Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_pilon, 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: 1846166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 8
Found at i:1773581 original size:13 final size:13
Alignment explanation
Indices: 1773565--1773608 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
1773555 TCAATGAACA
1773565 TCATAAATGAGCG
1 TCATAAATGAGCG
* *
1773578 TCATAAATGTGTG
1 TCATAAATGAGCG
*
1773591 TCATAAATGCGCG
1 TCATAAATGAGCG
1773604 TCATA
1 TCATA
1773609 GATTTATGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (13 bp):
TCATAAATGAGCG
Found at i:1774116 original size:25 final size:24
Alignment explanation
Indices: 1774071--1774117 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
1774061 ATAAATGTAA
* * *
1774071 TAATTTTGTTCATATTTATTTATT
1 TAATTTTATTCATACTCATTTATT
1774095 TAATTTATATTCATACTCATTTA
1 TAATTT-TATTCATACTCATTTA
1774118 ATCTATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (24 bp):
TAATTTTATTCATACTCATTTATT
Found at i:1774624 original size:106 final size:106
Alignment explanation
Indices: 1774485--1774764 Score: 325
Period size: 106 Copynumber: 2.6 Consensus size: 106
1774475 TGATGGAGCA
* * * * *
1774485 TTAGAAATCTAACTATAACAAAATATGTTAATTACTTAATTTT-TTATCAATGTTATCAACATAT
1 TTAGAAATCCAACGATAACAAAATAGGTAAATTACTT-ATTTTGTTATCAATATTATCAACATAT
*
1774549 TAGATAGCGCCTAAAATATTACCAAAGTTTAAGCTGAAGGGG
65 TAGATAGCACCTAAAATATTACCAAAGTTTAAGCTGAAGGGG
* * *
1774591 TTAGAAATCCGACGATAACAAAATAGGTAAATTACTTGTTTTGTTATTAATATTATCAACATATT
1 TTAGAAATCCAACGATAACAAAATAGGTAAATTACTTATTTTGTTATCAATATTATCAACATATT
* *
1774656 AGGTAGCACCTAAAATATTACCAAAGTTTAAGCTGATGGGG
66 AGATAGCACCTAAAATATTACCAAAGTTTAAGCTGAAGGGG
* * * * * * *
1774697 CCTTCGAAATCTC-ACGACAAC-AAA-AGGTTAATTTCTTATTTTGTTATAAATAAATATTAACA
1 --TTAGAAATC-CAACGATAACAAAATAGGTAAATTACTTATTTTGTTATCAAT-ATTATCAACA
1774759 TATTAG
62 TATTAG
1774765 GTTGCGTCCA
Statistics
Matches: 150, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
105 4 0.03
106 113 0.75
107 17 0.11
108 15 0.10
109 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (106 bp):
TTAGAAATCCAACGATAACAAAATAGGTAAATTACTTATTTTGTTATCAATATTATCAACATATT
AGATAGCACCTAAAATATTACCAAAGTTTAAGCTGAAGGGG
Found at i:1775431 original size:23 final size:23
Alignment explanation
Indices: 1775403--1775474 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
1775393 TGGTAGCTAG
*
1775403 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACGTAATAGGTAGCGCCTA
* * * *
1775426 TTTAACGCAATAGATAACACCTA
1 TTTAACGTAATAGGTAGCGCCTA
*
1775449 TTTAACATAATAGGTAGCGCCTA
1 TTTAACGTAATAGGTAGCGCCTA
1775472 TTT
1 TTT
1775475 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCCTA
Found at i:1775581 original size:23 final size:23
Alignment explanation
Indices: 1775524--1775595 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
1775514 CGGTTACTAG
*
1775524 TTTAACGTAATATA-TAGCGCTTA
1 TTTAACGTAATA-AGTAGCGCCTA
*
1775547 TTTAACGTAATAGGTAGCGCCTA
1 TTTAACGTAATAAGTAGCGCCTA
*
1775570 TTTAACAG-AATAAGTAGCCCCTA
1 TTTAAC-GTAATAAGTAGCGCCTA
1775593 TTT
1 TTT
1775596 TATTTTATCG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (23 bp):
TTTAACGTAATAAGTAGCGCCTA
Found at i:1775660 original size:21 final size:21
Alignment explanation
Indices: 1775636--1775706 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
1775626 TAAACAAATG
1775636 GGTAGC-TAGTTTAACGTAATA
1 GGTAGCTTA-TTTAACGTAATA
1775657 GGTAGCGCTTATTTAACGTAATA
1 GGTA--GCTTATTTAACGTAATA
* * *
1775680 GATAGCGCCTATTTAACATAATA
1 GGTA--GCTTATTTAACGTAATA
1775703 GGTA
1 GGTA
1775707 ACACCTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.09
23 37 0.86
24 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (21 bp):
GGTAGCTTATTTAACGTAATA
Found at i:1775673 original size:23 final size:23
Alignment explanation
Indices: 1775645--1775716 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
1775635 GGGTAGCTAG
*
1775645 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACGTAATAGGTAGCGCCTA
*
1775668 TTTAACGTAATAGATAGCGCCTA
1 TTTAACGTAATAGGTAGCGCCTA
* * *
1775691 TTTAACATAATAGGTAACACCTA
1 TTTAACGTAATAGGTAGCGCCTA
1775714 TTT
1 TTT
1775717 TATTTTACCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCCTA
Found at i:1775786 original size:75 final size:75
Alignment explanation
Indices: 1775691--1775948 Score: 390
Period size: 75 Copynumber: 3.4 Consensus size: 75
1775681 ATAGCGCCTA
* *
1775691 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTATTAGCCTTTAAACAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
1775756 CGGTAGCTAG
66 CGGTAGGTAG
* *
1775766 TTTAGCATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAATAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
1775831 CGGTTGGTAG
66 CGGTAGGTAG
* * * *
1775841 TTTAACATAAGAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
1 TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
1775906 TGGTAGGTAG
66 CGGTAGGTAG
* **
1775916 TTTAACATAATAGGTAGCGTCTATTTTATTTTA
1 TTTAACATAATAGGTAACACCTATTTTATTTTA
1775949 ACTGGATAAG
Statistics
Matches: 167, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 167 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (75 bp):
TTTAACATAATAGGTAACACCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
CGGTAGGTAG
Found at i:1775791 original size:121 final size:121
Alignment explanation
Indices: 1775354--1775781 Score: 624
Period size: 121 Copynumber: 3.5 Consensus size: 121
1775344 AAGTTGTATA
* *
1775354 TATTTTACCGTTTACATTATTATTAACCTTTAAAAAAATTGGTAGCTAGTTTAACGTAATAGGTA
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGTA
* * * *
1775419 GCGCTTATTTAACGCAATAGATAACACCTATTTAACATAATAGGTAGCGCCTATTT
66 GCGCTTATTTAACGTAATAGATAGCGCCTATTTAACATAATAGGTAGCACCTATTT
*** **
1775475 TATTTTAAAATTTACATTATTATTAACCTTTAAACAAATCGGTTA-CTAGTTTAACGTAATATAT
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGG-TAGCTAGTTTAACGTAATAGGT
* * * *
1775539 AGCGCTTATTTAACGTAATAGGTAGCGCCTATTTAACAGAATAAGTAGCCCCTATTT
65 AGCGCTTATTTAACGTAATAGATAGCGCCTATTTAACATAATAGGTAGCACCTATTT
* * * *
1775596 TATTTTATCGTTTACATTATTATTGACATTTAAACAAATGGGTAGCTAGTTTAACGTAATAGGTA
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGTA
*
1775661 GCGCTTATTTAACGTAATAGATAGCGCCTATTTAACATAATAGGTAACACCTATTT
66 GCGCTTATTTAACGTAATAGATAGCGCCTATTTAACATAATAGGTAGCACCTATTT
* * * *
1775717 TATTTTACCGTTTACATTATTATTAGCCTTTAAACAAACCGGTAGCTAGTTTAGCATAATAGGTA
1 TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGTA
1775782 ACACCTATTT
Statistics
Matches: 270, Mismatches: 35, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
120 2 0.01
121 266 0.99
122 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (121 bp):
TATTTTACCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAATAGGTA
GCGCTTATTTAACGTAATAGATAGCGCCTATTTAACATAATAGGTAGCACCTATTT
Found at i:1777136 original size:32 final size:32
Alignment explanation
Indices: 1777091--1777166 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 32
1777081 CTGCATGGCA
1777091 CATGCACGTCCCCAACA-CCCCAACACAGGTCGC
1 CATGCAC-TCCCCAACACCCCCAACA-AGGTCGC
* *
