Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 8 of 125
Found at i:2623671 original size:30 final size:31
Alignment explanation
Indices: 2623634--2623704 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
2623624 CATTTAACAC
2623634 AACAGTCACTCAAC-TT-T-GAAAATGTGACAA
1 AACAGTCACT-AACATTATCGAAAA-GTGACAA
*
2623664 AATAGTCACTAACATTATCGAAAAGTGACAA
1 AACAGTCACTAACATTATCGAAAAGTGACAA
2623695 AACAGTCACT
1 AACAGTCACT
2623705 GAAATCAGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 3 0.08
30 11 0.31
31 17 0.47
32 5 0.14
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (31 bp):
AACAGTCACTAACATTATCGAAAAGTGACAA
Found at i:2623889 original size:30 final size:31
Alignment explanation
Indices: 2623821--2623893 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
2623811 GTGTTTAGAA
*
2623821 TTAGTGAGTGTTTTATCACTTTTCGATAACG
1 TTAGTGACTGTTTTATCACTTTTCGATAACG
*
2623852 TTAGTGACTGTTTTGTCACATTTTC-A-AA-G
1 TTAGTGACTGTTTTATCAC-TTTTCGATAACG
2623881 TTGAGTGACTGTT
1 TT-AGTGACTGTT
2623894 GTGTTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 3 0.08
30 12 0.32
31 18 0.47
32 5 0.13
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.45
Consensus pattern (31 bp):
TTAGTGACTGTTTTATCACTTTTCGATAACG
Found at i:2627640 original size:24 final size:24
Alignment explanation
Indices: 2627613--2627658 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2627603 TTAAATTAGA
*
2627613 AATAAAATTATTTAATAATTAATT
1 AATAAAATTAATTAATAATTAATT
* *
2627637 AATAGAATTAATTAGTAATTAA
1 AATAAAATTAATTAATAATTAA
2627659 ATTGATTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AATAAAATTAATTAATAATTAATT
Found at i:2629127 original size:24 final size:24
Alignment explanation
Indices: 2629095--2629144 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2629085 AGCATGTGAA
2629095 AGACCATGTAGATTGAGTGCGATG
1 AGACCATGTAGATTGAGTGCGATG
2629119 AGACCATGTAGATTGAGTGCGATG
1 AGACCATGTAGATTGAGTGCGATG
2629143 AG
1 AG
2629145 CCCTAAGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (24 bp):
AGACCATGTAGATTGAGTGCGATG
Found at i:2641921 original size:12 final size:12
Alignment explanation
Indices: 2641896--2641960 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
2641886 GAACTAAAAC
*
2641896 TATTCAAAATAA
1 TATTAAAAATAA
2641908 TA-TAAAATATAA
1 TATTAAAA-ATAA
2641920 TATTAAAAATAA
1 TATTAAAAATAA
* * *
2641932 AAATAAATAATAT
1 TATTAAA-AATAA
*
2641945 TTTTAAAAATAA
1 TATTAAAAATAA
2641957 TATT
1 TATT
2641961 TATTTTTATC
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
11 4 0.10
12 24 0.59
13 13 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
TATTAAAAATAA
Found at i:2641928 original size:24 final size:26
Alignment explanation
Indices: 2641896--2641959 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 26
2641886 GAACTAAAAC
*
2641896 TATTCAAAATAATATA-AAAT-ATAA
1 TATTAAAAATAATATATAAATAATAA
* *
2641920 TATTAAAAATAA-AAATAAATAATAT
1 TATTAAAAATAATATATAAATAATAA
*
2641945 TTTTAAAAATAATAT
1 TATTAAAAATAATAT
2641960 TTATTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.06
24 15 0.47
25 14 0.44
26 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TATTAAAAATAATATATAAATAATAA
Found at i:2646619 original size:29 final size:29
Alignment explanation
Indices: 2646557--2646630 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
2646547 AAATTTTGAA
*
2646557 ATTTTAGAAAATTTGGGATTAAAATCGAG
1 ATTTTGGAAAATTTGGGATTAAAATCGAG
* *
2646586 CTTTTGGAAAATTTGAGG-TTGAAAAT-GTG
1 ATTTTGGAAAATTTG-GGATT-AAAATCGAG
*
2646615 ATTTTGG-GAATTTGGG
1 ATTTTGGAAAATTTGGG
2646631 GGTAAAACGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 6 0.16
29 23 0.61
30 7 0.18
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (29 bp):
ATTTTGGAAAATTTGGGATTAAAATCGAG
Found at i:2646648 original size:29 final size:31
Alignment explanation
Indices: 2646616--2646732 Score: 85
Period size: 29 Copynumber: 4.1 Consensus size: 31
2646606 GAAAATGTGA
*
2646616 TTTTGGGAAT-TT-GGGGGTAAAACGGTAAT
1 TTTTGGGAATGTTCAGGGGTAAAACGGTAAT
*
2646645 TTTT--GAATGTTCAGGGGTAAAATGGTAAT
1 TTTTGGGAATGTTCAGGGGTAAAACGGTAAT
* ** *
2646674 TTTT-GG-ATGTTCA-AGGTAAAAATGTGAT
1 TTTTGGGAATGTTCAGGGGTAAAACGGTAAT
*
2646702 TTTT-GGAA-GTTC-GAGGGTAAAA-AGTAAT
1 TTTTGGGAATGTTCAG-GGGTAAAACGGTAAT
2646730 TTT
1 TTT
2646733 GGAAAAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.05
28 30 0.41
29 38 0.52
30 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.38
Consensus pattern (31 bp):
TTTTGGGAATGTTCAGGGGTAAAACGGTAAT
Found at i:2646692 original size:28 final size:28
Alignment explanation
Indices: 2646630--2646732 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 28
2646620 GGGAATTTGG
* *
2646630 GGGTAAAACGGTAATTTTTGAATGTTCA
1 GGGTAAAATGGTAATTTTTGGATGTTCA
2646658 GGGGTAAAATGGTAATTTTTGGATGTTCA
1 -GGGTAAAATGGTAATTTTTGGATGTTCA
* * *
2646687 AGGTAAAAAT-GTGATTTTTGGAAGTTCGA
1 GGGT-AAAATGGTAATTTTTGGATGTTC-A
*
2646716 GGGTAAAA-AGTAATTTT
1 GGGTAAAATGGTAATTTT
2646733 GGAAAAATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 29 0.45
29 35 0.55
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGATGTTCA
Found at i:2648069 original size:15 final size:15
Alignment explanation
Indices: 2648049--2648080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2648039 ATACACTATA
*
2648049 TTTTTGTGCTGATTT
1 TTTTTGTACTGATTT
2648064 TTTTTGTACTGATTT
1 TTTTTGTACTGATTT
2648079 TT
1 TT
2648081 GAAAAGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.16, T:0.69
Consensus pattern (15 bp):
TTTTTGTACTGATTT
Found at i:2648486 original size:11 final size:10
Alignment explanation
Indices: 2648448--2648507 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
2648438 GACATTAGTA
2648448 AAATTTAAAT
1 AAATTTAAAT
2648458 AAATTTAAACT
1 AAATTTAAA-T
2648469 CAAATTTACAAT
1 -AAATTTA-AAT
2648481 AAATTTAAAT
1 AAATTTAAAT
*
2648491 ---TTCAAAT
1 AAATTTAAAT
2648498 AAATTTAAAT
1 AAATTTAAAT
2648508 TCTGTTTGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 6 0.14
10 18 0.43
11 8 0.19
12 8 0.19
13 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTTAAAT
Found at i:2649801 original size:8 final size:8
Alignment explanation
Indices: 2649769--2649859 Score: 53
Period size: 8 Copynumber: 11.0 Consensus size: 8
2649759 AATTGATTAT
2649769 ATATAAAA
1 ATATAAAA
*
2649777 ATTTAATAA
1 ATATAA-AA
*
2649786 ATAAAAAA
1 ATATAAAA
2649794 ATATAAAA
1 ATATAAAA
*
2649802 ATGAT-TAA
1 AT-ATAAAA
*
2649810 ATATTAAA
1 ATATAAAA
*
2649818 TTATAAATA
1 ATATAAA-A
2649827 ATATAAATA
1 ATATAAA-A
*
2649836 ACTTTTAAAA
1 A--TATAAAA
2649846 ATA-AAAA
1 ATATAAAA
2649853 A-ATAAAA
1 ATATAAAA
2649860 GGTTGAGCTT
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
6 1 0.02
7 11 0.17
8 28 0.43
9 18 0.28
10 2 0.03
11 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
ATATAAAA
Found at i:2655521 original size:16 final size:16
Alignment explanation
Indices: 2655500--2655536 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2655490 TTCTAAAAAA
2655500 AACGCGTTCAGTTGGG
1 AACGCGTTCAGTTGGG
2655516 AACGCGTTCAGTTGGG
1 AACGCGTTCAGTTGGG
2655532 AACGC
1 AACGC
