Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 42 of 195
Found at i:8782705 original size:23 final size:23
Alignment explanation
Indices: 8782679--8782726 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
8782669 GTGGATTAGA
*
8782679 GCCAACATTACAACTAAGACATG
1 GCCAACATTACAAATAAGACATG
8782702 GCCAACATTACAAATAAGACATG
1 GCCAACATTACAAATAAGACATG
8782725 GC
1 GC
8782727 TGCCTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.25, G:0.15, T:0.17
Consensus pattern (23 bp):
GCCAACATTACAAATAAGACATG
Found at i:8783838 original size:18 final size:19
Alignment explanation
Indices: 8783812--8783855 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8783802 ACGAATTGAA
* *
8783812 TTATATATATTTATTAATTT
1 TTATATATGTTT-TAAATTT
8783832 TTATATATGTTTTAAATTT
1 TTATATATGTTTTAAATTT
8783851 TTATA
1 TTATA
8783856 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATATATGTTTTAAATTT
Found at i:8798097 original size:13 final size:14
Alignment explanation
Indices: 8798065--8798102 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8798055 TATTTAAGAT
8798065 TATTAAAAATTAAA
1 TATTAAAAATTAAA
*
8798079 TTTTAAAAATTAAA
1 TATTAAAAATTAAA
8798093 -ATTAAAAATT
1 TATTAAAAATT
8798103 GAACACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTAAAAATTAAA
Found at i:8799159 original size:39 final size:39
Alignment explanation
Indices: 8799061--8799165 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
8799051 TTTTTTTTAG
* * *
8799061 CACCAATATAGGATGATCCAAGATACGGGTCTTGTTCAA
1 CACCAATATAGCATGATCCACGATACGAGTCTTGTTCAA
* * * *
8799100 TATCAATATAGCATTATCCACGATACGAGTCATT-TTCAC
1 CACCAATATAGCATGATCCACGATACGAGTC-TTGTTCAA
** *
8799139 CACCAATATAATATGATCCACCATACG
1 CACCAATATAGCATGATCCACGATACG
8799166 GATCATCTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 50 0.96
40 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (39 bp):
CACCAATATAGCATGATCCACGATACGAGTCTTGTTCAA
Found at i:8800766 original size:159 final size:157
Alignment explanation
Indices: 8800463--8801042 Score: 515
Period size: 159 Copynumber: 3.7 Consensus size: 157
8800453 TGAAATCACA
* * * ** * ** *
8800463 TTTGTGAAAGGTAAAAACTATTGCATATTTTGTTTTGTGATTCTGATGGTGTATTGTGATTATTG
1 TTTGTGAAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTATGTATTATGATTATTG
* * * * *
8800528 ATGAAACAGAT-GTATAGTAATTGAAAGACTAAATCATTTTAA-GAAATTTAGTATTTAACTATA
66 ATGAAATAGATAGTGTAGTAATTGAAAGACTAAA-CA-TTGAAGGAAA-ATAGTATTGAACTATA
* *
8800591 T-ATTATATTGTACTTATTGAAACGTAATGGC
128 TAATT-TATTGTGCTTATTGAAA-GTAATGAC
* * * * *
8800622 TTTGTAAAAGGTGAATACTATTACGTATTTTGCTTTGTGATTCTAGTTATGTATTATAATTATTG
1 TTTGTGAAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTATGTATTATGATTATTG
* * * * *
8800687 ATGAAATAAATAGTGTAGTAATTGAAAGCCTAAACATTGAAGGACAAATGGTATTGAATTACATA
66 ATGAAATAGATAGTGTAGTAATTGAAAGACTAAACATTGAAGGA-AAATAGTATTGAACTATATA
* * * * **
8800752 ATTTATTTTGCTTATAGAGAGAATATTCTC
130 ATTTATTGTGCTTATTGA-A-AGTAATGAC
* * * *
8800782 TTTGTGAAA-GTGAAAACTATTACGTATTTTACTTTGTAATTTTGGTAATGTATTAT-ATTGTTG
1 TTTGTGAAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTATGTATTATGATTATTG
* * * * *
8800845 ATAAAATAGATAATGTAGTAATTGAAAGACTAAAACATTGTAGGAAATTCAATATTGAACTATAT
66 ATGAAATAGATAGTGTAGTAATTGAAAGACT-AAACATTGAAGGAAAAT-AGTATTGAACTATAT
* *
8800910 AATGTATTGTGCTTATTGAAATGCAATGAC
129 AATTTATTGTGCTTATTGAAA-GTAATGAC
* * * * * * * * *
8800940 TTTATGAAAGGTGAAAATTATTATGTATTTTATTTTGTGATT-TGGATGTGTGTTGTGATTGTTG
1 TTTGTGAAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTATGTATTATGATTATTG
* ** *
8801004 ATGAAGTAGATAGTGTAAAAATTGAAAGCCTAAACATTG
66 ATGAAATAGATAGTGTAGTAATTGAAAGACTAAACATTG
8801043 TGGGATGAAT
Statistics
Matches: 339, Mismatches: 71, Indels: 23
0.78 0.16 0.05
Matches are distributed among these distances:
157 1 0.00
158 69 0.20
159 230 0.68
160 38 0.11
161 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (157 bp):
TTTGTGAAAGGTGAAAACTATTACGTATTTTACTTTGTGATTCTGGTTATGTATTATGATTATTG
ATGAAATAGATAGTGTAGTAATTGAAAGACTAAACATTGAAGGAAAATAGTATTGAACTATATAA
TTTATTGTGCTTATTGAAAGTAATGAC
Found at i:8801073 original size:21 final size:22
Alignment explanation
Indices: 8801049--8801099 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
8801039 ATTGTGGGAT
* *
8801049 GAATGGTATTGAAC-TGTGTTG
1 GAATGATAGTGAACTTGTGTTG
*
8801070 GAATGATAGTGTACTTGTGTTG
1 GAATGATAGTGAACTTGTGTTG
8801092 GAATGATA
1 GAATGATA
8801100 ATTGTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.37
Consensus pattern (22 bp):
GAATGATAGTGAACTTGTGTTG
Found at i:8801584 original size:20 final size:21
Alignment explanation
Indices: 8801555--8801608 Score: 85
Period size: 20 Copynumber: 2.6 Consensus size: 21
8801545 TTTTTATGGA
8801555 TATGGATGTTATGGATATTTT
1 TATGGATGTTATGGATATTTT
8801576 GT-T-GATGTTATGGATATTTT
1 -TATGGATGTTATGGATATTTT
8801596 TATGGATGTTATG
1 TATGGATGTTATG
8801609 AATTAACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 10 0.33
22 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (21 bp):
TATGGATGTTATGGATATTTT
Found at i:8801896 original size:20 final size:21
Alignment explanation
Indices: 8801859--8801897 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8801849 ACAAATGAAA
**
8801859 TTTAGTTATTATTGATGGAAT
1 TTTAGTTATTATCAATGGAAT
8801880 TTTAGTT-TTATCAATGGA
1 TTTAGTTATTATCAATGGA
8801898 TTACTGAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (21 bp):
TTTAGTTATTATCAATGGAAT
Found at i:8804527 original size:17 final size:17
Alignment explanation
Indices: 8804501--8804534 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8804491 ATCTCAAGTT
8804501 TGAAAATGTTTT-GCTC
1 TGAAAATGTTTTCGCTC
8804517 TGAAGAATGTTTTCGCTC
1 TGAA-AATGTTTTCGCTC
8804535 AACAGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (17 bp):
TGAAAATGTTTTCGCTC
Found at i:8813717 original size:33 final size:34
Alignment explanation
Indices: 8813653--8813717 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
8813643 TATTTTTTTT
** *
8813653 TATTTTAATTTTTTTTACAACCAAAATTTATAAA
1 TATTTTAATTTTTTTTACAAAAAAAAATTATAAA
8813687 TATTTT-ATTTTTTTT-CAAAAAAACAATTATA
1 TATTTTAATTTTTTTTACAAAAAAA-AATTATA
8813718 CTCCTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.22
33 15 0.56
34 6 0.22
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (34 bp):
TATTTTAATTTTTTTTACAAAAAAAAATTATAAA
Found at i:8813932 original size:23 final size:24
Alignment explanation
Indices: 8813889--8813933 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
8813879 TAAACTTATT
*
8813889 TATTTAATTTTTGAATATATTACA
1 TATTTAATTTTTAAATATATTACA
8813913 TATTT-ATTTTATAAAT-TATTA
1 TATTTAATTTT-TAAATATATTA
8813934 ATAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTAATTTTTAAATATATTACA
Found at i:8817436 original size:6 final size:6
Alignment explanation
Indices: 8817419--8817454 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
8817409 AAACTTATTG
*
8817419 ATTAAA AATAAA ATTAAA ATT-AA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
8817455 AAGGGGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:8817443 original size:11 final size:11
Alignment explanation
Indices: 8817423--8817453 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8817413 TTATTGATTA
*
8817423 AAAATAAAATT
1 AAAATTAAATT
8817434 AAAATTAAATT
1 AAAATTAAATT
8817445 AAAATTAAA
1 AAAATTAAA
8817454 AAAGGGGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTAAATT
Found at i:8818857 original size:14 final size:14
Alignment explanation
Indices: 8818817--8818863 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
8818807 TTAAGATTAT
8818817 AATAATTTT-AGATA
1 AATAATTTTAAG-TA
8818831 CAATAAGTTTTAAGTA
1 -AATAA-TTTTAAGTA
*
8818847 AATAATTTTAAGAA
1 AATAATTTTAAGTA
8818861 AAT
1 AAT
8818864 GTAAGTAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.38
15 10 0.34
16 6 0.21
17 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (14 bp):
AATAATTTTAAGTA
Found at i:8820322 original size:28 final size:28
Alignment explanation
Indices: 8820267--8820320 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
8820257 AATTTAACAA
* *
8820267 ATTTAACATATTAATAATATAAAAAAAT
1 ATTTAACATATTAAAAAAATAAAAAAAT
8820295 ATTT-ACATATTAAAAAAATAAAAAAA
1 ATTTAACATATTAAAAAAATAAAAAAA
8820321 ATTAATACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (28 bp):
ATTTAACATATTAAAAAAATAAAAAAAT
Found at i:8821024 original size:22 final size:23
Alignment explanation
Indices: 8820989--8821037 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
8820979 TGGTGATTTT
*
8820989 ATTACATTGATGATATTAGAATG
1 ATTACATTAATGATATTAGAATG
8821012 ATTAC-TTAATGATATTAGAATG
1 ATTACATTAATGATATTAGAATG
8821034 ATTA
1 ATTA
8821038 ATTTTCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (23 bp):
ATTACATTAATGATATTAGAATG
Found at i:8827955 original size:21 final size:21
Alignment explanation
Indices: 8827929--8827968 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8827919 AAAGAAAAAA
8827929 AATTAATTAATTT-TATTTATT
1 AATTAA-TAATTTATATTTATT
8827950 AATTAATAATTTATATTTA
1 AATTAATAATTTATATTTA
8827969 CTTTTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTAATAATTTATATTTATT
Found at i:8828436 original size:2 final size:2
Alignment explanation
Indices: 8828429--8828463 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8828419 AATAAATTAT
8828429 TA TA TA TA 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 TA TA TA TA T
8828464 CAAACGAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8828631 original size:16 final size:17
Alignment explanation
Indices: 8828612--8828643 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8828602 ATTAATTATT