1777124 CATGCATTCCCCAACACCCCCTACAAGGTCGC
1 CATGCACTCCCCAACACCCCCAACAAGGTCGC
1777156 CATGCACTCCC
1 CATGCACTCCC
1777167 AGCGACCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 26 0.67
33 13 0.33
ACGTcount: A:0.25, C:0.49, G:0.13, T:0.13
Consensus pattern (32 bp):
CATGCACTCCCCAACACCCCCAACAAGGTCGC
Found at i:1777185 original size:29 final size:29
Alignment explanation
Indices: 1777143--1777231 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
1777133 CCCAACACCC
*
1777143 CCTACAAGGTCGCCATGCACTCCCAGCGA
1 CCTATAAGGTCGCCATGCACTCCCAGCGA
*
1777172 CCTATAAGGTCGCCATGCACTCCCAGCTA
1 CCTATAAGGTCGCCATGCACTCCCAGCGA
* * * *
1777201 CCT-TGTAGGTCGCCAAGCAGTCCCGGCGA
1 CCTAT-AAGGTCGCCATGCACTCCCAGCGA
1777230 CC
1 CC
1777232 AAGCTTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 1 0.02
29 51 0.98
ACGTcount: A:0.21, C:0.39, G:0.22, T:0.17
Consensus pattern (29 bp):
CCTATAAGGTCGCCATGCACTCCCAGCGA
Found at i:1777269 original size:19 final size:19
Alignment explanation
Indices: 1777245--1777284 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1777235 CTTTCCTTCA
1777245 CGTGCTCCCCTCCTGCTCC
1 CGTGCTCCCCTCCTGCTCC
1777264 CGTGCTCCCCTCCTGCTCC
1 CGTGCTCCCCTCCTGCTCC
1777283 CG
1 CG
1777285 CACCTGCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.57, G:0.17, T:0.25
Consensus pattern (19 bp):
CGTGCTCCCCTCCTGCTCC
Found at i:1777506 original size:26 final size:29
Alignment explanation
Indices: 1777466--1777531 Score: 93
Period size: 26 Copynumber: 2.4 Consensus size: 29
1777456 AGAACATAAA
* *
1777466 AGAAAGAAAGGGAGAAGAGATTGCAG-C-
1 AGAAAGAAAGAGAGAAGAAATTGCAGTCG
1777493 AG-AAGAAAGAGAGAAGAAATTGCAGTCG
1 AGAAAGAAAGAGAGAAGAAATTGCAGTCG
1777521 AGAAAGAAAGA
1 AGAAAGAAAGA
1777532 AAGGGATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 21 0.62
27 3 0.09
28 2 0.06
29 8 0.24
ACGTcount: A:0.53, C:0.06, G:0.33, T:0.08
Consensus pattern (29 bp):
AGAAAGAAAGAGAGAAGAAATTGCAGTCG
Found at i:1777697 original size:22 final size:21
Alignment explanation
Indices: 1777672--1777712 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1777662 GTTAATTAGT
*
1777672 TTGTTAATTTAGGGTTATATGA
1 TTGTTAATTTA-AGTTATATGA
*
1777694 TTGTTAGTTTAAGTTATAT
1 TTGTTAATTTAAGTTATAT
1777713 TATACATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTGTTAATTTAAGTTATATGA
Found at i:1777931 original size:33 final size:30
Alignment explanation
Indices: 1777894--1777968 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
1777884 TTAGTTAGTA
1777894 AGTTTATTAGTAGTATA-TTATAATGAAAAAAAT
1 AGTTTATTAGT--TATAGTTAT-AT-AAAAAAAT
*
1777927 AGTTTATTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAGTTATAGTTATATAAAAAAAT
*
1777957 ATTTTATTAGTT
1 AGTTTATTAGTT
1777969 GTTTAAGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 19 0.49
31 5 0.13
32 4 0.10
33 11 0.28
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (30 bp):
AGTTTATTAGTTATAGTTATATAAAAAAAT
Found at i:1778045 original size:16 final size:16
Alignment explanation
Indices: 1778013--1778059 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1778003 TTTAAAAAGT
*
1778013 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
1778029 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
1778045 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
1778060 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:1778054 original size:15 final size:14
Alignment explanation
Indices: 1778034--1778064 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
1778024 GTTTATTAGT
1778034 TTATTATATTATAAG
1 TTATTATATTA-AAG
1778049 TTATTATATTAAAG
1 TTATTATATTAAAG
1778063 TT
1 TT
1778065 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:1780294 original size:14 final size:14
Alignment explanation
Indices: 1780275--1780322 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1780265 TTCAAGTCGT
1780275 AAATCATTACTATC
1 AAATCATTACTATC
1780289 AAATCATTAC--T-
1 AAATCATTACTATC
*
1780300 AAATCATTAATATC
1 AAATCATTACTATC
1780314 AAATCATTA
1 AAATCATTA
1780323 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1780356 original size:48 final size:49
Alignment explanation
Indices: 1780294--1780405 Score: 181
Period size: 48 Copynumber: 2.3 Consensus size: 49
1780284 CTATCAAATC
*
1780294 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
1780343 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
1780392 ATTACTAATCATTA
1 ATTACTAATCATTA
1780406 CTAAATCATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 36 0.61
49 23 0.39
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:1780498 original size:120 final size:120
Alignment explanation
Indices: 1780343--1781454 Score: 1248
Period size: 120 Copynumber: 9.6 Consensus size: 120
1780333 ATAAATTATT
* *
1780343 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1780407 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
1780462 ATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
*
1780527 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * * * * ** *
1780582 ATTACTAAATCATTATTA-CAATTTCATTACTAGTTATGTAACGAA-AATATGGTTAATTGAACC
1 ATTACTAAATCATTAATATCAA-ATCATTA--A-ATAT-TAA-TAATAATTTCATT-ATT--ACT
* * * * * *
1780645 AAACATT-GT---TCATT-AT-TCAAGTC-GT-AA-A-TCAT--T-A---C--TA-T-CAAATC
57 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1780689 ATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* *
1780754 T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1780808 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* *
1780873 TAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* *
1780928 ATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* *
1780993 TAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1781048 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* * * * * ** ** * *
1781113 TAAATCATTATTAT-AATTTTATT-ACTAGTTATATAACGAAAAT-ATGGTTA--ATTG
66 TAAATCATTAATATCAA-ATCATTAAATA-TTA-ATAA-TAATTTCATTATTACTAATC
* * * ** * ** * * *
1781167 A--ACCAAA-CATT-GT-TC-ATTGTTCAAATCGT-A-AATCA-TT-ACTA-T-CAAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1781220 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1781275 A-T--T--A-C-----TATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1781329 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
66 TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
1781384 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATGTCATCATTACTAATCATTAC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1781449 TAAATC
66 TAAATC
1781455 TTATAAATAC
Statistics
Matches: 844, Mismatches: 88, Indels: 121
0.80 0.08 0.11
Matches are distributed among these distances:
100 8 0.01
101 2 0.00
102 7 0.01
103 21 0.02
104 5 0.01
105 16 0.02
106 12 0.01
107 63 0.07
108 15 0.02
109 74 0.09
110 3 0.00
111 6 0.01
112 3 0.00
113 8 0.01
114 4 0.00
115 4 0.00
116 4 0.00
117 10 0.01
118 2 0.00
119 89 0.11
120 436 0.52
121 15 0.02
122 6 0.01
123 8 0.01
124 9 0.01
125 5 0.01
126 1 0.00
127 8 0.01
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (120 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
TAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:1780594 original size:24 final size:25
Alignment explanation
Indices: 1780567--1780613 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1780557 AATAATAATT
1780567 TCATTATTACAA-ATCATTACTAAA
1 TCATTATTACAATATCATTACTAAA
*
1780591 TCATTATTACAATTTCATTACTA
1 TCATTATTACAATATCATTACTA
1780614 GTTATGTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (25 bp):
TCATTATTACAATATCATTACTAAA
Found at i:1780610 original size:60 final size:60
Alignment explanation
Indices: 1780343--1780596 Score: 447
Period size: 60 Copynumber: 4.2 Consensus size: 60
1780333 ATAAATTATT
* *
1780343 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1780402 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* * *
1780462 ATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1780522 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1780582 ATTACTAAATCATTA
1 ATTACTAAATCATTA
1780597 TTACAATTTC
Statistics
Matches: 185, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
59 6 0.03
60 179 0.97
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:1780697 original size:25 final size:25
Alignment explanation
Indices: 1780669--1780717 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1780659 ATTCAAGTCG
*
1780669 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTAATATCAAATCATTAT
1780694 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
1780718 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAT
Found at i:1780718 original size:14 final size:14
Alignment explanation
Indices: 1780670--1780718 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
1780660 TTCAAGTCGT
*
1780670 AAATCATTACTATC
1 AAATCATTAATATC
1780684 AAATCATT-AT-T-
1 AAATCATTAATATC
1780695 AAATCATTAATATC
1 AAATCATTAATATC
1780709 AAATCATTAA
1 AAATCATTAA
1780719 ATATTAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
11 8 0.26
12 3 0.10
13 2 0.06
14 18 0.58
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:1780751 original size:60 final size:60
Alignment explanation
Indices: 1780685--1781122 Score: 788
Period size: 60 Copynumber: 7.3 Consensus size: 60
1780675 ATTACTATCA
*
1780685 AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1780745 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1780804 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1780864 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1780924 AATCATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
1780984 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1781044 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1781104 AATCATTACTAAATCATTA
1 AATCATTACTAAATCATTA
1781123 TTATAATTTT
Statistics
Matches: 360, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
59 57 0.16
60 303 0.84
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:1780754 original size:10 final size:10
Alignment explanation
Indices: 1780739--1780765 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1780729 TAATTTCATT
1780739 ATTACTAATC
1 ATTACTAATC
1780749 ATTACTAATC
1 ATTACTAATC
1780759 ATTACTA
1 ATTACTA
1780766 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1780934 original size:406 final size:395
Alignment explanation
Indices: 1780193--1781002 Score: 1449
Period size: 406 Copynumber: 2.0 Consensus size: 395
1780183 TTTTAGTATC
* *
1780193 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATTTGGTTAATTGAACCAAACATTG
1 AAATCATTATTACAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
*
1780258 TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
66 TTCATTATTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
1780323 AATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTT
131 AATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTT
1780388 CATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
196 CATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
*
1780453 TTACTAATCATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
261 TTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
* *
1780518 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATCA
326 AATCATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACAAATCA
1780583 TTACT
391 TTACT
1780588 AAATCATTATTACAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
1 AAATCATTATTACAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
*
1780653 TTCATTATTCAAGTCGTAAATCATTACTATCAAATCATTATTAAATCATTAATATCAAATCATTA
66 TTCATTATTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
1780718 AATATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATT
131 AATATTAATAAT-A----A--ATTA-T--T-ATTACTAATCATTACTATCAAATCATTAAAAATT
1780783 AATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAA
185 AATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAA
1780848 TAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATT
250 TAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATT
1780913 TCATTATTACTAATCATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATT
315 TCATTATTACTAATCATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATT
*
1780978 ATTACTAATCATTACT
380 ATTACAAATCATTACT
1780994 AAATCATTA
1 AAATCATTA
1781003 CTATCAAATC
Statistics
Matches: 396, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
395 138 0.35
396 1 0.00
400 1 0.00
402 4 0.01
403 1 0.00
405 1 0.00
406 250 0.63
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (395 bp):
AAATCATTATTACAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
TTCATTATTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
AATATTAATAATAAATTATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTT
CATTATTACTAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
TTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
AATCATTACTAAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACAAATCA
TTACT
Found at i:1780940 original size:11 final size:10
Alignment explanation
Indices: 1780918--1781005 Score: 51
Period size: 10 Copynumber: 8.7 Consensus size: 10
1780908 CAATTTCATT
1780918 ATTACTAATC
1 ATTACTAATC
1780928 ATTACTAAATC
1 ATTACT-AATC
*
1780939 ATTAATATAAAATC
1 ATT-A-CT--AATC
1780953 ATTA--AAT-
1 ATTACTAATC
* *
1780960 ATTAATAATA
1 ATTACTAATC
*
1780970 ATT--TAATT
1 ATTACTAATC
1780978 ATTACTAATC
1 ATTACTAATC
1780988 ATTACTAAATC
1 ATTACT-AATC
1780999 ATTACTA
1 ATTACTA
1781006 TCAAATCATT
Statistics
Matches: 65, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
7 4 0.06
8 10 0.15
9 3 0.05
10 20 0.31
11 17 0.26
12 1 0.02
13 2 0.03
14 8 0.12
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:1780980 original size:18 final size:18
Alignment explanation
Indices: 1780894--1780986 Score: 51
Period size: 18 Copynumber: 4.8 Consensus size: 18
1780884 TATCAAATCA
* *
1780894 TTAAATATTAATAACAAT
1 TTAATTATTAATAATAAT
* * *
1780912 TTCATTATTACTAATCAT
1 TTAATTATTAATAATAAT
* *
1780930 TACTAAATCATTAATATAAAAT
1 T--T-AATTATTAATA-ATAAT
*
1780952 CATTAAATATTAATAATAAT
1 --TTAATTATTAATAATAAT
*
1780972 TTAATTATTACTAAT
1 TTAATTATTAATAAT
1780987 CATTACTAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 12
0.67 0.19 0.15
