Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 92 of 147
Found at i:16925273 original size:10 final size:9
Alignment explanation
Indices: 16925251--16925438 Score: 69
Period size: 9 Copynumber: 19.9 Consensus size: 9
16925241 AGTGATGGCA
16925251 TTTTAGAAAT
1 TTTTA-AAAT
16925261 TTTTAAAATT
1 TTTTAAAA-T
*
16925271 TTTTAGAAT
1 TTTTAAAAT
**
16925280 TTTTCAATTT
1 TTTT-AAAAT
*
16925290 TTTTAGAAT
1 TTTTAAAAT
16925299 TTTTAAAAT
1 TTTTAAAAT
16925308 TTTTAGAATTAT
1 TTTTA-AA--AT
*
16925320 TTTT-CAAT
1 TTTTAAAAT
*
16925328 TTCTTAAGAGT
1 TT-TTAA-AAT
*
16925339 TTTT---TT
1 TTTTAAAAT
** *
16925345 TTTTGCATT
1 TTTTAAAAT
*
16925354 TTTTTAAAT
1 TTTTAAAAT
16925363 CTTTTAAAAT
1 -TTTTAAAAT
* *
16925373 TTTTGAAGT
1 TTTTAAAAT
*
16925382 TTTTATAAT
1 TTTTAAAAT
**
16925391 TTCAAAAAT
1 TTTTAAAAT
*
16925400 TTTGTAGAATT
1 TTT-TA-AAAT
16925411 TTTTAAAAT
1 TTTTAAAAT
*
16925420 TTTAAAAGAAT
1 TTT-TAA-AAT
16925431 TTTTAAAA
1 TTTTAAAA
16925439 ACATTTTCGT
Statistics
Matches: 132, Mismatches: 30, Indels: 33
0.68 0.15 0.17
Matches are distributed among these distances:
6 5 0.04
8 4 0.03
9 62 0.47
10 39 0.30
11 16 0.12
12 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:16925282 original size:18 final size:19
Alignment explanation
Indices: 16925251--16925438 Score: 102
Period size: 19 Copynumber: 9.9 Consensus size: 19
16925241 AGTGATGGCA
16925251 TTTTAGAAATTTTTAAAATT
1 TTTTAG-AATTTTTAAAATT
* *
16925271 TTTTAGAATTTTTCAATTT
1 TTTTAGAATTTTTAAAATT
16925290 TTTTAGAATTTTTAAAA-T
1 TTTTAGAATTTTTAAAATT
**
16925308 TTTTAGAATTATTTTTCAATT
1 TTTTAGAA-T-TTTTAAAATT
* *
16925329 TCTTAAGAGTTTTT----TT
1 T-TTTAGAATTTTTAAAATT
* * *
16925345 TTTT-GCATTTTTTTAAATC
1 TTTTAG-AATTTTTAAAATT
* * *
16925364 TTTTAAAATTTTT-GAAGT
1 TTTTAGAATTTTTAAAATT
* **
16925382 TTTTATAATTTCAAAAATT
1 TTTTAGAATTTTTAAAATT
*
16925401 TTGTAGAATTTTTTAAAATT
1 TTTTAGAA-TTTTTAAAATT
**
16925421 TTAAAAGAATTTTTAAAA
1 TT-TTAGAATTTTTAAAA
16925439 ACATTTTCGT
Statistics
Matches: 128, Mismatches: 27, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
14 1 0.01
15 8 0.06
16 3 0.02
18 21 0.16
19 47 0.37
20 36 0.28
21 7 0.05
22 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTAGAATTTTTAAAATT
Found at i:16925328 original size:20 final size:19
Alignment explanation
Indices: 16925251--16925329 Score: 58
Period size: 20 Copynumber: 4.1 Consensus size: 19
16925241 AGTGATGGCA
*
16925251 TTTTAGAA-ATTTTTAAAATT
1 TTTTAGAATATTTTT-CAA-T
16925271 TTTTAG-A-ATTTTTCAATTT
1 TTTTAGAATATTTTTCAA--T
**
16925290 TTTTAGAAT-TTTTAAAAT
1 TTTTAGAATATTTTTCAAT
16925308 TTTTAGAATTATTTTTCAAT
1 TTTTAGAA-TATTTTTCAAT
16925328 TT
1 TT
16925330 CTTAAGAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
18 11 0.22
19 16 0.33
20 22 0.45
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAGAATATTTTTCAAT
Found at i:16925413 original size:29 final size:27
Alignment explanation
Indices: 16925368--16925426 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
16925358 TAAATCTTTT
*
16925368 AAAATTTTTGAAGTTTTTATAATTTCA
1 AAAATTTTTGAAGTTTTTAAAATTTCA
* *
16925395 AAAATTTTGTAGAATTTTTTAAAATTTTA
1 AAAATTTT-T-GAAGTTTTTAAAATTTCA
16925424 AAA
1 AAA
16925427 GAATTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 1 0.04
29 18 0.67
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (27 bp):
AAAATTTTTGAAGTTTTTAAAATTTCA
Found at i:16935494 original size:11 final size:11
Alignment explanation
Indices: 16935476--16935517 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
16935466 AATCTCATAA
16935476 GAGATTTGTTT
1 GAGATTTGTTT
*
16935487 GGGATTTGTTT
1 GAGATTTGTTT
*
16935498 GAAATTTGTTT
1 GAGATTTGTTT
16935509 GAGATTTGT
1 GAGATTTGT
16935518 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:16958347 original size:42 final size:42
Alignment explanation
Indices: 16958284--16958366 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
16958274 AAAGAGAAGG
* *
16958284 AAAAAAAAAATCATGCGTTTCTCTCGTGATAAATGCAAGAAT
1 AAAAAAAAAATCATGCGTTTCTCTCATAATAAATGCAAGAAT
* ** *
16958326 AAAAAAAAAGTCATGTTTTTCTTTCATAATAAATGCAAGAA
1 AAAAAAAAAATCATGCGTTTCTCTCATAATAAATGCAAGAA
16958367 CGACAAAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (42 bp):
AAAAAAAAAATCATGCGTTTCTCTCATAATAAATGCAAGAAT
Found at i:16971585 original size:18 final size:18
Alignment explanation
Indices: 16971562--16971829 Score: 95
Period size: 18 Copynumber: 14.2 Consensus size: 18
16971552 TTGTTATCAA
16971562 TAATATAATAATATTTAT
1 TAATATAATAATATTTAT
* ** *
16971580 TAATATATTAATATAAAA
1 TAATATAATAATATTTAT
* *
16971598 TAATATTATATTATTTAT
1 TAATATAATAATATTTAT
*
16971616 TAATAT-ATTAT-TTTAAT
1 TAATATAATAATATTT-AT
* * *
16971633 ATATTATAATAGTAATTAT
1 -TAATATAATAATATTTAT
* *
16971652 TAATATATTATTTATAATTAAT
1 TAATATA--A-TAAT-ATTTAT
* * *
16971674 ATATTATATTAATTTTATAT
1 -TAATATAATAATATT-TAT
16971694 TAATA-AATAATATATTAT
1 TAATATAATAATAT-TTAT
*
16971712 TAATATCATATATTACATTTA-
1 TAATAT-A-ATA--ATATTTAT
16971733 TAATATAATACATTTTTATTTAT
1 TAATATAATA-A----TATTTAT
*
16971756 TAATATAATATTATTTA-
1 TAATATAATAATATTTAT
* *
16971773 AAAAATAATATAGTATTTAT
1 TAATATAATA-A-TATTTAT
* *
16971793 TAATA-ATATATTACTTAT
1 TAATATA-ATAATATTTAT
16971811 TAATA-AAT--TATTTAT
1 TAATATAATAATATTTAT
16971826 TAAT
1 TAAT
16971830 TTATTATTAT
Statistics
Matches: 184, Mismatches: 41, Indels: 53
0.66 0.15 0.19
Matches are distributed among these distances:
15 10 0.05
16 3 0.02
17 15 0.08
18 76 0.41
19 22 0.12
20 16 0.09
21 11 0.06
22 12 0.07
23 19 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
TAATATAATAATATTTAT
Found at i:16971603 original size:28 final size:28
Alignment explanation
Indices: 16971568--16971726 Score: 86
Period size: 28 Copynumber: 5.8 Consensus size: 28
16971558 TCAATAATAT
16971568 AATAATATT-TATTAATATATTAATATAA
1 AATAATATTATATT-ATATATTAATATAA
* *
16971596 AATAATATTATATTATTTATTAATATAT
1 AATAATATTATATTATATATTAATATAA
* ** * * *
16971624 TATTTTAATATATTATAATAGTAAT-TATT
1 AATAATATTATATTAT-ATATTAATATA-A
16971653 AAT-ATATTAT-TTATA-ATTAATAT--
1 AATAATATTATATTATATATTAATATAA
* *
16971676 -ATTATATTA-ATTTTATATTAATA-AA
1 AATAATATTATATTATATATTAATATAA
*
16971701 TAATATATTATTAATATCATATATTA
1 -AATA-A-TATT-ATATTATATATTA
16971727 CATTTATAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
22 2 0.02
23 10 0.10
24 7 0.07
25 5 0.05
26 2 0.02
27 6 0.06
28 41 0.41
29 17 0.17
30 1 0.01
31 9 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
AATAATATTATATTATATATTAATATAA
Found at i:16971613 original size:36 final size:36
Alignment explanation
Indices: 16971560--16971947 Score: 139
Period size: 36 Copynumber: 10.9 Consensus size: 36
16971550 ATTTGTTATC
* *
16971560 AATAATATAATAATATTTATTAATATATTAATATAA
1 AATAATATTATATTATTTATTAATATATTAATATAA
* *
16971596 AATAATATTATATTATTTATTAATATATTATTTTAA
1 AATAATATTATATTATTTATTAATATATTAATATAA
* * * * * *
16971632 TATATTATAATAGTAATTATTAATATATTATTTATAA
1 AATAATATTATATTATTTATTAATATATTA-ATATAA
* *
16971669 TTAAT-ATATTATATTAATT-TT-ATATTAATAA-ATAA
1 --AATAATATTATATTATTTATTAATA-TATTAATATAA
* * * * *
16971704 TATATTATTAATATCATATATTACATTTA-TAATAT--
1 AATAATATT-ATATTATTTATTA-ATATATTAATATAA
* * *
16971739 AAT-ACATT-T-TTATTTATTAATATAATATTATTTAA
1 AATAATATTATATTATTTATTAATAT-AT-TAATATAA
* * *
16971774 AA-AATAATATAGTATTTATTAATA-A-T-ATATTA
1 AATAATATTATATTATTTATTAATATATTAATATAA
** * * * * * *
16971806 CTTATTAATAAATTATTTATTAATTTATTATTATTAT
1 AATAATATTATATTATTTATTAATATATTAATA-TAA
* * * * *
16971843 GATAA-ATTATATTAATAATATATTACATTAATA-AA
1 AATAATATTATATTATTTAT-TAATATATTAATATAA
* * *
16971878 TAAT-ATATTATATTATAATTATTAATATAATATTTATAT
1 -AATAATATTATATTAT--TTATTAATATATTA-ATATAA
* *
16971917 AATAA-A-AATATTATTTTATTAATATAATAAT
1 AATAATATTATATTA-TTTATTAATATATTAAT
16971948 CGTAATATCA
Statistics
Matches: 254, Mismatches: 66, Indels: 65
0.66 0.17 0.17
Matches are distributed among these distances:
30 3 0.01
31 9 0.04
32 5 0.02
33 25 0.10
34 8 0.03
35 22 0.09
36 103 0.41
37 52 0.20
38 23 0.09
39 4 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
AATAATATTATATTATTTATTAATATATTAATATAA
Found at i:16971622 original size:15 final size:15
Alignment explanation
Indices: 16971604--16971920 Score: 80
Period size: 15 Copynumber: 21.1 Consensus size: 15
16971594 AAAATAATAT
16971604 TATATTATTTATTAA
1 TATATTATTTATTAA
16971619 TATATTATTTTAATATATTA
1 TATATTA-TTT-AT-TA--A
* *
16971639 TAATAGTAATTATTAA
1 T-ATATTATTTATTAA
16971655 TATATTATTTA-TAA
1 TATATTATTTATTAA
16971669 T-TAATATATTATATTAA
1 TAT-AT-TATT-TATTAA
*
16971686 T-T-TTATATTAATAA
1 TATATTAT-TTATTAA
*
16971700 -ATAATATATTATTAA
1 TATATTAT-TTATTAA
16971715 TATCA-TA--TATTACA
1 TAT-ATTATTTATTA-A
* * * *
16971729 TTTATAATATAATACA
1 TATATTATTTATTA-A
*
16971745 T-TTTTATTTATTAA
1 TATATTATTTATTAA
*
16971759 TATAATA-TTATTTAA
1 TATATTATTTA-TTAA
* * * *
16971774 -AAAATA-ATA-TAG
1 TATATTATTTATTAA
*
16971786 TAT-TTA-TTAATAA
1 TATATTATTTATTAA
*
16971799 TATATTACTTATTAA
1 TATATTATTTATTAA
*
16971814 TAAATTATTTATTAA
1 TATATTATTTATTAA
*
16971829 TTTATTA-TTATTATGA
1 TATATTATTTATTA--A
* *
16971845 TAAATTATATTAATAA
1 TATATTAT-TTATTAA
*
16971861 TATATTA--CATTAA
1 TATATTATTTATTAA
* * *
16971874 TAAATAATATATT-A
1 TATATTATTTATTAA
*
16971888 TAT-TATAATTATTAA
1 TATAT-TATTTATTAA
*
16971903 TATAATATTTATATAA
1 TATATTATTTAT-TAA
16971919 TA
1 TA
16971921 AAAATATTAT
Statistics
Matches: 224, Mismatches: 43, Indels: 69
0.67 0.13 0.21
Matches are distributed among these distances:
12 6 0.03
13 23 0.10
14 48 0.21
15 83 0.37
16 36 0.16
17 8 0.04
18 9 0.04
19 2 0.01
20 4 0.02
21 5 0.02
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:16971705 original size:72 final size:72
Alignment explanation
Indices: 16971565--16971716 Score: 168
Period size: 72 Copynumber: 2.1 Consensus size: 72
16971555 TTATCAATAA
* * * **
16971565 TATAATAATATTTATTAATATATTAATATAAAATAATATTATATTATTTATTAATATATTATTTT
1 TATAATAATAATTATTAATATATTAATATAAAATAATATTATATTAATTATTAATATAATATAAT
16971630 AATATAT
66 AATATAT
* *
16971637 TATAATAGTAATTATTAATATATTATTTATAATTAAT-ATATTATATTAATT-TT-ATATTAATA
1 TATAATAATAATTATTAATATATTA-ATATAA--AATAATATTATATTAATTATTAATA-TAATA
16971699 -AATAATATAT
62 TAATAATATAT
16971709 TATTAATA
1 TA-TAATA
16971717 TCATATATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
72 36 0.53
73 16 0.24
74 13 0.19
75 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (72 bp):
TATAATAATAATTATTAATATATTAATATAAAATAATATTATATTAATTATTAATATAATATAAT
AATATAT
Found at i:16971734 original size:42 final size:42