8828612 TTAATAT-TTTTATTAA
1 TTAATATATTTTATTAA
8828628 TTAATATATTTTATTA
1 TTAATATATTTTATTA
8828644 TAAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATATATTTTATTAA
Found at i:8829892 original size:22 final size:22
Alignment explanation
Indices: 8829866--8829915 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
8829856 AAAATCATAC
8829866 AATTAAT-AAAATT-ATAAGTAA
1 AATTAATAAAAATTAATAA-TAA
*
8829887 AGATTAGTAAAAATTAATAATAA
1 A-ATTAATAAAAATTAATAATAA
8829910 AATTAA
1 AATTAA
8829916 GAGTAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 9 0.38
23 10 0.42
24 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (22 bp):
AATTAATAAAAATTAATAATAA
Found at i:8833420 original size:25 final size:25
Alignment explanation
Indices: 8833386--8833433 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
8833376 AAATGATTAT
*
8833386 TTAAGATAATTTTAGTAAAAAAAATC
1 TTAAGATAA-TATAGTAAAAAAAATC
8833412 TTAA-ATAATATAGTAAAAAAAA
1 TTAAGATAATATAGTAAAAAAAA
8833434 AGTGAAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 4 0.19
26 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (25 bp):
TTAAGATAATATAGTAAAAAAAATC
Found at i:8840986 original size:2 final size:2
Alignment explanation
Indices: 8840979--8841003 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8840969 TAAGGAACTT
8840979 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8841004 GTGAATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8843488 original size:13 final size:14
Alignment explanation
Indices: 8843470--8843506 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
8843460 ATTCGGCAAC
8843470 CAAAAAAA-AAAAA
1 CAAAAAAAGAAAAA
8843483 CAAAAAAAG-AAAA
1 CAAAAAAAGAAAAA
8843496 -AAAAAAAGAAA
1 CAAAAAAAGAAA
8843507 TCGCCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (14 bp):
CAAAAAAAGAAAAA
Found at i:8843503 original size:12 final size:12
Alignment explanation
Indices: 8843471--8843506 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8843461 TTCGGCAACC
8843471 AAAAAAAAA-AA
1 AAAAAAAAAGAA
*
8843482 ACAAAAAAAGAA
1 AAAAAAAAAGAA
8843494 AAAAAAAAAGAA
1 AAAAAAAAAGAA
8843506 A
1 A
8843507 TCGCCTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.92, C:0.03, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:8847370 original size:20 final size:20
Alignment explanation
Indices: 8847347--8847387 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8847337 TTTTGATGGA
8847347 TTTCTG-GGCCTTTAATTTGT
1 TTTCTGTGG-CTTTAATTTGT
8847367 TTTCTGTGGCTTTAATTTGT
1 TTTCTGTGGCTTTAATTTGT
8847387 T
1 T
8847388 CTTGACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.59
Consensus pattern (20 bp):
TTTCTGTGGCTTTAATTTGT
Found at i:8868027 original size:40 final size:41
Alignment explanation
Indices: 8867931--8868059 Score: 179
Period size: 41 Copynumber: 3.2 Consensus size: 41
8867921 GCCTTTCAGA
*
8867931 TTTTTAACATTTAAAGTTCATTGCCTCTGGTCAAAAGAGCT
1 TTTTTAACATTTAAAGTTTATTGCCTCTGGTCAAAAGAGCT
* * *
8867972 TTTTTAACATTTAAAGTTTGTTGCCTCTGGTGAAAGGAGC-
1 TTTTTAACATTTAAAGTTTATTGCCTCTGGTCAAAAGAGCT
* * * *
8868012 TTTTTAACATTTAAAGTTTATTACCTTTGGTCAAAATAGTT
1 TTTTTAACATTTAAAGTTTATTGCCTCTGGTCAAAAGAGCT
8868053 TTTTTAA
1 TTTTTAA
8868060 TTTCAAAAGC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
40 33 0.43
41 43 0.57
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTTTAACATTTAAAGTTTATTGCCTCTGGTCAAAAGAGCT
Found at i:8868234 original size:39 final size:39
Alignment explanation
Indices: 8868191--8868593 Score: 373
Period size: 39 Copynumber: 10.3 Consensus size: 39
8868181 AGCCTTTGAA
* * *
8868191 ATTTAAAATTTATTGCATTTGGTTAAAGGAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
* * * * * *
8868230 ATTTAAAGTTTATTACCTCTGGTGAGAGGAGCTTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC-TTTTATC
* ** * *
8868270 ATTTAAAGTTTGTTACCTTTGGTTAAATAAG-TTTTTTGA
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTAT-C
* * * * ***
8868309 ATTTAAAATTTGTTGCCTCTGGTGAGAA-GAGCCTTTGGA
1 ATTTAAAGTTTGTTGCCTTTGGTTA-AAGGAGCTTTTATC
* *
8868348 ATTTAAAGTTTGTTGCATTTGGTTAAAGAAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
* * * * *
8868387 ATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCTTTTGA-A
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTT-ATC
8868426 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
* * * * *
8868465 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAACCTTTTAAC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGG-AGCTTTTATC
*
8868505 ATTTAAAGTTTGTTGCATTTGGTTAAAGGAGCTTTTATC
1 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
* * * * *
8868544 ATTTAAAGTTTGTTGCCTCTGGTGAGAA-AAGCTTTTTTA
1 ATTTAAAGTTTGTTGCCTTTGGTTA-AAGGAGCTTTTATC
8868583 ATTTAAAGTTT
1 ATTTAAAGTTT
8868594 CATAGCCTTT
Statistics
Matches: 293, Mismatches: 62, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
38 7 0.02
39 214 0.73
40 72 0.25
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (39 bp):
ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATC
Found at i:8868391 original size:78 final size:78
Alignment explanation
Indices: 8868152--8868593 Score: 598
Period size: 78 Copynumber: 5.6 Consensus size: 78
8868142 AGATTTTTGA
* * * *
8868152 ATTTAAAGTTTGTTGACTCTGGTGAGATGAGCCTTTGAAATTTAAAATTTATTGCATTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCATTTGGTTAA
8868217 AGGAGCTTTTATC
66 AGGAGCTTTTATC
* * * * * * *
8868230 ATTTAAAGTTTATTACCTCTGGTGAGAGGAGCTTTTTAACATTTAAAGTTTGTTACCTTTGGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAA-ATTTAAAGTTTGTTGCATTTGGTTA
** * *
8868295 AATAAG-TTTTTTGA
65 AAGGAGCTTTTAT-C
* *
8868309 ATTTAAAATTTGTTGCCTCTGGTGAGAAGAGCCTTTGGAATTTAAAGTTTGTTGCATTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCATTTGGTTAA
*
8868374 AGAAGCTTTTATC
66 AGGAGCTTTTATC
* * *
8868387 ATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCTTTTGAAATTTAAAGTTTGTTGCCTTTGGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCATTTGGTTAA
8868452 AGGAGCTTTTATC
66 AGGAGCTTTTATC
* * *
8868465 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAACCTTTTAACATTTAAAGTTTGTTGCATTTGGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAA-ATTTAAAGTTTGTTGCATTTGGTTA
8868530 AAGGAGCTTTTATC
65 AAGGAGCTTTTATC
* * **
8868544 ATTTAAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTTTAATTTAAAGTTT
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTT
8868594 CATAGCCTTT
Statistics
Matches: 318, Mismatches: 42, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
78 184 0.58
79 134 0.42
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (78 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCATTTGGTTAA
AGGAGCTTTTATC
Found at i:8868509 original size:157 final size:156
Alignment explanation
Indices: 8868145--8868593 Score: 659
Period size: 157 Copynumber: 2.9 Consensus size: 156
8868135 TCCTCTCAGA
* * * *
8868145 TTTT-TGAATTTAAAGTTTGTTGACTCTGGTGAGATGAGCCTTTGAAATTTAAAATTTATTGCAT
1 TTTTATGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCAT
* * *
8868209 TTGGTTAAAGGAGCTTTTATCATTTAAAGTTTATTACCTCTGGTGAGAGGAGCTTTTTAACATTT
66 TTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAA-ATTT
*
8868274 AAAGTTTGTTACCTTTGGTTAAATAAG
130 AAAGTTTGTTACCTTTGGTTAAAGAAG
* * *
8868301 TTTTTTGAATTTAAAATTTGTTGCCTCTGGTGAGAAGAGCCTTTGGAATTTAAAGTTTGTTGCAT
1 TTTTATGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCAT
* * *
8868366 TTGGTTAAAGAAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCTTTTGAAATTTA
66 TTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAAATTTA
* *
8868431 AAGTTTGTTGCCTTTGGTTAAAGGAG
131 AAGTTTGTTACCTTTGGTTAAAGAAG
* * * *
8868457 CTTTTAT-CATTTAAAGTTTGTTGCCTCTGGTGAGAGGAACCTTTTAACATTTAAAGTTTGTTGC
1 -TTTTATGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAA-ATTTAAAGTTTGTTGC
* *
8868521 ATTTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGAAAAGCTTTTTTAATT
64 ATTTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAAATT
8868586 TAAAGTTT
129 TAAAGTTT
8868594 CATAGCCTTT
Statistics
Matches: 264, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
156 66 0.25
157 198 0.75
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (156 bp):
TTTTATGAATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTGAAATTTAAAGTTTGTTGCAT
TTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCTTTTTAAATTTA
AAGTTTGTTACCTTTGGTTAAAGAAG
Found at i:8869768 original size:23 final size:23
Alignment explanation
Indices: 8869742--8869812 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
8869732 AATTTTTTAG
*
8869742 AAAAAAAATAAAT-AAATAAAAT
1 AAAAAAAAAAAATAAAATAAAAT
* *
8869764 AAAAAACAAAACTAAAATAAAAT
1 AAAAAAAAAAAATAAAATAAAAT
*
8869787 AAAGACCTAAAAAAATATAAATAAAA
1 AAA-A--AAAAAAAATA-AAATAAAA
8869813 AAATTTAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 10 0.26
23 12 0.32
24 1 0.03
26 7 0.18
27 8 0.21
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.15
Consensus pattern (23 bp):
AAAAAAAAAAAATAAAATAAAAT
Found at i:8869826 original size:16 final size:14
Alignment explanation
Indices: 8869742--8869816 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 14
8869732 AATTTTTTAG
8869742 AAAAAAA-ATAAAT
1 AAAAAAATATAAAT
8869755 AAATAAAATA-AAA-
1 AAA-AAAATATAAAT
*
8869768 AACAAAACTA-AAAT
1 AA-AAAAATATAAAT
* * **
8869782 AAAATAA-AGACCT
1 AAAAAAATATAAAT
8869795 AAAAAAATATAAAT
1 AAAAAAATATAAAT
8869809 AAAAAAAT
1 AAAAAAAT
8869817 TTAATAATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
12 1 0.02
13 24 0.51
14 21 0.45
15 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.01, T:0.16
Consensus pattern (14 bp):
