
Found at i:10770435 original size:2 final size:2
Alignment explanation
Indices: 10770428--10770457 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10770418 TCTCAAATGA
10770428 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
10770458 TCGTGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10774263 original size:2 final size:2
Alignment explanation
Indices: 10774256--10774282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10774246 TTGCAAAAGT
10774256 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10774283 CTTAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10775844 original size:21 final size:19
Alignment explanation
Indices: 10775806--10775844 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
10775796 TGATCATCCT
*
10775806 TTTTCGAAAGCTGGATTTA
1 TTTTCGAAAGATGGATTTA
10775825 TTTTCTGAAAGATGGGATTT
1 TTTTC-GAAAGAT-GGATTT
10775845 CCAAACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (19 bp):
TTTTCGAAAGATGGATTTA
Found at i:10779182 original size:14 final size:14
Alignment explanation
Indices: 10779152--10779196 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10779142 ATATAAAAAT
10779152 TATTT-TTTA-AT-
1 TATTTATTTATATA
10779163 TATTTATTTATATA
1 TATTTATTTATATA
* *
10779177 TATTTATATATTTA
1 TATTTATTTATATA
10779191 TATTTA
1 TATTTA
10779197 AAAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 5 0.17
12 4 0.14
13 2 0.07
14 18 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTATTTATATA
Found at i:10780581 original size:3 final size:3
Alignment explanation
Indices: 10780561--10780596 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10780551 ATTAAAAAGT
* *
10780561 TTA TTT TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10780597 AAGTTTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10781478 original size:49 final size:48
Alignment explanation
Indices: 10781416--10781574 Score: 176
Period size: 48 Copynumber: 3.3 Consensus size: 48
10781406 TTTTTAATTT
* * *
10781416 AAAAAGCT-ATCTAATTAGATACTTAACAATTTTAAAAATTCATCTTGA
1 AAAAAGCTCATCTAAGTAGAAACTTAACAACTTT-AAAATTCATCTTGA
* ***
10781464 AAAAAGTTCATCTAAGTAGAGGTTTAACAACTTTAAAATTCATCTTGA
1 AAAAAGCTCATCTAAGTAGAAACTTAACAACTTTAAAATTCATCTTGA
* * * * * *
10781512 AAAACGCTCATCCAAGCAGAAACTCAACAACTTTAAAATTCATATTGG
1 AAAAAGCTCATCTAAGTAGAAACTTAACAACTTTAAAATTCATCTTGA
*
10781560 AAAAAGCTCCTCTAA
1 AAAAAGCTCATCTAA
10781575 CTTTTAAAAT
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 71 0.78
49 20 0.22
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCATCTAAGTAGAAACTTAACAACTTTAAAATTCATCTTGA
Found at i:10781582 original size:34 final size:33
Alignment explanation
Indices: 10781543--10781607 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
10781533 ACTCAACAAC
*
10781543 TTTAAAATTCATATTGGAAAAAGCTCCTCTAACT
1 TTTAAAATTCAT-TTGAAAAAAGCTCCTCTAACT
*
10781577 TTTAAAATTCATTTTAAAAAAGCTCCTCTAA
1 TTTAAAATTCATTTGAAAAAAGCTCCTCTAA
10781608 GCATAGACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (33 bp):
TTTAAAATTCATTTGAAAAAAGCTCCTCTAACT
Found at i:10781627 original size:81 final size:82
Alignment explanation
Indices: 10781495--10781649 Score: 213
Period size: 81 Copynumber: 1.9 Consensus size: 82
10781485 GTTTAACAAC
* *
10781495 TTTAAAATTCATCTTGAAAAACGCTCATCCAAGCAGAAACTCAACAACTTTAAAATTCATATTGG