Alignment explanation
Indices: 16971649--16971731 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
16971639 TAATAGTAAT
* * *
16971649 TATTAATATATTATTTATAATTAATATATTATATTAATTTTA
1 TATTAATAAATAATATATAATTAATATATTATATTAATTTTA
*
16971691 TATTAATAAATAATATATTATTAATATCA-TATATTACATTT
1 TATTAATAAATAATATATAATTAATAT-ATTATATTA-ATTT
16971732 ATAATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (42 bp):
TATTAATAAATAATATATAATTAATATATTATATTAATTTTA
Found at i:16971838 original size:18 final size:17
Alignment explanation
Indices: 16971748--16971840 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 17
16971738 TAATACATTT
*
16971748 TTATTTATTAATATAATA
1 TTATTTATTAAT-TATTA
** *
16971766 TTATTTAAAAAATAATATA
1 TTATTT-ATTAATTAT-TA
* *
16971785 GTATTTATTAATAATATA
1 TTATTTATTAATTAT-TA
* *
16971803 TTACTTATTAA-TA-AA
1 TTATTTATTAATTATTA
16971818 TTATTTATTAATTTATTA
1 TTATTTATTAA-TTATTA
16971836 TTATT
1 TTATT
16971841 ATGATAAATT
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
15 11 0.19
17 3 0.05
18 32 0.56
19 11 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTATTTATTAATTATTA
Found at i:16971883 original size:29 final size:29
Alignment explanation
Indices: 16971790--16971883 Score: 100
Period size: 29 Copynumber: 3.1 Consensus size: 29
16971780 ATATAGTATT
16971790 TATTAATAATATATTACTTATTAATAAATTA
1 TATTAATAATATATTAC--ATTAATAAATTA
* * *
16971821 T-TTATTAATTTATTATTATTATGATAAATTA
1 TATTAATAATATATTA-CATTA--ATAAATTA
*
16971852 TATTAATAATATATTACATTAATAAATAA
1 TATTAATAATATATTACATTAATAAATTA
16971881 TAT
1 TAT
16971884 ATTATATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
29 14 0.27
30 12 0.23
31 14 0.27
32 12 0.23
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (29 bp):
TATTAATAATATATTACATTAATAAATTA
Found at i:16971901 original size:29 final size:28
Alignment explanation
Indices: 16971807--16971921 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 28
16971797 AATATATTAC
* * * *
16971807 TTATTAATAAATTATTTATTAATTTATTA
1 TTATTAATAAATAATATATTAA-TAATAA
16971836 TTATTATGATAAAT--TATATTAATAATATA
1 TTATTA--ATAAATAATATATTAATAATA-A
*
16971865 TTACATTAATAAATAATATATTATATTATAA
1 TT--ATTAATAAATAATATATTA-ATAATAA
16971896 TTATTAAT--ATAATAT-TTATATAATAA
1 TTATTAATAAATAATATATTA-ATAATAA
16971922 AAATATTATT
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
26 10 0.14
27 7 0.10
28 3 0.04
29 28 0.38
31 20 0.27
32 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
TTATTAATAAATAATATATTAATAATAA
Found at i:16971901 original size:45 final size:45
Alignment explanation
Indices: 16971852--16971937 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
16971842 TGATAAATTA
16971852 TATTAATA-ATATATTACAT-TAATAAATAATA-TATTATATTATAAT
1 TATTAATATA-ATATT-CATATAATAAA-AATATTATTATATTATAAT
* *
16971897 TATTAATATAATATTTATATAATAAAAATATTATTTTATTA
1 TATTAATATAATATTCATATAATAAAAATATTATTATATTA
16971938 ATATAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
44 6 0.17
45 29 0.81
46 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (45 bp):
TATTAATATAATATTCATATAATAAAAATATTATTATATTATAAT
Found at i:16973758 original size:65 final size:65
Alignment explanation
Indices: 16973684--16973878 Score: 318
Period size: 65 Copynumber: 3.0 Consensus size: 65
16973674 TTAAAGAGTC
* * * *
16973684 TCCACCTTGTCCTTTTTCACCTTATGTTGTATTGCTTTTAGCCATGGTTCAACTTTAAAATCTTA
1 TCCACCTTGTCCTTCTTCACCCTATGTCGTATTGCTTTTAGCCATGGTTCAACTTCAAAATCTTA
* * *
16973749 TCCACCTTGTCCTTCTTCACCCTATGTCATATTACTTTTAGCCATGGTTCAACTTCAAAATCTTC
1 TCCACCTTGTCCTTCTTCACCCTATGTCGTATTGCTTTTAGCCATGGTTCAACTTCAAAATCTTA
*
16973814 TCCACCTTGTCCTTCTTCACCCTATGTCGTATTGCTTTTAGCCTTGGTTCAACTTCAAAATCTTA
1 TCCACCTTGTCCTTCTTCACCCTATGTCGTATTGCTTTTAGCCATGGTTCAACTTCAAAATCTTA
16973879 CTTCTGCTTA
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 119 1.00
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.43
Consensus pattern (65 bp):
TCCACCTTGTCCTTCTTCACCCTATGTCGTATTGCTTTTAGCCATGGTTCAACTTCAAAATCTTA
Found at i:16976709 original size:24 final size:24
Alignment explanation
Indices: 16976664--16976709 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16976654 ATAAGCTTAC
* *
16976664 GTTAGACCCTTTTTTTTTATAATA
1 GTTAGACCCTTTTTGTTGATAATA
16976688 GTTAGACACC-TTTTGTTGATAA
1 GTTAGAC-CCTTTTTGTTGATAA
16976710 GCTACTATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (24 bp):
GTTAGACCCTTTTTGTTGATAATA
Found at i:16987949 original size:48 final size:47
Alignment explanation
Indices: 16987878--16987969 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
16987868 GTAATCAAAC
* * *
16987878 CAAATCATGGATCAATCATTAAAAATCATCGTAAATCATCTTTATATA
1 CAAATCATAGATCAATCATT-AAAATCATCATAAATCATCATTATATA
* *
16987926 CAAATCATAGATCAATCTTTAAAATCATTATAAATCATCATTAT
1 CAAATCATAGATCAATCATTAAAATCATCATAAATCATCATTAT
16987970 CATGCATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 21 0.54
48 18 0.46
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (47 bp):
CAAATCATAGATCAATCATTAAAATCATCATAAATCATCATTATATA
Found at i:16994868 original size:61 final size:61
Alignment explanation
Indices: 16994739--16994859 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
16994729 TATAAAAAGA
* *
16994739 AAAC-TTTTCGTTTTGTTTCTTTCATTTTTCAAGCTTTTATTACTATTTATTATTTCCATT
1 AAACTTTTTCCTTTTGTTTCTTTCATTTTCCAAGCTTTTATTACTATTTATTATTTCCATT
16994799 AAACTTTTTCCTTTTGTTTCTTTCATTTTCCAAGCTTTTATTACTATTTATTATTTCCATT
1 AAACTTTTTCCTTTTGTTTCTTTCATTTTCCAAGCTTTTATTACTATTTATTATTTCCATT
16994860 TCTCTTTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 4 0.07
61 54 0.93
ACGTcount: A:0.20, C:0.17, G:0.04, T:0.60
Consensus pattern (61 bp):
AAACTTTTTCCTTTTGTTTCTTTCATTTTCCAAGCTTTTATTACTATTTATTATTTCCATT
Found at i:17004849 original size:13 final size:15
Alignment explanation
Indices: 17004831--17004862 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17004821 GCAAGAAAAT
17004831 AAAAT-AAAAT-AAA
1 AAAATAAAAATGAAA
17004844 AAAATAAAAATGAAA
1 AAAATAAAAATGAAA
17004859 AAAA
1 AAAA
17004863 ACTCATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 5 0.29
15 7 0.41
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAAATGAAA
Found at i:17005920 original size:51 final size:50
Alignment explanation
Indices: 17005845--17006066 Score: 218
Period size: 50 Copynumber: 4.4 Consensus size: 50
17005835 GGGGGCATTC
*
17005845 AACAAGAATTTTAAAGTTTCAAAACCTCTATTTA-GGGAGAGCAATTTTTA
1 AACAAGAATTTTAAAGTTTCAAAACCTCTATTTATGGG-GAGCAATTTTCA
* * * * * *
17005895 AACAAGATTTTTTAAAGTTTTAAAACCTCTATTTATGGGAAACTATTTTTA
1 AACAAGA-ATTTTAAAGTTTCAAAACCTCTATTTATGGGGAGCAATTTTCA
* * *
17005946 GAA-AAGATTTCTTTTAAAGTTTCAAAGCCTCTGTTTA-GGGGAAGCAATTTTCA
1 -AACAAGA---ATTTTAAAGTTTCAAAACCTCTATTTATGGGG-AGCAATTTTCA
* * * *
17005999 AATAAGAATTTTAAAGTTCCAAAGCCTCTATTTATGGGGAGCCATTTTCA
1 AACAAGAATTTTAAAGTTTCAAAACCTCTATTTATGGGGAGCAATTTTCA
*
17006049 GACAAG-ATTTTAAAGTTT
1 AACAAGAATTTTAAAGTTT
17006067 TAAGGCCTCT
Statistics
Matches: 144, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
49 11 0.08
50 45 0.31
51 42 0.29
52 10 0.07
53 36 0.25
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (50 bp):
AACAAGAATTTTAAAGTTTCAAAACCTCTATTTATGGGGAGCAATTTTCA
Found at i:17006058 original size:103 final size:104
Alignment explanation
Indices: 17005853--17006058 Score: 272
Period size: 103 Copynumber: 2.0 Consensus size: 104
17005843 TCAACAAGAA
* * **
17005853 TTTTAAAGTTTCAAAACCTCTATTTAGGGAGAGCAATTTTTAAACAAGATTTTTTAAAGTTTTAA
1 TTTTAAAGTTTCAAAACCTCTATTTAGGGAGAGCAATTTTCAAACAAGATATTTTAAAGTTCCAA
* *
17005918 AACCTCTATTTATGGGAAACTATTTTTAGAAAAGATTTC
66 AACCTCTATTTATGGGAAACCATTTTCAGAAAAGATTTC
* * *
17005957 TTTTAAAGTTTCAAAGCCTCTGTTTAGGG-GAAGCAATTTTCAAATAAGA-ATTTTAAAGTTCCA
1 TTTTAAAGTTTCAAAACCTCTATTTAGGGAG-AGCAATTTTCAAACAAGATATTTTAAAGTTCCA
* * * *
17006020 AAGCCTCTATTTATGGGGAGCCATTTTCAGACAAGATTT
65 AAACCTCTATTTATGGGAAACCATTTTCAGAAAAGATTT
17006059 TAAAGTTTTA
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
103 45 0.51
104 43 0.49
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (104 bp):
TTTTAAAGTTTCAAAACCTCTATTTAGGGAGAGCAATTTTCAAACAAGATATTTTAAAGTTCCAA
AACCTCTATTTATGGGAAACCATTTTCAGAAAAGATTTC
Found at i:17006439 original size:2 final size:2
Alignment explanation
Indices: 17006432--17006458 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17006422 TGAATTCTTA
17006432 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17006459 CAAAATAAGC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17011424 original size:64 final size:64
Alignment explanation
Indices: 17011333--17011548 Score: 176
Period size: 64 Copynumber: 3.4 Consensus size: 64
17011323 TTGAATGAAT
* * * *
17011333 TTTTGA-CCAAAACTGCTTTCAATAATCCTTTATAAAAATTTATTGAATGGATTATTAAAAGCG
1 TTTTGAGCCAAAAATGCCTTCAAGAATCCTTTATAAAAATTTATTGAATGGATTATTGAAAGCG
* * * **
17011396 TTTTGAGCTAAAAATGCCTTCAAGAATCCGTTT-T--AAATTTTTTGTATGGATCGTTGAAAGCG
1 TTTTGAGCCAAAAATGCCTTCAAGAATCC-TTTATAAAAATTTATTGAATGGATTATTGAAAGCG
* * * * * *
17011458 TTTTTA-ACAAAAATCACCTTCAATAAT-CTCTCATAAAAATTTATT-AAGTGGATTATTGAAGG
1 TTTTGAGCCAAAAAT-GCCTTCAAGAATCCT-TTATAAAAATTTATTGAA-TGGATTATTGAAAG
*
17011520 TG
63 CG
* * *
17011522 CTTTGGGCCAAAAATGCATTCAAGAAT
1 TTTTGAGCCAAAAATGCCTTCAAGAAT
17011549 TCATTTCAAA
Statistics
Matches: 116, Mismatches: 28, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
60 1 0.01
61 8 0.07
62 39 0.34
63 7 0.06
64 51 0.44
65 10 0.09
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (64 bp):
TTTTGAGCCAAAAATGCCTTCAAGAATCCTTTATAAAAATTTATTGAATGGATTATTGAAAGCG
Found at i:17011579 original size:126 final size:126
Alignment explanation
Indices: 17011350--17011588 Score: 286
Period size: 126 Copynumber: 1.9 Consensus size: 126
17011340 CAAAACTGCT
* * * *
17011350 TTCAATAATCCTTTATAAAAATTTATTGAATGGATTATTAAAAGCGTTTTGAGCTAAAAATGCCT
1 TTCAATAATCCTTCATAAAAATTTATTGAATGGATTATTAAAAGCGCTTTGAGCCAAAAATGCAT
* * * *
17011415 TCAAGAATCCGTTTTAAATTTTTTGTATGGATCGTTGAAAGCGTTTTTAACAAAAATCACC
66 TCAAGAATCCATTTAAAATTTTTTGTATAGATCATTGAAAGCGTTTTTAACAAAAATCACC
* * * *
17011476 TTCAATAAT-CTCTCATAAAAATTTATT-AAGTGGATTATTGAAGGTGCTTTGGGCCAAAAATGC
1 TTCAATAATCCT-TCATAAAAATTTATTGAA-TGGATTATTAAAAGCGCTTTGAGCCAAAAATGC
* * * *
17011539 ATTCAAGAATTCATTTCAAAATTTTTT-TATAGATTATTGAAGGTGTTTTT
64 ATTCAAGAATCCATTT-AAAATTTTTTGTATAGATCATTGAAAGCGTTTTT
17011589 TTGTTGAAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
125 4 0.04
126 81 0.86
127 9 0.10
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (126 bp):
