Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 138 of 144
Found at i:35853279 original size:17 final size:17
Alignment explanation
Indices: 35853257--35853290 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35853247 CTCTCTAAAT
35853257 TAATTTAAATATTTTAC
1 TAATTTAAATATTTTAC
35853274 TAATTTAAATATTTTAC
1 TAATTTAAATATTTTAC
35853291 AAGTTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTTAAATATTTTAC
Found at i:35854204 original size:18 final size:18
Alignment explanation
Indices: 35854181--35854223 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
35854171 ATTAAAATTA
*
35854181 TTAATATTCTAATTTTTT
1 TTAATATTATAATTTTTT
*
35854199 TTAATATTATACTTTTTT
1 TTAATATTATAATTTTTT
35854217 TTGAATA
1 TT-AATA
35854224 AAAATATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTAATATTATAATTTTTT
Found at i:35861477 original size:11 final size:11
Alignment explanation
Indices: 35861461--35861564 Score: 59
Period size: 11 Copynumber: 9.5 Consensus size: 11
35861451 TATTGTTGCT
*
35861461 TTTTTTTATTA
1 TTTTATTATTA
*
35861472 TTTT-TTCATTG
1 TTTTATT-ATTA
* *
35861483 TTTTGTTATCA
1 TTTTATTATTA
**
35861494 TTTCGTTATTA
1 TTTTATTATTA
* *
35861505 TATTACTATTA
1 TTTTATTATTA
35861516 TTTTATTATTA
1 TTTTATTATTA
* * * *
35861527 TATAACTCTTA
1 TTTTATTATTA
35861538 TTTTATTATTAA
1 TTTTATTATT-A
*
35861550 TTTT-TAATTA
1 TTTTATTATTA
35861560 TTTTA
1 TTTTA
35861565 AAGTTATTTA
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
10 7 0.10
11 55 0.80
12 7 0.10
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:35861524 original size:22 final size:22
Alignment explanation
Indices: 35861499--35861548 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
35861489 TATCATTTCG
*
35861499 TTATTATATTACTATTATTTTA
1 TTATTATATAACTATTATTTTA
*
35861521 TTATTATATAACTCTTATTTTA
1 TTATTATATAACTATTATTTTA
35861543 TTATTA
1 TTATTA
35861549 ATTTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTATATAACTATTATTTTA
Found at i:35863446 original size:2 final size:2
Alignment explanation
Indices: 35863439--35863464 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35863429 TTCAAAGCGT
35863439 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
35863465 GTTATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35871838 original size:27 final size:28
Alignment explanation
Indices: 35871778--35871850 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
35871768 CATTCATTAT
* * *
35871778 TAATAAATATATTTTTAATTTTGATATAA
1 TAATAAATAAAATTTTAA-TTTGAAATAA
*
35871807 AAATAAATAAAATTTTAA-TTGAAATAA
1 TAATAAATAAAATTTTAATTTGAAATAA
35871834 TAAT--ATAAAATATTTAA
1 TAATAAATAAAAT-TTTAA
35871851 AAGTTATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 7 0.18
26 5 0.13
27 11 0.29
29 15 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TAATAAATAAAATTTTAATTTGAAATAA
Found at i:35872196 original size:19 final size:19
Alignment explanation
Indices: 35872174--35872212 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35872164 TATTTTTTAT
*
35872174 AAATTAATATAAAAA-TTAA
1 AAATTAA-AAAAAAACTTAA
35872193 AAATTAAAAAAAAACTTAA
1 AAATTAAAAAAAAACTTAA
35872212 A
1 A
35872213 CTAGGGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATTAAAAAAAAACTTAA
Found at i:35879002 original size:33 final size:33
Alignment explanation
Indices: 35878965--35879034 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
35878955 TATTCATCTT
35878965 AAAAATCTCGAATTCAAATGCCTGTGTGTGTGC
1 AAAAATCTCGAATTCAAATGCCTGTGTGTGTGC
35878998 AAAAATCTCGAATTCAAATGCCTGTGTGTGTGC
1 AAAAATCTCGAATTCAAATGCCTGTGTGTGTGC
35879031 AAAA
1 AAAA
35879035 CATATGTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (33 bp):
AAAAATCTCGAATTCAAATGCCTGTGTGTGTGC
Found at i:35880740 original size:33 final size:33
Alignment explanation
Indices: 35880698--35880764 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
35880688 AAAATTATAG
35880698 TTAGAAGGCAAATTTCACAGATACAAGATCTTT
1 TTAGAAGGCAAATTTCACAGATACAAGATCTTT
35880731 TTAGAAGGCAAATTTCACAGATACAAGATCTTT
1 TTAGAAGGCAAATTTCACAGATACAAGATCTTT
35880764 T
1 T
35880765 AGTGTAGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (33 bp):
TTAGAAGGCAAATTTCACAGATACAAGATCTTT
Found at i:35893101 original size:31 final size:29
Alignment explanation
Indices: 35893045--35893103 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
35893035 TTAAAATTTC
*
35893045 ATATATAAAATTACACAAAATCAAAATTA
1 ATATATAAAATTACACAAAACCAAAATTA
35893074 ATATATAAAATTACACATTAAACCAAAATT
1 ATATATAAAATTACACA--AAACCAAAATT
35893104 TATGTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 17 0.63
31 10 0.37
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (29 bp):
ATATATAAAATTACACAAAACCAAAATTA
Found at i:35893453 original size:2 final size:2
Alignment explanation
Indices: 35893428--35893466 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
35893418 TATGAGTTAA
* * *
35893428 AT AT AA AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35893467 ACTTTAATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:35893463 original size:12 final size:12
Alignment explanation
Indices: 35893428--35893466 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
35893418 TATGAGTTAA
*
35893428 ATATAAATATAA
1 ATATAAATATAT
35893440 ATATAAATATAT
1 ATATAAATATAT
*
35893452 ATATATATATAT
1 ATATAAATATAT
35893464 ATA
1 ATA
35893467 ACTTTAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:35893466 original size:6 final size:6
Alignment explanation
Indices: 35893425--35893462 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
35893415 GATTATGAGT
* *
35893425 TAAATA TAAATA TAAATA TAAATA TATATA TATATA TA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TA
35893463 TATAACTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
TAAATA
Found at i:35893654 original size:29 final size:30
Alignment explanation
Indices: 35893612--35893668 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
35893602 GAATTGAATC
* **
35893612 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAATTCATACATAAAATTACACA
35893642 AAAT-AAAAATTCATACATAAAATTACA
1 AAATCAAAAATTCATACATAAAATTACA
35893669 AATTAGGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
AAATCAAAAATTCATACATAAAATTACACA
Found at i:35897356 original size:60 final size:60
Alignment explanation
Indices: 35897263--35897382 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
35897253 AGAAAGTTGG
*
35897263 AGAAGAGAATGTCTTTCTCTTTCTTTCCATTAACCAATTTTTATTACATATGTTTTTATT
1 AGAAGACAATGTCTTTCTCTTTCTTTCCATTAACCAATTTTTATTACATATGTTTTTATT
35897323 AGAAGACAATGTCTTTCTCTTTCTTTCCATTAACCAATTTTTATTACATATGTTTTTATT
1 AGAAGACAATGTCTTTCTCTTTCTTTCCATTAACCAATTTTTATTACATATGTTTTTATT
35897383 TATTTTAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.50
Consensus pattern (60 bp):
AGAAGACAATGTCTTTCTCTTTCTTTCCATTAACCAATTTTTATTACATATGTTTTTATT
Found at i:35898564 original size:6 final size:6
Alignment explanation
Indices: 35898553--35898579 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35898543 CTCATGATAC
35898553 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
35898580 GAAACATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:35908493 original size:49 final size:49
Alignment explanation
Indices: 35908417--35908551 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
35908407 TTTAGGATCA
** * *
35908417 ATTTGACATCAATTAGAATAAGATTTTTCAACCTT-CTTACATTTTTTCT
1 ATTTGACATTGATTAGAATAAGATTTTTCAACCTTAC-TACACTTCTTCT
* *
35908466 ATTTGACATTGATTAGAATAAGGTTTTTCAACTTTACTACACTTCTTCT
1 ATTTGACATTGATTAGAATAAGATTTTTCAACCTTACTACACTTCTTCT
* * *
35908515 ATTTGACAGTGATTAGAATAAAATTTTTTTAACCTTA
1 ATTTGACATTGATTAGAATAAGA-TTTTTCAACCTTA
35908552 TATATTTGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 61 0.84
50 12 0.16
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (49 bp):
ATTTGACATTGATTAGAATAAGATTTTTCAACCTTACTACACTTCTTCT
Found at i:35913724 original size:23 final size:25
Alignment explanation
Indices: 35913691--35913737 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
35913681 ACAAAATTTA
35913691 AATATGTAAAT-ACATTAT-ATTGTG
1 AATATGTAAATGA-ATTATAATTGTG
35913715 AATAT-TAAATGAATTATAATTGT
1 AATATGTAAATGAATTATAATTGT
35913738 TTATCATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (25 bp):
AATATGTAAATGAATTATAATTGTG
Found at i:35925065 original size:48 final size:48
Alignment explanation
Indices: 35925013--35925908 Score: 937
Period size: 48 Copynumber: 18.7 Consensus size: 48
35925003 GGATGGAGGA
* * * * *
35925013 GGTGGGGACTTGTAGTAGTAGGGCGGTGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * * * *
35925061 GGTGGAGATTTGTAGTAGTAGGGAGGAGGTGGAGA-TGGTGA-TGGGGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGT-G-GACTGGTGGT