Matches are distributed among these distances:
18 27 0.50
20 5 0.09
21 17 0.31
22 4 0.07
24 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATTATTAATAATAAT
Found at i:1781215 original size:14 final size:14
Alignment explanation
Indices: 1781196--1781243 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
1781186 TTCAAATCGT
1781196 AAATCATTACTATC
1 AAATCATTACTATC
1781210 AAATCATTAC--T-
1 AAATCATTACTATC
*
1781221 AAATCATTAATATC
1 AAATCATTACTATC
1781235 AAATCATTA
1 AAATCATTA
1781244 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:1781223 original size:25 final size:24
Alignment explanation
Indices: 1781195--1781297 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
1781185 GTTCAAATCG
*
1781195 TAAATCATTACTATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
1781219 CTAAATCATTAATATCAAATCA-T-
1 -TAAATCATTAATATCAAATCATTA
*
1781242 TAAAT-ATTAATAAT-AATTTCATTA
1 TAAATCATTAAT-ATCAA-ATCATTA
*
1781266 TTACTAATCATTACTATCAAATCATTA
1 -TA--AATCATTAATATCAAATCATTA
*
1781293 AAAAT
1 TAAAT
1781298 TAATAATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
21 8 0.12
22 10 0.16
23 1 0.02
24 4 0.06
25 22 0.34
26 1 0.02
27 11 0.17
28 7 0.11
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAATCATTAATATCAAATCATTA
Found at i:1781284 original size:49 final size:49
Alignment explanation
Indices: 1781215--1781330 Score: 205
Period size: 49 Copynumber: 2.3 Consensus size: 49
1781205 CTATCAAATC
* *
1781215 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1781265 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1781314 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
1781331 AATCATTAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 58 0.91
50 6 0.09
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
Found at i:1781335 original size:60 final size:60
Alignment explanation
Indices: 1781265--1781454 Score: 337
Period size: 60 Copynumber: 3.2 Consensus size: 60
1781255 TAATTTCATT
*
1781265 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
1781324 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
* *
1781384 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATGTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1781444 ATTACTAAATC
1 ATTACTAAATC
1781455 TTATAAATAC
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 6 0.05
60 119 0.95
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:1781338 original size:21 final size:21
Alignment explanation
Indices: 1781314--1781454 Score: 61
Period size: 21 Copynumber: 7.0 Consensus size: 21
1781304 TAATTTCATT
1781314 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
1781335 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
1781356 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
1781374 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
1781395 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* *
1781416 ATTAATAATAATGT-C---ATC
1 ATTACTAATCAT-TACTAAATC
1781434 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
1781455 TTATAAATAC
Statistics
Matches: 86, Mismatches: 18, Indels: 32
0.63 0.13 0.24
Matches are distributed among these distances:
17 5 0.06
18 23 0.27
20 11 0.13
21 27 0.31
22 20 0.23
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:1781390 original size:526 final size:520
Alignment explanation
Indices: 1780290--1781454 Score: 2038
Period size: 526 Copynumber: 2.3 Consensus size: 520
1780280 ATTACTATCA
1780290 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAAT-A----A--ATTA-T--T-A
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
*
1780344 TTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
* * *
1780408 AAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATT
131 AAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACTAATCATTACTAAATC
1780473 ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTAA
196 ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTAA
1780538 TATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATCATTACTAAATCATTATTACAA
261 TATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATCATTACTAAATCATTATTACAA
* *
1780603 TTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTATTCAAGTC
326 TTTCATTACTAGTTATATAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTATTCAAATC
*
1780668 GTAAATCATTACTATCAAATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAAT
391 GTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAT
1780733 TTCATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
456 TTC-----TACT-ATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1780798 ATTACT
515 ATTACT
1780804 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
*
1780869 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
1780934 AAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACTAATCATTACTAAATC
131 AAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACTAATCATTACTAAATC
1780999 ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTAA
196 ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTAA
* *
1781064 TATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTATTATAA
261 TATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATCATTACTAAATCATTATTACAA
* *
1781129 TTTTATTACTAGTTATATAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTGTTCAAATC
326 TTTCATTACTAGTTATATAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTATTCAAATC
1781194 GTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAT
391 GTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAT
1781259 TTC-A-T-T-ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
456 TTCTACTATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1781320 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
* *
1781385 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATGTCATCATTACTAATCATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
1781450 AAATC
131 AAATC
1781455 TTATAAATAC
Statistics
Matches: 624, Mismatches: 15, Indels: 22
0.94 0.02 0.03
Matches are distributed among these distances:
514 45 0.07
515 1 0.00
516 187 0.30
517 1 0.00
519 2 0.00
520 1 0.00
521 4 0.01
522 1 0.00
524 1 0.00
525 6 0.01
526 375 0.60
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (520 bp):
AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA
TTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACT
AAATCATTAATATAAAATCATTAAATATTAATAATAATTTAATTATTACTAATCATTACTAAATC
ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTAA
TATCAAATCATTAAATATTAATAATAATTTCATTATTACAAATCATTACTAAATCATTATTACAA
TTTCATTACTAGTTATATAACGAAAATATGGTTAATTGAACCAAACATTGTTCATTATTCAAATC
GTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAT
TTCTACTATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:1784957 original size:28 final size:30
Alignment explanation
Indices: 1784909--1784970 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
1784899 TTTTTTTATA
1784909 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
1784939 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
1784967 TAAT
1 TAAT