TTCAATAATCCTTCATAAAAATTTATTGAATGGATTATTAAAAGCGCTTTGAGCCAAAAATGCAT
TCAAGAATCCATTTAAAATTTTTTGTATAGATCATTGAAAGCGTTTTTAACAAAAATCACC
Found at i:17011885 original size:61 final size:61
Alignment explanation
Indices: 17011783--17011899 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
17011773 GATAGGATAT
* ** * *
17011783 TTATTGAAGGTATTTTTTTTATTAAAAACACCTTCAATAATCTTCTCTAATTTTTTAACAAAA
1 TTATTGAAGGTA-TTTTTTGACCAAAAACACCTTCAATAATCGTCTAT-ATTTTTTAACAAAA
* *
17011846 TTATTGAAGGTA-TTTTTGACCAAAAATACCTTTAATAATCGTCTATATTTTTTA
1 TTATTGAAGGTATTTTTTGACCAAAAACACCTTCAATAATCGTCTATATTTTTTA
17011900 TGAAGGGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 8 0.17
61 27 0.57
63 12 0.26
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (61 bp):
TTATTGAAGGTATTTTTTGACCAAAAACACCTTCAATAATCGTCTATATTTTTTAACAAAA
Found at i:17011922 original size:12 final size:12
Alignment explanation
Indices: 17011902--17011937 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
17011892 ATTTTTTATG
*
17011902 AAGGGATTATTT
1 AAGGCATTATTT
17011914 AAGGCATTATTT
1 AAGGCATTATTT
17011926 AAGGCATTATTT
1 AAGGCATTATTT
17011938 GTCAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (12 bp):
AAGGCATTATTT
Found at i:17012436 original size:18 final size:18
Alignment explanation
Indices: 17012408--17012459 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
17012398 CATTAGCCTG
* *
17012408 TATATTTTATTATAATGA
1 TATATTATATTATAATAA
*
17012426 TTTATTATATTATAATAA
1 TATATTATATTATAATAA
*
17012444 TATATTATAATATAAT
1 TATATTATATTATAAT
17012460 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATTATATTATAATAA
Found at i:17012447 original size:13 final size:13
Alignment explanation
Indices: 17012431--17012478 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
17012421 AATGATTTAT
17012431 TATATTATAATAA
1 TATATTATAATAA
17012444 TATATTATAAT-A
1 TATATTATAATAA
17012456 TA-ATT-TAA-AA
1 TATATTATAATAA
*
17012466 TAAATTAT-ATAA
1 TATATTATAATAA
17012478 T
1 T
17012479 CTCTTAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 6 0.19
11 7 0.23
12 7 0.23
13 11 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTATAATAA
Found at i:17016071 original size:22 final size:22
Alignment explanation
Indices: 17016045--17016113 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 22
17016035 AATCCCTCTG
17016045 TTTTATTTTTTTATTTAAAATT
1 TTTTATTTTTTTATTTAAAATT
*** *
17016067 TTTTATTTGAATA-TTAAAAAT
1 TTTTATTTTTTTATTTAAAATT
17016088 TTTTATTTTTTATATTTTAAAATT
1 TTTTATTTTTT-TA-TTTAAAATT
17016112 TT
1 TT
17016114 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 15 0.42
22 12 0.33
24 9 0.25
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTTTATTTAAAATT
Found at i:17016114 original size:22 final size:22
Alignment explanation
Indices: 17016045--17016118 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
17016035 AATCCCTCTG
17016045 TTTTATTTTTT-TA-TTTAAAA
1 TTTTATTTTTTATATTTTAAAA
* *
17016065 TTTT-TTATTTGA-ATATTAAAAA
1 TTTTATT-TTTTATAT-TTTAAAA
17016087 TTTTTATTTTTTATATTTTAAAA
1 -TTTTATTTTTTATATTTTAAAA
17016110 TTTTATTTT
1 TTTTATTTT
17016119 ATTTTTTAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 8 0.19
22 15 0.35
23 14 0.33
24 4 0.09
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (22 bp):
TTTTATTTTTTATATTTTAAAA
Found at i:17016168 original size:16 final size:18
Alignment explanation
Indices: 17016137--17016170 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
17016127 ACATTAAAAA
17016137 TTATAAAAATTTAATTTT
1 TTATAAAAATTTAATTTT
17016155 TTAT-AAAA-TTAATTTT
1 TTATAAAAATTTAATTTT
17016171 AATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAAAAATTTAATTTT
Found at i:17021156 original size:38 final size:37
Alignment explanation
Indices: 17021114--17021202 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
17021104 TAAACTATCA
17021114 AATATATAAATTATTTCAAAA-CAAATAGAAATCTTAAT
1 AATATATAAATTATTTCAAAATCAAATAG--ATCTTAAT
* * * * *
17021152 AATATATAAATTACTTCAAAATGAGATAGCTCTTAGT
1 AATATATAAATTATTTCAAAATCAAATAGATCTTAAT
17021189 AATATATAAATTAT
1 AATATATAAATTAT
17021203 AACTTCAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 19 0.43
38 20 0.45
39 5 0.11
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (37 bp):
AATATATAAATTATTTCAAAATCAAATAGATCTTAAT
Found at i:17034598 original size:16 final size:17
Alignment explanation
Indices: 17034569--17034601 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17034559 TGGGGATGTG
*
17034569 GTTTTTTTGTGATTTTT
1 GTTTTGTTGTGATTTTT
17034586 GTTTTGTTG-GATTTTT
1 GTTTTGTTGTGATTTTT
17034602 TCTTTTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (17 bp):
GTTTTGTTGTGATTTTT
Found at i:17035660 original size:16 final size:16
Alignment explanation
Indices: 17035624--17035661 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17035614 TTTTTCTAAA
*
17035624 ATTTTTTCCTTCTTTT
1 ATTTTTTCCTTATTTT
17035640 ATTTTTTCCTTGATTTT
1 ATTTTTTCCTT-ATTTT
17035657 -TTTTT
1 ATTTTT
17035662 ATTTTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.76
Consensus pattern (16 bp):
ATTTTTTCCTTATTTT
Found at i:17035669 original size:13 final size:13
Alignment explanation
Indices: 17035653--17035686 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17035643 TTTTCCTTGA
17035653 TTTTTTTTTATTT
1 TTTTTTTTTATTT
*
17035666 TTTTGTTTTATTT
1 TTTTTTTTTATTT
17035679 TGTTTTTT
1 T-TTTTTT
17035687 GTTTTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:17035674 original size:18 final size:18
Alignment explanation
Indices: 17035653--17035703 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
17035643 TTTTCCTTGA
17035653 TTTTTTTTTATTTTTTTG
1 TTTTTTTTTATTTTTTTG
* *
17035671 TTTTATTTT-GTTTTTTG
1 TTTTTTTTTATTTTTTTG
* *
17035688 TTTTTATATATTTTTT
1 TTTTTTTTTATTTTTT
17035704 GTAAATTAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTATTTTTTTG
Found at i:17035692 original size:35 final size:35
Alignment explanation
Indices: 17035636--17035703 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
17035626 TTTTTCCTTC
* *
17035636 TTTTATTTTTTCCTTGATTTTTTTTTATTTTTTTG
1 TTTTATTTTTTCCTTGATTTTTATATATTTTTTTG
**
17035671 TTTTATTTTGTTTTTTG-TTTTTATATATTTTTT
1 TTTTATTTT-TTCCTTGATTTTTATATATTTTTT
17035704 GTAAATTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 23 0.82
36 5 0.18
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (35 bp):
TTTTATTTTTTCCTTGATTTTTATATATTTTTTTG
Found at i:17036147 original size:106 final size:106
Alignment explanation
Indices: 17036017--17036291 Score: 347
Period size: 106 Copynumber: 2.6 Consensus size: 106
17036007 ACAAATCTTC
*
17036017 AAATCTTTGAATGCTCCTCATACATTAGAGGTGTTGAAACTTAGAAAATTTAAAATGTTTTATCT
1 AAATCTTTGAATGCTCCTCATACATTAGAGGTATTGAAACTTAGAAAATTTAAAATGTTTTATCT
*
17036082 AGAAGTCTTAAAGATTGTG-CTTGGAGATCTTACGGATTTCA
66 AGAAGTCTTAAAGATTGTGCCTT-GAGATCTTAAGGATTTCA
* * * * * * **
17036123 AAATTTTTGAATGTTCCTCATACATTAAAGGCATTAAAATTTTA-AAAATTTAAAATGTTTTGCC
1 AAATCTTTGAATGCTCCTCATACATTAGAGGTATTGAAA-CTTAGAAAATTTAAAATGTTTTATC
** * *
17036187 TAGCGGTTTTAAAGATTGTGCCTTGAGGTCTTAAGGATTTCA
65 TAGAAGTCTTAAAGATTGTGCCTTGAGATCTTAAGGATTTCA
* * * * *
17036229 AAATCTTTGAATGCTCCCCATATATTAGAGATATTGAAACTTTGAAAATTTAAAATGCTTTAT
1 AAATCTTTGAATGCTCCTCATACATTAGAGGTATTGAAACTTAGAAAATTTAAAATGTTTTAT
17036292 TCGGAGGTCT
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
105 2 0.01
106 131 0.94
107 6 0.04
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (106 bp):
AAATCTTTGAATGCTCCTCATACATTAGAGGTATTGAAACTTAGAAAATTTAAAATGTTTTATCT
AGAAGTCTTAAAGATTGTGCCTTGAGATCTTAAGGATTTCA
Found at i:17045679 original size:18 final size:18
Alignment explanation
Indices: 17045644--17045699 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17045634 CCTGGGGATG
* *
17045644 TGTTTTTTTTGTTATTTT
1 TGTTTTGTTGGTTATTTT
*
17045662 TGTTTTGTTGGTTGTTTT
1 TGTTTTGTTGGTTATTTT
* *
17045680 TCTTTTG--GTTTATTTT
1 TGTTTTGTTGGTTATTTT
17045696 TGTT
1 TGTT
17045700 AGAATGTGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 10 0.32
18 21 0.68
ACGTcount: A:0.04, C:0.02, G:0.18, T:0.77
Consensus pattern (18 bp):
TGTTTTGTTGGTTATTTT
Found at i:17046974 original size:22 final size:22
Alignment explanation
Indices: 17046935--17047004 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
17046925 TGTTGGCCAC
*
17046935 TCATAATTTTTGTTTTTTTTTT
1 TCATAATTTTTGTATTTTTTTT
17046957 TCATAATTTATT-TATTTTTTTGT
1 TCATAATTT-TTGTATTTTTTT-T
* * *
17046980 TAATAACCTTTTGTAATTATTTTT
1 TCATAA-TTTTTGT-ATTTTTTTT
17047004 T
1 T
17047005 ATCTTATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 17 0.44
23 10 0.26
24 5 0.13
25 7 0.18
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.69
Consensus pattern (22 bp):
TCATAATTTTTGTATTTTTTTT
Found at i:17048950 original size:17 final size:18
Alignment explanation
Indices: 17048928--17048967 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17048918 ACATTGATTC
17048928 AGATGTT-AA-ATTAATAT
1 AGATGTTAAACATT-ATAT
17048945 AGATGTTAAACATTATAT
1 AGATGTTAAACATTATAT
17048963 AGATG
1 AGATG
17048968 GAAAGCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 11 0.52
19 3 0.14
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (18 bp):
AGATGTTAAACATTATAT
Found at i:17051230 original size:44 final size:44
Alignment explanation
Indices: 17051167--17051254 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
17051157 CTTAAAGAAA
17051167 AGAAAGAAGATAAGAGAAGTGAGGGATGATAAAAATAAGTGAAT
1 AGAAAGAAGATAAGAGAAGTGAGGGATGATAAAAATAAGTGAAT
*
17051211 AGAAAGAAGATAAGAGAAGTGAGGGATGATAAAAATGAGTGAAT
1 AGAAAGAAGATAAGAGAAGTGAGGGATGATAAAAATAAGTGAAT
17051255 GGCCTTCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.31, T:0.16
Consensus pattern (44 bp):
AGAAAGAAGATAAGAGAAGTGAGGGATGATAAAAATAAGTGAAT
Found at i:17060659 original size:32 final size:32
Alignment explanation
Indices: 17060617--17060680 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
17060607 ATTATTATCT
* * *
17060617 AATTTTTGTTATAATCTTTTCCTTTGTTATAA
1 AATTTCTGTTATAAGCTTTTACTTTGTTATAA
17060649 AATTTCTGTTATAAGCTTTTACTTTGTTATAA
1 AATTTCTGTTATAAGCTTTTACTTTGTTATAA
17060681 CCAAAGATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (32 bp):
AATTTCTGTTATAAGCTTTTACTTTGTTATAA
Found at i:17060678 original size:18 final size:16
Alignment explanation
Indices: 17060621--17060681 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 16
17060611 TTATCTAATT
17060621 TTTGTTATAATCTTTTCC
1 TTTGTTATAA-CTTTT-C
**
17060639 TTTGTTATAAAATTTC