* * * * ** * *
35925109 GGTGGAGATTTGTAGTAGTAGGGAGGAGGAGGAGA-TGGAGAGGGGGAA
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGG-T
* * * *
35925157 GGAGGAGATTTGTAGTAGTATGGTGGTGGTGGTGA-TGGTGA-TGGTGGA
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGT-G-GACTGGTGGT
* * * * * * * * ** ** *
35925205 GGAGGGGAGTTGTAGTGGTAAGTTGGTGCTGGAGCCTTCACTGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * * * *
35925253 GGTGGTGATTTGTAGTAGTATGGTGGCGGAGGAGA-TGGTGA-AGGAGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGT-G-GACTGGTGGT
* * * * * *
35925301 GGAGGTGATTTGTAGTAGTATGGTGGAGGTGGTGAATGAGA-AGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTG-GACTGGTGGT
* * *
35925349 GGTGGAGACTTGTAATAGTATGGTGCGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* *
35925397 GGTGGAGATTTGTAATAGTATGGTAGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * *
35925445 GGGGGAGACTTGTAATAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
*
35925493 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGATTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * * *
35925541 GGGGGAGACTTGTAGTAATATGGTGGGGGTGGAGAGTGGACTGGTGGC
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * * *
35925589 GGTGGAGATTTGTAGTAGTATGGTGGAGGTGGTGAATGAGA-AGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTG-GACTGGTGGT
* * *
35925637 GGTGGAGACTTGTAATAGTACGGTGGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* *
35925685 GGTGGAGATTTGTAATAGTATGGTAGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * *
35925733 GGGGGAGACTTGTAATAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
*
35925781 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAATGGACTGGTGGT
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * * *
35925829 GGGGGAGACTTGTAGTAATATGGTGGGGGTGGAGAGTGGACTGGTGGC
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
* * *
35925877 GGTGGAGATTTGTAATAGTATGATGGAGGTGG
1 GGTGGAGATTTGTAGTAGTATGGTGGGGGTGG
35925909 TGGTGACTTG
Statistics
Matches: 727, Mismatches: 107, Indels: 28
0.84 0.12 0.03
Matches are distributed among these distances:
46 2 0.00
47 13 0.02
48 698 0.96
49 12 0.02
50 2 0.00
ACGTcount: A:0.20, C:0.03, G:0.50, T:0.27
Consensus pattern (48 bp):
GGTGGAGATTTGTAGTAGTATGGTGGGGGTGGAGAGTGGACTGGTGGT
Found at i:35925491 original size:21 final size:21
Alignment explanation
Indices: 35925465--35925596 Score: 79
Period size: 21 Copynumber: 5.7 Consensus size: 21
35925455 TGTAATAGTA
35925465 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
*
35925486 TGGTGGTGGTGGAGATTTGTAGTAGTA-
1 TGGTGGGGGTGGAGA---GT-G--G-AC
*
35925513 TGGTGGGGGTGGAGATTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
* *
35925534 TGGTGGTGGG-GGAGACTTGTAGTAATA
1 TGGTGG-GGGTGGAGA---GT-G-GA-C
35925561 TGGTGGGGGTGGAGAGTGGAC
1 TGGTGGGGGTGGAGAGTGGAC
*
35925582 TGGTGGCGGTGGAGA
1 TGGTGGGGGTGGAGA
35925597 TTTGTAGTAG
Statistics
Matches: 86, Mismatches: 9, Indels: 32
0.68 0.07 0.25
Matches are distributed among these distances:
20 1 0.01
21 40 0.47
22 4 0.05
23 2 0.02
24 6 0.07
25 2 0.02
26 4 0.05
27 26 0.30
28 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.54, T:0.26
Consensus pattern (21 bp):
TGGTGGGGGTGGAGAGTGGAC
Found at i:35925944 original size:36 final size:35
Alignment explanation
Indices: 35925904--35926023 Score: 117
Period size: 36 Copynumber: 3.5 Consensus size: 35
35925894 GTATGATGGA
35925904 GGTGGTGGTGACTTGTAAACATAGGTAGGGCTTGGT
1 GGTGGTGGTGACTTGTAAACATA-GTAGGGCTTGGT
* * *
35925940 GGTGGCGAG-GACTTGT--A-ATAGTATGG--TGGA
1 GGTGGTG-GTGACTTGTAAACATAGTAGGGCTTGGT
* * *
35925970 GGAGGTGGTGACTTATAAACATAAGTGGGGCTTGGT
1 GGTGGTGGTGACTTGTAAACAT-AGTAGGGCTTGGT
35926006 GGTGGTGGTGACTTGTAA
1 GGTGGTGGTGACTTGTAA
35926024 TAGTAAGGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
29 1 0.02
30 14 0.22
32 6 0.09
33 5 0.08
34 6 0.09
36 32 0.49
37 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.29
Consensus pattern (35 bp):
GGTGGTGGTGACTTGTAAACATAGTAGGGCTTGGT
Found at i:35925977 original size:66 final size:66
Alignment explanation
Indices: 35925886--35926028 Score: 216
Period size: 66 Copynumber: 2.2 Consensus size: 66
35925876 CGGTGGAGAT
* * *
35925886 TTGTAATAGTATGATGGAGGTGGTGGTGACTTGTAAACATAGGTAGGGCTTGGTGGTGGCGAG-G
1 TTGTAATAGTATGATGGAGGAGGTGGTGACTTATAAACATAAGTAGGGCTTGGTGGTGGCG-GTG
35925950 AC
65 AC
* * *
35925952 TTGTAATAGTATGGTGGAGGAGGTGGTGACTTATAAACATAAGTGGGGCTTGGTGGTGGTGGTGA
1 TTGTAATAGTATGATGGAGGAGGTGGTGACTTATAAACATAAGTAGGGCTTGGTGGTGGCGGTGA
35926017 C
66 C
35926018 TTGTAATAGTA
1 TTGTAATAGTA
35926029 AGGAGTTGGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
65 1 0.01
66 69 0.99
ACGTcount: A:0.24, C:0.06, G:0.39, T:0.31
Consensus pattern (66 bp):
TTGTAATAGTATGATGGAGGAGGTGGTGACTTATAAACATAAGTAGGGCTTGGTGGTGGCGGTGA
C
Found at i:35927204 original size:48 final size:48
Alignment explanation
Indices: 35927152--35927597 Score: 461
Period size: 48 Copynumber: 9.3 Consensus size: 48
35927142 ATGCGGAGGA
* * *
35927152 GGTGGCGGAGACTTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * * *
35927200 GGTGGGGGAGACTTGTAATAGTATGGTAGG-GGGGGAGACT--TCACTGGA
1 GGTGGTGGAGACTTGTAGTAGTAAGGT-GGTGGTGGAGA-TGGTGA-AGGT
* *
35927248 GGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * *
35927296 GGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * *
35927344 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * *
35927392 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGGGGAGACT--TCACTGGA
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGA-TGGTGA-AGGT
* *
35927440 GGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * *
35927488 GGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
* * * * * *
35927536 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGT
1 GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
*
35927584 GGTGGGGGAGACTT
1 GGTGGTGGAGACTT
35927598 CACTGGAGGT
Statistics
Matches: 326, Mismatches: 62, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
47 7 0.02
48 312 0.96
49 7 0.02
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.26
Consensus pattern (48 bp):
GGTGGTGGAGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGT
Found at i:35927274 original size:96 final size:95
Alignment explanation
Indices: 35927149--35927597 Score: 517
Period size: 96 Copynumber: 4.7 Consensus size: 95
35927139 GTAATGCGGA
* *
35927149 GGAGGTGGCGGAGACTTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGGGGAGACTT
1 GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
* *
35927214 GTAATAGTATGGTAGG-GGGGGAGACT-TCACT
66 GTAGTAGTAAGGT-GGTGGGGGAGA-TGTCA-T
* * * * *
35927245 GGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATTT
1 GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
** *
35927310 GTAGTAGTAAGGTGGTGTTGGAGATGGTGAT
66 GTAGTAGTAAGGTGGTGGGGGAGAT-GTCAT
* * * * * *
35927341 GGTGGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTT
1 GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
*
35927406 GTAGTAGTATGGTGGTGGGGGAGACT-TCACT
66 GTAGTAGTAAGGTGGTGGGGGAGA-TGTCA-T
* * * * *
35927437 GGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGGTGAGGGTGGTGGTGGAGATTT
1 GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
** *
35927502 GTAGTAGTAAGGTGGTGTTGGAGATGGTGAT
66 GTAGTAGTAAGGTGGTGGGGGAGAT-GTCAT
* * * * * *
35927533 GGTGGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTT
1 GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
35927598 CACTGGAGGT
Statistics
Matches: 293, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
95 6 0.02
96 282 0.96
97 5 0.02
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.26
Consensus pattern (95 bp):
GGAGGTGGTGGAGACTTATAGTAGTAAGGTGGTGGTGGAGATGGTGAAGGTGGTGGGGGAGACTT
GTAGTAGTAAGGTGGTGGGGGAGATGTCAT
Found at i:35927296 original size:21 final size:21
Alignment explanation
Indices: 35927270--35927354 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 21
35927260 TTGTAGTAGT
35927270 AAGGTGGTGGTGGAGATGGTG
1 AAGGTGGTGGTGGAGATGGTG
*
35927291 AGGGTGGTGGTGGAGATTTGTAGTAG
1 AAGGTGGTGGTGGAGA--TG--GT-G
*
35927317 TAAGGTGGTGTTGGAGATGGTG
1 -AAGGTGGTGGTGGAGATGGTG
*
35927339 ATGGTGGTGGTGGAGA
1 AAGGTGGTGGTGGAGA
35927355 CTTATAATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 29 0.55
22 1 0.02
23 4 0.08
25 4 0.08
26 1 0.02
27 14 0.26
ACGTcount: A:0.19, C:0.00, G:0.53, T:0.28
Consensus pattern (21 bp):
AAGGTGGTGGTGGAGATGGTG
Found at i:35927434 original size:192 final size:192
Alignment explanation
Indices: 35927152--35927597 Score: 804
Period size: 192 Copynumber: 2.3 Consensus size: 192
35927142 ATGCGGAGGA
* * * * * * *
35927152 GGTGGCGGAGACTTATAGTAGTAAGGTGGTGGAGGAGATGGTGAAGGTGGTGGGGGAGACTTGTA