AAAAAAATATAAAT
Found at i:8869944 original size:10 final size:10
Alignment explanation
Indices: 8869929--8869966 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
8869919 TTGCTAAAAA
8869929 ATAAAAAATT
1 ATAAAAAATT
8869939 ATAAAAAATT
1 ATAAAAAATT
8869949 ATAAATAAA--
1 ATAAA-AAATT
8869958 ATAAAAAAT
1 ATAAAAAAT
8869967 AAATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.12
9 5 0.19
10 15 0.58
11 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:8869946 original size:19 final size:20
Alignment explanation
Indices: 8869929--8869966 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8869919 TTGCTAAAAA
*
8869929 ATAAAAAATTATAAAAAATT
1 ATAAAAAATAATAAAAAATT
*
8869949 ATAAATAA-AATAAAAAAT
1 ATAAAAAATAATAAAAAAT
8869967 AAATTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAAATAATAAAAAATT
Found at i:8871058 original size:24 final size:26
Alignment explanation
Indices: 8871031--8871083 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
8871021 GAAACATGCA
*
8871031 AAAAAAAATCCAAAAG-AAAAAAA-G
1 AAAAAAAATCAAAAAGTAAAAAAATG
*
8871055 AAAAAAAATGAAAAAGTAAAAAAATG
1 AAAAAAAATCAAAAAGTAAAAAAATG
8871081 AAA
1 AAA
8871084 CACATGCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 7 0.28
26 4 0.16
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.08
Consensus pattern (26 bp):
AAAAAAAATCAAAAAGTAAAAAAATG
Found at i:8872386 original size:15 final size:16
Alignment explanation
Indices: 8872358--8872391 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8872348 TTAAACTTAT
*
8872358 AAAGCTTTTGTTTTTA
1 AAAGCTTTTGTTTTCA
8872374 AAAGCTTTT-TTTTCA
1 AAAGCTTTTGTTTTCA
8872389 AAA
1 AAA
8872392 TTTGATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (16 bp):
AAAGCTTTTGTTTTCA
Found at i:8872633 original size:34 final size:33
Alignment explanation
Indices: 8872590--8872811 Score: 145
Period size: 32 Copynumber: 6.8 Consensus size: 33
8872580 TTTAATCAAA
*
8872590 GTCATTTAATTTTTTAACTTATGGTTCAATTCTG
1 GTCATTTAATTTTTT-ACTTATGGTTCAATTCAG
* *
8872624 GTCACTTAATTTTTTACCTA-GGTTCAATTCAG
1 GTCATTTAATTTTTTACTTATGGTTCAATTCAG
* * * *
8872656 GTCATTTAATTTTTTGACTTATGGCTAAATCCTG
1 GTCATTTAATTTTTT-ACTTATGGTTCAATTCAG
* * * * *
8872690 ATCATTT-ATTTCTTATCTCA--ATTCAA-TCTAA
1 GTCATTTAATTTTTTA-CTTATGGTTCAATTC-AG
*** * *
8872721 GTCATTTAATTTTTTGACTTACAATTTAGTCTCA-
1 GTCATTTAATTTTTT-ACTTATGGTTCAAT-TCAG
* *
8872755 GTCATTT-ATTTTTTACCT-TGGTTCAATTTAG
1 GTCATTTAATTTTTTACTTATGGTTCAATTCAG
*
8872786 ATCATTTAATTTTTTGACTTATGGTT
1 GTCATTTAATTTTTT-ACTTATGGTT
8872812 TAGTATGGTC
Statistics
Matches: 142, Mismatches: 32, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
30 3 0.02
31 19 0.13
32 45 0.32
33 28 0.20
34 44 0.31
35 1 0.01
36 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.50
Consensus pattern (33 bp):
GTCATTTAATTTTTTACTTATGGTTCAATTCAG
Found at i:8872815 original size:65 final size:66
Alignment explanation
Indices: 8872564--8872813 Score: 226
Period size: 65 Copynumber: 3.8 Consensus size: 66
8872554 TCAAACCTAG
* * * * * *
8872564 TTATTTTTTGCCTTGGTTTAA-TCAAAGTCATTTAATTTTTTAACTTATGGTTCAAT-TCTGGTC
1 TTATTTTTTACCTTGGTTCAATTCAGAGTCATTTAATTTTTTGACTTATGGTTTAATCTC-AGTC
8872627 ACT
65 A-T
* * * * *
8872630 TAATTTTTTACCTAGGTTCAATTCAG-GTCATTTAATTTTTTGACTTATGGCTAAATC-CTGATC
1 TTATTTTTTACCTTGGTTCAATTCAGAGTCATTTAATTTTTTGACTTATGGTTTAATCTCAG-TC
8872693 AT
65 AT
* * *** *** *
8872695 TTATTTCTTATCTCAATTCAA-TCTA-AGTCATTTAATTTTTTGACTTACAATTTAGTCTCAGTC
1 TTATTTTTTACCTTGGTTCAATTC-AGAGTCATTTAATTTTTTGACTTATGGTTTAATCTCAGTC
8872758 AT
65 AT
*
8872760 TTATTTTTTACCTTGGTTCAATTTAGA-TCATTTAATTTTTTGACTTATGGTTTA
1 TTATTTTTTACCTTGGTTCAATTCAGAGTCATTTAATTTTTTGACTTATGGTTTA
8872814 GTATGGTCAC
Statistics
Matches: 145, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
64 2 0.01
65 88 0.61
66 52 0.36
67 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (66 bp):
TTATTTTTTACCTTGGTTCAATTCAGAGTCATTTAATTTTTTGACTTATGGTTTAATCTCAGTCA
T
Found at i:8873043 original size:34 final size:34
Alignment explanation
Indices: 8872985--8873103 Score: 112
Period size: 34 Copynumber: 3.4 Consensus size: 34
8872975 CCTGGTTACC
* * * * * *
8872985 TTTTTTTTTTTTAATTTCGCCTAAGACCACGTCA
1 TTTTATTTTTTTGACTTCGACTAAGACTAAGTCA
*
8873019 TTTTATTTTTTTGACTTCGACTAAGATTAAGTCA
1 TTTTATTTTTTTGACTTCGACTAAGACTAAGTCA
*
8873053 TTTTTATTTTATTTTTTGACTTTGACTAAGACTAAGTCA
1 -TTTTA---T-TTTTTTGACTTCGACTAAGACTAAGTCA
*
8873092 TTTCATTTTTTT
1 TTTTATTTTTTT
8873104 ACTATGGCTA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
34 33 0.47
35 6 0.09
38 5 0.07
39 26 0.37
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (34 bp):
TTTTATTTTTTTGACTTCGACTAAGACTAAGTCA
Found at i:8873068 original size:39 final size:40
Alignment explanation
Indices: 8873018--8873094 Score: 129
Period size: 39 Copynumber: 1.9 Consensus size: 40
8873008 AGACCACGTC
*
8873018 ATTTTATTTTTTTGACTTCGACTAAGATTAAGTCATTTTT
1 ATTTTATTTTTTTGACTTCGACTAAGACTAAGTCATTTTT
*
8873058 ATTTTA-TTTTTTGACTTTGACTAAGACTAAGTCATTT
1 ATTTTATTTTTTTGACTTCGACTAAGACTAAGTCATTT
8873095 CATTTTTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 29 0.83
40 6 0.17
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.53
Consensus pattern (40 bp):
ATTTTATTTTTTTGACTTCGACTAAGACTAAGTCATTTTT
Found at i:8873121 original size:33 final size:33
Alignment explanation
Indices: 8873058--8873122 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
8873048 AGTCATTTTT
* *
8873058 ATTTTATTTTTTGACTTTGACTAAGACTAAGTC
1 ATTTCATTTTTTGACTATGACTAAGACTAAGTC
* *
8873091 ATTTCATTTTTTTACTATGGCTAA-ATCTAAGT
1 ATTTCATTTTTTGACTATGACTAAGA-CTAAGT
8873123 TATCATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (33 bp):
ATTTCATTTTTTGACTATGACTAAGACTAAGTC
Found at i:8873533 original size:16 final size:17
Alignment explanation
Indices: 8873512--8873543 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8873502 TTTATATGTT
8873512 AATTATC-TTTAATTTC
1 AATTATCTTTTAATTTC
8873528 AATTATCTTTTAATTT
1 AATTATCTTTTAATTT
8873544 ATTTGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTATCTTTTAATTTC
Found at i:8875513 original size:57 final size:58
Alignment explanation
Indices: 8875410--8875535 Score: 170
Period size: 57 Copynumber: 2.2 Consensus size: 58
8875400 TTTTAAAAAG
* * *
8875410 ATAAAAAATATTTCAAAAAAATGTTTTGAAGAAAAGTTGAACTATCAA-TTTTTCTCAA
1 ATAAAAAATATTTCAAAAAAATATTTTGAAGAAAAATTGAAATATCAATTTTTTC-CAA
8875468 ATAAAGAAATATTTC--AAAAATATTTTG-AGAAAATATTGAAATATCAATTTTTTCCAA
1 ATAAA-AAATATTTCAAAAAAATATTTTGAAGAAAA-ATTGAAATATCAATTTTTTCCAA
8875525 ATAAAAAATAT
1 ATAAAAAATAT
8875536 ATATTTGAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
56 12 0.19
57 30 0.48
58 11 0.18
59 9 0.15
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (58 bp):
ATAAAAAATATTTCAAAAAAATATTTTGAAGAAAAATTGAAATATCAATTTTTTCCAA
Found at i:8880804 original size:2 final size:2
Alignment explanation
Indices: 8880791--8880834 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
8880781 TGGTTGGAGA
8880791 TC TC TAC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC T-C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8880834 T
1 T
8880835 TTTCCATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8883959 original size:4 final size:4
Alignment explanation
Indices: 8883952--8883984 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
8883942 TATACATATA
8883952 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
8883985 TTGTGTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:8885515 original size:84 final size:84
Alignment explanation
Indices: 8885369--8885537 Score: 275
Period size: 84 Copynumber: 2.0 Consensus size: 84
8885359 AACATTGCAG
* * * *
8885369 TTGGCACTTGCCAGCTAGGCATGTGTTAGGATAATATCAATGGGAAATGGGAGTGAGTAGTGAGA
1 TTGGCACTTGCCAGCTAGGCATGTCTTAAGATAATATCAATGGGAAATGGGAATGAGCAGTGAGA
8885434 GACATTTAAGTTGAATTTA
66 GACATTTAAGTTGAATTTA
* *
8885453 TTGGCACTTGCCAGCTTGGCATGTCTTAAGATAATATCAATGGGAATTGGGAATGAGCAGTGAGA
1 TTGGCACTTGCCAGCTAGGCATGTCTTAAGATAATATCAATGGGAAATGGGAATGAGCAGTGAGA
*
8885518 GATATTTAAGTTGAATTTA
66 GACATTTAAGTTGAATTTA
8885537 T
1 T
8885538 AAGTTTGAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (84 bp):
TTGGCACTTGCCAGCTAGGCATGTCTTAAGATAATATCAATGGGAAATGGGAATGAGCAGTGAGA
GACATTTAAGTTGAATTTA
Found at i:8894548 original size:20 final size:21
Alignment explanation
Indices: 8894520--8894558 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8894510 TACCAAATAC
8894520 ATTTGCTAAAAAC-AAAAACT
1 ATTTGCTAAAAACTAAAAACT
*
8894540 ATTTTCTAAAAACTAAAAA
1 ATTTGCTAAAAACTAAAAA
8894559 AAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTTGCTAAAAACTAAAAACT
Found at i:8894565 original size:23 final size:24
Alignment explanation
Indices: 8894533--8894587 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
8894523 TGCTAAAAAC
*
8894533 AAAAACTATTTTCTAAAAACTAA-
1 AAAAAATATTTTCTAAAAACTAAT
* *
8894556 AAAAAATATTTTCTTAAACCTAAT
1 AAAAAATATTTTCTAAAAACTAAT
8894580 AAAGAAAT
1 AAA-AAAT
8894588 GAAACATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 20 0.74
24 3 0.11
25 4 0.15
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAAAATATTTTCTAAAAACTAAT
Found at i:8895702 original size:9 final size:9
Alignment explanation
Indices: 8895688--8895716 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8895678 AAAAGAATTT
8895688 AAAAAAAAG
1 AAAAAAAAG
8895697 AAAAAAAA-
1 AAAAAAAAG
8895705 AAAAAAAAG
1 AAAAAAAAG
8895714 AAA
1 AAA
8895717 GAGGAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:8897614 original size:22 final size:23
Alignment explanation
