Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 10 of 127
Found at i:2346836 original size:65 final size:65
Alignment explanation
Indices: 2346714--2346894 Score: 170
Period size: 65 Copynumber: 2.8 Consensus size: 65
2346704 GTAAATTAGT
* * * * * * *
2346714 TAATTATTAATAATTTTATAGTAAATCATCAATAACTTTATAGTAAATTAGAAATAACATTA-TA
1 TAATTATTAATAACTTAATAATAAATCATCAATAACTTAATAATAAATCAGAAATAAC-TTAGCA
2346778 A
65 A
* ***
2346779 TAATTATTAATAACTTAATAATAAATTATCAATAACTTAATAATAAATCATTTATAACTTAGCAA
1 TAATTATTAATAACTTAATAATAAATCATCAATAACTTAATAATAAATCAGAAATAACTTAGCAA
* * * * *
2346844 TAAATCATCT-ATAACTTAGTGATAAATCAT-AATAATTTAGTAATAAATCAG
1 T-AATTAT-TAATAACTTAATAATAAATCATCAATAACTTAATAATAAATCAG
2346895 TGATAAGATA
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
64 3 0.03
65 69 0.73
66 22 0.23
67 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.38
Consensus pattern (65 bp):
TAATTATTAATAACTTAATAATAAATCATCAATAACTTAATAATAAATCAGAAATAACTTAGCAA
Found at i:2346858 original size:44 final size:44
Alignment explanation
Indices: 2346735--2346893 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 44
2346725 AATTTTATAG
* * * **
2346735 TAAATCATCAATAACTTTA-TAGTAAATTAGAAATAACATT-ATAA
1 TAAATCATTAATAAC-TTAGTAATAAATCATCAATAAC-TTAATAA
* * *
2346779 T-AATTATTAATAACTTAATAATAAATTATCAATAACTTAATAA
1 TAAATCATTAATAACTTAGTAATAAATCATCAATAACTTAATAA
* * * * *
2346822 TAAATCATTTATAACTTAGCAATAAATCATCTATAACTTAGTGA
1 TAAATCATTAATAACTTAGTAATAAATCATCAATAACTTAATAA
*
2346866 TAAATCA-TAATAATTTAGTAATAAATCA
1 TAAATCATTAATAACTTAGTAATAAATCA
2346894 GTGATAAGAT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 5 0.05
43 49 0.51
44 42 0.44
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.36
Consensus pattern (44 bp):
TAAATCATTAATAACTTAGTAATAAATCATCAATAACTTAATAA
Found at i:2346883 original size:21 final size:22
Alignment explanation
Indices: 2346735--2346893 Score: 137
Period size: 22 Copynumber: 7.3 Consensus size: 22
2346725 AATTTTATAG
*
2346735 TAAATCATCAATAACTTTA-TAG
1 TAAATCATCAATAAC-TTAGTAA
* **
2346757 TAAATTAGAAATAACATTA-TAA
1 TAAATCATCAATAAC-TTAGTAA
* * *
2346779 T-AATTATTAATAACTTAATAA
1 TAAATCATCAATAACTTAGTAA
* *
2346800 TAAATTATCAATAACTTAATAA
1 TAAATCATCAATAACTTAGTAA
** *
2346822 TAAATCATTTATAACTTAGCAA
1 TAAATCATCAATAACTTAGTAA
* *
2346844 TAAATCATCTATAACTTAGTGA
1 TAAATCATCAATAACTTAGTAA
*
2346866 TAAATCAT-AATAATTTAGTAA
1 TAAATCATCAATAACTTAGTAA
2346887 TAAATCA
1 TAAATCA
2346894 GTGATAAGAT
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
20 3 0.03
21 32 0.28
22 81 0.70
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.36
Consensus pattern (22 bp):
TAAATCATCAATAACTTAGTAA
Found at i:2347166 original size:22 final size:22
Alignment explanation
Indices: 2347121--2347197 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
2347111 ATATATTGTA
* *
2347121 ATAACATAGTAGTAATTCAA-TG
1 ATAACTTAGTAGTAAAT-AATTG
*
2347143 ATAATTTAGTAGTAAATAATTG
1 ATAACTTAGTAGTAAATAATTG
*
2347165 ATAACTTAATAGCTAAAT-ATTG
1 ATAACTTAGTAG-TAAATAATTG
*
2347187 AAAACTTAGTA
1 ATAACTTAGTA
2347198 ATGTATAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.04
22 39 0.85
23 5 0.11
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTG
Found at i:2347331 original size:22 final size:22
Alignment explanation
Indices: 2347259--2347476 Score: 132
Period size: 22 Copynumber: 9.9 Consensus size: 22
2347249 AATTTAGCAA
* * * *
2347259 TAAATCACTAATAACGTAGTAA
1 TAAATCATTAATAACTTAATAG
* * * *
2347281 TAAGTCATTTATAACTTAGTTG
1 TAAATCATTAATAACTTAATAG
* * * **
2347303 TATATCAATAATAATTTTGTAG
1 TAAATCATTAATAACTTAATAG
* *
2347325 TAAATCATTGATAACTTCATAG
1 TAAATCATTAATAACTTAATAG
* * * *
2347347 TAAATTAGTT-ATAATTTTATAA
1 TAAATCA-TTAATAACTTAATAG
* *
2347369 TAAATTATCAATAACTTAATAG
1 TAAATCATTAATAACTTAATAG
*
2347391 TAAATCATTTATAACTTAATAG
1 TAAATCATTAATAACTTAATAG
* *
2347413 TAAATCATTAATAATTTAATAA
1 TAAATCATTAATAACTTAATAG
* * * * * *
2347435 TAAACCACTGATAACATAGTAA
1 TAAATCATTAATAACTTAATAG
* *
2347457 TGAATCAGTAATAACTTAAT
1 TAAATCATTAATAACTTAAT
2347477 TGTCAATTGA
Statistics
Matches: 149, Mismatches: 45, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
21 1 0.01
22 146 0.98
23 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAACTTAATAG
Found at i:2347361 original size:44 final size:44
Alignment explanation
Indices: 2347285--2347438 Score: 146
Period size: 44 Copynumber: 3.5 Consensus size: 44
2347275 TAGTAATAAG
* * * * * * *
2347285 TCATTTATAACTTAGTTGTATATCAATAATAATTTTGTAGTAAA
1 TCATTAATAACTTAATAGTAAATCAGTTATAATTTTATAGTAAA
* * * *
2347329 TCATTGATAACTTCATAGTAAATTAGTTATAATTTTATAATAAA
1 TCATTAATAACTTAATAGTAAATCAGTTATAATTTTATAGTAAA
* * * * *
2347373 TTATCAATAACTTAATAGTAAATCATTTATAACTTAATAGTAAA
1 TCATTAATAACTTAATAGTAAATCAGTTATAATTTTATAGTAAA
* *
2347417 TCATTAATAATTTAATAATAAA
1 TCATTAATAACTTAATAGTAAA
2347439 CCACTGATAA
Statistics
Matches: 87, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (44 bp):
TCATTAATAACTTAATAGTAAATCAGTTATAATTTTATAGTAAA
Found at i:2347449 original size:66 final size:66
Alignment explanation
Indices: 2347322--2347476 Score: 161
Period size: 66 Copynumber: 2.3 Consensus size: 66
2347312 AATAATTTTG
* * * * ** *
2347322 TAGTAAATCATTGATAACTTCATAGTAAATTAGTTATAATTTTATAATAAATTATCAATAACTTA
1 TAGTAAATCATTAATAACTTAATAGTAAATCAGTTATAATTTAATAATAAACCATCAATAACATA
2347387 A
66 A
* *
2347388 TAGTAAATCATTTATAACTTAATAGTAAATCA-TTAATAATTTAATAATAAACCA-CTGATAACA
1 TAGTAAATCATTAATAACTTAATAGTAAATCAGTT-ATAATTTAATAATAAACCATC-AATAACA
*
2347451 TAG
64 TAA
* * *
2347454 TAATGAATCAGTAATAACTTAAT
1 TAGTAAATCATTAATAACTTAAT
2347477 TGTCAATTGA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
65 3 0.04
66 71 0.96
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (66 bp):
TAGTAAATCATTAATAACTTAATAGTAAATCAGTTATAATTTAATAATAAACCATCAATAACATA
A
Found at i:2347796 original size:24 final size:22
Alignment explanation
Indices: 2347760--2347804 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
2347750 CTTAGCCGCC
2347760 AATCATCAATAACATGTAGTAGTA
1 AATCATCAATAAC-T-TAGTAGTA
* *
2347784 AATCATTACTAACTTAGTAGT
1 AATCATCAATAACTTAGTAGT
2347805 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (22 bp):
AATCATCAATAACTTAGTAGTA
Found at i:2349761 original size:22 final size:22
Alignment explanation
Indices: 2349736--2349818 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
2349726 GTTATAAACT
* *
2349736 ATTTAGTATTAAATTATAATTC
1 ATTTACTATTAAATTATAATTA
**
2349758 ATTT-CTTATTAAATTATTGTTA
1 ATTTAC-TATTAAATTATAATTA
2349780 ATTTACTATTAAATTATTAA-TA
1 ATTTACTATTAAATTA-TAATTA
* *
2349802 A-TTATTACTAAATTATA
1 ATTTACTATTAAATTATA
2349819 TTGATTATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.04
21 12 0.24
22 34 0.68
23 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAATTATAATTA
Found at i:2350499 original size:39 final size:39
Alignment explanation
Indices: 2350450--2350529 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
2350440 TTAAAAACAT
*
2350450 TAAATTCACAATAATTACTTTCATATTTTCCACAAAAAC
1 TAAATTCACAATAATTACTTTCATATTCTCCACAAAAAC
** *
2350489 TAAATTCACAATAATTACTTTTGTATTCTCCATAAAAAC
1 TAAATTCACAATAATTACTTTCATATTCTCCACAAAAAC
2350528 TA
1 TA
2350530 TCTTCTACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (39 bp):
TAAATTCACAATAATTACTTTCATATTCTCCACAAAAAC
Found at i:2356707 original size:11 final size:11
Alignment explanation
Indices: 2356684--2356739 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
2356674 TAATTCTTTG
*
2356684 ATTATTAAATT
1 ATTACTAAATT
*
2356695 ATTACTAATTT
1 ATTACTAAATT
2356706 ATTACTAAATT
1 ATTACTAAATT
2356717 ATTGA-T-AATT
1 ATT-ACTAAATT
2356727 ATTACTAAATT
1 ATTACTAAATT
2356738 AT
1 AT
2356740 GCATATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
9 1 0.03
10 8 0.21
11 29 0.74
12 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTACTAAATT
Found at i:2359022 original size:18 final size:18
Alignment explanation
Indices: 2359001--2359035 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2358991 TCTTTATTTA
2359001 AAATTTT-TTATTATACAT
1 AAATTTTATTA-TATACAT
2359019 AAATTTTATTATATACA
1 AAATTTTATTATATACA
2359036 AATATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATTTTATTATATACAT
Found at i:2362169 original size:133 final size:133
Alignment explanation
Indices: 2362010--2362276 Score: 477
Period size: 133 Copynumber: 2.0 Consensus size: 133
2362000 TCTTTAATTC
2362010 TCTCTCTGTCTTCTTTGGAATGTATTCATGTCAACACCTAAACTATTTGAGAAAGTGTTATCTCA
1 TCTCTCTGTCTTCTTTGGAATGTATTCATGTCAACACCTAAACTATTTGAG-AAGTGTTATCTCA
*
2362075 GTTTCTGCATGGAACTGTATC-AAGTGGTAA-ATTTTTCTTTCCATTTATGCAGTTTTTTTTAAT
65 GTTTCTGCATGGAACTGTATCAAAGTGGTAATATTTTTCTTTCC--TTATGCAGTTTTTGTTAAT
2362138 -GCAAA
128 GGCAAA
2362143 TCTCTCTGTCTTCTTTGGAATGTATTCATGTCAACACCTAAACTATTTGAGAAGTGTTATCTCAG
1 TCTCTCTGTCTTCTTTGGAATGTATTCATGTCAACACCTAAACTATTTGAGAAGTGTTATCTCAG
2362208 TTTCTGCATGGAACTGTATCAAAGTGGTAATATTTTTCTTTCCTTATGCAGTTTTTGTTAATGGC
66 TTTCTGCATGGAACTGTATCAAAGTGGTAATATTTTTCTTTCCTTATGCAGTTTTTGTTAATGGC
2362273 AAA
131 AAA
2362276 T
1 T
2362277 TTTGCAAGGA
Statistics
Matches: 130, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
132 52 0.40
133 66 0.51
134 12 0.09
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (133 bp):
TCTCTCTGTCTTCTTTGGAATGTATTCATGTCAACACCTAAACTATTTGAGAAGTGTTATCTCAG
TTTCTGCATGGAACTGTATCAAAGTGGTAATATTTTTCTTTCCTTATGCAGTTTTTGTTAATGGC
AAA
Found at i:2370496 original size:10 final size:10
Alignment explanation
Indices: 2370481--2370505 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2370471 AAGTTCTAAG
2370481 TGAAAAATTA
1 TGAAAAATTA
2370491 TGAAAAATTA
1 TGAAAAATTA
2370501 TGAAA
1 TGAAA
2370506 TCTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (10 bp):
TGAAAAATTA
Found at i:2371703 original size:33 final size:34
Alignment explanation
