Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 14 of 190
Found at i:1988386 original size:21 final size:21
Alignment explanation
Indices: 1988362--1988453 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 21
1988352 TTGTTAAAAA
1988362 TTATCAAAATTGTATCAATAG
1 TTATCAAAATTGTATCAATAG
*
1988383 TTATCAAAATTATATC-ATAAG
1 TTATCAAAATTGTATCAAT-AG
**
1988404 TTA-CTAAAATTGTATTGA-AG
1 TTATC-AAAATTGTATCAATAG
* *
1988424 TTACCAAAAATT-TATCAAAAG
1 TTATC-AAAATTGTATCAATAG
1988445 TTAT-AAAAT
1 TTATCAAAAT
1988454 GTTATTTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.08
20 12 0.20
21 41 0.69
22 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (21 bp):
TTATCAAAATTGTATCAATAG
Found at i:1988686 original size:95 final size:96
Alignment explanation
Indices: 1988573--1988767 Score: 293
Period size: 95 Copynumber: 2.0 Consensus size: 96
1988563 GTATCAACCT
*
1988573 CTAAAATATAATCTAATTTATAATATCAGCTGACAAAATTCTAGAAATGACAC-TAATGCAAGAA
1 CTAAAATATAATCTAATTTATAATATCAACTGACAAAATTCTAGAAATGACACATAATGCAAGAA
*
1988637 AATTTTGAGTTGTAATTTCATTTTATTTTTA
66 AATTTTAAGTTGTAATTTCATTTTATTTTTA
*
1988668 CTAAAATATAATCTAATTTATAATATCAACTGGCAAAATTCTAGAAATGACACTAATTAATAATG
1 CTAAAATATAATCTAATTTATAATATCAACTGACAAAATTCTAGAAATGACAC------ATAATG
*
1988733 CAAGAAAATTTTAAGTTGTAATTTTATTTTATTTT
60 CAAGAAAATTTTAAGTTGTAATTTCATTTTATTTT
1988768 CTTGTTTCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
95 51 0.57
102 38 0.43
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (96 bp):
CTAAAATATAATCTAATTTATAATATCAACTGACAAAATTCTAGAAATGACACATAATGCAAGAA
AATTTTAAGTTGTAATTTCATTTTATTTTTA
Found at i:1991752 original size:22 final size:22
Alignment explanation
Indices: 1991678--1991751 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
1991668 TAATAAAAAA
* * *
1991678 AGTGATAACTTAGTAGTTAATA
1 AGTGATAACTTAATAGTAAATT
* *
1991700 ATTGATAACTTAATAATAAATT
1 AGTGATAACTTAATAGTAAATT
* *
1991722 AATGATAATTTAATAGTAAATT
1 AGTGATAACTTAATAGTAAATT
1991744 AGTGATAA
1 AGTGATAA
1991752 TGTAATCACT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (22 bp):
AGTGATAACTTAATAGTAAATT
Found at i:1991757 original size:22 final size:21
Alignment explanation
Indices: 1991702--1991757 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
1991692 AGTTAATAAT
1991702 TGATAACTTAATAATAAATTAA
1 TGATAA-TTAATAATAAATTAA
* *
1991724 TGATAATTTAATAGTAAATTAG
1 TGATAA-TTAATAATAAATTAA
1991746 TGATAATGTAAT
1 TGATAAT-TAAT
1991758 CACTACAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (21 bp):
TGATAATTAATAATAAATTAA
Found at i:1992095 original size:22 final size:23
Alignment explanation
Indices: 1992047--1992109 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
1992037 CAGTTTCAGT
* * *
1992047 TTAGTAGTAATTAATTAATAAAC
1 TTAGTAATAAATAATAAATAAAC
1992070 TTAGTAATAAATAATAAAT-AAC
1 TTAGTAATAAATAATAAATAAAC
1992092 TTAGTAATAAATCAATAA
1 TTAGTAATAAAT-AATAA
1992110 TAATTGTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (23 bp):
TTAGTAATAAATAATAAATAAAC
Found at i:1992111 original size:22 final size:21
Alignment explanation
Indices: 1992047--1992112 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
1992037 CAGTTTCAGT
* *
1992047 TTAGTAGTAATTAATTAATAAAC
1 TTAGTAATAAATAA-TAAT-AAC
1992070 TTAGTAATAAATAATAAATAAC
1 TTAGTAATAAATAAT-AATAAC
1992092 TTAGTAATAAATCAATAATAA
1 TTAGTAATAAAT-AATAATAA
1992113 TTGTGTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 21 0.54
23 18 0.46
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.35
Consensus pattern (21 bp):
TTAGTAATAAATAATAATAAC
Found at i:1992432 original size:22 final size:21
Alignment explanation
Indices: 1992408--1992534 Score: 101
Period size: 22 Copynumber: 5.8 Consensus size: 21
1992398 TTAATCATTG
* *
1992408 ATAATTTTATAGTAAATTATT
1 ATAATTTAATAGTAAATAATT
*
1992429 GATAAATTAATAGTAAATCAATT
1 -ATAATTTAATAGTAAAT-AATT
* * ** * *
1992452 AAAATTTTATAACAAATCATC
1 ATAATTTAATAGTAAATAATT
* *
1992473 AGTTATTTAATAGTAAATCATT
1 A-TAATTTAATAGTAAATAATT
1992495 AATAATTTAATAGTAAACTAATT
1 -ATAATTTAATAGTAAA-TAATT
*
1992518 ATAAATTAATAGTAAAT
1 ATAATTTAATAGTAAAT
1992535 CAATATTAAT
Statistics
Matches: 82, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.05
22 70 0.85
23 8 0.10
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATT
Found at i:1992458 original size:44 final size:44
Alignment explanation
Indices: 1992400--1992538 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 44
1992390 TAAATTAATT
* *
1992400 AATC-ATTGATAATTTTATAGTAAATTATTGATAAATTAATAGTA
1 AATCAATTAATAATTTTATAGTAAATAATT-ATAAATTAATAGTA
** * * * *
1992444 AATCAATTAA-AATTTTATAACAAATCATCAGTTATTTAATAGTA
1 AATCAATTAATAATTTTATAGTAAATAATTA-TAAATTAATAGTA
*
1992488 AATC-ATTAATAATTTAATAGTAAACTAATTATAAATTAATAGTA
1 AATCAATTAATAATTTTATAGTAAA-TAATTATAAATTAATAGTA
1992532 AATCAAT
1 AATCAAT
1992539 ATTAATAAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.08
44 60 0.79
45 10 0.13
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (44 bp):
AATCAATTAATAATTTTATAGTAAATAATTATAAATTAATAGTA
Found at i:1992533 original size:11 final size:11
Alignment explanation
Indices: 1992479--1992539 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
1992469 CATCAGTTAT
1992479 TTAATAGTAAA
1 TTAATAGTAAA
* * * *
1992490 TCATTAATAAT
1 TTAATAGTAAA
1992501 TTAATAGTAAA
1 TTAATAGTAAA
*
1992512 CTAATTA-TAAA
1 TTAA-TAGTAAA
1992523 TTAATAGTAAA
1 TTAATAGTAAA
*
1992534 TCAATA
1 TTAATA
1992540 TTAATAAATC
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
10 2 0.05
11 33 0.89
12 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (11 bp):
TTAATAGTAAA
Found at i:1992618 original size:22 final size:23
Alignment explanation
Indices: 1992576--1992640 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
1992566 TATATCATTG
* *
1992576 ATAGTAATAAATCATTGATAA-T
1 ATAGTTATAAATCATTAATAACT
*
1992598 ATAGTTATAAATCAATAATAACT
1 ATAGTTATAAATCATTAATAACT
* *
1992621 -TAATTATAAATTATTAATAA
1 ATAGTTATAAATCATTAATAA
1992641 ATTTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (23 bp):
ATAGTTATAAATCATTAATAACT
Found at i:1993019 original size:42 final size:40
Alignment explanation
Indices: 1992973--1993079 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 40
1992963 GAAGATTATA
* * *
1992973 AAAATTGTATCAATGGTTACCGATATTGTATCAATAGTTACC
1 AAAATT-TATCAATGGTTACCAAAATTGTATCAA-AATTACC
* *
1993015 AAAATTATATC-ATAAGTTACCAAAATTGTATTAAAATTACC
1 AAAATT-TATCAAT-GGTTACCAAAATTGTATCAAAATTACC
* *
1993056 AAAAGTTTATCAAAGGTTATCAAA
1 AAAA-TTTATCAATGGTTACCAAA
1993080 TTTTACTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
41 24 0.45
42 29 0.55
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (40 bp):
AAAATTTATCAATGGTTACCAAAATTGTATCAAAATTACC
Found at i:1993025 original size:21 final size:21
Alignment explanation
Indices: 1992973--1993068 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
1992963 GAAGATTATA
*
1992973 AAAATTGTATCAATGGTTACC
1 AAAATTGTATCAATAGTTACC
* *
1992994 GATATTGTATCAATAGTTACC
1 AAAATTGTATCAATAGTTACC
*
1993015 AAAATTATATC-ATAAGTTACC
1 AAAATTGTATCAAT-AGTTACC
* *
1993036 AAAATTGTATTAA-AATTACC
1 AAAATTGTATCAATAGTTACC
1993056 AAAAGTT-TATCAA
1 AAAA-TTGTATCAA
1993069 AGGTTATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 17 0.27
21 44 0.71
22 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAATTGTATCAATAGTTACC
Found at i:1993313 original size:11 final size:10
Alignment explanation
Indices: 1993267--1993394 Score: 53
Period size: 11 Copynumber: 12.3 Consensus size: 10
1993257 CTAGAAATGA
1993267 TATCAAAAGTT
1 TATCAAAA-TT
*
1993278 TATTAAAATTT
1 TATCAAAA-TT
* * *
1993289 TGTTAAAAAT
1 TATCAAAATT
1993299 TATCAAAATT
1 TATCAAAATT
* *
1993309 GTATCAATAGT
1 -TATCAAAATT
1993320 TATCAAAATT
1 TATCAAAATT
* *
1993330 ATATCATAAGT
1 -TATCAAAATT
*
1993341 TACCAAAATT
1 TATCAAAATT
** *
1993351 GTAT-TGAAGT
1 -TATCAAAATT
*
1993361 TACCAAAAATT
1 TATC-AAAATT
*
1993372 TATCAAAAGT
1 TATCAAAATT
1993382 TAT-AAAATGT
1 TATCAAAAT-T
1993392 TAT
1 TAT
1993395 TTATATTATA
Statistics
Matches: 84, Mismatches: 27, Indels: 13
0.68 0.22 0.10
Matches are distributed among these distances:
9 6 0.07
10 38 0.45
11 40 0.48
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (10 bp):
TATCAAAATT
Found at i:1993322 original size:21 final size:21
Alignment explanation
Indices: 1993298--1993389 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
1993288 TTGTTAAAAA
1993298 TTATCAAAATTGTATCAATAG
1 TTATCAAAATTGTATCAATAG
*
1993319 TTATCAAAATTATATC-ATAAG
1 TTATCAAAATTGTATCAAT-AG
* **
1993340 TTACCAAAATTGTATTGA-AG
1 TTATCAAAATTGTATCAATAG
* *
1993360 TTACCAAAAATT-TATCAAAAG
1 TTATC-AAAATTGTATCAATAG
1993381 TTAT-AAAAT
1 TTATCAAAAT
1993390 GTTATTTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
19 5 0.08
20 13 0.22
21 41 0.68
22 1 0.02
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTGTATCAATAG
Found at i:1993376 original size:41 final size:42
Alignment explanation
Indices: 1993293--1993383 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
1993283 AAATTTTGTT
* * *
1993293 AAAAATTATCAAAATTGTATCAATAGTTATCAAAATTATATC
1 AAAAGTTACCAAAATTGTATCAATAGTTACCAAAATTATATC
* **
1993335 ATAAGTTACCAAAATTGTATTGA-AGTTACCAAAAATT-TATC
1 AAAAGTTACCAAAATTGTATCAATAGTTACC-AAAATTATATC
1993376 AAAAGTTA
1 AAAAGTTA
1993384 TAAAATGTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
41 17 0.41
42 24 0.59
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (42 bp):
AAAAGTTACCAAAATTGTATCAATAGTTACCAAAATTATATC
Found at i:1993550 original size:298 final size:304
Alignment explanation
Indices: 1992997--1993564 Score: 844
Period size: 298 Copynumber: 1.9 Consensus size: 304
1992987 GGTTACCGAT
*
1992997 ATTGTATCAATAGTTACCAAAATTATATCATAAGTTACCAAAATTGTATTAAAATTACCAAAAGT
1 ATTGTATCAATAGTTACCAAAATTATATCATAAGTTACCAAAATTGTATTAAAATTACCAAAAAT
* * * *