Indices: 8897586--8897632 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8897576 AACCTTATAA
8897586 TTTAAAA-AAAAAAGATTA-ATTT
1 TTTAAAATAAAAAA-ATTATATTT
*
8897608 TTTAAAATAAAATAATTATATTT
1 TTTAAAATAAAAAAATTATATTT
8897631 TT
1 TT
8897633 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTAAAATAAAAAAATTATATTT
Found at i:8905074 original size:132 final size:130
Alignment explanation
Indices: 8904840--8905209 Score: 355
Period size: 132 Copynumber: 2.8 Consensus size: 130
8904830 AAGCTGTGAG
* * * * ** * * * * * *
8904840 TAAAAAAATTAAATGATCTAGACTAAACTAAGACCAAAGATGAATGATCGGGATTGAACCACAAG
1 TAAAAAAA-TAAATAATATAAACTAAACCAAGATAAAAAATGAATGACCAGGATTGAACTATAGG
* * * * *
8904905 TCAGAAAAATAAAATGACTTAGATTGAGCCAAAGTAAACAATGAGTAACCGAGATTGAATCGTAT
65 TCAGAAAAATAAAATGACTTGGACTGAGCCAAGGTAAAAAATGAGTAACCGAGATTGAATCGCAT
8904970 A
130 A
* * * *
8904971 TCAGAAAAATAAATAATCTAAACTGATCCAAGATAAAAAAATGAATGACCAGGATTGAACTATAG
1 T-AAAAAAATAAATAATATAAACTAAACCAAGAT-AAAAAATGAATGACCAGGATTGAACTATAG
* * * ** * * * *
8905036 GTTAGAAAAATAAAATTACTTGGACCGAATCAAGGTAAAAAATAAGTGATCGGGATTGAATCGCA
64 GTCAGAAAAATAAAATGACTTGGACTGAGCCAAGGTAAAAAATGAGTAACCGAGATTGAATCGCA
8905101 TA
129 TA
* * * * ** * *
8905103 TAAAAAAATAAATGATATAGACTAAACTAGGATCGAAGATGAATGACCAGGATTTAACT-TAGGT
1 TAAAAAAATAAATAATATAAACTAAACCAAGATAAAAAATGAATGACCAGGATTGAACTATAGGT
*
8905167 CAGAAAAATAAAATGACATGGACTGAGCCAAGGTAAAAAATGA
66 CAGAAAAATAAAATGACTTGGACTGAGCCAAGGTAAAAAATGA
8905210 TTAGGTCTAA
Statistics
Matches: 190, Mismatches: 47, Indels: 6
0.78 0.19 0.02
Matches are distributed among these distances:
129 41 0.22
130 22 0.12
131 44 0.23
132 83 0.44
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (130 bp):
TAAAAAAATAAATAATATAAACTAAACCAAGATAAAAAATGAATGACCAGGATTGAACTATAGGT
CAGAAAAATAAAATGACTTGGACTGAGCCAAGGTAAAAAATGAGTAACCGAGATTGAATCGCATA
Found at i:8914689 original size:25 final size:22
Alignment explanation
Indices: 8914660--8914713 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 22
8914650 TATGCATGTG
*
8914660 AAAATTAATGACAAATATGAATAA
1 AAAATTAATGA-AAACATGAA-AA
*
8914684 ATAAATAAAATGAAAACATGAAAA
1 A-AAAT-TAATGAAAACATGAAAA
8914708 AAAATT
1 AAAATT
8914714 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
23 4 0.16
24 4 0.16
25 12 0.48
26 5 0.20
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAATTAATGAAAACATGAAAA
Found at i:8917545 original size:44 final size:45
Alignment explanation
Indices: 8917422--8917589 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 45
8917412 AAAAATCTTA
* *
8917422 AAATTTTTCAAATGCGATTCTTTGAAATGTTGGATGTGAAACCCAT
1 AAATTTTTCAAATGAGAATCTTTGAAAT-TTGGATGTGAAACCCAT
** * * *
8917468 AAATTTTTTGAATGAGAATATTTGAAAAATTGGATGTGAATCCCA-
1 AAATTTTTCAAATGAGAATCTTTG-AAATTTGGATGTGAAACCCAT
* * * *
8917513 AGA-TTTTCAAATTAGACTCTTTGAAACTTTGGATGTGAAATCC-T
1 AAATTTTTCAAATGAGAATCTTTGAAA-TTTGGATGTGAAACCCAT
** * *
8917557 GAAATTTTTTGAATGAGAATATTTGAATTTTGG
1 -AAATTTTTCAAATGAGAATCTTTGAAATTTGG
8917590 CTATGAACCT
Statistics
Matches: 94, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
43 3 0.03
44 28 0.30
45 9 0.10
46 51 0.54
47 3 0.03
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (45 bp):
AAATTTTTCAAATGAGAATCTTTGAAATTTGGATGTGAAACCCAT
Found at i:8917840 original size:52 final size:52
Alignment explanation
Indices: 8917760--8917913 Score: 172
Period size: 52 Copynumber: 3.0 Consensus size: 52
8917750 AATCTTCCAT
*
8917760 CTGAAATTCTTACAAATTTGAAAG-TTTTATGAATCTTTGATATTTTGCAAAC
1 CTGAAATTCTTACGAATTT-AAAGTTTTTATGAATCTTTGATATTTTGCAAAC
* **
8917812 CTGAAATTCTTACGAATTTAAAGTTTTTAAGAATCTTTGAT-TTCTTGTGAAC
1 CTGAAATTCTTACGAATTTAAAGTTTTTATGAATCTTTGATATT-TTGCAAAC
* * * * *
8917864 TTGAAATTCTTGCGAATTTTAAGTTCTTATGAA--TTTGAAAGTTTTGCAAA
1 CTGAAATTCTTACGAATTTAAAGTTTTTATGAATCTTTGATA-TTTTGCAAA
8917914 TCTTTGATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
50 5 0.06
51 11 0.13
52 70 0.81
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (52 bp):
CTGAAATTCTTACGAATTTAAAGTTTTTATGAATCTTTGATATTTTGCAAAC
Found at i:8917875 original size:17 final size:17
Alignment explanation
Indices: 8917853--8917903 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
8917843 AATCTTTGAT
*
8917853 TTCTTGTGAACTTGAAA
1 TTCTTGTGAATTTGAAA
* * *
8917870 TTCTTGCGAATTTTAAG
1 TTCTTGTGAATTTGAAA
*
8917887 TTCTTATGAATTTGAAA
1 TTCTTGTGAATTTGAAA
8917904 GTTTTGCAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (17 bp):
TTCTTGTGAATTTGAAA
Found at i:8917916 original size:69 final size:69
Alignment explanation
Indices: 8917818--8917951 Score: 180
Period size: 69 Copynumber: 1.9 Consensus size: 69
8917808 AAACCTGAAA
* * * *
8917818 TTCTTACGAATTTAAAGTTTTTAAGAATCTTTGATTTCTTGTGAACTTGAAATTCTTGCGAATTT
1 TTCTTACGAATTTAAAGTTTTGAAGAATCTTTGATTTCTTGTGAACCTAAAATTCTTGCAAATTT
8917883 TAAG
66 TAAG
* * * *
8917887 TTCTTATGAATTTGAAAGTTTTGCA-AATCTTTGATTTTTTGTGAACCTAAAATTTTTGCAAATT
1 TTCTTACGAATTT-AAAGTTTTGAAGAATCTTTGATTTCTTGTGAACCTAAAATTCTTGCAAATT
8917951 T
65 T
8917952 AAAAATTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 47 0.84
70 9 0.16
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (69 bp):
TTCTTACGAATTTAAAGTTTTGAAGAATCTTTGATTTCTTGTGAACCTAAAATTCTTGCAAATTT
TAAG
Found at i:8917954 original size:17 final size:17
Alignment explanation
Indices: 8917934--8917966 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8917924 TTTGTGAACC
*
8917934 TAAAATTTTTGCAAATT
1 TAAAAATTTTGCAAATT
8917951 TAAAAATTTTGCAAAT
1 TAAAAATTTTGCAAAT
8917967 ATTTCAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAAAATTTTGCAAATT
Found at i:8918203 original size:17 final size:17
Alignment explanation
Indices: 8918090--8918210 Score: 64
Period size: 17 Copynumber: 7.1 Consensus size: 17
8918080 CTTGCAAATT
*
8918090 TGAAACCTTTGTGAAAC
1 TGAAACCTTTGTGAATC
*
8918107 ATGAAA-CTTTATGAATC
1 -TGAAACCTTTGTGAATC
* ** *
8918124 TAAAAAATCTTGCGAATC
1 TGAAACCT-TTGTGAATC
* ** *
8918142 TAAAACCTTTGCAAATT
1 TGAAACCTTTGTGAATC
* * *
8918159 TGGAACCTCTGTGAAAC
1 TGAAACCTTTGTGAATC
* **
8918176 TTAAATTTTTGTGAATC
1 TGAAACCTTTGTGAATC
*
8918193 TGAAACCTTTGAGAATC
1 TGAAACCTTTGTGAATC
8918210 T
1 T
8918211 TGAATCATTT
Statistics
Matches: 74, Mismatches: 27, Indels: 5
0.70 0.25 0.05
Matches are distributed among these distances:
16 4 0.05
17 52 0.70
18 18 0.24
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (17 bp):
TGAAACCTTTGTGAATC
Found at i:8918525 original size:43 final size:43
Alignment explanation
Indices: 8918477--8918734 Score: 259
Period size: 43 Copynumber: 6.0 Consensus size: 43
8918467 TATTTAAAGT
* *
8918477 TTTTAAAGTTGTTTAGCCTTTGTATAGAGGAGCCCATTTCTTA
1 TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
* * ** *
8918520 TTTTAAAATTGTTTAGCCTCTATATAGAAAAGCTCATTTCCTA
1 TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
* ** * *
8918563 TTTTCAAGTTGTTTAGTGTCTGTATAGAAGAGCCCATTT-TCTA
1 TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCT-TA
* * * * * * *
8918606 TTTTAAAATTATTTTGGCATCTGTTTAGAGGAGTTCATTTCTTT
1 TTTTAAAGTT-GTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
* * *
8918650 TTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGTTTATTTCTTA
1 TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
* * *
8918693 TTCTAAAGTTGTTTAGCCT-TGTATAGAGGAACTCATTGCTTA
1 TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
8918735 ATTTGTTTTG
Statistics
Matches: 172, Mismatches: 40, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
42 18 0.10
43 122 0.71
44 31 0.18
45 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (43 bp):
TTTTAAAGTTGTTTAGCCTCTGTATAGAGGAGCTCATTTCTTA
Found at i:8918677 original size:87 final size:86
Alignment explanation
Indices: 8918476--8918709 Score: 245
Period size: 87 Copynumber: 2.7 Consensus size: 86
8918466 CTATTTAAAG
* * *
8918476 TTTTTAAAGTTGTTTAGCCTTTGTATAGAGGAGCCCATTTCTTATTTTAAAATTGTTTAGCCTCT
1 TTTTTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCCATTTCTTATTTTAAAATTGTTTAGCATCT
8918541 ATATAGAAAAGCTCATTTCCT
66 ATATAGAAAAGCTCATTTCCT
* * ** * *
8918562 ATTTTCAAGTTGTTTAGTGTCTGTATAGAAGAGCCCATTT-TCTATTTTAAAATTATTTTGGCAT
1 TTTTTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCCATTTCT-TATTTTAAAATT-GTTTAGCAT
* * ** * *
8918626 CTGTTTAGAGGAGTTCATTTCTT
64 CTATATAGAAAAGCTCATTTCCT
* * *** * *
8918649 TTTTTAAAGTTGTTTAGCCTCTGAATAGAGGAGTTTATTTCTTATTCTAAAGTTGTTTAGC
1 TTTTTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCCATTTCTTATTTTAAAATTGTTTAGC
8918710 CTTGTATAGA
Statistics
Matches: 117, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
85 1 0.01
86 51 0.44
87 64 0.55
88 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.46
Consensus pattern (86 bp):
TTTTTAAAGTTGTTTAGCCTCTGTATAGAAGAGCCCATTTCTTATTTTAAAATTGTTTAGCATCT
ATATAGAAAAGCTCATTTCCT
Found at i:8919252 original size:12 final size:11
Alignment explanation
Indices: 8919223--8919248 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8919213 ATGAAGAATG
8919223 AAAGAAACTAA
1 AAAGAAACTAA
8919234 AAAGAAACTAA
1 AAAGAAACTAA
8919245 AAAG
1 AAAG
8919249 GAAAGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.08, G:0.12, T:0.08
Consensus pattern (11 bp):
AAAGAAACTAA
Found at i:8920182 original size:4 final size:4
Alignment explanation
Indices: 8920156--8920206 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
8920146 TATATGTTAT
* * * *
8920156 TTTA TTAA TTTA TTTTA TCTA TTTA TTAA TTTA TTTA TTTA TCTA -TTA
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
8920204 TTT
1 TTT
8920207 TTAAATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 2 0.05
4 31 0.84
5 4 0.11