1784971 TAACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:1785413 original size:22 final size:23
Alignment explanation
Indices: 1785370--1785413 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1785360 GCTTGGCTAC
1785370 AATCTCCCAGCTATGGATGCAAG
1 AATCTCCCAGCTATGGATGCAAG
1785393 AATCTCCCAGCTAT-GATGCAA
1 AATCTCCCAGCTATGGATGCAA
1785414 CCCATGCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAAG
Found at i:1785516 original size:29 final size:29
Alignment explanation
Indices: 1785493--1785576 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
1785483 GCGACCTACA
*
1785493 AGGTCGCTGGGAGTGCATGACGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1785522 AGGTCGCTGGGAGTGCATGGCGACCTTGT
1 AGGTCGCTGGGAGTGCATGGCGACCTTGT
*
1785551 AGGTCGCTGGGAATGCATGGCGACCT
1 AGGTCGCTGGGAGTGCATGGCGACCT
1785577 GTGTTGGGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.17, C:0.21, G:0.39, T:0.23
Consensus pattern (29 bp):
AGGTCGCTGGGAGTGCATGGCGACCTTGT
Found at i:1785609 original size:33 final size:33
Alignment explanation
Indices: 1785564--1785635 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1785554 TCGCTGGGAA
1785564 TGCATGGCGACCTGTGTTGGGGTGCTGGGGACG
1 TGCATGGCGACCTGTGTTGGGGTGCTGGGGACG
* *
1785597 TGCATGGTGACCTGTGTTGGGGTGTTGGGGACG
1 TGCATGGCGACCTGTGTTGGGGTGCTGGGGACG
1785630 TGCATG
1 TGCATG
1785636 TGCCATGCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.10, C:0.15, G:0.47, T:0.28
Consensus pattern (33 bp):
TGCATGGCGACCTGTGTTGGGGTGCTGGGGACG
Found at i:1790461 original size:33 final size:33
Alignment explanation
Indices: 1790416--1790485 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1790406 CTTTATAAAC
* *
1790416 TCCCTAGTTTTTCACGGGCTAAACTAGAACATA
1 TCCCTAGCTTTTCACGGGATAAACTAGAACATA
* * *
1790449 TCCCTAGCTTTTCACGGGATCAGCTAGAACATT
1 TCCCTAGCTTTTCACGGGATAAACTAGAACATA
1790482 TCCC
1 TCCC
1790486 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (33 bp):
TCCCTAGCTTTTCACGGGATAAACTAGAACATA
Found at i:1790956 original size:22 final size:21
Alignment explanation
Indices: 1790931--1791010 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 21
1790921 TGTTTGAGCC
1790931 TTCATAGGGGTATTGATACACA
1 TTCATAGGGGTATTGATAC-CA
* *
1790953 TTCATAGGGGGTATCGGTACCTA
1 TTCATA-GGGGTATTGATACC-A
*
1790976 TTCATAGGGGTATTAATACTCA
1 TTCATAGGGGTATTGATAC-CA
*
1790998 TTCATAAGGGTAT
1 TTCATAGGGGTAT
1791011 CGGTACCTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 30 0.61
23 19 0.39
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCATAGGGGTATTGATACCA
Found at i:1790982 original size:45 final size:44
Alignment explanation
Indices: 1790931--1791018 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
1790921 TGTTTGAGCC
* *
1790931 TTCATAGGGGTATTGATACACATTCATAGGGGGTATCGGTACCTA
1 TTCATAGGGGTATTAATACACATTCATA-AGGGTATCGGTACCTA
*
1790976 TTCATAGGGGTATTAATACTCATTCATAAGGGTATCGGTACCT
1 TTCATAGGGGTATTAATACACATTCATAAGGGTATCGGTACCT
1791019 CTTAATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (44 bp):
TTCATAGGGGTATTAATACACATTCATAAGGGTATCGGTACCTA
Found at i:1792961 original size:17 final size:17
Alignment explanation
Indices: 1792941--1792978 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1792931 CTTGTTTTTC
1792941 TTCTCTTCAATTTCTTA
1 TTCTCTTCAATTTCTTA
* *
1792958 TTCTCTTCATTTTCTTC
1 TTCTCTTCAATTTCTTA
1792975 TTCT
1 TTCT
1792979 TCCTTCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCTCTTCAATTTCTTA
Found at i:1792961 original size:20 final size:20
Alignment explanation
Indices: 1792938--1792987 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 20
1792928 CTTCTTGTTT
1792938 TTCTTCTCTTCAATTTCTTA
1 TTCTTCTCTTCAATTTCTTA
* *
1792958 ---TTCTCTTCATTTTCTTC
1 TTCTTCTCTTCAATTTCTTA
1792975 TTCTTC-CTTCAAT
1 TTCTTCTCTTCAAT
1792988 ATCATCTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
17 15 0.62
19 6 0.25
20 3 0.12
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (20 bp):
TTCTTCTCTTCAATTTCTTA
Found at i:1794552 original size:22 final size:22
Alignment explanation
Indices: 1794493--1794554 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
1794483 TGTTTGAGCC
* *
1794493 TTCATAGGGGTATTGATACCCA
1 TTCATAGGGGTATCGGTACCCA
*
1794515 TTCATAGGGGTATCGGTGCCCA
1 TTCATAGGGGTATCGGTACCCA
1794537 TTCATAGGGGTATCGGTA
1 TTCATAGGGGTATCGGTA
1794555 ATTCTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (22 bp):
TTCATAGGGGTATCGGTACCCA
Found at i:1795575 original size:121 final size:121
Alignment explanation
Indices: 1795322--1795749 Score: 556
Period size: 120 Copynumber: 3.6 Consensus size: 121
1795312 AAGTTGTATA
* * * * *
1795322 TATTTTACCGTTTACATTATTATTAATCTTTAAACAAATCTGTAGCTAGTTTAATG-AATAGGTA
1 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTA
* * *
1795386 GTACTTATTTAACGCAATAGATAGCGCCTATTT-ATCATAATAGGTAACGCCTATTT
66 GCACTTATTTAACGTAATAGGTAGCGCCTATTTAAT-ATAATAGGTAACGCCTATTT
* * *
1795442 TATTTTAACATTTGCATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATATGTA
1 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTA
* * * * * * * * * *
1795507 ACATTTATTTGACGTAATAGGTAGTGCTTATTTAATAGAACAAGTAGCCCCTATTT
66 GCACTTATTTAACGTAATAGGTAGCGCCTATTTAATATAATAGGTAACGCCTATTT
* * *
1795563 TATTTTACCATTTACATTATTATTAACATTTAAACAAATCTGT-GCTAGTTTAACGTAATAGGTA
1 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTA
* * *
1795627 GCGCTTATTTAACGTAATAGGTAGCGCCTATTTAACATAATAGGTAACGCTTATTT
66 GCACTTATTTAACGTAATAGGTAGCGCCTATTTAATATAATAGGTAACGCCTATTT
* * *
1795683 TATTTTACCGTTTACATTATTATTAAACTTTAAACAAACCGGTAGCTAGTTTAACATAATAGGTA
1 TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTA
1795748 GC
66 GC
1795750 GCCTATTTTA
Statistics
Matches: 259, Mismatches: 46, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
120 150 0.58
121 107 0.41
122 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (121 bp):
TATTTTACCATTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTA
GCACTTATTTAACGTAATAGGTAGCGCCTATTTAATATAATAGGTAACGCCTATTT
Found at i:1795641 original size:23 final size:23
Alignment explanation
Indices: 1795611--1795682 Score: 117
Period size: 23 Copynumber: 3.1 Consensus size: 23
1795601 TCTGTGCTAG
1795611 TTTAACGTAATAGGTAGCGCTTA
1 TTTAACGTAATAGGTAGCGCTTA
*
1795634 TTTAACGTAATAGGTAGCGCCTA
1 TTTAACGTAATAGGTAGCGCTTA
* *
1795657 TTTAACATAATAGGTAACGCTTA
1 TTTAACGTAATAGGTAGCGCTTA
1795680 TTT
1 TTT
1795683 TATTTTACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCTTA
Found at i:1795759 original size:75 final size:75
Alignment explanation
Indices: 1795657--1795914 Score: 383
Period size: 75 Copynumber: 3.4 Consensus size: 75
1795647 GTAGCGCCTA
* * * *
1795657 TTTAACATAATAGGTAACGCTTATTTTATTTTACCGTTTACATTATTATTAAACTTTAAACAAAC
1 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
1795722 CGGTAGCTAG
66 CGGTAGATAG
1795732 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
1 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
* * *
1795797 TGGTTGGTAG
66 CGGTAGATAG
* * *
1795807 TTTAACATAAGAGGTTGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTCAAACAAAC
1 TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