1993062 TTATCAAAGGTTATCAAATTTTACTTATATTAATCAAAATTAAAATTAAATTATTAGTATTTATT
66 TTATCAAAAGTTATAAAATGTTACTTATATTAAT---AATCAAAATTAAATTATTAGTA-TTATT
* * *
1993127 ATTATTATTATTATTTTAGTATAAAAAATTATTTATTGACATGAATTTCTAAAGATAGGAATTAC
127 ATTATTATTATTA-TTTAGTATAAAAAATTATTTATTGACATAAATTTATAAAGATAAGAATTAC
** * * * * *
1993192 TTGTGTAGTATGCATGTATCAACTTCTAAAATATAATCTAATTTATATAATTAGCTGACAATATT
191 ACGTGTAGTATGAATGTATCAACCTCTAAAATATAATCTAATTTATATAATCAACTGACAAAATT
1993257 CTAGAAATGATATCAAAAGTTTATTAAAATTTTGTTAAAAATTATCAAA
256 CTAGAAATGATATCAAAAGTTTATTAAAATTTTGTTAAAAATTATCAAA
* * *
1993306 ATTGTATCAATAGTTATCAAAATTATATCATAAGTTACCAAAATTGTATTGAAGTTACCAAAAAT
1 ATTGTATCAATAGTTACCAAAATTATATCATAAGTTACCAAAATTGTATTAAAATTACCAAAAAT
*
1993371 TTATCAAAAGTTATAAAATGTTATTTATATT-AT-ATCAAAATTAAATTATTAGTA-T-TTATTA
66 TTATCAAAAGTTATAAAATGTTACTTATATTAATAATCAAAATTAAATTATTAGTATTATTATTA
1993432 TTATTATTA-TTA-TATAAAAAATTATTTATTGACATAAATTTATAAAGATAAGAATTACACGTG
131 TTATTATTATTTAGTATAAAAAATTATTTATTGACATAAATTTATAAAGATAAGAATTACACGTG
* *
1993495 TATTATGAATGTATCAACCTCTAAAATATAATCTAATTTATA-ATATCAACTGACAAAATTTTAG
196 TAGTATGAATGTATCAACCTCTAAAATATAATCTAATTTATATA-ATCAACTGACAAAATTCTAG
1993559 AAATGA
260 AAATGA
1993565 CACTAATGCA
Statistics
Matches: 237, Mismatches: 21, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
297 1 0.00
298 107 0.45
299 3 0.01
301 15 0.06
302 1 0.00
304 20 0.08
308 2 0.01
309 88 0.37
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (304 bp):
ATTGTATCAATAGTTACCAAAATTATATCATAAGTTACCAAAATTGTATTAAAATTACCAAAAAT
TTATCAAAAGTTATAAAATGTTACTTATATTAATAATCAAAATTAAATTATTAGTATTATTATTA
TTATTATTATTTAGTATAAAAAATTATTTATTGACATAAATTTATAAAGATAAGAATTACACGTG
TAGTATGAATGTATCAACCTCTAAAATATAATCTAATTTATATAATCAACTGACAAAATTCTAGA
AATGATATCAAAAGTTTATTAAAATTTTGTTAAAAATTATCAAA
Found at i:1996547 original size:14 final size:14
Alignment explanation
Indices: 1996525--1996569 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
1996515 CCAACTCTCC
1996525 CTTTTCTTTTTTCT
1 CTTTTCTTTTTTCT
* *
1996539 CTTTGCTTTTTTTT
1 CTTTTCTTTTTTCT
*
1996553 ACTTTTCTTCTTTCT
1 -CTTTTCTTTTTTCT
1996568 CT
1 CT
1996570 ACTTGGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.73
Consensus pattern (14 bp):
CTTTTCTTTTTTCT
Found at i:1999329 original size:23 final size:25
Alignment explanation
Indices: 1999299--1999344 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
1999289 TGTTGTGCCT
*
1999299 GAAGCAATA-ATCACAA-CAATACA
1 GAAGCAATAGATAACAATCAATACA
1999322 GAAGCAATAGATAACAATCAATA
1 GAAGCAATAGATAACAATCAATA
1999345 ATAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAGCAATAGATAACAATCAATACA
Found at i:1999508 original size:12 final size:12
Alignment explanation
Indices: 1999493--1999530 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
1999483 AGAGCTAATC
1999493 AACAACTAGAGA
1 AACAACTAGAGA
1999505 AACAACTAGAGA
1 AACAACTAGAGA
*
1999517 AACAATTAGAGA
1 AACAACTAGAGA
1999529 AA
1 AA
1999531 TCTCACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.61, C:0.13, G:0.16, T:0.11
Consensus pattern (12 bp):
AACAACTAGAGA
Found at i:2000787 original size:7 final size:7
Alignment explanation
Indices: 2000775--2000801 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2000765 TTTAGCATAT
2000775 TCAAATA
1 TCAAATA
2000782 TCAAATA
1 TCAAATA
2000789 TCAAATA
1 TCAAATA
2000796 TCAAAT
1 TCAAAT
2000802 CTCATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TCAAATA
Found at i:2003628 original size:17 final size:16
Alignment explanation
Indices: 2003608--2003650 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2003598 TCGTTCTCGC
* *
2003608 TTTCTGTTTCTTCTCTT
1 TTTCT-TTTCTTATATT
*
2003625 TTTCTTTTTTTATATT
1 TTTCTTTTCTTATATT
2003641 TTTCTTTTCT
1 TTTCTTTTCT
2003651 CTTGGTCGCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTATATT
Found at i:2008130 original size:2 final size:2
Alignment explanation
Indices: 2008123--2008149 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2008113 TTGATACATT
2008123 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2008150 TTTTACACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2011247 original size:18 final size:18
Alignment explanation
Indices: 2011195--2011249 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
2011185 GACAACAAGC
2011195 AGAGAAAAAGAAGAA-A-
1 AGAGAAAAAGAAGAAGAG
** * *
2011211 AGCCAAGAA-AAGCAGAG
1 AGAGAAAAAGAAGAAGAG
2011228 AGAGAAAAAGAAGAAGAG
1 AGAGAAAAAGAAGAAGAG
2011246 AGAG
1 AGAG
2011250 TTGGTTAAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
15 4 0.14
16 7 0.25
17 6 0.21
18 11 0.39
ACGTcount: A:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (18 bp):
AGAGAAAAAGAAGAAGAG
Found at i:2014425 original size:17 final size:17
Alignment explanation
Indices: 2014405--2014439 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2014395 ATTTAAATAA
*
2014405 TTTTTTTATTATTAGAC
1 TTTTTTTATAATTAGAC
2014422 TTTTTTTATAATTAGAC
1 TTTTTTTATAATTAGAC
2014439 T
1 T
2014440 AAAAAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTTTTATAATTAGAC
Found at i:2019128 original size:20 final size:20
Alignment explanation
Indices: 2019103--2019147 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2019093 ATATCGATAT
*
2019103 AAATTTAGTAAATTTTAATA
1 AAATTTAGTAAATTATAATA
* *
2019123 AAATTTGGTAACTTATAATA
1 AAATTTAGTAAATTATAATA
*
2019143 TAATT
1 AAATT
2019148 AATTAGTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (20 bp):
AAATTTAGTAAATTATAATA
Found at i:2019791 original size:3 final size:3
Alignment explanation
Indices: 2019776--2019930 Score: 66
Period size: 3 Copynumber: 47.7 Consensus size: 3
2019766 TTTTAATTTT
* *
2019776 TTA TTA CTA TTA TTA TTTA TTA ATA TATA TT- TT- TTAA TTA TTTA TCTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA TT-A TTA -TTA T-TA
** * *
2019824 TTA ACA -TA TT- TTA TTA TTTA TCTA TTA ATA TATA TTT TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA
*
2019871 TCTA TTCA TATA TTA TTA TTTA TCTA TATA TTT TTA TCTA TTA TTA TTA
1 T-TA TT-A T-TA TTA TTA -TTA T-TA T-TA TTA TTA T-TA TTA TTA TTA
*
2019920 CTA TTA TTA TT
1 TTA TTA TTA TT
2019931 TTTTTCTTGA
Statistics
Matches: 118, Mismatches: 16, Indels: 36
0.69 0.09 0.21
Matches are distributed among these distances:
2 7 0.06
3 65 0.55
4 45 0.38
5 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2019825 original size:8 final size:8
Alignment explanation
Indices: 2019814--2019912 Score: 50
Period size: 8 Copynumber: 12.5 Consensus size: 8
2019804 ATTTTTTAAT
2019814 TATTTATC
1 TATTTATC
*
2019822 TA-TTAAC
1 TATTTATC
2019829 ATATTTTAT-
1 -TA-TTTATC
2019838 TATTTATC
1 TATTTATC
*
2019846 TATTAATATA
1 TATT--TATC
2019856 TATTTTTAT-
1 TA--TTTATC
2019865 TATTTATC
1 TATTTATC
* *
2019873 TATTCATA
1 TATTTATC
2019881 TA-TTAT-
1 TATTTATC
2019887 TATTTATC
1 TATTTATC
*
2019895 TATATAT-
1 TATTTATC
2019902 T-TTTATC
1 TATTTATC
2019909 TATT
1 TATT
2019913 ATTATTACTA
Statistics
Matches: 70, Mismatches: 8, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
6 6 0.09
7 23 0.33
8 26 0.37
9 2 0.03
10 11 0.16
12 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTATC
Found at i:2019838 original size:49 final size:46
Alignment explanation
Indices: 2019783--2019915 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 46
2019773 TTTTTATTAC
2019783 TATTATTATTTATTAATATATATTTTTTAATTATTTATCTATTAACATA
1 TATTATTATTTATTAATATATATTTTTT-ATTATTTATCTATT--CATA
* *
2019832 TTTTATTATTTATCTATTAATATATATTTTTATTATTTATCTATTCATA
1 TATTATTATTTAT-TAAT-ATATAT-TTTTTATTATTTATCTATTCATA
2019881 TATTATTATTTATCT-ATATAT-TTTTATCTATTATT
1 TATTATTATTTAT-TAATATATATTTT-T-TATTATT
2019916 ATTACTATTA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
45 3 0.04
46 2 0.03
47 11 0.15
48 1 0.01
49 30 0.40
50 3 0.04
51 20 0.27
52 5 0.07
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (46 bp):
TATTATTATTTATTAATATATATTTTTTATTATTTATCTATTCATA
Found at i:2019870 original size:27 final size:27
Alignment explanation
Indices: 2019783--2019893 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
2019773 TTTTTATTAC
*
2019783 TATTA-TTATTTATTAATATATATTTTT
1 TATTATTTATCTATTAATATATA-TTTT
*
2019810 TAATTATTTATCTATT-A-ACATA-TTT
1 T-ATTATTTATCTATTAATATATATTTT
2019835 TATTATTTATCTATTAATATATATTTT
1 TATTATTTATCTATTAATATATATTTT
*
2019862 TATTATTTATCTATTCATATATTATTATT
1 TATTATTTATCTATTAATATA-TATT-TT
2019891 TAT
1 TAT
2019894 CTATATATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
24 14 0.19
25 5 0.07
26 4 0.05
27 28 0.38
28 9 0.12
29 13 0.18
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
TATTATTTATCTATTAATATATATTTT
Found at i:2019901 original size:43 final size:40
Alignment explanation
Indices: 2019852--2019931 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 40
2019842 TATCTATTAA
2019852 TATATATTTTTAT-TATTTATCTATTCATATATTATTATTTATC
1 TATATATTTTTATCTA-TTAT-TATT-A-ATATTATTATTTATC
*
2019895 TATATATTTTTATCTATTATTATTACTATTATTATTT
1 TATATATTTTTATCTATTATTATTAATATTATTATTT
2019932 TTTTCTTGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
40 11 0.31
41 1 0.03
42 4 0.11
43 17 0.49
44 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (40 bp):
TATATATTTTTATCTATTATTATTAATATTATTATTTATC
Found at i:2019925 original size:12 final size:13
Alignment explanation
Indices: 2019834--2019930 Score: 73
Period size: 14 Copynumber: 7.6 Consensus size: 13
2019824 TTAACATATT
2019834 TTATTATTTATCTA
1 TTATTA-TTATCTA
* *
2019848 TTAATATATAT-TT
1 TTATTAT-TATCTA
2019861 TTATTATTTATCTA
1 TTATTA-TTATCTA
2019875 TTCA-TA-TAT-TA
1 TT-ATTATTATCTA
2019886 TTA-T-TTATCTA
1 TTATTATTATCTA
*
2019897 TATATTTTTATCTA
1 T-TATTATTATCTA
2019911 TTATTATTA-CTA
1 TTATTATTATCTA
2019923 TTATTATT
1 TTATTATT
2019931 TTTTTCTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
10 5 0.07
11 7 0.10
12 16 0.23
13 18 0.26
14 22 0.32