1 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTTGTA
35927217 ATAGTATGGTAGGGGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTG
66 ATAGTATGGTAGGGGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTG
35927282 GAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
131 GAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
35927344 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTTGTA
1 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTTGTA
*
35927409 GTAGTATGGT-GGTGGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGT
66 ATAGTATGGTAGG-GGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGT
35927473 GGAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
130 GGAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
35927536 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTT
1 GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTT
35927598 CACTGGAGGT
Statistics
Matches: 245, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
191 2 0.01
192 243 0.99
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.26
Consensus pattern (192 bp):
GGTGGTGGAGACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAAGGTGGTGGGGGAGACTTGTA
ATAGTATGGTAGGGGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTG
GAGATGGTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGT
Found at i:35927488 original size:21 final size:21
Alignment explanation
Indices: 35927462--35927546 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 21
35927452 TTGTAGTAGT
35927462 AAGGTGGTGGTGGAGATGGTG
1 AAGGTGGTGGTGGAGATGGTG
*
35927483 AGGGTGGTGGTGGAGATTTGTAGTAG
1 AAGGTGGTGGTGGAGA--TG--GT-G
*
35927509 TAAGGTGGTGTTGGAGATGGTG
1 -AAGGTGGTGGTGGAGATGGTG
*
35927531 ATGGTGGTGGTGGAGA
1 AAGGTGGTGGTGGAGA
35927547 CTTATAATAG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
21 29 0.55
22 1 0.02
23 4 0.08
25 4 0.08
26 1 0.02
27 14 0.26
ACGTcount: A:0.19, C:0.00, G:0.53, T:0.28
Consensus pattern (21 bp):
AAGGTGGTGGTGGAGATGGTG
Found at i:35927597 original size:165 final size:165
Alignment explanation
Indices: 35927416--35927714 Score: 429
Period size: 165 Copynumber: 1.8 Consensus size: 165
35927406 GTAGTAGTAT
* * * *
35927416 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGG-GACTTGTAGTAGTAAGGTGGTGGTGGAGATG
1 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGTG-CTTATAGTAGTAAGGAGGAGGTGGAGAAG
* * * * * * * *
35927480 GTGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGTGGTGGTGGA
65 GAGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGA
35927545 GACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAA
130 GACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAA
* *
35927581 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGTGCTTATAGTAGTATGGAGGAGGTGGGGAAGG
1 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGTGCTTATAGTAGTAAGGAGGAGGTGGAGAAGG
* * *
35927646 AGATGGAGGTGGAGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAG
66 AGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGAG
35927711 ACTT
131 ACTT
35927715 GTAGTAATAT
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
165 115 0.99
166 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.51, T:0.25
Consensus pattern (165 bp):
GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGTGCTTATAGTAGTAAGGAGGAGGTGGAGAAGG
AGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGAG
ACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGAA
Found at i:35927727 original size:96 final size:96
Alignment explanation
Indices: 35927602--35927885 Score: 417
Period size: 96 Copynumber: 3.0 Consensus size: 96
35927592 AGACTTCACT
* * *
35927602 GGAGGTGGTGG-GTGCTTATAGTAGTATGGAGGAGGTGGGGAAGGAGATGGAGGTGGAGGGGATT
1 GGAGGTGGTGGAG-ACTTATAGTAATATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATT
35927666 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGAC
65 TGTAGTAGTAAGGAGGAGGTGGTGATGGGGAC
* * *
35927698 GGTGGTGGTGGAGACTTGTAGTAATATGGAGGAGGCGGGGAAGGAGATGGAGGTGGTGGGGATTT
1 GGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTT
** *
35927763 GTAGTAGTAAGGAGGAGGTGGTGACAGTGAC
66 GTAGTAGTAAGGAGGAGGTGGTGATGGGGAC
* * * *
35927794 GGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGATGGGGATGGAGGTGGTGGAGACTT
1 GGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTT
* *
35927859 GTAGTAGTACGGGGGAGGTGGTGATGG
66 GTAGTAGTAAGGAGGAGGTGGTGATGG
35927886 TGGTGGTGGA
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 166 0.99
97 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.52, T:0.22
Consensus pattern (96 bp):
GGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGAAGGAGATGGAGGTGGTGGGGATTT
GTAGTAGTAAGGAGGAGGTGGTGATGGGGAC
Found at i:35927743 original size:165 final size:166
Alignment explanation
Indices: 35927416--35927758 Score: 420
Period size: 165 Copynumber: 2.1 Consensus size: 166
35927406 GTAGTAGTAT
* * * *
35927416 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGGACTTGTAGTAGTAAGGTGGTGGTGGAGATGG
1 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGGACTTATAGTAGTAAGGAGGAGGTGGAGAAGG
* * * * * * * *
35927481 TGAGGGTGGTGGTGGAGATTTGTAGTAGTAAGGTGGTGTTGGAGATGGTGATGGTGGTGGTGGAG
66 AGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGAG
* * * * *
35927546 ACTTATAATAGTAAGGTGGGGGTGGTGAAGGAGA-A
131 ACTTATAATAATAAGGAGGAGGCGGGGAAGGAGAGA
* *
35927581 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGTG-CTTATAGTAGTATGGAGGAGGTGGGGAAG
1 GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGG-GACTTATAGTAGTAAGGAGGAGGTGGAGAAG
* * *
35927645 GAGATGGAGGTGGAGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGA
65 GAGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGA
* * *
35927710 GACTTGTAGTAATATGGAGGAGGCGGGGAAGGAGATGGA
130 GACTTATAATAATAAGGAGGAGGCGGGGAAGGAGA--GA
35927749 GGTGGTGGGG
1 GGTGGTGGGG
35927759 ATTTGTAGTA
Statistics
Matches: 149, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
165 137 0.92
166 1 0.01
168 11 0.07
ACGTcount: A:0.21, C:0.03, G:0.52, T:0.24
Consensus pattern (166 bp):
GGTGGTGGGGGAGACTTCACTGGAGGTGGTGGGGACTTATAGTAGTAAGGAGGAGGTGGAGAAGG
AGAGGGAGGTGGAGGAGATTTGTAGTAGTAAGGAGGAGGTGGAGATGGGGACGGTGGTGGTGGAG
ACTTATAATAATAAGGAGGAGGCGGGGAAGGAGAGA
Found at i:35927749 original size:144 final size:144
Alignment explanation
Indices: 35927601--35927864 Score: 361
Period size: 144 Copynumber: 1.8 Consensus size: 144
35927591 GAGACTTCAC
* * *
35927601 TGGAGGTGGTGGGTG-CTTATAGTAGTATGGAGGAGGTGGGGA-AGGAGATGGAGGTGGAGGGGA
1 TGGAGGTGGTGGG-GACTTATAGTAGTAAGGAGGAGGTGGGGACA-GAGACGGAGGTGGAGGAGA
* * * * *
35927664 TTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGACGGTGGTGGTGGAGACTTGTAGTAATATGGAG
64 CTTATAGTAATAAGGAGGAGGTGGGGATGGGGACGGAGGTGGTGGAGACTTGTAGTAATATGGAG
35927729 GAGGCGGGGAAGGAGA
129 GAGGCGGGGAAGGAGA
* * * * *
35927745 TGGAGGTGGTGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGACAGTGACGGAGGTGGTGGAGACT
1 TGGAGGTGGTGGGGACTTATAGTAGTAAGGAGGAGGTGGGGACAGAGACGGAGGTGGAGGAGACT
* *
35927810 TATAGTAATATGGAGGAGGTGGGGATGGGGATGGAGGTGGTGGAGACTTGTAGTA
66 TATAGTAATAAGGAGGAGGTGGGGATGGGGACGGAGGTGGTGGAGACTTGTAGTA
35927865 GTACGGGGGA
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
143 1 0.01
144 101 0.98
145 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.51, T:0.23
Consensus pattern (144 bp):
TGGAGGTGGTGGGGACTTATAGTAGTAAGGAGGAGGTGGGGACAGAGACGGAGGTGGAGGAGACT
TATAGTAATAAGGAGGAGGTGGGGATGGGGACGGAGGTGGTGGAGACTTGTAGTAATATGGAGGA
GGCGGGGAAGGAGA
Found at i:35927885 original size:48 final size:48
Alignment explanation
Indices: 35927601--35927885 Score: 302
Period size: 48 Copynumber: 5.9 Consensus size: 48
35927591 GAGACTTCAC
* * *
35927601 TGGAGGTGGTGG-GTGCTTATAGTAGTATGGAGGAGGTGGGGAAGGAGA
1 TGGAGGTGGTGGAG-ACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
* * * * * *
35927649 TGGAGGTGGAGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGATGGGGA
1 TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
* * * * *
35927697 CGGTGGTGGTGGAGACTTGTAGTAATATGGAGGAGGCGGGGAAGGAGA
1 TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
* * * * ** *
35927745 TGGAGGTGGTGGGGATTTGTAGTAGTAAGGAGGAGGTGGTGACAGTGA
1 TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
* * * *
35927793 CGGAGGTGGTGGAGACTTATAGTAATATGGAGGAGGTGGGGATGGGGA
1 TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
* * *
35927841 TGGAGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGTGGTGATGG
1 TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGG
35927886 TGGTGGTGGA
Statistics
Matches: 190, Mismatches: 46, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
48 189 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.52, T:0.22