1 TTTGTTATAACTTTTC
17060655 --TGTTATAAGCTTTTAC
1 TTTGTTATAA-CTTTT-C
17060671 TTTGTTATAAC
1 TTTGTTATAAC
17060682 CAAAGATCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
14 8 0.23
15 3 0.09
16 2 0.06
17 4 0.11
18 18 0.51
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (16 bp):
TTTGTTATAACTTTTC
Found at i:17061267 original size:42 final size:41
Alignment explanation
Indices: 17061210--17061388 Score: 205
Period size: 42 Copynumber: 4.3 Consensus size: 41
17061200 ATGCCTAAAC
* *
17061210 AACAAAAAACCCTAACTATAATTTTGAGCAATTAAGAACAAT
1 AACAGAAAA-CCTAACTATAAATTTGAGCAATTAAGAACAAT
* * * *
17061252 AACAGAAAATCCTAACTATTATTTTGAGTAATTAAGAACAAC
1 AACAGAAAA-CCTAACTATAAATTTGAGCAATTAAGAACAAT
* * * *
17061294 AATAGAAAACCTCAAATATAAATTTGAACAATTAAAAACAAT
1 AACAGAAAACCT-AACTATAAATTTGAGCAATTAAGAACAAT
* *
17061336 AACAAAAAACCTTAACTATAAATTTGAGTAATTAAGAACAAT
1 AACAGAAAACC-TAACTATAAATTTGAGCAATTAAGAACAAT
*
17061378 AATAGAAAACC
1 AACAGAAAACC
17061389 ATAAATCAGA
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.03
42 110 0.96
43 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (41 bp):
AACAGAAAACCTAACTATAAATTTGAGCAATTAAGAACAAT
Found at i:17061314 original size:84 final size:84
Alignment explanation
Indices: 17061226--17061388 Score: 247
Period size: 84 Copynumber: 1.9 Consensus size: 84
17061216 AAACCCTAAC
* * * * * *
17061226 TATAATTTTGAGCAATTAAGAACAATAACAGAAAATCC-TAACTATTATTTTGAGTAATTAAGAA
1 TATAAATTTGAACAATTAAAAACAATAACA-AAAAACCTTAACTATAAATTTGAGTAATTAAGAA
17061290 CAACAATAGAAAACCTCAAA
65 CAACAATAGAAAACCTCAAA
17061310 TATAAATTTGAACAATTAAAAACAATAACAAAAAACCTTAACTATAAATTTGAGTAATTAAGAAC
1 TATAAATTTGAACAATTAAAAACAATAACAAAAAACCTTAACTATAAATTTGAGTAATTAAGAAC
*
17061375 AATAATAGAAAACC
66 AACAATAGAAAACC
17061389 ATAAATCAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
83 6 0.08
84 65 0.92
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.26
Consensus pattern (84 bp):
TATAAATTTGAACAATTAAAAACAATAACAAAAAACCTTAACTATAAATTTGAGTAATTAAGAAC
AACAATAGAAAACCTCAAA
Found at i:17061495 original size:43 final size:42
Alignment explanation
Indices: 17061411--17061508 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
17061401 ATGCCTAAGA
* * * *
17061411 ATGAAAAACTACAAAAACCCCTAAACCAGAATATGCGTAACT
1 ATGAAAAACAACAAAAAACCCTAAACCACAAAATGCGTAACT
* * *
17061453 TTGGAAGAACAACAAAAAACCCTTAACCACAAAATGAC-TAACT
1 AT-GAAAAACAACAAAAAACCCTAAACCACAAAATG-CGTAACT
17061496 ATGAAAAACAACA
1 ATGAAAAACAACA
17061509 GAACCCAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
42 11 0.24
43 33 0.73
44 1 0.02
ACGTcount: A:0.53, C:0.22, G:0.09, T:0.15
Consensus pattern (42 bp):
ATGAAAAACAACAAAAAACCCTAAACCACAAAATGCGTAACT
Found at i:17063781 original size:27 final size:28
Alignment explanation
Indices: 17063748--17063800 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
17063738 GAGATTTTTA
17063748 AAATTTTCAAATGGTAAATTT-TTTAAG
1 AAATTTTCAAATGGTAAATTTCTTTAAG
* **
17063775 AAATTTTTAGGTGGTAAATTTCTTTA
1 AAATTTTCAAATGGTAAATTTCTTTA
17063801 CAATTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (28 bp):
AAATTTTCAAATGGTAAATTTCTTTAAG
Found at i:17065294 original size:26 final size:25
Alignment explanation
Indices: 17065263--17065315 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
17065253 TTATTTTTTG
17065263 TTGATTATTATTTG-TTCAGTTTATCT
1 TTGATT-TTATTTGCTTCA-TTTATCT
* *
17065289 TTGATTTTTTTTGCTTGATTTATCT
1 TTGATTTTATTTGCTTCATTTATCT
17065314 TT
1 TT
17065316 CTGTTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.15, C:0.08, G:0.11, T:0.66
Consensus pattern (25 bp):
TTGATTTTATTTGCTTCATTTATCT
Found at i:17067621 original size:8 final size:8
Alignment explanation
Indices: 17067600--17067646 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
17067590 TTTTATTAAT
17067600 AAAAAAT-
1 AAAAAATG
17067607 AATAAAATTG
1 AA-AAAA-TG
*
17067617 AAAAATTG
1 AAAAAATG
17067625 AAAAAAT-
1 AAAAAATG
17067632 AAAAAATG
1 AAAAAATG
17067640 AAAAAAT
1 AAAAAAT
17067647 AGGTGTTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 9 0.26
8 19 0.56
9 4 0.12
10 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (8 bp):
AAAAAATG
Found at i:17067635 original size:15 final size:15
Alignment explanation
Indices: 17067597--17067647 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
17067587 GGGTTTTATT
17067597 AATAAAAAAT-AATAA
1 AATAAAAAATGAA-AA
*
17067612 AATTGAAAAATTGAAAA
1 AA-T-AAAAAATGAAAA
17067629 AATAAAAAATGAAAA
1 AATAAAAAATGAAAA
17067644 AATA
1 AATA
17067648 GGTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 17 0.55
16 2 0.06
17 10 0.32
18 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
AATAAAAAATGAAAA
Found at i:17068361 original size:13 final size:13
Alignment explanation
Indices: 17068345--17068374 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17068335 CTTTTTTTAT
*
17068345 TTTTATTTTTGTA
1 TTTTATTTATGTA
17068358 TTTTATTTATGTA
1 TTTTATTTATGTA
17068371 TTTT
1 TTTT
17068375 TGTGTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTATTTATGTA
Found at i:17072328 original size:12 final size:13
Alignment explanation
Indices: 17072311--17072343 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
17072301 GATAGAAAGT
17072311 AAAAAAAGA-AGA
1 AAAAAAAGATAGA
17072323 AAAAAAAGATAGA
1 AAAAAAAGATAGA
17072336 AAAGAAAA
1 AAA-AAAA
17072344 AATAAATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
13 6 0.32
14 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAAAGATAGA
Found at i:17072715 original size:1 final size:1
Alignment explanation
Indices: 17072705--17072765 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
17072695 TGTGTGGGAG
* * ** * * * *
17072705 AAAAAGAAAAAAAAAAAAAAAAGAAAAAATGAGAAAAAAAGAAAAAAAAAGAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17072766 TGAAAGAAAG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (1 bp):
A
Found at i:17072771 original size:16 final size:16
Alignment explanation
Indices: 17072752--17072799 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
17072742 AAAGAAAAAA
17072752 AAAGAGAAAAAAAATG
1 AAAGAGAAAAAAAATG
*
17072768 AAAGA-AAGAGAAAATG
1 AAAGAGAA-AAAAAATG
*
17072784 AAAAATGAAAAAAAAT
1 AAAGA-GAAAAAAAAT
17072800 TAGAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 6 0.23
18 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (16 bp):
AAAGAGAAAAAAAATG
Found at i:17072794 original size:45 final size:45
Alignment explanation
Indices: 17072705--17072807 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
17072695 TGTGTGGGAG
17072705 AAAAAGA-AAAAAAAAAAAAAAAGAAAAAATGAGAAAAAAAGAAAA
1 AAAAAGAGAAAAAAAAAAAAAAAGAAAAAAT-AGAAAAAAAGAAAA
* * *
17072750 AAAAAGAGAAAAAAAATGAAAGAAAGAGAAAAT-G-AAAAATGAAAA
1 AAAAAGAGAAAAAAAA--AAAAAAAGAAAAAATAGAAAAAAAGAAAA
**
17072795 AAAATTAGAAAAA
1 AAAAAGAGAAAAA
17072808 GACTCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
45 28 0.56
46 9 0.18
48 13 0.26
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (45 bp):
AAAAAGAGAAAAAAAAAAAAAAAGAAAAAATAGAAAAAAAGAAAA
Found at i:17072799 original size:10 final size:9
Alignment explanation
Indices: 17072705--17072781 Score: 75
Period size: 10 Copynumber: 8.1 Consensus size: 9
17072695 TGTGTGGGAG
17072705 AAAAAGAAA
1 AAAAAGAAA
17072714 AAAAA-AAA
1 AAAAAGAAA
17072722 AAAAAGAAA
1 AAAAAGAAA
*
17072731 AAATGAGAAA
1 AAA-AAGAAA
*
17072741 AAAAGAAAAA
1 AAAA-AGAAA
17072751 AAAAGAGAAA
1 AAAA-AGAAA
17072761 AAAAATGAAA
1 AAAAA-GAAA
*
17072771 GAAAGAGAAA
1 -AAAAAGAAA
17072781 A
1 A
17072782 TGAAAAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.14
9 13 0.22
10 33 0.57
11 4 0.07
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:17073953 original size:21 final size:21
Alignment explanation
Indices: 17073927--17073974 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17073917 TTGTGAATCC
17073927 TCAAATGAGAA-TCTTTAAGTT
1 TCAAATGA-AAGTCTTTAAGTT
*
17073948 TCAAATGAAAGTCTTTGAGTT
1 TCAAATGAAAGTCTTTAAGTT
*
17073969 TTAAAT
1 TCAAAT
17073975 AAAACTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
TCAAATGAAAGTCTTTAAGTT
Found at i:17074793 original size:44 final size:43
Alignment explanation
Indices: 17074630--17075174 Score: 443
Period size: 44 Copynumber: 12.5 Consensus size: 43
17074620 GATTATCGAT
* * *
17074630 GAGCTTTATTT-TTTTTCCAAAGTTATTTAGCCTATGCTTAGAT
1 GAGCTTTATTTATTTTT-CAAAGTTATTGAGCCTCTGCTTAGAG
* * *
17074673 GAGCTTTATTTATTTTTCAAAGTTGTTTAGCCTCTACTTAGAAG
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGCTTAG-AG
* *
17074717 G-GCTTTAGTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGAG
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* * * *
17074759 GAGCCTTATTTATTTTTCCAAAGTCATTGAGCCTCTGTTTAGAA
1 GAGCTTTATTTATTTTT-CAAAGTTATTGAGCCTCTGCTTAGAG
* * * * * *
17074803 GAGCTTTATTTATGTTTCCAAAGTTGTTGAGCCTTTGATTATAA
1 GAGCTTTATTTAT-TTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* * **
17074847 GAGCTTTATTTATTTTTTAAAGTTGTTGAGCCTCTAATTAGATG
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGA-G
* * * * * ** *
17074891 AACCTTT-TTTATTTTTTCAAAGTTGTTGAGCATTTATTTAAAG
1 GAGCTTTATTTA-TTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* *
17074934 GTGCTTTATTTA-TTTTCAAAGTTATTAAGCCTCTGCTTAGAG
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* * ** * * ** *
17074976 AAGCTTTATTTTATTTTTCAAAATCGTTGAGCTTTTAATTAAAG
1 GAGCTTTA-TTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* * *
17075020 GAGCTTTATTTATTTTTCCAAAATCATTGAGCCTCTGCTTAGAA
1 GAGCTTTATTTATTTTT-CAAAGTTATTGAGCCTCTGCTTAGAG
* * * * **
17075064 AAGCCTTATTAATTTTTCTAAAG-TATTTGAACCTCTTTTTAGAG
1 GAGCTTTATTTATTTTTC-AAAGTTA-TTGAGCCTCTGCTTAGAG
* **
17075108 GAGCTTTATTTATTTTTTCAAAGTTGTTGAGCCTCTATTTAGAG
1 GAGCTTTATTTA-TTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
* *
17075152 AAGCTGGTATTTATTTTTTCAAA
1 GAGCT-TTATTTA-TTTTTCAAA
17075175 AATTGTAAGC
Statistics
Matches: 407, Mismatches: 79, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
42 32 0.08
43 127 0.31
44 222 0.55
45 26 0.06
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (43 bp):
GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTGCTTAGAG
Found at i:17075026 original size:217 final size:218
Alignment explanation
Indices: 17074630--17075150 Score: 608
Period size: 217 Copynumber: 2.4 Consensus size: 218
17074620 GATTATCGAT
* * * **
17074630 GAGCTTTATTT-TTTTTCCAAAGTTATTTAGCCTATGCTTAGATGAGCTTTATTTA-TTTTTCAA
1 GAGCTTTATTTATTTTTCTAAAGTT-TTGAGCCTCTAATTAGATGAGCTTTATTTATTTTTTCAA