15 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATTATCTA
Found at i:2020836 original size:62 final size:63
Alignment explanation
Indices: 2020769--2020899 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
2020759 CAATAATTTT
* *
2020769 TTTTCTAAAAAAATAAAA-ATTACAAAAAAAATATTTTTTTA-AGAGAAAGTTGAAAGTATCAA
1 TTTTCTAAAAAAATAAAAGATTACAAAAAAAATATATTTTTAGAGA-AAAGTTAAAAGTATCAA
** * ** * *
2020831 TTTTCTTGAAAAATAAAAGGTTTTAAAAAACATATATTTTTAGGGAAAAGTTAAAAGTATCAA
1 TTTTCTAAAAAAATAAAAGATTACAAAAAAAATATATTTTTAGAGAAAAGTTAAAAGTATCAA
2020894 TTTTCT
1 TTTTCT
2020900 TCCAAATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 16 0.28
63 40 0.69
64 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (63 bp):
TTTTCTAAAAAAATAAAAGATTACAAAAAAAATATATTTTTAGAGAAAAGTTAAAAGTATCAA
Found at i:2020911 original size:63 final size:63
Alignment explanation
Indices: 2020792--2020911 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
2020782 TAAAAATTAC
* * *
2020792 AAAAAAAATATTTTTTTAAGAGAAAGTTGAAAGTATCAATTTTCTTGAAAAATAAAAGGTTTT
1 AAAAAAAATATATTTTTAAGAGAAAGTTAAAAGTATCAATTTTCTTCAAAAATAAAAGGTTTT
* * * *
2020855 AAAAAACATATATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTCTTCCAAATTAAAA
1 AAAAAAAATATATTTTTAAGAG-AAAGTTAAAAGTATCAATTTTCTTCAAAAATAAAA
2020912 TTTCAAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 3 0.06
63 46 0.94
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (63 bp):
AAAAAAAATATATTTTTAAGAGAAAGTTAAAAGTATCAATTTTCTTCAAAAATAAAAGGTTTT
Found at i:2021056 original size:53 final size:58
Alignment explanation
Indices: 2020938--2021074 Score: 176
Period size: 53 Copynumber: 2.4 Consensus size: 58
2020928 AAAAATTTGA
*
2020938 GAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAAAATTATCATGAAAAGCATTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAA-TATCATGAAAAGCA-TTTAAG
* * * *
2020998 AAAAAGTTAAAAGTATCAATTTTTCTT-AAAATAAAAA-CTC-T-AAATGC-TTTAAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATATCATGAAAAGCATTTAAG
2021051 GAAAAGTTGAAAGTATCAATTTTT
1 GAAAAGTTGAAAGTATCAATTTTT
2021075 TTTGTACAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
53 28 0.40
55 5 0.07
56 1 0.01
57 2 0.03
59 10 0.14
60 24 0.34
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (58 bp):
GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATATCATGAAAAGCATTTAAG
Found at i:2026372 original size:24 final size:24
Alignment explanation
Indices: 2026341--2026477 Score: 104
Period size: 24 Copynumber: 5.5 Consensus size: 24
2026331 TTTATTACTA
2026341 TTATTATTTATTAATATATATATT
1 TTATTATTTATTAATATATATATT
* * * *
2026365 TTAATATTTAACTATTA-ACATATT
1 TTATTATTT-ATTAATATATATATT
*
2026389 TTATTATTTATCTATTAATATATATAT
1 TTATTATTTAT-TAAT-ATATATAT-T
2026416 TTATTATTTATCT-AT-TCATATATT
1 TTATTATTTAT-TAATAT-ATATATT
*
2026440 ATTATTTATCTATTAATATATAT-TT
1 -TTA-TTATTTATTAATATATATATT
2026465 TTATCTA-TTATTA
1 TTAT-TATTTATTA
2026478 TTACTATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
23 7 0.08
24 33 0.36
25 18 0.20
26 19 0.21
27 15 0.16
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTATTTATTAATATATATATT
Found at i:2026444 original size:22 final size:21
Alignment explanation
Indices: 2026409--2026503 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 21
2026399 TCTATTAATA
2026409 TATATATTTATTATTTATCTAT
1 TATATA-TTATTATTTATCTAT
2026431 TCATATATTATTATTTATCTAT
1 T-ATATATTATTATTTATCTAT
2026453 TA-ATATATATT-TTTATCTAT
1 TATATAT-TATTATTTATCTAT
* *
2026473 TAT-TATTACTATTTTTACTAT
1 TATATATTATTATTTAT-CTAT
*
2026494 TGT-TATTATT
1 TATATATTATT
2026504 TGTTTTCTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.05
20 22 0.34
21 17 0.27
22 17 0.27
23 5 0.08
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (21 bp):
TATATATTATTATTTATCTAT
Found at i:2026454 original size:49 final size:50
Alignment explanation
Indices: 2026339--2026473 Score: 184
Period size: 49 Copynumber: 2.7 Consensus size: 50
2026329 TTTTTATTAC
* * *
2026339 TATTA-TTATTTATTAATATATATATTTTAATATTTAACTATTAACATATTT
1 TATTATTTATCTATTAATATATATA-TTTATTATTTAACTATT-ACATATAT
*
2026390 TATTATTTATCTATTAATATATATATTTATTATTTATCTATT-CATATAT
1 TATTATTTATCTATTAATATATATATTTATTATTTAACTATTACATATAT
*
2026439 TATTATTTATCTATTAATATATATTTTTATCTATT
1 TATTATTTATCTATTAATATATATATTTAT-TATT
2026474 ATTATTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
49 35 0.45
50 4 0.05
51 20 0.26
52 18 0.23
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (50 bp):
TATTATTTATCTATTAATATATATATTTATTATTTAACTATTACATATAT
Found at i:2026509 original size:21 final size:22
Alignment explanation
Indices: 2026390--2026501 Score: 88
Period size: 21 Copynumber: 5.0 Consensus size: 22
2026380 TAACATATTT
*
2026390 TATTATTTATCTATTAATATATA-
1 TATT-TTTATCTATTATTAT-TAC
* *
2026413 TATTTATTATTTATCTATTCATATAT
1 TATTT-TTATCTAT-TATT-AT-TAC
*
2026439 TATTATTTATCTATTAATA-TA-
1 TATT-TTTATCTATTATTATTAC
2026460 TATTTTTATCTATTATTATTAC
1 TATTTTTATCTATTATTATTAC
*
2026482 TATTTTTA-CTATTGTTATTA
1 TATTTTTATCTATTATTATTA
2026502 TTTGTTTTCT
Statistics
Matches: 76, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
20 13 0.17
21 17 0.22
22 11 0.14
23 11 0.14
24 4 0.05
25 8 0.11
26 11 0.14
27 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (22 bp):
TATTTTTATCTATTATTATTAC
Found at i:2027287 original size:4 final size:4
Alignment explanation
Indices: 2027278--2027330 Score: 56
Period size: 4 Copynumber: 13.2 Consensus size: 4
2027268 TTTTAAAATT
* *
2027278 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TATTA TTATA ATTA -TTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA TTTA TTTA
2027326 TTTA T
1 TTTA T
2027331 AATTATTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 4 0.10
4 34 0.81
5 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:2027490 original size:62 final size:61
Alignment explanation
Indices: 2027414--2027549 Score: 154
Period size: 62 Copynumber: 2.2 Consensus size: 61
2027404 TAGAAATTAC
** *
2027414 AAAAAAATATTTTTTTAAGGGAAA-TTGAAAGTATCAA-TTTCCTTGAAAAATAAAAGGTTTT
1 AAAAAAATATTTTTTTAA-AAAAAGTTAAAAGTATCAATTTTCCTT-AAAAATAAAAGGTTTT
* *
2027475 AAAAATATATATTTTTTAAAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAA--TTTT
1 AAAAAAATAT-TTTTTTAAAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAAGGTTTT
2027535 CAAAAAAAATATTTT
1 --AAAAAAATATTTT
2027550 AGGGAAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
60 4 0.06
61 15 0.23
62 39 0.61
63 6 0.09
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.38
Consensus pattern (61 bp):
AAAAAAATATTTTTTTAAAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAAGGTTTT
Found at i:2028423 original size:22 final size:22
Alignment explanation
Indices: 2028398--2028440 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2028388 TAAAATCAAT
2028398 ATTAACTTAG-AAGTAAATTATC
1 ATTAACTTAGTAA-TAAATTATC
*
2028420 ATTAATTTAGTAATAAATTAT
1 ATTAACTTAGTAATAAATTAT
2028441 TGATAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTAACTTAGTAATAAATTATC
Found at i:2028447 original size:22 final size:22
Alignment explanation
Indices: 2028409--2028490 Score: 94
Period size: 22 Copynumber: 3.7 Consensus size: 22
2028399 TTAACTTAGA
* *
2028409 AGTAAATTA-TCATTAATTTAGT
1 AGTAAATTATTGA-TAATTTAAT
*
2028431 AATAAATTATTGATAATTTAAT
1 AGTAAATTATTGATAATTTAAT
*
2028453 AGTAAATTATTTATAATTTAAT
1 AGTAAATTATTGATAATTTAAT
* *
2028475 GGTAAATTAATGATAA
1 AGTAAATTATTGATAA
2028491 GTGTTAACTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 49 0.96
23 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (22 bp):
AGTAAATTATTGATAATTTAAT
Found at i:2037695 original size:22 final size:23
Alignment explanation
Indices: 2037653--2037698 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
2037643 TATTTTTATA
*
2037653 TTTATTTGCATGGTTTATATATT
1 TTTATTTGCATGGATTATATATT
*
2037676 TTTATTTGC-TTGATTATATATT
1 TTTATTTGCATGGATTATATATT
2037698 T
1 T
2037699 AATTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (23 bp):
TTTATTTGCATGGATTATATATT
Found at i:2037712 original size:32 final size:31
Alignment explanation
Indices: 2037670--2037833 Score: 99
Period size: 32 Copynumber: 5.6 Consensus size: 31
2037660 GCATGGTTTA
*
2037670 TATATTTTTATTTGCTTGATTATATATTTAAT
1 TATATATTTATTTGC-TGATTATATATTTAAT
*
2037702 TATATATTTATTTGC-----ATA-GTTT-A-
1 TATATATTTATTTGCTGATTATATATTTAAT
* *
2037725 TATATTTTTATTTGTATGATTATATATTTAAT
1 TATATATTTATTTG-CTGATTATATATTTAAT
* *
2037757 T-TCATGTTTATTTG-T-ATAAT-TA-TTAA-
1 TAT-ATATTTATTTGCTGATTATATATTTAAT
*
2037783 TAT-TA-TTATTTGTATGATTATATATTTAAT
1 TATATATTTATTTG-CTGATTATATATTTAAT
*
2037813 TATATGTTTATTTGCATGATT
1 TATATATTTATTTGC-TGATT
2037834 TACATTGTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 40
0.66 0.07 0.26
Matches are distributed among these distances:
23 13 0.13
24 8 0.08
25 4 0.04
26 5 0.05
27 9 0.09
28 4 0.04
29 11 0.11
30 7 0.07
31 3 0.03
32 37 0.37
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (31 bp):
TATATATTTATTTGCTGATTATATATTTAAT
Found at i:2037767 original size:20 final size:20
Alignment explanation
Indices: 2037649--2037767 Score: 76
Period size: 23 Copynumber: 6.0 Consensus size: 20
2037639 CTCTTATTTT
2037649 TATATTTATTTGCATGGTTTA
1 TATATTTATTTGCAT-GTTTA
* *
2037670 TATATTTTTATTTGCTTGATTA
1 TATA--TTTATTTGCATGTTTA
2037692 TATATTTA-----A---TTA
1 TATATTTATTTGCATGTTTA
2037704 TATATTTATTTGCATAGTTTA
1 TATATTTATTTGCAT-GTTTA
* *
2037725 TATATTTTTATTTGTATGATTA
1 TATA--TTTATTTGCATGTTTA
2037747 TATATTTAATTT-CATGTTTA
1 TATATTT-ATTTGCATGTTTA
2037767 T
1 T
2037768 TTGTATAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 29
0.68 0.06 0.26
Matches are distributed among these distances:
12 11 0.14
17 1 0.01
20 14 0.18
21 15 0.19
22 16 0.21
23 20 0.26
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (20 bp):
TATATTTATTTGCATGTTTA