Indices: 2371661--2371725 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
2371651 TAGACATGAT
*
2371661 CATACGGCCCT-ACTAAC-GAGTTATAATAGTTAG
1 CATAAGGCCCTAACTAACAGA-TTATAATAGTTAG
*
2371694 CATAAGGCCCTAACTAGCAGATTATAATAGTT
1 CATAAGGCCCTAACTAACAGATTATAATAGTT
2371726 GGCAATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.36
34 16 0.57
35 2 0.07
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (34 bp):
CATAAGGCCCTAACTAACAGATTATAATAGTTAG
Found at i:2375611 original size:16 final size:15
Alignment explanation
Indices: 2375580--2375618 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2375570 AATGAAAGGT
*
2375580 ATTTTAATAAAAAAA
1 ATTTTTATAAAAAAA
*
2375595 ATTTATTATAAATAAA
1 ATTT-TTATAAAAAAA
2375611 ATTTTTAT
1 ATTTTTAT
2375619 TCGGTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTTTATAAAAAAA
Found at i:2383968 original size:22 final size:22
Alignment explanation
Indices: 2383941--2383987 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2383931 TTAGTCGAAC
* * *
2383941 TTAATAGTAATTTAGTGATAAT
1 TTAATAGTAAATGAATGATAAT
2383963 TTAATAGTAAATGAATGATAAT
1 TTAATAGTAAATGAATGATAAT
2383985 TTA
1 TTA
2383988 GTAACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.43
Consensus pattern (22 bp):
TTAATAGTAAATGAATGATAAT
Found at i:2384268 original size:22 final size:22
Alignment explanation
Indices: 2384242--2384431 Score: 96
Period size: 22 Copynumber: 8.9 Consensus size: 22
2384232 ATAAGTCATA
*
2384242 AATAACTTAGTAGTAAATCAAT
1 AATAACTTAATAGTAAATCAAT
*
2384264 AATAAATTTGAA-A-TAAAT-AATT
1 AAT-AACTT-AATAGTAAATCAA-T
* * *
2384286 AATAATTTAATA-TTAATCATT
1 AATAACTTAATAGTAAATCAAT
* *
2384307 GAA-AA-TGTAAAAGTAAATCAGT
1 -AATAACT-TAATAGTAAATCAAT
*
2384329 -ATAACTTAATAGTAAATCATT
1 AATAACTTAATAGTAAATCAAT
* * *
2384350 GATAACATAATAGTTAATCAAT
1 AATAACTTAATAGTAAATCAAT
* *
2384372 GATAACTTAATAATAAATC-AT
1 AATAACTTAATAGTAAATCAAT
* * *
2384393 -GTAA-ATAATA-TAAATCTAT
1 AATAACTTAATAGTAAATCAAT
* *
2384412 AATAACTTGATAGTGAATCA
1 AATAACTTAATAGTAAATCA
2384432 TAGATAATTT
Statistics
Matches: 131, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
18 6 0.05
19 7 0.05
20 10 0.08
21 40 0.31
22 62 0.47
23 5 0.04
24 1 0.01
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (22 bp):
AATAACTTAATAGTAAATCAAT
Found at i:2384438 original size:22 final size:22
Alignment explanation
Indices: 2384329--2384438 Score: 97
Period size: 22 Copynumber: 5.2 Consensus size: 22
2384319 GTAAATCAGT
*
2384329 ATAACTTAATAGTAAATCATTG
1 ATAACTTAATAGTAAATCATAG
* *
2384351 ATAACATAATAGTTAATCA-ATG
1 ATAACTTAATAGTAAATCATA-G
*
2384373 ATAACTTAATAATAAATCAT-G
1 ATAACTTAATAGTAAATCATAG
*
2384394 -TAA-ATAATA-TAAATCTATA-
1 ATAACTTAATAGTAAATC-ATAG
* *
2384413 ATAACTTGATAGTGAATCATAG
1 ATAACTTAATAGTAAATCATAG
2384435 ATAA
1 ATAA
2384439 TTTATGGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.09
19 7 0.10
20 6 0.09
21 8 0.11
22 43 0.61
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATAG
Found at i:2384493 original size:22 final size:21
Alignment explanation
Indices: 2384468--2384525 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 21
2384458 AATTTTGTAA
2384468 TAAATAATCAAAAAT-TAAGTAG
1 TAAATAAT-AAAAATATAA-TAG
2384490 TAAATCAA-AAATAATATAATAG
1 TAAAT-AATAAA-AATATAATAG
2384512 TAAATATATAAAAA
1 TAAATA-ATAAAAA
2384526 ATCATACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 4 0.13
22 19 0.61
23 8 0.26
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
TAAATAATAAAAATATAATAG
Found at i:2384634 original size:22 final size:22
Alignment explanation
Indices: 2384551--2384634 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
2384541 TGATAATTTA
* **
2384551 TTAGCAGTAAATTACCAATAAT
1 TTAGTAGTAAATTAGTAATAAT
* * * *
2384573 GTACTAGTAAATTACTAATAAC
1 TTAGTAGTAAATTAGTAATAAT
* *
2384595 TTAGTTGTAAATTTGTAATAAT
1 TTAGTAGTAAATTAGTAATAAT
*
2384617 TTAGTAGTAAGTTAGTAA
1 TTAGTAGTAAATTAGTAA
2384635 ATCATTGATA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (22 bp):
TTAGTAGTAAATTAGTAATAAT
Found at i:2384793 original size:22 final size:22
Alignment explanation
Indices: 2384741--2384825 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
2384731 AATTTAATAA
**
2384741 AAATCATTCATAACTTAATGTT
1 AAATCATTCATAACTTAATGGC
*
2384763 TAATCATTCATAACTTAATGGC
1 AAATCATTCATAACTTAATGGC
* * * *
2384785 AAATTATTCATAAATTAGA-AGT
1 AAATCATTCATAACTTA-ATGGC
*
2384807 AAATCATTGATAACTTAAT
1 AAATCATTCATAACTTAAT
2384826 AGATAAAATC
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 1 0.02
22 48 0.96
23 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATCATTCATAACTTAATGGC
Found at i:2385212 original size:22 final size:22
Alignment explanation
Indices: 2385167--2385227 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
2385157 GAAACAAACA
* * * *
2385167 ATAACTTAGTAATTAATTATTG
1 ATAACTTAATAATAAATCAATG
2385189 ATAACTTAATAATAAATCAATG
1 ATAACTTAATAATAAATCAATG
* *
2385211 ATATCTTAATAGTAAAT
1 ATAACTTAATAATAAAT
2385228 AAGTTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAATG
Found at i:2385392 original size:21 final size:22
Alignment explanation
Indices: 2385330--2385385 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
2385320 TGTAACTTAG
* * *
2385330 TAATAGTTAATCATCAATAACT
1 TAATAGTAAATTATAAATAACT
*
2385352 TAATAGTAAATTATAAATAATT
1 TAATAGTAAATTATAAATAACT
2385374 TAATA-TAAATTA
1 TAATAGTAAATTA
2385386 GTGATAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (22 bp):
TAATAGTAAATTATAAATAACT
Found at i:2385571 original size:22 final size:22
Alignment explanation
Indices: 2385539--2385629 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 22
2385529 TTATTGATAG
*
2385539 CTTAGGAGTAAAT-AACTAATAA
1 CTTAGTAGTAAATCAA-TAATAA
* *
2385561 CTTAGTTGTAAATCAATGATAA
1 CTTAGTAGTAAATCAATAATAA
* *
2385583 TTTAGTAGTAAATC-ATCGATAA
1 CTTAGTAGTAAATCAAT-AATAA
* * * *
2385605 ATTAATAGTAAAACAATTATAA
1 CTTAGTAGTAAATCAATAATAA
2385627 CTT
1 CTT
2385630 TATAACAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.04
22 50 0.89
23 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAGTAGTAAATCAATAATAA
Found at i:2385616 original size:44 final size:43
Alignment explanation
Indices: 2385568--2385726 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 43
2385558 TAACTTAGTT
2385568 GTAAATCAATGATAATTTAGTAGTAAATCATCGATAAATTAATA
1 GTAAATCAATGATAATTTAGTAGTAAATCATC-ATAAATTAATA
* * ** *
2385612 GTAAAACAATTATAACTTTA-TAACAAATCTTCAGT-AATATAATA
1 GTAAATCAATGATAA-TTTAGTAGTAAATCATCA-TAAAT-TAATA
* * * *
2385656 GTAAATC-ATCAATAATTTAGAATTAAATCATTCATAAATTAGTA
1 GTAAATCAAT-GATAATTTAGTAGTAAATCA-TCATAAATTAATA
* * *
2385700 GAAAATCAATGCTATTTTAGTAGTAAA
1 GTAAATCAATGATAATTTAGTAGTAAA
2385727 CAGCTGATAA
Statistics
Matches: 89, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
43 10 0.11
44 67 0.75
45 12 0.13
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (43 bp):
GTAAATCAATGATAATTTAGTAGTAAATCATCATAAATTAATA
Found at i:2385776 original size:22 final size:22
Alignment explanation
Indices: 2385761--2385808 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2385751 ATTGATAGCT
*
2385761 TAATAGTAAATTATTGATAATA
1 TAATAATAAATTATTGATAATA
* *
2385783 TAATAATAAATTATTAATAACA
1 TAATAATAAATTATTGATAATA
2385805 TAAT
1 TAAT
2385809 TGTCAATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
TAATAATAAATTATTGATAATA
Found at i:2385879 original size:18 final size:18
Alignment explanation
Indices: 2385856--2385890 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2385846 GCAAGAATTG
2385856 AACCTTGATTACTAGCAA
1 AACCTTGATTACTAGCAA
2385874 AACCTTGATTACTAGCA
1 AACCTTGATTACTAGCA
2385891 GAAATTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
AACCTTGATTACTAGCAA
Found at i:2386239 original size:21 final size:21
Alignment explanation
Indices: 2386213--2386262 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
2386203 TGAAGGGTAT
* *
2386213 AAAAATTATATCAAATGTTAT
1 AAAAATTATATCAAAAGTTAG
* *
2386234 TAAAATTTTATCAAAAGTTAG
1 AAAAATTATATCAAAAGTTAG
2386255 AAAAATTA
1 AAAAATTA
2386263 AAGTTATCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (21 bp):
AAAAATTATATCAAAAGTTAG
Found at i:2391678 original size:18 final size:18
Alignment explanation
Indices: 2391657--2391693 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2391647 ATTTAAGTGA
*
2391657 ATTTTTTATTATTAAACT
1 ATTTTTTATAATTAAACT
*
2391675 ATTTTTTATAATTAGACT
1 ATTTTTTATAATTAAACT
2391693 A
1 A
2391694 AAAAGTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTTTTATAATTAAACT
Found at i:2393757 original size:29 final size:27
Alignment explanation
Indices: 2393711--2393766 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
2393701 ATAACTAATA
2393711 TTGGATTTTGATTGGGTTACTGTTTCAAT
1 TTGGATTTTGATTGGGTTA-TG-TTCAAT
*
2393740 TTGGA-TTTGAATTTGGTTATGTTCAAT
1 TTGGATTTTG-ATTGGGTTATGTTCAAT
2393767 CATTTTGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 6 0.24
29 13 0.52
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.52
Consensus pattern (27 bp):
TTGGATTTTGATTGGGTTATGTTCAAT
Found at i:2395695 original size:22 final size:22
Alignment explanation
Indices: 2395565--2395704 Score: 83
Period size: 22 Copynumber: 6.5 Consensus size: 22
2395555 ATAAATAACT
* *
2395565 TAGTAAATCAATAATAAATTT-G
1 TAGTAAATCAATGAT-AATTTAA
* *
2395587 TGGTAAAT-AATTAATAATTTAA
1 TAGTAAATCAA-TGATAATTTAA
* * *
2395609 TA-TTAATCATTGAAAATTTAA
1 TAGTAAATCAATGATAATTTAA
* * *
2395630 AAGTAAATCAGT-ATAACTTAA
1 TAGTAAATCAATGATAATTTAA
* **
2395651 TAGTAAATC-ATCGACAACGTAA
1 TAGTAAATCAAT-GATAATTTAA
*
2395673 TAGTTAATCAATGATAATTTAA
1 TAGTAAATCAATGATAATTTAA
*
2395695 TAATAAATCA
1 TAGTAAATCA
2395705 TGTATATAAT
Statistics
Matches: 89, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
20 1 0.01
21 36 0.40
22 50 0.56
23 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (22 bp):
TAGTAAATCAATGATAATTTAA
Found at i:2395942 original size:22 final size:23
