Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 61 of 133
Found at i:12494324 original size:32 final size:32
Alignment explanation
Indices: 12494283--12494348 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
12494273 CTTATAACTC
12494283 CTATTCGATTCAAAGGTTTATTCATAATGACT
1 CTATTCGATTCAAAGGTTTATTCATAATGACT
12494315 CTATTCGATTCAAAGGTTTATTCATAATGACT
1 CTATTCGATTCAAAGGTTTATTCATAATGACT
12494347 CT
1 CT
12494349 TCCTACTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (32 bp):
CTATTCGATTCAAAGGTTTATTCATAATGACT
Found at i:12495033 original size:17 final size:17
Alignment explanation
Indices: 12495013--12495047 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12495003 AATTAAATGT
*
12495013 TTTAATTTCAAAGTCAA
1 TTTAATTTCAAACTCAA
12495030 TTTAATTTCAAACTCAA
1 TTTAATTTCAAACTCAA
12495047 T
1 T
12495048 AAATCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTAATTTCAAACTCAA
Found at i:12498948 original size:25 final size:25
Alignment explanation
Indices: 12498901--12498948 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
12498891 CCAGATAAGA
*
12498901 AGAAGAAGAAAGAAAGAGGTAGACT
1 AGAAGAAGAAAGAAAGAGATAGACT
*
12498926 AGAAG-AGAAATAAAGAGAATAGA
1 AGAAGAAGAAAGAAAGAG-ATAGA
12498949 GATACAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.08
Consensus pattern (25 bp):
AGAAGAAGAAAGAAAGAGATAGACT
Found at i:12501077 original size:30 final size:30
Alignment explanation
Indices: 12501036--12501129 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
12501026 CTATAAGCTC
* *
12501036 TTAATCTTTAATTTACATCTAAATAAACCT
1 TTAACCTTTAATTTATATCTAAATAAACCT
* *
12501066 TTAACCTTTAATTTATATCCAAATAAGCCT
1 TTAACCTTTAATTTATATCTAAATAAACCT
**
12501096 TTAACCTTTAATTTATAAATAAATAAACCT
1 TTAACCTTTAATTTATATCTAAATAAACCT
12501126 TTAA
1 TTAA
12501130 TATAAATCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAACCTTTAATTTATATCTAAATAAACCT
Found at i:12502739 original size:17 final size:17
Alignment explanation
Indices: 12502706--12502737 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12502696 AAAGTCAATC
12502706 ATTTTTAAAAGTTAAAT
1 ATTTTTAAAAGTTAAAT
12502723 ATTTTTAAAA-TTAAA
1 ATTTTTAAAAGTTAAA
12502738 ATGAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTTTAAAAGTTAAAT
Found at i:12509455 original size:125 final size:126
Alignment explanation
Indices: 12509317--12509584 Score: 385
Period size: 126 Copynumber: 2.1 Consensus size: 126
12509307 CTTTACGGCA
* * * * ** *
12509317 AAAAATACATTCAATAATCTATAGAAAAAATTTGGAATGGATTCTTGAAGGCATTTTTGGC-CAA
1 AAAAATACCTTCAATAATCCATACAAAAAAGTTAAAATAGATTCTTGAAGGCATTTTTGGCTCAA
* ** *
12509381 AGCGTATTCAACAATCCAATCAATAAATTTTTATGAGGGATTATTGAAGGCGATTTTGATC
66 AACACATTCAACAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTGATC
12509442 AAAAATACCTTCAATAATCCATACAAAAAAGTTAAAATAGATTCTTGAAGGCATTTTTGGCTCAA
1 AAAAATACCTTCAATAATCCATACAAAAAAGTTAAAATAGATTCTTGAAGGCATTTTTGGCTCAA
* * * *
12509507 AACACCTTCAATAATCCACTTAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTGATC
66 AACACATTCAACAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTGATC
*
12509568 AAAAACACCTTCAATAA
1 AAAAATACCTTCAATAA
12509585 CATTTTGTTA
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 54 0.43
126 72 0.57
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (126 bp):
AAAAATACCTTCAATAATCCATACAAAAAAGTTAAAATAGATTCTTGAAGGCATTTTTGGCTCAA
AACACATTCAACAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTGATC
Found at i:12509573 original size:64 final size:63
Alignment explanation
Indices: 12509387--12509584 Score: 217
Period size: 64 Copynumber: 3.1 Consensus size: 63
12509377 CCAAAGCGTA
* *
12509387 TTCAACAATCCAATCAATAAATTTTTATGAGGGATTATTGAAGGCGATTTTGATCAAAAATACC
1 TTCAATAATCC-ATCAATAAATTTTTATGAGGGATTATTGAAGGCGATTTTGATCAAAAACACC
* *** * *
12509451 TTCAATAATCCATACAAAAAAGTTAAAAT-A--GATTCTTGAAGGC-ATTTTTGGCTC-AAAACA
1 TTCAATAATCCAT-CAATAAA-TTTTTATGAGGGATTATTGAAGGCGA-TTTT-GATCAAAAACA
12509511 CC
62 CC
* *
12509513 TTCAATAATCCACTTAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTGATCAAAAACACC
1 TTCAATAATCCA-TCAATAAATTTTTATGAGGGATTATTGAAGGCGATTTTGATCAAAAACACC
12509577 TTCAATAA
1 TTCAATAA
12509585 CATTTTGTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
61 5 0.05
62 41 0.38
63 9 0.08
64 48 0.44
65 5 0.05
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (63 bp):
TTCAATAATCCATCAATAAATTTTTATGAGGGATTATTGAAGGCGATTTTGATCAAAAACACC
Found at i:12509719 original size:35 final size:35
Alignment explanation
Indices: 12509671--12509742 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
12509661 ATTATATATG
* *
12509671 TGAAGTCAGTTGTAGGTTTATGCCCAAAAAACATT
1 TGAAGTCAATTGTAGATTTATGCCCAAAAAACATT
* * *
12509706 TGAAGTCAATTGTAGATTTATGCTCAGAAAATATT
1 TGAAGTCAATTGTAGATTTATGCCCAAAAAACATT
12509741 TG
1 TG
12509743 GTTCATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (35 bp):
TGAAGTCAATTGTAGATTTATGCCCAAAAAACATT
Found at i:12513331 original size:236 final size:233
Alignment explanation
Indices: 12512890--12514118 Score: 1216
Period size: 236 Copynumber: 5.2 Consensus size: 233
12512880 TTTTACTGTT
** *
12512890 AAATTTATTTGATGGAAAAATTTTTTGTGACT-TTTTTTATTTTAGGTGATGTTATAATTTTATC
1 AAATTTATTT-AT-GAAAAATTTTTTGTGA-TATTTTTTATTTTAGGTGACATTATAATTTTGTC
* * *
12512954 ATCAATTTAAAATTTTATCTGTGACAAATTTTTTCTGAT-GCATTTTAGGTGATGTTATTTATTT
63 ACCAATTTAAAATTTTATCTGTGAC-AATTTTTTCTAATAG-ATTTTAGGTGATGTTATTAATTT
* * * * * * * * * * * *
12513018 TTTTTATAAATTGAATATTTTAGTTAACTATTAATAACATTACAATTTCGTCATGTTAATGCACG
126 TTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATG
* * *
12513083 GTGTTTTATGATGATAACATAAATATCACAAAGTTTTACCACC
191 GTGTTATATGATGATAACATAAATGTCACAAACTTTTACCACC
** *
12513126 AAATTTATTTCATGAAATTTTTTTTTGTGATGTTATTTTATTTTAGGTGACATTATAATTTTGTC
1 AAATTTATTT-ATGAAA-AATTTTTTGTGATATT-TTTTATTTTAGGTGACATTATAATTTTGTC
* * *
12513191 ACCAATTT-AAATTTTATCTATGATGAATTTTTTCTAATAGATTTTAGGTGATGTGATTAATTTT
63 ACCAATTTAAAATTTTATCTGTGA-CAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTT
* * * * * * *
12513255 TGTTACCAATTAAATACTTTAATTAACTATTAATGACATTCCAATTTTATCACGTCAATGTATGG
127 TGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATGG
* * * *
12513320 TATTATATGATGATAATATAAATGTCACAAACTTTTATCATC
192 TGTTATATGATGATAACATAAATGTCACAAACTTTTACCACC
* * * *
12513362 AAATTTATTTGGTGAAAAATTTTTTATGATGTTTTTTTATTTTAGGTGACTTTATAATTTTGTCA
1 AAATTTATTT-ATGAAAAATTTTTTGTGAT-ATTTTTTATTTTAGGTGACATTATAATTTTGTCA
* * * ** *
12513427 -CAATTTAAAATTTTATCTATAACGAA-TTTTT-TAATAGATTTTAAGTGACATTATTCATTTTT
64 CCAATTTAAAATTTTATCTGTGAC-AATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTT
* * * * * * *
12513489 GTCA-ATAATGGAACATTTTAGTTAATTGTTAATAACATTGCAATTTCATTACATCAATGTATGG
128 GTCACA-AATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATGG
* ***
12513553 TGTTATATGATAATAACATAAATGTCACAAACTTTTATTGCC
192 TGTTATATGATGATAACATAAATGTCACAAACTTTTACCACC
* * * *
12513595 TAATTTATTTAGTAAAAAATTTTTTGTGACATTATTTATTTTAGGTGACATTATAATTTTGTCAC
1 AAATTTATTTA-TGAAAAATTTTTTGTGATATTTTTTATTTTAGGTGACATTATAATTTTGTCAC
* * * * *
12513660 CAATTTAAAAAGTTTATTTGTGACAATTTTTTGCTGATAGATTTTAGGTCATGTTATTAATTTTG
65 CAATTT-AAAATTTTATCTGTGACAATTTTTT-CTAATAGATTTTAGGTGATGTTATTAATTTTT
* * * * *
12513725 GCCACAAACTGAACACTTTAGTTAACTATTAATGATATTGCAATTTCGTCACGTCAATTTATGGT
128 GTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATGGT
* * * * * **
12513790 GTTTTATGACGATAATATAAATGTCATAAACATTTACCATT
193 GTTATATGATGATAACATAAATGTCACAAACTTTTACCACC
* * * * *
12513831 GAATTTATTTAGTGTGAAATTTTTTTGTGACATTTTTTATTTTAGGTGACATTATAATTTTATCA
1 AAATTTATTTA-TG-AAAAATTTTTTGTGATATTTTTTATTTTAGGTGACATTATAATTTTGTCA
* * * * * **
12513896 CCAATTTAAAATTTTATTTGTGACAATTTTTTTTTATAGATTGTAAGTGACATTATTAA-TTTTG
64 CCAATTTAAAATTTTATCTGTGACAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTTG
* * ** * * * * *
12513960 TCATAAATTGAACACTTTAGTTAACTATTAATGATATTATATTTTCATCGCATCAATGTATAGCG
129 TCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATGGTG
*
12514025 TTATATGATGATAACATAAATGTCACAAACTTTTACTTA-C
194 TTATATGATGATAACATAAATGTCACAAACTTTTAC-CACC
* * * * * ** * *
12514065 AAATTAATTTGGTGAAAAATATTTTGTAACATTTTAGATTTTAAGTGATATTAT
1 AAATTTATTT-ATGAAAAATTTTTTGTGATATTTTTTATTTTAGGTGACATTAT
12514119 TTATCCGTCA
Statistics
Matches: 820, Mismatches: 154, Indels: 41
0.81 0.15 0.04
Matches are distributed among these distances:
232 31 0.04
233 175 0.21
234 127 0.15
235 82 0.10
236 316 0.39
237 89 0.11
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (233 bp):
AAATTTATTTATGAAAAATTTTTTGTGATATTTTTTATTTTAGGTGACATTATAATTTTGTCACC
AATTTAAAATTTTATCTGTGACAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTTGTC
ACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACGTCAATGTATGGTGTT
ATATGATGATAACATAAATGTCACAAACTTTTACCACC
Found at i:12513779 original size:469 final size:466
Alignment explanation
Indices: 12512890--12514060 Score: 1377
Period size: 469 Copynumber: 2.5 Consensus size: 466
12512880 TTTTACTGTT
*
12512890 AAATTTATTTGATGGAAAAATTTTTTGTGACTTTTTTTATTTTAGGTGA-TGTTATAATTTTATC
1 AAATTTATTTGGT-GAAAAATTTTTTGTGACTTTTTTTATTTTAGGTGACT-TTATAATTTTATC
* * * **
12512954 ATCAATTTAAAATTTTATCTGTGACAAATTTTTTCTGATGCATTTTAGGTGATGTTATTTATTTT
64 ACCAATTTAAAATTTTATCTGTGAC-AATTTTTTAT-A-G-ATTTTAAGTGACATTA-TTATTTT
* * * * ** * * *
12513019 TTTTATAAATTGAATATTTTAGTTAACTATTAATAACATTACAATTTCGTCATGTTAATGCACGG
124 TGTCATAAATTGAACATTTTAGTTAACTATTAATAACATTACAATTTCATCACATCAATGTATGG
* * * ***
12513084 TGTTTTATGATGATAACATAAATATCACAAAGTTTTACCACCAAATTTATTTCATGAAATTTTTT
189 TGTTATATGATGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTTCATGAAAAAATTT
** *
12513149 TTTGTGATGTTATTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAATTTTATCTATGA
254 TTTGTGACATTATTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAGTTTATCTATGA
* * * ** * * *
12513214 TGAATTTTTTCTAATAGATTTTAGGTGATGTGATTAATTTTTGTTACCAATTAAATACTTTAATT
319 TCAATTTTTTCTAATAGATTTTAGGTCATGTGATTAATTTTGGCCACAAACTAAACACTTTAATT
* *
12513279 AACTATTAATGACATTCCAATTTTATCACGTCAATGTATGGTATTATATGATGATAATATAAATG
384 AACTATTAATGACATTCCAATTTCATCACGTCAATGTATGGTATTATATGACGATAATATAAATG
* *
12513344 TCACAAACTTTTATCATC
449 TCACAAACATTTACCATC
* * *
12513362 AAATTTATTTGGTGAAAAATTTTTTATGATGTTTTTTTATTTTAGGTGACTTTATAATTTTGTCA
1 AAATTTATTTGGTGAAAAATTTTTTGTGA-CTTTTTTTATTTTAGGTGACTTTATAATTTTATCA
* *
12513427 -CAATTTAAAATTTTATCTATAACGAATTTTTTAATAGATTTTAAGTGACATTATTCATTTTTGT
65 CCAATTTAAAATTTTATCTGTGAC-AATTTTTT-ATAGATTTTAAGTGACATTATT-ATTTTTGT
* * * * *
12513491 CA-ATAATGGAACATTTTAGTTAATTGTTAATAACATTGCAATTTCATTACATCAATGTATGGTG
127 CATA-AATTGAACATTTTAGTTAACTATTAATAACATTACAATTTCATCACATCAATGTATGGTG
* *** *
12513555 TTATATGATAATAACATAAATGTCACAAACTTTTATTGCCTAATTTATTT-A-GTAAAAAATTTT
191 TTATATGATGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTTCATG-AAAAAATTTT
* *
12513618 TTGTGACATTA-TTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAAAGTTTATTTGTG
255 TTGTGACATTATTTTATTTTAGGTGACATTATAATTTTGTCACCAATTT--AAAGTTTATCTATG
* * * *
12513682 A-CAATTTTTTGCTGATAGATTTTAGGTCATGTTATTAATTTTGGCCACAAACTGAACACTTTAG
318 ATCAATTTTTT-CTAATAGATTTTAGGTCATGTGATTAATTTTGGCCACAAACTAAACACTTTAA
* * * * * *
12513746 TTAACTATTAATGATATTGCAATTTCGTCACGTCAATTTATGGTGTTTTATGACGATAATATAAA
382 TTAACTATTAATGACATTCCAATTTCATCACGTCAATGTATGGTATTATATGACGATAATATAAA
* *
12513811 TGTCATAAACATTTACCATT
447 TGTCACAAACATTTACCATC
* * * *
12513831 GAATTTATTTAGTGTG-AAATTTTTTTGTGACATTTTTTATTTTAGGTGACATTATAATTTTATC
1 AAATTTATTT-G-GTGAAAAATTTTTTGTGACTTTTTTTATTTTAGGTGACTTTATAATTTTATC
* * *
12513895 ACCAATTTAAAATTTTATTTGTGACAATTTTTTTTTATAGATTGTAAGTGACATTATTAATTTTG
64 ACCAATTTAAAATTTTATCTGTGACAA---TTTTTTATAGATTTTAAGTGACATTATTATTTTTG