Found at i:2037807 original size:56 final size:55
Alignment explanation
Indices: 2037653--2037829 Score: 252
Period size: 55 Copynumber: 3.2 Consensus size: 55
2037643 TATTTTTATA
* *
2037653 TTTATTTGCATGGTTTATATATTTTTATTTGCT-TGATTATATATTTAATTATATA
1 TTTATTTGCATAGTTTATATATTTTTATTTG-TATGATTATATATTTAATTATATG
2037708 TTTATTTGCATAGTTTATATATTTTTATTTGTATGATTATATATTTAATT-TCATG
1 TTTATTTGCATAGTTTATATATTTTTATTTGTATGATTATATATTTAATTAT-ATG
* * *
2037763 TTTATTTGTATA-ATTATTAATATTATTATTTGTATGATTATATATTTAATTATATG
1 TTTATTTGCATAGTTTA-T-ATATTTTTATTTGTATGATTATATATTTAATTATATG
2037819 TTTATTTGCAT
1 TTTATTTGCAT
2037830 GATTTACATT
Statistics
Matches: 111, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
54 5 0.05
55 61 0.55
56 44 0.40
57 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (55 bp):
TTTATTTGCATAGTTTATATATTTTTATTTGTATGATTATATATTTAATTATATG
Found at i:2037897 original size:111 final size:112
Alignment explanation
Indices: 2037667--2037897 Score: 262
Period size: 111 Copynumber: 2.1 Consensus size: 112
2037657 TTTGCATGGT
* * * *
2037667 TTATATATTTTTATTTGCTTGATTATATATTTAATTATATATTTATTTGCATAGTTTATATATTT
1 TTATATATTATTATTTGCTTGATTATATATTTAATTATATATTTATTTGCATAGATTATACATTG
* * * *
2037732 TTATTTGTATGATTATATATTTAATTTCATGTTTATTTGTATAATTA
66 TTAATTGCATGATTATATATTTAATTTCATGTTGATTTATATAATTA
*
2037779 TTA-ATATTATTATTTG-TATGATTATATATTTAATTATATGTTTATTTGCAT-GATT-TACATT
1 TTATATATTATTATTTGCT-TGATTATATATTTAATTATATATTTATTTGCATAGATTATACATT
*
2037840 GTTAATTGCATGATTAT-TAATTT-ATTT-ATTTGTGTGA-TTATATGATTA
65 GTTAATTGCATGATTATAT-ATTTAATTTCA--TGT-TGATTTATATAATTA
2037888 TTAATATATT
1 TT-ATATATT
2037898 TATTTCCATA
Statistics
Matches: 102, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
107 1 0.01
108 5 0.05
109 37 0.36
110 7 0.07
111 49 0.48
112 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (112 bp):
TTATATATTATTATTTGCTTGATTATATATTTAATTATATATTTATTTGCATAGATTATACATTG
TTAATTGCATGATTATATATTTAATTTCATGTTGATTTATATAATTA
Found at i:2038159 original size:18 final size:17
Alignment explanation
Indices: 2038138--2038207 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 17
2038128 TATGGTATTT
2038138 TATATTATTGCATGATAA
1 TATA-TATTGCATGATAA
* *
2038156 TATAT-TTGTATGATAT
1 TATATATTGCATGATAA
* **
2038172 TATATATTTACATGATTG
1 TATATA-TTGCATGATAA
2038190 T-TATTATTGCATGATAA
1 TATA-TATTGCATGATAA
2038207 T
1 T
2038208 TAACATATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
16 14 0.35
17 12 0.30
18 14 0.35
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.50
Consensus pattern (17 bp):
TATATATTGCATGATAA
Found at i:2041393 original size:8 final size:8
Alignment explanation
Indices: 2041380--2041404 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2041370 TCCTCTTTAT
2041380 TGCATTCA
1 TGCATTCA
2041388 TGCATTCA
1 TGCATTCA
2041396 TGCATTCA
1 TGCATTCA
2041404 T
1 T
2041405 ATATAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TGCATTCA
Found at i:2042114 original size:13 final size:11
Alignment explanation
Indices: 2042080--2042135 Score: 53
Period size: 12 Copynumber: 5.0 Consensus size: 11
2042070 TATATATATA
2042080 TTATTTTTA-T
1 TTATTTTTATT
*
2042090 TT-TTTGTATT
1 TTATTTTTATT
2042100 TTACATTTTTATT
1 TT--ATTTTTATT
2042113 TTATTTTTATT
1 TTATTTTTATT
*
2042124 ATTATTATTATT
1 -TTATTTTTATT
2042136 ATTTTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 5 0.13
10 5 0.13
11 9 0.24
12 10 0.26
13 9 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:2042162 original size:22 final size:20
Alignment explanation
Indices: 2042108--2042180 Score: 55
Period size: 20 Copynumber: 3.6 Consensus size: 20
2042098 TTTTACATTT
2042108 TTATT-TTATTTTTATTATTA
1 TTATTATTA-TTTTATTATTA
2042128 TTATTATTATTTTATATATGTA
1 TTATTATTATTTTAT-TAT-TA
* * *
2042150 -TATATATTCTTTTCTT-TTC
1 TTAT-TATTATTTTATTATTA
2042169 TT-TTATTATTTT
1 TTATTATTATTTT
2042181 TTTTATCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 8 0.18
19 2 0.05
20 13 0.30
21 10 0.23
22 11 0.25
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (20 bp):
TTATTATTATTTTATTATTA
Found at i:2042290 original size:22 final size:21
Alignment explanation
Indices: 2042248--2042358 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 21
2042238 TTCTTTTTTT
*
2042248 TGTTAATATTTATGTAA-TTATC
1 TGTTAAT-TTT-TTTAATTTATC
2042270 TGTT-ATTTAATTTTAATTTATC
1 TGTTAATTT--TTTTAATTTATC
*
2042292 TGTTAATTTTTTTTATTTATC
1 TGTTAATTTTTTTAATTTATC
* * *
2042313 TGATTTATTTTCATTTGATTT-TT
1 TG-TTAATTTT--TTTAATTTATC
* * *
2042336 TTTTTATTTTTTTTATTTATC
1 TGTTAATTTTTTTAATTTATC
2042357 TG
1 TG
2042359 ACTGGAAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
20 9 0.12
21 21 0.29
22 29 0.40
23 6 0.08
24 7 0.10
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.68
Consensus pattern (21 bp):
TGTTAATTTTTTTAATTTATC
Found at i:2042645 original size:24 final size:25
Alignment explanation
Indices: 2042598--2042646 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
2042588 TTAGCAAAAA
**
2042598 TTTTTTGAAGATTTTTGGTGATTTT
1 TTTTTTGAAGATTTTTGGAAATTTT
*
2042623 TTTTTTGGA-ATTTTTGGAAATTTT
1 TTTTTTGAAGATTTTTGGAAATTTT
2042647 CAGATTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (25 bp):
TTTTTTGAAGATTTTTGGAAATTTT
Found at i:2042678 original size:19 final size:20
Alignment explanation
Indices: 2042656--2042694 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2042646 TCAGATTTCG
2042656 GTTGAATTTTCTGAC-AAAA
1 GTTGAATTTTCTGACGAAAA
* *
2042675 GTTGCATTTTTTGACGAAAA
1 GTTGAATTTTCTGACGAAAA
2042695 TTCCAGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
GTTGAATTTTCTGACGAAAA
Found at i:2042787 original size:11 final size:12
Alignment explanation
Indices: 2042756--2042789 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2042746 TCCCAAAAAC
2042756 CGACCAACTTTT
1 CGACCAACTTTT
*
2042768 CGGCCAACTTTT
1 CGACCAACTTTT
2042780 -GACCAACTTT
1 CGACCAACTTT
2042790 CGATGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (12 bp):
CGACCAACTTTT
Found at i:2043263 original size:17 final size:17
Alignment explanation
Indices: 2043241--2043274 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2043231 TTTAATATTC
2043241 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
2043258 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
2043275 CTCTTCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:2043273 original size:11 final size:11
Alignment explanation
Indices: 2043242--2043316 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
2043232 TTAATATTCT
*
2043242 TTTTATCTTTA
1 TTTTATTTTTA
2043253 TTTTATTTTTA
1 TTTTATTTTTA
2043264 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* * *
2043275 CTCTTCTTTATTT
1 -TTTTATTT-TTA
2043288 TTTTATTTTTA
1 TTTTATTTTTA
*
2043299 -TTTATTTTCA
1 TTTTATTTTTA
2043309 CTTTTATT
1 -TTTTATT
2043317 AAAAATCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 10 0.20
11 21 0.41
12 17 0.33
13 3 0.06
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:2043302 original size:18 final size:18
Alignment explanation
Indices: 2043253--2043306 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
2043243 TTTATCTTTA
*
2043253 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* * *
2043270 TTTTACTCTTCTTTATTT
1 TTTTATTTTTATTTATTT
2043288 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
2043306 T
1 T
2043307 CACTTTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:2043442 original size:115 final size:113
Alignment explanation
Indices: 2043322--2043945 Score: 840
Period size: 115 Copynumber: 5.4 Consensus size: 113
2043312 TTATTAAAAA
* * * *
2043322 TCAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
1 TCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTCCAAAAA
*
2043387 ATATTTTTGGGAAAAAGTTGAAAGTGTCAATTTTTCTTAAAAATAAAATT
64 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
* *
2043437 TCAAAAAAAAGGGTTTTTGAGGAAAGGTTGAAAGTATCAATTTTCTTTAAAAATAAATTCCAAAA
1 TCAAAAAAAA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTCCAAAA
* *
2043502 AATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAAATT
63 AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAATT
*
2043553 TCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTCCAAAAA
1 TCAAAAAAA--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTCCAAAAA
* * *
2043618 ATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATT
64 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
** *
2043668 TCAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAA
1 TCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA--TTCC-AA
*
2043733 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATT
61 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
* * *
2043785 TCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATCAATTTCAAA
1 T-C-AAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTCCAAA
* *
2043850 AAATCAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATCT
62 AAAT--ATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-T
*
2043904 TCAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 TCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
2043946 TCTGCATAAA
Statistics
Matches: 461, Mismatches: 31, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
114 42 0.09
115 119 0.26
116 102 0.22
117 59 0.13
118 90 0.20
119 44 0.10
120 5 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (113 bp):
TCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTCCAAAAAAT
ATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
Found at i:2043501 original size:59 final size:56
Alignment explanation
Indices: 2043322--2043946 Score: 729
Period size: 59 Copynumber: 10.8 Consensus size: 56
2043312 TTATTAAAAA
* *
2043322 TCAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTT-TCTTAAAAATAAATTT