*
1795872 CGGTAGATAA
66 CGGTAGATAG
*
1795882 TTTAACATAATAGGTATG-GTCTATTTTATTTTA
1 TTTAACATAATAGGTA-GCGCCTATTTTATTTTA
1795915 ACTAGATAAG
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
75 164 0.99
76 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (75 bp):
TTTAACATAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
CGGTAGATAG
Found at i:1798743 original size:17 final size:17
Alignment explanation
Indices: 1798723--1798763 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
1798713 AATATGAAAG
1798723 AAACCCAACATAACTAA
1 AAACCCAACATAACTAA
1798740 AAACCC-ACATAACTAA
1 AAACCCAACATAACTAA
1798756 AAACCCAA
1 AAACCCAA
1798764 ATATTGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.59, C:0.32, G:0.00, T:0.10
Consensus pattern (17 bp):
AAACCCAACATAACTAA
Found at i:1799798 original size:17 final size:17
Alignment explanation
Indices: 1799755--1799798 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1799745 CATATCCAAC
*
1799755 AAGTCATTTAGGGTTCA
1 AAGTCATTTTGGGTTCA
* *
1799772 AA-TAATTTTGGGTTTA
1 AAGTCATTTTGGGTTCA
1799788 AAGTCATTTTG
1 AAGTCATTTTG
1799799 TTAAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (17 bp):
AAGTCATTTTGGGTTCA
Found at i:1801791 original size:34 final size:34
Alignment explanation
Indices: 1801740--1801824 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
1801730 TAGGTTTCTT
*
1801740 ATAAA-AAATTTGTAAATAACTTTAAATTTATTA
1 ATAAATAATTTTGTAAATAACTTTAAATTTATTA
1801773 ATAAATAATTTTGTAAATAACTTTAAATTTATTA
1 ATAAATAATTTTGTAAATAACTTTAAATTTATTA
1801807 ATAAATAATTTTGTAAAT
1 ATAAATAATTTTGTAAAT
1801825 GTTGAAACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 5 0.10
34 45 0.90
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (34 bp):
ATAAATAATTTTGTAAATAACTTTAAATTTATTA
Found at i:1802663 original size:2 final size:2
Alignment explanation
Indices: 1802656--1802686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1802646 TTAAAATTTA
1802656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1802687 AAACCCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1806546 original size:21 final size:21
Alignment explanation
Indices: 1806520--1806564 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1806510 GATTTCTGGG
* *
1806520 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1806541 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1806562 CAA
1 CAA
1806565 ACGATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1807167 original size:18 final size:18
Alignment explanation
Indices: 1807144--1807178 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1807134 CTAGGAGATT
1807144 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1807162 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1807179 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1807264 original size:21 final size:22
Alignment explanation
Indices: 1807235--1807278 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1807225 GTTGTATGAT
1807235 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
1807256 AGAATATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
1807278 A
1 A
1807279 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:1808240 original size:149 final size:149
Alignment explanation
Indices: 1808060--1808363 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
1808050 GAGTCGAGGG
1808060 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
1808125 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
1808190 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1808209 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
1808274 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
1808339 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1808358 TCTACG
1 TCTACG
1808364 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAACATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1808386 original size:23 final size:23
Alignment explanation
Indices: 1808342--1808386 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1808332 ATCATTATAT
*
1808342 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1808365 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1808387 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1811678 original size:21 final size:21
Alignment explanation
Indices: 1811652--1811696 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1811642 GATTTCTGGG
* *
1811652 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1811673 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1811694 CAA
1 CAA
1811697 ACGACAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1812397 original size:21 final size:22
Alignment explanation
Indices: 1812368--1812411 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1812358 GTTGTATGAT
1812368 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
1812389 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
1812411 A
1 A
1812412 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:1813371 original size:149 final size:149
Alignment explanation
Indices: 1813187--1813490 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
1813177 GAGTCGAGGG
*
1813187 TCTACACGGTTCTTCGGGACATATGTATATGCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATGCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
1813252 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
1813317 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
1813336 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATGCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1813401 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
1813466 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1813485 TCTACG
1 TCTACG
1813491 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATGCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1813513 original size:23 final size:23
Alignment explanation
Indices: 1813469--1813513 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1813459 ATCATTATAT
*
1813469 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1813492 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1813514 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1815492 original size:47 final size:47
Alignment explanation
Indices: 1815426--1815516 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
1815416 GGCCATCTTT
*
1815426 AAGGATGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTA
1 AAGGATGATAACACAGTTCCTACGTAATGAGGACGGCTGGTTATCTA
* ** *
1815473 AAGGGTGATAACATGGTTCCTACGTAATGAGGACGTCTGGTTAT
1 AAGGATGATAACACAGTTCCTACGTAATGAGGACGGCTGGTTAT
1815517 TTAGGATGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (47 bp):
AAGGATGATAACACAGTTCCTACGTAATGAGGACGGCTGGTTATCTA
Found at i:1815816 original size:68 final size:68
Alignment explanation
Indices: 1815654--1815839 Score: 241
Period size: 68 Copynumber: 2.7 Consensus size: 68
1815644 CGTTGTGAAG
* * * *
1815654 TTGAGCTTTGAGTTGTATATCCTTCGTTGTAAAGTTGAAACCCAATCTCGAGTTATATTGCTTCA
1 TTGA-CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCT-TAGTTATATTGCTTCA
1815719 CCAAA