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:8924325 original size:60 final size:61
Alignment explanation
Indices: 8924250--8924388 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 61
8924240 TTTGTAAGAG
*
8924250 ATTATTCG-AGGTATTTTTTAGT-AAAAAATATTTTAAATAATCTTGAAAAAAAGAAAAAAA
1 ATTATT-GAAGGTATTTTTTAGTAAAAAAATACTTTAAATAATCTTGAAAAAAAGAAAAAAA
* * * * * * *
8924310 ATTATTGAAGGTA-TTTTTGGTAAAAAAATACTTTGAATAATTTTTAAAAAATGAAAGAAG
1 ATTATTGAAGGTATTTTTTAGTAAAAAAATACTTTAAATAATCTTGAAAAAAAGAAAAAAA
* *
8924370 ATTATTTAAGATATTTTTT
1 ATTATTGAAGGTATTTTTT
8924389 TCAGAAACGC
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
59 8 0.12
60 53 0.80
61 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (61 bp):
ATTATTGAAGGTATTTTTTAGTAAAAAAATACTTTAAATAATCTTGAAAAAAAGAAAAAAA
Found at i:8924360 original size:59 final size:60
Alignment explanation
Indices: 8924250--8924448 Score: 147
Period size: 60 Copynumber: 3.3 Consensus size: 60
8924240 TTTGTAAGAG
*
8924250 ATTATTCG-AGGTATTTTTTAGTAAAAAATATTTTAAATAATCTTGAAAAAAA-GAAAAAAA
1 ATTATT-GAAGGTA-TTTTTAGTAAAAAATACTTTAAATAATCTTGAAAAAAATGAAAAAAA
* * ** * *
8924310 ATTATTGAAGGTATTTTTGGTAAAAAAATACTTTGAATAAT-TTTTAAAAAATGAAAGAAG
1 ATTATTGAAGGTATTTTTAGT-AAAAAATACTTTAAATAATCTTGAAAAAAATGAAAAAAA
* * * * * ** * * * *
8924370 ATTATTTAAGATATTTTT-TTCAGAAACGCTTTGAATAATTTTCAAAAAAATTG-AAAGAA
1 ATTATTGAAGGTATTTTTAGTAAAAAATACTTTAAATAATCTTGAAAAAAA-TGAAAAAAA
* *
8924429 ATTATTGAAAGCATTTTTAG
1 ATTATTGAAGGTATTTTTAG
8924449 ATAGAAACGT
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
58 15 0.14
59 42 0.39
60 52 0.48
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (60 bp):
ATTATTGAAGGTATTTTTAGTAAAAAATACTTTAAATAATCTTGAAAAAAATGAAAAAAA
Found at i:8924456 original size:60 final size:58
Alignment explanation
Indices: 8924340--8924467 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 58
8924330 TAAAAAAATA
* * **
8924340 CTTTGAATAATTTTTAAAAAATGAAAGAAGATTATTTAAGATATTTTTTTCAGAAACG
1 CTTTGAATAATTTTAAAAAAATGAAAGAAGATTATTAAAGATATTTTGATCAGAAACG
8924398 CTTTGAATAATTTTCAAAAAAATTGAAAGAA-ATTATTGAAAGCAT-TTTTAGAT-AGAAACG
1 CTTTGAATAATTTT-AAAAAAA-TGAAAGAAGATTATT-AAAG-ATATTTT-GATCAGAAACG
8924458 -TCTTGAATAA
1 CT-TTGAATAA
8924468 CCCTATTATT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
58 14 0.23
59 13 0.22
60 30 0.50
61 3 0.05
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
CTTTGAATAATTTTAAAAAAATGAAAGAAGATTATTAAAGATATTTTGATCAGAAACG
Found at i:8925316 original size:219 final size:219
Alignment explanation
Indices: 8924925--8925350 Score: 654
Period size: 219 Copynumber: 1.9 Consensus size: 219
8924915 TTTTGCCTCC
* * * *
8924925 ATTCAAGCTCCGTTGGGAAGCTTCATTTTAACATTGATAATTTTCAGTGTTTAACCATTTTTTTA
1 ATTCAAGCTCCATTGGGAAGCTCCATTTCAACATTGATAATTTTCAGTGTTTAACCATTGTTTTA
* * *
8924990 TCAATTTATTTTGTTATTGCAGTTCTGAGTTTGATTTTATTTGGTTGGTAAGAAAAATTCAAGAT
66 CCAATTTATTTCGTTATTGCAGTTCTGAGTTAGATTTTATTTGGTTGGTAAGAAAAATTCAAGAT
* * *
8925055 AAAACAAAAAAATGAAAAAAAAATAGGGTTTTTCTCTGAAAAACTTGAAATTGAATGTTGAATTT
131 AAAACAAAAAAATGAAAAAAAAATAGGGTGTTTCTCTGAAAAACTTGAAATTAAACGTTGAATTT
8925120 AGTTACAAATACATTTCTACCGCT
196 AGTTACAAATACATTTCTACCGCT
* * *
8925144 ATTCAAGCTCCATTGGTAAGCTCCATTTCAACATTGGTAATTTTCAGTGTTTGACCATTGTTTTA
1 ATTCAAGCTCCATTGGGAAGCTCCATTTCAACATTGATAATTTTCAGTGTTTAACCATTGTTTTA
* * *
8925209 CCAATTTATTTCGTTATTGCAGTTGTGAGTTAGGTTTTATTTGGTTGTTAAGAAAAATTCAAGAT
66 CCAATTTATTTCGTTATTGCAGTTCTGAGTTAGATTTTATTTGGTTGGTAAGAAAAATTCAAGAT
* * * * * *
8925274 AGAATAGAAAAGTGAAAAAAAAATAGGGTGTTTCTTTGAAAAACTTTAAATTAAACGTTGAATTT
131 AAAACAAAAAAATGAAAAAAAAATAGGGTGTTTCTCTGAAAAACTTGAAATTAAACGTTGAATTT
8925339 AGTTACAAATAC
196 AGTTACAAATAC
8925351 GAATAAAATT
Statistics
Matches: 185, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 185 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (219 bp):
ATTCAAGCTCCATTGGGAAGCTCCATTTCAACATTGATAATTTTCAGTGTTTAACCATTGTTTTA
CCAATTTATTTCGTTATTGCAGTTCTGAGTTAGATTTTATTTGGTTGGTAAGAAAAATTCAAGAT
AAAACAAAAAAATGAAAAAAAAATAGGGTGTTTCTCTGAAAAACTTGAAATTAAACGTTGAATTT
AGTTACAAATACATTTCTACCGCT
Found at i:8926657 original size:16 final size:15
Alignment explanation
Indices: 8926631--8926661 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8926621 TATGCTAAAT
8926631 TAGTAAGGATAAAAC
1 TAGTAAGGATAAAAC
8926646 TAGTAGAGGATAAAAC
1 TAGTA-AGGATAAAAC
8926662 CAAGGTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
TAGTAAGGATAAAAC
Found at i:8930681 original size:29 final size:29
Alignment explanation
Indices: 8930619--8930674 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
8930609 TTTGAGATAA
*
8930619 AAATTAGTCAAAGTGAATAATTCTTATAG
1 AAATTAGTCAAAGTGAACAATTCTTATAG
*
8930648 AAATTAGTCAGAA-TGAACAATTTTTAT
1 AAATTAGTCA-AAGTGAACAATTCTTAT
8930675 GATAATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (29 bp):
AAATTAGTCAAAGTGAACAATTCTTATAG
Found at i:8934691 original size:21 final size:21
Alignment explanation
Indices: 8934665--8934705 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8934655 AAATAAAAAT
8934665 ATTTAAA-AATATTTAAATTTA
1 ATTTAAATAA-ATTTAAATTTA
8934686 ATTTAAATAAATTTAAATTT
1 ATTTAAATAAATTTAAATTT
8934706 GATTAGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAAATAAATTTAAATTTA
Found at i:8938958 original size:2 final size:2
Alignment explanation
Indices: 8938951--8938978 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8938941 AGGAGAAGAA
8938951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8938979 TTTAATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8940955 original size:24 final size:25
Alignment explanation
Indices: 8940916--8940974 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
8940906 AAAAATAAAA
*
8940916 TTTATA-T-TTAAGTATTATAAT-T
1 TTTATATTATTAAATATTATAATAT
* *
8940938 TTTATTTTATTAAATATTTTAATAT
1 TTTATATTATTAAATATTATAATAT
8940963 TTTATATTATTA
1 TTTATATTATTA
8940975 TAATCAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 5 0.17
23 1 0.03
24 12 0.40
25 12 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATATTATTAAATATTATAATAT
Found at i:8940988 original size:27 final size:25
Alignment explanation
Indices: 8940929--8940988 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
8940919 ATATTTAAGT
*
8940929 ATTATAAT-TTTTATTTTATTAAATA
1 ATTA-AATATTTTATATTATTAAATA
* *
8940954 TTTTAATATTTTATATTATTATAATCA
1 ATTAAATATTTTATATTATTA-AAT-A
8940981 ATTAAATA
1 ATTAAATA
8940989 ATTAACATGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 3 0.11
25 14 0.52
26 3 0.11
27 7 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTAAATATTTTATATTATTAAATA
Found at i:8943317 original size:2 final size:2
Alignment explanation
Indices: 8943310--8943338 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8943300 AATTTTTATG
8943310 TA 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 TA T
8943339 GCCAGCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8945325 original size:24 final size:24
Alignment explanation
Indices: 8945276--8945324 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8945266 TATCTGTGGG
*
8945276 AAGGATTATACTTTCTATAATTAA
1 AAGGATGATACTTTCTATAATTAA
* *
8945300 AAGGATGATATTTTTTAT-ATTAA
1 AAGGATGATACTTTCTATAATTAA
8945323 AA
1 AA
8945325 AATTTGACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (24 bp):
AAGGATGATACTTTCTATAATTAA
Found at i:8946661 original size:18 final size:18
Alignment explanation
Indices: 8946638--8946672 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8946628 AATACCAAAA
8946638 TTTTTTCTA-TTATTTTTC
1 TTTTTT-TATTTATTTTTC
8946656 TTTTTTTATTTATTTTT
1 TTTTTTTATTTATTTTT
8946673 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTATTTATTTTTC
Found at i:8954634 original size:137 final size:136
Alignment explanation
Indices: 8954296--8954701 Score: 501
Period size: 137 Copynumber: 3.0 Consensus size: 136
8954286 AATTTAAAAA
* *
8954296 AAACCCTATTTAGTCACATTCCTCAAGAAGCTAACTCTATTACTGATGGGCTAGCTAAAGTAAGG
1 AAACCCTATTTAGTCACATTTCTC-AGAAGCTAACTCCATTACTGATGGGCTAGCTAAAGTAAGG
* * *** * * *
8954361 ATTTTTTGTTCTCATGACATGATAGCTT-GTTCGTAATTTTTTTCATTTGATCTATGAGGTTCCC
65 GTCTTTCACTCTCAAGACATGATAGCTTGGTT-GTAATTTTTGTCATTTGATCTATGGGGTTCCC
8954425 TTTTAAAG
129 TTTTAAAG
** * * * ** *
8954433 -AACTGTATTTAGTCATATTTCTCATAAAGCTAACTTCATTTTTTATGGGCTAGCTAAAGTAAGG
1 AAACCCTATTTAGTCACATTTCTCA-GAAGCTAACTCCATTACTGATGGGCTAGCTAAAGTAAGG
* * * * *
8954497 GTCTTACACTCTTAAGATATGATAGCTTGGTTGTAACTTTTGCCATTTGATCTATGGGGTTCCCT
65 GTCTTTCACTCTCAAGACATGATAGCTTGGTTGTAATTTTTGTCATTTGATCTATGGGGTTCCCT
8954562 TTTAAAG
130 TTTAAAG
* * *
8954569 AAACCCTATTTAGTCACATTTCTCAGAAGGCTAACTCCATTGCTGATAGACTAGCTAAAGTAAGG
1 AAACCCTATTTAGTCACATTTCTCAGAA-GCTAACTCCATTACTGATGGGCTAGCTAAAGTAAGG
* * *
8954634 GCCTTTGACTCTCAAGACATGATAGCTTGGTTGTAATTTTTGTCATTTGATCTATGGGGTTTCCT
65 GTCTTTCACTCTCAAGACATGATAGCTTGGTTGTAATTTTTGTCATTTGATCTATGGGGTTCCCT
8954699 TTT
130 TTT
8954702 CAATAACCTC
Statistics
Matches: 224, Mismatches: 41, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
135 1 0.00
136 109 0.49
137 114 0.51
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (136 bp):
AAACCCTATTTAGTCACATTTCTCAGAAGCTAACTCCATTACTGATGGGCTAGCTAAAGTAAGGG
TCTTTCACTCTCAAGACATGATAGCTTGGTTGTAATTTTTGTCATTTGATCTATGGGGTTCCCTT
TTAAAG
Found at i:8967389 original size:15 final size:14
Alignment explanation
Indices: 8967348--8967398 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
8967338 TAGGTAGGCC
*
8967348 TATTTTATTTTTTA
1 TATTTTATTTTTTG
* *
8967362 T-TTTGTATCTTGTG
1 TATTT-TATTTTTTG
8967376 T-TTTTATTTTTTG
1 TATTTTATTTTTTG
8967389 TATTTTATTT
1 TATTTTATTT