2655537 TATCCCTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (16 bp):
AACGCGTTCAGTTGGG
Found at i:2656154 original size:21 final size:19
Alignment explanation
Indices: 2656122--2656163 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
2656112 TCTGAATTGG
2656122 TTTTTTGAAATTT-TTATAA
1 TTTTTTGAAATTTATT-TAA
2656141 TTTTTTGAATAATTTATTTAA
1 TTTTTTG-A-AATTTATTTAA
2656162 TT
1 TT
2656164 AAATCAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 10 0.50
22 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTTTGAAATTTATTTAA
Found at i:2659577 original size:3 final size:3
Alignment explanation
Indices: 2659569--2659602 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2659559 GTAAAGTTAG
2659569 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
2659603 ACAGAGAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:2660465 original size:21 final size:21
Alignment explanation
Indices: 2660441--2660484 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2660431 AAACTTGAAC
*
2660441 TTAAACCCAA-TTAATTCGTAT
1 TTAAACCCAACCTAATTCG-AT
*
2660462 TTAAACTCAACCTAATTCGAT
1 TTAAACCCAACCTAATTCGAT
2660483 TT
1 TT
2660485 TACCATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (21 bp):
TTAAACCCAACCTAATTCGAT
Found at i:2660520 original size:19 final size:20
Alignment explanation
Indices: 2660492--2660534 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2660482 TTTTACCATA
*
2660492 AAAATCAACAATTTGAAC-C
1 AAAATCAACAACTTGAACTC
*
2660511 AAAATTAACAACTTGAACTC
1 AAAATCAACAACTTGAACTC
2660531 AAAA
1 AAAA
2660535 CGATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATCAACAACTTGAACTC
Found at i:2661728 original size:47 final size:47
Alignment explanation
Indices: 2661659--2661752 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
2661649 TGTTTGTTGC
2661659 ATAAGATTTAAGAAACAAAAAAAAATAACAGTTACCATCTGGGTCAA
1 ATAAGATTTAAGAAACAAAAAAAAATAACAGTTACCATCTGGGTCAA
2661706 ATAAGATTTAAGAAACAAAAAAAAATAACAGTTACCATCTGGGTCAA
1 ATAAGATTTAAGAAACAAAAAAAAATAACAGTTACCATCTGGGTCAA
2661753 GATTAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (47 bp):
ATAAGATTTAAGAAACAAAAAAAAATAACAGTTACCATCTGGGTCAA
Found at i:2663057 original size:7 final size:7
Alignment explanation
Indices: 2663045--2663094 Score: 100
Period size: 7 Copynumber: 7.1 Consensus size: 7
2663035 TATAATGCAT
2663045 GCAATGG
1 GCAATGG
2663052 GCAATGG
1 GCAATGG
2663059 GCAATGG
1 GCAATGG
2663066 GCAATGG
1 GCAATGG
2663073 GCAATGG
1 GCAATGG
2663080 GCAATGG
1 GCAATGG
2663087 GCAATGG
1 GCAATGG
2663094 G
1 G
2663095 TGTGTTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.44, T:0.14
Consensus pattern (7 bp):
GCAATGG
Found at i:2666157 original size:24 final size:23
Alignment explanation
Indices: 2666126--2666176 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
2666116 TTAATTTCAT
2666126 AATTAATAAA-ATATAATAAATAA
1 AATTAATAAATAT-TAATAAATAA
* *
2666149 AATTGAATAATTATTAATTAATAA
1 AATT-AATAAATATTAATAAATAA
2666173 AATT
1 AATT
2666177 TCATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.75
25 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AATTAATAAATATTAATAAATAA
Found at i:2672449 original size:29 final size:31
Alignment explanation
Indices: 2672401--2672462 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
2672391 ATTTTAATAG
*
2672401 TTAATATTTTTATATTTTTTAAAGGATTAAA
1 TTAATATTTTTATATATTTTAAAGGATTAAA
*
2672432 TTAA-ATTTTTAT-TATTTTTAAGGATTAAA
1 TTAATATTTTTATATATTTTAAAGGATTAAA
2672461 TT
1 TT
2672463 TTATAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
30 8 0.28
31 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
TTAATATTTTTATATATTTTAAAGGATTAAA
Found at i:2672751 original size:13 final size:13
Alignment explanation
Indices: 2672733--2672757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2672723 TTAAATAAAG
2672733 ATTAAATTAATTA
1 ATTAAATTAATTA
2672746 ATTAAATTAATT
1 ATTAAATTAATT
2672758 TCAATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATTAATTA
Found at i:2675488 original size:5 final size:5
Alignment explanation
Indices: 2675478--2675502 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2675468 AAAACTTATA
2675478 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
2675503 CTTTACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:2678099 original size:59 final size:58
Alignment explanation
Indices: 2678036--2678175 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 58
2678026 TTGGTACTTG
* * * * * *
2678036 AGTTTTGCTTCAATACTCAATTTAGTACTTAACATTTTTTTGTCCCATTTTAGTACCTA
1 AGTTTTGCTTCAATATTCAATTTAGTACCTAA-ATTTATTTGTCCCAATTAAATACCTA
* * * * * * *
2678095 AGTTTGGCTTCAATTTTCATTTTGGTACCTAAGTTTATTTGTCTCAATTAAATACTTA
1 AGTTTTGCTTCAATATTCAATTTAGTACCTAAATTTATTTGTCCCAATTAAATACCTA
*
2678153 AGTTTTGCTTCAATGTTCAATTT
1 AGTTTTGCTTCAATATTCAATTT
2678176 GATACTTGAG
Statistics
Matches: 65, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
58 39 0.60
59 26 0.40
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.49
Consensus pattern (58 bp):
AGTTTTGCTTCAATATTCAATTTAGTACCTAAATTTATTTGTCCCAATTAAATACCTA
Found at i:2681406 original size:30 final size:30
Alignment explanation
Indices: 2681352--2681408 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2681342 CCAAAAAATT
* *
2681352 AACAATAAAATAAAAATTATACAATATCCA
1 AACAATAAAACAAAAAGTATACAATATCCA
2681382 AACAATAAAACAAAACAGTA-ACAATAT
1 AACAATAAAACAAAA-AGTATACAATAT
2681409 AATAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (30 bp):
AACAATAAAACAAAAAGTATACAATATCCA
Found at i:2688334 original size:4 final size:4
Alignment explanation
Indices: 2688325--2688351 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2688315 AAATACCAGC
2688325 GAGG GAGG GAGG GAGG GAGG GAGG GAG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAG
2688352 AGAGAGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:2691694 original size:22 final size:22
Alignment explanation
Indices: 2691663--2691726 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
2691653 AAAAATGATA
* *
2691663 TTTTTGTACTGTTTTCTTGTTG
1 TTTTTCTACTGTTTTCTTATTG
*
2691685 TTTTTCTACTATTTTCTTATTG
1 TTTTTCTACTGTTTTCTTATTG
*
2691707 -TTTTCTCACTGTTTTGTTAT
1 TTTTTCT-ACTGTTTTCTTAT
2691727 CACTTCACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.09, C:0.12, G:0.11, T:0.67
Consensus pattern (22 bp):
TTTTTCTACTGTTTTCTTATTG
Found at i:2705272 original size:72 final size:73
Alignment explanation
Indices: 2705039--2705296 Score: 268
Period size: 72 Copynumber: 3.5 Consensus size: 73
2705029 CTGCCACATC
* * * * * *
2705039 CTTACCCATCTCTTTAGCATTTGAAGAATCTTCTATAAGCTTTGACATCAATTCAACG-TCCTCC
1 CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAGCTTTGATAACAATTCAATGTTCATCC
2705103 TCCATATT
66 TCCATATT
* * * * * * * * * * *
2705111 CATATCTATCTCGTTAGCACTTGGAGAATCTTCTGTAAACATTGATACCAATTCCATGCTCCACT
1 CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAGCTTTGATAACAATTCAATG-TTCA-T
2705176 CCTCCATATT
64 CCTCCATATT
* ** * * *
2705186 ATGCCCCATCTCTTTAGGAGTTGTAGAATCTTCTATAAGCTTTGGTAACAATTCAATGTTCAT-C
1 CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAGCTTTGATAACAATTCAATGTTCATCC