Alignment explanation
Indices: 2395888--2395943 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
2395878 AATAACGTAC
*
2395888 TAGTAAATTACTAATAACTTAGT
1 TAGTAAATTAGTAATAACTTAGT
*
2395911 TA-TAAATTAGTAATAATTTAG-
1 TAGTAAATTAGTAATAACTTAGT
*
2395932 TAGTAAGTTAGT
1 TAGTAAATTAGT
2395944 TAATCATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (23 bp):
TAGTAAATTAGTAATAACTTAGT
Found at i:2396135 original size:22 final size:21
Alignment explanation
Indices: 2396052--2396134 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
2396042 AATTTAATAA
2396052 AAATCATTCATAACTTAAAGTT
1 AAATCATTCATAACTTAAAG-T
* * *
2396074 AAATGATTCATAACTTAATGGC
1 AAATCATTCATAACTTAA-AGT
* * *
2396096 AAATTATTCAAAAATTAGAAGT
1 AAATCATTCATAACTTA-AAGT
*
2396118 AAATCATTGATAACTTA
1 AAATCATTCATAACTTA
2396135 GTATATAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 45 0.96
23 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (21 bp):
AAATCATTCATAACTTAAAGT
Found at i:2396615 original size:22 final size:22
Alignment explanation
Indices: 2396565--2396729 Score: 88
Period size: 22 Copynumber: 7.4 Consensus size: 22
2396555 ACCAATTAAT
*
2396565 TGATAAACTTAATAGTAAAT-TA
1 TGAT-AACTTAATAGTAAATCAA
* * *
2396587 TAAATAATTTAGTAGTAAATCAA
1 T-GATAACTTAATAGTAAATCAA
* * * *
2396610 TGATAATTTAATAGTTAATTAC
1 TGATAACTTAATAGTAAATCAA
* *
2396632 TGAAAACTTAAAAGTAAATCAA
1 TGATAACTTAATAGTAAATCAA
*
2396654 TG-TAACTTAGTAATAGTTAATC-A
1 TGATAAC-T--TAATAGTAAATCAA
* *
2396677 TCAATAACTTAATAGTAAAT-TA
1 T-GATAACTTAATAGTAAATCAA
* * *
2396699 TAGATAATTTAATA-TAAATTAG
1 T-GATAACTTAATAGTAAATCAA
2396721 TGATAACTT
1 TGATAACTT
2396730 GATAATGAAT
Statistics
Matches: 108, Mismatches: 26, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
21 15 0.14
22 72 0.67
23 6 0.06
24 11 0.10
25 4 0.04
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATCAA
Found at i:2396686 original size:46 final size:44
Alignment explanation
Indices: 2396600--2396712 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 44
2396590 ATAATTTAGT
* *
2396600 AGTAAATCAATGATAATTTAATAGTTAATTACTGAAAACTTAAA
1 AGTAAATCAATGATAATTTAATAGTTAATCACTCAAAACTTAAA
*
2396644 AGTAAATCAATG-TAACTTAGTAATAGTTAATCA-TCAATAACTTAAT
1 AGTAAATCAATGATAA-TT--TAATAGTTAATCACTCAA-AACTTAAA
*
2396690 AGTAAAT-TATAGATAATTTAATA
1 AGTAAATCAAT-GATAATTTAATA
2396713 TAAATTAGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
43 3 0.05
44 19 0.32
45 5 0.08
46 29 0.49
47 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (44 bp):
AGTAAATCAATGATAATTTAATAGTTAATCACTCAAAACTTAAA
Found at i:2396853 original size:22 final size:22
Alignment explanation
Indices: 2396811--2396874 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
2396801 TAACTCAAAC
* *
2396811 ATAATAGTAAAAGCA-TAATAAT
1 ATAATAGT-AAATCATTGATAAT
2396833 ATAATAGTAAATCATTGATAAT
1 ATAATAGTAAATCATTGATAAT
* *
2396855 TTAGAT-GTAAATTATTGATA
1 ATA-ATAGTAAATCATTGATA
2396875 GCTTAGGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.14
22 29 0.81
23 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (22 bp):
ATAATAGTAAATCATTGATAAT
Found at i:2396880 original size:22 final size:22
Alignment explanation
Indices: 2396839--2396912 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
2396829 TAATATAATA
*
2396839 GTAAATCATTGATAATTTAGAT
1 GTAAATCATTGATAACTTAGAT
* * *
2396861 GTAAATTATTGATAGCTTAGGT
1 GTAAATCATTGATAACTTAGAT
* * * *
2396883 GTAAATAACTAATAACTTAGTT
1 GTAAATCATTGATAACTTAGAT
*
2396905 ATAAATCA
1 GTAAATCA
2396913 ATAATAATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (22 bp):
GTAAATCATTGATAACTTAGAT
Found at i:2397498 original size:22 final size:21
Alignment explanation
Indices: 2397470--2397527 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
2397460 AAAGTTAATT
2397470 ACTAAAATTATATCAAGAGATC
1 ACTAAAATTATATCAA-AGATC
* * *
2397492 ACTAAAATTTTATCAATGATT
1 ACTAAAATTATATCAAAGATC
*
2397513 ACCAAAATTATATCA
1 ACTAAAATTATATCA
2397528 TACGTTACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTAAAATTATATCAAAGATC
Found at i:2397521 original size:21 final size:22
Alignment explanation
Indices: 2397467--2397527 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
2397457 CAAAAAGTTA
2397467 ATTACTAAAATTATATCAAGAG
1 ATTACTAAAATTATATCAAGAG
* * *
2397489 ATCACTAAAATTTTATCAA-TG
1 ATTACTAAAATTATATCAAGAG
*
2397510 ATTACCAAAATTATATCA
1 ATTACTAAAATTATATCA
2397528 TACGTTACCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTACTAAAATTATATCAAGAG
Found at i:2399866 original size:21 final size:20
Alignment explanation
Indices: 2399837--2399876 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2399827 GGTGACGATG
*
2399837 ACATCAAGCCACAACCAATCC
1 ACATCAAG-CACAACAAATCC
*
2399858 ACATTAAGCACAACAAATC
1 ACATCAAGCACAACAAATC
2399877 TCTTTGTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.35, G:0.05, T:0.12
Consensus pattern (20 bp):
ACATCAAGCACAACAAATCC
Found at i:2405581 original size:21 final size:21
Alignment explanation
Indices: 2405544--2405591 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2405534 TTATATTTTG
**
2405544 ATTTTGATAACTTTTGATGA-A
1 ATTTTGATAACCATTGAT-ATA
2405565 ATTTTGATAACCATTGATATA
1 ATTTTGATAACCATTGATATA
2405586 ATTTTG
1 ATTTTG
2405592 CTAATTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
ATTTTGATAACCATTGATATA
Found at i:2405871 original size:7 final size:7
Alignment explanation
Indices: 2405830--2405868 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
2405820 TTTGGTTATG
*
2405830 TTTTCGT
1 TTTTTGT
2405837 TTTTTGT
1 TTTTTGT
2405844 TTTTTGT
1 TTTTTGT
2405851 TTTTTGT
1 TTTTTGT
2405858 TTTTT-T
1 TTTTTGT
2405864 TTTTT
1 TTTTT
2405869 TTTAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (7 bp):
TTTTTGT
Found at i:2406124 original size:15 final size:15
Alignment explanation
Indices: 2406067--2406145 Score: 68
Period size: 15 Copynumber: 4.9 Consensus size: 15
2406057 ATGACATTAC
2406067 AATTATTATATTAAT
1 AATTATTATATTAAT
*
2406082 AAAATAATATTTTTATTATAT
1 --AAT--TA-TTATATTA-AT
*
2406103 AAATATTATATTAAT
1 AATTATTATATTAAT
2406118 AATTATTATATTAAT
1 AATTATTATATTAAT
* *
2406133 AAATAATATATTA
1 AATTATTATATTA
2406146 TATTAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
15 27 0.52
16 7 0.13
17 5 0.10
19 4 0.08
20 7 0.13
21 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTATTATATTAAT
Found at i:2406130 original size:20 final size:20
Alignment explanation
Indices: 2406105--2406236 Score: 89
Period size: 20 Copynumber: 6.8 Consensus size: 20
2406095 TATTATATAA
2406105 ATATTATATTAATAATTATT
1 ATATTATATTAATAATTATT
*
2406125 ATATTA-ATAAATAATATATT
1 ATATTATATTAATAAT-TATT
*
2406145 ATATTA-ATAAATAA-TATT
1 ATATTATATTAATAATTATT
* * * *
2406163 ATAATATACTAA-AAATAAT
1 ATATTATATTAATAATTATT
*
2406182 A-ATTTTA-TAATTAA-TATT
1 ATATTATATTAA-TAATTATT
* * *
2406200 ATAATATATTAATAAATAAT
1 ATATTATATTAATAATTATT
*
2406220 ATTATTATATTATTAAT
1 A-TATTATATTAATAAT
2406237 AACAAACAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
17 3 0.03
18 19 0.21
19 24 0.27
20 31 0.35
21 12 0.13
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTATATTAATAATTATT
Found at i:2406199 original size:37 final size:38
Alignment explanation
Indices: 2406106--2406237 Score: 121
Period size: 37 Copynumber: 3.4 Consensus size: 38
2406096 ATTATATAAA
*
2406106 TATTAT-ATTAATAATTAT--TATATTAATAAATAATATATT
1 TATTATAATTAAT-ATTATAATATACTAATAAAT-A-ATA-T
*
2406145 ATATTAATAAATAATATTATAATATACTAA-AAATAATAAT
1 -TATT-ATAATTAATATTATAATATACTAATAAATAAT-AT
*
2406185 T-TTATAATTAATATTATAATATATTAATAAATAATAT
1 TATTATAATTAATATTATAATATACTAATAAATAATAT
2406222 TATTATATTATTAATA
1 TATTATA--ATTAATA
2406238 ACAAACAAGC
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
37 25 0.32
38 14 0.18
39 1 0.01
40 14 0.18
41 9 0.11
42 9 0.11
43 7 0.09
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (38 bp):
TATTATAATTAATATTATAATATACTAATAAATAATAT
Found at i:2406214 original size:23 final size:23
Alignment explanation
Indices: 2406073--2406237 Score: 59
Period size: 25 Copynumber: 6.7 Consensus size: 23
2406063 TTACAATTAT
* * *
2406073 TATATTAATAAAATAATATTTTTAT
1 TATATTAAT-AATTAATA-TTATAA
*
2406098 TATATAAAT-ATT-ATATTAATAA
1 TATATTAATAATTAATATT-ATAA
* * *
2406120 T-TATTATATTAATAAATAATATAT
1 TATATTA-A-TAATTAATATTATAA
*
2406144 TATATTAATAAATAATATTATAA
1 TATATTAATAATTAATATTATAA
* * *
2406167 TATACTAAAAATAATAATTTTATAA
1 TATATTAATAAT--TAATATTATAA
*
2406192 TTAATATTATAATATATTAATA-AATAA
1 -T-ATA-T-TAATA-ATTAATATTATAA
*
2406219 TATTATTATATTATTAATA
1 TA-TATTA-ATAATTAATA
2406238 ACAAACAAGC
Statistics
Matches: 104, Mismatches: 21, Indels: 31
0.67 0.13 0.20
Matches are distributed among these distances:
21 6 0.06
22 7 0.07
23 23 0.22
24 16 0.15
25 31 0.30
26 4 0.04
27 7 0.07
28 4 0.04
29 4 0.04
30 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
TATATTAATAATTAATATTATAA
Found at i:2406384 original size:14 final size:16
Alignment explanation
Indices: 2406367--2406398 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2406357 CAAATTTTCA
2406367 AAAACATA-AA-ATAT
1 AAAACATATAACATAT
2406381 AAAACATATAACATAT
1 AAAACATATAACATAT
2406397 AA
1 AA
2406399 CAATACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAACATATAACATAT
Found at i:2406577 original size:22 final size:22
Alignment explanation
Indices: 2406552--2406600 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2406542 ATGATTGACA
*
2406552 ATTAAGTTATAA-TTGATTTATT
1 ATTAAGTTATAAGTT-ATTTACT
*
2406574 ATTATGTTATAAGTTATTTACT
1 ATTAAGTTATAAGTTATTTACT
2406596 ATTAA
1 ATTAA
2406601 ACTACAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
ATTAAGTTATAAGTTATTTACT
Found at i:2406723 original size:22 final size:22
Alignment explanation
Indices: 2406673--2406793 Score: 100
Period size: 22 Copynumber: 5.5 Consensus size: 22
2406663 TTATTTATGA
* *
2406673 ATAATTTACTATTAAATAATGG