* * * * * * * *
12513960 TCATAAATTGAACACTTTAGTTAACTATTAATGATATTATATTTTCATCGCATCAATGTATAGCG
126 TCATAAATTGAACATTTTAGTTAACTATTAATAACATTACAATTTCATCACATCAATGTATGGTG
12514025 TTATATGATGATAACATAAATGTCACAAACTTTTAC
191 TTATATGATGATAACATAAATGTCACAAACTTTTAC
12514061 TTACAAATTA
Statistics
Matches: 591, Mismatches: 92, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
467 38 0.06
468 28 0.05
469 280 0.47
470 124 0.21
471 70 0.12
472 50 0.08
473 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (466 bp):
AAATTTATTTGGTGAAAAATTTTTTGTGACTTTTTTTATTTTAGGTGACTTTATAATTTTATCAC
CAATTTAAAATTTTATCTGTGACAATTTTTTATAGATTTTAAGTGACATTATTATTTTTGTCATA
AATTGAACATTTTAGTTAACTATTAATAACATTACAATTTCATCACATCAATGTATGGTGTTATA
TGATGATAACATAAATGTCACAAACTTTTACCACCAAATTTATTTCATGAAAAAATTTTTTGTGA
CATTATTTTATTTTAGGTGACATTATAATTTTGTCACCAATTTAAAGTTTATCTATGATCAATTT
TTTCTAATAGATTTTAGGTCATGTGATTAATTTTGGCCACAAACTAAACACTTTAATTAACTATT
AATGACATTCCAATTTCATCACGTCAATGTATGGTATTATATGACGATAATATAAATGTCACAAA
CATTTACCATC
Found at i:12515475 original size:17 final size:16
Alignment explanation
Indices: 12515449--12515480 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12515439 TTTGATGTTG
12515449 AGTTTAGGAAATCTTA
1 AGTTTAGGAAATCTTA
12515465 AGTTGTAGGAAATCTT
1 AGTT-TAGGAAATCTT
12515481 CTATTTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (16 bp):
AGTTTAGGAAATCTTA
Found at i:12525164 original size:12 final size:12
Alignment explanation
Indices: 12525147--12525172 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12525137 ACTAAAGAAA
12525147 AACTAAGAAAAG
1 AACTAAGAAAAG
12525159 AACTAAGAAAAG
1 AACTAAGAAAAG
12525171 AA
1 AA
12525173 AAGAGAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (12 bp):
AACTAAGAAAAG
Found at i:12528964 original size:15 final size:15
Alignment explanation
Indices: 12528921--12528954 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
12528911 GGATTAGGTG
*
12528921 GGGTGGGGAGGGATT
1 GGGTAGGGAGGGATT
12528936 GGGTAGGGAGGGATT
1 GGGTAGGGAGGGATT
12528951 GGGT
1 GGGT
12528955 GTGGTGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.65, T:0.21
Consensus pattern (15 bp):
GGGTAGGGAGGGATT
Found at i:12528985 original size:51 final size:50
Alignment explanation
Indices: 12528920--12529028 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 50
12528910 GGGATTAGGT
* * **
12528920 GGGGTGGGGAGGGATTGGGT-AGGGAGGGATTGGGTGTGGT-GGGATGTTTGG
1 GGGGTGGGAAGGGATTAGGTGA-GGAGGGATTAAGTGTGGTAGGG-TG-TTGG
12528971 GGGGTGGGAAGGGATTAGGTGAGGAGGGATTAAGTGTGGTAGGGTGTTGG
1 GGGGTGGGAAGGGATTAGGTGAGGAGGGATTAAGTGTGGTAGGGTGTTGG
12529021 GGGGTGGG
1 GGGGTGGG
12529029 GGTTAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
50 12 0.23
51 36 0.69
52 4 0.08
ACGTcount: A:0.15, C:0.00, G:0.61, T:0.24
Consensus pattern (50 bp):
GGGGTGGGAAGGGATTAGGTGAGGAGGGATTAAGTGTGGTAGGGTGTTGG
Found at i:12531167 original size:20 final size:20
Alignment explanation
Indices: 12531142--12531188 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
12531132 GAGCAACCGG
* *
12531142 TCGATCCTTTTAAGAGGGGA
1 TCGATCCCTTTAAAAGGGGA
12531162 TCGATCCCTTTAAAAGGGGA
1 TCGATCCCTTTAAAAGGGGA
12531182 TCGATCC
1 TCGATCC
12531189 ATTGCCTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
TCGATCCCTTTAAAAGGGGA
Found at i:12531417 original size:21 final size:21
Alignment explanation
Indices: 12531391--12531466 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
12531381 GTTGAAAACA
12531391 GGATCGATCCCTTTCGCTAGG
1 GGATCGATCCCTTTCGCTAGG
*** * *
12531412 GGATCGATTTGGTAAT-G-GAGG
1 GGATCGA-TCCCT-TTCGCTAGG
12531433 GGATCGATCCCTTTCGCTAGG
1 GGATCGATCCCTTTCGCTAGG
12531454 GGATCGATCCCTT
1 GGATCGATCCCTT
12531467 CTATTAAAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 33 0.80
22 3 0.07
23 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.29
Consensus pattern (21 bp):
GGATCGATCCCTTTCGCTAGG
Found at i:12531845 original size:20 final size:20
Alignment explanation
Indices: 12531820--12531858 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12531810 CAATATATCC
*
12531820 ATCAATATCAAAGCATCATT
1 ATCAATATCAAAACATCATT
12531840 ATCAATATCAAAACATCAT
1 ATCAATATCAAAACATCAT
12531859 CAGATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAATATCAAAACATCATT
Found at i:12531875 original size:18 final size:18
Alignment explanation
Indices: 12531852--12531889 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12531842 CAATATCAAA
*
12531852 ACATCATCAGATTTTCAT
1 ACATCATCAAATTTTCAT
12531870 ACATCATCAAATTTTCAT
1 ACATCATCAAATTTTCAT
12531888 AC
1 AC
12531890 CAATATTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (18 bp):
ACATCATCAAATTTTCAT
Found at i:12533660 original size:73 final size:73
Alignment explanation
Indices: 12533575--12533757 Score: 212
Period size: 73 Copynumber: 2.5 Consensus size: 73
12533565 CTGGTTGAAT
* * *
12533575 ACCCGATCGATCCTGTCAAAGAGGGGATCGATTGGTTCTTCCTAG-GTTTAGCAAAATTGGCTAC
1 ACCCGATCGATCCTGTCAAAGAGGGGATCGATCGGTTCTT-CTAGAGTTCAACAAAATTGGCTAC
**
12533639 TGTCTTTAC
65 TACCTTTAC
* * * * *
12533648 ACCCGATCGATCCTGTCCTAAG-GGGGATTGATCGGTCCTTTTTGAGTTCAACAAAATTGGCTAC
1 ACCCGATCGATCCTGT-CAAAGAGGGGATCGATCGGTTCTTCTAGAGTTCAACAAAATTGGCTAC
12533712 TACCTTTAC
65 TACCTTTAC
*
12533721 ACCCGATCGATCCTTTTCAAA-A-GGGATCGATCGGTTC
1 ACCCGATCGATCC-TGTCAAAGAGGGGATCGATCGGTTC
12533758 CCTATGTTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
72 15 0.16
73 71 0.77
74 6 0.07
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (73 bp):
ACCCGATCGATCCTGTCAAAGAGGGGATCGATCGGTTCTTCTAGAGTTCAACAAAATTGGCTACT
ACCTTTAC
Found at i:12542888 original size:6 final size:6
Alignment explanation
Indices: 12542877--12542906 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
12542867 TAAGTCCAGA
12542877 TGATGG TGATGG TGATGG TGATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG
12542907 GGTGAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
TGATGG
Found at i:12544190 original size:27 final size:27
Alignment explanation
Indices: 12544152--12544205 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12544142 ATGGAAAAGC
12544152 TGGTGTATTTCCCTAGGGCATCGCTAA
1 TGGTGTATTTCCCTAGGGCATCGCTAA
12544179 TGGTGTATTTCCCTAGGGCATCGCTAA
1 TGGTGTATTTCCCTAGGGCATCGCTAA
12544206 CAATTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (27 bp):
TGGTGTATTTCCCTAGGGCATCGCTAA
Found at i:12544218 original size:27 final size:27
Alignment explanation
Indices: 12544155--12544219 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
12544145 GAAAAGCTGG
* ***
12544155 TGTATTTCCCTAGGGCATCGCTAATGG
1 TGTATATCCCTAGGGCATCGCTAACAA
*
12544182 TGTATTTCCCTAGGGCATCGCTAACAA
1 TGTATATCCCTAGGGCATCGCTAACAA
*
12544209 TTTATATCCCT
1 TGTATATCCCT
12544220 TATCTTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
TGTATATCCCTAGGGCATCGCTAACAA
Found at i:12544376 original size:21 final size:21
Alignment explanation
Indices: 12544350--12544392 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
12544340 ATAGGAGTAG
12544350 GAGGAATGACTAGAAGTGGTC
1 GAGGAATGACTAGAAGTGGTC
12544371 GAGGAATGACTAGAAGTGGTC
1 GAGGAATGACTAGAAGTGGTC
12544392 G
1 G
12544393 TTATTATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.40, T:0.19
Consensus pattern (21 bp):
GAGGAATGACTAGAAGTGGTC
Found at i:12549627 original size:9 final size:9
Alignment explanation
Indices: 12549613--12549647 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
12549603 CAAAAGAGGT
12549613 TTAAAAAAA
1 TTAAAAAAA
12549622 TTAAAAAAA
1 TTAAAAAAA
*
12549631 CT-AAAAAA
1 TTAAAAAAA
12549639 TTAAAAAAA
1 TTAAAAAAA
12549648 AGGTTAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:12551301 original size:18 final size:17
Alignment explanation
Indices: 12551257--12551321 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
12551247 AAAAATAGTA
*
12551257 AAATAGAAAACTAAAAAT
1 AAAT-GAAAATTAAAAAT
12551275 AAAAT-AAAATATAAAAAT
1 -AAATGAAAAT-TAAAAAT
*
12551293 AAATGAAAATTGGAAAAT
1 AAATGAAAATT-AAAAAT
12551311 AGAATGAAAAT
1 A-AATGAAAAT
12551322 GGAAAAGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.22
18 18 0.45
19 13 0.32
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (17 bp):
AAATGAAAATTAAAAAT
Found at i:12551309 original size:19 final size:19
Alignment explanation
Indices: 12551269--12551327 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 19
12551259 ATAGAAAACT
* **
12551269 AAAAATAAAAT-AAAATAT
1 AAAAATAGAATGAAAATGG
12551287 AAAAATA-AATGAAAATTGG
1 AAAAATAGAATGAAAA-TGG
12551306 -AAAATAGAATGAAAATGG
1 AAAAATAGAATGAAAATGG
12551324 AAAA
1 AAAA
12551328 GGAAACCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 3 0.09
18 20 0.57
19 12 0.34
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (19 bp):
AAAAATAGAATGAAAATGG
Found at i:12551324 original size:18 final size:18
Alignment explanation
Indices: 12551288--12551327 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
12551278 ATAAAATATA
12551288 AAAATAAATGAAAATTGG
1 AAAATAAATGAAAATTGG
12551306 AAAATAGAATGAAAA-TGG
1 AAAATA-AATGAAAATTGG
12551324 AAAA
1 AAAA
12551328 GGAAACCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (18 bp):
AAAATAAATGAAAATTGG
Found at i:12552174 original size:3 final size:3
Alignment explanation
Indices: 12552168--12552270 Score: 95
Period size: 3 Copynumber: 34.3 Consensus size: 3
12552158 GAAGAAAAGC
*
12552168 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AACT -AT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * * * * *
12552213 -AT AAG ATT AAT AAT AAC ACT -AT AAT ATGT ATAT AAT AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT
12552258 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
12552271 TATACAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.04
3 72 0.89
4 6 0.07
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:12553436 original size:54 final size:54
Alignment explanation
Indices: 12553377--12553601 Score: 170
Period size: 54 Copynumber: 4.1 Consensus size: 54
12553367 GGTCAAAAAT
* * * *
12553377 GAATGACAGGGATGATGCCATGAGTCTAAAAATGATCTGACTTGAGTCGAGATC
1 GAATGACTGAGATGATGCCATAAGTCTAAAAATGATCTGACCTGAGTCGAGATC
* * * * * *
12553431 GAATGATTGAGATGATGCCACAAGTCTAAAAGTGACCAAGACCAAGTTAAGGT-GAAAGAT-
1 GAATGACTGAGATGATGCCATAAGTCTAAAAATGATC-TGACC----TGA-GTCG--AGATC
* * *
12553491 GAATGACTGAGATAATGCTATGAA-TCTAAAAATGATCTGACCTGAGCCGAGATC
1 GAATGACTGAGATGATGCCAT-AAGTCTAAAAATGATCTGACCTGAGTCGAGATC
* * * * *
12553545 AAATGACTGGGATGATGTCGTAAGTCTGAAAATGATCTGACCTGAG-CTGAGATC
1 GAATGACTGAGATGATGCCATAAGTCTAAAAATGATCTGACCTGAGTC-GAGATC
12553599 GAA
1 GAA
12553602 ACCTGTGATG
Statistics
Matches: 131, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
53 7 0.05
54 75 0.57
55 6 0.05
59 7 0.05
60 30 0.23
61 6 0.05
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (54 bp):
GAATGACTGAGATGATGCCATAAGTCTAAAAATGATCTGACCTGAGTCGAGATC
Found at i:12553450 original size:227 final size:228
Alignment explanation
Indices: 12552942--12553551 Score: 593
Period size: 227 Copynumber: 2.7 Consensus size: 228
12552932 GACAATGTCG
* * * *
12552942 CGAGTCTAAAAATGATTTGACTTGAGTCAAGATCGAATGACT-AGAATGATGTCATGAGTTTGAA
1 CGAGTCTAAAAATGATTTGACTTGAGTCAAGATCGAATGATTGAG-ATGATGCCACGAGTCTGAA
* * * * * ***
12553006 AGTGACCAAGATCGAGTCGAGGTCGAAGAGGAATGACCGAGACGATGTTGTGAGTCTGAAAATGA
65 AGTGACCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTCACGAGTCTGAAAATGA
* * * * * * * *
12553071 TTTGACTTGAGCCGAGATCAAATGACCAGAACGATGTCGTAAGTCTGAAAGCGATCAAAACCAAG
130 TCTGACCTAAGCCAAGATCAAATGACCAGAACGATGCCATAAGCCTAAAAGCGATCAAAACCAAG
*
12553136 TCGAGATCATAAATGAATAACTAGGATAATGCCA
195 TCGAGATCAAAAATGAATAACTAGGATAATGCCA
* * * *
12553170 CGAGTCTAAAAATGATTTGACCTGAGCCAAGATC-AGATGATTGAAAGGATGCCACGAGTCTGAA