* * *
17074693 AGTTGTTTAGCCTCTACTTAGAAGGGCTTTAGTTATTTTTCAAAGTCATTGAGCCTCTGCTTAGA
65 AGTTGTTGAGCCTCTATTTAGAAGGGCTTTAGTTATTTTTCAAAGTCATTAAGCCTCTGCTTAGA
* * **
17074758 GGAGCCTTATTTATTTTTCCAAAGTCATTGAGCCTCTGTTTAGAAGAGCTTTATTTATGTTTCCA
130 GAAGCCTTATTTATTTTTCCAAAATCATTGAGCCTCTAATTAGAAGAGCTTTATTTATGTTTCCA
* ** * *
17074823 AAGTTGTTGAGCCTTTGATTATAA
195 AAATCATTGAGCCTCTGATTAGAA
*
17074847 GAGCTTTATTTATTTTT-TAAAGTTGTTGAGCCTCTAATTAGATGAACCTTT-TTTATTTTTTCA
1 GAGCTTTATTTATTTTTCTAAAGTT-TTGAGCCTCTAATTAGATG-AGCTTTATTTATTTTTTCA
* * * *
17074910 AAGTTGTTGAGCATTTATTTA-AAGGTGCTTTATTTA-TTTTCAAAGTTATTAAGCCTCTGCTTA
64 AAGTTGTTGAGCCTCTATTTAGAAGG-GCTTTAGTTATTTTTCAAAGTCATTAAGCCTCTGCTTA
* * * * *
17074973 GAGAAGCTTTATTTTATTTTT-CAAAATCGTTGAGCTTTTAATTA-AAGGAGCTTTATTTATTTT
128 GAGAAGCCTTA-TTTATTTTTCCAAAATCATTGAGCCTCTAATTAGAA-GAGCTTTATTTATGTT
*
17075036 TCCAAAATCATTGAGCCTCTGCTTAGAA
191 TCCAAAATCATTGAGCCTCTGATTAGAA
* * * * ** *
17075064 AAGCCTTATTAATTTTTCTAAAGTATTTGAACCTCTTTTTAGAGGAGCTTTATTTATTTTTTCAA
1 GAGCTTTATTTATTTTTCTAAAGT-TTTGAGCCTCTAATTAGATGAGCTTTATTTATTTTTTCAA
17075129 AGTTGTTGAGCCTCTATTTAGA
65 AGTTGTTGAGCCTCTATTTAGA
17075151 GAAGCTGGTA
Statistics
Matches: 255, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
216 2 0.01
217 147 0.58
218 104 0.41
219 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (218 bp):
GAGCTTTATTTATTTTTCTAAAGTTTTGAGCCTCTAATTAGATGAGCTTTATTTATTTTTTCAAA
GTTGTTGAGCCTCTATTTAGAAGGGCTTTAGTTATTTTTCAAAGTCATTAAGCCTCTGCTTAGAG
AAGCCTTATTTATTTTTCCAAAATCATTGAGCCTCTAATTAGAAGAGCTTTATTTATGTTTCCAA
AATCATTGAGCCTCTGATTAGAA
Found at i:17075114 original size:261 final size:262
Alignment explanation
Indices: 17074675--17075174 Score: 661
Period size: 261 Copynumber: 1.9 Consensus size: 262
17074665 GCTTAGATGA
* * * *
17074675 GCTTTATTTATTTTTCAAAGTTGTTTAGCCTCTACTTAGAAGGGCTTTAGTTATTTTTCAAAGTC
1 GCTTTATTTATTTTTCAAAGTTATTAAGCCTCTACTTAGAAGAGCTTTAGTTATTTTTCAAAATC
** * * * *
17074740 ATTGAGCCTCTGCTTAGAGGAGCCTTATTTATTTTTCCAAAGTCATTGAGCCTCTGTTTAGAAGA
66 ATTGAGCCTCTAATTAAAGGAGCCTTATTTATTTTTCCAAAATCATTGAGCCTCTGCTTAGAAAA
* * * *
17074805 GCTTTATTTATGTTTCCAAAGTTGTTGAGCCTTTGATTATAAGAGCTTTATTTATTTTTT-AAAG
131 GCCTTATTAATGTTTCCAAAGTTGTTGAACCTTTGATTAGAAGAGCTTTATTTATTTTTTCAAAG
*
17074869 TTGTTGAGCCTCTAATTAGATGAACCT-TTTTTATTTTTTCAAAGTTGTTGAGCATTTATTTAAA
196 TTGTTGAGCCTCTAATTAGA-GAACCTGTATTTATTTTTTCAAAGTTGTTGAGCATTTATTTAAA
17074933 GGT
260 GGT
* *
17074936 GCTTTATTTA-TTTTCAAAGTTATTAAGCCTCTGCTTAG-AGAAGCTTTATTTTATTTTTCAAAA
1 GCTTTATTTATTTTTCAAAGTTATTAAGCCTCTACTTAGAAG-AGCTTTA-GTTATTTTTCAAAA
* * * *
17074999 TCGTTGAGCTTTTAATTAAAGGAGCTTTATTTATTTTTCCAAAATCATTGAGCCTCTGCTTAGAA
64 TCATTGAGCCTCTAATTAAAGGAGCCTTATTTATTTTTCCAAAATCATTGAGCCTCTGCTTAGAA
* * * *
17075064 AAGCCTTATTAATTTTTCTAAAGTAT-TTGAACCTCTT-TTTAGAGGAGCTTTATTTATTTTTTC
129 AAGCCTTATTAATGTTTCCAAAGT-TGTTGAACCT-TTGATTAGAAGAGCTTTATTTATTTTTTC
* *
17075127 AAAGTTGTTGAGCCTCTATTTAGAGAAGCTGGTATTTATTTTTTCAAA
192 AAAGTTGTTGAGCCTCTAATTAGAGAACCT-GTATTTATTTTTTCAAA
17075175 AATTGTAAGC
Statistics
Matches: 205, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
259 2 0.01
260 31 0.15
261 131 0.64
262 26 0.13
263 15 0.07
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (262 bp):
GCTTTATTTATTTTTCAAAGTTATTAAGCCTCTACTTAGAAGAGCTTTAGTTATTTTTCAAAATC
ATTGAGCCTCTAATTAAAGGAGCCTTATTTATTTTTCCAAAATCATTGAGCCTCTGCTTAGAAAA
GCCTTATTAATGTTTCCAAAGTTGTTGAACCTTTGATTAGAAGAGCTTTATTTATTTTTTCAAAG
TTGTTGAGCCTCTAATTAGAGAACCTGTATTTATTTTTTCAAAGTTGTTGAGCATTTATTTAAAG
GT
Found at i:17076392 original size:17 final size:17
Alignment explanation
Indices: 17076370--17076411 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
17076360 TTTTTGGTAT
17076370 TTTATTTTATTTTTTTA
1 TTTATTTTATTTTTTTA
*
17076387 TTTATTTTATTTTTTTG
1 TTTATTTTATTTTTTTA
17076404 TTTATTTT
1 TTTATTTT
17076412 TTAAGTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTTTA
Found at i:17076655 original size:14 final size:14
Alignment explanation
Indices: 17076636--17076666 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17076626 TTTTTTAATT
17076636 TAAAAAAACAAAAA
1 TAAAAAAACAAAAA
*
17076650 TAAAAAAATAAAAA
1 TAAAAAAACAAAAA
17076664 TAA
1 TAA
17076667 TTGATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
TAAAAAAACAAAAA
Found at i:17079009 original size:46 final size:46
Alignment explanation
Indices: 17078914--17079010 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
17078904 TATTGTTATG
* * * * *
17078914 TGAAAAAGTTATTCCTTTAATAGCTATTTTGTAAACAACTATTCTA
1 TGAAAAAATTATTCCATTAATAGCTATTCTGTAAACAAATATTCAA
* * *
17078960 TGAAAAAATTATTTCATTAATAGCTGTTCTGTAAA-ATAATTTTCAA
1 TGAAAAAATTATTCCATTAATAGCTATTCTGTAAACA-AATATTCAA
17079006 TGAAA
1 TGAAA
17079011 CAACCTTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 1 0.02
46 41 0.98
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (46 bp):
TGAAAAAATTATTCCATTAATAGCTATTCTGTAAACAAATATTCAA
Found at i:17081040 original size:16 final size:18
Alignment explanation
Indices: 17080999--17081042 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
17080989 TTTTTTAATA
17080999 AAATATTATTAATATTTT
1 AAATATTATTAATATTTT
17081017 ACAA-ATTATT-AT-TTTT
1 A-AATATTATTAATATTTT
17081033 AAATATTATT
1 AAATATTATT
17081043 GAAATCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 2 0.08
18 7 0.29
19 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATATTATTAATATTTT
Found at i:17085471 original size:26 final size:28
Alignment explanation
Indices: 17085436--17085512 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 28
17085426 ACTCTCTAAA
*
17085436 AAATAGTATTAAATTTTAAA-ATTAT-T
1 AAATATTATTAAATTTTAAATATTATAT
**
17085462 AAATATTATT-AATTAAAAATATTATAT
1 AAATATTATTAAATTTTAAATATTATAT
17085489 AAATCAATTCATTAAATTTTAAAT
1 AAAT--ATT-ATTAAATTTTAAAT
17085513 TCCAATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 7 0.17
26 14 0.35
27 5 0.12
29 3 0.08
30 3 0.08
31 8 0.20
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
AAATATTATTAAATTTTAAATATTATAT
Found at i:17090384 original size:21 final size:21
Alignment explanation
Indices: 17090360--17090426 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
17090350 TGTCAGTAGG
17090360 AAATAATACTTATCTATTTAT
1 AAATAATACTTATCTATTTAT
* * *
17090381 AAATAGATAGTTA--TATCATAGG
1 AAATA-ATACTTATCTAT-TTA-T
17090403 AAATAATACTTATCTATTTAT
1 AAATAATACTTATCTATTTAT
17090424 AAA
1 AAA
17090427 AGGCTTATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 13 0.37
23 3 0.09
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (21 bp):
AAATAATACTTATCTATTTAT
Found at i:17090403 original size:43 final size:44
Alignment explanation
Indices: 17090339--17090426 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 44
17090329 TCTATTCAAT
*
17090339 ATAGACAGTTATGTCAGTAGGAAATAATACTTATCTATTTATAA
1 ATAGACAGTTATATCAGTAGGAAATAATACTTATCTATTTATAA
*
17090383 ATAGATAGTTATATCA-TAGGAAATAATACTTATCTATTTATAA
1 ATAGACAGTTATATCAGTAGGAAATAATACTTATCTATTTATAA
17090426 A
1 A
17090427 AGGCTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 28 0.67
44 14 0.33
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (44 bp):
ATAGACAGTTATATCAGTAGGAAATAATACTTATCTATTTATAA
Found at i:17094403 original size:29 final size:29
Alignment explanation
Indices: 17094361--17094419 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
17094351 ATAAAAAATC
17094361 TAGACATATTGGATTAAGACATAGCTATG
1 TAGACATATTGGATTAAGACATAGCTATG
*
17094390 TAGATATATTGGATTAAGACATAGCTATG
1 TAGACATATTGGATTAAGACATAGCTATG
17094419 T
1 T
17094420 TCGACAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (29 bp):
TAGACATATTGGATTAAGACATAGCTATG
Found at i:17099094 original size:15 final size:16
Alignment explanation
Indices: 17099064--17099096 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17099054 TGTCTTATTC
17099064 AAAGAATTGCATGAGA
1 AAAGAATTGCATGAGA
*
17099080 AAAGCATTG-ATGAGA
1 AAAGAATTGCATGAGA
17099095 AA
1 AA
17099097 TAGGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
AAAGAATTGCATGAGA
Found at i:17105984 original size:103 final size:100
Alignment explanation
Indices: 17105865--17106051 Score: 230
Period size: 102 Copynumber: 1.8 Consensus size: 100
17105855 AAACAGAAGT
* * *
17105865 TTTGAAAATTTAAAAATTTCAACTTTAAAAAGGCTCCTCATAAACAGAGGTTTTAAAACTTAAAA
1 TTTGAAAATTTAAAAATCTCAACTTTAAAAA-GCTCATCATAAACAAAGGTTTTAAAACTTAAAA
17105930 AACATCTTAACTTTGAAAAGCTCTTCCAAAATAGAGGC
65 AACA-C-TAACTTTGAAAAGCTCTTCCAAAATAGAGGC
* * * * * * * **
17105968 TTTGAAACTTTAAAAATCTCATCTTTGAAAAGCTCATCCTAAAGAAAGGTTTTGAAAGTTTTAAA
1 TTTGAAAATTTAAAAATCTCAACTTTAAAAAGCTCATCATAAACAAAGGTTTTAAAACTTAAAAA
*
17106033 ATACTAACTTTGAAAAGCT
66 ACACTAACTTTGAAAAGCT
17106052 TGTATCTAAG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
100 15 0.21
101 1 0.01
102 28 0.39
103 27 0.38
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (100 bp):
TTTGAAAATTTAAAAATCTCAACTTTAAAAAGCTCATCATAAACAAAGGTTTTAAAACTTAAAAA
ACACTAACTTTGAAAAGCTCTTCCAAAATAGAGGC
Found at i:17106022 original size:50 final size:50
Alignment explanation
Indices: 17105853--17106051 Score: 193
Period size: 50 Copynumber: 3.9 Consensus size: 50
17105843 AAAAAATCCT
* * * * *
17105853 CTAAACAGAAGTTTTGAAAATTTAAAAATTTCAACTTTAAAAAGGCTCCTC
1 CTAAACAGAGGTTTTGAAACTTTAAAAATCTCAACTTTGAAAA-GCTCATC
* * * * *
17105904 ATAAACAGAGGTTTTAAAACTTAAAAAACATCTTAACTTTGAAAAGCTCTTC
1 CTAAACAGAGGTTTTGAAACTT-TAAAA-ATCTCAACTTTGAAAAGCTCATC
* * * *
17105956 CAAAATAGAGGCTTTGAAACTTTAAAAATCTCATCTTTGAAAAGCTCATC
1 CTAAACAGAGGTTTTGAAACTTTAAAAATCTCAACTTTGAAAAGCTCATC
* * * *
17106006 CTAAAGAAAGGTTTTGAAAGTTTTAAAATACT-AACTTTGAAAAGCT
1 CTAAACAGAGGTTTTGAAACTTTAAAAAT-CTCAACTTTGAAAAGCT
17106052 TGTATCTAAG
Statistics
Matches: 120, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 56 0.47
51 24 0.20
52 27 0.22
53 13 0.11
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (50 bp):
CTAAACAGAGGTTTTGAAACTTTAAAAATCTCAACTTTGAAAAGCTCATC
Found at i:17106319 original size:48 final size:48
Alignment explanation
Indices: 17106248--17106343 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
17106238 TATCATGCAC
*
17106248 TCATACTCATGGTAACAAGGTTTTCATGACCACAATTGTCTTCAAACT
1 TCATACTCATAGTAACAAGGTTTTCATGACCACAATTGTCTTCAAACT
*
17106296 TCATACTCATAGTAACAAGGTTTTCATGACCACATTTGTCTTCAAACT
1 TCATACTCATAGTAACAAGGTTTTCATGACCACAATTGTCTTCAAACT
17106344 CTTGGTTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (48 bp):
TCATACTCATAGTAACAAGGTTTTCATGACCACAATTGTCTTCAAACT