64 CCAAA
* *
1815724 TTGGCTTTGATTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTA-TGTA-AGTTGCTTCA
1 TTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTAGT-TATA-TTGCTTCA
1815787 CCAAA
64 CCAAA
* * *
1815792 TTGACTTTGAGTTGGACATTCTTCGTTGTGAAGTTGAAATCTAATCTT
1 TTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTT
1815840 GTATTGTATC
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
67 2 0.02
68 59 0.57
69 39 0.38
70 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (68 bp):
TTGACTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTAGTTATATTGCTTCACC
AAA
Found at i:1818002 original size:10 final size:10
Alignment explanation
Indices: 1817978--1818046 Score: 61
Period size: 10 Copynumber: 7.0 Consensus size: 10
1817968 CTTTCATTTG
1817978 TTTTTTCTTT
1 TTTTTTCTTT
1817988 GTTTTTT-TTT
1 -TTTTTTCTTT
*
1817998 ATTTTTCTTT
1 TTTTTTCTTT
*
1818008 TCTTTTCTTT
1 TTTTTTCTTT
*
1818018 TTCTTT-TTT
1 TTTTTTCTTT
* *
1818027 TCTTTACTTT
1 TTTTTTCTTT
*
1818037 TTTTCTCTTT
1 TTTTTTCTTT
1818047 GTTTAATTTG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
9 11 0.24
10 28 0.62
11 6 0.13
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1818051 original size:19 final size:18
Alignment explanation
Indices: 1817999--1818042 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
1817989 TTTTTTTTTA
*
1817999 TTTTTCTTTTCTTTTCTT
1 TTTTTCTTTTCTTTACTT
*
1818017 TTTCTTTTTTTCTTTACTT
1 TTT-TTCTTTTCTTTACTT
1818036 TTTTTCT
1 TTTTTCT
1818043 CTTTGTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTCTTTACTT
Found at i:1821316 original size:6 final size:6
Alignment explanation
Indices: 1821305--1821329 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1821295 AAAATCAACG
1821305 TTTACA TTTACA TTTACA TTTACA T
1 TTTACA TTTACA TTTACA TTTACA T
1821330 AAAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTACA
Found at i:1823311 original size:64 final size:63
Alignment explanation
Indices: 1823220--1823354 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 63
1823210 TATGAATGTA
* *
1823220 CATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-AGTG
1 CATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTAGTG
* * * * * *
1823283 CATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTAGTG
1 CATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTAGTG
1823347 CATCGATG
1 CATCGATG
1823355 AACATGTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 14 0.23
64 47 0.77
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (63 bp):
CATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTAGTG
Found at i:1824478 original size:31 final size:31
Alignment explanation
Indices: 1824440--1824535 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
1824430 AGAGTCGAGG
*
1824440 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTATTCGGGACCTATGGACA
*
1824471 GTTTACCTAGGTTATTCAGGACCTATGGACA
1 GTTTACCTAGGTTATTCGGGACCTATGGACA
*
1824502 GTTTACCTAGGTTATTCGGGACCTATGGATA
1 GTTTACCTAGGTTATTCGGGACCTATGGACA
1824533 GTT
1 GTT
1824536 GTCGAGGTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTATTCGGGACCTATGGACA
Found at i:1824585 original size:29 final size:30
Alignment explanation
Indices: 1824521--1824592 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
1824511 GGTTATTCGG
* * *
1824521 GACCTATGGATAGTTGTCGAGGTTCTTTAT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
*
1824551 GACCTCTGGATAGTTGCCG-GGGTCTTTGT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
1824580 GACCTCTGGATAG
1 GACCTCTGGATAG
1824593 GTCCTTCGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.35
Consensus pattern (30 bp):
GACCTCTGGATAGTTGCCGAGGGTCTTTAT
Found at i:1827790 original size:64 final size:63
Alignment explanation
Indices: 1827674--1827811 Score: 145
Period size: 64 Copynumber: 2.2 Consensus size: 63
1827664 CACATTGAAT
* * * *
1827674 GTGCATCGATGCACTCTTTAAAGAAGAAACATTGAATGCAAATGGTGCATCGATGTATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * * *
1827737 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
1827801 GTGCATCGATG
1 GTGCATCGATG
1827812 AACATATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 17 0.27
64 45 0.73
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:1828957 original size:32 final size:31
Alignment explanation
Indices: 1828902--1828998 Score: 176
Period size: 31 Copynumber: 3.1 Consensus size: 31
1828892 AGAGTCGAGG
1828902 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
*
1828933 GTTTACCTAGGTTATTTCGGGACCTATGGACA
1 GTTTACCTAGGTT-CTTCGGGACCTATGGACA
1828965 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1828996 GTT
1 GTT
1828999 GCCGAGGTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACCTATGGACA
Found at i:1829018 original size:30 final size:31
Alignment explanation
Indices: 1828902--1829011 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
1828892 AGAGTCGAGG
* *
1828902 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTTGGGACCTATGGACA
* *
1828933 GTTTACCTAGGTTATTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTT-GGGACCTATGGACA
* *
1828965 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTTGGGACCTATGGACA
*
1828996 G-TTGCCGAGGTTCTTT
1 GTTTACCGAGGTTCTTT
1829012 ATGACCTCTG
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
30 12 0.17
31 30 0.42
32 29 0.41
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (31 bp):
GTTTACCGAGGTTCTTTGGGACCTATGGACA
Found at i:1829046 original size:29 final size:30
Alignment explanation
Indices: 1828984--1829055 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
1828974 GGTTCTTCGG
* * *
1828984 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
* *
1829014 GACCTCTGGATAGTTGTCG-GGGTCTTTGT
1 GACCTCTGGATAGTTGCCGAGGGTCTTTAT
1829043 GACCTCTGGATAG
1 GACCTCTGGATAG
1829056 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTGCCGAGGGTCTTTAT
Found at i:1832253 original size:64 final size:63
Alignment explanation
Indices: 1832137--1832277 Score: 151
Period size: 64 Copynumber: 2.2 Consensus size: 63
1832127 CACATTGAAT
* * *
1832137 GTGCATCGATGCACTCTTTAAAGAAGAAACATTGAATGCAAATGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * * *
1832200 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
*
1832264 GGGCATCGATGCAC
1 GTGCATCGATGCAC
1832278 ATATTAAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
63 18 0.28
64 47 0.72
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:1833420 original size:32 final size:31
Alignment explanation
Indices: 1833365--1833461 Score: 176
Period size: 31 Copynumber: 3.1 Consensus size: 31
1833355 AGAGTCGAGG
1833365 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
*
1833396 GTTTACCTAGGTTATTTCGGGACCTATGGACA
1 GTTTACCTAGGTT-CTTCGGGACCTATGGACA
1833428 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1833459 GTT
1 GTT
1833462 GCCGAGGTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACCTATGGACA
Found at i:1833481 original size:30 final size:31
Alignment explanation
Indices: 1833365--1833515 Score: 146
Period size: 31 Copynumber: 4.9 Consensus size: 31