1 ATAATTTACTATTAAATTATTG
* *
2406695 CTGATTTACTATTAAATTATTG
1 ATAATTTACTATTAAATTATTG
* *
2406717 ATAATTTACTACTAAGTTATTG
1 ATAATTTACTATTAAATTATTG
* ** * *
2406739 ATGATTTGTTATAAAATTA-TA
1 ATAATTTACTATTAAATTATTG
* *
2406760 ACTAATTTACTATTAATTTATCG
1 A-TAATTTACTATTAAATTATTG
*
2406783 ATGATTTACTA
1 ATAATTTACTA
2406794 CAAAGTTTTT
Statistics
Matches: 74, Mismatches: 23, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
21 2 0.03
22 71 0.96
23 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (22 bp):
ATAATTTACTATTAAATTATTG
Found at i:2406744 original size:44 final size:43
Alignment explanation
Indices: 2406589--2406793 Score: 146
Period size: 44 Copynumber: 4.7 Consensus size: 43
2406579 GTTATAAGTT
* * * * * *
2406589 ATTTACTATTAAACTA-CAATGATATACTACTGAATTATCAATA
1 ATTTACTATTAAATTATCGATGATTTACTATTAAATTAT-GATA
* * * *
2406632 ATTTATTACTAAATTAGC-ATTGATTTACTAATT-ATTTATGAATA
1 ATTTACTATTAAATTATCGA-TGATTTACT-ATTAAATTATG-ATA
* * *
2406676 ATTTACTATTAAATAATGGCTGATTTACTATTAAATTATTGATA
1 ATTTACTATTAAATTATCGATGATTTACTATTAAATTA-TGATA
* * * ** * *
2406720 ATTTACTACTAAGTTATTGATGATTTGTTATAAAATTATAACTA
1 ATTTACTATTAAATTATCGATGATTTACTATTAAATTATGA-TA
*
2406764 ATTTACTATTAATTTATCGATGATTTACTA
1 ATTTACTATTAAATTATCGATGATTTACTA
2406794 CAAAGTTTTT
Statistics
Matches: 126, Mismatches: 28, Indels: 15
0.75 0.17 0.09
Matches are distributed among these distances:
43 19 0.15
44 103 0.82
45 4 0.03
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (43 bp):
ATTTACTATTAAATTATCGATGATTTACTATTAAATTATGATA
Found at i:2406816 original size:52 final size:52
Alignment explanation
Indices: 2406758--2406867 Score: 125
Period size: 52 Copynumber: 2.1 Consensus size: 52
2406748 TATAAAATTA
* * * *
2406758 TAACTAATTTACTATTAATTTATCGA-TGATTTACTAC-AAAGTTTTTAATAAT
1 TAACTAATTTACTACTAAATTATC-ACTGATTTACAACTAAA-TTATTAATAAT
* *
2406810 TAACTAATTTTCTACTAAATTATCACTTATTTACAACTAAATTATTAATAAT
1 TAACTAATTTACTACTAAATTATCACTGATTTACAACTAAATTATTAATAAT
*
2406862 TTACTA
1 TAACTA
2406868 CTAAGTTATC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
51 1 0.02
52 45 0.92
53 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (52 bp):
TAACTAATTTACTACTAAATTATCACTGATTTACAACTAAATTATTAATAAT
Found at i:2406848 original size:22 final size:22
Alignment explanation
Indices: 2406814--2406909 Score: 84
Period size: 22 Copynumber: 4.4 Consensus size: 22
2406804 AATAATTAAC
* * *
2406814 TAATTTTCTACTAAATTATCAC
1 TAATTTACAACTAAATTATCAA
* *
2406836 TTATTTACAACTAAATTATTAA
1 TAATTTACAACTAAATTATCAA
* *
2406858 TAATTTACTACTAAGTTATCAA
1 TAATTTACAACTAAATTATCAA
* ** *
2406880 CAATTTACATTTAAATTATTAA
1 TAATTTACAACTAAATTATCAA
*
2406902 TGATTTAC
1 TAATTTAC
2406910 TATTATGTTA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATTTACAACTAAATTATCAA
Found at i:2406920 original size:22 final size:22
Alignment explanation
Indices: 2406851--2407317 Score: 159
Period size: 22 Copynumber: 21.2 Consensus size: 22
2406841 TACAACTAAA
*
2406851 TTATTAATAATTTACTACTAAG
1 TTATTAATAATTTACTATTAAG
* * *
2406873 TTATCAACAATTTAC-ATTTAAA
1 TTATTAATAATTTACTA-TTAAG
* *
2406895 TTATTAATGATTTACTATTATG
1 TTATTAATAATTTACTATTAAG
*
2406917 TTATT-ATATATTTACTATTATG
1 TTATTAATA-ATTTACTATTAAG
* * *
2406939 TTATCATTGATTTACTACTTAA-
1 TTATTAATAATTTACTA-TTAAG
* * ** *
2406961 TT-TTTATTATTTACTACAAAA
1 TTATTAATAATTTACTATTAAG
* * * * ** *
2406982 TCATCACA-GATTTATTACAAAA
1 TTATTA-ATAATTTACTATTAAG
* * * * *
2407004 TTAACT-ATGATTCATTATCAAG
1 TT-ATTAATAATTTACTATTAAG
* * * *
2407026 TTATCATTCATTTA-TATTAAA
1 TTATTAATAATTTACTATTAAG
* *
2407047 TTATTCATGATTTACTATTAAG
1 TTATTAATAATTTACTATTAAG
* * * *
2407069 TTATCATTGATTAACTATTAAG
1 TTATTAATAATTTACTATTAAG
*
2407091 TTATTAATGATTAACTACTATTAAG
1 TTATTAATAATT---TACTATTAAG
* *
2407116 TTA-TATTAATTTACTTTTAAG
1 TTATTAATAATTTACTATTAAG
* * * *
2407137 TT-TCCAATGATTAACTATTAAA
1 TTAT-TAATAATTTACTATTAAG
* * *
2407159 TTATCATTTATTTACTATTAAG
1 TTATTAATAATTTACTATTAAG
* * * *
2407181 TTATTCATGATTTATTACTTAAT
1 TTATTAATAATTTACTA-TTAAG
* *
2407204 TTATCAATTAA-TTACTATTAAA
1 TTATTAA-TAATTTACTATTAAG
* *
2407226 TTGA--AACTGATTAACTATTAAG
1 TT-ATTAA-TAATTTACTATTAAG
*
2407248 TTATTACTAATTTACTATTAAG
1 TTATTAATAATTTACTATTAAG
* * *
2407270 TTATT-ATCGATCTATTATTAAG
1 TTATTAAT-AATTTACTATTAAG
* * *
2407292 TTATTAATTATTAACTACTAAG
1 TTATTAATAATTTACTATTAAG
2407314 TTAT
1 TTAT
2407318 CACTTTTTTT
Statistics
Matches: 328, Mismatches: 91, Indels: 52
0.70 0.19 0.11
Matches are distributed among these distances:
20 2 0.01
21 48 0.15
22 232 0.71
23 26 0.08
24 8 0.02
25 12 0.04
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATTAATAATTTACTATTAAG
Found at i:2406931 original size:44 final size:44
Alignment explanation
Indices: 2406808--2406920 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
2406798 GTTTTTAATA
* *
2406808 ATTAACTAATTTTCTACTAAATTATC-ACTTATTTACAACTAAATT
1 ATTAA-TAATTTACTACTAAGTTATCAAC-TATTTACAACTAAATT
* **
2406853 ATTAATAATTTACTACTAAGTTATCAACAATTTACATTTAAATT
1 ATTAATAATTTACTACTAAGTTATCAACTATTTACAACTAAATT
* * *
2406897 ATTAATGATTTACTATTATGTTAT
1 ATTAATAATTTACTACTAAGTTAT
2406921 TATATATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
44 52 0.88
45 7 0.12
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.46
Consensus pattern (44 bp):
ATTAATAATTTACTACTAAGTTATCAACTATTTACAACTAAATT
Found at i:2407101 original size:44 final size:44
Alignment explanation
Indices: 2406858--2407359 Score: 255
Period size: 44 Copynumber: 11.4 Consensus size: 44
2406848 AAATTATTAA
* * ** * * *
2406858 TAATTTACTACTAAGTTATCAACAATTTAC-ATTTAAATTATTAA
1 TAATTTACTATTAAGTTATTAATGATTTACTA-TTAAGTTATCAT
* * *
2406902 TGATTTACTATTATGTTATTATAT-ATTTACTATTATGTTATCAT
1 TAATTTACTATTAAGTTATTA-ATGATTTACTATTAAGTTATCAT
* * * ** * *
2406946 TGATTTACTACTTAA-TT-TTTATTATTTACTACAAAATCATCA-
1 TAATTTACTA-TTAAGTTATTAATGATTTACTATTAAGTTATCAT
* * ** * * * * *
2406988 CAGATTTATTACAAAATTAACT-ATGATTCATTATCAAGTTATCAT
1 TA-ATTTACTATTAAGTT-ATTAATGATTTACTATTAAGTTATCAT
* * *
2407033 TCATTTA-TATTAAATTATTCATGATTTACTATTAAGTTATCAT
1 TAATTTACTATTAAGTTATTAATGATTTACTATTAAGTTATCAT
* *
2407076 TGATTAACTATTAAGTTATTAATGATTAACTACTATTAAGTTAT-AT
1 TAATTTACTATTAAGTTATTAATGATT---TACTATTAAGTTATCAT
* * * *
2407122 TAATTTACTTTTAAGTT-TCCAATGATTAACTATTAAATTATCAT
1 TAATTTACTATTAAGTTAT-TAATGATTTACTATTAAGTTATCAT
* * * *
2407166 TTATTTACTATTAAGTTATTCATGATTTATTACTTAATTTATCAAT
1 TAATTTACTATTAAGTTATTAATGATTTACTA-TTAAGTTATC-AT
* * * *
2407212 TAA-TTACTATTAAATTGA--AACTGATTAACTATTAAGTTATTAC
1 TAATTTACTATTAAGTT-ATTAA-TGATTTACTATTAAGTTATCAT
* * *
2407255 TAATTTACTATTAAGTTATT-ATCGATCTATTATTAAGTTATTAAT
1 TAATTTACTATTAAGTTATTAAT-GATTTACTATTAAGTTA-TCAT
* * * * **
2407300 T-ATTAACTACTAAGTTATCACT--TTTTTTATTAA-TCTATCAT
1 TAATTTACTATTAAGTTATTAATGATTTACTATTAAGT-TATCAT
* *
2407341 TAATTTACTAATATGTTAT
1 TAATTTACTATTAAGTTAT
2407360 ATATTTACAA
Statistics
Matches: 351, Mismatches: 78, Indels: 60
0.72 0.16 0.12
Matches are distributed among these distances:
41 5 0.01
42 31 0.09
43 75 0.21
44 157 0.45
45 41 0.12
46 28 0.08
47 14 0.04
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (44 bp):
TAATTTACTATTAAGTTATTAATGATTTACTATTAAGTTATCAT
Found at i:2407147 original size:90 final size:87
Alignment explanation
Indices: 2407053--2407275 Score: 250
Period size: 90 Copynumber: 2.5 Consensus size: 87
2407043 TAAATTATTC
* * *
2407053 ATGATTTACTATTAAGTTATCATTGATTAACTATTAAGTTATTAATGATTAACTACTATTAAGTT
1 ATGATTAACTATTAAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTAC--TTAAGTT
* * *
2407118 AT-ATTAATTTACTTTTAAGTTTCCA
64 ATAATTAA-TTACTATTAA-ATTCAA
* * * * * *
2407143 ATGATTAACTATTAAATTATCATTTATTTACTATTAAGTTATTCATGATTTATTACTTAATTTAT
1 ATGATTAACTATTAAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTACTTAAGTTAT
*
2407208 CAATTAATTACTATTAAATTGAA
66 -AATTAATTACTATTAAATTCAA
* *
2407231 ACTGATTAACTATTAAGTTATTACTAATTTACTATTAAGTTATTA
1 A-TGATTAACTATTAAGTTATCATTAATTTACTATTAAGTTATTA
2407276 TCGATCTATT
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
88 12 0.11
89 47 0.42
90 54 0.48
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (87 bp):
ATGATTAACTATTAAGTTATCATTAATTTACTATTAAGTTATTAATGATTAACTACTTAAGTTAT
AATTAATTACTATTAAATTCAA
Found at i:2407296 original size:11 final size:11
Alignment explanation
Indices: 2407241--2407297 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
2407231 ACTGATTAAC
2407241 TATTAAGTTAT
1 TATTAAGTTAT
* * *
2407252 TACTAATTTAC
1 TATTAAGTTAT
2407263 TATTAAGTTAT
1 TATTAAGTTAT
**
2407274 TATCGA-TCTAT
1 TATTAAGT-TAT
2407285 TATTAAGTTAT
1 TATTAAGTTAT
2407296 TA
1 TA
2407298 ATTATTAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:2407740 original size:22 final size:21
Alignment explanation
Indices: 2407703--2407782 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
2407693 TCATTGTTGG
*
2407703 TGATTTATCAATAAGTTATTGA
1 TGATTTATTAA-AAGTTATTGA
* *
2407725 TGATTAATTATAAAGTTA-TAA
1 TGATTTATTA-AAAGTTATTGA
*
2407746 CTGATTTATTACAAATTTATTGA
1 -TGATTTATTA-AAAGTTATTGA
*
2407769 TAATTTATTAAAAG
1 TGATTTATTAAAAG
2407783 GCTATCAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
21 5 0.11
22 38 0.83
23 3 0.07
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (21 bp):
TGATTTATTAAAAGTTATTGA
Found at i:2408033 original size:22 final size:22
Alignment explanation
Indices: 2408007--2408108 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
2407997 TTGCCACTAG
*
2408007 ATTATCTATGATTTACTATCAA
1 ATTATCTATGATTTACTATTAA
* *
2408029 GTTAT-TAATGTTTTA-TATTAA
1 ATTATCT-ATGATTTACTATTAA
2408050 ATTATGC-ATGATTTACTATTAA
1 ATTAT-CTATGATTTACTATTAA
* *
2408072 ATTATCAATGATTAACTATTAA
1 ATTATCTATGATTTACTATTAA
* * *
2408094 TTTATCGATAATTTA
1 ATTATCTATGATTTA
2408109 TTACTAAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.28
22 47 0.72
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTATCTATGATTTACTATTAA
Found at i:2408173 original size:65 final size:65
Alignment explanation
Indices: 2408058--2408186 Score: 152
Period size: 65 Copynumber: 2.0 Consensus size: 65
2408048 AAATTATGCA
* * ** *
2408058 TGATTTACTATTAAATTATCAATGATTAACTATTAATTTATCGATAATTTATTACTAAGTTATAC
1 TGATTTACTATTAAATTATCAATGAATAACTACTAAACTATCGATAATTTACTACTAAGTTATAC
* * * * *
2408123 TGATTTACTTTTAAGTTTTCAATGAATAACTACTAAACTATC-AGTTATTTACTACTAATTTATA
1 TGATTTACTATTAAATTATCAATGAATAACTACTAAACTATCGA-TAATTTACTACTAAGTTATA
2408187 ATTGATTACC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 1 0.02
65 52 0.98
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (65 bp):
TGATTTACTATTAAATTATCAATGAATAACTACTAAACTATCGATAATTTACTACTAAGTTATAC
Found at i:2408308 original size:22 final size:22
Alignment explanation
Indices: 2408283--2408371 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
2408273 CATGTACTAT
2408283 TAAGTTATCATTTATTTATTAC
1 TAAGTTATCATTTATTTATTAC
* * * *
2408305 TAAGTTATCAATAATTAACTAC
1 TAAGTTATCATTTATTTATTAC
* **
2408327 TAAGTTATCACTTATTT-TTGT
1 TAAGTTATCATTTATTTATTAC
*
2408348 TAAGTTATC-TTTGATTTAGTAC
1 TAAGTTATCATTT-ATTTATTAC
2408370 TA
1 TA
2408372 TGCTATTATA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
20 2 0.04
21 14 0.27
22 35 0.69
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (22 bp):
TAAGTTATCATTTATTTATTAC
Found at i:2408444 original size:22 final size:22
Alignment explanation
Indices: 2408375--2408453 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
2408365 AGTACTATGC
*
2408375 TATTATACATTTATAATTATAT
1 TATTATACATTTATTATTATAT
* * *
2408397 TATAATTA-ATTTATTATTAAAG
1 TATTA-TACATTTATTATTATAT
* *
2408419 TATTATGCATTTATTATTGTAT
1 TATTATACATTTATTATTATAT
* *
2408441 TATTCTAGATTTA
1 TATTATACATTTA
2408454 CTAAAAAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 40 0.93
23 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (22 bp):
TATTATACATTTATTATTATAT
Found at i:2408518 original size:22 final size:22
Alignment explanation
Indices: 2408449--2408559 Score: 70
Period size: 22 Copynumber: 5.1 Consensus size: 22
2408439 ATTATTCTAG
*
2408449 ATTTACTA-AAAAGTTATCAACT-
1 ATTTACTATTAAA-TTATC-ACTA
* * * *
2408471 ATTGACTATCAAATTATCATTC
1 ATTTACTATTAAATTATCACTA
*
2408493 ATTTACTATTAAATTATTACTA
1 ATTTACTATTAAATTATCACTA
* *
2408515 ATTTACTACTAAGTTATCGA-TA
1 ATTTACTATTAAATTATC-ACTA
* *
2408537 A-TTACTACTAAGTTAT-ACTA
1 ATTTACTATTAAATTATCACTA
2408557 ATT
1 ATT
2408560 ATATTTAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 3 0.04
21 18 0.25
22 47 0.64
23 4 0.05
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTACTATTAAATTATCACTA
Found at i:2408526 original size:11 final size:11
Alignment explanation
Indices: 2408493--2408559 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
2408483 ATTATCATTC
*
2408493 ATTTACTATTA
1 ATTTACTACTA
* *
2408504 AATTATTACTA
1 ATTTACTACTA
2408515 ATTTACTACTA
1 ATTTACTACTA
* *
2408526 AGTTATCGA-TA
1 ATTTA-CTACTA
2408537 A-TTACTACTA
1 ATTTACTACTA
*
2408547 AGTTA-TACTA
1 ATTTACTACTA
2408557 ATT
1 ATT
2408560 ATATTTAAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
9 2 0.05
10 13 0.30
11 27 0.61
12 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (11 bp):
ATTTACTACTA
Found at i:2409158 original size:26 final size:25
Alignment explanation
Indices: 2409120--2409171 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
2409110 ACACAAATTT
2409120 ACAAAATAAAATTTATAAAA-ATTAA
1 ACAAAATAAAATTTA-AAAATATTAA
*
2409145 ACAAACTATAAATTTAAAAATATTAA
1 ACAAAATA-AAATTTAAAAATATTAA
2409171 A
1 A
2409172 TTCACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (25 bp):
ACAAAATAAAATTTAAAAATATTAA
Found at i:2414091 original size:6 final size:5
Alignment explanation
Indices: 2414074--2414124 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
2414064 AAAATCTAGA
*
2414074 AAAAT AAAAT AAATAT AAATAT AAATAG AAAAT AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAA-AT AAA-AT AAA-AT AAAAT AAAAT AAAAT AAAAT
2414121 AAAA
1 AAAA
2414125 ACCTGTGATC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 4 0.10
5 22 0.52
6 16 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:2414116 original size:38 final size:37
Alignment explanation
Indices: 2414046--2414123 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
2414036 ATGAAATATA
* *
2414046 AAATATAAAATAAATAAGAAAATCTAGAAAAATAAAAT
1 AAATATAAAATAAATAAGAAAATCAAAAAAAAT-AAAT
2414084 AAATATAAATATAAAT-AGAAAAT-AAAATAAAATAAAT
1 AAATATAAA-ATAAATAAGAAAATCAAAA-AAAATAAAT
2414121 AAA
1 AAA
2414124 AACCTGTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
37 9 0.25
38 21 0.58
39 6 0.17
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (37 bp):
AAATATAAAATAAATAAGAAAATCAAAAAAAATAAAT
Found at i:2414812 original size:11 final size:12
Alignment explanation
Indices: 2414796--2414832 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2414786 AAAGGAAAGA
2414796 AAAATTAA-AAT
1 AAAATTAATAAT
2414807 AAAATTAATAAT
1 AAAATTAATAAT
2414819 AATAA-TAATAAT
1 AA-AATTAATAAT
2414831 AA
1 AA
2414833 TAACAACAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.33
12 14 0.58
13 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTAATAAT
Found at i:2422756 original size:46 final size:46
Alignment explanation
Indices: 2422687--2422794 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 46
2422677 TTTGGAAGAA
* ** ** *
2422687 AAACAAAA-CAGAAAATATCATTTAGGTAGAAATATTTTGTACATG
1 AAACAAAAGTAGAAAATAAAATTTAAATAGAAATATGTTGTACATG
2422732 AAACAAAAGTAGAAAATAAAATTTAAATAGAAATATGTTGTACATG
1 AAACAAAAGTAGAAAATAAAATTTAAATAGAAATATGTTGTACATG
2422778 AAACAAAAGCTAGAAAA
1 AAACAAAAG-TAGAAAA
2422795 AGCCTCACAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 8 0.15
46 40 0.73
47 7 0.13
ACGTcount: A:0.56, C:0.07, G:0.13, T:0.24
Consensus pattern (46 bp):
AAACAAAAGTAGAAAATAAAATTTAAATAGAAATATGTTGTACATG
Found at i:2426575 original size:20 final size:20
Alignment explanation
Indices: 2426542--2426579 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2426532 CCACCCTTTC
* *
2426542 CACCTTCCTTTTATCTCTAT
1 CACCTCCCTCTTATCTCTAT
2426562 CACCTCCCTCTTATCTCT
1 CACCTCCCTCTTATCTCT
2426580 CTCCCACCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.42, G:0.00, T:0.45
Consensus pattern (20 bp):
CACCTCCCTCTTATCTCTAT
Found at i:2433029 original size:198 final size:198
Alignment explanation
Indices: 2432691--2433086 Score: 765
Period size: 198 Copynumber: 2.0 Consensus size: 198
2432681 TCTGCTAATA
*
2432691 GCACAATGACATAAATTAGCCTAGAACTTCAACATTTTTTTCCCTTTCTAGCATAACTTTCCAGC
1 GCACAATGACATAAATTAGCCTAGAACTTCAACAATTTTTTCCCTTTCTAGCATAACTTTCCAGC
2432756 TCTCGTTCTAGGAAATAATAATCTGAGCCTAAATATTGCATGGTCTTTACGATTTCATTATCTTT
66 TCTCGTTCTAGGAAATAATAATCTGAGCCTAAATATTGCATGGTCTTTACGATTTCATTATCTTT
2432821 ACCTTCTTTCTGAGCGATTTTCATATTTAGTCTTGTTTTTTTGTCTTGTTAATCAGCTGCATTAA
131 ACCTTCTTTCTGAGCGATTTTCATATTTAGTCTTGTTTTTTTGTCTTGTTAATCAGCTGCATTAA
2432886 CGG
196 CGG
2432889 GCACAATGACATAAATTAGCCTAGAACTTCAACAATTTTTTCCCTTTCTAGCATAACTTTCCAGC
1 GCACAATGACATAAATTAGCCTAGAACTTCAACAATTTTTTCCCTTTCTAGCATAACTTTCCAGC
*
2432954 TCTCGTTCTAGGAAATAATAATCTGAGCCTAAATTTTGCATGGTCTTTACGATTTCATTATCTTT
66 TCTCGTTCTAGGAAATAATAATCTGAGCCTAAATATTGCATGGTCTTTACGATTTCATTATCTTT
*
2433019 ACCTTCTTTCTGAGCGATTTTCATATTTAGTCTTGTTTTTTTGTCTTGTTAATCATCTGCATTAA
131 ACCTTCTTTCTGAGCGATTTTCATATTTAGTCTTGTTTTTTTGTCTTGTTAATCAGCTGCATTAA
2433084 CGG
196 CGG
2433087 TATCTTATCC
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
198 195 1.00
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (198 bp):
GCACAATGACATAAATTAGCCTAGAACTTCAACAATTTTTTCCCTTTCTAGCATAACTTTCCAGC
TCTCGTTCTAGGAAATAATAATCTGAGCCTAAATATTGCATGGTCTTTACGATTTCATTATCTTT
ACCTTCTTTCTGAGCGATTTTCATATTTAGTCTTGTTTTTTTGTCTTGTTAATCAGCTGCATTAA
CGG
Found at i:2434560 original size:10 final size:10
Alignment explanation
Indices: 2434545--2434573 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
2434535 TCATCGGCAA
2434545 TGAAAATAGT
1 TGAAAATAGT
2434555 TGAAAATAGT
1 TGAAAATAGT
2434565 TGAAAATAG
1 TGAAAATAG
2434574 ATTAGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (10 bp):
TGAAAATAGT
Found at i:2435267 original size:17 final size:17
Alignment explanation
Indices: 2435245--2435279 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2435235 TTTTAATAAA
2435245 ATATAA-TAAATTTATAT
1 ATATAATTAAA-TTATAT
2435262 ATATAATTAAATTATAT
1 ATATAATTAAATTATAT
2435279 A
1 A
2435280 AAATGATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTAAATTATAT
Found at i:2436448 original size:24 final size:24
Alignment explanation
Indices: 2436413--2436460 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2436403 AAAATCATCC
* *
2436413 AAAGAATCCAATTGCGAGAGCTAA
1 AAAGAATACAATTGCGAAAGCTAA
2436437 AAAGAATACAATTGCGAAAGCTAA
1 AAAGAATACAATTGCGAAAGCTAA
2436461 TTGTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.17
Consensus pattern (24 bp):
AAAGAATACAATTGCGAAAGCTAA
Found at i:2438229 original size:164 final size:166
Alignment explanation
Indices: 2437909--2438236 Score: 430
Period size: 164 Copynumber: 2.0 Consensus size: 166
2437899 CACTAAAATT
* * *
2437909 ACCAATTAAAAGAGGTGAATCTACAATGTAGAAAGAGTAGCTTGGACCTCAATGGCATAAAAATT
1 ACCAATTAAAAGAGGTGAATCTACAATGTAGAAAGAGCAGCTTGGACATCAATAGC-----AATT
* * *
2437974 AAAAACTTGAATACTTAAATGCAGTAACTCAGCTATGCAATCCAAACTACCCTTCAAATCAATGC
61 AAAAACTTGAATACTCAAATGCAGAAACTCAGCTATGCAAACCAAACTACCCTTCAAATCAATGC
* * *
2438039 CTTATAGCTAGACAATTTAGCAGCTAAGACAACCGTAAGGG
126 CTTATAGCTAAACAATTCAACAGCTAAGACAACCGTAAGGG
* *
2438080 ACCAATTAAAAGAGGTGAATCTAC-TTAGTAGAATGAGCAGCTTGGACATCAATAGC-A-TAAAA
1 ACCAATTAAAAGAGGTGAATCTACAAT-GTAGAAAGAGCAGCTTGGACATCAATAGCAATTAAAA
* *
2438142 ACTTGAATACTCAAATGCAGAAACTCAGCTATGTAAACTCAAATTACCCTTCAAATCAATGCCTT
65 ACTTGAATACTCAAATGCAGAAACTCAGCTATGCAAAC-CAAACTACCCTTCAAATCAATGCCTT
* *