1 TCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTAAAAATAAA-TT
* *
2043380 TCAAAAAATATTTTTG-GGAAAAAGTTGAAAGTGTCAATTTT-TCTTAAAAATAAAATT
1 TCAAAAAAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCT-TTAAAAAT-AAATT
*
2043437 TCAAAAAAAAGGGTTTTTGAGGAAAGGTTGAAAGTATCAATTTTCTTTAAAAATAAATT
1 TCAAAAAAAA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATT
* * * *
2043496 CCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATT
1 TCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAATT
* *
2043553 TCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT
1 TCAAAAAAA--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATT
* * * * *
2043611 CCAAAAAATATTTTTG-GGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATT
1 TCAAAAAAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAATT
** * *
2043668 TCAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TCAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAA-TT
*
2043727 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAATT
1 T-CAAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTAAAAATAAATT
* * *
2043785 TCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATCAATT
1 T-C-AAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTTAAAAATAAATT
* *
2043845 TCAAAAAATCAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATCT
1 TCAAAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAT-T
*
2043904 TCAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCT
1 TCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT
2043947 CTGCATAAAA
Statistics
Matches: 500, Mismatches: 44, Indels: 47
0.85 0.07 0.08
Matches are distributed among these distances:
55 2 0.00
56 76 0.15
57 104 0.21
58 84 0.17
59 139 0.28
60 91 0.18
61 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (56 bp):
TCAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAATT
Found at i:2043852 original size:14 final size:14
Alignment explanation
Indices: 2043833--2043859 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2043823 AATTTTCCTT
2043833 AAAAAATCAATTTC
1 AAAAAATCAATTTC
2043847 AAAAAATCAATTT
1 AAAAAATCAATTT
2043860 TTGAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAAATCAATTTC
Found at i:2047848 original size:26 final size:29
Alignment explanation
Indices: 2047818--2047889 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 29
2047808 ATCAACAATG
2047818 GATGAAAAATGAGAAAAAAAA-AA-G-AT
1 GATGAAAAATGAGAAAAAAAAGAATGAAT
*
2047844 GATGAAAAA--AAAAAAAAAAGAATGAAT
1 GATGAAAAATGAGAAAAAAAAGAATGAAT
2047871 GAATGAAAAAATGAGAAAA
1 G-ATG-AAAAATGAGAAAA
2047890 CTCAAATTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 9 0.24
25 2 0.05
26 10 0.27
27 3 0.08
28 3 0.08
29 5 0.14
31 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (29 bp):
GATGAAAAATGAGAAAAAAAAGAATGAAT
Found at i:2047879 original size:23 final size:22
Alignment explanation
Indices: 2047829--2047881 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
2047819 ATGAAAAATG
2047829 AGAAAAAAAAAAGATGATGAAA
1 AGAAAAAAAAAAGATGATGAAA
*
2047851 AAAAAAAAAAAAGAATGAATG-AA
1 AGAAAAAAAAAAG-ATG-ATGAAA
*
2047874 TGAAAAAA
1 AGAAAAAA
2047882 TGAGAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 12 0.46
23 11 0.42
24 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.09
Consensus pattern (22 bp):
AGAAAAAAAAAAGATGATGAAA
Found at i:2049208 original size:18 final size:18
Alignment explanation
Indices: 2049185--2049221 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2049175 AGCAATTTAC
2049185 CTTTCCAAAGTCGTGGTG
1 CTTTCCAAAGTCGTGGTG
2049203 CTTTCCAAAGTCGTGGTG
1 CTTTCCAAAGTCGTGGTG
2049221 C
1 C
2049222 CTCTGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.32
Consensus pattern (18 bp):
CTTTCCAAAGTCGTGGTG
Found at i:2049265 original size:41 final size:40
Alignment explanation
Indices: 2049208--2049484 Score: 272
Period size: 41 Copynumber: 6.7 Consensus size: 40
2049198 TGGTGCTTTC
* *
2049208 CAAAGTCGTGGTGCCTCTGTTTACAGGAGCAATTTATTTTT
1 CAAAGTC-TGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT
* * *
2049249 CAAAGTTCTGTTGCCTCTATTTAGAGGAGCAATTTACTTTC
1 CAAAG-TCTGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT
* * *
2049290 CTAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTT
1 C-AAAGTC-TGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT
* *
2049332 CAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTC
1 CAAAGTC-TGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT
* *
2049373 CAAAGTC-GTTGAGCCTCTGATTAGTGGAGCAATTTATTTTT
1 CAAAGTCTGTT--GCCTCTGTTTAGAGGAGCAATTTATTTTT
* * *
2049414 CAAAGTC-GTTAAGCTTCTGATTAGAGGAGCCATTTATGTTTCT
1 CAAAGTCTGTT--GCCTCTGTTTAGAGGAGCAATTTAT-TTT-T
*
2049457 CAAAGTC-GTTGAGCCTCTGCTTAGAGGA
1 CAAAGTCTGTT--GCCTCTGTTTAGAGGA
2049485 ACTTTGGTCA
Statistics
Matches: 205, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
41 138 0.67
42 39 0.19
43 26 0.13
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (40 bp):
CAAAGTCTGTTGCCTCTGTTTAGAGGAGCAATTTATTTTT
Found at i:2049348 original size:83 final size:81
Alignment explanation
Indices: 2049203--2049484 Score: 325
Period size: 83 Copynumber: 3.4 Consensus size: 81
2049193 AGTCGTGGTG
* *
2049203 CTTTCCAAAGTCGTGGTGCCTCTGTTTACAGGAGCAATTTATTTTTCAAAGTTCTGTTGCCTCTA
1 CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-TCTGGTGCCTCTA
2049268 TTTAGAGGAGCAATTTA
65 TTTAGAGGAGCAATTTA
* *
2049285 CTTTCCTAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCT
1 CTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC-TGGTGCCTCT
*
2049350 GTTTAGAGGAGCAATTTA
64 ATTTAGAGGAGCAATTTA
* * * * * * *
2049368 TTTTCCAAAGTCGTTGAGCCTCTGATTAGTGGAGCAATTTATTTTTCAAAGTC-GTTAAGCTTCT
1 CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCTGGT--GCCTCT
*
2049432 GA-TTAGAGGAGCCATTTA
64 -ATTTAGAGGAGCAATTTA
* * * *
2049450 TGTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGA
1 -CTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAGGA
2049485 ACTTTGGTCA
Statistics
Matches: 174, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
80 2 0.01
82 69 0.40
83 77 0.44
84 26 0.15
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (81 bp):
CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCTGGTGCCTCTAT
TTAGAGGAGCAATTTA
Found at i:2049500 original size:1 final size:1
Alignment explanation
Indices: 2049494--2049562 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
2049484 AACTTTGGTC
* ** * * * * *
2049494 AAAAAAACAAAAAGCAAAAAAAAAAAAAAACAAAAAACAAAAAAAAAACAAAAACAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2049559 AAAA
1 AAAA
2049563 TGAAGATGTT
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:2049511 original size:7 final size:6
Alignment explanation
Indices: 2049496--2049553 Score: 77
Period size: 6 Copynumber: 9.8 Consensus size: 6
2049486 CTTTGGTCAA
2049496 AAAAAC AAAAAGC AAAAA- AAAAA- AAAAAC AAAAAAC AAAAA- AAAAAC
1 AAAAAC AAAAA-C AAAAAC AAAAAC AAAAAC -AAAAAC AAAAAC AAAAAC
2049543 AAAAAC AAAAA
1 AAAAAC AAAAA
2049554 AACAAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 15 0.31
6 21 0.44
7 12 0.25
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:2049516 original size:17 final size:16
Alignment explanation
Indices: 2049494--2049562 Score: 86
Period size: 16 Copynumber: 4.3 Consensus size: 16
2049484 AACTTTGGTC
* *
2049494 AAAAAAACAAAAAGCA
1 AAAAAAAAAAAAAACA
2049510 AAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAACA
2049526 AAAAACAAAAAAAAA-A
1 AAAAA-AAAAAAAAACA
* *
2049542 CAAAAACAAAAAAACA
1 AAAAAAAAAAAAAACA
2049558 AAAAA
1 AAAAA
2049563 TGAAGATGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 8 0.17
16 29 0.63
17 9 0.20
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:2049529 original size:24 final size:23
Alignment explanation
Indices: 2049494--2049562 Score: 111
Period size: 23 Copynumber: 2.9 Consensus size: 23
2049484 AACTTTGGTC
*
2049494 AAAAAAACAAAAAGCAAAAAAAA
1 AAAAAAACAAAAAACAAAAAAAA
2049517 AAAAAAACAAAAAACAAAAAAAA
1 AAAAAAACAAAAAACAAAAAAAA
2049540 AACAAAAACAAAAAAACAAAAAA
1 AA-AAAAAC-AAAAAACAAAAAA
2049563 TGAAGATGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
23 24 0.56
24 6 0.14
25 13 0.30
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAACAAAAAAAA
Found at i:2049727 original size:6 final size:6
Alignment explanation
Indices: 2049718--2049776 Score: 57
Period size: 6 Copynumber: 9.3 Consensus size: 6
2049708 ATATATATAT
*
2049718 TTTTTA TTTTTA TTTTTTG TGTTTTACA TTTTTA -TTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA -TTTTTA T-TTTT--A TTTTTA TTTTTA TTTTTA TTTTTA
*
2049769 TTATTA TT
1 TTTTTA TT
2049777 ATTTTATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 5 0.11
6 26 0.58
7 9 0.20
8 4 0.09
9 1 0.02
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:2049945 original size:21 final size:21
Alignment explanation
Indices: 2049887--2049964 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
2049877 TTCTTTTTTT
*
2049887 TCTGTTAATATTTATGTAA-TTA
1 TCTGTTAAT-TTT-TTTAATTTA
2049909 TCTGTT-ATTTAATTTTAATTTA
1 TCTGTTAATTT--TTTTAATTTA
*
2049931 TCTGTTAATTTTTTTTATTTA
1 TCTGTTAATTTTTTTAATTTA
*
2049952 TCTGATTTATTTT
1 TCTG-TTAATTTT
2049965 CGTTTGATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.64
Consensus pattern (21 bp):
TCTGTTAATTTTTTTAATTTA
Found at i:2050410 original size:12 final size:12
Alignment explanation
Indices: 2050393--2050422 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2050383 CAGAAATTGA
2050393 CCAACTTTTCGG
1 CCAACTTTTCGG
2050405 CCAAC-TTTCGG
1 CCAACTTTTCGG
2050416 CCAACTT
1 CCAACTT
2050423 CCAGTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (12 bp):
CCAACTTTTCGG
Found at i:2050871 original size:4 final size:4
Alignment explanation
Indices: 2050817--2050855 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
2050807 TTTAATTTTT
* *