1 TTTAAAATTCATCTTGAAAAAAGCTCATCCAAGCAGAAACTCAACAACTTTAAAATTCATATTGA
10781560 AAAAAGCTCCTCTAACT
66 AAAAAGCTCCTCTAACT
* * * * * * * *
10781577 TTTAAAATTCAT-TTTAAAAAAGCTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGA
1 TTTAAAATTCATCTTGAAAAAAGCTCATCCAAGCAGAAACTCAACAACTTTAAAATTCATATTGA
10781641 AAAAAGCTC
66 AAAAAGCTC
10781650 TTATAAGTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 51 0.81
82 12 0.19
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (82 bp):
TTTAAAATTCATCTTGAAAAAAGCTCATCCAAGCAGAAACTCAACAACTTTAAAATTCATATTGA
AAAAAGCTCCTCTAACT
Found at i:10781706 original size:49 final size:48
Alignment explanation
Indices: 10781572--10781754 Score: 206
Period size: 49 Copynumber: 3.8 Consensus size: 48
10781562 AAAGCTCCTC
* * * *
10781572 TAACTTTTAAAATTCAT-TTTAAAAAAGCTCCTCTAAGCATAGACTCAA
1 TAAC-TTTAAAATTCATCTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAA
* * * *
10781620 TAACTTTAAAATTTATTTTGAAAAAAGCTCTTATAAGTAGAGGCTCAA
1 TAACTTTAAAATTCATCTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAA
* * * * *
10781668 TAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGTTTAA
1 TAACTTT-AAAATTCATCTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAA
*
10781717 TAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAG
1 TAACTTT-AAAATTCATCTTGAAAAAAGCTCCTCTAAG
10781755 CAATCTGTTC
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
47 11 0.10
48 35 0.30
49 69 0.60
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (48 bp):
TAACTTTAAAATTCATCTTGAAAAAAGCTCCTCTAAGTAGAGGCTCAA
Found at i:10781852 original size:227 final size:227
Alignment explanation
Indices: 10781583--10782036 Score: 899
Period size: 227 Copynumber: 2.0 Consensus size: 227
10781573 AACTTTTAAA
10781583 ATTCATTTTAAAAAAGCTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGAAAAAAGC
1 ATTCATTTTAAAAAAGCTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGAAAAAAGC
10781648 TCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGT
66 TCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGT
10781713 TTAATAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAGCAATCTGTTCTCAAAATTGAGTT
131 TTAATAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAGCAATCTGTTCTCAAAATTGAGTT
10781778 CTCATCTCTGAACAAGTAAATTTCTCTTTCTT
196 CTCATCTCTGAACAAGTAAATTTCTCTTTCTT
*
10781810 ATTCATTTTAAAAAAGTTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGAAAAAAGC
1 ATTCATTTTAAAAAAGCTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGAAAAAAGC
10781875 TCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGT
66 TCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGT
10781940 TTAATAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAGCAATCTGTTCTCAAAATTGAGTT
131 TTAATAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAGCAATCTGTTCTCAAAATTGAGTT
10782005 CTCATCTCTGAACAAGTAAATTTCTCTTTCTT
196 CTCATCTCTGAACAAGTAAATTTCTCTTTCTT
10782037 GAAATCATTT
Statistics
Matches: 226, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 226 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (227 bp):
ATTCATTTTAAAAAAGCTCCTCTAAGCATAGACTCAATAACTTTAAAATTTATTTTGAAAAAAGC
TCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAGAAAAGTTCCTCTAAGTAGAGGT
TTAATAACTTTAAAAATTCATCTTGAGAAAAGCTCCTCTAAGCAATCTGTTCTCAAAATTGAGTT