2438207 GTGGCTAAACAA-TCAACAGCTAAGACAACC
129 ATAGCTAAACAATTCAACAGCTAAGACAACC
2438237 TTAGGTGACC
Statistics
Matches: 140, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
164 55 0.39
165 35 0.25
170 1 0.01
171 49 0.35
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (166 bp):
ACCAATTAAAAGAGGTGAATCTACAATGTAGAAAGAGCAGCTTGGACATCAATAGCAATTAAAAA
CTTGAATACTCAAATGCAGAAACTCAGCTATGCAAACCAAACTACCCTTCAAATCAATGCCTTAT
AGCTAAACAATTCAACAGCTAAGACAACCGTAAGGG
Found at i:2446212 original size:2 final size:2
Alignment explanation
Indices: 2446207--2446231 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2446197 TTGATTTATG
2446207 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2446232 GCACTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2447606 original size:21 final size:21
Alignment explanation
Indices: 2447582--2447622 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2447572 AATATATATA
2447582 TATATAT-AATTTTAATAAAAT
1 TATATATGAA-TTTAATAAAAT
2447603 TATATATGAATTTAATAAAA
1 TATATATGAATTTAATAAAA
2447623 ATAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TATATATGAATTTAATAAAAT
Found at i:2448391 original size:191 final size:191
Alignment explanation
Indices: 2448049--2448624 Score: 893
Period size: 191 Copynumber: 3.0 Consensus size: 191
2448039 ATAAAAGGGT
* * * * *
2448049 TCACACCATATCTTTCTTATGAGGTGTGTTTTGTAGGGCAAAACCGTGAGGTCAAGAGAGCCAGA
1 TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAGGACAAAATCGTAAGGTCAAGAGGGCCAGA
* * * *
2448114 GCTGACAATACCTCAGAAGGGTATAAACCATGACA-GAAAGATTGATCTGAGATATCGGATGAGT
66 GCTGACAATACCTCAGAAGGGTGTGAACCGTGACATG-AAGATTGATCTGAGATACCGGATGAGT
* * * * *
2448178 AGATGCCTGAGTCCCAGAGCTGCGCAGGTCGAAGCTTAAGTCTCGACCCATGACAAATGGTA
130 AGATGCTTGGGTCCCGGAGCTGCGCAGGTCGGAGCTTAAGTCTCGACCTATGACAAATGGTA
*
2448240 TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAGGACAAAATCGTAAGGTCAAGAGGGCTAGA
1 TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAGGACAAAATCGTAAGGTCAAGAGGGCCAGA
* *
2448305 GCTGACAATATCTCAGAAGGGTGTGAACCGTGACATGAAGGTTGATCTGAGATACCGGATGAGTA
66 GCTGACAATACCTCAGAAGGGTGTGAACCGTGACATGAAGATTGATCTGAGATACCGGATGAGTA
* * *
2448370 GATGCTTGGGTCCTGGAGCTGCGCAGGTCGGAGCTTAAGTCTCGGCCTGTGACAAATGGTA
131 GATGCTTGGGTCCCGGAGCTGCGCAGGTCGGAGCTTAAGTCTCGACCTATGACAAATGGTA
*
2448431 TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAAGACAAAATCGTAAGGTCAAGAGGGCCAGA
1 TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAGGACAAAATCGTAAGGTCAAGAGGGCCAGA
* *
2448496 GCTGATAATACCTCAGAAGGGTGTGAACCGTGACATGAAGATTGATCTGGGATACCGGATGAGTA
66 GCTGACAATACCTCAGAAGGGTGTGAACCGTGACATGAAGATTGATCTGAGATACCGGATGAGTA
* * * *
2448561 GATGCTTGGGTCCCGAAGTTGTGCAGGTCGGAGCTTAAGTCTCGACCTATGACAAGTGGTA
131 GATGCTTGGGTCCCGGAGCTGCGCAGGTCGGAGCTTAAGTCTCGACCTATGACAAATGGTA
2448622 TCA
1 TCA
2448625 GAGCTAGCCC
Statistics
Matches: 351, Mismatches: 33, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
191 350 1.00
192 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (191 bp):
TCACATCATATCTTTCTTATGAGGTGTGTTTTGTAGGACAAAATCGTAAGGTCAAGAGGGCCAGA
GCTGACAATACCTCAGAAGGGTGTGAACCGTGACATGAAGATTGATCTGAGATACCGGATGAGTA
GATGCTTGGGTCCCGGAGCTGCGCAGGTCGGAGCTTAAGTCTCGACCTATGACAAATGGTA
Found at i:2449829 original size:369 final size:365
Alignment explanation
Indices: 2448823--2449847 Score: 1170
Period size: 368 Copynumber: 2.8 Consensus size: 365
2448813 GGGGGGCCAG
* * * * * * * *
2448823 AGCAAATAATACCTCACAAGAGTGTGAATCGTAGTAGGTATGCTAATCTGGGACGTCAGATGAGT
1 AGCAGATAATACCTCACAAGGGTGTGAATCGTGGTAGGTAAGCTGATCTGAGACGTCAGATAAAT
* *
2448888 GGATGTCCGGGTCCTCGAAGC-CACGTGGGTTCGGAGCTTAAGTCTGACCCGTGACAAGTGGTAT
66 GGATGCCCGGGT-CTCGGAGCGCAC--GGGTTC-GAGCTTAAGTCTGACCCGTGACAAGTGGTAT
*
2448952 TAGAGCCAGCCCTATACCGTTCGATCCACGTCAA-GCATCTCGAGGGAGGTAGGCAGGGTGGCCA
127 TAGAGCCAGCCCTATACCGTTCGATCCACGCCAACGC--CTCGAGGGAGGTAGGCAGGGTGGCCA
* * * * * * *
2449016 GCCTCCGTGACGAGGACGTCACAAGGTAGGATAGAGGAGAATGTCATGGACCTAAAGAGGAG-TC
190 GCCTCCGTGACGAGGATGTCACGAGGTTGGGTAGGGGAGAATGTCACGGACCTAAGGAGGAGTTC
* * * *
2449080 TTGAATCTCACATCGAACATAAAAGGAGGGTCACTAGGGTATAAAAAGGTTTACACCACCTCTCT
255 -TGAATCCCACATCGAATATAAAAAGAGGGTCACTAGGGTATAAAAAGGTTCACACCACCTCTCT
* * * *
2449145 CTTGTGAGATGTCTTTTGTAGAACAAAATCGTGAGGTCAGGGGCAAA
319 CTTGTGAGACGCCTTTTGTAGAACAAAATCGTAAGGCCAGGGGCAAA
* * * * * * *
2449192 AGCAGACAATACCTCACAAGGGTGTGAA-CTATGGTAGGTAGGCTGATCTAAGAC-ACCGAAAGA
1 AGCAGATAATACCTCACAAGGGTGTGAATC-GTGGTAGGTAAGCTGATCTGAGACGTCAGATA-A
* * * * * * * *
2449255 ATGCATGCCCGGGTCCCGGAGCAGCGCGGG-TCGAAGCTTAAATCTTAGCCCATGATAAATGGTA
64 ATGGATGCCCGGGTCTCGGAGC-GCACGGGTTCG-AGCTTAAGTCTGA-CCCGTGACAAGTGGTA
* * * **
2449319 TTAGAGCCAGCCTTATACCGTTCGATCCATGCCAAGCACCTCGAGGGAGGTAGGCAGGGTGATCA
126 TTAGAGCCAGCCCTATACCGTTCGATCCACGCCAA-CGCCTCGAGGGAGGTAGGCAGGGTGGCCA
* * * * *
2449384 GCCTCCGTGACGAAGGCT-TCACGAGATTGGGTAGGGGAGAATGTCACGGACCTAAGAAAGAGTC
190 GCCTCCGTGACG-AGGATGTCACGAGGTTGGGTAGGGGAGAATGTCACGGACCTAAGGAGGAGTT
* * *
2449448 CTGAATCCCACATCGAATATAAAAAGAGGGTCACT-GAGGTATAAAATGGTTCACACCATCTCTT
254 CTGAATCCCACATCGAATATAAAAAGAGGGTCACTAG-GGTATAAAAAGGTTCACACCACCTCTC
*
2449512 TCTTGTGATG-CGCCTTTTGTA-AGACAAAATCGTAAGGCCATGGGAGCCAA
318 TCTTGTGA-GACGCCTTTTGTAGA-ACAAAATCGTAAGGCCA-GGG-GCAAA
* * * *
2449562 AGCGGATAATACCTCACAAGGGTGTGAATCGTGGCAGGTAAACTGATCTGAGACGTCGGATAAAT
1 AGCAGATAATACCTCACAAGGGTGTGAATCGTGGTAGGTAAGCTGATCTGAGACGTCAGATAAAT
* * ** *
2449627 GGATGCCCGGGTCTCGGAGCTGCACGGGTTTGAGCTTAAGGCTCGACCCGTGACAAGTTATATCA
66 GGATGCCCGGGTCTCGGAGC-GCACGGGTTCGAGCTTAAGTCT-GACCCGTGACAAGTGGTATTA
*
2449692 GAGCCAGCCCTATACCGTTCGATCCACGCCAACGCCTCGAGGGAGGTAGGCAAGGTGGCCAGCCT
129 GAGCCAGCCCTATACCGTTCGATCCACGCCAACGCCTCGAGGGAGGTAGGCAGGGTGGCCAGCCT
* * * *
2449757 CCGTGACGAGGGTGTCACGAGGTTGGGTGGGGGAGAATGTCACAGACCTAAGGAGGAGTTCTCAA
194 CCGTGACGAGGATGTCACGAGGTTGGGTAGGGGAGAATGTCACGGACCTAAGGAGGAGTTCTGAA
2449822 TCCCACATCGAATATAAAAAGAGGGT
259 TCCCACATCGAATATAAAAAGAGGGT
2449848 GAGACGTCTT
Statistics
Matches: 544, Mismatches: 92, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
366 1 0.00
367 15 0.03
368 219 0.40
369 170 0.31
370 131 0.24
371 8 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (365 bp):
AGCAGATAATACCTCACAAGGGTGTGAATCGTGGTAGGTAAGCTGATCTGAGACGTCAGATAAAT
GGATGCCCGGGTCTCGGAGCGCACGGGTTCGAGCTTAAGTCTGACCCGTGACAAGTGGTATTAGA
GCCAGCCCTATACCGTTCGATCCACGCCAACGCCTCGAGGGAGGTAGGCAGGGTGGCCAGCCTCC
GTGACGAGGATGTCACGAGGTTGGGTAGGGGAGAATGTCACGGACCTAAGGAGGAGTTCTGAATC
CCACATCGAATATAAAAAGAGGGTCACTAGGGTATAAAAAGGTTCACACCACCTCTCTCTTGTGA
GACGCCTTTTGTAGAACAAAATCGTAAGGCCAGGGGCAAA
Found at i:2450139 original size:332 final size:329
Alignment explanation
Indices: 2449546--2450178 Score: 867
Period size: 332 Copynumber: 1.9 Consensus size: 329
2449536 CAAAATCGTA
* * * * *
2449546 AGGCCATGGGAGCCAAAGCGGATAATACCTCACAAGGGTGTGAATCGTGGCAGGTAAACTGATCT
1 AGGCCAGGGGAGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTGACAGGCAAACTGATCT
* * * * *
2449611 GAGACGTCGGATAAATGGATGCCCGGGTCTCGGAGCTGCACGGGTTTGAGCTTAAGGCTCGACCC
66 GAGACCTCGGATAAATGGATGCCCAGGTCTCGAAGCTGCACGGGTTGGAGCTTAAGCCTCGACCC
* * * * * *
2449676 GTGACAAGTTATATCAGAGCCAGCCCTATACCGTTCGATCCACGCCAACGCCTCGAGGGAGGTAG
131 GCGACAAGTGATATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAACACCTCGAGGGAGGTAG
* * * *
2449741 GCAAGGTGGCCAGCCTCCGTGACGAGGGTGTCACGAGGTTGGGTGGGGGAGAATGTCACAGACCT
196 GCAAGGTGGCCAACCTCCGTGACGAGGGCGTCACGAAGTTGGGTGGGAGAGAATGTCACAGACCT
2449806 AAGGAGGAGT-TCTCAATCCCACATCGAATATAAAAAGAGGGTGAGACGTCTTTTGTAGGATAAA
261 AAGGAGGAGTCT-TCAATCCCACATCGAATATAAAAA-AGGGTGAGACGTCTTTTGTAGGATAAA
2449870 ACTGTG
324 ACTGTG
* * **
2449876 AGGCCAGGGGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGACAGGCAGGCTGATCT
1 AGGCCAGGGGAGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTGACAGGCAAACTGATCT
* * * ** *
2449941 GGGACACT-GGATGAGTGGATGCCCAGGTCTCGAAG-TCGCGTGGGTTCGGAGTTTAAGCCTCGA
66 GAGAC-CTCGGATAAATGGATGCCCAGGTCTCGAAGCT-GCACGGGTT-GGAGCTTAAGCCTCGA
* *
2450004 CCCGCGACAAGTGGTATCAAAGCCAGCCCTAAACCATTCGATCCATGCCAAGCACCTCGAGGGAG
128 CCCGCGACAAGTGATATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAA-CACCTCGAGGGAG
* * *
2450069 GTAGGCAGGGTGGCCAACCTCCGTGACGAGGGCGTCACGAAGTTGGGTGGGAGAGAATGTTACGG
192 GTAGGCAAGGTGGCCAACCTCCGTGACGAGGGCGTCACGAAGTTGGGTGGGAGAGAATGTCACAG
*
2450134 ACCTAAGGAGGAGTCTTGAATCCCACATCGAATATAAAAAAGGGT
257 ACCTAAGGAGGAGTCTTCAATCCCACATCGAATATAAAAAAGGGT
2450179 CACTGGAGTA
Statistics
Matches: 262, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
329 1 0.00
330 90 0.34
331 63 0.24
332 107 0.41
333 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.18
Consensus pattern (329 bp):
AGGCCAGGGGAGCCAAAGCGGACAATACCTCACAAGGGTGTGAACCGTGACAGGCAAACTGATCT
GAGACCTCGGATAAATGGATGCCCAGGTCTCGAAGCTGCACGGGTTGGAGCTTAAGCCTCGACCC
GCGACAAGTGATATCAAAGCCAGCCCTAAACCATTCGATCCACGCCAACACCTCGAGGGAGGTAG
GCAAGGTGGCCAACCTCCGTGACGAGGGCGTCACGAAGTTGGGTGGGAGAGAATGTCACAGACCT
AAGGAGGAGTCTTCAATCCCACATCGAATATAAAAAAGGGTGAGACGTCTTTTGTAGGATAAAAC
TGTG
Found at i:2450588 original size:65 final size:65
Alignment explanation
Indices: 2450484--2450611 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 65
2450474 TTCAAAACTC
* * * *
2450484 TTCAAGTTGGTTCGGATTATCATTTCAGTCACAATCCAATTAATTTTAAGATAGATGTCTTTCAT
1 TTCAAGTTGGTTCGAATTATCATCTCAGTCACAATCCAATTAATTTTAAGATAAATGCCTTTCAT
* * *
2450549 TTCAAGTTGGTTCGAATTATCATCTGAGTCCCGATCCAATTAATTTTAAGATAAATGCCTTTC
1 TTCAAGTTGGTTCGAATTATCATCTCAGTCACAATCCAATTAATTTTAAGATAAATGCCTTTC
2450612 TTTTTACGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (65 bp):
TTCAAGTTGGTTCGAATTATCATCTCAGTCACAATCCAATTAATTTTAAGATAAATGCCTTTCAT
Found at i:2453378 original size:290 final size:290
Alignment explanation
Indices: 2452858--2453440 Score: 950
Period size: 290 Copynumber: 2.0 Consensus size: 290
2452848 TTGTTAGGTG
2452858 TTATTGGGCAACCTAAAATGTTTTTCTCCCTATAGTCTCTTAACAATTGAAACTTTTCATAATAT