8967399 ATTATTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (14 bp):
TATTTTATTTTTTG
Found at i:8967414 original size:17 final size:17
Alignment explanation
Indices: 8967389--8967479 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 17
8967379 TTATTTTTTG
8967389 TATTTTATTTATTATTA
1 TATTTTATTTATTATTA
*
8967406 CTA-TTTA-TTAATATATA
1 -TATTTTATTTATTAT-TA
8967423 TATTTTATTTATTATT-
1 TATTTTATTTATTATTA
* *
8967439 TA-TCTATTGA-TATATA
1 TATTTTATTTATTAT-TA
*
8967455 TACTTTA-TTATTATT-
1 TATTTTATTTATTATTA
8967470 TATCTTTATT
1 TAT-TTTATT
8967480 ATCATTTATC
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.05
15 9 0.16
16 19 0.33
17 18 0.32
18 8 0.14
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (17 bp):
TATTTTATTTATTATTA
Found at i:8967427 original size:34 final size:32
Alignment explanation
Indices: 8967389--8967527 Score: 135
Period size: 32 Copynumber: 4.3 Consensus size: 32
8967379 TTATTTTTTG
*
8967389 TATTTTATTTATTATTACTATTTATTAATATATA
1 TATTTTATTTATTATT--TATCTATTAATATATA
*
8967423 TATTTTATTTATTATTTATCTATTGATATATA
1 TATTTTATTTATTATTTATCTATTAATATATA
* * *
8967455 TACTTTA-TTATTATTTATCT-TTATTATCATT
1 TATTTTATTTATTATTTATCTATTAATAT-ATA
*
8967486 TATCTATTA-ATATT-TTTATCTATTAATATAT-
1 TAT-T-TTATTTATTATTTATCTATTAATATATA
8967517 TATCTTTATTT
1 TAT-TTTATTT
8967528 TTTTTTTTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
30 8 0.09
31 23 0.26
32 30 0.33
33 13 0.14
34 16 0.18
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (32 bp):
TATTTTATTTATTATTTATCTATTAATATATA
Found at i:8967478 original size:16 final size:16
Alignment explanation
Indices: 8967426--8967526 Score: 79
Period size: 16 Copynumber: 6.4 Consensus size: 16
8967416 ATATATATAT
8967426 TTTATTTATTATTTATC
1 TTTA-TTATTATTTATC
*
8967443 --TATTGA-TATATATAC
1 TTTATT-ATTATTTAT-C
8967458 TTTATTATTATTTATC
1 TTTATTATTATTTATC
*
8967474 TTTATTATCATTTATC
1 TTTATTATTATTTATC
*
8967490 TATTAATATT-TTTATC
1 T-TTATTATTATTTATC
*
8967506 --TATTAATATATTATC
1 TTTATTATTAT-TTATC
8967521 TTTATT
1 TTTATT
8967527 TTTTTTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
13 5 0.07
14 9 0.13
15 9 0.13
16 24 0.36
17 20 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (16 bp):
TTTATTATTATTTATC
Found at i:8968356 original size:4 final size:4
Alignment explanation
Indices: 8968349--8968374 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8968339 TTTTTTTCAT
8968349 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
8968375 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:8968572 original size:58 final size:58
Alignment explanation
Indices: 8968499--8968718 Score: 341
Period size: 58 Copynumber: 3.8 Consensus size: 58
8968489 ATAAAATTCT
*
8968499 AAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTCTTC
1 AAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
*
8968558 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTC
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
* * *
8968616 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCATTTTTTCTTAAAAATAAGTTTTC
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
* ** * *
8968674 TAAAAAATATTTTCGATGAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
8968719 TACGAAAGCA
Statistics
Matches: 147, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
58 141 0.96
59 6 0.04
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (58 bp):
AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTC
Found at i:8979222 original size:13 final size:13
Alignment explanation
Indices: 8979206--8979230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8979196 AAAAAAAAGA
8979206 GAAAAAATGAAAT
1 GAAAAAATGAAAT
8979219 GAAAAAATGAAA
1 GAAAAAATGAAA
8979231 CAAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAAAAATGAAAT
Found at i:8979237 original size:10 final size:9
Alignment explanation
Indices: 8979215--8979287 Score: 62
Period size: 10 Copynumber: 7.7 Consensus size: 9
8979205 AGAAAAAATG
8979215 AAATG-AAA
1 AAATGAAAA
8979223 AAATGAAACA
1 AAATGAAA-A
8979233 AAATGAAAAA
1 AAATG-AAAA
8979243 AAATGAAAA
1 AAATGAAAA
8979252 GAAATGAAAA
1 -AAATGAAAA
8979262 GAAA--AAAA
1 -AAATGAAAA
8979270 AAAGTGAATGAA
1 AAA-TGAA--AA
8979282 AAATGA
1 AAATGA
8979288 GGACTCAAGG
Statistics
Matches: 56, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.05
8 9 0.16
9 6 0.11
10 27 0.48
11 6 0.11
12 5 0.09
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (9 bp):
AAATGAAAA
Found at i:8979244 original size:33 final size:32
Alignment explanation
Indices: 8979194--8979270 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
8979184 ATATTATGCT
* *
8979194 TGAAAAAAAAGAGAAAAAATGAAATGAAAAAA
1 TGAAAAAAAAGAAAAAAAATGAAAAGAAAAAA
*
8979226 TGAAACAAAATGAAAAAAAATGAAAAGAAATGAAA
1 TGAAA-AAAAAGAAAAAAAATGAAAAGAAA--AAA
*
8979261 AGAAAAAAAA
1 TGAAAAAAAA
8979271 AAGTGAATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 5 0.14
33 21 0.57
34 4 0.11
35 7 0.19
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.09
Consensus pattern (32 bp):
TGAAAAAAAAGAAAAAAAATGAAAAGAAAAAA
Found at i:8979245 original size:20 final size:19
Alignment explanation
Indices: 8979194--8979287 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
8979184 ATATTATGCT
8979194 TGAAAAAAAA-GAGAAAAAA
1 TGAAAAAAAATGA-AAAAAA
8979213 TGAAATGAAAAAATGAAACAAAA
1 TG-AA--AAAAAATGAAA-AAAA
8979236 TGAAAAAAAATGAAAAGAAA
1 TGAAAAAAAATGAAAA-AAA
*
8979256 TGAAAAGAAAA--AAAAAAG
1 TGAAAA-AAAATGAAAAAAA
*
8979274 TGAATGAAAAATGA
1 TGAA-AAAAAATGA
8979288 GGACTCAAGG
Statistics
Matches: 63, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
18 10 0.16
19 8 0.13
20 23 0.37
21 4 0.06
22 10 0.16
23 8 0.13
ACGTcount: A:0.72, C:0.01, G:0.16, T:0.11
Consensus pattern (19 bp):
TGAAAAAAAATGAAAAAAA
Found at i:8979255 original size:25 final size:26
Alignment explanation
Indices: 8979222--8979270 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
8979212 ATGAAATGAA
8979222 AAAATGAAA-CAAAATGAAAAAAAATG
1 AAAATGAAATCAAAA-GAAAAAAAATG
*
8979248 AAAA-GAAATGAAAAGAAAAAAAA
1 AAAATGAAATCAAAAGAAAAAAAA
8979271 AAGTGAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (26 bp):
AAAATGAAATCAAAAGAAAAAAAATG
Found at i:8980364 original size:41 final size:41
Alignment explanation
Indices: 8980290--8980433 Score: 139
Period size: 41 Copynumber: 3.5 Consensus size: 41
8980280 GATTGTTAAA
* * * **
8980290 GAGCAATTTATTTTTCGAAGTTGTGATATCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAATTGTGATGCCTCTGTTTAGAG
* * * *
8980331 GAACAATTTATTTTTCAAAATTGTGATGCCTCTGATTAAAG
1 GAGCAATTTACTTTTCAAAATTGTGATGCCTCTGTTTAGAG
* *
8980372 GAGCAGTTTACTTTTCAAAAATCAT-TGA-GCCTCTGTTCAGAG
1 GAGCAATTTACTTTTC-AAAAT--TGTGATGCCTCTGTTTAGAG
*
8980414 GAGCAATTTACTTTCCAAAA
1 GAGCAATTTACTTTTCAAAA
8980434 GTCGTTGAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 51 0.60
42 30 0.35
43 3 0.04
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAATTGTGATGCCTCTGTTTAGAG
Found at i:8980405 original size:42 final size:42
Alignment explanation
Indices: 8980319--8980459 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 42
8980309 GTTGTGATAT
* * * *
8980319 CTCTGTTTAGAGGAACAATTTATTTTTC-AAAAT--TGTGATGC
1 CTCTGATTAGAGGAGCAATTTACTTTCCAAAAATCAT-TGA-GC
* * *
8980360 CTCTGATTAAAGGAGCAGTTTACTTTTCAAAAATCATTGAGC
1 CTCTGATTAGAGGAGCAATTTACTTTCCAAAAATCATTGAGC
* * *
8980402 CTCTG-TTCAGAGGAGCAATTTACTTTCCAAAAGTCGTTGAGA
1 CTCTGATT-AGAGGAGCAATTTACTTTCCAAAAATCATTGAGC
*
8980444 CTCTTATTAGAGGAGC
1 CTCTGATTAGAGGAGC
8980460 CTTTTATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
41 25 0.30
42 52 0.63
43 5 0.06
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (42 bp):
CTCTGATTAGAGGAGCAATTTACTTTCCAAAAATCATTGAGC
Found at i:8980520 original size:42 final size:42
Alignment explanation
Indices: 8980430--8980587 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
8980420 TTTACTTTCC
* * *
8980430 AAAAGTCGTTGAGACTCTTA-TTAGAGGAGCCTT--TTATTTTT
1 AAAAGTTGTTGAGCCTC-TACTTAGAGGAGCTTTGCTTA-TTTT
* * *
8980471 AAAAGTTGTTAAGCCTCTACTTGGAGGAGCTTTGCTTGTTTT
1 AAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTGCTTATTTT
* *
8980513 CAAAGTTGTCGAGCCT-T-CGTTTAGAGGAGCTTTGCTTATTTT
1 AAAAGTTGTTGAGCCTCTAC--TTAGAGGAGCTTTGCTTATTTT
*
8980555 TAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
1 AAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
8980588 AATCAAAATT
Statistics
Matches: 97, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
40 3 0.03
41 26 0.27
42 64 0.66
43 3 0.03
44 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (42 bp):
AAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTGCTTATTTT
Found at i:8980769 original size:7 final size:7
Alignment explanation
Indices: 8980753--8980858 Score: 52
Period size: 7 Copynumber: 14.1 Consensus size: 7
8980743 GGTAGGCCCA
8980753 TTTTATTT
1 TTTTA-TT
8980761 TTTTATT
1 TTTTATT
* *
8980768 TTGTATC
1 TTTTATT
* *
8980775 TTGT-GT
1 TTTTATT
8980781 TTTTATT
1 TTTTATT
* *
8980788 TTTTGTA
1 TTTTATT
8980795 TTTTATT
1 TTTTATT
*
8980802 TATTATT
1 TTTTATT
8980809 TATTTATT
1 T-TTTATT
*
8980817 ATTACTATT
1 -TT-TTATT
8980826 TATTTATAT
1 T-TTTAT-T
8980835 ATTTTATT
1 -TTTTATT
8980843 TATTTATT
1 T-TTTATT
*
8980851 TATTATT
1 TTTTATT
8980858 T
1 T
8980859 ATCTATTGAT
Statistics
Matches: 75, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
6 3 0.04
7 36 0.48
8 23 0.31
9 12 0.16
10 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:8980805 original size:4 final size:4
Alignment explanation
Indices: 8980782--8980953 Score: 83
Period size: 4 Copynumber: 42.8 Consensus size: 4
8980772 ATCTTGTGTT
*