1 CGAGTCTAAAAATGATTTGACTTGAGTCAAGATCGA-ATGATTGAGATGATGCCACGAGTCTGAA
* *
12553234 AGTGATCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTCACGGGTC-GAAAAATG
65 AGTGACCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTCACGAGTCTG-AAAATG
* * ** * * * * ** * *
12553298 ATCTGACCTAAGTCAAGATCAGATGA-TGGGACGATGCCATGAGCCTAAAAGTGATGATGATCGA
129 ATCTGACCTAAGCCAAGATCAAATGACCAGAACGATGCCATAAGCCTAAAAGCGATCAAAACCAA
* * *
12553362 GTCGAGGTCAAAAATGAATGAC-AGGGATGATGCCA
194 GTCGAGATCAAAAATGAATAACTA-GGATAATGCCA
* * * * *
12553397 TGAGTCTAAAAATGATCTGACTTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTAAAA
1 CGAGTCTAAAAATGATTTGACTTGAGTCAAGATCGAATGATTGAGATGATGCCACGAGTCTGAAA
* ** * * ** * * * *
12553462 GTGACCAAGACCAAGTTAAGGTGAAAGATGAATGACTGAGATAATG-CTATGAATCTAAAAATGA
66 GTGACCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTC-ACGAGTCTGAAAATGA
* *
12553526 TCTGACCTGAGCCGAGATCAAATGAC
130 TCTGACCTAAGCCAAGATCAAATGAC
12553552 TGGGATGATG
Statistics
Matches: 306, Mismatches: 68, Indels: 16
0.78 0.17 0.04
Matches are distributed among these distances:
226 2 0.01
227 178 0.58
228 125 0.41
229 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (228 bp):
CGAGTCTAAAAATGATTTGACTTGAGTCAAGATCGAATGATTGAGATGATGCCACGAGTCTGAAA
GTGACCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTCACGAGTCTGAAAATGAT
CTGACCTAAGCCAAGATCAAATGACCAGAACGATGCCATAAGCCTAAAAGCGATCAAAACCAAGT
CGAGATCAAAAATGAATAACTAGGATAATGCCA
Found at i:12553519 original size:114 final size:114
Alignment explanation
Indices: 12552663--12553575 Score: 476
Period size: 114 Copynumber: 8.0 Consensus size: 114
12552653 CGCATGCCCA
* ** * ** * * * *
12552663 AAAGTGACCAAGATCAA-TCAAGGTCGTAGATTAATGACCAAAACGATGCTACAAGTCTAAAGAT
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCTACGAGTCTAAAAAT
* * * * ** *
12552727 GATCTAACCTGAGTCAAGATC-ATATGACTAT-A-ACGATGTCATGAGTCTA
66 GATCTGACCTGAGTCGAGATCGA-ATGA-T-TGAGATGATGCCACAAGTCTG
* * * * * *
12552776 AAAATGACCAAGACCGAGTCGAAGTCAAAAATGAATGACCT-AGACGATAT-CGTA-G-GTCAAA
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGA-CTGAGAC-A-ATGC-TACGAGTCTAA
* * * * *****
12552837 AAATGATCTGACATAAGTTGAGATCGGATGATTGAGATGACATTGCAAGTCTG
62 AAATGATCTGACCTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTG
* ** * * *
12552890 AAAGTGACCAAGATCGAGTTAAGGTCGAAGATGAATGA-TCAAGACAATG-TCGCGAGTCTAAAA
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACT-GAGACAATGCT-ACGAGTCTAAAA
* * * * * ** *
12552953 ATGATTTGACTTGAGTCAAGATCGAATGACT-AGAATGATGTCATGAGTTTG
64 ATGATCTGACCTGAGTCGAGATCGAATGATTGAG-ATGATGCCACAAGTCTG
* * * * * * ** *
12553004 AAAGTGACCAAGATCGAGTCGAGGTCGAAGAGGAATGACCGAGACGATGTTGTGAGTCTGAAAAT
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCTACGAGTCTAAAAAT
* * * * ** * * **
12553069 GATTTGACTTGAGCCGAGATCAAATGA-CCAGAACGATGTCGTAAGTCTG
66 GATCTGACCTGAGTCGAGATCGAATGATTGAG-ATGATGCCACAAGTCTG
* * * * * * * *
12553118 AAAGCGATCAAAACCAAGTCGAGATCATAA-ATGAATAACT-AGGATAATGCCACGAGTCTAAAA
1 AAAGTGACCAAGATCAAGTCGAGGTCA-AAGATGAATGACTGA-GACAATGCTACGAGTCTAAAA
* * * * * *
12553181 ATGATTTGACCTGAGCCAAGATC-AGATGATTGAAAGGATGCCACGAGTCTG
64 ATGATCTGACCTGAGTCGAGATCGA-ATGATTGAGATGATGCCACAAGTCTG
* * ** * *
12553232 AAAGTGATCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATG-TCACGGGTCGAAAAA
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCT-ACGAGTCTAAAAA
* * * * ** * *
12553296 TGATCTGACCTAAGTCAAGATC-AGATGA-TGGGACGATGCCATGAGCCTA
65 TGATCTGACCTGAGTCGAGATCGA-ATGATTGAGATGATGCCACAAGTCTG
** * * * * * ** * *
12553345 AAAGTGATGATGATCGAGTCGAGGTCAAAAATGAATGACAGGGATGATGCCATGAGTCTAAAAAT
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCTACGAGTCTAAAAAT
* *
12553410 GATCTGACTTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTA
66 GATCTGACCTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTG
* ** * * * *
12553459 AAAGTGACCAAGACCAAGTTAAGGTGAAAGATGAATGACTGAGATAATGCTATGAATCTAAAAAT
1 AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCTACGAGTCTAAAAAT
* * * * * **
12553524 GATCTGACCTGAGCCGAGATCAAATGACTGGGATGATGTCGTAAGTCTG
66 GATCTGACCTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTG
12553573 AAA
1 AAA
12553576 ATGATCTGAC
Statistics
Matches: 612, Mismatches: 160, Indels: 55
0.74 0.19 0.07
Matches are distributed among these distances:
111 1 0.00
112 4 0.01
113 111 0.18
114 485 0.79
115 7 0.01
116 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (114 bp):
AAAGTGACCAAGATCAAGTCGAGGTCAAAGATGAATGACTGAGACAATGCTACGAGTCTAAAAAT
GATCTGACCTGAGTCGAGATCGAATGATTGAGATGATGCCACAAGTCTG
Found at i:12553575 original size:341 final size:342
Alignment explanation
Indices: 12552882--12553553 Score: 742
Period size: 341 Copynumber: 2.0 Consensus size: 342
12552872 GATGACATTG
* * * * * * *
12552882 CAAGTCTGAAAGTGACCAAGATCGAGTTAAGGTCGAAGATGAATGATCAAGACAATGTCGCGAGT
1 CAAGTCTGAAAGTGATCAAGATCAAGTCAAGGTCAAAGACGAATGACCAAGACAATGTCACGAGT
* * * * * * ** *
12552947 CTAAAAATGATTTGACTTGAGTCAAGATCGAATGACTAGAATGATGTCATGAGTTTGAAAGTGAC
66 CGAAAAATGATCTGACCTAAGTCAAGATCGAATGACTAGAACGATGCCATGAGCCTAAAAGTGAC
* * * *** * *
12553012 CAAGATCGAGTCGAGGTCGAAGAGGAATGACCGAGACGATGTTGTGAGTCTGAAAATGATTTGAC
131 CAAGATCGAGTCGAGGTCAAAAAGGAATGACAGAGACGATGCCATGAGTCTAAAAATGATCTGAC
* ** * * *
12553077 TTGAGCCGAGATCAAATGACCAGAACGATGTCGTAAGTCTGAAAGCGATCAAAACCAAGTCGAGA
196 TTGAGCCGAGATCAAATGACCAGAACGATGCCACAAGTCTAAAAGCGACCAAAACCAAGTCAAGA
* * *
12553142 TCATAAATGAATAACTAGGATAATGCCACGAGTCTAAAAATGATTTGACCTGAGCCAAGATCAGA
261 TCATAAATGAATAACTAGGATAATGCCACGAATCTAAAAATGATCTGACCTGAGCCAAGATCAAA
*
12553207 TGATTGAAAGGATGCCA
326 TGACTGAAAGGATGCCA
* * *
12553224 CGAGTCTGAAAGTGATCAAGATCAAGTCGAGGTCAAAGACGAATGACCAAGACAATGTCACGGGT
1 CAAGTCTGAAAGTGATCAAGATCAAGTCAAGGTCAAAGACGAATGACCAAGACAATGTCACGAGT
* *
12553289 CGAAAAATGATCTGACCTAAGTCAAGATC-AGATGA-TGGGACGATGCCATGAGCCTAAAAGTGA
66 CGAAAAATGATCTGACCTAAGTCAAGATCGA-ATGACTAGAACGATGCCATGAGCCTAAAAGTGA
** * * * *
12553352 TGATGATCGAGTCGAGGTCAAAAATGAATGACAGGGATGATGCCATGAGTCTAAAAATGATCTGA
130 CCAAGATCGAGTCGAGGTCAAAAAGGAATGACAGAGACGATGCCATGAGTCTAAAAATGATCTGA
* * ** * * * *
12553417 CTTGAGTCGAGATCGAATGA-TTGAGATGATGCCACAAGTCTAAAAGTGACCAAGACCAAGTTAA
195 CTTGAGCCGAGATCAAATGACCAGA-ACGATGCCACAAGTCTAAAAGCGACCAAAACCAAGTCAA
* * * * * *
12553481 GGTGA-AAGATGAATGACT-GAGATAATGCTATGAATCTAAAAATGATCTGACCTGAGCCGAGAT
259 GATCATAA-ATGAATAACTAG-GATAATGCCACGAATCTAAAAATGATCTGACCTGAGCCAAGAT
12553544 CAAATGACTG
322 CAAATGACTG
12553554 GGATGATGTC
Statistics
Matches: 267, Mismatches: 59, Indels: 9
0.80 0.18 0.03
Matches are distributed among these distances:
340 5 0.02
341 178 0.67
342 84 0.31
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (342 bp):
CAAGTCTGAAAGTGATCAAGATCAAGTCAAGGTCAAAGACGAATGACCAAGACAATGTCACGAGT
CGAAAAATGATCTGACCTAAGTCAAGATCGAATGACTAGAACGATGCCATGAGCCTAAAAGTGAC
CAAGATCGAGTCGAGGTCAAAAAGGAATGACAGAGACGATGCCATGAGTCTAAAAATGATCTGAC
TTGAGCCGAGATCAAATGACCAGAACGATGCCACAAGTCTAAAAGCGACCAAAACCAAGTCAAGA
TCATAAATGAATAACTAGGATAATGCCACGAATCTAAAAATGATCTGACCTGAGCCAAGATCAAA
TGACTGAAAGGATGCCA
Found at i:12554353 original size:1 final size:1
Alignment explanation
Indices: 12554342--12554398 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
12554332 TCAACTTGAA
* * * * * * *
12554342 TTTTTTCTTTTTTTTTGTTTTTGTTTTTGTTTTTTTGTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12554399 GTTGGTTTAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:12554362 original size:6 final size:6
Alignment explanation
Indices: 12554349--12554401 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
12554339 GAATTTTTTC
*
12554349 TTTT-T TTTTGT TTTTGT TTTTGT TTTTTT GTTTTG- TTTTGT TTTT-T
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT -TTTTGT TTTTGT TTTTGT
12554395 TTTTGT T
1 TTTTGT T
12554402 GGTTTAAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 14 0.33
6 24 0.57
7 4 0.10
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTGT
Found at i:12554376 original size:19 final size:17
Alignment explanation
Indices: 12554342--12554398 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
12554332 TCAACTTGAA
*
12554342 TTTTTTCTTTT-TTTTT
1 TTTTTTGTTTTGTTTTT
*
12554358 GTTTTTGTTTTTGTTTTT
1 TTTTTTG-TTTTGTTTTT
12554376 TTGTTTTGTTTTGTTTTT
1 TT-TTTTGTTTTGTTTTT
12554394 TTTTT
1 TTTTT
12554399 GTTGGTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 5 0.14
17 7 0.20
18 18 0.51
19 5 0.14
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (17 bp):
TTTTTTGTTTTGTTTTT
Found at i:12554376 original size:30 final size:29
Alignment explanation
Indices: 12554342--12554401 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
12554332 TCAACTTGAA
*
12554342 TTTTTTCTTTTTTTTTGTTTTTGTTTTTGT
1 TTTTTTCTTTTGTTTTGTTTTT-TTTTTGT
*
12554372 TTTTTTGTTTTGTTTTGTTTTTTTTTTGT
1 TTTTTTCTTTTGTTTTGTTTTTTTTTTGT
12554401 T
1 T
12554402 GGTTTAAGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.87
Consensus pattern (29 bp):
TTTTTTCTTTTGTTTTGTTTTTTTTTTGT
Found at i:12554406 original size:25 final size:25
Alignment explanation
Indices: 12554349--12554398 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
12554339 GAATTTTTTC
12554349 TTTTT-TTTTGTTTTTGTTTTTGTT
1 TTTTTGTTTTGTTTTTGTTTTTGTT
12554373 TTTTTGTTTTG-TTTTGTTTTT-TT
1 TTTTTGTTTTGTTTTTGTTTTTGTT
12554396 TTT
1 TTT
12554399 GTTGGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (25 bp):
TTTTTGTTTTGTTTTTGTTTTTGTT
Found at i:12563480 original size:18 final size:17
Alignment explanation
Indices: 12563446--12563535 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 17
12563436 CTACTAAAAT
12563446 AAATAAACAATAAAATAGA
1 AAATAAA-AA-AAAATAGA
12563465 AAACTAAAAAAAAATA-A
1 AAA-TAAAAAAAAATAGA
*
12563482 AACAT--AAAAATA-AGA
1 AA-ATAAAAAAAAATAGA
*
12563497 AAATAAATAAAAATTAGA
1 AAATAAA-AAAAAATAGA
**
12563515 AAATAGAATGAAAATAGA
1 AAATA-AAAAAAAATAGA
12563533 AAA
1 AAA
12563536 GGAAACCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
14 3 0.05
15 9 0.16
16 1 0.02
17 8 0.14
18 25 0.44
19 7 0.12
20 4 0.07
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.16
Consensus pattern (17 bp):
AAATAAAAAAAAATAGA
Found at i:12563482 original size:30 final size:31
Alignment explanation
Indices: 12563441--12563510 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
12563431 ATAAACTACT
*
12563441 AAAATAAAT-AAACA-ATAAAAT-AGAAAACTA
1 AAAAAAAATAAAACATA-AAAATAAGAAAA-TA
12563471 AAAAAAAATAAAACATAAAAATAAGAAAATA
1 AAAAAAAATAAAACATAAAAATAAGAAAATA
*
12563502 AATAAAAAT
1 AAAAAAAAT
12563511 TAGAAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 8 0.23
31 20 0.57
32 7 0.20
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (31 bp):
AAAAAAAATAAAACATAAAAATAAGAAAATA
Found at i:12563484 original size:16 final size:15
Alignment explanation
Indices: 12563422--12563482 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
12563412 TTCTTTTTTT
12563422 TAAAAAAAAATAAAC
1 TAAAAAAAAATAAAC
*
12563437 TACTAAAATAAATAAAC
1 TA--AAAAAAAATAAAC
*
12563454 -AATAAAATAGA-AAAC
1 TAA-AAAA-AAATAAAC
12563469 TAAAAAAAAATAAA
1 TAAAAAAAAATAAA
12563483 ACATAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.08
15 16 0.44
16 5 0.14
17 12 0.33
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (15 bp):
TAAAAAAAAATAAAC
Found at i:12563490 original size:16 final size:15
Alignment explanation
Indices: 12563424--12563510 Score: 54
Period size: 16 Copynumber: 5.6 Consensus size: 15
12563414 CTTTTTTTTA
12563424 AAAAAAAATAAACTACT
1 AAAAAAAATAAAC-A-T
*
12563441 AAAATAAATAAACAAT
1 AAAAAAAATAAAC-AT
* *
12563457 AAAATAGA-AAAC-T
1 AAAAAAAATAAACAT
12563470 AAAAAAAAATAAAACAT
1 -AAAAAAAAT-AAACAT
* *
12563487 AAAAATAAGAAA-AT
1 AAAAAAAATAAACAT
12563501 AAATAAAAAT