Consensus pattern (48 bp):
TGGAGGTGGTGGAGACTTGTAGTAGTATGGAGGAGGTGGGGATGGAGA
Found at i:35939952 original size:14 final size:13
Alignment explanation
Indices: 35939926--35939970 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
35939916 TTTTTAGCTT
*
35939926 TTTTAATTTTTTC
1 TTTTACTTTTTTC
35939939 TTTTACTTTATTTC
1 TTTTACTTT-TTTC
*
35939953 TTCTTCCTTTTTTC
1 TT-TTACTTTTTTC
35939967 TTTT
1 TTTT
35939971 TCCACGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 10 0.36
14 12 0.43
15 6 0.21
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTACTTTTTTC
Found at i:35948383 original size:23 final size:23
Alignment explanation
Indices: 35948353--35948414 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
35948343 ACGCTAGCGC
35948353 GCTTACTGTTTCGCACTTCATGT
1 GCTTACTGTTTCGCACTTCATGT
* *
35948376 GCTTACTGTTTCGCACATCGTGT
1 GCTTACTGTTTCGCACTTCATGT
* *
35948399 GCCTACTGATT-GCACT
1 GCTTACTGTTTCGCACT
35948415 GTGTGTGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTTCATGT
Found at i:35948436 original size:23 final size:23
Alignment explanation
Indices: 35948395--35948451 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
35948385 TTCGCACATC
35948395 GTGTGCCTACT-GATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
35948417 GTGTGCCTACTGGATTGCACTGT
1 GTGTGCCTACTGGATTGCACTGT
*
35948440 GTGTGCTTACTG
1 GTGTGCCTACTG
35948452 TTTCCCCAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.12, C:0.21, G:0.30, T:0.37
Consensus pattern (23 bp):
GTGTGCCTACTGGATTGCACTGT
Found at i:35949304 original size:41 final size:41
Alignment explanation
Indices: 35949272--35949352 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
35949262 TAGCGTTATA
*
35949272 AATTA-ATGTTTAAGGTTTGGGATTAAAGGTTTAGAATTTAG
1 AATTAGAT-TTTAAGGTTTAGGATTAAAGGTTTAGAATTTAG
* * *
35949313 AATTAGATTTTAAGGTTTAGGTTTAATGGTTTATAATTTA
1 AATTAGATTTTAAGGTTTAGGATTAAAGGTTTAGAATTTA
35949353 AGATTTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (41 bp):
AATTAGATTTTAAGGTTTAGGATTAAAGGTTTAGAATTTAG
Found at i:35949372 original size:28 final size:28
Alignment explanation
Indices: 35949341--35949434 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
35949331 AGGTTTAATG
*
35949341 GTTTATAATTTAAGATTTAAGATTTAGA
1 GTTTATAATTTAAAATTTAAGATTTAGA
* *
35949369 GTTT-TAGAATAAAAATTTAAGATTTAG-
1 GTTTATA-ATTTAAAATTTAAGATTTAGA
* * *
35949396 GGTTATAA-TTAAAATATTAATATTTAAA
1 GTTTATAATTTAAAAT-TTAAGATTTAGA
*
35949424 GTTTATGATTT
1 GTTTATAATTT
35949435 TAGTGTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
26 6 0.12
27 15 0.29
28 29 0.56
29 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (28 bp):
GTTTATAATTTAAAATTTAAGATTTAGA
Found at i:35950141 original size:24 final size:24
Alignment explanation
Indices: 35950097--35950146 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
35950087 TAAAATCAAG
* *
35950097 TATTATAAAACATAATTAAATTAT
1 TATTATAAAAAATAATTAAATCAT
*
35950121 TATT-TAAAAAATTATTCAAATCAT
1 TATTATAAAAAATAATT-AAATCAT
35950145 TA
1 TA
35950147 AATTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
TATTATAAAAAATAATTAAATCAT
Found at i:35951948 original size:18 final size:19
Alignment explanation
Indices: 35951908--35951948 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
35951898 AATATTTATG
* *
35951908 TATTTTATTTTTATAATAA
1 TATTTTATTCTTATAAAAA
35951927 -ATTTTATTCTTA-AAAAA
1 TATTTTATTCTTATAAAAA
35951944 TATTT
1 TATTT
35951949 GGATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTATTCTTATAAAAA
Found at i:35957078 original size:218 final size:218
Alignment explanation
Indices: 35956772--35957213 Score: 767
Period size: 218 Copynumber: 2.0 Consensus size: 218
35956762 TACTGTTGCA
* *
35956772 TTTCTTTTGGAGTTTTCAGGAAAAATCATTTACCAAATATATCGACAGAACTACTCATACCACAG
1 TTTCTTTTGGAGTTTACAGGAAAAATCATTTACCAAATATATCGACAAAACTACTCATACCACAG
35956837 TCTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TCTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
** *
35956902 GCCATCTTTGGCTTACTTTCTATACTTTGCAGTTGGAGATTCCAAAACAGTTACTTGATCCAAAT
131 GCCATCTTTGGCTTACCATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
35956967 TTGATCAATGCTTGGATGATGCT
196 TTGATCAATGCTTGGATGATGCT
* * * * *
35956990 TTTCTTTTGGAGTTTAGAGGAAAAATCATTTACCAAATATATTGACAAAATTACTCATTCTACAG
1 TTTCTTTTGGAGTTTACAGGAAAAATCATTTACCAAATATATCGACAAAACTACTCATACCACAG
* *
35957055 TGTTTTTATGTCAACTGCAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
66 TCTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
35957120 GCCATCTTTGGCTTACCATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
131 GCCATCTTTGGCTTACCATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
*
35957185 TTGTTCAATGCTTGGATGATGCT
196 TTGATCAATGCTTGGATGATGCT
35957208 TTTCTT
1 TTTCTT
35957214 AAATGTTTTG
Statistics
Matches: 211, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
218 211 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (218 bp):
TTTCTTTTGGAGTTTACAGGAAAAATCATTTACCAAATATATCGACAAAACTACTCATACCACAG
TCTTTTTATGTCAACTACAACTAGTTTCATGTGACCTGTTTTTATAAGATTTGTCCTACTCATAT
GCCATCTTTGGCTTACCATCTATACTTTGCAGTTGGAGATTCCAAAACAATTACTTGATCCAAAT
TTGATCAATGCTTGGATGATGCT
Found at i:35978342 original size:11 final size:9
Alignment explanation
Indices: 35978310--35978334 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35978300 AATGTATTCC
35978310 TTTATATGT
1 TTTATATGT
35978319 TTTATATGT
1 TTTATATGT
35978328 TTTATAT
1 TTTATAT
35978335 TTGTTTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTTATATGT
Found at i:35979444 original size:19 final size:19
Alignment explanation
Indices: 35979410--35979460 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
35979400 GAGAATATTT
*
35979410 AAATAAAAAATTAAATAAGAA
1 AAAT-AAAACTTAAATAA-AA
35979431 AAAT-AAACTTAAATAAAA
1 AAATAAAACTTAAATAAAA
*
35979449 AATTAAAACTTA
1 AAATAAAACTTA
35979461 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 18 0.67
21 4 0.15
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAAAACTTAAATAAAA
Found at i:35980618 original size:3 final size:3
Alignment explanation
Indices: 35980610--35980640 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
35980600 AGAAGAGTTT
35980610 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
35980641 AGGAGCAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:35985038 original size:30 final size:30
Alignment explanation
Indices: 35985002--35985073 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
35984992 ACTTATTGTT
35985002 AATATTTTAATATATGAAATATTAA-T-TTTA
1 AATATTTTAATA-AT-AAATATTAATTATTTA
*
35985032 AATATTTTTAAGTAATTAATATTAATTATTTA
1 AATA-TTTTAA-TAATAAATATTAATTATTTA
35985064 AA-ATTTTAAT
1 AATATTTTAAT
35985074 TAGATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
29 1 0.03
30 18 0.49
31 10 0.27
32 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
AATATTTTAATAATAAATATTAATTATTTA
Found at i:35985134 original size:14 final size:14
Alignment explanation
Indices: 35985097--35985139 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
35985087 CTATATTTTA
35985097 AATATTTAAATA-T
1 AATATTTAAATATT
35985110 AATCA-TTAAATATT
1 AAT-ATTTAAATATT
*
35985124 TATATTTAAATATT
1 AATATTTAAATATT
35985138 AA
1 AA
35985140 CACAATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
AATATTTAAATATT
Found at i:35987302 original size:24 final size:27
Alignment explanation
Indices: 35987245--35987303 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
35987235 ACATTTCATG
35987245 AAATATTATATATATTTTTAAGTTTTATA
1 AAAT-TTATATATATTTTTAAG-TTTATA
*
35987274 TAATTTATATAT-TTTTTAA-TTTA-A
1 AAATTTATATATATTTTTAAGTTTATA
35987298 AAATTT
1 AAATTT
35987304 TTAATGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 6 0.21
25 4 0.14
27 7 0.25
28 8 0.29
29 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
AAATTTATATATATTTTTAAGTTTATA
Found at i:35989292 original size:30 final size:28
Alignment explanation
Indices: 35989232--35989302 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
35989222 TGGTACATAT
* *
35989232 TTTTA-TATT-TTTAAAAATTAATTAAA
1 TTTTATTATTATTAAAAAATTAAATAAA
35989258 TTTTATTATTATTAAAAAATTAAAATATAA
1 TTTTATTATTATTAAAAAATT-AAATA-AA
* *
35989288 TTTTATCATCATTAA
1 TTTTATTATTATTAA
35989303 TTTAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.14
27 4 0.11
28 9 0.24
29 4 0.11
30 15 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTATTATTATTAAAAAATTAAATAAA
Found at i:35989813 original size:22 final size:22
Alignment explanation
Indices: 35989788--35989832 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35989778 AATTAAAAAT
* *
35989788 AAAAAAATAAAAACTAAATTTA
1 AAAAAAACAAAAACTAAAATTA
**
35989810 AAAATTACAAAAACTAAAATTA