*
2705250 TCCATAGT
66 TCCATATT
2705258 CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAG
1 CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAG
2705297 ATCAGTGTTC
Statistics
Matches: 145, Mismatches: 38, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
72 87 0.60
73 1 0.01
74 4 0.03
75 53 0.37
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (73 bp):
CTTACCCATCTCTTTAGCACTTGTAGAATCTTCTATAAGCTTTGATAACAATTCAATGTTCATCC
TCCATATT
Found at i:2709275 original size:28 final size:26
Alignment explanation
Indices: 2709195--2709289 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 26
2709185 TGAATTTGAC
* *
2709195 ACCTAAACTTTTTTTGGGTCCAATTTGAT
1 ACCTAAA-TTTTTTT--GTTCAATTTGGT
* *
2709224 ACCTAAATTTGATTTTTTTTAATTTGGT
1 ACCTAAATTT--TTTTGTTCAATTTGGT
*
2709252 ACCTAAATTTTTTTAAGTTCAATTTAGT
1 ACCTAAATTTTTTT--GTTCAATTTGGT
2709280 ACCTAAATTT
1 ACCTAAATTT
2709290 ATTAAATGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.07
28 40 0.73
29 7 0.13
30 4 0.07
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (26 bp):
ACCTAAATTTTTTTGTTCAATTTGGT
Found at i:2710781 original size:55 final size:61
Alignment explanation
Indices: 2710700--2710863 Score: 192
Period size: 63 Copynumber: 2.7 Consensus size: 61
2710690 TTTGTTATTT
* * *
2710700 ATTTATTTATTTAT--TTATAATAATAAATAAATAATAAAACAAAAT-TAATATTATTTTAC
1 ATTTATTTATTTATAATAATAATAATAAATAAATAA-ATAACAAAATAAAATATTATTTTAC
* *
2710759 ATTTATTTATTTATATTCATAA-AATAATAAATAAATAAATAATAAAATAAAATATTATTTTAT
1 ATTTATTTATTTATA---ATAATAATAATAAATAAATAAATAACAAAATAAAATATTATTTTAC
*
2710822 ATTTATTTATGTTCATAAAAATAATAATAAATAAATAAATAA
1 ATTTATTTAT-TT-ATAATAATAATAATAAATAAATAAATAA
2710864 ATAAAAATAA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
59 14 0.16
62 11 0.12
63 58 0.64
64 4 0.04
65 3 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (61 bp):
ATTTATTTATTTATAATAATAATAATAAATAAATAAATAACAAAATAAAATATTATTTTAC
Found at i:2710795 original size:63 final size:61
Alignment explanation
Indices: 2710697--2710860 Score: 191
Period size: 59 Copynumber: 2.7 Consensus size: 61
2710687 TGGTTTGTTA
*
2710697 TTTATTTATTTATTTATTT-AT--AATAATAAATAAATAATAAAACAAAAT-TAATATTAT
1 TTTATTTATTTATTTATTTCATAAAATAATAAATAAATAATAAAACAAAATAAAATATTAT
* *
2710754 TTTACATTTATTTATTTATATTCATAAAATAATAAATAAATAA-ATAATAAAATAAAATATTAT
1 TTT--ATTTATTTATTTAT-TTCATAAAATAATAAATAAATAATAAAACAAAATAAAATATTAT
2710817 TTTA--TATTTATTTATGTTCATAAAAATAAT-AATAAATAAATAAA
1 TTTATTTATTTATTTAT-TTCAT-AAAATAATAAATAAAT-AATAAA
2710861 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
57 3 0.03
59 37 0.40
60 12 0.13
61 5 0.05
62 8 0.09
63 27 0.29
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (61 bp):
TTTATTTATTTATTTATTTCATAAAATAATAAATAAATAATAAAACAAAATAAAATATTAT
Found at i:2710883 original size:22 final size:22
Alignment explanation
Indices: 2710840--2710883 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2710830 ATGTTCATAA
* *
2710840 AAATAATAATAAATAAATAAAT
1 AAATAAAAATAAATAAAAAAAT
2710862 AAATAAAAAT-AATAAGAAAAAT
1 AAATAAAAATAAATAA-AAAAAT
2710884 GGAATTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATAAAAATAAATAAAAAAAT
Found at i:2722388 original size:22 final size:24
Alignment explanation
Indices: 2722360--2722410 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
2722350 AATCAGTTGA
2722360 CTTTTG-T-ATAAATGTCAACCCT
1 CTTTTGTTAATAAATGTCAACCCT
2722382 CTTTTGTTAAAATAAATGTCAACCCT
1 CTTTTGTT--AATAAATGTCAACCCT
2722408 CTT
1 CTT
2722411 ATTTAACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 1 0.04
26 18 0.72
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (24 bp):
CTTTTGTTAATAAATGTCAACCCT
Found at i:2724321 original size:23 final size:25
Alignment explanation
Indices: 2724275--2724321 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
2724265 AGATCTAGAT
*
2724275 AATATTATAAATTTTAAGTATTAAA
1 AATATTATAAATTTAAAGTATTAAA
*
2724300 AATATT-TAAA-TTAAATTATTAA
1 AATATTATAAATTTAAAGTATTAA
2724322 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 4 0.20
25 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AATATTATAAATTTAAAGTATTAAA
Found at i:2724688 original size:8 final size:9
Alignment explanation
Indices: 2724656--2724685 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
2724646 TATTTAGGTC
2724656 TTTTAAAAT
1 TTTTAAAAT
2724665 TTTTAAAAT
1 TTTTAAAAT
2724674 TTTTAAAAT
1 TTTTAAAAT
2724683 TTT
1 TTT
2724686 AAATTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:2725339 original size:2 final size:2
Alignment explanation
Indices: 2725332--2725414 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
2725322 TATCAACATC
2725332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2725374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2725415 ATCTTGTATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2733880 original size:59 final size:60
Alignment explanation
Indices: 2733790--2733902 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 60
2733780 GACAAAATTA
* * *
2733790 AATAGTTAGATGACCATTTTATAACTTTTCAT-AGTTGAGTGACCAAAAAAGAAATTTACT
1 AATAGTTAGATGACCATTTTATAACTCTTCATAAATAG-GTGACCAAAAAAGAAATTTACT
* *
2733850 AATAGTTA-TTGACCATTTTGTAACTCTTCATAAATAGGTGACCAAAAAAGAAA
1 AATAGTTAGATGACCATTTTATAACTCTTCATAAATAGGTGACCAAAAAAGAAA
2733903 AAAGACCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 36 0.77
60 11 0.23
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (60 bp):
AATAGTTAGATGACCATTTTATAACTCTTCATAAATAGGTGACCAAAAAAGAAATTTACT
Found at i:2734709 original size:16 final size:16
Alignment explanation
Indices: 2734690--2734725 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2734680 AATAGAGCTC
2734690 TAATAAAATAAAGTTG
1 TAATAAAATAAAGTTG
**
2734706 TAATGTAATAAAGTTG
1 TAATAAAATAAAGTTG
2734722 TAAT
1 TAAT
2734726 CACTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (16 bp):
TAATAAAATAAAGTTG
Found at i:2734961 original size:61 final size:61
Alignment explanation
Indices: 2734896--2735030 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 61
2734886 TTATTAAATA
* * *
2734896 TAATAGAATTATTATTAAAAATAATTTGATAAAAATGATAATAAATAATTTAATCAT-ATT-T
1 TAATATAATTATTATTAAAAATAATTTAAT-AAAATAATAATAAATAATTTAAT-ATCATTCT
* *
2734957 TAATATAATTATTATTAAATATAATTTAATAAAATAATAATATATAATTTAATATCATTCT
1 TAATATAATTATTATTAAAAATAATTTAATAAAATAATAATAAATAATTTAATATCATTCT
2735018 TAATATAATTATT
1 TAATATAATTATT
2735031 TTTATATTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
59 2 0.03
60 24 0.36
61 41 0.61
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (61 bp):
TAATATAATTATTATTAAAAATAATTTAATAAAATAATAATAAATAATTTAATATCATTCT
Found at i:2735682 original size:18 final size:19
Alignment explanation
Indices: 2735653--2735692 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
2735643 TTTCATAGTT
*
2735653 ATTTTATATATTTTTTAAA
1 ATTTTATATATTTTTAAAA
2735672 ATTTT-TATATTTTTAAAA
1 ATTTTATATATTTTTAAAA
2735690 ATT
1 ATT
2735693 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATATATTTTTAAAA
Found at i:2738167 original size:26 final size:26
Alignment explanation