Found at i:17106672 original size:11 final size:11
Alignment explanation
Indices: 17106656--17106719 Score: 60
Period size: 11 Copynumber: 5.7 Consensus size: 11
17106646 CTTCTTTCGT
17106656 TCATCATTTCA
1 TCATCATTTCA
**
17106667 TCATCATTTGT
1 TCATCATTTCA
17106678 TCATC-TTTCA
1 TCATCATTTCA
*
17106688 TTCATTATTTCA
1 -TCATCATTTCA
17106700 TTCATCA-TTCA
1 -TCATCATTTCA
17106711 TCATTCATT
1 TCA-TCATT
17106720 CTTTCATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
10 6 0.14
11 25 0.58
12 12 0.28
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (11 bp):
TCATCATTTCA
Found at i:17106699 original size:19 final size:19
Alignment explanation
Indices: 17106655--17106727 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
17106645 CCTTCTTTCG
17106655 TTCATCATTTCATCATCATT-T
1 TTCATC-TTTCAT--TCATTAT
17106676 GTTCATCTTTCATTCATTAT
1 -TTCATCTTTCATTCATTAT
* *
17106696 TTCAT-TCATCATTCATCA-
1 TTCATCT-TTCATTCATTAT
17106714 TTCATTCTTTCATT
1 TTCA-TCTTTCATT
17106728 TGTATTTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.11
19 25 0.57
20 2 0.05
21 6 0.14
22 6 0.14
ACGTcount: A:0.22, C:0.23, G:0.01, T:0.53
Consensus pattern (19 bp):
TTCATCTTTCATTCATTAT
Found at i:17106720 original size:11 final size:11
Alignment explanation
Indices: 17106655--17106726 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
17106645 CCTTCTTTCG
17106655 TTCATCATTTCA
1 TTCATCA-TTCA
**
17106667 -TCATCATTTG
1 TTCATCATTCA
*
17106677 TTCATCTTTCA
1 TTCATCATTCA
*
17106688 TTCATTATTTCA
1 TTCATCA-TTCA
17106700 TTCATCATTCA
1 TTCATCATTCA
*
17106711 -TCATTCATTCT
1 TTCA-TCATTCA
17106722 TTCAT
1 TTCAT
17106727 TTGTATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 5 0.11
11 29 0.62
12 13 0.28
ACGTcount: A:0.22, C:0.24, G:0.01, T:0.53
Consensus pattern (11 bp):
TTCATCATTCA
Found at i:17106725 original size:22 final size:22
Alignment explanation
Indices: 17106655--17106726 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
17106645 CCTTCTTTCG
17106655 TTCATCATTTCATCA-TCATT-T
1 TTCATCA-TTCATCATTCATTCT
* *
17106676 GTTCATCTTTCATTCATT-ATTTCA
1 -TTCATCATTCA-TCATTCA-TTCT
17106700 TTCATCATTCATCATTCATTCT
1 TTCATCATTCATCATTCATTCT
17106722 TTCAT
1 TTCAT
17106727 TTGTATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.10
22 23 0.56
23 14 0.34
ACGTcount: A:0.22, C:0.24, G:0.01, T:0.53
Consensus pattern (22 bp):
TTCATCATTCATCATTCATTCT
Found at i:17110036 original size:26 final size:27
Alignment explanation
Indices: 17110007--17110058 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
17109997 TTGGGGTTAG
17110007 TTTAGGGTCTAA-GTTAGGATTTTGGT
1 TTTAGGGTCTAAGGTTAGGATTTTGGT
* *
17110033 TTTAGGGTTTAAGGTTAGGGTTTTGG
1 TTTAGGGTCTAAGGTTAGGATTTTGG
17110059 GATTTGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (27 bp):
TTTAGGGTCTAAGGTTAGGATTTTGGT
Found at i:17110100 original size:13 final size:13
Alignment explanation
Indices: 17110072--17110145 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 13
17110062 TTGGTTTGAA
17110072 GTTTAGGTTT-GAG
1 GTTTAGGTTTAG-G
*
17110085 GTTCAGGTTTAGG
1 GTTTAGGTTTAGG
* *
17110098 GTTTGGGGTTAGG
1 GTTTAGGTTTAGG
*
17110111 GTTTATGGTTTAGT
1 GTTTA-GGTTTAGG
* * *
17110125 ATTTGGGTTTAAG
1 GTTTAGGTTTAGG
17110138 GTTT-GGTT
1 GTTTAGGTT
17110146 GGTGGTTTAG
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
12 4 0.09
13 33 0.70
14 10 0.21
ACGTcount: A:0.14, C:0.01, G:0.38, T:0.47
Consensus pattern (13 bp):
GTTTAGGTTTAGG
Found at i:17110100 original size:20 final size:20
Alignment explanation
Indices: 17110033--17110160 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 20
17110023 GGATTTTGGT
*
17110033 TTTAGGGTTTAAGGTTAGGG
1 TTTAGGGTTTGAGGTTAGGG
* * *
17110053 TTTTGGGATTT--GGTTTGAAG
1 TTTAGGG-TTTGAGGTTAG-GG
17110073 TTTA-GGTTTGAGGTTCA-GG
1 TTTAGGGTTTGAGGTT-AGGG
*
17110092 TTTAGGGTTTGGGGTTAGGG
1 TTTAGGGTTTGAGGTTAGGG
* * *
17110112 TTTATGGTTT-AGTATTTGGG
1 TTTAGGGTTTGAG-GTTAGGG
* *
17110132 TTTAAGGTTT--GGTTGGTGG
1 TTTAGGGTTTGAGGTTAG-GG
17110151 TTTAGGGTTT
1 TTTAGGGTTT
17110161 AGTTTTGTAG
Statistics
Matches: 84, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
18 6 0.07
19 26 0.31
20 49 0.58
21 3 0.04
ACGTcount: A:0.14, C:0.01, G:0.38, T:0.47
Consensus pattern (20 bp):
TTTAGGGTTTGAGGTTAGGG
Found at i:17122171 original size:18 final size:18
Alignment explanation
Indices: 17122148--17122186 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
17122138 TTAAACAAGA
*
17122148 ATAACAAAGTATGAATGC
1 ATAACAAAGTAAGAATGC
**
17122166 ATAACAATTTAAGAATGC
1 ATAACAAAGTAAGAATGC
17122184 ATA
1 ATA
17122187 TAACAACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (18 bp):
ATAACAAAGTAAGAATGC
Found at i:17122320 original size:13 final size:13
Alignment explanation
Indices: 17122302--17122329 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17122292 GGATTTCAAG
17122302 TTTGGTTTAGGGT
1 TTTGGTTTAGGGT
17122315 TTTGGTTTAGGGT
1 TTTGGTTTAGGGT
17122328 TT
1 TT
17122330 AGGGCTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.36, T:0.57
Consensus pattern (13 bp):
TTTGGTTTAGGGT
Found at i:17122328 original size:7 final size:7
Alignment explanation
Indices: 17122305--17122383 Score: 53
Period size: 7 Copynumber: 12.1 Consensus size: 7
17122295 TTTCAAGTTT
17122305 GGTTTAG
1 GGTTTAG
*
17122312 GGTTT-T
1 GGTTTAG
17122318 GGTTTAG
1 GGTTTAG
17122325 GGTTTAG
1 GGTTTAG
*
17122332 GG-CTA-
1 GGTTTAG
*
17122337 AGTTTAG
1 GGTTTAG
*
17122344 AGTTTAG
1 GGTTTAG
*
17122351 GGGTT-G
1 GGTTTAG
*
17122357 GGTTT-T
1 GGTTTAG
17122363 GGTTT-G
1 GGTTTAG
*
17122369 GGTTTAA
1 GGTTTAG
17122376 GGTTTAG
1 GGTTTAG
17122383 G
1 G
17122384 TTTGTGATTG
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
5 1 0.02
6 24 0.43
7 31 0.55
ACGTcount: A:0.14, C:0.01, G:0.41, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:17122379 original size:13 final size:13
Alignment explanation
Indices: 17122301--17122386 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
17122291 AGGATTTCAA
17122301 GTTT-GGTTTAGG
1 GTTTGGGTTTAGG
*
17122313 GTTTTGGTTTAGG
1 GTTTGGGTTTAGG
* *
17122326 GTTTAGGG-CTA-A
1 GTTT-GGGTTTAGG
*
17122338 GTTTAGAGTTTAGG
1 GTTT-GGGTTTAGG
* *
17122352 GGTTGGGTTT-TG
1 GTTTGGGTTTAGG
*
17122364 GTTTGGGTTTAAG
1 GTTTGGGTTTAGG
*
17122377 GTTTAGGTTT
1 GTTTGGGTTT
17122387 GTGATTGCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
12 21 0.37
13 31 0.54
14 5 0.09
ACGTcount: A:0.13, C:0.01, G:0.38, T:0.48
Consensus pattern (13 bp):
GTTTGGGTTTAGG
Found at i:17128659 original size:795 final size:794
Alignment explanation
Indices: 17127092--17128680 Score: 2368
Period size: 795 Copynumber: 2.0 Consensus size: 794
17127082 TGGAATGGGG
*
17127092 TGAATTGACTCCCATTTATAGAGTGGGATTCGGCTAAGGGGCTAAGGATTACAAGATGCATTTTT
1 TGAATTGACTCCCATTTATAGAGTGGGATTCGGCTAAGGGGCTAAGGATTACAAGATGCATTTTC
* * * ** *
17127157 AAATTTTAAACACTAAGTGATAAGGCTTATCTTTATCTTCTAGAAGGCATGATTGAATGGGACTC
66 AAATTTTAAACACTAAGTGATAAGGATCATCTTCATCTTCTAGAAGGCATGACCGAACGGGACTC
* * *
17127222 CTTTTGCTTAAGTGTGCTTGGCCTAATTGGGTCTTGAAAAAGTGATCTTGGCCATTCATCTTGTC
131 CTCTTGCTTAAGTATGCTTGGCCTAATTAGGTCTTGAAAAAGTGATCTTGGCCATTCATCTTGTC
* *
17127287 TTGAAGCAATCTTGATCAAATCCCTGCCTTAAGTTCGGCTAAGATGAAATTCAAGAGGAGATAAA
196 TTGAAGCAATCTTGATCAAATCCCTGCCTTAAGTTCAGCTAAGATGAAATTCAAAAGGAGATAAA
* * *
17127352 ATGCTTATTATCCAATTCGTGAAATTCAAAAAGATAAAGTCCTCCTTAAAGCAAAAACCTTTAAG
261 ATGCTTATTATCCAATTCGTGAAATTCAAAAAGATAAAGTCCTCCTCAAAGCAAAAACCATCAAG
* *
17127417 GCAAAAGGATAAAGTCTTCCAACTTTTCATAGCAAAATGGCGTAGAGTCCATGGGAGCTTAAAAT
326 GCAAAAGGATAAAGTCTTCCAACCTTTCATAGAAAAATGGCGTAGAGTCCATGGGAGCTTAAAAT
* * * * *
17127482 TCTTTAAAGGATGATTATCTTTTTCTTACATTTAAAATTGCTAAATGGATAGAGATGGAAGTGTC
391 TCTTCAAAGGATGATTATCTTATTCTTACACTTAAAATGGCCAAATGGATAGAGATGGAAGTGTC
* * *
17127547 CTTGTATGCTTGAAATTCTTCCTTGATAGTGAACTAACCGAATGCAATGTAGAGTCCTTATGCAA
456 CTTGTATGCTTGAAATTCCTCCTTGAGAGTGAACTAACCAAATGCAATGTAGAGTCCTTATGCAA
* *
17127612 GCACAATTCCTTCATAGCTAAGCAAATAAGTCACTCTAGGATTAAAATCTCTTTGCATCGATCAT
521 GCACAATTCCTTCATAACTAAGCAAATAAGTCACTCTAGGATTAAAATCTCTTTGCATCAATCAT
** * **
17127677 GTTAGAGTTTAAATGAGCTTGAAACTTGTAGGCAATCCTACTTAGGATTAGGTGGCTGAATATAA
586 GTTAGAGTCCAAATGAGCTTGAAACTTGTAGGCAATCCTACTTAGGATTAGGTGACCAAATATAA
* * * *
17127742 TGCATCATATGAATCAATGTGGTTTGGCTATAACCTTTCAAGATTGGGCCAAAAATACTTCTTGC
651 TGCATCATATGAATAAATGTGGTTTAGCTATAACCTTCCAAGATTGGGCCAAAAATACTCCTTGC
* * *
17127807 ATGCTTGCTTGCATGGCTTGCATGAAAATGAAGGCTATGAGCTTGAAACCCTAAAATCATGAAAA
716 ATGCTTGCATGCATGGCGTGCATGAAAATGAAGGCTATGAGCTTGAAAACCTAAAATCATGAAAA
* *
17127872 TGACATAAATAGTA
781 CGACATAAAAAGTA
* * **
17127886 TGAATTGGCTCCCTATTTATAGAGTGGGATTCAG-TCAATGGGG-TAAGGATTACAAGATGTGTT
1 TGAATTGACTCCC-ATTTATAGAGTGGGATTCGGCT-AA-GGGGCTAAGGATTACAAGATGCATT
*
17127949 TTCAAATTTTAAACACTAGGTGATAAGGATCATCTTCATCTTCTA-AGAGGCATGACCGAACGGG
63 TTCAAATTTTAAACACTAAGTGATAAGGATCATCTTCATCTTCTAGA-AGGCATGACCGAACGGG
17128013 ACTCCTCTTGCTTAAGTATGCTTGGCC-AATTAAGGTCTTGAAAAAGTGATCTTGGCCATTCATC
127 ACTCCTCTTGCTTAAGTATGCTTGGCCTAATT-AGGTCTTGAAAAAGTGATCTTGGCCATTCATC
* *
17128077 TTGTCTTGAAGCAGTCTTGATCAAATCCTCT-CCTTAGGTTCAGCTAAGATGAAATTCAAAAGGA
191 TTGTCTTGAAGCAATCTTGATCAAATCC-CTGCCTTAAGTTCAGCTAAGATGAAATTCAAAAGGA
* * * *
17128141 GATAAATTGCTTTTTATCCAATTCTTGAAATTC-AAAAGAATAAAGTCCTCCTCCAAGCAAAAAC
255 GATAAAATGCTTATTATCCAATTCGTGAAATTCAAAAAG-ATAAAGTCCTCCTCAAAGCAAAAAC
* *
17128205 CATCAAGGTAAAAGGATAAAGTCTTCCAACCTTTCATAGAAAAATGGTGTAGAGTCCATGGGAGC
319 CATCAAGGCAAAAGGATAAAGTCTTCCAACCTTTCATAGAAAAATGGCGTAGAGTCCATGGGAGC
* *
17128270 TTAAAATTCTTCAAAGGATGATTATCTTATTCTTATACTTGAAATGGCCAAATGGATAGAGATGG
384 TTAAAATTCTTCAAAGGATGATTATCTTATTCTTACACTTAAAATGGCCAAATGGATAGAGATGG
* * *
17128335 AAGTGTCCTTGTATGCTTGAAATTCCTCCTTGAGAGTGAGCTAGCCAAATGCAATGTAGAGTCTT
449 AAGTGTCCTTGTATGCTTGAAATTCCTCCTTGAGAGTGAACTAACCAAATGCAATGTAGAGTCCT
* *
17128400 TATGCAAGCGCAATTCCTTCATAACTAAGCAAA-AGAGTCACTTTAGGATTAAAATCTCTTTTG-
514 TATGCAAGCACAATTCCTTCATAACTAAGCAAATA-AGTCACTCTAGGATTAAAATCTC-TTTGC
* * * * * **
17128463 GTCAATCATGTTGGAGTCCATATGAGCTTGAAACTTGTATGCAATCTTTTTTAGGATATAGGTGA
577 ATCAATCATGTTAGAGTCCAAATGAGCTTGAAACTTGTAGGCAATCCTACTTAGGAT-TAGGTGA
* * *
17128528 CCAAATATAATGCATCATGTGAATAAATGTGGTTTAGCTATGAGCTTCCAAGATTGGGCCAAAAA
641 CCAAATATAATGCATCATATGAATAAATGTGGTTTAGCTATAACCTTCCAAGATTGGGCCAAAAA
* *
17128593 TACTCCTTGCATGCTTGCATGCATGGCGTGCATGAAAATTAAGGCTATGAGCTT-AAAACTTAAA
706 TACTCCTTGCATGCTTGCATGCATGGCGTGCATGAAAATGAAGGCTATGAGCTTGAAAACCTAAA
17128657 ATCATGAAAACGACATAAAAAGTA