1 AAAAAAACAAAAACTAAAATTA
35989832 A
1 A
35989833 CCAAATTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAAAACAAAAACTAAAATTA
Found at i:35992144 original size:19 final size:19
Alignment explanation
Indices: 35992117--35992156 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35992107 CATTCCAAAC
* *
35992117 ATATTTTTTTAGTATTTTT
1 ATATATTTTTAATATTTTT
*
35992136 ATATATTTTTAATTTTTTT
1 ATATATTTTTAATATTTTT
35992155 AT
1 AT
35992157 TACATAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
ATATATTTTTAATATTTTT
Found at i:35994608 original size:19 final size:19
Alignment explanation
Indices: 35994576--35994625 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
35994566 CGAATAACTC
35994576 AAAATATTTAATTCAAAATTT
1 AAAAT-TTT-ATTCAAAATTT
*
35994597 GAAATTTTATTCAAAATTT
1 AAAATTTTATTCAAAATTT
35994616 AAAATTTTAT
1 AAAATTTTAT
35994626 CGAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 20 0.74
20 3 0.11
21 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
AAAATTTTATTCAAAATTT
Found at i:35997125 original size:22 final size:21
Alignment explanation
Indices: 35997085--35997126 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35997075 TTTTTTAGAA
**
35997085 TAAGGTAAAATGTTTAAAAAT
1 TAAGGTAAAATGTAAAAAAAT
35997106 TAAGGATAAAATGTAAAAAAA
1 TAAGG-TAAAATGTAAAAAAA
35997127 AAATTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (21 bp):
TAAGGTAAAATGTAAAAAAAT
Found at i:35997244 original size:15 final size:15
Alignment explanation
Indices: 35997224--35997267 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
35997214 TAAAATTATG
*
35997224 TACTTAAATTTTCAA
1 TACTTAATTTTTCAA
35997239 TACTTAATTTTTCAA
1 TACTTAATTTTTCAA
*
35997254 CACTTAATTTTTCA
1 TACTTAATTTTTCA
35997268 GTTTATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (15 bp):
TACTTAATTTTTCAA
Found at i:35997430 original size:17 final size:18
Alignment explanation
Indices: 35997408--35997441 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35997398 ATAATTGTAA
35997408 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
35997425 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
35997442 CATAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:35997706 original size:30 final size:31
Alignment explanation
Indices: 35997670--35997733 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
35997660 ATGATAAAAT
*
35997670 AAATATTAA-AATTTATTTAAGTATAAATTA
1 AAATATTAATAATTTATTTAAATATAAATTA
*
35997700 AAATATTAATAATTTATTTAAATGTAAATTA
1 AAATATTAATAATTTATTTAAATATAAATTA
35997731 AAA
1 AAA
35997734 GGTACGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
AAATATTAATAATTTATTTAAATATAAATTA
Found at i:35998261 original size:16 final size:16
Alignment explanation
Indices: 35998219--35998270 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
35998209 ATTAGTAGTG
35998219 TATT-TTTT-ATATTT
1 TATTATTTTAATATTT
* * *
35998233 TTTTGTTTAAATATTT
1 TATTATTTTAATATTT
*
35998249 TATTATTTTAATAATT
1 TATTATTTTAATATTT
35998265 TATTAT
1 TATTAT
35998271 ATTTTTATAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 24 0.80
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATTTTAATATTT
Found at i:36002047 original size:3 final size:3
Alignment explanation
Indices: 36002039--36002077 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
36002029 CACATACCTC
*
36002039 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36002078 CCCTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:36002557 original size:29 final size:29
Alignment explanation
Indices: 36002493--36002548 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
36002483 ACAAAATAAT
* **
36002493 AACATAAGTGACTAAAATGTAACATTTCA
1 AACAAAAGTGACTAAAATGTAACATGACA
36002522 AACAAAAGTGACTAAAATGTAACATGA
1 AACAAAAGTGACTAAAATGTAACATGA
36002549 GATAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (29 bp):
AACAAAAGTGACTAAAATGTAACATGACA
Found at i:36002562 original size:29 final size:29
Alignment explanation
Indices: 36002501--36002564 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
36002491 ATAACATAAG
** *
36002501 TGACTAAAATGTAACATTTCAAACAAAAG
1 TGACTAAAATGTAACATGACAAACAAAAA
*
36002530 TGACTAAAATGTAACATGAGATAA-AAAAA
1 TGACTAAAATGTAACATGACA-AACAAAAA
36002559 TGACTA
1 TGACTA
36002565 TTTTTATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (29 bp):
TGACTAAAATGTAACATGACAAACAAAAA
Found at i:36008998 original size:3 final size:3
Alignment explanation
Indices: 36008990--36009024 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
36008980 AATATATCTT
*
36008990 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
36009025 CAAATAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36017542 original size:15 final size:15
Alignment explanation
Indices: 36017499--36017543 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
36017489 AAGTTGTGTA
*
36017499 TTTAATTTT-TAT-T
1 TTTATTTTTATATAT
36017512 TTTATTTTTGAT-TAT
1 TTTATTTTT-ATATAT
36017527 TTTATTTTTATATAT
1 TTTATTTTTATATAT
36017542 TT
1 TT
36017544 AAGGTTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.30
14 3 0.11
15 16 0.59
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATATAT
Found at i:36018316 original size:12 final size:11
Alignment explanation
Indices: 36018293--36018344 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
36018283 CAATAATAAT
*
36018293 AAAATAATAAC
1 AAAATAACAAC
36018304 AAATATAACAAC
1 AAA-ATAACAAC
* *
36018316 AAAATGACAAT
1 AAAATAACAAC
*
36018327 AAAATAACATC
1 AAAATAACAAC
36018338 AAAATAA
1 AAAATAA
36018345 TAGCAAACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 24 0.71
12 10 0.29
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:36023788 original size:58 final size:58
Alignment explanation
Indices: 36023717--36023848 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
36023707 AACTACACTA
* *
36023717 GTTTCAAGTTAAAACATAGTCTTATAGAGAACTCCGCCACCACATCTTTATCGAAACG
1 GTTTCAAGTTAAAACATAGTCTCATAGAGAACTCCGCCACCACATCTTTATCGAAAAG
* * * *
36023775 GTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCACCATATCTTTATCGAAAAG
1 GTTTCAAGTTAAAACATAGTCTCATAGAGAACTCCGCCACCACATCTTTATCGAAAAG
*
36023833 GCTTCAAGTTAAAACA
1 GTTTCAAGTTAAAACA
36023849 CATCTTTATC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (58 bp):
GTTTCAAGTTAAAACATAGTCTCATAGAGAACTCCGCCACCACATCTTTATCGAAAAG
Found at i:36023859 original size:32 final size:32
Alignment explanation
Indices: 36023818--36024007 Score: 301
Period size: 32 Copynumber: 6.0 Consensus size: 32
36023808 CCGCCACCAT
* *
36023818 ATCTTTATCGAAAAGGCTTCAAGTTAAAACAC
1 ATCTTTATCGAAACGGCTTCAATTTAAAACAC
*
36023850 ATCTTTATCGAAACGGTTTCAATTTAAAACAC
1 ATCTTTATCGAAACGGCTTCAATTTAAAACAC
*
36023882 ATCTTTATCGAAACAGCTTCAATTTAAAACAC
1 ATCTTTATCGAAACGGCTTCAATTTAAAACAC
*
36023914 ATCTTTATCGAAACGGCTTCAAGTTAAAACAC
1 ATCTTTATCGAAACGGCTTCAATTTAAAACAC
*
36023946 ATCTTTATCGAAACGGTTTCAATTT-AAACAC
1 ATCTTTATCGAAACGGCTTCAATTTAAAACAC
* *
36023977 ATTTTTATCGAAACGGTTTCAATTTAAAACA
1 ATCTTTATCGAAACGGCTTCAATTTAAAACA
36024008 TAGTCTTATA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
31 30 0.20
32 117 0.80
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
ATCTTTATCGAAACGGCTTCAATTTAAAACAC
Found at i:36023948 original size:96 final size:95
Alignment explanation
Indices: 36023818--36024007 Score: 335
Period size: 96 Copynumber: 2.0 Consensus size: 95
36023808 CCGCCACCAT
36023818 ATCTTTATCGAAAAGGCTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAAACACA
1 ATCTTTATCGAAAAGGCTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTT-AAACACA
36023883 TCTTTATCGAAACAGCTTCAATTTAAAACAC
65 TCTTTATCGAAACAGCTTCAATTTAAAACAC
*
36023914 ATCTTTATCGAAACGGCTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAACACAT
1 ATCTTTATCGAAAAGGCTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAACACAT
* * *
36023979 TTTTATCGAAACGGTTTCAATTTAAAACA
66 CTTTATCGAAACAGCTTCAATTTAAAACA
36024008 TAGTCTTATA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 34 0.38
96 56 0.62
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (95 bp):
ATCTTTATCGAAAAGGCTTCAAGTTAAAACACATCTTTATCGAAACGGTTTCAATTTAAACACAT
CTTTATCGAAACAGCTTCAATTTAAAACAC
Found at i:36024285 original size:58 final size:58
Alignment explanation
Indices: 36023974--36024285 Score: 538
Period size: 58 Copynumber: 5.4 Consensus size: 58
36023964 TCAATTTAAA
* * *
36023974 CACATTTTTATCGAAACGGTTTCAATTTAAAACATAGTCTTATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
36024032 CACATCTTTATTGAAACA-GTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAA-AGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
36024090 CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCTAC
1 CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
36024148 CACATCTTTATC-AAAATGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAAA-GGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
36024206 CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
1 CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
*
36024264 CACATCTTTATCGAAATGGTTT
1 CACATCTTTATCGAAAAGGTTT
36024286 GAACCAGATG
Statistics
Matches: 242, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
57 5 0.02
58 233 0.96
59 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (58 bp):
CACATCTTTATCGAAAAGGTTTCAATTTAAAACATAGTCTCATAGTGATCTCCGCCAC
Found at i:36037983 original size:91 final size:91
Alignment explanation
Indices: 36037828--36038046 Score: 393
Period size: 91 Copynumber: 2.4 Consensus size: 91
36037818 TCGTAAATCA
*
36037828 AAACCCTAAACCCGATCAATATTTTAAGCAACCCCATCAATGGAAAGTACTAGTTATCATAGTTC
1 AAACCCTAAACCCAATCAATATTTTAAGCAACCCCATCAATGGAAAGTACTAGTTATCATAGTTC
36037893 TACAAACCCTAGAACTATTAGAGCAT
66 TACAAACCCTAGAACTATTAGAGCAT
36037919 AAACCCTAAACCCAATCAATATTTTAAGCAACCCCATCAATGGAAAGTACTAGTTATCATAGTTC
1 AAACCCTAAACCCAATCAATATTTTAAGCAACCCCATCAATGGAAAGTACTAGTTATCATAGTTC
* *
36037984 TACAATCCCTAGAACTATTAGGGCAT
66 TACAAACCCTAGAACTATTAGAGCAT
* *
36038010 AAACCCTAAACCCAACCAATATTTTAAGCAACACCAT
1 AAACCCTAAACCCAATCAATATTTTAAGCAACCCCAT
36038047 TCATAAGTTG
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 123 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.25
Consensus pattern (91 bp):
AAACCCTAAACCCAATCAATATTTTAAGCAACCCCATCAATGGAAAGTACTAGTTATCATAGTTC
TACAAACCCTAGAACTATTAGAGCAT
Found at i:36039604 original size:21 final size:23
Alignment explanation
Indices: 36039569--36039612 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
36039559 TATTTTTAAA
36039569 AATATTTATATTAATTTTAATTT
1 AATATTTATATTAATTTTAATTT
*
36039592 AATATTTA-A-TAATTTTCATTT
1 AATATTTATATTAATTTTAATTT
36039613 TATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AATATTTATATTAATTTTAATTT
Found at i:36051378 original size:46 final size:46
Alignment explanation
Indices: 36051328--36051422 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
36051318 ATTTAAAAAG
36051328 ATAGAATTATTATTTTCAATTATAATAAAGAAAATGATATTTTGTT
1 ATAGAATTATTATTTTCAATTATAATAAAGAAAATGATATTTTGTT
*
36051374 ATAGAATTATTATTTTCAATTATAATATAGAAAATGATATTTTGTT
1 ATAGAATTATTATTTTCAATTATAATAAAGAAAATGATATTTTGTT
36051420 ATA
1 ATA
36051423 AAAAAAATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.46
Consensus pattern (46 bp):
ATAGAATTATTATTTTCAATTATAATAAAGAAAATGATATTTTGTT
Found at i:36056662 original size:12 final size:12
Alignment explanation
Indices: 36056645--36056675 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
36056635 TTCATTTACT
36056645 GAGTGAGTGAGC
1 GAGTGAGTGAGC
36056657 GAGTGAGTGAGC
1 GAGTGAGTGAGC
36056669 GAGTGAG
1 GAGTGAG
36056676 CGAGTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGTGAGTGAGC
Found at i:36060917 original size:21 final size:21
Alignment explanation
Indices: 36060891--36060930 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
36060881 TCAGATGTTC
36060891 GATTTGGACAGTTCGAATTTG
1 GATTTGGACAGTTCGAATTTG
36060912 GATTTGGACAGTTCGAATT
1 GATTTGGACAGTTCGAATT
36060931 CTTTTTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (21 bp):
GATTTGGACAGTTCGAATTTG
Found at i:36065021 original size:19 final size:21
Alignment explanation
Indices: 36064985--36065026 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
36064975 TTTGACTCAG
36064985 AAATCTTGTTTAAGTTC-ATT
1 AAATCTTGTTTAAGTTCAATT
36065005 AAAT-TTGTTTACA-TTCAATT
1 AAATCTTGTTTA-AGTTCAATT
36065025 AA
1 AA
36065027 TCAAGATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (21 bp):
AAATCTTGTTTAAGTTCAATT
Found at i:36077784 original size:18 final size:18
Alignment explanation
Indices: 36077743--36077784 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
36077733 TATTTTATCG
*
36077743 AATTAATAAAATGTAATA
1 AATTAATAAAATGTAACA
36077761 AATTAACTAAAAT-TAACA
1 AATTAA-TAAAATGTAACA
*
36077779 ACTTAA
1 AATTAA
36077785 ATTTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (18 bp):
AATTAATAAAATGTAACA
Found at i:36082745 original size:41 final size:41
Alignment explanation
Indices: 36082688--36082784 Score: 185
Period size: 41 Copynumber: 2.3 Consensus size: 41
36082678 GCACAAAGCC
36082688 AGACCCAAACAGCTAAACAAACAGAGTCGAAACAGTAGATT
1 AGACCCAAACAGCTAAACAAACAGAGTCGAAACAGTAGATT
36082729 AGACCCAAACAGCTAAACAAACAGAGTCGAAACAGTAGATT
1 AGACCCAAACAGCTAAACAAACAGAGTCGAAACAGTAGATT
36082770 AGACCCAAACCAGCT
1 AGACCCAAA-CAGCT
36082785 CGAATCAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 50 0.91
42 5 0.09
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.11
Consensus pattern (41 bp):
AGACCCAAACAGCTAAACAAACAGAGTCGAAACAGTAGATT
Found at i:36097084 original size:21 final size:20
Alignment explanation
Indices: 36097038--36097085 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
36097028 TAACTTAAAT
*
36097038 AAATTTTTTTAAATATTTAA
1 AAATTATTTTAAATATTTAA
* *
36097058 ATAATTATTTTATAATTTTTTA
1 A-AATTATTTTA-AATATTTAA
36097080 AAATTA
1 AAATTA
36097086 AAATCATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATTATTTTAAATATTTAA
Found at i:36105648 original size:54 final size:51
Alignment explanation
Indices: 36105585--36105687 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
36105575 ACTGTACAGC
*
36105585 TAGGAAACGGATGTTTATTAGGGCTGAATCTGCTAACAGCTTTGTCCAGCAGAG
1 TAGGAAACGGATG--T-TTAGGACTGAATCTGCTAACAGCTTTGTCCAGCAGAG
* *
36105639 TAGGGAACGGATGTTTAGGACTGATTCTGCTAACAGCTTTGTCCAGCAG
1 TAGGAAACGGATGTTTAGGACTGAATCTGCTAACAGCTTTGTCCAGCAG
36105688 CATGATGCTG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 33 0.72
52 1 0.02
54 12 0.26
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (51 bp):
TAGGAAACGGATGTTTAGGACTGAATCTGCTAACAGCTTTGTCCAGCAGAG
Found at i:36107420 original size:9 final size:9
Alignment explanation
Indices: 36107408--36107464 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
36107398 ACGTTTATGA
36107408 TTTTTATA-
1 TTTTTATAT
36107416 TTTTT-TAT
1 TTTTTATAT
*
36107424 TTTTTAAAT
1 TTTTTATAT
*
36107433 ATTTTATAT
1 TTTTTATAT
36107442 TATTTCTAT-T
1 T-TTT-TATAT
36107452 TTTTTATAT
1 TTTTTATAT
36107461 TTTT
1 TTTT
36107465 ATAAATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.05
8 13 0.32
9 17 0.43
10 5 0.12
11 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTATAT
Found at i:36107422 original size:18 final size:17
Alignment explanation
Indices: 36107401--36107467 Score: 73
Period size: 16 Copynumber: 3.8 Consensus size: 17
36107391 TCTTACCACG
36107401 TTTATGATTTTTATATTT
1 TTTAT-ATTTTTATATTT
* *
36107419 TTTAT-TTTTTAAATAT
1 TTTATATTTTTATATTT
*
36107435 TTTATATTATTTCTATTTT
1 TTTATATT-TTTATA-TTT
36107454 TTTATATTTTTATA
1 TTTATATTTTTATA
36107468 AATTTAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
16 14 0.35
17 2 0.05
18 14 0.35
19 10 0.25
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTATATTTTTATATTT
Found at i:36111105 original size:29 final size:29
Alignment explanation
Indices: 36111056--36111113 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
36111046 TAATATTTTC
*
36111056 ATTAATAAATATGTCATTTTTAAGTTTTAA
1 ATTAATAAAAATGTCATTTTTAA-TTTTAA
*
36111086 ATTAATAAAAATGT-TTTTTTAATTTTAA
1 ATTAATAAAAATGTCATTTTTAATTTTAA
36111114 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 7 0.27
30 13 0.50
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
ATTAATAAAAATGTCATTTTTAATTTTAA
Found at i:36119661 original size:2 final size:2
Alignment explanation
Indices: 36119656--36119704 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
36119646 ACTTCAAACA
36119656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A- AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
36119697 AT AT -T AT A
1 AT AT AT AT A
36119705 GAAAAATCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.07
2 38 0.88
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36122231 original size:15 final size:15
Alignment explanation
Indices: 36122187--36122233 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36122177 ACGGGGTCCA
* *
36122187 TCTCCGAGGGTTGCC
1 TCTCCAAGGGTTGCT
*
36122202 TCTCCTAGGGTTGCT
1 TCTCCAAGGGTTGCT
*
36122217 TCTCCAAGGGCTGCT
1 TCTCCAAGGGTTGCT
36122232 TC
1 TC
36122234 CCCTCCACGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.09, C:0.32, G:0.28, T:0.32
Consensus pattern (15 bp):
TCTCCAAGGGTTGCT
Found at i:36122320 original size:15 final size:15
Alignment explanation
Indices: 36122300--36122340 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
36122290 CCCCTCGAGC
*
36122300 TGCTTCTCCAAGAGT