CTCATCTCTGAACAAGTAAATTTCTCTTTCTT
Found at i:10781933 original size:49 final size:49
Alignment explanation
Indices: 10781821--10781981 Score: 198
Period size: 49 Copynumber: 3.3 Consensus size: 49
10781811 TTCATTTTAA
* * * * * * *
10781821 AAAAGTTCCTCTAAGCATAGACTCAATAACTTT-AAAATTTATTTTGAA
1 AAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAG
* * *
10781869 AAAAGCTCTTATAAGTAGAGGCTCAATAATTTTAAAAATTCATCTTGAG
1 AAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAG
* * *
10781918 AAAAGTTCCTCTAAGTAGAGGTTTAATAACTTTAAAAATTCATCTTGAG
1 AAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAG
10781967 AAAAGCTCCTCTAAG
1 AAAAGCTCCTCTAAG
10781982 CAATCTGTTC
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 26 0.27
49 69 0.73
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (49 bp):
AAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAG
Found at i:10782835 original size:23 final size:24
Alignment explanation
Indices: 10782799--10782845 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
10782789 ATATGTCATT
10782799 CTTTTTTTCACTTTT-TATTTTTA
1 CTTTTTTTCACTTTTCTATTTTTA
** *
10782822 CTTTTTTTTTCTTTTCTTTTTTTA
1 CTTTTTTTCACTTTTCTATTTTTA
10782846 AGTAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (24 bp):
CTTTTTTTCACTTTTCTATTTTTA
Found at i:10794262 original size:3 final size:3
Alignment explanation
Indices: 10794256--10794300 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10794246 AAGTTTTTTG
10794256 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10794301 AAGTTTATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10795738 original size:61 final size:59
Alignment explanation
Indices: 10795568--10795741 Score: 197
Period size: 62 Copynumber: 2.8 Consensus size: 59
10795558 ATTTTTAGTC
* *
10795568 AAAAAATGCCTTAAATAATCTCTAATATTTTTTTAAAGGTGATTATTTAAGGAGTTTTTGAT
1 AAAAAATGCCTTAAATAATATCTAATA-TTTTTTAAATGT-ATTATTTAA-GAGTTTTTGAT
* * * *
10795630 TAAAAACGTCTTAAATAATA-CTATTTAATTTTTTAAATGATATTATTTAAGATGTTTTTGAT
1 AAAAAATGCCTTAAATAATATCTA-AT-ATTTTTTAAATG-TATTATTTAAGA-GTTTTTGAT
* *
10795692 AAAAAATACCTTAAATAATATCTAATATTTTTTAAATAGTAGTATTTAAG
1 AAAAAATGCCTTAAATAATATCTAATATTTTTTAAAT-GTATTATTTAAG
10795742 GCATTTTTAG
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
61 26 0.28
62 63 0.67
63 5 0.05
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (59 bp):
AAAAAATGCCTTAAATAATATCTAATATTTTTTAAATGTATTATTTAAGAGTTTTTGAT
Found at i:10795749 original size:61 final size:59
Alignment explanation
Indices: 10795550--10795749 Score: 190
Period size: 62 Copynumber: 3.2 Consensus size: 59
10795540 GAAGGGATTG
* *
10795550 TTTAAGGAATTTTT-AGTCAAAAAATGCCTTAAATAATCTCTAATATTTTTTTAAAGGTGATTA
1 TTTAAGG-ATTTTTGA-T-AAAAAATGCCTTAAATAATATCTAATA-TTTTTTAAATGT-ATTA
* * * *
10795613 TTTAAGGAGTTTTTGATTAAAAACGTCTTAAATAATA-CTATTTAATTTTTTAAATGATATTA
1 TTTAAGGA-TTTTTGATAAAAAATGCCTTAAATAATATCTA-AT-ATTTTTTAAATG-TATTA
* *
10795675 TTTAA-GATGTTTTTGATAAAAAATACCTTAAATAATATCTAATATTTTTTAAATAGTAGTA
1 TTTAAGGA--TTTTTGATAAAAAATGCCTTAAATAATATCTAATATTTTTTAAAT-GTATTA
10795736 TTTAAGGCATTTTT
1 TTTAAGG-ATTTTT
10795750 AGTTTTTTGA
Statistics
Matches: 115, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
61 30 0.26
62 65 0.57
63 19 0.17
64 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.46
Consensus pattern (59 bp):