Indices: 2738119--2738175 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2738109 AAAATAATGT
** *
2738119 TAAAAACTATATAATTTTTTTAATAAA
1 TAAAAACTATATAAAATTATTAA-AAA
*
2738146 TAAAAA-TATATAAAATTATTAAATA
1 TAAAAACTATATAAAATTATTAAAAA
2738171 TAAAA
1 TAAAA
2738176 TAAAATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 13 0.50
27 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TAAAAACTATATAAAATTATTAAAAA
Found at i:2745485 original size:20 final size:19
Alignment explanation
Indices: 2745456--2745493 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
2745446 GAATGAGACA
*
2745456 ATTTCTTATTTCTGATTTT
1 ATTTCTTATTTCTCATTTT
2745475 ATTTACTTATTTCTCATTT
1 ATTT-CTTATTTCTCATTT
2745494 AATAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTCTTATTTCTCATTTT
Found at i:2745621 original size:17 final size:17
Alignment explanation
Indices: 2745591--2745632 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
2745581 AAATGGTGTA
2745591 ATATAAATAAATATAAT
1 ATATAAATAAATATAAT
* * *
2745608 ATATATATATATATATT
1 ATATAAATAAATATAAT
2745625 ATATAAAT
1 ATATAAAT
2745633 TGTCTGATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAATAAATATAAT
Found at i:2748364 original size:31 final size:31
Alignment explanation
Indices: 2748316--2748376 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2748306 GTCCTTGAAC
* *
2748316 TTGATAAATGTTCTTATACTGGGGTTTAAAT
1 TTGATAAATGTTATTATACTGGGGCTTAAAT
* *
2748347 TTGATAATTGTTATTATATTGGGGCTTAAA
1 TTGATAAATGTTATTATACTGGGGCTTAAA
2748377 CTTTAGGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (31 bp):
TTGATAAATGTTATTATACTGGGGCTTAAAT
Found at i:2749965 original size:29 final size:29
Alignment explanation
Indices: 2749924--2749987 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
2749914 AAAAGATATG
2749924 AAAA-TACGATACTTGAACGAAGTATAAC
1 AAAAGTACGATACTTGAACGAAGTATAAC
2749952 AAAAGTACGATACTTGAACGAAGTATAAC
1 AAAAGTACGATACTTGAACGAAGTATAAC
2749981 AAAAGTA
1 AAAAGTA
2749988 AATTAATTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (29 bp):
AAAAGTACGATACTTGAACGAAGTATAAC
Found at i:2753315 original size:20 final size:20
Alignment explanation
Indices: 2753290--2753339 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2753280 TTTTATGATT
**
2753290 TATTAATATTTCTAAGGTTA
1 TATTAATATTTCTAACCTTA
* *
2753310 TATTAAAATTTTTAACCTTA
1 TATTAATATTTCTAACCTTA
*
2753330 TATCAATATT
1 TATTAATATT
2753340 AAAATCTCTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (20 bp):
TATTAATATTTCTAACCTTA
Found at i:2754816 original size:22 final size:21
Alignment explanation
Indices: 2754791--2754843 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2754781 TTGGACCAAC
2754791 ATATTATTTTTTTTAAATATTT
1 ATATTATTTTTTTT-AATATTT
*
2754813 ATATTATATTATTTTAATATTT
1 ATATTAT-TTTTTTTAATATTT
*
2754835 A-ATAATTTT
1 ATATTATTTT
2754844 ATATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 15 0.56
23 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATTTTTTTTAATATTT
Found at i:2754861 original size:28 final size:27
Alignment explanation
Indices: 2754806--2754889 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
2754796 ATTTTTTTTA
*
2754806 AATATTTATATTATATTATTTTAATATTT
1 AATATTT-TA-TATATTATTTTAATATTG
*
2754835 AATAATTTTATATATT-TTTTATTTATTG
1 AAT-ATTTTATATATTATTTTA-ATATTG
* *
2754863 AATATTTTATATAATCATCTTAATATT
1 AATATTTTATAT-ATTATTTTAATATT
2754890 ATTTTAATGT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 14 0.30
28 19 0.41
29 9 0.20
30 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (27 bp):
AATATTTTATATATTATTTTAATATTG
Found at i:2765504 original size:13 final size:13
Alignment explanation
Indices: 2765486--2765510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2765476 AATTTTTCAT
2765486 TTTATAAAAATTA
1 TTTATAAAAATTA
2765499 TTTATAAAAATT
1 TTTATAAAAATT
2765511 TACAAATAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTATAAAAATTA
Found at i:2777557 original size:4 final size:4
Alignment explanation
Indices: 2777548--2777583 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
2777538 ACGGGGAAAT
* *
2777548 TAGA TAGA TAGA TAGA TACA TAGA TAGA TACA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
2777584 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:2777565 original size:12 final size:12
Alignment explanation
Indices: 2777548--2777583 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
2777538 ACGGGGAAAT
*
2777548 TAGATAGATAGA
1 TAGATACATAGA
2777560 TAGATACATAGA
1 TAGATACATAGA
2777572 TAGATACATAGA
1 TAGATACATAGA
2777584 GAGAGAGAGA
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:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (12 bp):
TAGATACATAGA
Found at i:2780273 original size:7 final size:7
Alignment explanation
Indices: 2780261--2780294 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
2780251 GCATGGACGA
2780261 AATAGCG
1 AATAGCG
2780268 AATAGCG
1 AATAGCG
2780275 AATAGCG
1 AATAGCG
* *
2780282 AATGGAG
1 AATAGCG
2780289 AATAGC
1 AATAGC
2780295 AATGGATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (7 bp):
AATAGCG
Found at i:2780300 original size:13 final size:14
Alignment explanation
Indices: 2780261--2780300 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2780251 GCATGGACGA
* *
2780261 AATAGCGAATAGCG
1 AATAGCGAATGGAG
2780275 AATAGCGAATGGAG
1 AATAGCGAATGGAG
2780289 AATAGC-AATGGA
1 AATAGCGAATGGA
2780301 TTTGAGCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.15
Consensus pattern (14 bp):
AATAGCGAATGGAG
Found at i:2781204 original size:18 final size:17
Alignment explanation
Indices: 2781169--2781211 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
2781159 GACTTATATG
*
2781169 AAATAAAAAATCATTAA
1 AAATAAAAAATCAGTAA
*
2781186 AAATATAAAAATTAGTAA
1 AAATA-AAAAATCAGTAA
*
2781204 AAAGAAAA
1 AAATAAAA
2781212 TAAAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (17 bp):
AAATAAAAAATCAGTAA
Found at i:2785907 original size:29 final size:29
Alignment explanation
Indices: 2785873--2785941 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
2785863 AAAATTATTA
*
2785873 TTTTAGAAAT-TTTAGTTTTCTTTATATAT
1 TTTTAGAAATATTTAATTTT-TTTATATAT
*
2785902 TTTTAG-ATTATTTAATTTTTTTATATAT
1 TTTTAGAAATATTTAATTTTTTTATATAT
*
2785930 TTTTAAAAATAT
1 TTTTAGAAATAT
2785942 AAAATTTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTAGAAATATTTAATTTTTTTATATAT
Found at i:2785972 original size:19 final size:18
Alignment explanation
Indices: 2785939--2785995 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
2785929 TTTTTAAAAA
*
2785939 TATAAAATTTGGAATTTT
1 TATAAAATTTTGAATTTT
2785957 TATAAAGATTTTGAATTTT
1 TATAAA-ATTTTGAATTTT
*
2785976 GA-AAATTATTTTGAATTTT
1 TATAAA--ATTTTGAATTTT
2785995 T
1 T
2785996 TTTGTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 9 0.27
19 24 0.73
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
TATAAAATTTTGAATTTT
Found at i:2786839 original size:20 final size:20
Alignment explanation
Indices: 2786793--2786834 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2786783 ACTTTTATGC
*
2786793 TTTTGTTTTCTCTTTTCTCT