1 TGCTTCTCCAAGAGG
36122315 TGCTTCTCCAAGAGG
1 TGCTTCTCCAAGAGG
36122330 TGCTTCTCCAA
1 TGCTTCTCCAA
36122341 AACCTGCTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.32
Consensus pattern (15 bp):
TGCTTCTCCAAGAGG
Found at i:36125902 original size:30 final size:31
Alignment explanation
Indices: 36125862--36125924 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
36125852 TGTCTATATG
* *
36125862 TTTATAATTTTTAAAAGGTTAAATTA-AATT
1 TTTATAATTTTTAAAAGATTAAAATATAATT
*
36125892 TTTATCATTTTTAAAAGATTAAAATATAATT
1 TTTATAATTTTTAAAAGATTAAAATATAATT
36125923 TT
1 TT
36125925 ATCTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATAATTTTTAAAAGATTAAAATATAATT
Found at i:36126141 original size:12 final size:13
Alignment explanation
Indices: 36126121--36126154 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
36126111 GTCCTATGTC
*
36126121 TTTTTTAATT-TA
1 TTTTATAATTATA
36126133 TTTTATAATTATA
1 TTTTATAATTATA
36126146 TTTTATAAT
1 TTTTATAAT
36126155 ATTTGATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATAATTATA
Found at i:36126624 original size:26 final size:25
Alignment explanation
Indices: 36126590--36126638 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
36126580 AATTGGCAAC
*
36126590 TTTTTTCCA-ATTTGGTCCCTGAATT
1 TTTTTTCCATA-TTAGTCCCTGAATT
36126615 TTTTTGTCCATATTAGTCCCTGAA
1 TTTTT-TCCATATTAGTCCCTGAA
36126639 CTAGGCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 15 0.71
27 1 0.05
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (25 bp):
TTTTTTCCATATTAGTCCCTGAATT
Found at i:36160275 original size:23 final size:23
Alignment explanation
Indices: 36160231--36160275 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
36160221 TGCAAGTTTC
*
36160231 TTTATTCTCATTTAAATTAATTT
1 TTTATTCTCATTTAAATCAATTT
*
36160254 TTTATT-TCATTTTGAATCAATT
1 TTTATTCTCA-TTTAAATCAATT
36160276 CATTTTGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTATTCTCATTTAAATCAATTT
Found at i:36184280 original size:28 final size:27
Alignment explanation
Indices: 36184236--36184292 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
36184226 AAAAAATACT
36184236 TGACACCCAATAGAGAAACATGAAGTGG
1 TGACACCCAATAGAG-AACATGAAGTGG
* *
36184264 TGACACCC-ATTGAAGAACATTAAGTGG
1 TGACACCCAATAG-AGAACATGAAGTGG
36184291 TG
1 TG
36184293 GCACTTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (27 bp):
TGACACCCAATAGAGAACATGAAGTGG
Found at i:36184508 original size:23 final size:23
Alignment explanation
Indices: 36184454--36184506 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
36184444 GGAGAAGAAA
*
36184454 AGAGAAAGAACGAAGAAAGAAGG
1 AGAGAAAGAAAGAAGAAAGAAGG
* *
36184477 AGAGGAAAGAAAGAA-AGAGAATG
1 AGA-GAAAGAAAGAAGAAAGAAGG
36184500 AGAGAAA
1 AGAGAAA
36184507 AGTAGTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (23 bp):
AGAGAAAGAAAGAAGAAAGAAGG
Found at i:36184763 original size:30 final size:32
Alignment explanation
Indices: 36184701--36184765 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
36184691 TAAAGTTATA
*
36184701 TTTTGTTTAGTATTTATTATTTTAAGTTATTTG
1 TTTTGTTTAG-ATTTAATATTTTAAGTTATTTG
36184734 TTTTGTTTA-ATTTAAT-TTTTAA-TTGATTTG
1 TTTTGTTTAGATTTAATATTTTAAGTT-ATTTG
36184764 TT
1 TT
36184766 ATTTAATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.07
30 13 0.43
31 6 0.20
33 9 0.30
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (32 bp):
TTTTGTTTAGATTTAATATTTTAAGTTATTTG
Found at i:36184865 original size:21 final size:21
Alignment explanation
Indices: 36184841--36184880 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36184831 TAATTTACTT
36184841 TAATTTAAATTTGTTAGTAAG
1 TAATTTAAATTTGTTAGTAAG
**
36184862 TAATTTTTATTTGTTAGTA
1 TAATTTAAATTTGTTAGTA
36184881 GTAGTAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TAATTTAAATTTGTTAGTAAG
Found at i:36187684 original size:27 final size:28
Alignment explanation
Indices: 36187654--36187711 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
36187644 TTACCCCTAA
36187654 GTGCCGCCACTTAATGTTCCT-CAATGG
1 GTGCCGCCACTTAATGTTCCTCCAATGG
* *
36187681 GTGCCGCCACTTTATGTTCCTCCATTGG
1 GTGCCGCCACTTAATGTTCCTCCAATGG
36187709 GTG
1 GTG
36187712 TCAGGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.14, C:0.29, G:0.24, T:0.33
Consensus pattern (28 bp):
GTGCCGCCACTTAATGTTCCTCCAATGG
Found at i:36188311 original size:29 final size:29
Alignment explanation
Indices: 36188256--36188328 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
36188246 GTCTAATATG
* *
36188256 TAATCTTATACATAAATTTTGATTTTG-T
1 TAATTTTATAAATAAATTTTGATTTTGAT
36188284 ATAATTTTATAAATGAAATTTTGA-TTTGAT
1 -TAATTTTATAAAT-AAATTTTGATTTTGAT
36188314 TCAATTTTCATAAAT
1 T-AATTTT-ATAAAT
36188329 TATTAACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 16 0.42
30 16 0.42
31 6 0.16
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (29 bp):
TAATTTTATAAATAAATTTTGATTTTGAT
Found at i:36188568 original size:31 final size:31
Alignment explanation
Indices: 36188505--36188568 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
36188495 ATCTCTTTAA
* ** *
36188505 ATATATATAGTTGAATTAAAATTAAAATTTC
1 ATATATACAGTTGAATTAAAACAAAAAATTC
* *
36188536 ATATATACATTTGAATTATAACAAAAAATTC
1 ATATATACAGTTGAATTAAAACAAAAAATTC
36188567 AT
1 AT
36188569 GCATATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (31 bp):
ATATATACAGTTGAATTAAAACAAAAAATTC
Found at i:36208439 original size:3 final size:3
Alignment explanation
Indices: 36208433--36208477 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
36208423 TTCTTCCTCC
36208433 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
36208478 CAAAATCAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:36227681 original size:17 final size:17
Alignment explanation
Indices: 36227646--36227682 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36227636 AAAAAATCAT
**
36227646 AAAAATCTAAAACTTAA
1 AAAAATCTAAAACACAA
36227663 AAAAATCTAAAACACAA
1 AAAAATCTAAAACACAA
36227680 AAA
1 AAA
36227683 GTCCAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATCTAAAACACAA
Found at i:36227840 original size:22 final size:20
Alignment explanation
Indices: 36227798--36227842 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
36227788 AGTATTTTTT
* *
36227798 AATTATTGGAAAACATATAA
1 AATTATTGAAAAAAATATAA
36227818 AATTATTGAAAAAAAATACTAA
1 AATTATTG-AAAAAAATA-TAA
36227840 AAT
1 AAT
36227843 GAAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (20 bp):
AATTATTGAAAAAAATATAA
Found at i:36230625 original size:29 final size:29
Alignment explanation
Indices: 36230583--36230645 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
36230573 ATCTATCCAC
36230583 CTTTAAAGGAATATTTACATTTTCTTTTG
1 CTTTAAAGGAATATTTACATTTTCTTTTG
36230612 CTTTAAAGGAATATTTACATTTTCTTTTG
1 CTTTAAAGGAATATTTACATTTTCTTTTG
36230641 CTTTA
1 CTTTA
36230646 TATATAAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.52
Consensus pattern (29 bp):
CTTTAAAGGAATATTTACATTTTCTTTTG
Found at i:36232703 original size:17 final size:18
Alignment explanation
Indices: 36232667--36232704 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36232657 TATTTCAGAA
* *
36232667 TTTTAAAATTTTGAAGAT
1 TTTTAAAATATTGAACAT
36232685 TTTTAAAATATT-AACAT
1 TTTTAAAATATTGAACAT
36232702 TTT
1 TTT
36232705 AGAATTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTAAAATATTGAACAT
Found at i:36236387 original size:23 final size:23
Alignment explanation
Indices: 36236343--36236387 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
36236333 GAGCTTCCCA
* *
36236343 TTGCATGTGGTTAGCTTAGCCCG
1 TTGCATGAGGGTAGCTTAGCCCG
36236366 TTGCATGAGGGTAGACTT-GCCC
1 TTGCATGAGGGTAG-CTTAGCCC
36236388 ATGACCCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (23 bp):
TTGCATGAGGGTAGCTTAGCCCG
Found at i:36237205 original size:29 final size:29
Alignment explanation
Indices: 36237172--36237230 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
36237162 TTTTATACAG
36237172 CTCTTCCCAGCTTCCATAACTCACTCTCC
1 CTCTTCCCAGCTTCCATAACTCACTCTCC
36237201 CTCTTCCCAGCTTCCATAACTCACTCTCC
1 CTCTTCCCAGCTTCCATAACTCACTCTCC
36237230 C
1 C
36237231 ACTCTTGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.49, G:0.03, T:0.31
Consensus pattern (29 bp):
CTCTTCCCAGCTTCCATAACTCACTCTCC
Found at i:36247313 original size:3 final size:3
Alignment explanation
Indices: 36247305--36247330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36247295 TCAGATTTTC
36247305 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
36247331 TTGATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:36262533 original size:21 final size:20
Alignment explanation
Indices: 36262494--36262534 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36262484 CTGTTGTTTC