8980782 TTTA TTTT TTGTA TTTTA TTTA -TTA TTTA TTTA -TTA TTACTA TTTA
1 TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * *
8980828 TTTA TATA TTTTA TTTA TTTA TTTA -TTA TTTA TCTA TTGA TATA TATA
1 TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
8980876 CTTTA -TTA -TTA TTTA TCTT- TATTA -TTA TTTA TCTA TTAA TATT-
1 -TTTA TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA TTTA T-TTA
* * * *
8980919 TTTA TCTA TTAA TATA TTATC TTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTT
8980954 TTTTTTTTTC
Statistics
Matches: 128, Mismatches: 23, Indels: 34
0.69 0.12 0.18
Matches are distributed among these distances:
3 23 0.18
4 84 0.66
5 15 0.12
6 6 0.05
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:8980807 original size:21 final size:21
Alignment explanation
Indices: 8980752--8980851 Score: 59
Period size: 21 Copynumber: 4.8 Consensus size: 21
8980742 GGGTAGGCCC
8980752 ATTTTATTT-TT-TTATTTTGT
1 ATTTTATTTATTATT-TTTTGT
*
8980772 ATCTTGTGTTT-TTATTTTTTGT
1 AT-TT-TATTTATTATTTTTTGT
*
8980794 ATTTTATTTATTATTTATT-T
1 ATTTTATTTATTATTTTTTGT
* * *
8980814 ATTATTA-CTATT-TATTTATAT
1 ATT-TTATTTATTAT-TTTTTGT
8980835 ATTTTATTTATTTATTT
1 ATTTTATTTA-TTATTT
8980852 ATTATTTATC
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
19 1 0.02
20 20 0.32
21 21 0.33
22 18 0.29
23 3 0.05
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
ATTTTATTTATTATTTTTTGT
Found at i:8980827 original size:17 final size:17
Alignment explanation
Indices: 8980805--8980855 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
8980795 TTTTATTTAT
8980805 TATTTATTTATTATTAC
1 TATTTATTTATTATTAC
*
8980822 TATTTATTTATATATT-T
1 TATTTATTTAT-TATTAC
8980839 TATTTATTTATTTATTA
1 TATTTATTTA-TTATTA
8980856 TTTATCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTATTTATTATTAC
Found at i:8980872 original size:38 final size:37
Alignment explanation
Indices: 8980798--8980891 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 37
8980788 TTTTGTATTT
*
8980798 TATTTATTATTTATTTATTATTACTATTTATT-TATA
1 TATTTATTATTTATTTATTATTACTATTGATTATATA
8980834 TATTTTATTTATTTATTTATTATTTATCTATTGA-TATATA
1 TA-TTTA-TTATTTATTTATTA-TTA-CTATTGATTATATA
8980874 TACTTTATTA-TTATTTAT
1 TA-TTTATTATTTATTTAT
8980892 CTTTATTATT
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
36 2 0.04
37 4 0.08
38 22 0.43
39 7 0.14
40 16 0.31
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (37 bp):
TATTTATTATTTATTTATTATTACTATTGATTATATA
Found at i:8980891 original size:63 final size:62
Alignment explanation
Indices: 8980815--8980945 Score: 160
Period size: 63 Copynumber: 2.1 Consensus size: 62
8980805 TATTTATTTA
* * *
8980815 TTATTACTATTTAT-TTATATATTTTATTTATTTATT-TATTATTTATCTATTGATATA-TATAC
1 TTATTACTATTTATCTT-TAT-TATTATTTATCTATTATATT-TTTATCTATTAATATATTAT-C
8980877 T
62 T
*
8980878 TTATTATTATTTATCTTTATTATTATTTATCTATTAATATTTTTATCTATTAATATATTATCT
1 TTATTACTATTTATCTTTATTATTATTTATCTATT-ATATTTTTATCTATTAATATATTATCT
8980941 TTATT
1 TTATT
8980946 TTTTATTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 13 0.22
63 38 0.63
64 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (62 bp):
TTATTACTATTTATCTTTATTATTATTTATCTATTATATTTTTATCTATTAATATATTATCT
Found at i:8981821 original size:5 final size:5
Alignment explanation
Indices: 8981811--8981867 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
8981801 TTAGTATTTC
* *
8981811 TTATT TTATT TTATC TTATT TTATT CTATT TTATCT TTATT TT-TAT TT-TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT-T TTATT TTAT-T TTATT
8981861 TTATT TT
1 TTATT TT
8981868 CTTTAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.09
5 36 0.80
6 5 0.11
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:8981834 original size:20 final size:22
Alignment explanation
Indices: 8981805--8981859 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 22
8981795 AATTATTTAG
8981805 TATTTCTTATTTTATTTTATC-T
1 TATTT-TTATTTTATTTTATCTT
*
8981827 TA-TTTTATTCTATTTTATCTT
1 TATTTTTATTTTATTTTATCTT
8981848 TATTTTTATTTT
1 TATTTTTATTTT
8981860 TTTATTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.48
21 5 0.17
22 10 0.34
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTTATTTTATTTTATCTT
Found at i:8981926 original size:58 final size:58
Alignment explanation
Indices: 8981864--8982112 Score: 283
Period size: 58 Copynumber: 4.3 Consensus size: 58
8981854 TATTTTTTTA
8981864 TTTTCTTTAAATAAAAT-TTCAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAATAAAATCTTCAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAAT
* * *
8981922 TTTTCTTGAAA-ATAAGTCTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATTAAT
1 TTTTCTTTAAATA-AAATCTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * *
8981980 TTTTTTTTAAA-ATAAGTCTTCAAAAAAATATTTTTAAGGAAAAGTTGAAGGAATCAAT
1 TTTTCTTTAAATA-AAATCTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * * * *
8982038 TTTTCTTAAAAGT-AAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTTAAA-TAAAATCTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
8982096 TTTT-TTTGAAAATAAAA
1 TTTTCTTT--AAATAAAA
8982113 ATTTTTTTAA
Statistics
Matches: 166, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.02
58 149 0.90
59 14 0.08
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.39
Consensus pattern (58 bp):
TTTTCTTTAAATAAAATCTTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAAT
Found at i:8981955 original size:31 final size:30
Alignment explanation
Indices: 8981920--8982014 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 30
8981910 GAAAGTATCA
8981920 ATTTTTCTTGAAAATAAGTCTTCAAAAAAAT
1 ATTTTT-TTGAAAATAAGTCTTCAAAAAAAT
** * *
8981951 ATTTTTAAG-AAA-AAG--TTGAAAGTATTAAT
1 ATTTTTTTGAAAATAAGTCTTCAAA--A-AAAT
*
8981980 -TTTTTTTTAAAATAAGTCTTCAAAAAAAT
1 ATTTTTTTGAAAATAAGTCTTCAAAAAAAT
8982009 ATTTTT
1 ATTTTT
8982015 AAGGAAAAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 17
0.64 0.12 0.23
Matches are distributed among these distances:
26 5 0.11
28 9 0.19
29 12 0.26
30 10 0.21
31 6 0.13
32 5 0.11
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTTTTTTGAAAATAAGTCTTCAAAAAAAT
Found at i:8982005 original size:116 final size:116
Alignment explanation
Indices: 8981881--8982110 Score: 354
Period size: 116 Copynumber: 2.0 Consensus size: 116
8981871 TAAATAAAAT
*
8981881 TTCAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAA-TAAGTCTTCAA
1 TTCAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTTCTT-AAAAGTAAGTCTTCAA
* *
8981945 AAAAATATTTTTAAGAAAAAGTTGAAAGTATTAATTTTTTTTTAAAATAAGTC
64 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGTC
* * * *
8981998 TTCAAAAAAATATTTTTAAGGAAAAGTTGAAGGAATCAATTTTTCTTAAAAGTAAGTTTTCTAAA
1 TTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTTCTTAAAAGTAAGTCTTCAAAA
* *
8982063 AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAA
66 AAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAA
8982111 AAATTTTTTT
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
115 4 0.04
116 90 0.87
117 9 0.09
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (116 bp):
TTCAAAAAAATATTTTTAAGAAAAAGTTGAAAGAATCAATTTTTCTTAAAAGTAAGTCTTCAAAA
AAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAGTC
Found at i:8991013 original size:20 final size:20
Alignment explanation
Indices: 8990988--8991055 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
8990978 TTTTTAAGAT
8990988 AAAAAATGCAATCTTTGTTA
1 AAAAAATGCAATCTTTGTTA
*
8991008 AAAAAA--CAATATTT-TTA
1 AAAAAATGCAATCTTTGTTA
*
8991025 AGATAGAAATGCAGTCTTTGTTGA
1 A-A-A-AAATGCAATCTTTGTT-A
8991049 AAAAAAT
1 AAAAAAT
8991056 AATATTTCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
17 4 0.11
18 8 0.21
19 1 0.03
20 9 0.24
21 4 0.11
22 7 0.18
23 3 0.08
24 2 0.05
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (20 bp):
AAAAAATGCAATCTTTGTTA
Found at i:8991045 original size:40 final size:42
Alignment explanation
Indices: 8990975--8991062 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 42
8990965 AATAAGGACG
8990975 ATATTTTTAAGATAAAAAATGCAATCTTTGTT-AAAAAAACA
1 ATATTTTTAAGATAAAAAATGCAATCTTTGTTGAAAAAAACA
* * *
8991016 ATATTTTTAAGAT-AGAAATGCAGTCTTTGTTGAAAAAAATA
1 ATATTTTTAAGATAAAAAATGCAATCTTTGTTGAAAAAAACA
8991057 ATATTT
1 ATATTT
8991063 CTAATATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 16 0.37
41 27 0.63
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (42 bp):
ATATTTTTAAGATAAAAAATGCAATCTTTGTTGAAAAAAACA
Found at i:8991742 original size:18 final size:17
Alignment explanation
Indices: 8991715--8991751 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
8991705 CGTAAGGACA
*
8991715 ATTAACATTATAATAATT
1 ATTAAAATTATAA-AATT
8991733 ATTAAAATTATAAAATT
1 ATTAAAATTATAAAATT
8991750 AT
1 AT
8991752 ATTATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAAATTATAAAATT
Found at i:8991781 original size:22 final size:21
Alignment explanation
Indices: 8991728--8991783 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
8991718 AACATTATAA
*
8991728 TAATTATTAAAATTATAAAAT
1 TAATTATTAAAATTAAAAAAT
8991749 TATATTATTAAAATATAAAAAAAT
1 TA-ATTATTAAAAT-T-AAAAAAT
8991773 TAATT-TTAAAA
1 TAATTATTAAAA
8991784 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 2 0.06
22 17 0.55
23 4 0.13
24 8 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATTATTAAAATTAAAAAAT
Found at i:8992750 original size:11 final size:11
Alignment explanation
Indices: 8992734--8992758 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8992724 AAATGGGGAC
8992734 AAGAAAAAAAA
1 AAGAAAAAAAA
8992745 AAGAAAAAAAA
1 AAGAAAAAAAA
8992756 AAG
1 AAG