1 TTATTGGGCAACCTAAAATGTTTTTCTCCCTATAGTCTCTTAACAATTGAAACTTTTCATAATAT
*
2452923 GAAAGTATTAATTTTTCATTTTTCTTCTTCGATCTTCATCTTGATTCAAAAACATTACTTTAATT
66 GAAAGTATTAATTTTTCATTTTTCTTCTTCAATCTTCATCTTGATTCAAAAACATTACTTTAATT
* * * * *
2452988 AGATGAATAAACGAATAAAACGTTTAATAAATAATTTATGAATATATTTAATTTCTATTCGTTTA
131 AGATGAACAAACGAATAAAACATTTAATAAATAATTTACGAACATATTTAATTTCTATTCATTTA
* * * * *
2453053 TATTTATTTTTTAAGTTTAATAAATAATCACAAACAATATTTTATAATTTCTTAATTCTCACAAA
196 TATTCATTTTTTAAGTTTAATAAATAATCACAAACAACATTTCATAATTCCTTAATTATCACAAA
*
2453118 TATAACAAAATTTGTTTATGTTTAGTTCGT
261 TATAACAAAATTTGTTCATGTTTAGTTCGT
* * *
2453148 TTATTGGGCAACCTAAAATGTTTTTCTCCTTGTAGTCTCTTAACAATTGAAACTTTTCATAGTAT
1 TTATTGGGCAACCTAAAATGTTTTTCTCCCTATAGTCTCTTAACAATTGAAACTTTTCATAATAT
2453213 GAAAGTATTAATTTTTCATTTTTCTTCTTCAATCTTCATCTTGATTCAAAAACATTACTTTAATT
66 GAAAGTATTAATTTTTCATTTTTCTTCTTCAATCTTCATCTTGATTCAAAAACATTACTTTAATT
** * * ** *
2453278 AGATGCGCAAATGAATAAAACATTTGATAAATAATTTACGAACATATTTGGTTTCTATTCATTTT
131 AGATGAACAAACGAATAAAACATTTAATAAATAATTTACGAACATATTTAATTTCTATTCATTTA
*
2453343 TATTCATTTTTTAAGTTTAATAAATAATCACAAACAACATTTCATAATTCCTTAATTATCATAAA
196 TATTCATTTTTTAAGTTTAATAAATAATCACAAACAACATTTCATAATTCCTTAATTATCACAAA
*
2453408 TATAACAAAATTTGTTCATGTTTAGTTTGT
261 TATAACAAAATTTGTTCATGTTTAGTTCGT
2453438 TTA
1 TTA
2453441 CACCCCTAAC
Statistics
Matches: 269, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
290 269 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (290 bp):
TTATTGGGCAACCTAAAATGTTTTTCTCCCTATAGTCTCTTAACAATTGAAACTTTTCATAATAT
GAAAGTATTAATTTTTCATTTTTCTTCTTCAATCTTCATCTTGATTCAAAAACATTACTTTAATT
AGATGAACAAACGAATAAAACATTTAATAAATAATTTACGAACATATTTAATTTCTATTCATTTA
TATTCATTTTTTAAGTTTAATAAATAATCACAAACAACATTTCATAATTCCTTAATTATCACAAA
TATAACAAAATTTGTTCATGTTTAGTTCGT
Found at i:2461004 original size:23 final size:26
Alignment explanation
Indices: 2460976--2461027 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
2460966 TGAAATTAAT
*
2460976 AAAATATTATT-TT-TTA-AAATATA
1 AAAATATTATTGTTAATATAAATATA
2460999 AAAATATTATTGTTAATATAAATATA
1 AAAATATTATTGTTAATATAAATATA
2461025 AAA
1 AAA
2461028 TTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
24 2 0.08
25 2 0.08
26 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATATTATTGTTAATATAAATATA
Found at i:2461533 original size:30 final size:30
Alignment explanation
Indices: 2461476--2461533 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2461466 GACTTGTTTA
* *
2461476 TTAAACTAAATGAACATATCTATAATATTC
1 TTAAAATAAATGAACAGATCTATAATATTC
2461506 TTAAAATAAATGAACAGATC-ATGAATAT
1 TTAAAATAAATGAACAGATCTAT-AATAT
2461534 AATAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (30 bp):
TTAAAATAAATGAACAGATCTATAATATTC
Found at i:2464353 original size:57 final size:57
Alignment explanation
Indices: 2464265--2464374 Score: 193
Period size: 57 Copynumber: 1.9 Consensus size: 57
2464255 CTTTTATGAT
*
2464265 CCTATTCCTAACCCATGTGGCTGCAGTGGTCCTTCGAGTGTTGCTAGGGTTAACAAC
1 CCTATTCCTAACCCATGTGGCTGCAGTGGTCCTTAGAGTGTTGCTAGGGTTAACAAC
* *
2464322 CCTATTCCTAACCCATGTGGCTGCTGTGGTCCTTAGAGTGTTGTTAGGGTTAA
1 CCTATTCCTAACCCATGTGGCTGCAGTGGTCCTTAGAGTGTTGCTAGGGTTAA
2464375 TTACGGGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (57 bp):
CCTATTCCTAACCCATGTGGCTGCAGTGGTCCTTAGAGTGTTGCTAGGGTTAACAAC
Found at i:2464581 original size:16 final size:16
Alignment explanation
Indices: 2464554--2464596 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
2464544 AATATTATTT
2464554 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
2464569 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
2464585 TATAAATATATA
1 TTTAAATATATA
2464597 TAAATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:2465583 original size:26 final size:27
Alignment explanation
Indices: 2465553--2465607 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
2465543 ATCAACGAAG
2465553 TATTA-TTTATTTTGAT-AAAAAA-ATTT
1 TATTATTTTA-TTT-ATCAAAAAATATTT
2465579 TATTATTTTATTTATCAAAAAATATTT
1 TATTATTTTATTTATCAAAAAATATTT
2465606 TA
1 TA
2465608 CATGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 2 0.08
26 14 0.54
27 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTATTTTATTTATCAAAAAATATTT
Found at i:2467881 original size:15 final size:16
Alignment explanation
Indices: 2467845--2467886 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2467835 TAAAAATAAT
*
2467845 AAAATTTAATTTAATTT
1 AAAA-TTAATTTAATTC
*
2467862 TAAA-TAATTTAATTC
1 AAAATTAATTTAATTC
2467877 AAAATTAATT
1 AAAATTAATT
2467887 AAACTGCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.62
16 5 0.24
17 3 0.14
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAATTAATTTAATTC
Found at i:2473503 original size:22 final size:22
Alignment explanation
Indices: 2473475--2473518 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2473465 CTAAATCTTC
*
2473475 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
2473497 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
2473519 TAAATATACA
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:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:2478106 original size:14 final size:15
Alignment explanation
Indices: 2478087--2478120 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2478077 TTTCCAATGC
2478087 TTTTTCATTGAA-AA
1 TTTTTCATTGAATAA
*
2478101 TTTTTCATTTAATAA
1 TTTTTCATTGAATAA
2478116 TTTTT
1 TTTTT
2478121 AAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTTCATTGAATAA
Found at i:2481834 original size:11 final size:11
Alignment explanation
Indices: 2481818--2481859 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
2481808 AATCCTATAA
2481818 GAGATTTGTTT
1 GAGATTTGTTT
*
2481829 GAGATTTGTTA
1 GAGATTTGTTT
2481840 GAGATTTGTTT
1 GAGATTTGTTT
2481851 GAGATTTGT
1 GAGATTTGT
2481860 CAGATATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2481845 original size:22 final size:22
Alignment explanation
Indices: 2481817--2481859 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2481807 AAATCCTATA
2481817 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
2481839 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
2481860 CAGATATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:2482860 original size:11 final size:11
Alignment explanation
Indices: 2482844--2482885 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
2482834 AATCCTATAA
2482844 GAGATTTGTTT
1 GAGATTTGTTT
*
2482855 GAGATTTGTTA
1 GAGATTTGTTT
*
2482866 GAGATTTATTT
1 GAGATTTGTTT
2482877 GAGATTTGT
1 GAGATTTGT
2482886 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2482868 original size:22 final size:22
Alignment explanation
Indices: 2482843--2482885 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2482833 AAATCCTATA
*
2482843 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
2482865 AGAGATTTATTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
2482886 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:2485532 original size:22 final size:21
Alignment explanation
Indices: 2485487--2485536 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
2485477 TTTGTTTGAT
*
2485487 AAAAAATTGATTGATCAATAA
1 AAAAAATTGATTGATCAACAA
*
2485508 AAAATAATTTATTGATCAACGAA
1 AAAA-AATTGATTGATCAAC-AA
2485531 AAAAAA
1 AAAAAA
2485537 AAGTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (21 bp):
AAAAAATTGATTGATCAACAA
Found at i:2485649 original size:18 final size:18
Alignment explanation
Indices: 2485628--2485821 Score: 87
Period size: 18 Copynumber: 11.2 Consensus size: 18
2485618 TTAATATTCT
* *
2485628 TAAATATAATTTTATTTA
1 TAAATATAATTATATTAA
*
2485646 TAAATATTATTATATTAA
1 TAAATATAATTATATTAA
2485664 T-AA-ATAA-TATATT-A
1 TAAATATAATTATATTAA
* * *
2485678 TGAATA-AATTCTA-TAC
1 TAAATATAATTATATTAA
*
2485694 TACTAATAT-AGTATATTAA
1 TA--AATATAATTATATTAA
* *
2485713 TAAATAATAAAT-TATCAA
1 TAAAT-ATAATTATATTAA
*
2485731 T-AA-ATAA-TATACT-A
1 TAAATATAATTATATTAA
*
2485745 TTAATATAA-TATATTAA
1 TAAATATAATTATATTAA
2485762 TAAATA-ATATTATATTAA
1 TAAATATA-ATTATATTAA
*
2485780 TAAATAATATTTAATATTTTAA
1 TAAAT-ATAATT-ATA--TTAA
2485802 TAAA-ATAA-TATATTGAA
1 TAAATATAATTATATT-AA
2485819 TAA
1 TAA
2485822 TAAAGAGTTT
Statistics
Matches: 136, Mismatches: 18, Indels: 45
0.68 0.09 0.23
Matches are distributed among these distances:
14 5 0.04
15 19 0.14
16 20 0.15
17 19 0.14
18 48 0.35
19 10 0.07
20 7 0.05
22 8 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (18 bp):
TAAATATAATTATATTAA
Found at i:2485709 original size:49 final size:49
Alignment explanation
Indices: 2485656--2485789 Score: 189
Period size: 49 Copynumber: 2.7 Consensus size: 49
2485646 TAAATATTAT
* ** *
2485656 TATATTAATAAATAATATATTATGAATAAATTCTATACTACTAATATAG
1 TATATTAATAAATAATATATTATCAATAAATAATATACTACTAATATAA
* *
2485705 TATATTAATAAATAATAAATTATCAATAAATAATATACTATTAATATAA
1 TATATTAATAAATAATATATTATCAATAAATAATATACTACTAATATAA
*
2485754 TATATTAATAAATAATAT-TATATTAATAAATAATAT
1 TATATTAATAAATAATATAT-TATCAATAAATAATAT
2485790 TTAATATTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
48 1 0.01
49 75 0.99
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (49 bp):
TATATTAATAAATAATATATTATCAATAAATAATATACTACTAATATAA
Found at i:2485733 original size:67 final size:67
Alignment explanation
Indices: 2485662--2485788 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 67
2485652 TTATTATATT
* *
2485662 AATAAATAATATATTATGAATA-AATTCTATACTACT-AAT-ATAGTATATTAATAAATAATAAA
1 AATAAATAATATACTATGAATATAA---TATACTAATAAATAATAGTATATTAATAAATAATAAA
2485724 TTATC
63 TTATC
* * *
2485729 AATAAATAATATACTATTAATATAATATATTAATAAATAATATTATATTAATAAATAATA
1 AATAAATAATATACTATGAATATAATATACTAATAAATAATAGTATATTAATAAATAATA
2485789 TTTAATATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
65 7 0.13
66 3 0.06
67 40 0.77
68 2 0.04
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (67 bp):