1 TTTTATTTTCTCTTTTCTCT
2786813 TTTTATTTTC-CTTTTC-CT
1 TTTTATTTTCTCTTTTCTCT
2786831 TTTT
1 TTTT
2786835 TTATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 6 0.29
20 9 0.43
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTATTTTCTCTTTTCTCT
Found at i:2789161 original size:2 final size:2
Alignment explanation
Indices: 2789156--2789197 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
2789146 CTATATAGAC
* **
2789156 AT AT AT GT AT AT GC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2789198 CTCTAGCTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2789564 original size:2 final size:2
Alignment explanation
Indices: 2789557--2789592 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2789547 CTGCAAATAC
2789557 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2789593 TTGCAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2789792 original size:14 final size:12
Alignment explanation
Indices: 2789761--2789785 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2789751 AAATACATAC
2789761 ATATATATGCAA
1 ATATATATGCAA
2789773 ATATATATGCAA
1 ATATATATGCAA
2789785 A
1 A
2789786 ATGATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
ATATATATGCAA
Found at i:2789895 original size:393 final size:385
Alignment explanation
Indices: 2789364--2790114 Score: 1277
Period size: 393 Copynumber: 1.9 Consensus size: 385
2789354 ACATCTTCAA
* **
2789364 ATACATATATATACATATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTGGTG
1 ATACATATATATACAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATG
*
2789429 CAAAACTTAAGGCAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTA
66 CAAAACTTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTA
2789494 AAAAGGGTTATCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCAAACCTGCAAATACAT
131 AAAAGGGTTATCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCAAACCTGCAAATACAT
* *
2789559 ATATATATATATATATATATATATATATATATATTTGCAAAATGATATTTAAGAAAAACCCAAAG
196 ATATATAT-T-TATATATATATACA-A-ATATATATGCAAAATGATATTTAAGAAAAACCCAAAG
* * *
2789624 AGCTGGTTAATTAATGTAAAACTTAAGACATATCACAAATATCACTTAATGATTAAGATGGAAGC
257 AGCTGG----TTAATGTAAAACTGAAGACAGATCACAAATATCACTTAATAATTAAGATGGAAGC
*
2789689 AAAGTATATCAAGTATCAATGGCTGCCATACAATGTGAGGCACATATTAAGGCCATACCTGCAAA
318 AAAGTATATCAAGTATCAATGGCTGCCATACAATGAGAGGCACATATTAAGGCCATACCTGCAAA
2789754 TAC
383 TAC
*
2789757 ATACATATATATGCAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATG
1 ATACATATATATACAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATG
2789822 CAAAACTTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTA
66 CAAAACTTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTA
*
2789887 AAAAGGGTTATCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACAT
131 AAAAGGGTTATCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCAAACCTGCAAATACAT
* * *
2789952 ATATATATTTATATATGTGTGCAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGCT
196 ATATATATTTATATATATATACAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGCT
*
2790017 GGTTAATGTAAAACTGAAGACAGATCACAAATATCACTTAATAATTAAGATGGAAGCAAGGTATA
261 GGTTAATGTAAAACTGAAGACAGATCACAAATATCACTTAATAATTAAGATGGAAGCAAAGTATA
*
2790082 TCAAGTATCAATGGCTGCCATGCAATGAGAGGC
326 TCAAGTATCAATGGCTGCCATACAATGAGAGGC
2790115 GCGCGCACAC
Statistics
Matches: 341, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
385 90 0.26
389 42 0.12
390 1 0.00
391 10 0.03
392 1 0.00
393 197 0.58
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (385 bp):
ATACATATATATACAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATG
CAAAACTTAAGACAGATCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTA
AAAAGGGTTATCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCAAACCTGCAAATACAT
ATATATATTTATATATATATACAAATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGCT
GGTTAATGTAAAACTGAAGACAGATCACAAATATCACTTAATAATTAAGATGGAAGCAAAGTATA
TCAAGTATCAATGGCTGCCATACAATGAGAGGCACATATTAAGGCCATACCTGCAAATAC
Found at i:2789981 original size:203 final size:201
Alignment explanation
Indices: 2789380--2790085 Score: 957
Period size: 203 Copynumber: 3.5 Consensus size: 201
2789370 ATATATACAT
** *
2789380 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTGGTGCAAAACTTAAGGCAGA
1 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGCAAAACTTAAGACAGA
*
2789445 TCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTAAAAAGGGTTATCAATG
66 TCACAAATATCACTTAATAATTAAGATGGAAGAAAGGTATATCAAAGTAAAAAGGGTTATCAATG
*
2789510 GCTGTCATGCAATGTGAGGTACATATTAAGGCCAAACCTGCAAATACATATATATATATATATAT
131 GCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACATATATATAT-T-TATAT
**
2789575 ATATATATATA
194 AT-T-TGCA-A
* * *
2789586 TATATATTTGCAAAATGATATTTAAGAAAAACCCAAAGAGCTGGTTAATTAATGTAAAACTTAAG
1 -ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGA---GG-TGATTAATGCAAAACTTAAG
* *
2789651 ACATATCACAAATATCACTTAATGATTAAGATGGAAGCAAA-GTATATC--------AA--G-TA
61 ACAGATCACAAATATCACTTAATAATTAAGATGGAAG-AAAGGTATATCAAAGTAAAAAGGGTTA
* * * *
2789704 TCAATGGCTGCCATACAATGTGAGGCACATATTAAGGCCATACCTGCAAATAC----ATACA--T
125 TCAATGGCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACATATATATATTT
2789763 ATATA--TGCAA
190 ATATATTTGCAA
2789773 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGCAAAACTTAAGACAGA
1 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGCAAAACTTAAGACAGA
*
2789838 TCACAAATATCACTTAATAATTAAGATGGCAGAAAGGTATATCAAAGTAAAAAGGGTTATCAATG
66 TCACAAATATCACTTAATAATTAAGATGGAAGAAAGGTATATCAAAGTAAAAAGGGTTATCAATG
2789903 GCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACATATATATATTTATATAT
131 GCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACATATATATATTTATATAT
2789968 GTGTGCAA
196 -T-TGCAA
* * * *
2789976 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGCTGGTTAATGTAAAACTGAAGACAGA
1 ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGCAAAACTTAAGACAGA
*
2790041 TCACAAATATCACTTAATAATTAAGATGGAAGCAAGGTATATCAA
66 TCACAAATATCACTTAATAATTAAGATGGAAGAAAGGTATATCAA
2790086 GTATCAATGG
Statistics
Matches: 440, Mismatches: 32, Indels: 58
0.83 0.06 0.11
Matches are distributed among these distances:
181 3 0.01
182 59 0.13
183 2 0.00
186 37 0.08
187 1 0.00
188 2 0.00
190 2 0.00
192 7 0.02
193 52 0.12
196 4 0.01
197 4 0.01
199 6 0.01
200 51 0.12
201 1 0.00
203 111 0.25
207 37 0.08
210 2 0.00
211 56 0.13
212 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (201 bp):
ATATATATGCAAAATGATATTTAAGAAAAACCCAAAGAGGTGATTAATGCAAAACTTAAGACAGA
TCACAAATATCACTTAATAATTAAGATGGAAGAAAGGTATATCAAAGTAAAAAGGGTTATCAATG
GCTGTCATGCAATGTGAGGTACATATTAAGGCCATACCTGCAAATACATATATATATTTATATAT
TTGCAA
Found at i:2791216 original size:29 final size:29
Alignment explanation
Indices: 2791182--2791239 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2791172 TTATAGGGAT
* *
2791182 TAGATCAAATTAATCTCTCTATTATTAAA
1 TAGATCAAATTAATCTCTATACTATTAAA
*
2791211 TAGATCAATTTAATCTCTATACTATTAAA
1 TAGATCAAATTAATCTCTATACTATTAAA
2791240 AATAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (29 bp):
TAGATCAAATTAATCTCTATACTATTAAA