771 ATCATGAAAACGACATAAAAAGTA
17128681 CCAAAAGTAT
Statistics
Matches: 712, Mismatches: 73, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
794 24 0.03
795 565 0.79
796 123 0.17
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (794 bp):
TGAATTGACTCCCATTTATAGAGTGGGATTCGGCTAAGGGGCTAAGGATTACAAGATGCATTTTC
AAATTTTAAACACTAAGTGATAAGGATCATCTTCATCTTCTAGAAGGCATGACCGAACGGGACTC
CTCTTGCTTAAGTATGCTTGGCCTAATTAGGTCTTGAAAAAGTGATCTTGGCCATTCATCTTGTC
TTGAAGCAATCTTGATCAAATCCCTGCCTTAAGTTCAGCTAAGATGAAATTCAAAAGGAGATAAA
ATGCTTATTATCCAATTCGTGAAATTCAAAAAGATAAAGTCCTCCTCAAAGCAAAAACCATCAAG
GCAAAAGGATAAAGTCTTCCAACCTTTCATAGAAAAATGGCGTAGAGTCCATGGGAGCTTAAAAT
TCTTCAAAGGATGATTATCTTATTCTTACACTTAAAATGGCCAAATGGATAGAGATGGAAGTGTC
CTTGTATGCTTGAAATTCCTCCTTGAGAGTGAACTAACCAAATGCAATGTAGAGTCCTTATGCAA
GCACAATTCCTTCATAACTAAGCAAATAAGTCACTCTAGGATTAAAATCTCTTTGCATCAATCAT
GTTAGAGTCCAAATGAGCTTGAAACTTGTAGGCAATCCTACTTAGGATTAGGTGACCAAATATAA
TGCATCATATGAATAAATGTGGTTTAGCTATAACCTTCCAAGATTGGGCCAAAAATACTCCTTGC
ATGCTTGCATGCATGGCGTGCATGAAAATGAAGGCTATGAGCTTGAAAACCTAAAATCATGAAAA
CGACATAAAAAGTA
Found at i:17129184 original size:15 final size:15
Alignment explanation
Indices: 17129164--17129204 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
17129154 AAAAATTTCA
* *
17129164 TTGCTATTGTCCAAG
1 TTGCTAATGCCCAAG
17129179 TTGCTAATGCCCAAG
1 TTGCTAATGCCCAAG
17129194 TTGCTAATGCC
1 TTGCTAATGCC
17129205 TTTTCATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (15 bp):
TTGCTAATGCCCAAG
Found at i:17129441 original size:24 final size:24
Alignment explanation
Indices: 17129414--17129461 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17129404 ATCCATTGGT
17129414 AATAATCCATTGACAAAATCCATC
1 AATAATCCATTGACAAAATCCATC
**
17129438 AATAATCCATTGGTAAAATCCATC
1 AATAATCCATTGACAAAATCCATC
17129462 CGCAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (24 bp):
AATAATCCATTGACAAAATCCATC
Found at i:17129459 original size:13 final size:14
Alignment explanation
Indices: 17129404--17129460 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
17129394 ATTCATTGAT
*
17129404 ATCCATTGGTAATA
1 ATCCATTGGCAATA
*
17129418 ATCCATTGACAA-A
1 ATCCATTGGCAATA
17129431 ATCCA-T--CAATA
1 ATCCATTGGCAATA
*
17129442 ATCCATTGGTAA-A
1 ATCCATTGGCAATA
17129455 ATCCAT
1 ATCCAT
17129461 CCGCAAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.08
11 6 0.17
12 2 0.06
13 13 0.36
14 12 0.33
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (14 bp):
ATCCATTGGCAATA
Found at i:17129555 original size:22 final size:22
Alignment explanation
Indices: 17129518--17129567 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
17129508 AATATCATCT
* *
17129518 ACAACAAATATTCATAACAAAC
1 ACAAAAAATATCCATAACAAAC
* *
17129540 ATAAAAAATATCCATAACATAC
1 ACAAAAAATATCCATAACAAAC
17129562 ACAAAA
1 ACAAAA
17129568 GTCCTCAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.18
Consensus pattern (22 bp):
ACAAAAAATATCCATAACAAAC
Found at i:17136856 original size:4 final size:4
Alignment explanation
Indices: 17136842--17136892 Score: 84
Period size: 4 Copynumber: 12.8 Consensus size: 4
17136832 AAGGGGTGAG
* *
17136842 GAGA AAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAAA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
17136890 GAG
1 GAG
17136893 TTAGGGATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:17136856 original size:6 final size:6
Alignment explanation
Indices: 17136842--17136892 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
17136832 AAGGGGTGAG
* *
17136842 GAGAAA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAAA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
17136890 GAG
1 GAG
17136893 TTAGGGATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GAGAGA
Found at i:17146562 original size:19 final size:19
Alignment explanation
Indices: 17146540--17146610 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 19
17146530 AATCCTAAAT
17146540 CCTAAACCAAATCTCAAAC
1 CCTAAACCAAATCTCAAAC
17146559 CCTAAACCTAACCATAACTCTAAAC
1 CCTAAACC-AA--AT--CTC-AAAC
* *
17146584 CCAAAACCAAACTCTAAAAC
1 CCTAAACCAAA-TCTCAAAC
17146604 CCTAAAC
1 CCTAAAC
17146611 TAACCCTAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
19 8 0.19
20 12 0.29
21 2 0.05
22 3 0.07
23 1 0.02
24 5 0.12
25 11 0.26
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (19 bp):
CCTAAACCAAATCTCAAAC
Found at i:17146639 original size:44 final size:45
Alignment explanation
Indices: 17146533--17146639 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
17146523 CAATATAAAT
* *
17146533 CCTAAATCCTAAACCAAA-TCTCAAACCCTAAACCTAACCATAAC
1 CCTAAACCCTAAACCAAACTCTAAAACCCTAAACCTAACCATAAC
* * *
17146577 TCTAAACCCAAAACCAAACTCTAAAACCCTAAA-CTAACCCTAAC
1 CCTAAACCCTAAACCAAACTCTAAAACCCTAAACCTAACCATAAC
* * *
17146621 CCTAGACCTTAAATCAAAC
1 CCTAAACCCTAAACCAAAC
17146640 CTTTAGGCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 39 0.75
45 13 0.25
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.18
Consensus pattern (45 bp):
CCTAAACCCTAAACCAAACTCTAAAACCCTAAACCTAACCATAAC
Found at i:17146747 original size:14 final size:14
Alignment explanation
Indices: 17146728--17146789 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
17146718 TAACACTAAA
*
17146728 CTAAACCCTAAAAC
1 CTAAACCTTAAAAC
*
17146742 CTAAACCTTTAAA-
1 CTAAACCTTAAAAC
*
17146755 CTAAACCTTAAATC
1 CTAAACCTTAAAAC
* *
17146769 CTAGACCTTAAACC
1 CTAAACCTTAAAAC
17146783 CTAAACC
1 CTAAACC
17146790 CAAAACTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
13 11 0.28
14 29 0.73
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
CTAAACCTTAAAAC
Found at i:17146755 original size:27 final size:26
Alignment explanation
Indices: 17146724--17146795 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
17146714 ACCATAACAC
17146724 TAAACTAAACCCTAAAACCTAAACCTT
1 TAAACTAAACCCTAAAACCTAAACC-T
* * *
17146751 TAAACTAAACCTTAAATCCTAGACCT
1 TAAACTAAACCCTAAAACCTAAACCT
17146777 TAAACCCTAAACCC-AAAAC
1 TAAA--CTAAACCCTAAAAC
17146796 TCAAAAGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 5 0.13
27 26 0.68
28 7 0.18
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (26 bp):
TAAACTAAACCCTAAAACCTAAACCT
Found at i:17146758 original size:13 final size:13
Alignment explanation
Indices: 17146724--17146763 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
17146714 ACCATAACAC
*
17146724 TAAACTAAACCCT
1 TAAACTAAACCTT
*
17146737 AAAACCTAAACCTT
1 TAAA-CTAAACCTT
17146751 TAAACTAAACCTT
1 TAAACTAAACCTT
17146764 AAATCCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAACTAAACCTT
Found at i:17146789 original size:7 final size:7
Alignment explanation
Indices: 17146728--17146848 Score: 56
Period size: 7 Copynumber: 18.0 Consensus size: 7
17146718 TAACACTAAA
17146728 CTAAACC
1 CTAAACC
*
17146735 CTAAAAC
1 CTAAACC
17146742 CTAAACC
1 CTAAACC
*
17146749 TTTAAA--
1 -CTAAACC
17146755 CTAAACC
1 CTAAACC
* *
17146762 TTAAATC
1 CTAAACC
*
17146769 CTAGACC
1 CTAAACC
*
17146776 TTAAACC
1 CTAAACC
17146783 CTAAACC
1 CTAAACC
* *
17146790 CAAAACT
1 CTAAACC
**
17146797 C-AAAAG
1 CTAAACC
17146803 C-AAACC
1 CTAAACC
17146809 CTAAACC
1 CTAAACC
* *
17146816 CAAAACT
1 CTAAACC
*
17146823 C-AAAAC
1 CTAAACC
*
17146829 CT-AACT
1 CTAAACC
*
17146835 CTAAATC
1 CTAAACC
17146842 CTAAACC
1 CTAAACC
17146849 TTAACCTAGA
Statistics
Matches: 81, Mismatches: 27, Indels: 12
0.68 0.22 0.10
Matches are distributed among these distances:
5 4 0.05
6 16 0.20
7 57 0.70
8 4 0.05
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:17146810 original size:26 final size:26
Alignment explanation
Indices: 17146778--17146827 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
17146768 CCTAGACCTT
17146778 AAACCCTAAACCCAAAACTCAAAAGC
1 AAACCCTAAACCCAAAACTCAAAAGC
17146804 AAACCCTAAACCCAAAACTCAAAA
1 AAACCCTAAACCCAAAACTCAAAA
17146828 CCTAACTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.34, G:0.02, T:0.08
Consensus pattern (26 bp):
AAACCCTAAACCCAAAACTCAAAAGC
Found at i:17146847 original size:26 final size:26
Alignment explanation
Indices: 17146778--17146839 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
17146768 CCTAGACCTT
*
17146778 AAACCCTAAACCCAAAACTCAAAAGC
1 AAACCCTAAACCCAAAACTCAAAACC
17146804 AAACCCTAAACCCAAAACTCAAAACC
1 AAACCCTAAACCCAAAACTCAAAACC
* *
17146830 TAACTCTAAA
1 AAACCCTAAA
17146840 TCCTAAACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.53, C:0.34, G:0.02, T:0.11
Consensus pattern (26 bp):
AAACCCTAAACCCAAAACTCAAAACC
Found at i:17152791 original size:26 final size:28
Alignment explanation
Indices: 17152733--17152802 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 28
17152723 TGAAGCACTA
17152733 AATAAAATCAATAAAATAAAACAAAACTTAT
1 AATAAAATCAA-AAAATAAAACAAAA--TAT
*
17152764 AATAAAATCAAAAAATAAAA-ATAA-AT
1 AATAAAATCAAAAAATAAAACAAAATAT
17152790 AATAAAAT-AAAAA
1 AATAAAATCAAAAA
17152803 TGGAAAAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
25 5 0.13
26 10 0.26
29 3 0.08
30 9 0.24
31 11 0.29
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (28 bp):
AATAAAATCAAAAAATAAAACAAAATAT
Found at i:17153124 original size:32 final size:31
Alignment explanation
Indices: 17153056--17153129 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
17153046 AAAATCCCAC
* *
17153056 CAAAAAATTCATATTCCATTCGCAAACTCAT
1 CAAAAAATTCATATCCCATTCGAAAACTCAT
*
17153087 CAAAAAATTCATATCCCA-TCGAAAAATTCAT
1 CAAAAAATTCATATCCCATTCG-AAAACTCAT
17153118 CAAAAAAATTCA
1 C-AAAAAATTCA
17153130 AAATTCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.08
31 25 0.66
32 10 0.26
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (31 bp):
CAAAAAATTCATATCCCATTCGAAAACTCAT
Found at i:17154804 original size:114 final size:115
Alignment explanation
Indices: 17154601--17154810 Score: 252
Period size: 114 Copynumber: 1.8 Consensus size: 115
17154591 TAACATGAGA
* * **
17154601 CAAAAAATGATTTGACCTAAGCTAAAATCAGATGACTGAAAATGATGCCATGAGTTTGTAAGTGA
1 CAAAAAATGATCTGACCTAAGCTAAAATCAGATGACTGAAAATGATGCCATGAGTCTAAAAGTGA
* *
17154666 CTAAGACTGAGTCTAGGTCAAAGATGAATGACTGCAATTATGTTGTAGGT
66 CTAAGACTGAGTCAAGGTCAAAGATAAATGACTGCAATTATGTTGTAGGT
* *
17154716 CAAAAAATGATCTGATCTAAGCTAAAATC-GAATGACT-AAGATGATG-C-TGCTAGTCTAAAAG
1 CAAAAAATGATCTGACCTAAGCTAAAATCAG-ATGACTGAAAATGATGCCATG--AGTCTAAAAG
*
17154777 TGATTAAGA-TCGAGTCAAGGTTC-AAGATAAATGA
63 TGACTAAGACT-GAGTCAAGG-TCAAAGATAAATGA
17154811 ATGAGACGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
112 2 0.02
113 2 0.02
114 42 0.52
115 35 0.43