TTTAAGGATTTTTGATAAAAAATGCCTTAAATAATATCTAATATTTTTTAAATGTATTA
Found at i:10795756 original size:33 final size:33
Alignment explanation
Indices: 10795719--10795783 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
10795709 ATATCTAATA
10795719 TTTTTTAAATAG-TAGTATTTAAGGCATTTTTAG
1 TTTTTTAAA-AGATAGTATTTAAGGCATTTTTAG
* * * *
10795752 TTTTTTGAAGGATATTATTTAGGGCATTTTTA
1 TTTTTTAAAAGATAGTATTTAAGGCATTTTTA
10795784 AAAAAATGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (33 bp):
TTTTTTAAAAGATAGTATTTAAGGCATTTTTAG
Found at i:10796337 original size:62 final size:63
Alignment explanation
Indices: 10796257--10796383 Score: 161
Period size: 62 Copynumber: 2.0 Consensus size: 63
10796247 AAAACATTTA
* * *
10796257 TGACTAAAAAATATCTTAAATAATGC-TGATAAA-TTTTTTTATAAGATTGTTTAAGGT-TTTTT
1 TGACTAAAAAACACCTTAAATAAT-CATGATAAATTTTTTTTAT-AGATTATTTAAGGTATTTTT
* * *
10796319 TGACTAGAAAACACCTTAAATAATCATGTTCAATTTTTTTTATAGATTATTTAAGGTATTTTT
1 TGACTAAAAAACACCTTAAATAATCATGATAAATTTTTTTTATAGATTATTTAAGGTATTTTT
10796382 TG
1 TG
10796384 TAATTCAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
61 1 0.02
62 39 0.70
63 16 0.29
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (63 bp):
TGACTAAAAAACACCTTAAATAATCATGATAAATTTTTTTTATAGATTATTTAAGGTATTTTT
Found at i:10797005 original size:10 final size:10
Alignment explanation
Indices: 10796990--10797019 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10796980 ATCAAAATTT
10796990 TATATTTTAA
1 TATATTTTAA
10797000 TATATTTTAA
1 TATATTTTAA
10797010 T-TATTTTAA
1 TATATTTTAA
10797019 T
1 T
10797020 TTAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:10799886 original size:2 final size:2
Alignment explanation
Indices: 10799879--10799904 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10799869 TGCTGCTTAA
10799879 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
10799905 TGACCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10807044 original size:2 final size:2
Alignment explanation
Indices: 10807039--10807065 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10807029 ATATATATAT
10807039 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
10807066 TTTTGGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10811564 original size:64 final size:65
Alignment explanation
Indices: 10811482--10811666 Score: 207
Period size: 65 Copynumber: 2.9 Consensus size: 65
10811472 GAGACCAGAG
* * * ** *
10811482 AGTTGGGCCTGTAGTGGGCCATTGAGCCCATAAAGGCTTAAAAGATTAACCTTCCA-GGCCAACA
1 AGTTGGGCCTATATTGGGCCATTGAGCCCATAAAGGCCTAAAAGATTTGCCTTCCAGGGCCAAAA
* *
10811546 AGTTGGGCCCTAT-TTGGGCCA-TGAAGCCCATGAAAGGCCGAAAAGATTTGCCTT-CAGGGCTA
1 AGTTGGG-CCTATATTGGGCCATTG-AGCCCAT-AAAGGCCTAAAAGATTTGCCTTCCAGGGCCA
10811608 AAA
63 AAA
* * **
10811611 AGTTGGGCCTTTATTGGGCCATTGAGCCTATACGGGCCTAAAAGATTTGCCTTCCA
1 AGTTGGGCCTATATTGGGCCATTGAGCCCATAAAGGCCTAAAAGATTTGCCTTCCA
10811667 TCACGAGAAC
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
63 2 0.02
64 46 0.46
65 51 0.50
66 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (65 bp):
AGTTGGGCCTATATTGGGCCATTGAGCCCATAAAGGCCTAAAAGATTTGCCTTCCAGGGCCAAAA
Found at i:10824187 original size:74 final size:74
Alignment explanation
Indices: 10824065--10824212 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
10824055 TGTGTAATGT