Found at i:2792528 original size:23 final size:23
Alignment explanation
Indices: 2792500--2792543 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2792490 TAGATTTTTA
2792500 AAATTAAGGTTGATA-ATCAAGTT
1 AAATTAAGGTT-ATATATCAAGTT
*
2792523 AAATTAGGGTTATATATCAAG
1 AAATTAAGGTTATATATCAAG
2792544 AAAAGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (23 bp):
AAATTAAGGTTATATATCAAGTT
Found at i:2793197 original size:18 final size:18
Alignment explanation
Indices: 2793176--2793212 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2793166 ATCATTAAAG
2793176 TTTTTAAAACATTTATATT
1 TTTTTAAAA-ATTTATATT
*
2793195 TTTTTCAAAATTTATATT
1 TTTTTAAAAATTTATATT
2793213 AAGATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAAAATTTATATT
Found at i:2795272 original size:20 final size:20
Alignment explanation
Indices: 2795249--2795287 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2795239 AAAATATAAT
2795249 ATTTA-ATTAAAAAACTCCTA
1 ATTTATATTAAAAAA-TCCTA
*
2795269 ATTTATATTATAAAATCCT
1 ATTTATATTAAAAAATCCT
2795288 TTGATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTATATTAAAAAATCCTA
Found at i:2801650 original size:30 final size:34
Alignment explanation
Indices: 2801598--2801659 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 34
2801588 ATTATTTTAG
*
2801598 ATGAAAAATAAATATGACAA-TTTAATTTTTTTTT
1 ATGAAAAATAAATATGA-AATTTTAATGTTTTTTT
2801632 ATGAAAAAT-AA-ATG-AATTTTAATGTTTT
1 ATGAAAAATAAATATGAAATTTTAATGTTTT
2801660 AATTAGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
30 2 0.08
31 10 0.38
32 3 0.12
33 2 0.08
34 9 0.35
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (34 bp):
ATGAAAAATAAATATGAAATTTTAATGTTTTTTT
Found at i:2802209 original size:11 final size:11
Alignment explanation
Indices: 2802193--2802230 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
2802183 CTTAATCACT
2802193 TTAATATTAAA
1 TTAATATTAAA
2802204 TTAATATTAAA
1 TTAATATTAAA
*
2802215 -TATTATTAAA
1 TTAATATTAAA
2802225 TTAATA
1 TTAATA
2802231 GAATATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:2802301 original size:20 final size:18
Alignment explanation
Indices: 2802177--2802302 Score: 64
Period size: 20 Copynumber: 6.7 Consensus size: 18
2802167 TTCAACTCTA
2802177 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAAT-A-TTTAAT
*
2802198 ATTAAATTAATATTAAATATT
1 ATTAAATTAATATT---TAAT
*
2802219 ATTAAATTAATA--GAAT
1 ATTAAATTAATATTTAAT
* * * *
2802235 ATT-TATCTACAAAATAAAT
1 ATTAAAT-TA-ATATTTAAT
2802254 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
2802271 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
2802291 ATTAAATTAATA
1 ATTAAATTAATA
2802303 AAATATTATT
Statistics
Matches: 83, Mismatches: 9, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.02
16 7 0.08
17 15 0.18
18 4 0.05
19 12 0.14
20 22 0.27
21 21 0.25
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:2802315 original size:45 final size:46
Alignment explanation
Indices: 2802185--2802317 Score: 123
Period size: 45 Copynumber: 2.9 Consensus size: 46
2802175 TAATTAAACT
*
2802185 TAATCACTTTAATATTAAATTAATATTAAATATTATTAA-ATTAATA
1 TAATCACTTTAATATTAAATTAATA-TAAATATTATTAATATTAAGA
* * ** * *
2802231 GAAT-A-TTTATCTACAAAATAAATATTAAAT-TAAATTTAATATTAAGA
1 TAATCACTTTA-ATATTAAATTAATA-TAAATAT-TA-TTAATATTAAGA
2802278 TAATCACTTTAATATTAAATTAATA-AAATATTATTAATAT
1 TAATCACTTTAATATTAAATTAATATAAATATTATTAATAT
2802318 AATTATTAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
44 5 0.07
45 25 0.37
46 12 0.18
47 10 0.15
48 11 0.16
49 4 0.06
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (46 bp):
TAATCACTTTAATATTAAATTAATATAAATATTATTAATATTAAGA
Found at i:2806641 original size:29 final size:30
Alignment explanation
Indices: 2806588--2806646 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
2806578 GAACTGGATT
2806588 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
2806618 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
2806647 TTAAACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:2811175 original size:2 final size:2
Alignment explanation
Indices: 2811168--2811202 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2811158 TGTCTCTTCC
2811168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2811203 ACCTAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2811492 original size:4 final size:4
Alignment explanation
Indices: 2811485--2811512 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2811475 AACAAACACC
2811485 CCCT CCCT CCCT CCCT CCCT CCCT CCCT
1 CCCT CCCT CCCT CCCT CCCT CCCT CCCT
2811513 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (4 bp):
CCCT
Found at i:2812269 original size:25 final size:25
Alignment explanation
Indices: 2812236--2812290 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
2812226 GCACTTTAAA
*
2812236 AAATCAAATTATGTCAAATTAAAGT
1 AAATAAAATTATGTCAAATTAAAGT
2812261 AAATAAAATTATGTCAAATTAAAGT
1 AAATAAAATTATGTCAAATTAAAGT
2812286 AAATA
1 AAATA
2812291 GATCAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31
Consensus pattern (25 bp):
AAATAAAATTATGTCAAATTAAAGT
Found at i:2822249 original size:18 final size:19
Alignment explanation
Indices: 2822228--2822265 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2822218 AATATTCTAT
2822228 ATTAT-AAAAATAAAAATA
1 ATTATAAAAAATAAAAATA
2822246 ATTATAAAAAATAAAAATA
1 ATTATAAAAAATAAAAATA
2822265 A
1 A
2822266 ATTTGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTATAAAAAATAAAAATA
Found at i:2822898 original size:10 final size:10
Alignment explanation
Indices: 2822887--2822926 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
2822877 CAAAAATTTG
*
2822887 TTGTTGTTTG
1 TTGTTGTTTA
2822897 TTGTTGTTTA
1 TTGTTGTTTA
*
2822907 TTGCTGTTATA
1 TTGTTGTT-TA
2822918 TTGTTGTTT
1 TTGTTGTTT
2822927 TTCTACCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.07, C:0.03, G:0.23, T:0.68
Consensus pattern (10 bp):
TTGTTGTTTA
Found at i:2823474 original size:2 final size:2
Alignment explanation
Indices: 2823467--2823492 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2823457 TAATGTATTT
2823467 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2823493 ATTAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2824277 original size:3 final size:3
Alignment explanation
Indices: 2824269--2824339 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
2824259 AACAAAATGA
2824269 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2824317 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
2824340 ATGAATTAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2827222 original size:22 final size:21
Alignment explanation
Indices: 2827197--2827239 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2827187 TATTTCCTTC
2827197 AATTCTGTTTTCTTTTATTTTT
1 AATTCTG-TTTCTTTTATTTTT
*
2827219 AATTTTGTTTCTTTTATTTTT
1 AATTCTGTTTCTTTTATTTTT
2827240 TTCTCAGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (21 bp):
AATTCTGTTTCTTTTATTTTT
Found at i:2829662 original size:23 final size:23
Alignment explanation
Indices: 2829636--2829756 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