**
36262494 GTTATTTTTCTCTTTATTTT
1 GTTATTTTTCTCTGCATTTT
36262514 GTTATTTTTCTACTGCATTTT
1 GTTATTTTTCT-CTGCATTTT
36262535 AATTTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (20 bp):
GTTATTTTTCTCTGCATTTT
Found at i:36266904 original size:10 final size:10
Alignment explanation
Indices: 36266889--36266913 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36266879 AGACATCTTG
36266889 ATATTTTTAA
1 ATATTTTTAA
36266899 ATATTTTTAA
1 ATATTTTTAA
36266909 ATATT
1 ATATT
36266914 ATATATCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:36266972 original size:23 final size:23
Alignment explanation
Indices: 36266942--36266989 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
36266932 AATTTGTGTT
36266942 ATAAATGACATAATATA-TAAAA
1 ATAAATGACATAATATATTAAAA
*
36266964 ATAACATGATATAATATATTAAAA
1 ATAA-ATGACATAATATATTAAAA
36266988 AT
1 AT
36266990 TAGAAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAAATGACATAATATATTAAAA
Found at i:36274790 original size:29 final size:29
Alignment explanation
Indices: 36274729--36274791 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
36274719 TGTACATTTG
* *
36274729 AAATTTAGTTCTCTATTTTTATTTTTCAC
1 AAATTTAATTCTCTATTTTTATTTTTCAA
36274758 AAATTTAATCTCTCTATTTTT-TTATTT-AA
1 AAATTTAAT-TCTCTATTTTTATT-TTTCAA
36274787 AAATT
1 AAATT
36274792 CAAGCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (29 bp):
AAATTTAATTCTCTATTTTTATTTTTCAA
Found at i:36279022 original size:11 final size:11
Alignment explanation
Indices: 36279008--36279036 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
36278998 ATAAGTGTCC
36279008 TATAAAAATAT
1 TATAAAAATAT
36279019 TAT-AAAATAT
1 TATAAAAATAT
36279029 TATAAAAA
1 TATAAAAA
36279037 AAAAACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:36279768 original size:2 final size:2
Alignment explanation
Indices: 36279761--36279787 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36279751 ATTTCACCAT
36279761 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
36279788 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:36279792 original size:2 final size:2
Alignment explanation
Indices: 36279787--36279817 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36279777 TCTCTCTCTC
36279787 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 T
36279818 TATGCTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36287274 original size:14 final size:15
Alignment explanation
Indices: 36287255--36287296 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
36287245 AAAATTATTT
36287255 ATTTTATAATTAT-A-
1 ATTTTAT-ATTATAAC
36287269 ATTTTATTATTATAAC
1 ATTTTA-TATTATAAC
36287285 ATTTTATATTAT
1 ATTTTATATTAT
36287297 TTTTGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.44
15 8 0.32
16 6 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTATATTATAAC
Found at i:36301941 original size:19 final size:21
Alignment explanation
Indices: 36301886--36301941 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
36301876 TAAATTTAAT
36301886 TTAATATTAAGATAATCATAA
1 TTAATATTAAGATAATCATAA
36301907 TTAATATTAA-ATTAAT-A-AA
1 TTAATATTAAGA-TAATCATAA
*
36301926 TTATTATTAAGATAAT
1 TTAATATTAAGATAAT
36301942 TATTAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
TTAATATTAAGATAATCATAA
Found at i:36302240 original size:24 final size:20
Alignment explanation
Indices: 36302211--36302262 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
36302201 ACTTACTCAA
36302211 ATAAATATTAGTTTAAAATTAAT
1 ATAAATATTA--TT-AAATTAAT
*
36302234 ATTAAATCTTATTAAATTAAT
1 A-TAAATATTATTAAATTAAT
36302255 A-AAATATT
1 ATAAATATT
36302263 TATTTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
21 9 0.35
22 2 0.08
23 1 0.04
24 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAATATTATTAAATTAAT
Found at i:36312647 original size:12 final size:12
Alignment explanation
Indices: 36312632--36312657 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36312622 CTTTGGCTCC
36312632 TTCTAATGGTGA
1 TTCTAATGGTGA
36312644 TTCTAATGGTGA
1 TTCTAATGGTGA
36312656 TT
1 TT
36312658 TTTGTCTGTA
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (12 bp):
TTCTAATGGTGA
Found at i:36322823 original size:19 final size:19
Alignment explanation
Indices: 36322768--36322824 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
36322758 TTGAAAATTT
**
36322768 TAAAATATATAA-AAAATTG
1 TAAAA-ATATAACAAAATAA
36322787 TAAAAATTATAAAACAAAATAA
1 TAAAAA-TAT--AACAAAATAA
36322809 TAAAAATATAACAAAA
1 TAAAAATATAACAAAA
36322825 AGATATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
21 5 0.16
22 11 0.34
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAATATAACAAAATAA
Found at i:36323577 original size:6 final size:6
Alignment explanation
Indices: 36323568--36323603 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
36323558 GAGACGGTGG
*
36323568 GGGAGG GGGAGA GGGAGA GGGAGA GGGAG- GGGAGA G
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA G
36323604 CGGTGGTGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:36323579 original size:23 final size:22
Alignment explanation
Indices: 36323544--36323603 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
36323534 GCGGGGGTGG
** *
36323544 GAGGGAGCCGAGAGGAGACGGT
1 GAGGGAGGGGAGAGGAGACGGA
* *
36323566 GGGGGAGGGGGAGAGGGAGAGGGA
1 GAGGGA-GGGGAGA-GGAGACGGA
36323590 GAGGGAGGGGAGAG
1 GAGGGAGGGGAGAG
36323604 CGGTGGTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 6 0.20
23 12 0.40
24 12 0.40
ACGTcount: A:0.27, C:0.05, G:0.67, T:0.02
Consensus pattern (22 bp):
GAGGGAGGGGAGAGGAGACGGA
Found at i:36324339 original size:15 final size:15
Alignment explanation
Indices: 36324319--36324351 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36324309 GGAGGATAAG
*
36324319 AAGAAGAAGAGAAAC
1 AAGAAGAAGAAAAAC
36324334 AAGAAGAAGAAAAAC
1 AAGAAGAAGAAAAAC
36324349 AAG
1 AAG
36324352 CAGGGCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.24, T:0.00
Consensus pattern (15 bp):
AAGAAGAAGAAAAAC
Found at i:36329869 original size:28 final size:28
Alignment explanation
Indices: 36329837--36329910 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
36329827 CTTTTGAATT
*
36329837 ATATTTTTCTTTTATTTTGGTACTTAAA
1 ATATTTTTCTTTTATTTTAGTACTTAAA
* * * *
36329865 ATATTTATGTCTTATTTTAGTATTTAAA
1 ATATTTTTCTTTTATTTTAGTACTTAAA
*
36329893 CT-TTGTTTCATTTTATTT
1 ATATT-TTTC-TTTTATTT
36329911 CAAAAATTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 2 0.06
28 26 0.74
29 7 0.20
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (28 bp):
ATATTTTTCTTTTATTTTAGTACTTAAA
Found at i:36343750 original size:31 final size:29
Alignment explanation
Indices: 36343701--36343763 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 29
36343691 TATTGATTCA
* *
36343701 ATTTTTTTTTAAATAATTTACATGCATTT
1 ATTTTTTTTTAAAAAATTTACAGGCATTT
36343730 ATTTTATTTTTGAAAAAATTTACAGGCATTT
1 ATTTT-TTTTT-AAAAAATTTACAGGCATTT
36343761 ATT
1 ATT
36343764 GAGCTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.17
30 5 0.17
31 20 0.67
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (29 bp):
ATTTTTTTTTAAAAAATTTACAGGCATTT
Found at i:36343908 original size:30 final size:30
Alignment explanation
Indices: 36343862--36343943 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
36343852 AATGTGTAAT
*
36343862 TGTATACATG-AACTTTAATTTGGTGC-AA
1 TGTATACGTGAAACTTTAATTTGGTGCAAA
*
36343890 T-TATGCACGTGAAACTTTAATTGTGGTTCAAA
1 TGTAT--ACGTGAAACTTTAATT-TGGTGCAAA
*
36343922 TGTATACTTGAAACTTTAATTT
1 TGTATACGTGAAACTTTAATTT
36343944 TGATTTAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 3 0.07
28 1 0.02
29 4 0.09
30 11 0.24
31 20 0.44
32 3 0.07
33 3 0.07
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (30 bp):
TGTATACGTGAAACTTTAATTTGGTGCAAA
Found at i:36344132 original size:29 final size:30
Alignment explanation
Indices: 36344086--36344144 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
36344076 GAATTGGATT
*
36344086 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
* *
36344116 AAATC-AAAGTTCATGTATATAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
36344145 TTAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:36344383 original size:15 final size:15
Alignment explanation
Indices: 36344363--36344412 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
36344353 ATTAAAATTG
36344363 AATTTTATTATACGT
1 AATTTTATTATACGT
* * *
36344378 AATTTTTTTTTGAAG-
1 AATTTTATTAT-ACGT
36344393 AA-TTTATTATACGT
1 AATTTTATTATACGT
36344407 AATTTT
1 AATTTT
36344413 GATGTATAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 2 0.08
14 8 0.31
15 14 0.54
16 2 0.08
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (15 bp):
AATTTTATTATACGT
Done.