1 AAA-AAAAAT
12563511 TAGAAAATAG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
13 1 0.02
14 11 0.20
15 11 0.20
16 19 0.34
17 14 0.25
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAAAAATAAACAT
Found at i:12563528 original size:19 final size:18
Alignment explanation
Indices: 12563485--12563535 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
12563475 AAAATAAAAC
*
12563485 ATAAAAATAAGAAAATAA
1 ATAAAAATTAGAAAATAA
12563503 ATAAAAATTAGAAAATAGA
1 ATAAAAATTAGAAAATA-A
*
12563522 ATGAAAA-TAGAAAA
1 ATAAAAATTAGAAAA
12563536 GGAAACCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
ATAAAAATTAGAAAATAA
Found at i:12564374 original size:3 final size:3
Alignment explanation
Indices: 12564366--12564494 Score: 82
Period size: 3 Copynumber: 41.7 Consensus size: 3
12564356 ATAAGAAAAG
* * * *
12564366 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CTTAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA
* * * * * * *
12564412 TAA GAT TAA TAA AAA CAC T-A TAA TATG TATA TAA TAA TAA TGTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA T-AA TAA
*
12564459 TAA TAG TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
12564495 TATGCAATAT
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
2 2 0.02
3 87 0.87
4 10 0.10
5 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12564463 original size:16 final size:16
Alignment explanation
Indices: 12564431--12564494 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
12564421 TAAAAACACT
12564431 ATAAT-ATGTAT-ATA
1 ATAATAATGTATAATA
12564445 ATAATAATGTATAATA
1 ATAATAATGTATAATA
* *
12564461 ATAGTAATATATAATA
1 ATAATAATGTATAATA
*
12564477 ATAATAAT-AATAATA
1 ATAATAATGTATAATA
12564492 ATA
1 ATA
12564495 TATGCAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
14 5 0.11
15 15 0.34
16 24 0.55
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
ATAATAATGTATAATA
Found at i:12564725 original size:37 final size:36
Alignment explanation
Indices: 12564664--12564756 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
12564654 AACTTTATTT
*
12564664 TTTATCTTTTCAATCATTGGTGTTGTCCT-GGTCATC
1 TTTATCTTTTCAACCATTGGTGTTGT-CTAGGTCATC
12564700 TTTATCTTCTT-AACCATGTGGTGTTGTCTAGGTCATC
1 TTTATCTT-TTCAACCAT-TGGTGTTGTCTAGGTCATC
*
12564737 TTTA-CTTTTCGACCATTGGT
1 TTTATCTTTTCAACCATTGGT
12564757 CTTGACCCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
35 6 0.12
36 23 0.45
37 22 0.43
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.48
Consensus pattern (36 bp):
TTTATCTTTTCAACCATTGGTGTTGTCTAGGTCATC
Found at i:12564864 original size:36 final size:36
Alignment explanation
Indices: 12564818--12564921 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
12564808 TTTATTTCCT
12564818 AATTA-CTTTTATTTTTCGACCATTGGTGTTGTCCC
1 AATTATCTTTTATTTTTCGACCATTGGTGTTGTCCC
* * * * * * *
12564853 AGTTATCTTTTACTTTCCAATCGTTGGTGTTGTACC
1 AATTATCTTTTATTTTTCGACCATTGGTGTTGTCCC
*
12564889 AATTAT-TTTTATTTCTT-GGCCATTGGTGTTGTC
1 AATTATCTTTTATTT-TTCGACCATTGGTGTTGTC
12564922 TCGATCATAT
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
35 22 0.42
36 30 0.58
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.50
Consensus pattern (36 bp):
AATTATCTTTTATTTTTCGACCATTGGTGTTGTCCC
Found at i:12564940 original size:71 final size:70
Alignment explanation
Indices: 12564818--12564956 Score: 167
Period size: 71 Copynumber: 2.0 Consensus size: 70
12564808 TTTATTTCCT
12564818 AATTACTTTTATTTTTCGACCATTGGTGTTGTCCCAGTTATCTTTTACTTTCCAATCGTTGGTGT
1 AATTACTTTTATTTTTCGACCATTGGTGTTGTCCCAG-TATCTTTTACTTTCCAATCGTTGGTGT
12564883 TGTACC
65 TGTACC
* * * * *
12564889 AATTATTTTTATTTCTT-GGCCATTGGTGTTGTCTC-G-ATCATATTTATCTTTCTAATTGTTGG
1 AATTACTTTTATTT-TTCGACCATTGGTGTTGTCCCAGTATC-T-TTTA-CTTTCCAATCGTTGG
12564951 TGTTGT
62 TGTTGT
12564957 CCTAGTCAGC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
68 3 0.05
69 1 0.02
70 5 0.08
71 48 0.81
72 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.51
Consensus pattern (70 bp):
AATTACTTTTATTTTTCGACCATTGGTGTTGTCCCAGTATCTTTTACTTTCCAATCGTTGGTGTT
GTACC
Found at i:12564999 original size:35 final size:35
Alignment explanation
Indices: 12564947--12565024 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
12564937 TTTCTAATTG
* *
12564947 TTGGTGTTGTCCTAGTCAGCTT-TACTTCCTAACCA
1 TTGGTGTTATCCCAGTCAGCTTAT-CTTCCTAACCA
* * *
12564982 TTGGTGTTATCCCAGTCATCTTATCTTCTTGACCA
1 TTGGTGTTATCCCAGTCAGCTTATCTTCCTAACCA
12565017 TTGGTGTT
1 TTGGTGTT
12565025 GTCTTAGTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 36 0.97
36 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (35 bp):
TTGGTGTTATCCCAGTCAGCTTATCTTCCTAACCA
Found at i:12565070 original size:35 final size:36
Alignment explanation
Indices: 12565002--12565080 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 36
12564992 CCCAGTCATC
* *
12565002 TTATCTTCTTGACCATTGGTGTTGTCTTAGTTATTT
1 TTATCTTCTTGACCATTGGTGCTGTCTTAGTTATCT
* * *
12565038 TTATTTTCTTGGCCATT-GTGCTGTCTTGGTTATCT
1 TTATCTTCTTGACCATTGGTGCTGTCTTAGTTATCT
12565073 TTATCTTC
1 TTATCTTC
12565081 CTAATCGTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.56
Consensus pattern (36 bp):
TTATCTTCTTGACCATTGGTGCTGTCTTAGTTATCT
Found at i:12565203 original size:35 final size:34
Alignment explanation
Indices: 12565164--12565328 Score: 133
Period size: 35 Copynumber: 4.7 Consensus size: 34
12565154 ACTATTGGTA
12565164 TTGTCCTAGTCATCTTTACTTCCT-GACCGTTGGCG
1 TTGTCCTA-TCATCTTTACTTCCTCGACCGTTGG-G
* *
12565199 TTGTCCCATTCATCTTATA-TT-CTCGATCGTTGGTG
1 TTGTCCTA-TCATCTT-TACTTCCTCGACCGTTGG-G
* *
12565234 TTGTCTCTATTATCTTTATCTTCCT-AACCGTTAGGG
1 TTGTC-CTATCATCTTTA-CTTCCTCGACCGTT-GGG
* *
12565270 TTGTCCTAATCATCTTCACTT-CTCGATCGTTGGGG
1 TTGTCCT-ATCATCTTTACTTCCTCGACCGTT-GGG
*
12565305 TTGTCCGATCATCTTTATCTTCCT
1 TTGTCCTATCATCTTTA-CTTCCT
12565329 AATTGTTAGT
Statistics
Matches: 104, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
34 15 0.14
35 58 0.56
36 27 0.26
37 4 0.04
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.44
Consensus pattern (34 bp):
TTGTCCTATCATCTTTACTTCCTCGACCGTTGGG
Found at i:12565273 original size:71 final size:70
Alignment explanation
Indices: 12565158--12565345 Score: 220
Period size: 71 Copynumber: 2.7 Consensus size: 70
12565148 TTTTCTACTA
* * *
12565158 TTGGTATTGTCCTAGTCATCTTTA-CTTCCTGACCGTT-GGCGTTGTCCCATTCATCTT-ATATT
1 TTGGTGTTGTCCTA-TCATCTTTATCTTCCTAACCGTTAGG-GTTGTCCCAATCATCTTCA-ATT
12565220 CTCGATCG
63 CTCGATCG
* * *
12565228 TTGGTGTTGTCTCTATTATCTTTATCTTCCTAACCGTTAGGGTTGTCCTAATCATCTTCACTTCT
1 TTGGTGTTGTC-CTATCATCTTTATCTTCCTAACCGTTAGGGTTGTCCCAATCATCTTCAATTCT
12565293 CGATCG
65 CGATCG
* * ** *
12565299 TTGGGGTTGTCCGATCATCTTTATCTTCCTAATTGTTAGTGTTGTCC
1 TTGGTGTTGTCCTATCATCTTTATCTTCCTAACCGTTAGGGTTGTCC
12565346 TAACTATATT
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
70 49 0.48
71 50 0.49
72 3 0.03
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (70 bp):
TTGGTGTTGTCCTATCATCTTTATCTTCCTAACCGTTAGGGTTGTCCCAATCATCTTCAATTCTC
GATCG
Found at i:12565324 original size:211 final size:212
Alignment explanation
Indices: 12564914--12565361 Score: 460
Period size: 211 Copynumber: 2.1 Consensus size: 212
12564904 TTGGCCATTG
* * *
12564914 GTGTTGTCTCGATCATATTTATCTTTCTAATTGTTGGTGTTGTCCTAGTCAGCTTTACTTCCTAA
1 GTGTTGTCTCGATCATATTTATCTTTCTAACTATTGGTATTGTCCTAGTCAGCTTTACTTCCTAA
* * * * *
12564979 CCATTGGTGTTATCCCAGTCATCTTATCTTCTTGACCATTGGTGTTGTCTTAGTTATTTTTATTT
66 CCATTGGCGTTATCCCAGTCATCTTATATTCTCGACCATTGGTGTTGTCTTAGTTATCTTTATCT
* ** * * ** * * * *
12565044 TCTTGGCCATTGTGCTGTCTTGGTTATCTTTATCTTCCTAATCGTCGGTGGTTTTCAATCATTTT
131 TCCTAACCATTGGGCTGTCCTAATCATCTTCATCTTCCTAATCGTCGGTGGTTTCCAATCATCTT
*
12565109 TATCTTCTTAACCGCTA
196 TATCTTCCTAACCGCTA
* *
12565126 GTGTTGTCTCG-TCATATTTATCTTTTCT-ACTATTGGTATTGTCCTAGTCATCTTTACTTCCTG
1 GTGTTGTCTCGATCATATTTATC-TTTCTAACTATTGGTATTGTCCTAGTCAGCTTTACTTCCTA
* * * * *
12565189 ACCGTTGGCGTTGTCCCATTCATCTTATATTCTCGATCGTTGGTGTTGTCTCTA-TTATCTTTAT
65 ACCATTGGCGTTATCCCAGTCATCTTATATTCTCGACCATTGGTGTTGTCT-TAGTTATCTTTAT
* * * * *
12565253 CTTCCTAACCGTTAGGGTTGTCCTAATCATCTTCA-CTT-CTCGATCGTTGG-GGTTGTCCGATC
129 CTTCCTAACCATT-GGGCTGTCCTAATCATCTTCATCTTCCT-AATCGTCGGTGGTT-TCCAATC
** *
12565315 ATCTTTATCTTCCTAATTGTTA
191 ATCTTTATCTTCCTAACCGCTA
* *
12565337 GTGTTGTC-CTAACTATATTTATCTT
1 GTGTTGTCTCGATC-ATATTTATCTT
12565362 CTCAACCGTT
Statistics
Matches: 192, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
210 7 0.04
211 144 0.75
212 41 0.21
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.48
Consensus pattern (212 bp):
GTGTTGTCTCGATCATATTTATCTTTCTAACTATTGGTATTGTCCTAGTCAGCTTTACTTCCTAA
CCATTGGCGTTATCCCAGTCATCTTATATTCTCGACCATTGGTGTTGTCTTAGTTATCTTTATCT
TCCTAACCATTGGGCTGTCCTAATCATCTTCATCTTCCTAATCGTCGGTGGTTTCCAATCATCTT
TATCTTCCTAACCGCTA
Found at i:12565341 original size:106 final size:106
Alignment explanation
Indices: 12565164--12565373 Score: 241
Period size: 106 Copynumber: 2.0 Consensus size: 106
12565154 ACTATTGGTA
* * *
12565164 TTGTCCTAGTCATCTTTACTTCCTGACCGTTGGCGTTGTCCCATTCATCTTATATTCTCGATCGT
1 TTGTCCTAATCATCTTCACTTCCTGACCGTTGGCGTTGTCCCATTCATCTTATATTCTCAATCGT
* * *
12565229 TGGTGTTGTCTCT-ATTATCTTTATCTTC-CTAACCGTTAGGG
66 TAGTGTTGTC-CTAACTATATTTATCTTCTC-AACCGTTAGGG
* * * *
12565270 TTGTCCTAATCATCTTCACTT-CTCGATCGTTGGGGTTGTCCGA-TCATCTTTATCTTC-CTAAT
1 TTGTCCTAATCATCTTCACTTCCT-GACCGTTGGCGTTGTCCCATTCATC-TTATATTCTC-AAT
*
12565332 TGTTAGTGTTGTCCTAACTATATTTATCTTCTCAACCGTTAG
63 CGTTAGTGTTGTCCTAACTATATTTATCTTCTCAACCGTTAG
12565374 TGTCATCTCA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
105 10 0.11
106 77 0.88
107 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (106 bp):
TTGTCCTAATCATCTTCACTTCCTGACCGTTGGCGTTGTCCCATTCATCTTATATTCTCAATCGT
TAGTGTTGTCCTAACTATATTTATCTTCTCAACCGTTAGGG
Found at i:12565343 original size:35 final size:35
Alignment explanation
Indices: 12565069--12565362 Score: 108
Period size: 35 Copynumber: 8.3 Consensus size: 35
12565059 TGTCTTGGTT
** *
12565069 ATCTTTATCTTCCTAATCGTCGGTGGTT-TTCAATC
1 ATCTTTATCTTCCTAATCGTTAG-GGTTGTCCAATC
* * * * * *
12565104 ATTTTTATCTTCTTAACCGCTAGTGTTGTCTC-GTC
1 ATCTTTATCTTCCTAATCGTTAGGGTTGTC-CAATC
* * * * * *
12565139 ATATTTATCTTTTCTACT-ATT-GGTATTGTCCTAGTC
1 ATCTTTATC-TTCCTAATCGTTAGG-GTTGTCC-AATC
* * *
12565175 ATCTTTA-CTTCCTGACCGTT-GGCGTTGTCCCATTC
1 ATCTTTATCTTCCTAATCGTTAGG-GTTGT-CCAATC
* * * *
12565210 ATC-TTATATT-CTCGATCGTT-GGTGTTGTCTCTATT
1 ATCTTTATCTTCCT-AATCGTTAGG-GTTGTC-CAATC
*
12565245 ATCTTTATCTTCCTAACCGTTAGGGTTGTCCTAATC
1 ATCTTTATCTTCCTAATCGTTAGGGTTGTCC-AATC
* * * *
12565281 ATCTTCA-CTT-CTCGATCGTTGGGGTTGTCCGATC
1 ATCTTTATCTTCCT-AATCGTTAGGGTTGTCCAATC
* *
12565315 ATCTTTATCTTCCTAATTGTTAGTGTTGTCCTAA-C
1 ATCTTTATCTTCCTAATCGTTAGGGTTGTCC-AATC
*
12565350 TATATTTATCTTC
1 -ATCTTTATCTTC
12565363 TCAACCGTTA
Statistics
Matches: 189, Mismatches: 50, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
34 26 0.14
35 104 0.55
36 55 0.29
37 4 0.02
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (35 bp):
ATCTTTATCTTCCTAATCGTTAGGGTTGTCCAATC
Found at i:12567606 original size:9 final size:9
Alignment explanation
Indices: 12567592--12567624 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
12567582 AAATTTATGC
*
12567592 ATAATAATA
1 ATAATAACA
12567601 ATAATAACA
1 ATAATAACA
12567610 ATAATAACA
1 ATAATAACA
12567619 ATAATA
1 ATAATA
12567625 TTGATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAATAACA
Found at i:12570489 original size:19 final size:19
Alignment explanation
Indices: 12570413--12570517 Score: 83
Period size: 19 Copynumber: 5.6 Consensus size: 19
12570403 AAATTGCAAA
* *
12570413 GGTTTAGGATTTGTAT-A-
1 GGTTTAGGGTTTGGATGAT
*