8992759 GGGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:8995652 original size:11 final size:9
Alignment explanation
Indices: 8995627--8995654 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8995617 GATTTCTAGG
8995627 GTTATATAT
1 GTTATATAT
8995636 GTTATATAT
1 GTTATATAT
8995645 GTTATATAT
1 GTTATATAT
8995654 G
1 G
8995655 CCAGTCTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (9 bp):
GTTATATAT
Found at i:8999508 original size:27 final size:26
Alignment explanation
Indices: 8999434--8999508 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 26
8999424 AAATTTATAT
* *
8999434 TAATATATATTTTTTCAATA-AAAATA
1 TAATTTATATTATTT-AATATAAAATA
* * * *
8999460 T-ATTAATTTTAATTAATCTAAAATAA
1 TAATTTATATTATTTAATATAAAAT-A
8999486 TAATTTATATTATTTAATATAAA
1 TAATTTATATTATTTAATATAAA
8999509 TTTATATACT
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
24 3 0.08
25 13 0.36
26 3 0.08
27 17 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATTTATATTATTTAATATAAAATA
Found at i:8999523 original size:19 final size:20
Alignment explanation
Indices: 8999487--8999525 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
8999477 CTAAAATAAT
* *
8999487 AATTTATATTATTTAATATA
1 AATTTATATTACTAAATATA
8999507 AATTTATA-TACTAAATATA
1 AATTTATATTACTAAATATA
8999526 TAAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTATATTACTAAATATA
Found at i:9005457 original size:17 final size:18
Alignment explanation
Indices: 9005435--9005470 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9005425 ATTGAAAAAG
9005435 TTTCACACATC-CAATTT
1 TTTCACACATCTCAATTT
*
9005452 TTTCACTCATCTCAATTT
1 TTTCACACATCTCAATTT
9005470 T
1 T
9005471 CTATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCACACATCTCAATTT
Found at i:9005683 original size:27 final size:27
Alignment explanation
Indices: 9005646--9005703 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
9005636 TTAATAGCAC
9005646 AAAA-GTCTTAAACAAACGTAAACAAT
1 AAAAGGTCTTAAACAAACGTAAACAAT
9005672 AAAAGGTCTTAAACAAACGTAAACAAT
1 AAAAGGTCTTAAACAAACGTAAACAAT
9005699 AAAAG
1 AAAAG
9005704 TATTTTGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.17
Consensus pattern (27 bp):
AAAAGGTCTTAAACAAACGTAAACAAT
Found at i:9005960 original size:161 final size:161
Alignment explanation
Indices: 9005714--9006491 Score: 746
Period size: 161 Copynumber: 4.8 Consensus size: 161
9005704 TATTTTGGCC
* * * * * * * *
9005714 TTTCATACATATCAATTATGGAAACTAAATTCAATCATTTGGACAAGTTTAATATCATGTATTAA
1 TTTCACACATATCAACTATGAAAACTAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
* * * *
9005779 AGCTATCTAAACTATTAAAACAGAACAATAACATCAACTTTGTATTTTTGCCTTTTAACGGTAAA
66 AGCTATCCAAACTATTAAAACAGAACAATAACATCAAATTTGTATTTTTGCCTTTTAACGGCACA
* *
9005844 AAAAATCCTAAACAAAGGTAAACAATAACTT
131 AAAAATCCTAAACAGATGTAAACAATAACTT
* * * * *
9005875 CTTCACATATATCAACTGTGAAAA-TCAATTTCAATCATTCGAAAAAGTTTAATATAATGTATTG
1 TTTCACACATATCAACTATGAAAACT-AAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTG
* * * * *
9005939 AAGCTATCCAAA-TAGTTAAAACAGAACAACAATATCAATTTTGCA-TTTTGCCTTTTAATGGCA
65 AAGCTATCCAAACTA-TTAAAACAGAACAATAACATCAAATTTGTATTTTTGCCTTTTAACGGCA
* * ** *
9006002 TAAAAAGTCCTAAACAGATGTAAACGTTAACTA
129 CAAAAAATCCTAAACAGATGTAAACAATAACTT
* * * * *
9006035 TTTCACACATATCAACTATGAAAACCAAGTTCAGTTATTCCAACAAGTTTAATATCATGTATTGA
1 TTTCACACATATCAACTATGAAAACTAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
* * * * * * *
9006100 AGCTATGCAAACTATTAAAATAGAACATTAACAACAAATTTGCATTTTTG-CTTCGTAACAGCAC
66 AGCTATCCAAACTATTAAAACAGAACAATAACATCAAATTTGTATTTTTGCCTT-TTAACGGCAC
* * * ** *
9006164 AAAAAGTCTTAAATAGATGTAAATGATAGCTT
130 AAAAAATCCTAAACAGATGTAAACAATAACTT
* * * *
9006196 TTTGATACATATCAATTGTGAAAACTAAGTTCAATCATTC-AAACAAGTTTAATATCATGTATTG
1 TTTCACACATATCAACTATGAAAACTAAGTTCAATCATTCGAAA-AAGTTTAATATCATGTATTG
* * * * * * * * * *
9006260 GAGCTATCCAAACTGTTAAAATAAAACAATAATAGCAAATTTATATTTTTACCTATTAATGGCAC
65 AAGCTATCCAAACTATTAAAACAGAACAATAACATCAAATTTGTATTTTTGCCTTTTAACGGCAC
9006325 AAAAAATCCT-AACTAGATGTAAACAATAACTT
130 AAAAAATCCTAAAC-AGATGTAAACAATAACTT
* * * * * * *
9006357 TTTTATACATATCAACTATGGAAACTAAGTTCAATAATTTTG-ATAAGTTTAATATAATGTATTG
1 TTTCACACATATCAACTATGAAAACTAAGTTCAATCA-TTCGAAAAAGTTTAATATCATGTATTG
* * * * * * *
9006421 AAACCATCAAAACTATTAAAATCA-AACAATAA-TTGTAAATTTGTATTTTTACCTTTTAATGGC
65 AAGCTATCCAAACTATTAAAA-CAGAACAATAACAT-CAAATTTGTATTTTTGCCTTTTAACGGC
9006484 ACAAAAAA
128 ACAAAAAA
9006492 GTTGTAAAGA
Statistics
Matches: 504, Mismatches: 100, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
160 140 0.28
161 358 0.71
162 6 0.01
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
TTTCACACATATCAACTATGAAAACTAAGTTCAATCATTCGAAAAAGTTTAATATCATGTATTGA
AGCTATCCAAACTATTAAAACAGAACAATAACATCAAATTTGTATTTTTGCCTTTTAACGGCACA
AAAAATCCTAAACAGATGTAAACAATAACTT
Found at i:9011306 original size:184 final size:184
Alignment explanation
Indices: 9010992--9011360 Score: 630
Period size: 184 Copynumber: 2.0 Consensus size: 184
9010982 TAGGTTATTG
* *
9010992 GTCACCTACACCTATCCTTTGTTTACCAAATTTATTCATTTCAACATTTGACTTATTAAATCCAA
1 GTCAACTACACCTATCCTTTGTTTACCAAATTCATTCATTTCAACATTTGACTTATTAAATCCAA
* *
9011057 CATTTTGGGGAGACAAATGATGAAAATATTGGTTATGAATGTTAAAAGCATCTCACAACATGCCT
66 CATTTTGAGGAGACAAATGATGAAAATATTGGTTATAAATGTTAAAAGCATCTCACAACATGCCT
*
9011122 TCAATGTCATCTTATCTAATAGGATCATGTTGGTGTTGGGAAGCCCTTAATGTT
131 TCAATGTCATCTTATCTAATAGGATCATGTTGGTGTTGGAAAGCCCTTAATGTT
* * *
9011176 GTCAACTACACCTATCTTTTGTTTACCAAATTCATTCATTTCAACATTTGACTTATTAAATCTAG
1 GTCAACTACACCTATCCTTTGTTTACCAAATTCATTCATTTCAACATTTGACTTATTAAATCCAA
** *
9011241 CATTTTGAGGAGACGGATGATGAAAATATTGGTTATAAATGTTAAAAGTATCTCACAACATGCCT
66 CATTTTGAGGAGACAAATGATGAAAATATTGGTTATAAATGTTAAAAGCATCTCACAACATGCCT
*
9011306 TTAATGTCATCTTATCTAATAGGATCATGTTGGTGTTGGAAAGCCCTTAATGTT
131 TCAATGTCATCTTATCTAATAGGATCATGTTGGTGTTGGAAAGCCCTTAATGTT
9011360 G
1 G
9011361 AAGGAACTCT
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
184 173 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (184 bp):
GTCAACTACACCTATCCTTTGTTTACCAAATTCATTCATTTCAACATTTGACTTATTAAATCCAA
CATTTTGAGGAGACAAATGATGAAAATATTGGTTATAAATGTTAAAAGCATCTCACAACATGCCT
TCAATGTCATCTTATCTAATAGGATCATGTTGGTGTTGGAAAGCCCTTAATGTT
Found at i:9011676 original size:15 final size:13
Alignment explanation
Indices: 9011646--9011670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9011636 CATCAGACCA
9011646 AAATTATATAAAT
1 AAATTATATAAAT
9011659 AAATTATATAAA
1 AAATTATATAAA
9011671 AATAAACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTATATAAAT
Found at i:9013740 original size:62 final size:62
Alignment explanation
Indices: 9013596--9013740 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 62
9013586 AAAATAAAAA
*
9013596 GGATTATTAAAGGTATTTTTTAGCAAAAAACACCTTTAATAATTTCATTTAAAAAATTAGAGG
1 GGATTATTAAAGGT-TTTTTTAGCAAAAAACACCTCTAATAATTTCATTTAAAAAATTAGAGG
* * ** * ** * *
9013659 AGATTATTGAAGGCATTTTT-GCTCAAAAATGCCTCTAATAATTTTC-TTGTCAAAATTTA-AGG
1 GGATTATTAAAGGTTTTTTTAGC-AAAAAACACCTCTAATAA-TTTCATT-TAAAAAATTAGAGG
9013721 GGATTATTAAAGGTTTTTTT
1 GGATTATTAAAGGTTTTTTT
9013741 TCTTTTTTCA
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
61 2 0.03
62 40 0.62
63 23 0.35
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (62 bp):
GGATTATTAAAGGTTTTTTTAGCAAAAAACACCTCTAATAATTTCATTTAAAAAATTAGAGG
Found at i:9023787 original size:8 final size:7
Alignment explanation
Indices: 9023759--9023783 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9023749 TTTCATGAAT
9023759 AAAATAA
1 AAAATAA
9023766 AAAATAA
1 AAAATAA
9023773 AAAATAA
1 AAAATAA
9023780 AAAA
1 AAAA
9023784 ATAATCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:9023991 original size:2 final size:2
Alignment explanation
Indices: 9023984--9024022 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9023974 AAAGTTTTCT
9023984 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
9024023 TGTCTTATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9025305 original size:21 final size:22
Alignment explanation
Indices: 9025281--9025321 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9025271 TAAGTTTTCC
9025281 ACAAA-AAATTTTCTTTTTTAA
1 ACAAATAAATTTTCTTTTTTAA
* *
9025302 ACAAATAGATTTTTTTTTTT
1 ACAAATAAATTTTCTTTTTT
9025322 TTTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (22 bp):
ACAAATAAATTTTCTTTTTTAA
Found at i:9026327 original size:10 final size:10
Alignment explanation
Indices: 9026312--9026341 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9026302 CGGCAAGAAA
9026312 ACAGATCATG
1 ACAGATCATG
9026322 ACAGATCATG
1 ACAGATCATG
9026332 ACAGAT-ATG
1 ACAGATCATG
9026341 A
1 A
9026342 TTCTTTGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (10 bp):
ACAGATCATG
Found at i:9029395 original size:39 final size:38
Alignment explanation
Indices: 9029347--9029422 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
9029337 TAAAAAATGC
*
9029347 TTAGAAAAAACTTCTCA-CTTAAAAATTTTTTAAAAAAA
1 TTAGAAAAAACTCCTCACCTT-AAAATTTTTTAAAAAAA
*
9029385 TTAGAGAAAAACTCCTCACCTTAAATTTTTTTAAAAAA
1 TTAGA-AAAAACTCCTCACCTTAAAATTTTTTAAAAAA
9029423 CTATCTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 5 0.15
39 26 0.76
40 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (38 bp):
TTAGAAAAAACTCCTCACCTTAAAATTTTTTAAAAAAA
Found at i:9029903 original size:3 final size:3
Alignment explanation
Indices: 9029884--9029931 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
9029874 ATTAATTTAT
*
9029884 TTA TT- TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9029931 T
1 T
9029932 GCTTTAACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Done.