2829626 ACACTAGCGC
2829636 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
2829659 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
2829682 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
2829707 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
2829730 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
2829753 GCTC
1 GCTC
2829757 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:2829705 original size:48 final size:46
Alignment explanation
Indices: 2829636--2829756 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
2829626 ACACTAGCGC
* *
2829636 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
2829682 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
2829730 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
2829757 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:2829785 original size:39 final size:39
Alignment explanation
Indices: 2829721--2829795 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
2829711 TCCGATTAGC
*
2829721 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
2829760 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
2829796 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:2829790 original size:23 final size:23
Alignment explanation
Indices: 2829755--2829848 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
2829745 CTTTGTGTGC
*
2829755 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
2829778 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
2829801 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
*
2829826 TCAGTACTTTG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
2829848 T
1 T
2829849 TGTTCCGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 16 0.27
23 21 0.35
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:2836116 original size:23 final size:23
Alignment explanation
Indices: 2836090--2836210 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
2836080 ACACTAGCGC
2836090 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
2836113 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
2836136 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
2836161 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
2836184 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
2836207 GCTC
1 GCTC
2836211 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:2836159 original size:48 final size:46
Alignment explanation
Indices: 2836090--2836210 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
2836080 ACACTAGCGC
* *
2836090 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
2836136 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
2836184 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
2836211 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:2836239 original size:39 final size:39
Alignment explanation
Indices: 2836175--2836249 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
2836165 TCCGATTAGC
*
2836175 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
2836214 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
2836250 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:2836244 original size:23 final size:23
Alignment explanation
Indices: 2836209--2836302 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
2836199 CTTTGTGTGC
*
2836209 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
2836232 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
2836255 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
*
2836280 TCAGTACTTTG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
2836302 T
1 T
2836303 TGTTCCGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 16 0.27
23 21 0.35
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:2852300 original size:95 final size:95
Alignment explanation
Indices: 2852138--2852322 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
2852128 AAAATGATCA
* * * * *
2852138 AATCCAAAATGATCTAAATATGAGTGTTAATCTAAAATGTTAAATTTCAAAATGATCCAATCTGA
1 AATCCAAAATGATCTAAACATGAGTGTCAATCTAAAATGATAAATTTAAAAATGATCCAATCCGA
* *
2852203 AAAATTCACTTGTCAAA-CTCAAATACCTCG
66 AAAACTCAATTG-CAAAGCTCAAATACCTCG
*
2852233 AATCCAAAATGAT-TCAAACATGAGTGTCAATCTAAAATGATAAATTTAAAAATGATTCAA-CAC
1 AATCCAAAATGATCT-AAACATGAGTGTCAATCTAAAATGATAAATTTAAAAATGATCCAATC-C
*
2852296 GAAAACCTCAATTGCAAAGCTCAAATA
64 GAAAAACTCAATTGCAAAGCTCAAATA
2852323 ACGCTAACGA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
94 6 0.08
95 72 0.92
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.28
Consensus pattern (95 bp):
AATCCAAAATGATCTAAACATGAGTGTCAATCTAAAATGATAAATTTAAAAATGATCCAATCCGA
AAAACTCAATTGCAAAGCTCAAATACCTCG
Found at i:2853213 original size:19 final size:19
Alignment explanation
Indices: 2853172--2853231 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
2853162 TTCAAATTAA
* *
2853172 TTTTATTAATTTTGT-TTAC
1 TTTTATTAATTTT-TATGAT
2853191 TTTTATTAATTTTTATGATT
1 TTTTATTAATTTTTATGA-T
2853211 TTTTAATTAATTTTTACTGAT
1 TTTT-ATTAATTTTTA-TGAT
2853232 GATCAGATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 4 0.11
21 12 0.34
22 3 0.09
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTATTAATTTTTATGAT
Found at i:2853221 original size:21 final size:21
Alignment explanation
Indices: 2853191--2853231 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2853181 TTTTGTTTAC
2853191 TTTTATTAATTTTTA-TGATT
1 TTTTATTAATTTTTACTGATT
2853211 TTTTAATTAATTTTTACTGAT
1 TTTT-ATTAATTTTTACTGAT
2853232 GATCAGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTATTAATTTTTACTGATT
Found at i:2853224 original size:11 final size:10
Alignment explanation
Indices: 2853167--2853226 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
2853157 ACAGTTTCAA
2853167 ATTAA-TTTT
1 ATTAATTTTT
2853176 ATTAATTTTGT
1 ATTAATTTT-T
*
2853187 -TT-ACTTTT
1 ATTAATTTTT
2853195 ATTAATTTTT
1 ATTAATTTTT
* *
2853205 ATGATTTTTT
1 ATTAATTTTT
2853215 AATTAATTTTT
1 -ATTAATTTTT
2853226 A
1 A
2853227 CTGATGATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.03
9 11 0.28
10 19 0.47
11 9 0.22
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (10 bp):
ATTAATTTTT
Found at i:2856061 original size:18 final size:18
Alignment explanation
Indices: 2856022--2856063 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2856012 AATAAGTTTT
*
2856022 TAATTAAACAAATTTAAT
1 TAATTAAACAAATTTAAC
*
2856040 TAATTAAA-AATTTTAAAC
1 TAATTAAACAAATTT-AAC
2856058 TAATTA
1 TAATTA
2856064 CACATTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTAAACAAATTTAAC
Found at i:2860106 original size:203 final size:203
Alignment explanation
Indices: 2859757--2860165 Score: 809
Period size: 203 Copynumber: 2.0 Consensus size: 203
2859747 GATTTGGAGG
2859757 ATGCCCTGTTAGGGTTAGATAAGATGCCTTCAAATTTGACAGATGAAGAAAAGAAGCGTAAAGAT
1 ATGCCCTGTTAGGGTTAGATAAGATGCCTTCAAATTTGACAGATGAAGAAAAGAAGCGTAAAGAT
2859822 CGGAAGGCTTTGACGCAATTACAGCTGCATTTGTCGAATGAAATTCTACAAGATGTGTTAAAGGA
66 CGGAAGGCTTTGACGCAATTACAGCTGCATTTGTCGAATGAAATTCTACAAGATGTGTTAAAGGA
2859887 GAAGACTACTGTTGCATTATGGGCAAAATTACAGCAGTTATGTATGTCGAAAACCTTAACCAGTA