12570430 GGTTTAGGGTTTGGGTGAT
1 GGTTTAGGGTTTGGATGAT
** *
12570449 AATTTAGGGTTT-AAGTGAT
1 GGTTTAGGGTTTGGA-TGAT
*
12570468 GGTTTAGGGTTTGGATGGT
1 GGTTTAGGGTTTGGATGAT
* *
12570487 GG-TTAAGGTTTGGAATGGT
1 GGTTTAGGGTTTGG-ATGAT
12570506 GGTTTAGGGTTT
1 GGTTTAGGGTTT
12570518 CATGAAAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
17 13 0.19
18 11 0.16
19 36 0.52
20 9 0.13
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (19 bp):
GGTTTAGGGTTTGGATGAT
Found at i:12590925 original size:191 final size:191
Alignment explanation
Indices: 12590595--12590957 Score: 654
Period size: 191 Copynumber: 1.9 Consensus size: 191
12590585 AGTTACTGTC
* * *
12590595 AAGCATCAAAACCAATTGACAATACGTGGAGTGGCCCTTATTATATTTATGTGCCTAGGTTGCAC
1 AAGCATCAAAACCAATTGACAATACGTGGAGTGGCCCTTATTATATATATGTGCCCAAGTTGCAC
*
12590660 CAAATTTCACAAATGTGGGATTTACTTTATCTCCACTCTAATACTCGCCCTCACGTGTAGGGACA
66 CAAATTTCACAAATGTGGGATTTACTTTATCTCCACTCTAATACTCCCCCTCACGTGTAGGGACA
*
12590725 ACAGAACTATCATGTGAAATGAACTTCACATGTAGGCATAACAGGTCTATCATGCGGTGTT
131 ACAGAACTATCATGTGAAATGAACTTCACATGCAGGCATAACAGGTCTATCATGCGGTGTT
*
12590786 AAGCATCAAAACCAATTGACAATATGTGGAGTGGCCCTTATTATATATATGTGCCCAAGTTGCAC
1 AAGCATCAAAACCAATTGACAATACGTGGAGTGGCCCTTATTATATATATGTGCCCAAGTTGCAC
*
12590851 CTAATTTCACAAATGTGGGATTTACTTTATCTCCACTCTAATACTCCCCCTCACGTGTAGGGACA
66 CAAATTTCACAAATGTGGGATTTACTTTATCTCCACTCTAATACTCCCCCTCACGTGTAGGGACA
*
12590916 ACGGAACTATCATGTGAAATGAACTTCACATGCAGGCATAAC
131 ACAGAACTATCATGTGAAATGAACTTCACATGCAGGCATAAC
12590958 GGGCCTATTG
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 164 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (191 bp):
AAGCATCAAAACCAATTGACAATACGTGGAGTGGCCCTTATTATATATATGTGCCCAAGTTGCAC
CAAATTTCACAAATGTGGGATTTACTTTATCTCCACTCTAATACTCCCCCTCACGTGTAGGGACA
ACAGAACTATCATGTGAAATGAACTTCACATGCAGGCATAACAGGTCTATCATGCGGTGTT
Found at i:12592372 original size:16 final size:16
Alignment explanation
Indices: 12592330--12592378 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
12592320 ACTTGAACCC
12592330 AAATGACCCAAACCTA
1 AAATGACCCAAACCTA
* *
12592346 AAACGATCCAAATCC-A
1 AAATGACCCAAA-CCTA
12592362 AAATGACCCAAACCTA
1 AAATGACCCAAACCTA
12592378 A
1 A
12592379 CCCACCTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.51, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATGACCCAAACCTA
Found at i:12594635 original size:39 final size:39
Alignment explanation
Indices: 12594592--12594671 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
12594582 TCAAGCTTAG
*
12594592 AGGATCCGGTTGGATGTTTTGGACTTGAAAGGGAGTTTA
1 AGGATCCGGTTGGATGTTTTGGACATGAAAGGGAGTTTA
*
12594631 AGGATCTGGTTGGATGTTTTGGACATGAAAGGGAGTTTA
1 AGGATCCGGTTGGATGTTTTGGACATGAAAGGGAGTTTA
12594670 AG
1 AG
12594672 AAGTGTTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.06, G:0.36, T:0.33
Consensus pattern (39 bp):
AGGATCCGGTTGGATGTTTTGGACATGAAAGGGAGTTTA
Found at i:12595492 original size:22 final size:22
Alignment explanation
Indices: 12595466--12595509 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12595456 TGTATTTTTA
*
12595466 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
12595488 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
12595510 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:12599475 original size:39 final size:39
Alignment explanation
Indices: 12599431--12599506 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
12599421 ACACTTCTCA
*
12599431 AACTCCCTTTCACGTCCAAAACATCCAACCAAATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
*
12599470 AACTCCCTTTCAAGTCCAAAACATCCAACCAGATCCT
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCT
12599507 TCAAGCGCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.41, G:0.04, T:0.21
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
Found at i:12611511 original size:30 final size:33
Alignment explanation
Indices: 12611477--12611540 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
12611467 TTTTCATGTG
12611477 ACATGT-ATT-TT-TAAATTATCATGCATTCAT
1 ACATGTCATTATTGTAAATTATCATGCATTCAT
* *
12611507 ACATGTCATTCATTGTTAATTGTCATGCATTCAT
1 ACATGTCATT-ATTGTAAATTATCATGCATTCAT
12611541 CATATTGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.21
31 3 0.11
33 2 0.07
34 17 0.61
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (33 bp):
ACATGTCATTATTGTAAATTATCATGCATTCAT
Found at i:12614038 original size:109 final size:111
Alignment explanation
Indices: 12613847--12614068 Score: 376
Period size: 109 Copynumber: 2.0 Consensus size: 111
12613837 TTTCCTAGCA
** * * *
12613847 TATTAGTTCATAGGTCCTAGTTTCCATGCATTTTAGTAAAAGTTGGATGAGCTCAAAATGATTTT
1 TATTAGTTCATAGGTCCTAGTTTCCACACATTCTAGTAAAACTTGGATAAGCTCAAAATGATTTT
12613912 GAAAGACAATGAAATGAGTTTGT-A-AAAGAATTTTGGATTAATGT
66 GAAAGACAATGAAATGAGTTTGTGAGAAAGAATTTTGGATTAATGT
12613956 TATTAGTTCATAGGTCCTAGTTTCCACACATTCTAGTAAAACTTGGATAAGCTCAAAATGATTTT
1 TATTAGTTCATAGGTCCTAGTTTCCACACATTCTAGTAAAACTTGGATAAGCTCAAAATGATTTT
*
12614021 GAAAGACAATGAAATGAGTTTTTGAGAAAGAATTTTGGATTAATGT
66 GAAAGACAATGAAATGAGTTTGTGAGAAAGAATTTTGGATTAATGT
12614067 TA
1 TA
12614069 AGAATTGTAT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 82 0.78
110 1 0.01
111 22 0.21
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (111 bp):
TATTAGTTCATAGGTCCTAGTTTCCACACATTCTAGTAAAACTTGGATAAGCTCAAAATGATTTT
GAAAGACAATGAAATGAGTTTGTGAGAAAGAATTTTGGATTAATGT
Found at i:12614546 original size:79 final size:79
Alignment explanation
Indices: 12614452--12614609 Score: 226
Period size: 79 Copynumber: 2.0 Consensus size: 79
12614442 TGACATAATC
* * * *
12614452 TGTGAGTTGTGATCAAATGATGGAAATAATGTGGATCAGTGGATGAAATTTATTTTGAAATTGCT
1 TGTGAGTTGTGATCAAATGATGAAAATAATGTGAATCAGTGGATGAAATTTATTCTAAAATTGCT
*
12614517 AATGCTGAGAAGCT
66 AATACTGAGAAGCT
* * * *
12614531 TGTGAGTTGTGATCAAATGATGAAAATAATGTGAATCATTTGATGAAATTTGTTCTAAAATTGTT
1 TGTGAGTTGTGATCAAATGATGAAAATAATGTGAATCAGTGGATGAAATTTATTCTAAAATTGCT
*
12614596 AGTACTGAGAAGCT
66 AATACTGAGAAGCT
12614610 AAAAAGGGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.35
Consensus pattern (79 bp):
TGTGAGTTGTGATCAAATGATGAAAATAATGTGAATCAGTGGATGAAATTTATTCTAAAATTGCT
AATACTGAGAAGCT
Found at i:12615118 original size:24 final size:24
Alignment explanation
Indices: 12615079--12615267 Score: 165
Period size: 24 Copynumber: 8.5 Consensus size: 24
12615069 GTTAAAAATG
12615079 ATGAGAATCTTT---GAGTTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
*
12615100 ATGAGAATTTTTAAGGAGTTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
*
12615124 ATGAG---GTTT----AGTTTT-A
1 ATGAGAATCTTTAAGGAGTTTTAA
* *
12615140 ATGAGATTCTTTAAGAAGTTTT-A
1 ATGAGAATCTTTAAGGAGTTTTAA
* *
12615163 ATGAGAATCTTTAAAGTGTTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
* *
12615187 ATAAGAATGTTT---GAGTTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
* * *
12615208 ATAAAAATCTTTAAGGAATTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
*
12615232 ATGAGAATCTTTAAGAAGTTTTAA
1 ATGAGAATCTTTAAGGAGTTTTAA
12615256 ATGAGAATCTTT
1 ATGAGAATCTTT
12615268 GAATGAGAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
16 6 0.04
17 6 0.04
19 3 0.02
21 32 0.23
23 25 0.18
24 65 0.47
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (24 bp):
ATGAGAATCTTTAAGGAGTTTTAA
Found at i:12615153 original size:40 final size:40
Alignment explanation
Indices: 12615092--12615167 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
12615082 AGAATCTTTG
*
12615092 AGTTTTAAATGAGAATTTTTAAGGAGTTTTAAATGAGGTTT
1 AGTTTTAAATGAGAATTTTTAAGAAGTTTT-AATGAGGTTT
12615133 AGTTTT-AATGAG-ATTCTTTAAGAAGTTTTAATGAG
1 AGTTTTAAATGAGAATT-TTTAAGAAGTTTTAATGAG
12615168 AATCTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 9 0.27
40 18 0.55
41 6 0.18
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (40 bp):
AGTTTTAAATGAGAATTTTTAAGAAGTTTTAATGAGGTTT
Found at i:12615220 original size:45 final size:47
Alignment explanation
Indices: 12615147--12615267 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 47
12615137 TTAATGAGAT
* * **
12615147 TCTTTAAGAAGTTTT-AATGAGAATCTTTAAAGTGTTTTAAATAAGAA
1 TCTTT-AGAAGTTTTAAATAAAAATCTTTAAAGAATTTTAAATAAGAA
* * *
12615194 TGTTT-G-AGTTTTAAATAAAAATCTTTAAGGAATTTTAAATGAGAA
1 TCTTTAGAAGTTTTAAATAAAAATCTTTAAAGAATTTTAAATAAGAA
* *
12615239 TCTTTAAGAAGTTTTAAATGAGAATCTTT
1 TCTTT-AGAAGTTTTAAATAAAAATCTTT
12615268 GAATGAGAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
44 6 0.10
45 31 0.52
47 5 0.08
48 18 0.30
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.41
Consensus pattern (47 bp):
TCTTTAGAAGTTTTAAATAAAAATCTTTAAAGAATTTTAAATAAGAA
Found at i:12615244 original size:69 final size:67
Alignment explanation
Indices: 12615092--12615269 Score: 197
Period size: 69 Copynumber: 2.7 Consensus size: 67
12615082 AGAATCTTTG
* * * * * *
12615092 AGTTTTAAATGAGAATTTTTAAGGAGTTTTAAAT-G-AGGTTT-AGTTTTAATGAGATTCTTTAA
1 AGTTTTAAATGAGAATCTTTAAAGAGTTTTAAATAGAATGTTTGAGTTTTAATAAAAATCTTTAA
12615154 GA
66 GA
*
12615156 AGTTTT-AATGAGAATCTTTAAAGTGTTTTAAATAAGAATGTTTGAGTTTTAAATAAAAATCTTT
1 AGTTTTAAATGAGAATCTTTAAAGAGTTTTAAAT-AGAATGTTTGAGTTTT-AATAAAAATCTTT
12615220 AAGGA
64 AA-GA
*
12615225 A-TTTTAAATGAGAATCTTT-AAGAAGTTTTAAATGAGAATCTTTGA
1 AGTTTTAAATGAGAATCTTTAAAG-AGTTTTAAAT-AGAATGTTTGA
12615270 ATGAGAATCT
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
63 24 0.25
64 6 0.06
65 1 0.01
66 5 0.05
67 6 0.06
68 19 0.20
69 35 0.36
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (67 bp):
AGTTTTAAATGAGAATCTTTAAAGAGTTTTAAATAGAATGTTTGAGTTTTAATAAAAATCTTTAA
GA
Found at i:12615262 original size:14 final size:14
Alignment explanation
Indices: 12615203--12615281 Score: 66
Period size: 14 Copynumber: 6.2 Consensus size: 14
12615193 ATGTTTGAGT
* *
12615203 TTTAAATAAAAATC
1 TTTAAATGAGAATC
12615217 TTT-AA-G-GAAT-
1 TTTAAATGAGAATC
12615227 TTTAAATGAGAATC
1 TTTAAATGAGAATC
*
12615241 TTT-AA-GA-AGT-
1 TTTAAATGAGAATC
12615251 TTTAAATGAGAATC
1 TTTAAATGAGAATC
*
12615265 TTTGAATGAGAATC
1 TTTAAATGAGAATC
12615279 TTT
1 TTT
12615282 GTCTTTAAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
10 6 0.12
11 9 0.17
12 5 0.10
13 10 0.19
14 22 0.42
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (14 bp):
TTTAAATGAGAATC
Found at i:12615355 original size:23 final size:22
Alignment explanation
Indices: 12615329--12615398 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
12615319 AATCACCAAA
*
12615329 AAGTTTTCAAATGAGAAGCTTTG
1 AAGTTTT-AAATGAGAACCTTTG
* * *
12615352 AAGTTTTAGATGTGAACCTTTA
1 AAGTTTTAAATGAGAACCTTTG
* *
12615374 AATTTTTTGAATGAGAACCTTTG
1 AA-GTTTTAAATGAGAACCTTTG
12615397 AA
1 AA
12615399 TTTAGATGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 13 0.35
23 24 0.65
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (22 bp):
AAGTTTTAAATGAGAACCTTTG
Found at i:12615400 original size:23 final size:23
Alignment explanation
Indices: 12615338--12615401 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
12615328 AAAGTTTTCA
* *
12615338 AATGAGAAGCTTTGAAGTTTTAG
1 AATGAGAACCTTTGAATTTTTAG
* * *
12615361 -ATGTGAACCTTTAAATTTTTTG
1 AATGAGAACCTTTGAATTTTTAG
12615383 AATGAGAACCTTTGAATTT
1 AATGAGAACCTTTGAATTT
12615402 AGATGTGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (23 bp):
AATGAGAACCTTTGAATTTTTAG
Found at i:12615416 original size:43 final size:45
Alignment explanation
Indices: 12615338--12615442 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 45
12615328 AAAGTTTTCA
* * * *
12615338 AATGAGAAGCTTTGAAGTTTTAGATGTGAACCTTT-AAATTTTTTG
1 AATGAGAACCTTTGAAG-TTTAGATGTGAAACTTTAAAATTTATCG
12615383 AATGAGAACCTTTGAA-TTTAGATGTGAAACTTTAAAATTTATCG
1 AATGAGAACCTTTGAAGTTTAGATGTGAAACTTTAAAATTTATCG
* *
12615427 AATGTGAATCTTTGAA
1 AATGAGAACCTTTGAA