1833355 AGAGTCGAGG
* *
1833365 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTTGGGACCTATGGACA
* *
1833396 GTTTACCTAGGTTATTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTT-GGGACCTATGGACA
* *
1833428 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCGAGGTTCTTTGGGACCTATGGACA
* ** * *
1833459 G-TTGCCGAGGTTCTTTATGACCTCTGGATA
1 GTTTACCGAGGTTCTTTGGGACCTATGGACA
* * *
1833489 G-TTACCG-GGGTCTTTGTGACCTCTGGA
1 GTTTACCGAGGTTCTTTGGGACCTATGGA
1833516 TAGGTCCTTC
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
29 18 0.17
30 28 0.27
31 30 0.29
32 29 0.28
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (31 bp):
GTTTACCGAGGTTCTTTGGGACCTATGGACA
Found at i:1833503 original size:29 final size:30
Alignment explanation
Indices: 1833447--1833518 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
1833437 GGTTCTTCGG
* * * *
1833447 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
*
1833477 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
1833506 GACCTCTGGATAG
1 GACCTCTGGATAG
1833519 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTTTAT
Found at i:1834890 original size:13 final size:13
Alignment explanation
Indices: 1834874--1834904 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1834864 TGTAAATCAA
1834874 AATAAATAATAAT
1 AATAAATAATAAT
*
1834887 AATAAATTATAAT
1 AATAAATAATAAT
1834900 AATAA
1 AATAA
1834905 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:1835452 original size:16 final size:16
Alignment explanation
Indices: 1835424--1835468 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1835414 ATTTATCCTA
1835424 AAAATTAATATTTT-AT
1 AAAATT-ATATTTTAAT
1835440 AAATATTATATTTTAAT
1 AAA-ATTATATTTTAAT
*
1835457 TAAATTATATTT
1 AAAATTATATTT
1835469 AATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAATTATATTTTAAT
Found at i:1835478 original size:22 final size:22
Alignment explanation
Indices: 1835450--1835515 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
1835440 AAATATTATA
1835450 TTTTAATTAAATTATATTTAAT
1 TTTTAATTAAATTATATTTAAT
* * *
1835472 TTTTAATTAATTTATAATTATAC
1 TTTTAATTAAATTATATTTA-AT
* *
1835495 ATTAAATTAAATTA-ATTTAAT
1 TTTTAATTAAATTATATTTAAT
1835516 GATGTCGATT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.03
22 22 0.63
23 12 0.34
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAATTAAATTATATTTAAT
Found at i:1837065 original size:131 final size:129
Alignment explanation
Indices: 1836818--1837157 Score: 394
Period size: 131 Copynumber: 2.6 Consensus size: 129
1836808 TAATTTTAAG
* * * *
1836818 AGTGAAAACGATAATATCTAATTATTTTCAATCGAGAACAAATAACCTTTCGTGTATTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTT-ATGCATTAAAACAA
* * * **
1836883 TCATTTATTACTCCAATTGAAATAAAGAGATATGATTATTTCATATTAAAATTCAATATCGTTTC
65 TCATTTATTACTCCAATTGAAATAAAGAGATATGAATATTCCATA-TAAAAATCAATATCAATTC
1836948 A
129 A
** * **
1836949 AGTGAAAATAATAATATCTAATGATTTCCAATCGAGAATAAACGACCTTTAATGCATTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTT-ATGCATTAAAACAA
* * * * *
1837014 TCATTTATTA-TCCCAATTGAAATAAAGAGATATTAATATTCCGTCTAAAAATCGATATTAATTC
65 TCATTTATTACT-CCAATTGAAATAAAGAGATATGAATATTCCATATAAAAATCAATATCAATTC
*
1837078 G
129 A
* * * * *
1837079 AGAGAAAACGACAATATCCAATTATTTCCAATCGAAAATAAATAACCTCTTATGCCTTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCT-TTATGCATTAAAACAA
*
1837144 TCACTTATTACTCC
65 TCATTTATTACTCC
1837158 GACAGAAACG
Statistics
Matches: 174, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
130 78 0.45
131 96 0.55
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (129 bp):
AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTTATGCATTAAAACAAT
CATTTATTACTCCAATTGAAATAAAGAGATATGAATATTCCATATAAAAATCAATATCAATTCA
Found at i:1837248 original size:17 final size:16
Alignment explanation
Indices: 1837226--1837259 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1837216 AATCTATCGA
*
1837226 AAAACACATACAAAAAC
1 AAAACAAATA-AAAAAC
1837243 AAAACAAATAAAAAAC
1 AAAACAAATAAAAAAC
1837259 A
1 A
1837260 TACATCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACAAATAAAAAAC
Found at i:1840121 original size:23 final size:22
Alignment explanation
Indices: 1840095--1840172 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
1840085 CACCACAGCT
1840095 CATATAATTGCACCTAAGTGCCA
1 CATATAATTGCACCT-AGTGCCA
* *
1840118 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACC-TAGTGCCA
* *
1840141 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACC-TAGTGCCA
*
1840164 TATAATAAT
1 CAT-ATAAT
1840173 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 40 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (22 bp):
CATATAATTGCACCTAGTGCCA
Found at i:1840350 original size:103 final size:103
Alignment explanation
Indices: 1840179--1840396 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
1840169 TAATGTCCAT
* * *
1840179 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
1840244 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1840282 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATATGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
*
1840347 GACTTCACACATGTTCTAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1840385 AAGGACCACATA
1 AAGGACCACATA
1840397 GACCCTAGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATATGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1844998 original size:131 final size:129
Alignment explanation
Indices: 1844751--1845090 Score: 394
Period size: 131 Copynumber: 2.6 Consensus size: 129
1844741 TAATTTTAAG
* * * *
1844751 AGTGAAAACGATAATATCTAATTATTTTCAATCGAGAACAAATAACCTTTCGTGTATTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTT-ATGCATTAAAACAA
* * * **
1844816 TCATTTATTACTCCAATTGAAATAAAGAGATATGATTATTTCATATTAAAATTCAATATCGTTTC
65 TCATTTATTACTCCAATTGAAATAAAGAGATATGAATATTCCATA-TAAAAATCAATATCAATTC
1844881 A
129 A
** * **
1844882 AGTGAAAATAATAATATCTAATGATTTCCAATCGAGAATAAACGACCTTTAATGCATTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTT-ATGCATTAAAACAA
* * * * *
1844947 TCATTTATTA-TCCCAATTGAAATAAAGAGATATTAATATTCCGTCTAAAAATCGATATTAATTC
65 TCATTTATTACT-CCAATTGAAATAAAGAGATATGAATATTCCATATAAAAATCAATATCAATTC
*
1845011 G
129 A
* * * * *
1845012 AGAGAAAACGACAATATCCAATTATTTCCAATCGAAAATAAATAACCTCTTATGCCTTAAAACAA
1 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCT-TTATGCATTAAAACAA
*
1845077 TCACTTATTACTCC
65 TCATTTATTACTCC
1845091 GACAGAAACG
Statistics
Matches: 174, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
130 78 0.45
131 96 0.55
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (129 bp):
AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTTTATGCATTAAAACAAT
CATTTATTACTCCAATTGAAATAAAGAGATATGAATATTCCATATAAAAATCAATATCAATTCA
Found at i:1845181 original size:17 final size:16
Alignment explanation
Indices: 1845159--1845192 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1845149 AATCTATCGA
*
1845159 AAAACACATACAAAAAC
1 AAAACAAATA-AAAAAC
1845176 AAAACAAATAAAAAAC
1 AAAACAAATAAAAAAC
1845192 A
1 A
1845193 TACATCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACAAATAAAAAAC
Done.