2050817 TTTA TTATA TTTG TTTA TTTG TTTA TTTA TTTA TTTA TT
1 TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
2050856 AGATTAGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2050900 original size:17 final size:17
Alignment explanation
Indices: 2050878--2050911 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2050868 TTTAATATTC
2050878 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
2050895 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
2050912 CTCTTCTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:2050910 original size:11 final size:11
Alignment explanation
Indices: 2050879--2050953 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
2050869 TTAATATTCT
*
2050879 TTTTATCTTTA
1 TTTTATTTTTA
2050890 TTTTATTTTTA
1 TTTTATTTTTA
2050901 TTTT-TGTTTTA
1 TTTTAT-TTTTA
* * *
2050912 CTCTTCTTTATTT
1 -TTTTATTT-TTA
2050925 TTTTATTTTTA
1 TTTTATTTTTA
*
2050936 -TTTATTTTCA
1 TTTTATTTTTA
2050946 CTTTTATT
1 -TTTTATT
2050954 AAAAATCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 10 0.20
11 21 0.41
12 17 0.33
13 3 0.06
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:2050939 original size:18 final size:18
Alignment explanation
Indices: 2050890--2050943 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
2050880 TTTATCTTTA
*
2050890 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* * *
2050907 TTTTACTCTTCTTTATTT
1 TTTTATTTTTATTTATTT
2050925 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
2050943 T
1 T
2050944 CACTTTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:2051113 original size:59 final size:58
Alignment explanation
Indices: 2050959--2051640 Score: 900
Period size: 59 Copynumber: 11.7 Consensus size: 58
2050949 TTATTAAAAA
*
2050959 TCAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
* * *
2051016 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTTTCAATTTTTCTTAAAAATAAAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
*** * *
2051074 TCAAAAAAAGGGGTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAAT-AAATT
1 TCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
* *
2051132 TC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
* *
2051189 TCAAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-T
1 TCAAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
* * * *
2051246 TCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
*** ** * * *
2051304 TCAAAAAAAGGGTTTTGAAGAAGAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATT
* *
2051363 TCCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 T-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
*
2051422 TC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
*
2051478 TCCAAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-ATAAATT
1 T-C-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AAATT
*
2051538 TC-AAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATT
1 TCAAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
2051596 TCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TC---AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
2051641 TCCTACACAA
Statistics
Matches: 550, Mismatches: 52, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
56 79 0.14
57 129 0.23
58 82 0.15
59 173 0.31
60 80 0.15
62 7 0.01
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
Found at i:2051169 original size:115 final size:116
Alignment explanation
Indices: 2050959--2051642 Score: 990
Period size: 115 Copynumber: 5.9 Consensus size: 116
2050949 TTATTAAAAA
** * *
2050959 TCAAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC-AAAA
1 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
* *
2051023 AATATTTTTGGGGAAAAGTTGAAAGTTTCAATTTTTCTTAAAAATAAAATT
66 AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
* *
2051074 TCAAAAAAAGGGGTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAATAAATTT-C-AAA
1 TCAAAAAAA-GGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAA
* *
2051137 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT
65 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
*
2051189 TCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTCC-AAA
1 TC-AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAA
*
2051252 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATT
65 AAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
* * * *
2051304 TCAAAAAAAGGGTTTTGAAGAAGAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAA
1 TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTCCAAA
* *
2051369 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
64 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
* *
2051422 TCAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTCCAAAA
1 TCAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC-AAA
*
2051485 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-ATAAATT
64 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA-AAATT
* *
2051538 TCAAAAAATCA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAA
1 TCAAAAAA--AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC--CA
*
2051602 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
62 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
2051643 CTACACAAAA
Statistics
Matches: 522, Mismatches: 33, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
114 47 0.09
115 174 0.33
116 114 0.22
117 40 0.08
118 106 0.20
119 41 0.08
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (116 bp):
TCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
AATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
Found at i:2052890 original size:27 final size:27
Alignment explanation
Indices: 2052852--2052906 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2052842 TTGCTTAACT
2052852 TAAAAATCAGGTGAAAAGAGAAAAAGC
1 TAAAAATCAGGTGAAAAGAGAAAAAGC
2052879 TAAAAATCAGGTGAAAAGAGAAAAAGC
1 TAAAAATCAGGTGAAAAGAGAAAAAGC
2052906 T
1 T
2052907 TTTATAGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.07, G:0.22, T:0.13
Consensus pattern (27 bp):
TAAAAATCAGGTGAAAAGAGAAAAAGC
Found at i:2054089 original size:19 final size:19
Alignment explanation
Indices: 2054052--2054089 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2054042 GATAGATGTT
*
2054052 CAAAAAAAAAAAGCAAAAA
1 CAAAAAAAAAAAGAAAAAA
*
2054071 CAAAAAAACAAAGAAAAAA
1 CAAAAAAAAAAAGAAAAAA
2054090 TGAAGACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (19 bp):
CAAAAAAAAAAAGAAAAAA
Found at i:2055409 original size:42 final size:42
Alignment explanation
Indices: 2055363--2055451 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
2055353 GTGGTAGAAT
* * *
2055363 ATTTTATTTTTC-AAAGTTTCAAAGCCTCCGTTGTAAAGGAGC
1 ATTTTATTTTTCAAAAGTTTAAAAACCTCAGTTGT-AAGGAGC
* *
2055405 ATTTTATTTTTCAAAAGTTTAAAAACCTTAGTTGTGAGGAGC
1 ATTTTATTTTTCAAAAGTTTAAAAACCTCAGTTGTAAGGAGC
2055447 ATTTT
1 ATTTT
2055452 TCAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 23 0.56
43 18 0.44
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (42 bp):
ATTTTATTTTTCAAAAGTTTAAAAACCTCAGTTGTAAGGAGC
Found at i:2055882 original size:18 final size:18
Alignment explanation
Indices: 2055859--2055899 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2055849 GCATAGAAAA
* *
2055859 TCTTGGATTTAATTCAAC
1 TCTTGGAGTCAATTCAAC
2055877 TCTTGGAGTCAATTCAAC
1 TCTTGGAGTCAATTCAAC
2055895 TCTTG
1 TCTTG
2055900 AATTCTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (18 bp):
TCTTGGAGTCAATTCAAC
Found at i:2056514 original size:32 final size:32
Alignment explanation
Indices: 2056409--2056519 Score: 118
Period size: 32 Copynumber: 3.5 Consensus size: 32
2056399 TTTATATATT
* *
2056409 TTTAATTGCATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGTATG
* * * * *
2056441 CTTATTTACATGATTAT-TAATTTATTTATTTG
1 TTTATTTGCATGATTATAT-ATTTAATTGTATG
*
2056473 TGTGA-TTGCATGATTATATATTTAATTGTATG
1 T-TTATTTGCATGATTATATATTTAATTGTATG
2056505 TTTATTTGCATGATT
1 TTTATTTGCATGATT
2056520 TACATTGTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
31 3 0.05
32 55 0.90
33 3 0.05
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (32 bp):
TTTATTTGCATGATTATATATTTAATTGTATG
Found at i:2056569 original size:20 final size:20
Alignment explanation
Indices: 2056384--2056562 Score: 76
Period size: 20 Copynumber: 8.9 Consensus size: 20
2056374 ATTTTTCTTT
* *
2056384 TATTTATTTGCATGGTTTATA
1 TATTTAATTGCAT-GATTATA
2056405 TATTTTTAATTGCATGATTATA
1 TA--TTTAATTGCATGATTATA
*
2056427 TATTTAATTGCATGCTTATTTACA
1 TATTTAATTGCATG---A-TTATA
* *
2056451 TGATTATTAATT-TAT--TTATT
1 T-A-T-TTAATTGCATGATTATA
* * *
2056471 TGTGTGATTGCATGATTATA
1 TATTTAATTGCATGATTATA
*
2056491 TATTTAATTGTATG--T-T-
1 TATTTAATTGCATGATTATA
2056507 TA--T--TTGCATGATT-TA
1 TATTTAATTGCATGATTATA
*
2056522 CATTGTTAATTGCATGATTATA
1 TA-T-TTAATTGCATGATTATA
2056544 TATTTAATTGCATGATTAT
1 TATTTAATTGCATGATTAT
2056563 TAATTTATTT
Statistics
Matches: 118, Mismatches: 18, Indels: 45
0.65 0.10 0.25
Matches are distributed among these distances:
12 6 0.05
14 3 0.03
15 1 0.01
16 2 0.02
17 5 0.04
18 4 0.03
19 1 0.01
20 46 0.39
21 13 0.11
22 11 0.09
23 11 0.09
24 5 0.04
25 1 0.01
26 3 0.03
27 6 0.05
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (20 bp):
TATTTAATTGCATGATTATA
Found at i:2056665 original size:19 final size:19
Alignment explanation
Indices: 2056628--2056667 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2056618 TTTATTATTA
* *
2056628 TTATTGCATGATTTTATAT
1 TTATTGCATGATATAATAT
2056647 TTATTGCATGATATAATAT
1 TTATTGCATGATATAATAT
2056666 TT
1 TT
2056668 TATGTTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (19 bp):
TTATTGCATGATATAATAT
Found at i:2056675 original size:25 final size:25
Alignment explanation
Indices: 2056638--2056690 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
2056628 TTATTGCATG
*