12615443 CTCGAATGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 16 0.30
44 22 0.42
45 15 0.28
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (45 bp):
AATGAGAACCTTTGAAGTTTAGATGTGAAACTTTAAAATTTATCG
Found at i:12615422 original size:21 final size:21
Alignment explanation
Indices: 12615356--12615423 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 21
12615346 GCTTTGAAGT
*
12615356 TTTAGATGTGAACCTTTAAATT
1 TTTAGATGTGAACCTTTAAA-A
* * *
12615378 TTTTGAATGAGAACCTTT-GAA
1 TTTAG-ATGTGAACCTTTAAAA
*
12615399 TTTAGATGTGAAACTTTAAAA
1 TTTAGATGTGAACCTTTAAAA
12615420 TTTA
1 TTTA
12615424 TCGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 10 0.28
21 10 0.28
22 5 0.14
23 11 0.31
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (21 bp):
TTTAGATGTGAACCTTTAAAA
Found at i:12615643 original size:44 final size:45
Alignment explanation
Indices: 12615516--12615643 Score: 102
Period size: 43 Copynumber: 2.9 Consensus size: 45
12615506 TGTGAAAGAC
* * * *
12615516 TAAAATTTTT-GAATCAGAATCTTTGAAAACTTGGAAGTGAATCCT
1 TAAAATTTTTAAAATAAAAATCTTT-AAAACTTGGATGTGAATCCT
* ***
12615561 TAAAATTTTTCAAATAAAAATCTTTAACTTTTGG-TGTGAAT-CT
1 TAAAATTTTTAAAATAAAAATCTTTAAAACTTGGATGTGAATCCT
* ** *
12615604 TCAGAA-TTTTAAAATGTAAATCTTTAAAAGTTGGATGTGA
1 T-AAAATTTTTAAAATAAAAATCTTTAAAACTTGGATGTGA
12615644 GCTTAGTAGT
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
43 25 0.38
44 14 0.21
45 16 0.24
46 11 0.17
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (45 bp):
TAAAATTTTTAAAATAAAAATCTTTAAAACTTGGATGTGAATCCT
Found at i:12615815 original size:16 final size:17
Alignment explanation
Indices: 12615775--12615887 Score: 76
Period size: 16 Copynumber: 7.0 Consensus size: 17
12615765 TGCGAACCTA
12615775 AAAATTCTTGTGAATCT
1 AAAATTCTTGTGAATCT
* **
12615792 GAGCTT-TTGTGAATCT
1 AAAATTCTTGTGAATCT
*
12615808 AAAATT-TTGAGAATC-
1 AAAATTCTTGTGAATCT
** *
12615823 -AAATTCTTACGAAACT
1 AAAATTCTTGTGAATCT
*
12615839 AAAA-TCTAGTGAAT-T
1 AAAATTCTTGTGAATCT
* ** *
12615854 TAAATTCTTACGAATTT
1 AAAATTCTTGTGAATCT
12615871 AAAATTCTTGTGAATCT
1 AAAATTCTTGTGAATCT
12615888 TTAATCCTTA
Statistics
Matches: 69, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
14 5 0.07
15 10 0.14
16 34 0.49
17 20 0.29
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
AAAATTCTTGTGAATCT
Found at i:12615861 original size:32 final size:34
Alignment explanation
Indices: 12615823--12615901 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
12615813 TTTGAGAATC
12615823 AAATTCTTACGAAACTAAAA-TCTAGTGAAT-TT
1 AAATTCTTACGAAACTAAAATTCTAGTGAATCTT
** *
12615855 AAATTCTTACGAATTTAAAATTCTTGTGAATCTT
1 AAATTCTTACGAAACTAAAATTCTAGTGAATCTT
* *
12615889 TAATCCTTACGAA
1 AAATTCTTACGAA
12615902 TGTGAAATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 18 0.45
33 9 0.22
34 13 0.32
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (34 bp):
AAATTCTTACGAAACTAAAATTCTAGTGAATCTT
Found at i:12615885 original size:17 final size:17
Alignment explanation
Indices: 12615838--12615885 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
12615828 CTTACGAAAC
*
12615838 TAAAA-TCTAGTGAATT
1 TAAAATTCTTGTGAATT
**
12615854 T-AAATTCTTACGAATT
1 TAAAATTCTTGTGAATT
12615870 TAAAATTCTTGTGAAT
1 TAAAATTCTTGTGAAT
12615886 CTTTAATCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 12 0.48
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (17 bp):
TAAAATTCTTGTGAATT
Found at i:12615899 original size:34 final size:34
Alignment explanation
Indices: 12615802--12615948 Score: 124
Period size: 34 Copynumber: 4.4 Consensus size: 34
12615792 GAGCTTTTGT
* * *
12615802 GAATCTAAAATT-TTGAGAATC--AAATTCTTAC
1 GAATCTAAAATTCTTGTGAATCTTTAATCCTTAC
* * * *
12615833 GAAACTAAAA-TCTAGTGAAT-TTAAATTCTTAC
1 GAATCTAAAATTCTTGTGAATCTTTAATCCTTAC
*
12615865 GAATTTAAAATTCTTGTGAATCTTTAATCCTTAC
1 GAATCTAAAATTCTTGTGAATCTTTAATCCTTAC
* * ** **
12615899 GAATGTGAAATTCTTGCAAATCTTTAATCCTTTT
1 GAATCTAAAATTCTTGTGAATCTTTAATCCTTAC
12615933 GAATCTAAAACTTCTT
1 GAATCTAAAA-TTCTT
12615949 ATGGAACTCA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
30 1 0.01
31 15 0.16
32 18 0.19
33 9 0.10
34 46 0.49
35 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (34 bp):
GAATCTAAAATTCTTGTGAATCTTTAATCCTTAC
Found at i:12616097 original size:35 final size:35
Alignment explanation
Indices: 12616036--12616102 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
12616026 ATCTCTTGCG
* ** *
12616036 AATCTTTAAACTTTTGTGAATTTTGAATTTTTTAT
1 AATCTTTAAACTTTTGTAAACCTTGAACTTTTTAT
12616071 AATC-TTAAATCTTTTGTAAACCTTGAACTTTT
1 AATCTTTAAA-CTTTTGTAAACCTTGAACTTTT
12616103 GCAAATCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 5 0.19
35 22 0.81
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.52
Consensus pattern (35 bp):
AATCTTTAAACTTTTGTAAACCTTGAACTTTTTAT
Found at i:12616223 original size:18 final size:18
Alignment explanation
Indices: 12616202--12616332 Score: 92
Period size: 18 Copynumber: 7.2 Consensus size: 18
12616192 ATTTGAAAAA
*
12616202 TTTGCAAAACTTGAATCT
1 TTTGCAAATCTTGAATCT
12616220 TTTGCAAATCTTTGAATCT
1 TTTGCAAATC-TTGAATCT
*** *
12616239 TTTATGAATCTTGGAT-T
1 TTTGCAAATCTTGAATCT
*
12616256 TTT-TAGAATCTTGAATCT
1 TTTGCA-AATCTTGAATCT
*
12616274 TTTGCAAACCTTGAA-CTT
1 TTTGCAAATCTTGAATC-T
* *
12616292 TTGTGAAAAT-TTGAATTT
1 TT-TGCAAATCTTGAATCT
12616310 ATTTGCAAATCTTTGAA-CT
1 -TTTGCAAATC-TTGAATCT
12616329 TTTG
1 TTTG
12616333 GGAGAACTTG
Statistics
Matches: 89, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
16 1 0.01
17 14 0.16
18 45 0.51
19 24 0.27
20 5 0.06
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.47
Consensus pattern (18 bp):
TTTGCAAATCTTGAATCT
Found at i:12616353 original size:38 final size:36
Alignment explanation
Indices: 12616260--12616354 Score: 100
Period size: 38 Copynumber: 2.5 Consensus size: 36
12616250 TGGATTTTTT
*
12616260 AGAATCTTGAATCTTTTGCAAACCTTGAACTTTTGTG
1 AGAA-CTTGAATCTTTTGCAAACCTTGAACTTTTGGG
* * * *
12616297 AAAATTTGAATTTATTTGCAAATCTTTGAACTTTTGGG
1 AGAACTTGAATCT-TTTGCAAA-CCTTGAACTTTTGGG
*
12616335 AGAACTTGGAATGTTTTGCA
1 AGAACTT-GAATCTTTTGCA
12616355 TGTCTTTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 7 0.15
37 11 0.23
38 24 0.51
39 5 0.11
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (36 bp):
AGAACTTGAATCTTTTGCAAACCTTGAACTTTTGGG
Found at i:12617770 original size:35 final size:36
Alignment explanation
Indices: 12617730--12617809 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
12617720 TAGAAAAGAA
*
12617730 ATAATTTC-CATAAAATGC-TACCAACATATTGGAGG
1 ATAATTTCACAAAAAAT-CTTACCAACATATTGGAGG
12617765 ATAATTTCTAGCAAAAAATCTTACCAACATATTGGAGG
1 ATAATTTC-A-CAAAAAATCTTACCAACATATTGGAGG
12617803 AT-ATTTC
1 ATAATTTC
12617810 TGAAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 8 0.20
37 6 0.15
38 26 0.65
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (36 bp):
ATAATTTCACAAAAAATCTTACCAACATATTGGAGG
Found at i:12618668 original size:23 final size:23
Alignment explanation
Indices: 12618614--12618677 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
12618604 TATTCTCTTT
12618614 ATAATTTGTAGTAATTTATGTTTA
1 ATAATTTG-AGTAATTTATGTTTA
12618638 ATATATTTG-GTAATTT-TGTTTA
1 ATA-ATTTGAGTAATTTATGTTTA
*
12618660 GATTAATTTAAGTTAATT
1 -A-TAATTTGAG-TAATT
12618678 AGTTCACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
22 6 0.18
23 12 0.35
24 6 0.18
25 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (23 bp):
ATAATTTGAGTAATTTATGTTTA
Found at i:12621260 original size:15 final size:15
Alignment explanation
Indices: 12621240--12621270 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12621230 AATTGAATTT
12621240 TTTAATAATTTATGA
1 TTTAATAATTTATGA
12621255 TTTAATAATTTATGA
1 TTTAATAATTTATGA
12621270 T
1 T
12621271 GTATTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TTTAATAATTTATGA
Found at i:12622354 original size:20 final size:19
Alignment explanation
Indices: 12622294--12622354 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
12622284 GATGCTTAAT
*
12622294 GATGAATATATTGTTGTTTAG
1 GATG-ATATGTTGTTGTTT-G
* * * *
12622315 CATGATTTGTGGTTGATTG
1 GATGATATGTTGTTGTTTG
12622334 GATGTATATGTTGTTGTTTG
1 GATG-ATATGTTGTTGTTTG
12622354 G
1 G
12622355 TTACTATTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.49
Consensus pattern (19 bp):
GATGATATGTTGTTGTTTG
Found at i:12623568 original size:21 final size:20
Alignment explanation
Indices: 12623544--12623582 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12623534 TGAAAATTTT
*
12623544 GAAAAAAATTTTAAAAAATAA
1 GAAAAAAA-TTAAAAAAATAA
12623565 GAAAAAAATTAAAAAAAT
1 GAAAAAAATTAAAAAAAT
12623583 GTCTTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
GAAAAAAATTAAAAAAATAA
Found at i:12623665 original size:60 final size:56
Alignment explanation
Indices: 12623557--12623680 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 56
12623547 AAAAATTTTA
12623557 AAAAATAAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTTCCTTGTTTTGAA-AAAAT
1 AAAAA-AAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTTCCTTG--TT-AACAAAAT
* * **
12623616 AAAAAAATAAAAAAATTGAAAAAAAATGTTTTGATTTTAATTTTTTTGTTAACAAAAT
1 AAAAAAAGAAAAAAATT--AAAAAAATGTCTTGATTTTAATTTCCTTGTTAACAAAAT
12623674 AAAAAAA
1 AAAAAAA
12623681 AAAGTGTGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
57 2 0.03
58 25 0.43
59 5 0.09
60 26 0.45
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (56 bp):
AAAAAAAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTTCCTTGTTAACAAAAT
Found at i:12623673 original size:58 final size:57
Alignment explanation
Indices: 12623557--12623680 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 57
12623547 AAAAATTTTA
12623557 AAAAATAAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTTCCTTGTTTTGAAAAAAT
1 AAAAA-AAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTT-CTTGTTTTGAAAAAAT
* *
12623616 AAAAAAATAAAAAAATTGAAAAAAAATGTTTTGATTTTAATTT-TT-TTGTT-AACAAAAT
1 AAAAAAAGAAAAAAATT--AAAAAAATGTCTTGATTTTAATTTCTTGTT-TTGAA-AAAAT
12623674 AAAAAAA
1 AAAAAAA
12623681 AAAGTGTGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
57 4 0.07
58 27 0.46
59 5 0.08
60 23 0.39
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (57 bp):
AAAAAAAGAAAAAAATTAAAAAAATGTCTTGATTTTAATTTCTTGTTTTGAAAAAAT
Found at i:12627648 original size:19 final size:21
Alignment explanation
Indices: 12627624--12627666 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
12627614 AAAGGGCCTT
12627624 AAAAAT-TTAAAAAAA-AGAA
1 AAAAATGTTAAAAAAAGAGAA
12627643 AAAAATGTTAAAAAAAGAGAA
1 AAAAATGTTAAAAAAAGAGAA
12627664 AAA
1 AAA
12627667 TAAAGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATGTTAAAAAAAGAGAA
Found at i:12628329 original size:15 final size:16
Alignment explanation
Indices: 12628309--12628343 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12628299 GGGCATACAA
*
12628309 AAAATAAAAA-TAAAT
1 AAAATAAAAAGAAAAT
12628324 AAAATAAAAAGAAAAT
1 AAAATAAAAAGAAAAT
12628340 AAAA
1 AAAA
12628344 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAGAAAAT
Found at i:12628348 original size:19 final size:20
Alignment explanation
Indices: 12628315--12628356 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
12628305 ACAAAAAATA
12628315 AAAATAAATAAAATAAAAAG
1 AAAATAAATAAAATAAAAAG
12628335 AAAATAAA-AAAATAAAAAG
1 AAAATAAATAAAATAAAAAG
12628354 AAA
1 AAA
12628357 GAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAATAAATAAAATAAAAAG
Found at i:12628361 original size:18 final size:19
Alignment explanation
Indices: 12628324--12628362 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12628314 AAAAATAAAT
*
12628324 AAAATAAAAAGAAAATAAA
1 AAAATAAAAAGAAAAGAAA