* * *
10824065 GTGGTCCATTAAAAGAGTATTAGATTTTTAATTGAAATGATTACAATTTAATTTTTGAAAACATT
1 GTGGTCCATTAAAAGAGTATTAGATTTTTAATTGAAATAATTAAAATTTAATTTTTGAAAAAATT
10824130 AAATATAAA
66 AAATATAAA
*
10824139 GTGGTCCATTAAAAGAGTATTAGATTTTTAATTTAAATAATTAAAATTTAATTTTTGAAAAAATT
1 GTGGTCCATTAAAAGAGTATTAGATTTTTAATTGAAATAATTAAAATTTAATTTTTGAAAAAATT
10824204 AAATATAAA
66 AAATATAAA
10824213 AAAATTAATT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (74 bp):
GTGGTCCATTAAAAGAGTATTAGATTTTTAATTGAAATAATTAAAATTTAATTTTTGAAAAAATT
AAATATAAA
Found at i:10833206 original size:8 final size:8
Alignment explanation
Indices: 10833189--10833234 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
10833179 TATGATTTTT
10833189 TAAA-ATA
1 TAAATATA
10833196 TAAATATA
1 TAAATATA
*
10833204 TAATTATA
1 TAAATATA
10833212 TAAATATA
1 TAAATATA
10833220 TAAAATATA
1 T-AAATATA
10833229 TAAATA
1 TAAATA
10833235 AAAATTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
7 4 0.11
8 23 0.66
9 8 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAATATA
Found at i:10842321 original size:16 final size:16
Alignment explanation
Indices: 10842286--10842319 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
10842276 TTTTAATTAT
10842286 TAATTTATTAAAAATA
1 TAATTTATTAAAAATA
10842302 TAATTTATATTAAAAATA
1 TAA-TT-TATTAAAAATA
10842320 ATGTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 2 0.12
18 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATTTATTAAAAATA
Found at i:10852541 original size:19 final size:20
Alignment explanation
Indices: 10852501--10852545 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
10852491 TGTTAAATTA
10852501 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
10852522 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
10852541 ATAAA
1 ATAAA
10852546 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:10852549 original size:6 final size:6
Alignment explanation
Indices: 10852538--10852607 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
10852528 TATTATTTTT
*
10852538 AATATA AATATA AA-ATT AA-ATA AATATA AA-A-A ATATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA A-ATATA AATATA
* *
10852583 AA-ATTA AATAATA TATATA TATATA
1 AATA-TA AAT-ATA AATATA AATATA
10852608 TACACCAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
4 2 0.04
5 11 0.20
6 34 0.63
7 6 0.11
8 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:10852569 original size:17 final size:16
Alignment explanation
Indices: 10852536--10852599 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 16
10852526 AATATTATTT
10852536 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
10852553 TTAAATAAATATAAAAA
1 TTAAATAAATAT-AAAA
* *
10852570 ATATATAAATATAAAA
1 TTAAATAAATATAAAA
10852586 TTAAATAATATATA
1 TTAAATAA-ATATA
10852600 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 18 0.44
17 23 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:10852590 original size:23 final size:24
Alignment explanation
Indices: 10852559--10852605 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10852549 AAAATTAAAT
10852559 AAATATAAAAAATATATAAATATA
1 AAATATAAAAAATATATAAATATA
* *
10852583 AAAT-TAAATAATATATATATATA
1 AAATATAAAAAATATATAAATATA
10852606 TATACACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATATAAAAAATATATAAATATA
Found at i:10852593 original size:27 final size:28
Alignment explanation
Indices: 10852545--10852609 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
10852535 TTTAATATAA
*
10852545 ATATAAA-ATTAAATAAATATAAAAAAT
1 ATATAAATATAAAATAAATATAAAAAAT
* * *
10852572 ATATAAATATAAAATTAA-ATAATATAT
1 ATATAAATATAAAATAAATATAAAAAAT
*
10852599 ATATATATATA
1 ATATAAATATA
10852610 CACCAATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 24 0.75
28 8 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAATATAAAATAAATATAAAAAAT
Found at i:10854042 original size:21 final size:19
Alignment explanation
Indices: 10854012--10854085 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 19
10854002 TTATATATAT
10854012 TATTATTTATAAAAAAATTAA
1 TATT-TTTATAAAAAAATT-A
10854033 TATATTTTATTTAAAAAAATTA
1 TAT-TTTTA--TAAAAAAATTA
*
10854055 TATTTTTATTAAAAAATCTA
1 TATTTTTATAAAAAAAT-TA
10854075 TATTTTTATAA
1 TATTTTTATAA
10854086 TAATTTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.17
20 12 0.26
21 12 0.26
22 5 0.11
23 10 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTTTATAAAAAAATTA
Found at i:10854238 original size:25 final size:25
Alignment explanation
Indices: 10854210--10854258 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10854200 TGAATTAATT
* *
10854210 GATTATTACTCATCAAATAAATTAA
1 GATTATTAATCATCAAACAAATTAA
10854235 GATTATTAATCATCAAACAAATTA
1 GATTATTAATCATCAAACAAATTA
10854259 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
GATTATTAATCATCAAACAAATTAA
Found at i:10855883 original size:27 final size:28
Alignment explanation
Indices: 10855834--10855888 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
10855824 TTTTTAAATC
**
10855834 AAAATAAATATATTATATTTAATAATATT
1 AAAATAAATATATTATAAATAAT-ATATT
10855863 AAAA-AAATA-ATTATAAATAATATATT
1 AAAATAAATATATTATAAATAATATATT
10855889 CAAGATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 10 0.42
28 5 0.21
29 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAATAAATATATTATAAATAATATATT
Found at i:10858204 original size:2 final size:2
Alignment explanation
Indices: 10858197--10858231 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10858187 ACAGAAGAAA
*
10858197 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10858232 AGAAAGGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10858987 original size:23 final size:22
Alignment explanation
Indices: 10858959--10859002 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
10858949 AAATTTGATT
10858959 TTAATCGAATTCTAATGATTTAG
1 TTAATCGAATTCTAA-GATTTAG
* *
10858982 TTAATCGATTTTTAAGATTTA
1 TTAATCGAATTCTAAGATTTA
10859003 TTTTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (22 bp):
TTAATCGAATTCTAAGATTTAG
Found at i:10860173 original size:23 final size:24
Alignment explanation
Indices: 10860143--10860187 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
10860133 CTTAGGAAGA
*
10860143 TTTCAACAAAGTTT-AAAGGTTGC
1 TTTCAACAAAATTTAAAAGGTTGC
10860166 TTTCAACAAAATTTAAAAGGTT
1 TTTCAACAAAATTTAAAAGGTT
10860188 TTGTAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (24 bp):
TTTCAACAAAATTTAAAAGGTTGC
Found at i:10869024 original size:55 final size:53
Alignment explanation
Indices: 10868963--10869242 Score: 171
Period size: 55 Copynumber: 5.2 Consensus size: 53
10868953 TAAACTTAAA