2056638 ATTTTATATTTATTGCATGATATAAT
1 ATTTTATAGTTATTGCATGAT-TAAT
*
2056664 ATTTTAT-GTTATTGTATGATTAAT
1 ATTTTATAGTTATTGCATGATTAAT
2056688 ATT
1 ATT
2056691 ATATTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 11 0.44
26 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (25 bp):
ATTTTATAGTTATTGCATGATTAAT
Found at i:2061882 original size:23 final size:24
Alignment explanation
Indices: 2061834--2061883 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
2061824 CCACATTGAG
* *
2061834 TAAAAAGATTATTTATATGTGGTT
1 TAAAAAGATTACTTATATGTGATT
2061858 TAAAAGAGATTACTTATAT-T-ATT
1 TAAAA-AGATTACTTATATGTGATT
2061881 TAA
1 TAA
2061884 GTAATTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 6 0.26
25 12 0.52
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (24 bp):
TAAAAAGATTACTTATATGTGATT
Found at i:2067594 original size:22 final size:22
Alignment explanation
Indices: 2067556--2067612 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
2067546 TATAATCAGT
* * *
2067556 ATAATTTAATAAT-AATTATTG
1 ATAACTTAATAGTAAATTAGTG
*
2067577 ATAACTTAGTAGTAAATTAGTG
1 ATAACTTAATAGTAAATTAGTG
2067599 ATAACTTAATAGTA
1 ATAACTTAATAGTA
2067613 GACGAATGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAGTG
Found at i:2067644 original size:22 final size:21
Alignment explanation
Indices: 2067556--2067645 Score: 65
Period size: 22 Copynumber: 4.1 Consensus size: 21
2067546 TATAATCAGT
* * *
2067556 ATAATTTAATAATAATTATTG
1 ATAACTTAATAGTAATAATTG
* * *
2067577 ATAACTTAGTAGTAAATTAGTG
1 ATAACTTAATAGT-AATAATTG
*
2067599 ATAACTTAATAGTAGACGAA-TG
1 ATAACTTAATAGTA-A-TAATTG
*
2067621 ATAATTTAATAGTCAATAATTG
1 ATAACTTAATAGT-AATAATTG
2067643 ATA
1 ATA
2067646 GCTTTTTAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.24
22 40 0.73
23 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (21 bp):
ATAACTTAATAGTAATAATTG
Found at i:2067778 original size:22 final size:22
Alignment explanation
Indices: 2067752--2067858 Score: 124
Period size: 22 Copynumber: 4.9 Consensus size: 22
2067742 ACTACATCAA
* *
2067752 TGATAACTTAATAAAAAATAAG
1 TGATAACTTAATAATAAATTAG
* * *
2067774 TGATAACTTAATAGTTAATTAT
1 TGATAACTTAATAATAAATTAG
*
2067796 TGATAAGTTAATAATAAATTAG
1 TGATAACTTAATAATAAATTAG
* *
2067818 TGATAATTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATTAG
* *
2067840 TGATAATTTAATAGTAAAT
1 TGATAACTTAATAATAAAT
2067859 CAATTTTAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAG
Found at i:2067858 original size:44 final size:44
Alignment explanation
Indices: 2067752--2068268 Score: 204
Period size: 44 Copynumber: 12.0 Consensus size: 44
2067742 ACTACATCAA
* ** * * *
2067752 TGATAACTTAATAAAAAATAAGTGATAACTTAATAGTTAATTAT
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * *
2067796 TGATAAGTTAATAATAAATTAGTGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * ** *
2067840 TGATAATTTAATAGTAAATCAATTTTAGTTTAATAGT-AATTAAT
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATT-AT
* * * * * * *
2067884 T--T-A-TT-GTAGTAAATCA-TAAACAAATTACTAGTAAATCAAT
1 TGATAATTTAATAGTAAATTAGT-GATAATTTAATAGTAAAT-TAT
* * * * **
2067924 T-ATAAATTAGA-AGTAAATAATTGATAATTTAGTAGCT-AACCAT
1 TGATAATTTA-ATAGTAAATTAGTGATAATTTAATAG-TAAATTAT
* * ** **
2067967 TGAAAATTTAAAAGTAAATTAGT-ATACCTTAATAGTAAATCGT
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
** * *
2068010 TGATAACATAATAGTTAATTAGTGATAACTTAATAGTAAATTA-
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * * * ** * *
2068053 TGCATAATTTAATA-TTAATAAATAATAATTTGGTAGTGAATCAT
1 TG-ATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * ** * *
2068097 TGATAATTTAATGGTAAATTGGTGATAATTTTGTAATAAATAAT
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * ** * * * *
2068141 TAAAAATTTCGTAGTAAATTAATGATAATATAATACTAAA-TACA
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTA-T
** * * * *
2068185 AAAAAATATAATAGTAAATTATTAATAATTTAATAGT-AA--AT
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
* * * * * **
2068226 TGATAACTTAGTAGTAAATCATTAATAACATAATAGTAAATTA
1 TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTA
2068269 ATAATAACTT
Statistics
Matches: 353, Mismatches: 98, Indels: 44
0.71 0.20 0.09
Matches are distributed among these distances:
38 1 0.00
39 18 0.05
40 8 0.02
41 30 0.08
42 6 0.02
43 77 0.22
44 211 0.60
45 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (44 bp):
TGATAATTTAATAGTAAATTAGTGATAATTTAATAGTAAATTAT
Found at i:2067930 original size:22 final size:22
Alignment explanation
Indices: 2067905--2067950 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2067895 AATCATAAAC
*
2067905 AAATTACTAGTAAATCAATT-AT
1 AAATTACAAGTAAAT-AATTGAT
*
2067927 AAATTAGAAGTAAATAATTGAT
1 AAATTACAAGTAAATAATTGAT
2067949 AA
1 AA
2067951 TTTAGTAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (22 bp):
AAATTACAAGTAAATAATTGAT
Found at i:2067955 original size:22 final size:22
Alignment explanation
Indices: 2067913--2067955 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2067903 ACAAATTACT
2067913 AGTAAATCAATTATAAATTAGA
1 AGTAAATCAATTATAAATTAGA
*
2067935 AGTAAAT-AATTGATAATTTAG
1 AGTAAATCAATT-ATAAATTAG
2067956 TAGCTAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (22 bp):
AGTAAATCAATTATAAATTAGA
Found at i:2068051 original size:22 final size:22
Alignment explanation
Indices: 2067974--2068066 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 22
2067964 CATTGAAAAT
* *
2067974 TTAAAAGTAAATTAGT-ATACC
1 TTAATAGTAAATTAGTGATAAC
*
2067995 TTAATAGTAAA-TCGTTGATAAC
1 TTAATAGTAAATTAG-TGATAAC
* *
2068017 ATAATAGTTAATTAGTGATAAC
1 TTAATAGTAAATTAGTGATAAC
*
2068039 TTAATAGTAAATTA-TGCATAAT
1 TTAATAGTAAATTAGTG-ATAAC
2068061 TTAATA
1 TTAATA
2068067 TTAATAAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.03
21 13 0.22
22 42 0.71
23 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (22 bp):
TTAATAGTAAATTAGTGATAAC
Found at i:2068180 original size:22 final size:22
Alignment explanation
Indices: 2068152--2068275 Score: 103
Period size: 22 Copynumber: 5.8 Consensus size: 22
2068142 AAAAATTTCG
*
2068152 TAGTAAATTAATGATAATATAA
1 TAGTAAATTAATAATAATATAA
* * *
2068174 TACTAAA-TACAAAAAAATATAA
1 TAGTAAATTA-ATAATAATATAA
* *
2068196 TAGTAAATTATTAATAATTTAA
1 TAGTAAATTAATAATAATATAA
* * *
2068218 TAGTAAATTGAT-A-ACT-TAG
1 TAGTAAATTAATAATAATATAA
* * *
2068237 TAGTAAATCATTAATAACATAA
1 TAGTAAATTAATAATAATATAA
2068259 TAGTAAATTAATAATAA
1 TAGTAAATTAATAATAA
2068276 CTTAGTTATA
Statistics
Matches: 76, Mismatches: 21, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
19 11 0.14
20 3 0.04
21 4 0.05
22 56 0.74
23 2 0.03
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (22 bp):
TAGTAAATTAATAATAATATAA
Found at i:2068270 original size:19 final size:19
Alignment explanation
Indices: 2068205--2068272 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
2068195 ATAGTAAATT
*
2068205 ATTAATAATTTAATAGTAA
1 ATTAATAACTTAATAGTAA
* *
2068224 ATTGATAACTTAGTAGTAAA
1 ATTAATAACTTAATAGT-AA
*
2068244 TCATTAATAACATAATAGTAA
1 --ATTAATAACTTAATAGTAA
2068265 ATTAATAA
1 ATTAATAA
2068273 TAACTTAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 22 0.55
20 2 0.05
21 2 0.05
22 14 0.35
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTAATAACTTAATAGTAA
Found at i:2068287 original size:22 final size:22
Alignment explanation
Indices: 2068228--2068281 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
2068218 TAGTAAATTG
*
2068228 ATAACTTAGTAGTAAATCATTA
1 ATAACTTAGTAGTAAATCAATA
* * *
2068250 ATAACATAATAGTAAATTAATA
1 ATAACTTAGTAGTAAATCAATA
2068272 ATAACTTAGT
1 ATAACTTAGT
2068282 TATAAACTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCAATA
Found at i:2068410 original size:22 final size:22
Alignment explanation
Indices: 2068390--2068473 Score: 96
Period size: 22 Copynumber: 3.8 Consensus size: 22
2068380 TAAACCATTT
* * *
2068390 ATAACTTAATAGCAAATCATTC
1 ATAACTTAATAGTAAATAATTG
** *
2068412 ATAAAGTAGTAGTAAATAATTG
1 ATAACTTAATAGTAAATAATTG
*
2068434 ATAAGTTAATAGTAAATAATTG
1 ATAACTTAATAGTAAATAATTG
*
2068456 ATAACTTAGTAGTAAATA
1 ATAACTTAATAGTAAATA
2068474 GCTTTATAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAATTG
Found at i:2068443 original size:44 final size:44
Alignment explanation
Indices: 2068390--2068473 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
2068380 TAAACCATTT
*
2068390 ATAACTTAATAGCAAATCATTCATAAAGTAGTAGTAAATAATTG
1 ATAACTTAATAGCAAATAATTCATAAAGTAGTAGTAAATAATTG
* * * **
2068434 ATAAGTTAATAGTAAATAATTGATAACTTAGTAGTAAATA
1 ATAACTTAATAGCAAATAATTCATAAAGTAGTAGTAAATA
2068474 GCTTTATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (44 bp):
ATAACTTAATAGCAAATAATTCATAAAGTAGTAGTAAATAATTG
Found at i:2068835 original size:22 final size:22
Alignment explanation
Indices: 2068794--2068855 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
2068784 AGTTAATAAT
* *
2068794 TGATAACTTAATAATCAATTAA
1 TGATAACTTAATAGTAAATTAA
**
2068816 TGATAACTTAATAGTAAATTTG
1 TGATAACTTAATAGTAAATTAA
2068838 TGATAA-TTAATAGTAAAT
1 TGATAACTTAATAGTAAAT
2068856 CAGTTTCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:2068922 original size:22 final size:23
Alignment explanation
Indices: 2068871--2068916 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
2068861 TCAGTTTAAA
* *
2068871 AGTAATTAATTAATAAACTTAGT
1 AGTAAATAATAAATAAACTTAGT
2068894 AGTAAATAATAAAT-AACTTAGT
1 AGTAAATAATAAATAAACTTAGT
2068916 A
1 A
2068917 AGAAATCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (23 bp):
AGTAAATAATAAATAAACTTAGT
Found at i:2068930 original size:22 final size:21
Alignment explanation
Indices: 2068871--2068931 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 21
2068861 TCAGTTTAAA
*
2068871 AGTAATTAATTAATAAACTTAGT
1 AGTAAATAA-TAAT-AACTTAGT
2068894 AGTAAATAATAAATAACTTAGT
1 AGTAAATAAT-AATAACTTAGT
2068916 AAG-AAATCAATAATAA
1 -AGTAAAT-AATAATAA