12628343 AAAATAAAAAG-AAAGAAA
1 AAAATAAAAAGAAAAGAAA
12628361 AA
1 AA
12628363 TTTTAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAATAAAAAGAAAAGAAA
Found at i:12628804 original size:20 final size:20
Alignment explanation
Indices: 12628778--12628835 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
12628768 CACTCAAAGA
12628778 AAAAAAAAAGAGAAAATAGGG
1 AAAAAAAAAGAGAAAATA-GG
*
12628799 AAAAAAAGAAGA-AACA-AGG
1 AAAAAAA-AAGAGAAAATAGG
12628818 AAAAAAAAAGAGAAAATA
1 AAAAAAAAAGAGAAAATA
12628836 AATGATTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 2 0.06
21 10 0.31
22 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAATAGG
Found at i:12631309 original size:14 final size:14
Alignment explanation
Indices: 12631292--12631353 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
12631282 CGACCATAGA
12631292 GTTTTAATTTTAAG
1 GTTTTAATTTTAAG
*
12631306 GTTTCAA-TTTAAG
1 GTTTTAATTTTAAG
*
12631319 GTTTTAATTTTAGG
1 GTTTTAATTTTAAG
*
12631333 GTTTTAGTTTT-AG
1 GTTTTAATTTTAAG
12631346 GATTTTAA
1 G-TTTTAA
12631354 AAGTTTACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 14 0.35
14 26 0.65
ACGTcount: A:0.26, C:0.02, G:0.18, T:0.55
Consensus pattern (14 bp):
GTTTTAATTTTAAG
Found at i:12636403 original size:41 final size:41
Alignment explanation
Indices: 12636353--12636685 Score: 221
Period size: 41 Copynumber: 8.1 Consensus size: 41
12636343 ATTTTTGAAG
* * * *
12636353 ACTAAGAATCATTTACTTTAATGTGAATTTAGAATCTTTCA
1 ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTCA
* * * *
12636394 ACTATGAATCGTTTACTCTATTATGAATCCAAAATC-TTCTA
1 ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTC-A
* * * *
12636435 ACTGTGAATCATTGT-CTTTATTGTGAATCTAG-GTCCTTCA
1 ACTATGAATCATT-TACTTTATTATGAATCTAGAATCTTTCA
* * * * *
12636475 AATATGAATCATTTACTTCATTATGAATCCAAAATTTTTCAA
1 ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTC-A
* *
12636517 ACTATGAATCATTTACTTTATTATGAAT-TAAGAGTCTTCCA
1 ACTATGAATCATTTACTTTATTATGAATCT-AGAATCTTTCA
* * * ** * * * * *
12636558 ATTGTGAATCGTTGCCTTTGTTGTGAATTTAGAGTCTTTTA
1 ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTCA
* * *
12636599 ACTATGAATCA-TTATCTTTGTTATAAATCCA-AAGTCTTTCA
1 ACTATGAATCATTTA-CTTTATTATGAATCTAGAA-TCTTTCA
* * * * *
12636640 ACTATGAATC-GTTGCGTTTGTTATGAATCCAAAATCTTTCA
1 ACTATGAATCATTTAC-TTTATTATGAATCTAGAATCTTTCA
12636681 ACTAT
1 ACTAT
12636686 AAACCAACGT
Statistics
Matches: 226, Mismatches: 53, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
39 1 0.00
40 33 0.15
41 155 0.69
42 37 0.16
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (41 bp):
ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTCA
Found at i:12636460 original size:82 final size:82
Alignment explanation
Indices: 12636353--12636685 Score: 266
Period size: 82 Copynumber: 4.1 Consensus size: 82
12636343 ATTTTTGAAG
* * * * *
12636353 ACTAAGAATCATTTACTTTAATGTGAATTTAGAATCTTTCAACTATGAATCGTTTACTCTATTAT
1 ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTCAACTATGAATCGTTTACTTTATTAT
12636418 GAATCCAAAATCTTCTA
66 GAATCCAAAATCTTCTA
* * * * * * *
12636435 ACTGTGAATCATTGT-CTTTATTGTGAATCTAG-GTCCTTCAAATATGAATCATTTACTTCATTA
1 ACTATGAATCATT-TACTTTATTATGAATCTAGAATCTTTCAACTATGAATCGTTTACTTTATTA
* *
12636498 TGAATCCAAAATTTTTCAA
65 TGAATCCAAAA-TCTTCTA
* * * * ** * *
12636517 ACTATGAATCATTTACTTTATTATGAAT-TAAGAGTCTTCCAATTGTGAATCGTTGCCTTTGTTG
1 ACTATGAATCATTTACTTTATTATGAATCT-AGAATCTTTCAACTATGAATCGTTTACTTTATTA
** * * *
12636581 TGAATTTAGAGTCTTTTA
65 TGAATCCAAAATCTTCTA
* * * * *
12636599 ACTATGAATCA-TTATCTTTGTTATAAATCCA-AAGTCTTTCAACTATGAATCG-TTGCGTTTGT
1 ACTATGAATCATTTA-CTTTATTATGAATCTAGAA-TCTTTCAACTATGAATCGTTTAC-TTTAT
12636661 TATGAATCCAAAATCTT-TCA
63 TATGAATCCAAAATCTTCT-A
12636681 ACTAT
1 ACTAT
12636686 AAACCAACGT
Statistics
Matches: 196, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
81 45 0.23
82 122 0.62
83 29 0.15
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (82 bp):
ACTATGAATCATTTACTTTATTATGAATCTAGAATCTTTCAACTATGAATCGTTTACTTTATTAT
GAATCCAAAATCTTCTA
Found at i:12636541 original size:123 final size:122
Alignment explanation
Indices: 12636385--12636683 Score: 334
Period size: 123 Copynumber: 2.4 Consensus size: 122
12636375 GTGAATTTAG
* * *
12636385 AATCTTTCAACTATGAATCGTTTACTCTATTATGAATCCAAAATCTTCTAACTGTGAATCATTGT
1 AATCTTTCAACTATGAATC-TTTACTTTATTATGAATCCAAAATCTTCCAACTGTGAATCATTGC
*
12636450 CTTTATTGTGAATCTAG-GTCCTTCAAATATGAATCATT-TACTTCATTATGAATCCAA
65 CTTTATTGTGAATCTAGAGTCCTTCAAATATGAATCATTAT-CTTCATTATAAATCCAA
* * * * *
12636507 AATTTTTCAAACTATGAATCATTTACTTTATTATGAAT-TAAGAGTCTTCCAATTGTGAATCGTT
1 AATCTTTC-AACTATGAATC-TTTACTTTATTATGAATCCAA-AATCTTCCAACTGTGAATCATT
* * * * * **
12636571 GCCTTTGTTGTGAATTTAGAGTCTTTTAACTATGAATCATTATCTTTGTTATAAATCCAA
63 GCCTTTATTGTGAATCTAGAGTCCTTCAAATATGAATCATTATCTTCATTATAAATCCAA
* * * * *
12636631 AGTCTTTCAACTATGAATCGTTGCGTTTGTTATGAATCCAAAATCTTTCAACT
1 AATCTTTCAACTATGAATCTTTAC-TTTATTATGAATCCAAAATCTTCCAACT
12636684 ATAAACCAAC
Statistics
Matches: 145, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
122 12 0.08
123 92 0.63
124 40 0.28
125 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (122 bp):
AATCTTTCAACTATGAATCTTTACTTTATTATGAATCCAAAATCTTCCAACTGTGAATCATTGCC
TTTATTGTGAATCTAGAGTCCTTCAAATATGAATCATTATCTTCATTATAAATCCAA
Found at i:12636762 original size:52 final size:52
Alignment explanation
Indices: 12636701--12636948 Score: 268
Period size: 52 Copynumber: 4.8 Consensus size: 52
12636691 AACGTCTTTG
* * * * *
12636701 GTGTGAATCCTAAAACTTTTGAAGAATCTTGGTATGAATCTTAGCCTTTTTA
1 GTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTTA
* * * * ** *
12636753 GTGTGAATCCCAAACCTTTTAAAAAATCCT-GATGTGAATCCCAATC-TTTTG
1 GTGTGAATCCTAAACCTTTTAAAGAATCTTAG-TGTGAATCCTAGCCTTTTTA
* * * *
12636804 GTGTGAATCTTAAACCTTTAAAAGAATCCTAGTGTGAATCCTAGCCTTTTCA
1 GTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTTA
* * *
12636856 GTGTGAATCCTAAACCTTTTGAAGAATCTTAATGTGAATCCTAG-CTTTTTT
1 GTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTTA
* *
12636907 GATATGAATCCTAAACCTTTTCAAGAATCTTAGTGTGAATCC
1 G-TGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCC
12636949 CAAACCTTTT
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
51 48 0.30
52 114 0.70
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (52 bp):
GTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTTA
Found at i:12636891 original size:103 final size:104
Alignment explanation
Indices: 12636697--12636948 Score: 317
Period size: 103 Copynumber: 2.4 Consensus size: 104
12636687 AACCAACGTC
* * * * * *
12636697 TTTGGTGTGAATCCTAAAACTTTTGAAGAATCTTGGTATGAATCTTAGCCTTTTTAGTGTGAATC
1 TTTGGTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTCAGTGTGAATC
*
12636762 CCAAACCTTTTAAAAAATCCTGATGTGAATCCCA-ATCT
66 CCAAACCTTTTAAAAAATCCTAATGTGAATCCCAGATCT
* * *
12636800 TTTGGTGTGAATCTTAAACCTTTAAAAGAATCCTAGTGTGAATCCTAGCCTTTTCAGTGTGAATC
1 TTTGGTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTCAGTGTGAATC
* * * * * * *
12636865 CTAAACCTTTTGAAGAATCTTAATGTGAATCCTAGCTTT
66 CCAAACCTTTTAAAAAATCCTAATGTGAATCCCAGATCT
* * *
12636904 TTTGATATGAATCCTAAACCTTTTCAAGAATCTTAGTGTGAATCC
1 TTTGGTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCC
12636949 CAAACCTTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
103 84 0.67
104 41 0.33
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (104 bp):
TTTGGTGTGAATCCTAAACCTTTTAAAGAATCTTAGTGTGAATCCTAGCCTTTTCAGTGTGAATC
CCAAACCTTTTAAAAAATCCTAATGTGAATCCCAGATCT
Found at i:12636946 original size:31 final size:31
Alignment explanation
Indices: 12636911--12636977 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
12636901 TTTTTTGATA
* *
12636911 TGAATCCTAAACCTTTTCAAGAATCTTAGTG
1 TGAATCCCAAACCTTTTAAAGAATCTTAGTG
* *
12636942 TGAATCCCAAACCTTTTAAAGAATTTTGGTG
1 TGAATCCCAAACCTTTTAAAGAATCTTAGTG
12636973 TGAAT
1 TGAAT
12636978 GATAGTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (31 bp):
TGAATCCCAAACCTTTTAAAGAATCTTAGTG
Found at i:12637077 original size:52 final size:49
Alignment explanation
Indices: 12637020--12637171 Score: 137
Period size: 50 Copynumber: 3.0 Consensus size: 49
12637010 ATGAATCCTA
*
12637020 ATGTGAATCCCAACCATTTTAGTGTAAATCCTGAACTTTTTGAAAAATCTTG
1 ATGTGAA-CCCAACC-TTTTAGTGTGAATCCTGAAC-TTTTGAAAAATCTTG
* * * * * * *
12637072 GTGTGAACCTCAGCTTTTTCGATGTGAATCTTGAACCTTTG-AAAATCTTA
1 ATGTGAACC-CAACCTTTTAG-TGTGAATCCTGAACTTTTGAAAAATCTTG
* *
12637122 ATGTGAACTCCAACCTTTTGGTGTGAATCCTGAACCTTTT-AATAATCTTG
1 ATGTGAAC-CCAACCTTTTAGTGTGAATCCTGAA-CTTTTGAAAAATCTTG
12637172 TTGTTAATCT
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
49 12 0.15
50 34 0.43
51 12 0.15
52 21 0.27
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (49 bp):
ATGTGAACCCAACCTTTTAGTGTGAATCCTGAACTTTTGAAAAATCTTG
Found at i:12637127 original size:50 final size:49
Alignment explanation
Indices: 12636990--12637170 Score: 136
Period size: 52 Copynumber: 3.6 Consensus size: 49
12636980 TAGTCTTTCA
* * *
12636990 ATGTGAATCCT-ATCCTTTTGATGAATCCTAATGTGAA-TCCCAACCATTTT-
1 ATGTGAATCCTGAACC-TTTGA-AAATCTTAATGTGAACT-CCAACC-TTTTG
* * ** * *
12637040 AGTGTAAATCCTGAACTTTTTGAAAAATCTTGGTGTGAAC-CTCAGCTTTTTCG
1 A-TGTGAATCCTGAAC-CTTTG-AAAATCTTAATGTGAACTC-CAACCTTTT-G
*
12637093 ATGTGAATCTTGAACCTTTGAAAATCTTAATGTGAACTCCAACCTTTTG
1 ATGTGAATCCTGAACCTTTGAAAATCTTAATGTGAACTCCAACCTTTTG
* *
12637142 GTGTGAATCCTGAACCTTTTAATAATCTT
1 ATGTGAATCCTGAACCTTTGAA-AATCTT
12637171 GTTGTTAATC
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
49 20 0.20
50 29 0.28
51 19 0.19
52 32 0.31
53 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (49 bp):
ATGTGAATCCTGAACCTTTGAAAATCTTAATGTGAACTCCAACCTTTTG
Found at i:12637148 original size:20 final size:20
Alignment explanation
Indices: 12637123--12637161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12637113 AAAATCTTAA
12637123 TGTGAACTCC-AACCTTTTGG
1 TGTGAA-TCCGAACCTTTTGG
12637143 TGTGAATCCTGAACCTTTT
1 TGTGAATCC-GAACCTTTT
12637162 AATAATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 6 0.35
21 8 0.47
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (20 bp):
TGTGAATCCGAACCTTTTGG
Found at i:12637307 original size:20 final size:21
Alignment explanation
Indices: 12637266--12637308 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12637256 TGAAGAATCC
*
12637266 TAGTGTAAATTCTAGCCTTTT
1 TAGTGTAAATCCTAGCCTTTT
* *
12637287 TAGTGTGAATCCTAGCTTTTT
1 TAGTGTAAATCCTAGCCTTTT
12637308 T
1 T
12637309 GGTACGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (21 bp):
TAGTGTAAATCCTAGCCTTTT
Found at i:12637880 original size:20 final size:20
Alignment explanation
Indices: 12637855--12637892 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12637845 AAATGCCCTA
12637855 AGGTCAAATTTGATTAAAAT
1 AGGTCAAATTTGATTAAAAT
*
12637875 AGGTCAAATTTGGTTAAA
1 AGGTCAAATTTGATTAAA
12637893 CAAAGTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (20 bp):
AGGTCAAATTTGATTAAAAT
Found at i:12637900 original size:20 final size:20
Alignment explanation
Indices: 12637857--12637902 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
12637847 ATGCCCTAAG
*
12637857 GTCAAATTTGATTAAAATAG
1 GTCAAATTTGATTAAAATAA
*
12637877 GTCAAATTTGGTTAAACA-AA
1 GTCAAATTTGATTAAA-ATAA
12637897 GTCAAA
1 GTCAAA
12637903 CATAATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (20 bp):
GTCAAATTTGATTAAAATAA
Found at i:12638827 original size:126 final size:126
Alignment explanation
Indices: 12638590--12639415 Score: 662
Period size: 126 Copynumber: 6.6 Consensus size: 126
12638580 TATTGAATGA
* * * * *
12638590 ATTATTGAAGGCGTTTTTGGCCAGAAACGCTTTCAATAACCCCATT-AAATTTTTTTTTGGGATT