* * *
10868963 AATTTTTTTACATATACTGATGCTTAAAGCTCGTCAATATAGACTTATATGTTTT
1 AATTTTTTTACCTATACCGATG-TTAAAGCT-GTCAGTATAGACTTATATGTTTT
* *
10869018 AATTTTTCTTACCTATACCGATAGTTAATACCTGTCAGTATAAAC---T-TG---T
1 AATTTTT-TTACCTATACCGAT-GTTAA-AGCTGTCAGTATAGACTTATATGTTTT
** * * * * * *
10869067 AATTTTTCTTATTTATACTGATGCTTAGTATCCGTTAGTATAGACTTGTAT-TTTT
1 AATTTTT-TTACCTATACCGATG-TTA-AAGCTGTCAGTATAGACTTATATGTTTT
* * * * * *
10869122 AAAATTTTTTACCTATACCAATAGTTAGAGACTGTCAGTATAGAATTGTATGCTTT
1 -AATTTTTTTACCTATACCGAT-GTTAAAG-CTGTCAGTATAGACTTATATGTTTT
* * * * *
10869178 AATTTTCTTACCTATACCGACTGTTAGAGATTGTCAATATAGATTTATATGTTTT
1 AATTTTTTTACCTATACCGA-TGTTAAAG-CTGTCAGTATAGACTTATATGTTTT
10869233 AATTTTTTTA
1 AATTTTTTTA
10869243 TTATGTTTTA
Statistics
Matches: 175, Mismatches: 33, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
48 1 0.01
49 35 0.20
52 3 0.02
53 2 0.01
54 1 0.01
55 92 0.53
56 37 0.21
57 4 0.02
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (53 bp):
AATTTTTTTACCTATACCGATGTTAAAGCTGTCAGTATAGACTTATATGTTTT
Found at i:10869157 original size:104 final size:103
Alignment explanation
Indices: 10868890--10869171 Score: 284
Period size: 105 Copynumber: 2.7 Consensus size: 103
10868880 GTTAACACTT
* * * * * * * *
10868890 GTTAATATATACTTGTATGTTTTAATTTTTTTTGCCTATACCTATGGTTAACGCCCGTCAATATA
1 GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTAA-GACTGTCAGTATA
**
10868955 AACTTAAAAATTTTTTTACATATACTGATGCTTAAAGCTC
65 AACTT-GTAATTTTTTTACATATACTGATGCTTAAAGCTC
* * * *
10868995 GTCAATATAGACTTATATGTTTT-AATTTTTCTTACCTATACCGATAGTTAATACCTGTCAGTAT
1 GTTAATATAGACTTGTATGTTTTAAATTTTT-TTACCTATACCAATAGTTAAGA-CTGTCAGTAT
** * *
10869059 AAACTTGTAATTTTTCTTATTTATACTGATGCTTAGTATC-C
64 AAACTTGTAATTTTT-TTACATATACTGATGCTTA-AAGCTC
* *
10869100 GTTAGTATAGACTTGTAT-TTTTAAAATTTTTTACCTATACCAATAGTTAGAGACTGTCAGTATA
1 GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTA-AGACTGTCAGTATA
10869164 GAA-TTGTA
65 -AACTTGTA
10869172 TGCTTTAATT
Statistics
Matches: 147, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
104 51 0.35
105 94 0.64
106 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (103 bp):
GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTAAGACTGTCAGTATAA
ACTTGTAATTTTTTTACATATACTGATGCTTAAAGCTC
Found at i:10869375 original size:24 final size:24
Alignment explanation
Indices: 10869343--10869389 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10869333 TTTTTTTAAA
*
10869343 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATTA-TAATATT
10869368 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
10869390 GATATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:10872472 original size:31 final size:31
Alignment explanation
Indices: 10872414--10872511 Score: 119
Period size: 31 Copynumber: 3.2 Consensus size: 31
10872404 ATAATTCTAT
*
10872414 TTTTTAAAATGATAT-GAATTTTTTTATTTAA
1 TTTTTAAAATGATATAGAA-ATTTTTATTTAA
*
10872445 TATTTTAAAATGATATAG-ACTTTTTATTTAA
1 T-TTTTAAAATGATATAGAAATTTTTATTTAA
** *
10872476 TTTTTAAACCGATGTAGAAATTTTTATTTAA
1 TTTTTAAAATGATATAGAAATTTTTATTTAA
10872507 TTTTT
1 TTTTT
10872512 TGAAAAAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
30 13 0.22
31 30 0.51
32 15 0.25
33 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (31 bp):
TTTTTAAAATGATATAGAAATTTTTATTTAA
Done.