2068932 TTGTGTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (21 bp):
AGTAAATAATAATAACTTAGT
Found at i:2069010 original size:22 final size:22
Alignment explanation
Indices: 2068982--2069029 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2068972 AATTTAGTAG
2068982 TAGTTAATC-ATCAATAACTCAA
1 TAGTTAATCAAT-AATAACTCAA
*
2069004 TAGTTAATCAATAATAACTTAA
1 TAGTTAATCAATAATAACTCAA
2069026 TAGT
1 TAGT
2069030 AAATTATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (22 bp):
TAGTTAATCAATAATAACTCAA
Found at i:2069042 original size:22 final size:21
Alignment explanation
Indices: 2068994--2069076 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
2068984 GTTAATCATC
* * *
2068994 AATAACTCAATAGTTAATCAAT
1 AATAACTTAATAGTAAAT-TAT
2069016 AATAACTTAATAGTAAATTAT
1 AATAACTTAATAGTAAATTAT
*
2069037 AGATAATTTAATA-TAAATTAGT
1 A-ATAACTTAATAGTAAATTA-T
* * *
2069059 TATAACTTGATAATAAAT
1 AATAACTTAATAGTAAAT
2069077 CATTGTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 19 0.37
22 32 0.63
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (21 bp):
AATAACTTAATAGTAAATTAT
Found at i:2069185 original size:22 final size:21
Alignment explanation
Indices: 2069113--2069220 Score: 74
Period size: 22 Copynumber: 4.9 Consensus size: 21
2069103 GGTGATTTTT
*
2069113 TAGTAAA-TAATAAAAAATTTAA
1 TAGTAAATTAAT-AATAATTT-A
* * * *
2069135 GTAGTAAATCAATGATAACATAA
1 -TAGTAAATTAATAATAA-TTTA
*
2069158 TAGTAAATTACTAATAATTTA
1 TAGTAAATTAATAATAATTTA
* * *
2069179 GTTGTAAATCAATGATAATTTA
1 -TAGTAAATTAATAATAATTTA
2069201 TAGTAAATTAATTAATAATT
1 TAGTAAATTAA-TAATAATT
2069221 GGTAATTTTA
Statistics
Matches: 64, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
21 11 0.17
22 38 0.59
23 11 0.17
24 4 0.06
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (21 bp):
TAGTAAATTAATAATAATTTA
Found at i:2069195 original size:44 final size:45
Alignment explanation
Indices: 2069128--2069220 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 45
2069118 AATAATAAAA
2069128 AATTTAAGTAGTAAATCAATGATAACATAATAGTAAATT-ACTAAT
1 AATTTAAGTAGTAAATCAATGATAA-ATAATAGTAAATTAACTAAT
* * * *
2069173 AATTT-AGTTGTAAATCAATGATAATTTATAGTAAATTAATTAAT
1 AATTTAAGTAGTAAATCAATGATAAATAATAGTAAATTAACTAAT
2069217 AATT
1 AATT
2069221 GGTAATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 11 0.26
44 27 0.63
45 5 0.12
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (45 bp):
AATTTAAGTAGTAAATCAATGATAAATAATAGTAAATTAACTAAT
Found at i:2069259 original size:22 final size:22
Alignment explanation
Indices: 2069223--2069325 Score: 91
Period size: 22 Copynumber: 4.7 Consensus size: 22
2069213 TAATAATTGG
* * *
2069223 TAATTTTATCATAAATTATCGA
1 TAATTTAATAATAAATTATCAA
* * *
2069245 TAAATTAATAATAAATCAGT-TA
1 TAATTTAATAATAAATTA-TCAA
* * *
2069267 TTATTTTATAACAAATTATCAA
1 TAATTTAATAATAAATTATCAA
*
2069289 TAATTTAATAATAAATTATTAA
1 TAATTTAATAATAAATTATCAA
*
2069311 TAATTTAATAGTAAA
1 TAATTTAATAATAAA
2069326 CCAATTATAA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.02
22 61 0.97
23 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (22 bp):
TAATTTAATAATAAATTATCAA
Found at i:2069335 original size:22 final size:22
Alignment explanation
Indices: 2069244--2069473 Score: 140
Period size: 22 Copynumber: 10.5 Consensus size: 22
2069234 TAAATTATCG
*
2069244 ATAAATTAATAATAAATCAGTT-
1 ATAATTTAATAATAAATCA-TTA
* * * * *
2069266 ATTATTTTATAACAAATTATCA
1 ATAATTTAATAATAAATCATTA
*
2069288 ATAATTTAATAATAAATTATTA
1 ATAATTTAATAATAAATCATTA
* *
2069310 ATAATTTAATAGTAAACCAATT-
1 ATAATTTAATAATAAATC-ATTA
* * *
2069332 ATAAATTAGTAATAAATCATTC
1 ATAATTTAATAATAAATCATTA
* * * *
2069354 ATAAATTAGTAGTAAATCAATA
1 ATAATTTAATAATAAATCATTA
* *
2069376 TTAATTTAATAATAAATCATTG
1 ATAATTTAATAATAAATCATTA
* ** * *
2069398 ATAATTTAGTTGTATATCATTG
1 ATAATTTAATAATAAATCATTA
** **
2069420 ATAGCTTAATAGCAAATCATTA
1 ATAATTTAATAATAAATCATTA
** * *
2069442 ATAACATAGTAATAAATCAATA
1 ATAATTTAATAATAAATCATTA
*
2069464 ATAACTTAAT
1 ATAATTTAAT
2069474 TATCAATTAC
Statistics
Matches: 159, Mismatches: 46, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
21 4 0.03
22 152 0.96
23 3 0.02
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAATAAATCATTA
Found at i:2069407 original size:44 final size:44
Alignment explanation
Indices: 2069288--2069473 Score: 169
Period size: 44 Copynumber: 4.2 Consensus size: 44
2069278 CAAATTATCA
* * *
2069288 ATAATTTAATAATAAATTATTAATAATTTAATAGTAAACCAATT
1 ATAATTTAATAATAAATCATTAATAATTTAGTAGTAAATCAATT
* * * *
2069332 ATAAATTAGTAATAAATCATTCATAAATTAGTAGTAAATCAA-T
1 ATAATTTAATAATAAATCATTAATAATTTAGTAGTAAATCAATT
* * *
2069375 ATTAATTTAATAATAAATCATTGATAATTTAGTTGTATATC-ATT
1 A-TAATTTAATAATAAATCATTAATAATTTAGTAGTAAATCAATT
** ** ** * *
2069419 GATAGCTTAATAGCAAATCATTAATAACATAGTAATAAATCAATA
1 -ATAATTTAATAATAAATCATTAATAATTTAGTAGTAAATCAATT
*
2069464 ATAACTTAAT
1 ATAATTTAAT
2069474 TATCAATTAC
Statistics
Matches: 113, Mismatches: 25, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
43 3 0.03
44 107 0.95
45 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (44 bp):
ATAATTTAATAATAAATCATTAATAATTTAGTAGTAAATCAATT
Found at i:2069750 original size:20 final size:22
Alignment explanation
Indices: 2069722--2069761 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2069712 ACACAAATTT
2069722 TATCAATAA-TTACCAAAAATA
1 TATCAATAAGTTACCAAAAATA
*
2069743 TATC-ATAAGTTCCCAAAAA
1 TATCAATAAGTTACCAAAAA
2069762 ATTACTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (22 bp):
TATCAATAAGTTACCAAAAATA
Found at i:2069858 original size:21 final size:21
Alignment explanation
Indices: 2069810--2069850 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2069800 CAAAGATTAG
*
2069810 TAAAATTGTATCAATTGTTAC
1 TAAAATTGTATCAATAGTTAC
2069831 TAAAATTGTATCAATAGTTA
1 TAAAATTGTATCAATAGTTA
2069851 TCCAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
TAAAATTGTATCAATAGTTAC
Found at i:2069967 original size:3 final size:3
Alignment explanation
Indices: 2069950--2070012 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
2069940 TTAAAATTGA
*
2069950 ATT ATT AGT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2069996 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
2070013 AGTATAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 55 0.96
4 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2070175 original size:21 final size:21
Alignment explanation
Indices: 2070137--2070240 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
2070127 TAGAAATAAC
* *
2070137 ATCAAAAGATTATTAAAATTTT
1 ATCAAAA-ATTATCAAAATTAT
*
2070159 TTCAAAAATTATCAAAATTAT
1 ATCAAAAATTATCAAAATTAT
** *
2070180 ATCAATGATTATCAAAATTGT
1 ATCAAAAATTATCAAAATTAT
* *
2070201 ATCAATAATTACCAAAATTAT
1 ATCAAAAATTATCAAAATTAT
* * *
2070222 ATCATAAGTTACCAAAATT
1 ATCAAAAATTATCAAAATT
2070241 GTAGTGAAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
21 63 0.91
22 6 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (21 bp):
ATCAAAAATTATCAAAATTAT
Found at i:2070197 original size:42 final size:42
Alignment explanation
Indices: 2070144--2070243 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
2070134 AACATCAAAA
* * * *
2070144 GATTATTAAAATTTTTTCAAAAATTATCAAAATTATATCAAT
1 GATTATCAAAATTGTATCAAAAATTACCAAAATTATATCAAT
*
2070186 GATTATCAAAATTGTATCAATAATTACCAAAATTATATC-AT
1 GATTATCAAAATTGTATCAAAAATTACCAAAATTATATCAAT
* *
2070227 AAGTTACCAAAATTGTA
1 GA-TTATCAAAATTGTA
2070244 GTGAAGTATC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 3 0.06
42 47 0.94
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (42 bp):
GATTATCAAAATTGTATCAAAAATTACCAAAATTATATCAAT
Found at i:2070210 original size:12 final size:10
Alignment explanation
Indices: 2070146--2070240 Score: 50
Period size: 10 Copynumber: 9.1 Consensus size: 10
2070136 CATCAAAAGA
*
2070146 TTATTAAAATT
1 TTATCAAAA-T
* *
2070157 TTTTCAAAAA
1 TTATCAAAAT
2070167 TTATCAAAAT
1 TTATCAAAAT
*
2070177 TATATCAATGA-
1 T-TATCAA-AAT
2070188 TTATCAAAAT
1 TTATCAAAAT
2070198 TGTATCAATAA-
1 T-TATCAA-AAT
*
2070209 TTACCAAAAT
1 TTATCAAAAT
* *
2070219 TATATCATAAG
1 T-TATCAAAAT
*
2070230 TTACCAAAAT
1 TTATCAAAAT
2070240 T
1 T
2070241 GTAGTGAAGT
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
9 3 0.05
10 29 0.46
11 28 0.44
12 3 0.05
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:2074353 original size:12 final size:12
Alignment explanation
Indices: 2074336--2074361 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2074326 AACATTGTCA
2074336 TTATTTAAAATT
1 TTATTTAAAATT
2074348 TTATTTAAAATT
1 TTATTTAAAATT
2074360 TT
1 TT
2074362 TTAGCAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTAAAATT
Found at i:2075521 original size:22 final size:22
Alignment explanation
Indices: 2075490--2075539 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
2075480 TTAATCATAA
2075490 TTGC-AATTAATATCAATTTTT
1 TTGCAAATTAATATCAATTTTT
2075511 TTGCAAATTAATATCAATTTTT
1 TTGCAAATTAATATCAATTTTT
*
2075533 TTACAAA
1 TTGCAAA
2075540 ACTACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (22 bp):
TTGCAAATTAATATCAATTTTT
Found at i:2083021 original size:11 final size:11
Alignment explanation
Indices: 2083003--2083033 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2082993 AATCCCATAA
2083003 GAGATTTGTTT
1 GAGATTTGTTT
*
2083014 GGGATTTGTTT
1 GAGATTTGTTT
2083025 GAGATTTGT
1 GAGATTTGT
2083034 CAGATATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2083825 original size:25 final size:24
Alignment explanation
Indices: 2083797--2083852 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
2083787 TGAAGATTCA
*
2083797 AGATGTGAAAAGAGCCGAATGTTCG
1 AGATGTGAAAA-AGCCGAAAGTTCG
*
2083822 AGATGTGAAAAAGCTGAAAGTTCG
1 AGATGTGAAAAAGCCGAAAGTTCG
2083846 AGATGTG
1 AGATGTG
2083853 GGAAGAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (24 bp):
AGATGTGAAAAAGCCGAAAGTTCG
Done.