1 ATTATTAAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGATT
** * *
12638654 ATTCAAGGCATTTTTGGTGAAAAATA--CCTTGAGTAATTATGTCATAAAAATTTATGATAGG
66 ATTCAAGGTGTTTTTGGTCAAAAA-ACGCCTTGAGTAATCA-GTCATAAAAATTTATGATAGG
* * * *
12638715 ATAATTAAAGGCGTCTTTT-ACTAGAAACACCTTCAATAATCCCATTAAAATTTTTTTTTAAGAT
1 ATTATTAAAGGCGT-TTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGAT
* *
12638779 TATTCAATGTGTTTTT-GTCAAAAAACGCCTTGAGTAATCAGCTTATAAAAATTTATGAT-GCG
65 TATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATCAG-TCATAAAAATTTATGATAG-G
* * * * * * * *
12638841 ATTATTAAAAGTGTTTTTTGGCTAAAAATGCCTTTAATAACCCCATTAAAAATTTATTTT-GGAA
1 ATTATTAAAGGCG-TTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGG-A
** * **
12638905 TTATTCAAGGTGTTTTTGGT-GGAAAATGCCTTGAGTAATCATGTCATAAAAATTTATGAGGGG
64 TTATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATCA-GTCATAAAAATTTATGATAGG
* * * * * * *
12638968 ATTATTAAAGGTGTTTTTAACTCGAAACGCCTTTAATAACCCCATTAAAAATTTTATTTAAGATT
1 ATTATTAAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGATT
** * * ** * * *
12639033 ATTCAAGGCATTTTTAG-CGAAAAACATCTTAACTAATCTTGTCATAAAAATTTAT-A-ACGAG
66 ATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATC-AGTCATAAAAATTTATGATA-G-G
* * * * *
12639094 ATTATTGAAA-GCATTTTTGACCAAAAACGCCTTCAATAACCTCATTAAAA-ATTTTTTTAGGAT
1 ATTATT-AAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGAT
* * * * * * * * *
12639157 TATTCAAAGTGTTTTTGGGC-AAAAATGCCTTAAGTAATTACCTTATAAAAATTT-TTATGGGG
65 TATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATCA-GTCATAAAAATTTATGAT-AGG
* * *
12639219 ATTATTAAAGGC-ATTTTGGCTAGAAACGCCTTCAATAACCCCATTAAAA-TTTTTTTTGGGATT
1 ATTATTAAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGATT
** * * * * ** * * *
12639282 ATTCAAGGCATTTTTGAT-GAAAAGCACCTAAAGTAATCACGTTATAAAAATATATGAAAGG
66 ATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATCA-GTCATAAAAATTTATGATAGG
* * * * * * * *
12639343 ATTATTGAAGGTGTTTTTGGCTGGAAATGCCTTCAATAACCACATTAAAAATTTTTTTCAGGATT
1 ATTATTAAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGATT
*
12639408 GTTCAAGG
66 ATTCAAGG
12639416 CATCTTGAAT
Statistics
Matches: 565, Mismatches: 108, Indels: 55
0.78 0.15 0.08
Matches are distributed among these distances:
124 101 0.18
125 139 0.25
126 221 0.39
127 100 0.18
128 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (126 bp):
ATTATTAAAGGCGTTTTTGACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTTAGGATT
ATTCAAGGTGTTTTTGGTCAAAAAACGCCTTGAGTAATCAGTCATAAAAATTTATGATAGG
Found at i:12638855 original size:64 final size:63
Alignment explanation
Indices: 12638776--12638985 Score: 176
Period size: 64 Copynumber: 3.3 Consensus size: 63
12638766 TTTTTTTTAA
* * *
12638776 GATTATTCAATGTGTTTTTGTCAAAAAACGCCTTGAGTAATCAGCTTATAAAAATTTATGATG
1 GATTATTAAAGGTGTTTTTGTCAAAAAATGCCTTGAGTAATCAGCTTATAAAAATTTATGATG
* * * * * ** * **
12638839 CGATTATTAAAAGTGTTTTTTGGCTAAAAATGCCTTTAATAA-CCCCAT-TAAAAATTTATTTTG
1 -GATTATTAAAGGTG-TTTTTGTCAAAAAATGCCTTGAGTAATCAGCTTATAAAAATTTATGATG
* ** *
12638902 GAATTATTCAAGGTGTTTTTGGT-GGAAAATGCCTTGAGTAATCATG-TCATAAAAATTTATGAG
1 G-ATTATTAAAGGTGTTTTT-GTCAAAAAATGCCTTGAGTAATCA-GCTTATAAAAATTTATGA-
*
12638965 GG
62 TG
12638967 GATTATTAAAGGTGTTTTT
1 GATTATTAAAGGTGTTTTT
12638986 AACTCGAAAC
Statistics
Matches: 112, Mismatches: 27, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
62 20 0.18
63 26 0.23
64 43 0.38
65 23 0.21
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (63 bp):
GATTATTAAAGGTGTTTTTGTCAAAAAATGCCTTGAGTAATCAGCTTATAAAAATTTATGATG
Found at i:12638951 original size:253 final size:247
Alignment explanation
Indices: 12638590--12639415 Score: 874
Period size: 253 Copynumber: 3.3 Consensus size: 247
12638580 TATTGAATGA
* * * * * * **
12638590 ATTATTGAAGGCGTTTTTGGCCAGAAACGCTTTCAATAACCCCATTAAATTTTTTTTTGGGATTA
1 ATTATTGAAAGTGTTTTTGGCTAAAAATGCCTTCAATAACCCCATTAAAAATTTTTTT-GGATTA
** * * *
12638655 TTCAAGGCATTTTTGGTGAAAAATACCTTGAGTAATTATGTCATAAAAATTTATGATAGGATAAT
65 TTCAAGGTGTTTTTGGTGAAAAATGCCTTGAGTAATTATGTCATAAAAATTTATGATGGGATTAT
* *
12638720 TAAAGGCGTCTTTTACTAGAAACACCTTCAATAATCCCATTAAAATTTTTTTTTAAGATTATTCA
130 TAAAGGCGT-TTTTACTAGAAACGCCTTCAATAACCCCATTAAAA-TTTTTTTTAAGATTATTCA
* ** * * * *
12638785 ATGTGTTTTTGTCAAAAAACGCCTTGAGTAATCAGCTTATAAAAATTTATGATGCG
193 AGGCATTTTTGTCGAAAAACACCTTAAGTAATCAGCTTATAAAAATTTATGAAG-G
* *
12638841 ATTATTAAAAGTGTTTTTTGGCTAAAAATGCCTTTAATAACCCCATTAAAAATTTATTTTGGAAT
1 ATTATTGAAAGTG-TTTTTGGCTAAAAATGCCTTCAATAACCCCATTAAAAATTT-TTTTGG-AT
* * *
12638906 TATTCAAGGTGTTTTTGGTGGAAAATGCCTTGAGTAATCATGTCATAAAAATTTATGAGGGGATT
63 TATTCAAGGTGTTTTTGGTGAAAAATGCCTTGAGTAATTATGTCATAAAAATTTATGATGGGATT
* * * *
12638971 ATTAAAGGTGTTTTTAACTCGAAACGCCTTTAATAACCCCATTAAAAATTTTATTTAAGATTATT
128 ATTAAAGGCGTTTTT-ACTAGAAACGCCTTCAATAACCCCATT-AAAATTTTTTTTAAGATTATT
* * * *
12639036 CAAGGCATTTTTAG-CGAAAAACATCTTAACTAATCTTG-TCATAAAAATTTAT-AACGAG
191 CAAGGCATTTTT-GTCGAAAAACACCTTAAGTAATC-AGCTTATAAAAATTTATGAA-G-G
** * * * *
12639094 ATTATTGAAAGCATTTTTGACCAAAAACGCCTTCAATAACCTCATTAAAAATTTTTTTAGGATTA
1 ATTATTGAAAGTGTTTTTGGCTAAAAATGCCTTCAATAACCCCATTAAAAATTTTTTT-GGATTA
* * ** * *
12639159 TTCAAAGTGTTTTTGG-GCAAAAATGCCTTAAGTAATTACCTTATAAAAATTT-TTATGGGGATT
65 TTCAAGGTGTTTTTGGTG-AAAAATGCCTTGAGTAATTATGTCATAAAAATTTATGAT-GGGATT
* ** **
12639222 ATTAAAGGCATTTTGGCTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTGGGATTATTCA
128 ATTAAAGGCGTTTTTACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTAAGATTATTCA
* * *
12639287 AGGCATTTTTGAT-GAAAAGCACCTAAAGTAATCA-CGTTATAAAAATATATGAAAGG
193 AGGCATTTTTG-TCGAAAAACACCTTAAGTAATCAGC-TTATAAAAATTTATG-AAGG
* ** *
12639343 ATTATTGAAGGTGTTTTTGGCTGGAAATGCCTTCAATAACCACATTAAAAATTTTTTTCAGGATT
1 ATTATTGAAAGTGTTTTTGGCTAAAAATGCCTTCAATAACCCCATTAAAAATTTTTTT--GGATT
*
12639408 GTTCAAGG
64 ATTCAAGG
12639416 CATCTTGAAT
Statistics
Matches: 477, Mismatches: 80, Indels: 37
0.80 0.13 0.06
Matches are distributed among these distances:
248 1 0.00
249 108 0.23
250 40 0.08
251 81 0.17
252 79 0.17
253 162 0.34
254 6 0.01
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (247 bp):
ATTATTGAAAGTGTTTTTGGCTAAAAATGCCTTCAATAACCCCATTAAAAATTTTTTTGGATTAT
TCAAGGTGTTTTTGGTGAAAAATGCCTTGAGTAATTATGTCATAAAAATTTATGATGGGATTATT
AAAGGCGTTTTTACTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTAAGATTATTCAAGG
CATTTTTGTCGAAAAACACCTTAAGTAATCAGCTTATAAAAATTTATGAAGG
Found at i:12639282 original size:60 final size:60
Alignment explanation
Indices: 12639093--12639295 Score: 180
Period size: 60 Copynumber: 3.3 Consensus size: 60
12639083 TTTATAACGA
** * *
12639093 GATTATTGAAA-GCATTTTTGACCAAAAACGCCTTCAATAACCTCATTAAAAATTTTTTTAG
1 GATTATT-AAAGGCA-TTTTGGGCAAAAACGCCTTCAATAACCTCATTAAAATTTTTTTTGG
* * * * * *
12639154 GATTATTCAAAGTG-TTTTTGGGCAAAAATGCCTT-AAGTAATTACCTTATAAAAATTTTTATGG
1 GATTATT-AAAG-GCATTTTGGGCAAAAACGCCTTCAA-T-A--ACCTCATTAAAATTTTTTTTG
12639217 G
60 G
* *
12639218 GATTATTAAAGGCATTTT-GGCTAGAAACGCCTTCAATAACCCCATTAAAATTTTTTTTGG
1 GATTATTAAAGGCATTTTGGGC-AAAAACGCCTTCAATAACCTCATTAAAATTTTTTTTGG
*
12639278 GATTATTCAAGGCATTTT
1 GATTATTAAAGGCATTTT
12639296 TGATGAAAAG
Statistics
Matches: 113, Mismatches: 20, Indels: 19
0.74 0.13 0.12
Matches are distributed among these distances:
60 36 0.32
61 27 0.24
62 6 0.05
63 19 0.17
64 25 0.22
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (60 bp):
GATTATTAAAGGCATTTTGGGCAAAAACGCCTTCAATAACCTCATTAAAATTTTTTTTGG
Found at i:12641651 original size:20 final size:20
Alignment explanation
Indices: 12641600--12641660 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
12641590 ACCCTAAATA
*
12641600 CCTAAGCCTTAAACT-TAAAT
1 CCTAA-CCTTAAACTCTAAAC
* *
12641620 CCTCACCCTAAACTCTAAAC
1 CCTAACCTTAAACTCTAAAC
*
12641640 CCTAACCTTAAACCCTAAAC
1 CCTAACCTTAAACTCTAAAC
12641660 C
1 C
12641661 GCAAAACTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.23
Consensus pattern (20 bp):
CCTAACCTTAAACTCTAAAC
Found at i:12641653 original size:13 final size:14
Alignment explanation
Indices: 12641624--12641659 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
12641614 TTAAATCCTC
12641624 ACCCTAAACTCTAA
1 ACCCTAAACTCTAA
*
12641638 ACCCTAACCT-TAA
1 ACCCTAAACTCTAA
12641651 ACCCTAAAC
1 ACCCTAAAC
12641660 CGCAAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (14 bp):
ACCCTAAACTCTAA
Found at i:12641660 original size:14 final size:15
Alignment explanation
Indices: 12641624--12641660 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
12641614 TTAAATCCTC
12641624 ACCCTAAA-CTCTAA
1 ACCCTAAACCTCTAA
12641638 ACCCT-AACCT-TAA
1 ACCCTAAACCTCTAA
12641651 ACCCTAAACC
1 ACCCTAAACC
12641661 GCAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (15 bp):
ACCCTAAACCTCTAA
Found at i:12642096 original size:9 final size:9
Alignment explanation
Indices: 12642082--12642117 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12642072 GATTTGTTTC
12642082 AAAAAAAGA
1 AAAAAAAGA
12642091 AAAAAAAG-
1 AAAAAAAGA
12642099 AAAAAAAGA
1 AAAAAAAGA
*
12642108 AGAAAAAGA
1 AAAAAAAGA
12642117 A
1 A
12642118 TTAATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:12642104 original size:17 final size:17
Alignment explanation
Indices: 12642082--12642117 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
12642072 GATTTGTTTC
12642082 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
*
12642099 AAAAAAAGAAGAAAAAG
1 AAAAAAAGAAAAAAAAG
12642116 AA
1 AA
12642118 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:12646587 original size:30 final size:31
Alignment explanation
Indices: 12646548--12646612 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
12646538 ATTTATGATT
*
12646548 AATATTATTTATA-TTTAAAAAATTAAAGTA
1 AATACTATTTATATTTTAAAAAATTAAAGTA
*
12646578 AATACTATTTATATTTTAAAAAATTAACGTA
1 AATACTATTTATATTTTAAAAAATTAAAGTA
12646609 AATA
1 AATA
12646613 ATTTATGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
AATACTATTTATATTTTAAAAAATTAAAGTA
Found at i:12647857 original size:34 final size:33
Alignment explanation
Indices: 12647813--12647892 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
12647803 CATTTTCAAA
* *
12647813 AAGTTTTATAA-TTTTTAGAAAATTCATTTATGGT
1 AAGTTATATAACTTTTCA-AAAATT-ATTTATGGT
* *
12647847 GAGTTATATAACTTTTCAAAAATTATTTTTGGT
1 AAGTTATATAACTTTTCAAAAATTATTTATGGT
*
12647880 AAGTTATAAAACT
1 AAGTTATATAACT
12647893 AACCATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 19 0.49
34 15 0.38
35 5 0.13
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (33 bp):
AAGTTATATAACTTTTCAAAAATTATTTATGGT
Found at i:12652259 original size:15 final size:15
Alignment explanation
Indices: 12652235--12652268 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12652225 GATCTTTTTG
*
12652235 ACATTCTAATTACAT
1 ACATTATAATTACAT
*
12652250 ACATTATAATTCCAT
1 ACATTATAATTACAT
12652265 ACAT
1 ACAT
12652269 AGACATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (15 bp):
ACATTATAATTACAT
Found at i:12655182 original size:14 final size:14
Alignment explanation
Indices: 12655163--12655201 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12655153 AAATTTTGTT
*
12655163 AGAAAAAATAAATA
1 AGAAAAAAGAAATA
*
12655177 AGAAAATAGAAATA
1 AGAAAAAAGAAATA
*
12655191 ATAAAAAAGAA
1 AGAAAAAAGAA
12655202 TTTCGACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AGAAAAAAGAAATA
Found at i:12655187 original size:21 final size:21
Alignment explanation
Indices: 12655162--12655201 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12655152 TAAATTTTGT
*
12655162 TAGAAAAAATAAATAAGAAAA
1 TAGAAAAAATAAAAAAGAAAA
*
12655183 TAGAAATAATAAAAAAGAA
1 TAGAAAAAATAAAAAAGAA
12655202 TTTCGACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (21 bp):
TAGAAAAAATAAAAAAGAAAA
Done.