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (115 bp):
CAAAAAATGATCTGACCTAAGCTAAAATCAGATGACTGAAAATGATGCCATGAGTCTAAAAGTGA
CTAAGACTGAGTCAAGGTCAAAGATAAATGACTGCAATTATGTTGTAGGT
Found at i:17155023 original size:181 final size:181
Alignment explanation
Indices: 17154709--17155062 Score: 453
Period size: 181 Copynumber: 2.0 Consensus size: 181
17154699 GCAATTATGT
* * ** *
17154709 TGTAGGTCAAAAAATGATCTGATCTAAGCTAAAATCGAATGACTAAGATGATGCTGCTAGTCTAA
1 TGTAGGTCAAAAAATGATCTGACCTAAGCTAAAATCGAATGACTAAGATAATGCCACGAGTCTAA
* * * * **** * **
17154774 AAGTGATTAAGATCGAGTCAAGGTTCAAGATAAATGAATGAGACGATGCCGTGGGTTAGATTATA
66 AAATGACTAAGATCAAGTCAAGGTTAAAGATAAATGAATGAGACGATGCCACAAGTTAAAAAATA
*
17154839 AAGTTTAAAATTTCACTCTAAGTCCAAAGATTCACAATTTGGAAATGATAC
131 AAGTTTAAAATTTCACTCTAAATCCAAAGATTCACAATTTGGAAATGATAC
* * *
17154890 TGTAGGTCAAAAAATGATCTGACCTAAGTTGAGATC-AGATGACTAAGATAATGCCACGAGTCTA
1 TGTAGGTCAAAAAATGATCTGACCTAAGCTAAAATCGA-ATGACTAAGATAATGCCACGAGTCTA
* *
17154954 AAAATGACCTAA-ATTAAGTCAAGGTTAAAGATGAATG-ATCGAGACGATGCCACAAGTTAAAAA
65 AAAATGA-CTAAGATCAAGTCAAGGTTAAAGATAAATGAAT-GAGACGATGCCACAAGTTAAAAA
*
17155017 ATAAAGTTTAAAATTTTACTCTAAATCCAAAGATTCACAATTTGGA
128 ATAAAGTTTAAAATTTCACTCTAAATCCAAAGATTCACAATTTGGA
17155063 CATTTAAAAA
Statistics
Matches: 147, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
180 3 0.02
181 141 0.96
182 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (181 bp):
TGTAGGTCAAAAAATGATCTGACCTAAGCTAAAATCGAATGACTAAGATAATGCCACGAGTCTAA
AAATGACTAAGATCAAGTCAAGGTTAAAGATAAATGAATGAGACGATGCCACAAGTTAAAAAATA
AAGTTTAAAATTTCACTCTAAATCCAAAGATTCACAATTTGGAAATGATAC
Found at i:17155503 original size:17 final size:17
Alignment explanation
Indices: 17155483--17155603 Score: 75
Period size: 17 Copynumber: 7.1 Consensus size: 17
17155473 TAAGAATGAA
* *
17155483 AGATTCGCAGAGGTTCT
1 AGATTCGCAAAGATTCT
*
17155500 AGATTTGCAAAGATTCT
1 AGATTCGCAAAGATTCT
* *
17155517 AGGTTCGCAAAGACTTTT
1 AGATTCGCAAAGA-TTCT
* * **
17155535 AGATTCCCAAGAAAGAC-
1 AGATTCGCAA-AGATTCT
* *
17155552 AAATTCGC-AAGATTCCA
1 AGATTCGCAAAGATT-CT
* * *
17155569 AGTTTCGTAAAGGTTCT
1 AGATTCGCAAAGATTCT
17155586 AGATTCGCAAAGATTCT
1 AGATTCGCAAAGATTCT
17155603 A
1 A
17155604 AGTTTTCAAG
Statistics
Matches: 74, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
15 2 0.03
16 2 0.03
17 52 0.70
18 16 0.22
19 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (17 bp):
AGATTCGCAAAGATTCT
Found at i:17155607 original size:35 final size:33
Alignment explanation
Indices: 17155554--17155660 Score: 112
Period size: 34 Copynumber: 3.1 Consensus size: 33
17155544 AGAAAGACAA
*
17155554 ATTCGCAAGATTCCAAGTTTCGTAAAGGTTCTAG
1 ATTCGCAAGATTCTAAGTTTC-TAAAGGTTCTAG
*
17155588 ATTCGCAAAGATTCTAAGTTT-TCAAGGACTT-TCAG
1 ATTCGC-AAGATTCTAAGTTTCTAAAGG--TTCT-AG
17155623 ATTCGCAAGATT-TCAAGTTTCCTAAAGGTTCTAG
1 ATTCGCAAGATTCT-AAGTTT-CTAAAGGTTCTAG
17155657 ATTC
1 ATTC
17155661 ACAAAGATGC
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
33 6 0.10
34 27 0.44
35 24 0.39
36 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (33 bp):
ATTCGCAAGATTCTAAGTTTCTAAAGGTTCTAG
Found at i:17155701 original size:69 final size:69
Alignment explanation
Indices: 17155554--17155701 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 69
17155544 AGAAAGACAA
* * * *
17155554 ATTCGCAAGATTCCAAGTTTCGTAAAGGTTCTAGATTCGCAAAGATTCTAAGTTTTCAAGGACTT
1 ATTCACAAGATTCCAAGTTTCCTAAAGGTTCTAGATTCACAAAGATGCTAAGTTTTCAAGGACTT
17155619 TCAG
66 TCAG
* * *
17155623 ATTCGCAAGATTTCAAGTTTCCTAAAGGTTCTAGATTCACAAAGATGC-AAGATTTGT-AAGGAT
1 ATTCACAAGATTCCAAGTTTCCTAAAGGTTCTAGATTCACAAAGATGCTAAG-TTT-TCAAGGAC
*
17155686 TTTTAG
64 TTTCAG
*
17155692 GTTCACAAGA
1 ATTCACAAGA
17155702 AAGAAAGATT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
68 3 0.04
69 65 0.94
70 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (69 bp):
ATTCACAAGATTCCAAGTTTCCTAAAGGTTCTAGATTCACAAAGATGCTAAGTTTTCAAGGACTT
TCAG
Found at i:17160730 original size:23 final size:23
Alignment explanation
Indices: 17160704--17160759 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
17160694 TGTTTTTATA
*
17160704 ATTTTTTTTGACAACTTAAAAAG
1 ATTTTTTTTGAAAACTTAAAAAG
*
17160727 ATTTTTTTTGAAAACTTCAAAAG
1 ATTTTTTTTGAAAACTTAAAAAG
17160750 ATCTTTTTTT
1 AT-TTTTTTT
17160760 TTTAAACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.77
24 7 0.23
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTTTTTTTGAAAACTTAAAAAG
Found at i:17160766 original size:25 final size:23
Alignment explanation
Indices: 17160704--17160769 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
17160694 TGTTTTTATA
* *
17160704 ATTTTTTTTGACAACTTAAAAAG
1 ATTTTTTTTTAAAACTTAAAAAG
* *
17160727 ATTTTTTTTGAAAACTTCAAAAG
1 ATTTTTTTTTAAAACTTAAAAAG
*
17160750 ATCTTTTTTTTTTAAACTTA
1 A--TTTTTTTTTAAAACTTA
17160770 TTTGAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 22 0.61
25 14 0.39
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (23 bp):
ATTTTTTTTTAAAACTTAAAAAG
Found at i:17160868 original size:11 final size:12
Alignment explanation
Indices: 17160830--17160874 Score: 56
Period size: 11 Copynumber: 3.7 Consensus size: 12
17160820 TTAAAGCACT
17160830 AAATAAAATCAGTA
1 AAATAAAAT-AG-A
17160844 AAATAAAATAGA
1 AAATAAAATAGA
*
17160856 AAA-AAAATTGA
1 AAATAAAATAGA
17160867 AAATAAAA
1 AAATAAAA
17160875 CAAAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.34
12 8 0.28
13 2 0.07
14 9 0.31
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (12 bp):
AAATAAAATAGA
Found at i:17160869 original size:18 final size:17
Alignment explanation
Indices: 17160843--17160897 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
17160833 TAAAATCAGT
17160843 AAAA-TAAAATAGAAA-A
1 AAAATTAAAATA-AAACA
17160859 AAAATTGAAAATAAAACA
1 AAAATT-AAAATAAAACA
* *
17160877 AAACTTAAAATAAAATA
1 AAAATTAAAATAAAACA
17160894 AAAA
1 AAAA
17160898 ATCAAAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 4 0.12
17 17 0.52
18 12 0.36
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAATTAAAATAAAACA
Found at i:17160904 original size:18 final size:17
Alignment explanation
Indices: 17160843--17160922 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 17
17160833 TAAAATCAGT
17160843 AAAAT-AAAATAGAAAAA
1 AAAATCAAAATA-AAAAA
* * *
17160860 AAATTGAAAATAAAACA
1 AAAATCAAAATAAAAAA
* *
17160877 AAACTTAAAATAAAATAA
1 AAAATCAAAATAAAA-AA
17160895 AAAATCAAAATGAAAAAA
1 AAAATCAAAAT-AAAAAA
17160913 TAAAA-CAAAA
1 -AAAATCAAAA
17160923 ATGGAAAAGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
17 21 0.40
18 23 0.44
19 8 0.15
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAATCAAAATAAAAAA
Found at i:17160910 original size:13 final size:12
Alignment explanation
Indices: 17160883--17160923 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
17160873 AACAAAACTT
17160883 AAAATAAAATAA
1 AAAATAAAATAA
17160895 AAAATCAAAATGAA
1 AAAAT-AAAAT-AA
*
17160909 AAAATAAAACAA
1 AAAATAAAATAA
17160921 AAA
1 AAA
17160924 TGGAAAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 10 0.38
13 9 0.35
14 7 0.27
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:17161220 original size:31 final size:31
Alignment explanation
Indices: 17161177--17161252 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
17161167 TGGAAAATCG
17161177 CATCAAAAAATTCATATCCCATCAAAAAACT
1 CATCAAAAAATTCATATCCCATCAAAAAACT
* * ** *
17161208 CATCGAAAAATTCATATCTCATTGAAAAATT
1 CATCAAAAAATTCATATCCCATCAAAAAACT
17161239 CATCAAAAAATTCA
1 CATCAAAAAATTCA
17161253 AAATTCAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (31 bp):
CATCAAAAAATTCATATCCCATCAAAAAACT
Found at i:17161764 original size:11 final size:11
Alignment explanation
Indices: 17161748--17161786 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
17161738 AAAAAAAGAA
17161748 AATAATAAAAT
1 AATAATAAAAT
17161759 AATAATAAAAT
1 AATAATAAAAT
*
17161770 AATAATATAAT
1 AATAATAAAAT
17161781 -ATAATA
1 AATAATA
17161787 TAATGCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:17167561 original size:22 final size:22
Alignment explanation
Indices: 17167536--17167659 Score: 81
Period size: 22 Copynumber: 5.6 Consensus size: 22
17167526 TATGTGCTAA
*
17167536 CTAATCTAGGCTTACATGCCAG
1 CTAATCTGGGCTTACATGCCAG
* * *
17167558 CTAAAT-TGGGTTTATATGCTAG
1 CT-AATCTGGGCTTACATGCCAG
* * *
17167580 CTAATCTAGCCTTACTTGCCAG
1 CTAATCTGGGCTTACATGCCAG
* * ** *
17167602 CTAAACTGGGTTTATGTGCCAA
1 CTAATCTGGGCTTACATGCCAG
* * *
17167624 TTAATCTGGGCTTGCATGCCAA
1 CTAATCTGGGCTTACATGCCAG
17167646 CTAATTCT-GGCTTA
1 CTAA-TCTGGGCTTA
17167660 AAACATGGGT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
21 3 0.04
22 65 0.88
23 6 0.08
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (22 bp):
CTAATCTGGGCTTACATGCCAG
Found at i:17167578 original size:44 final size:44
Alignment explanation
Indices: 17167525--17167649 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 44
17167515 TAAATTAAGC
*
17167525 TTATGTGCTAACTAATCTAGGCTTACATGCCAGCTAAATTGGGT
1 TTATGTGCTAACTAATCTAGGCTTACATGCCAGCTAAACTGGGT
* * * *
17167569 TTATATGCTAGCTAATCTAGCCTTACTTGCCAGCTAAACTGGGT
1 TTATGTGCTAACTAATCTAGGCTTACATGCCAGCTAAACTGGGT
* * * * *
17167613 TTATGTGCCAATTAATCTGGGCTTGCATGCCAACTAA
1 TTATGTGCTAACTAATCTAGGCTTACATGCCAGCTAA
17167650 TTCTGGCTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
TTATGTGCTAACTAATCTAGGCTTACATGCCAGCTAAACTGGGT
Found at i:17168679 original size:8 final size:7
Alignment explanation
Indices: 17168662--17168740 Score: 61
Period size: 8 Copynumber: 10.0 Consensus size: 7
17168652 AATCCATTTC
17168662 TTTTCTT
1 TTTTCTT
17168669 TTTTACTT
1 TTTT-CTT
17168677 TTTTCTT
1 TTTTCTT
17168684 TTTT-TT
1 TTTTCTT
17168690 TTGTTCATATT
1 TT-TTC---TT
17168701 TCTTTCTT
1 T-TTTCTT
17168709 TTCTTCTT
1 TT-TTCTT
17168717 TCTTTCATT
1 T-TTTC-TT
17168726 TTTTCTCT
1 TTTTCT-T
17168734 TTTTCTT
1 TTTTCTT
17168741 CACTTTTACT
Statistics
Matches: 61, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
6 4 0.07
7 16 0.26
8 30 0.49
9 4 0.07
11 6 0.10
12 1 0.02
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:17169254 original size:18 final size:18
Alignment explanation
Indices: 17169231--17169265 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17169221 CATAACTATT
17169231 TTTCTTTTATT-TTTTTTC
1 TTTCTTTT-TTCTTTTTTC
17169249 TTTCTTTTTTCTTTTTT
1 TTTCTTTTTTCTTTTTT
17169266 GGACGTGCCT
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:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTCTTTTTTCTTTTTTC
Done.