AATAAATAATATACTATGAATATAATATACTAATAAATAATAGTATATTAATAAATAATAAATTA
TC
Found at i:2485765 original size:31 final size:30
Alignment explanation
Indices: 2485717--2485795 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
2485707 TATTAATAAA
*
2485717 TAATAAAT-TATCAATAAATAATA-TACTAT
1 TAATAAATATATTAATAAATAATATTA-TAT
2485746 TAATATAATATATTAATAAATAATATTATAT
1 TAATA-AATATATTAATAAATAATATTATAT
2485777 TAATAAATAATATTTAATA
1 TAATAAAT-ATA-TTAATA
2485796 TTTTAATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
29 5 0.11
30 6 0.14
31 25 0.57
32 8 0.18
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
TAATAAATATATTAATAAATAATATTATAT
Found at i:2485957 original size:25 final size:26
Alignment explanation
Indices: 2485902--2485961 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
2485892 TATTAATAAA
*
2485902 TTTAACAATAAATAATTTTAACATAC
1 TTTAATAATAAATAATTTTAACATAC
* *
2485928 TTTAATAATAAATAATTTT-TCATAT
1 TTTAATAATAAATAATTTTAACATAC
2485953 TTTAATAAT
1 TTTAATAAT
2485962 TATATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTAATAATAAATAATTTTAACATAC
Found at i:2490583 original size:13 final size:13
Alignment explanation
Indices: 2490558--2490595 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2490548 TATGATTTAA
2490558 AATTAAA-ATAAT
1 AATTAAATATAAT
*
2490570 AATTATATATAAT
1 AATTAAATATAAT
2490583 AATTAAATATAAT
1 AATTAAATATAAT
2490596 TTAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATTAAATATAAT
Found at i:2490606 original size:23 final size:24
Alignment explanation
Indices: 2490531--2490607 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 24
2490521 TAATATAAAA
*
2490531 ATAAAAT-ATTAAAATAATATGAT
1 ATAAAATAATTAAAATAATATTAT
*
2490554 -T-TAA-AATTAAAATAATAATTAT
1 ATAAAATAATTAAAATAAT-ATTAT
*
2490576 ATATAATAATTAAATATAAT-TTA-
1 ATAAAATAATTAAA-ATAATATTAT
2490599 ATAAAATAA
1 ATAAAATAA
2490608 AAAATTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 13 0.29
22 5 0.11
23 9 0.20
24 6 0.13
25 7 0.16
26 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
ATAAAATAATTAAAATAATATTAT
Found at i:2496044 original size:21 final size:21
Alignment explanation
Indices: 2495994--2496046 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2495984 TTTTTCATTT
*
2495994 TTTTTATTTTATTTTTCTCAA
1 TTTTTATTTTATTTATCTCAA
*
2496015 TTATTTATTTTA-TTATCTTAA
1 TT-TTTATTTTATTTATCTCAA
2496036 GTTTTTATTTT
1 -TTTTTATTTT
2496047 CAATTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTATTTTATTTATCTCAA
Found at i:2504200 original size:81 final size:82
Alignment explanation
Indices: 2504051--2504214 Score: 269
Period size: 81 Copynumber: 2.0 Consensus size: 82
2504041 AAACAAAATC
* *
2504051 ATACATACATACATACACAAAATACGTTATGTTTTGCTCCCTTTGAAATTAAAATTTCAGCCCGT
1 ATACATACATACATACACAAAATACGTTATGTTTTGCTCCCTTTGAAATTAAAATTTCAACCCAT
2504116 TTGCATAGGGGAAGCAA
66 TTGCATAGGGGAAGCAA
* *
2504133 ATACATACATACATACACAAAATACG-TATAG-TTTGCTCCTTTTGACATTAAAATTTCAACCCA
1 ATACATACATACATACACAAAATACGTTAT-GTTTTGCTCCCTTTGAAATTAAAATTTCAACCCA
2504196 TTTGCATAGGGGAAGCAA
65 TTTGCATAGGGGAAGCAA
2504214 A
1 A
2504215 CTAGTATAGG
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
81 50 0.65
82 27 0.35
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (82 bp):
ATACATACATACATACACAAAATACGTTATGTTTTGCTCCCTTTGAAATTAAAATTTCAACCCAT
TTGCATAGGGGAAGCAA
Found at i:2506477 original size:19 final size:18
Alignment explanation
Indices: 2506453--2506494 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2506443 TTAAATCGAA
*
2506453 TTATATATTTTATTAGTTT
1 TTATATATTTT-TTAATTT
2506472 TTATATATTTTTTAATTT
1 TTATATATTTTTTAATTT
2506490 TTATA
1 TTATA
2506495 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATATATTTTTTAATTT
Found at i:2512311 original size:58 final size:58
Alignment explanation
Indices: 2512221--2512337 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
2512211 TAAATTTGTC
2512221 CTAATCAAATTAAATAAAGCCAGGTCAGAGCTGGCTTTATTTAATGTCATTAAAAAAT
1 CTAATCAAATTAAATAAAGCCAGGTCAGAGCTGGCTTTATTTAATGTCATTAAAAAAT
*
2512279 CTAATCAAATTAAATAAAGCCAGGTCAGAGCTGGTTTTATTTAATGTCATTAAAAAAT
1 CTAATCAAATTAAATAAAGCCAGGTCAGAGCTGGCTTTATTTAATGTCATTAAAAAAT
2512337 C
1 C
2512338 AATTTTTTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (58 bp):
CTAATCAAATTAAATAAAGCCAGGTCAGAGCTGGCTTTATTTAATGTCATTAAAAAAT
Found at i:2517274 original size:23 final size:24
Alignment explanation
Indices: 2517235--2517292 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 24
2517225 ATAAATTTTA
*
2517235 ATTTTTTATATATTATTTTAATAAG
1 ATTTTTTATATATTATTTAAAT-AG
2517260 ATTTTTTA-ATA-TATTTAAATAG
1 ATTTTTTATATATTATTTAAATAG
2517282 ATTTATTTATA
1 ATTT-TTTATA
2517293 AAATAATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.20
23 12 0.40
24 4 0.13
25 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
ATTTTTTATATATTATTTAAATAG
Found at i:2517421 original size:13 final size:13
Alignment explanation
Indices: 2517402--2517435 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2517392 ATTTTATCTG
2517402 AATTTAATATATA
1 AATTTAATATATA
* *
2517415 TATTTAATATCTA
1 AATTTAATATATA
2517428 AATTTAAT
1 AATTTAAT
2517436 CTGAACCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTAATATATA
Found at i:2517508 original size:11 final size:11
Alignment explanation
Indices: 2517494--2517518 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2517484 TTTCAATTGA
2517494 TTTTTAATTTT
1 TTTTTAATTTT
2517505 TTTTTAATTTT
1 TTTTTAATTTT
2517516 TTT
1 TTT
2517519 CTCATACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:2518136 original size:14 final size:15
Alignment explanation
Indices: 2518117--2518146 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2518107 TTTTTGTTAA
2518117 ATTTAAA-TAAATTT
1 ATTTAAATTAAATTT
2518131 ATTTAAATTAAATTT
1 ATTTAAATTAAATTT
2518146 A
1 A
2518147 ATAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAAATTAAATTT
Found at i:2518164 original size:25 final size:25
Alignment explanation
Indices: 2518113--2518161 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
2518103 ACACTTTTTG
**
2518113 TTAAATTTAAATAAATTTATTTAAA
1 TTAAATTTAAATAAATTTATAAAAA
2518138 TTAAATTT-AATAAATTTATAAAAA
1 TTAAATTTAAATAAATTTATAAAAA
2518162 ATTTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAAATTTAAATAAATTTATAAAAA
Found at i:2529565 original size:16 final size:17
Alignment explanation
Indices: 2529530--2529568 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2529520 AAATGATGTG
2529530 ATTTTATTAATAAATAA
1 ATTTTATTAATAAATAA
* *
2529547 ATTTTTTTAA-AAATTA
1 ATTTTATTAATAAATAA
2529563 ATTTTA
1 ATTTTA
2529569 ATATAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAATAAATAA
Found at i:2529576 original size:15 final size:14
Alignment explanation
Indices: 2529551--2529596 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2529541 AAATAAATTT
2529551 TTTTAAA-AATTAA
1 TTTTAAATAATTAA
2529564 TTTTAATATAATT-A
1 TTTTAA-ATAATTAA
2529578 TTTTAAAT-ATTAA
1 TTTTAAATAATTAA
2529591 TATTTA
1 T-TTTA
2529597 TTTATTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.10
13 10 0.34
14 12 0.41
15 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAAATAATTAA
Found at i:2529581 original size:27 final size:27
Alignment explanation
Indices: 2529542--2529596 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
2529532 TTTATTAATA
*
2529542 AATAAATTTTTTTAAAAATTAAT-TTT
1 AATAAATTATTTTAAAAATTAATATTT
*
2529568 AATATAATTATTTTAAATATTAATATTT
1 AATA-AATTATTTTAAAAATTAATATTT
2529596 A
1 A
2529597 TTTATTAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 17 0.68
28 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
AATAAATTATTTTAAAAATTAATATTT
Found at i:2529901 original size:5 final size:5
Alignment explanation
Indices: 2529893--2529918 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2529883 AAAATAAAAA
2529893 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
2529919 TACATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:2547634 original size:6 final size:6
Alignment explanation
Indices: 2547590--2547627 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
2547580 TCATTCCTGT
2547590 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TG
1 TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TGAGTG TG
2547628 TGCGTGTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (6 bp):
TGAGTG
Found at i:2560079 original size:12 final size:12
Alignment explanation
Indices: 2560062--2560086 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2560052 ATTAAATGAA
2560062 TAATATTTAAAT
1 TAATATTTAAAT
2560074 TAATATTTAAAT
1 TAATATTTAAAT
2560086 T
1 T
2560087 TAATTAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATATTTAAAT
Found at i:2563252 original size:15 final size:16
Alignment explanation
Indices: 2563214--2563252 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2563204 TTTTGATTAA
2563214 AAATAAAAATACTAATC
1 AAATAAAAATACT-ATC
2563231 AAATAAAAATACT-TC
1 AAATAAAAATACTATC
*
2563246 AACTAAA
1 AAATAAA
2563253 TGATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
17 13 0.62
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAAATACTATC
Found at i:2563645 original size:84 final size:84
Alignment explanation
Indices: 2563502--2563668 Score: 289
Period size: 84 Copynumber: 2.0 Consensus size: 84
2563492 GAGGCAGAAG
* * * * *
2563502 GTAAGCGTTGTTGCGGAAGCGACCCCTCCTGTCATTTTCTTCTAGTAAGAGTAGGCCTAAGACGT
1 GTAAGAGTTGTTGCGGAAGCCACCCCTCCTGTCATTTTCTTCTAGCAAGAGTAGACCTAAGACGA
2563567 GGCCAAAATTATTAATTAC
66 GGCCAAAATTATTAATTAC
2563586 GTAAGAGTTGTTGCGGAAGCCACCCCTCCTGTCATTTTCTTCTAGCAAGAGTAGACCTAAGACGA
1 GTAAGAGTTGTTGCGGAAGCCACCCCTCCTGTCATTTTCTTCTAGCAAGAGTAGACCTAAGACGA
2563651 GGCCAAAATTATTAATTA
66 GGCCAAAATTATTAATTA
2563669 TTGATATGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (84 bp):
GTAAGAGTTGTTGCGGAAGCCACCCCTCCTGTCATTTTCTTCTAGCAAGAGTAGACCTAAGACGA
GGCCAAAATTATTAATTAC
Done.