131 GAAGACTACTGTTGCATTATGGGCAAAATTACAGCAGTTATGTATGTCGAAAACCTTAACCAGTA
2859952 AATTGCAT
196 AATTGCAT
2859960 ATGCCCTGTTAGGGTTAGATAAGATGCCTTCAAATTTGACAGATGAAGAAAAGAAGCGTAAAGAT
1 ATGCCCTGTTAGGGTTAGATAAGATGCCTTCAAATTTGACAGATGAAGAAAAGAAGCGTAAAGAT
2860025 CGGAAGGCTTTGACGCAATTACAGCTGCATTTGTCGAATGAAATTCTACAAGATGTGTTAAAGGA
66 CGGAAGGCTTTGACGCAATTACAGCTGCATTTGTCGAATGAAATTCTACAAGATGTGTTAAAGGA
*
2860090 GAAGACTATTGTTGCATTATGGGCAAAATTACAGCAGTTATGTATGTCGAAAACCTTAACCAGTA
131 GAAGACTACTGTTGCATTATGGGCAAAATTACAGCAGTTATGTATGTCGAAAACCTTAACCAGTA
2860155 AATTGCAT
196 AATTGCAT
2860163 ATG
1 ATG
2860166 AAACAGGGTC
Statistics
Matches: 205, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 205 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (203 bp):
ATGCCCTGTTAGGGTTAGATAAGATGCCTTCAAATTTGACAGATGAAGAAAAGAAGCGTAAAGAT
CGGAAGGCTTTGACGCAATTACAGCTGCATTTGTCGAATGAAATTCTACAAGATGTGTTAAAGGA
GAAGACTACTGTTGCATTATGGGCAAAATTACAGCAGTTATGTATGTCGAAAACCTTAACCAGTA
AATTGCAT
Found at i:2861956 original size:20 final size:19
Alignment explanation
Indices: 2861905--2861958 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 19
2861895 ATAAGCATAT
2861905 AAATAGAATGCAAAAATGTA
1 AAATA-AATGCAAAAATGTA
2861925 AAATGCAAATGCATAATAAT-TA
1 AAAT--AAATGCA-AA-AATGTA
2861947 AAATAAATGCAA
1 AAATAAATGCAA
2861959 GTATTTAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.03
20 11 0.37
21 6 0.20
22 9 0.30
23 3 0.10
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.22
Consensus pattern (19 bp):
AAATAAATGCAAAAATGTA
Found at i:2862214 original size:57 final size:57
Alignment explanation
Indices: 2862043--2862411 Score: 337
Period size: 57 Copynumber: 6.4 Consensus size: 57
2862033 ATTTTGACTC
2862043 TCGAGGGGTAAAAAT-GTAATTTTGG-GAAAATTCGAGGTTAAAAATGGGATTTTA-AAAGGT
1 TCGA-GGGT-AAAATGGTAATTTTGGTG-AAA-TCG-GGTTAAAAATGGGATTTTAGAAA-GT
* * * * * *
2862103 TCGGGGGTAAAATGGTAGTTTTTAGTAAAAACAAGGTT--AAATGAGG-TTTT-GAAGAGT
1 TCGAGGGTAAAATGGTA-ATTTTGGTGAAATC-GGGTTAAAAATG-GGATTTTAGAA-AGT
** * * * *
2862160 TCGAGGGTAAAACAGTAATTTTGGTGAAATCGGG-TCAAAATAGGATTTTGGAAGATT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGGATTTTAGAA-AGT
*
2862217 TAG-GGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCG-GGTTAAAAATGGGATTTTAGAAAGT
* *
2862274 TCGGGGGTAAAATGGTAATTTTGATGAAATCAGGGTT-AAAATGGGATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATC-GGGTTAAAAATGGGATTTTAGAAAGT
* * *
2862331 TC-AGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAAATGGGATTTTGGAAAAT
1 TCGA-GGGTAAAATGGTAA-TTTTGGTGAAAT-CGGGTTAAAAATGGGATTTTAGAAAGT
**
2862390 TTAAGGGTAAAATGGTAATTTT
1 TCGAGGGTAAAATGGTAATTTT
2862412 TGGACAGTCC
Statistics
Matches: 258, Mismatches: 31, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
54 1 0.00
55 4 0.02
56 44 0.17
57 77 0.30
58 74 0.29
59 46 0.18
60 12 0.05
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGGATTTTAGAAAGT
Found at i:2862236 original size:29 final size:28
Alignment explanation
Indices: 2862204--2862411 Score: 126
Period size: 29 Copynumber: 7.2 Consensus size: 28
2862194 TCAAAATAGG
*
2862204 ATTTTGGAAGATTTAGGGGTAAAATGGTA
1 ATTTTGGAA-ATTCAGGGGTAAAATGGTA
* *
2862233 ATTTTGGTGAAA-TC-GAGGTTAAAAATGG-G
1 ATTTT-G-GAAATTCAG-GGGT-AAAATGGTA
* *
2862262 ATTTTAGAAAGTTCGGGGGTAAAATGGTA
1 ATTTTGGAAA-TTCAGGGGTAAAATGGTA
* *
2862291 ATTTTGATGAAA-TCAGGGTTAAAATGG-G
1 ATTTTG--GAAATTCAGGGGTAAAATGGTA
*
2862319 ATTTTAGAAAGTTCAGGGGTAAAATGGTA
1 ATTTTGGAAA-TTCAGGGGTAAAATGGTA
*
2862348 ATTTTTGGTGAAA-T-AGGGGTTAAAAATGG-G
1 A-TTTT-G-GAAATTCAGGGG-T-AAAATGGTA
* *
2862378 ATTTTGGAAAATTTAAGGGTAAAATGGTA
1 ATTTTGG-AAATTCAGGGGTAAAATGGTA
2862407 ATTTT
1 ATTTT
2862412 TGGACAGTCC
Statistics
Matches: 140, Mismatches: 17, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
26 4 0.03
27 5 0.04
28 38 0.27
29 54 0.39
30 21 0.15
31 14 0.10
32 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (28 bp):
ATTTTGGAAATTCAGGGGTAAAATGGTA
Found at i:2862283 original size:58 final size:58
Alignment explanation
Indices: 2862046--2862411 Score: 362
Period size: 58 Copynumber: 6.3 Consensus size: 58
2862036 TTGACTCTCG
2862046 AGGGGTAAAAAT-GTAATTTTGG-GAAAATTCGAGGTTAAAAATGGGATTTTA-AAAGGTTC
1 AGGGGT-AAAATGGTAATTTTGGTG-AAA-TCGAGGTTAAAAATGGGATTTTAGAAA-GTTC
* * * * * *
2862105 GGGGGTAAAATGGTAGTTTTTAGTAAAAACAAGGTT--AAATGAGG-TTTT-GAAGAGTTC
1 AGGGGTAAAATGGTA-ATTTTGGTGAAATCGAGGTTAAAAATG-GGATTTTAGAA-AGTTC
** * * * *
2862162 -GAGGGTAAAACAGTAATTTTGGTGAAATCG-GG-TCAAAATAGGATTTT-GGAAGATTT
1 AG-GGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAG-TTC
2862218 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTC
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTC
* *
2862276 GGGGGTAAAATGGTAATTTTGATGAAATC-AGGGTT-AAAATGGGATTTTAGAAAGTTC
1 AGGGGTAAAATGGTAATTTTGGTGAAATCGA-GGTTAAAAATGGGATTTTAGAAAGTTC
* * * * *
2862333 AGGGGTAAAATGGTAATTTTTGGTGAAATAGGGGTTAAAAATGGGATTTTGGAAAATTT
1 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTC
*
2862392 AAGGGTAAAATGGTAATTTT
1 AGGGGTAAAATGGTAATTTT
2862412 TGGACAGTCC
Statistics
Matches: 256, Mismatches: 32, Indels: 39
0.78 0.10 0.12
Matches are distributed among these distances:
54 1 0.00
55 6 0.02
56 49 0.19
57 67 0.26
58 73 0.29
59 52 0.20
60 8 0.03
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (58 bp):
AGGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTAGAAAGTTC
Found at i:2862415 original size:30 final size:28
Alignment explanation
Indices: 2862335--2862415 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 28
2862325 GAAAGTTCAG
* *
2862335 GGGTAAAATGGTAATTTTTGGTGAAATAG
1 GGGTAAAATGGTAATTTTTGG-AAAATAA
*
2862364 GGGTTAAAAATGG-GA-TTTTGGAAAATTTAA
1 GGG-T-AAAATGGTAATTTTTGGAAAA--TAA
2862394 GGGTAAAATGGTAATTTTTGGA
1 GGGTAAAATGGTAATTTTTGGA
2862416 CAGTCCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
28 10 0.24
29 11 0.26
30 14 0.33
31 7 0.17
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.35
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTTGGAAAATAA
Found at i:2863090 original size:11 final size:11
Alignment explanation
Indices: 2863074--2863103 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2863064 CCTACACGCG
*
2863074 CCGTCCGACCA
1 CCGTCCAACCA
2863085 CCGTCCAACCA
1 CCGTCCAACCA
2863096 CCGTCCAA
1 CCGTCCAA
2863104 GGTAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.53, G:0.13, T:0.10
Consensus pattern (11 bp):
CCGTCCAACCA
Found at i:2864287 original size:17 final size:15
Alignment explanation
Indices: 2864248--2864291 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
2864238 ATTTAATCTT
2864248 AAATTTAAATTTATA
1 AAATTTAAATTTATA
2864263 ATAGATTTAAATTGTATA
1 A-A-ATTTAAATT-TATA
2864281 CAAATTTAAAT
1 -AAATTTAAAT
2864292 CCAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 17 0.68
18 5 0.20
19 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (15 bp):
AAATTTAAATTTATA
Found at i:2875097 original size:17 final size:17
Alignment explanation
Indices: 2875075--2875108 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2875065 AATTTAGTTC
2875075 TATAAAC-ATTATAAATA
1 TATAAACTATTA-AAATA
2875092 TATAAACTATTAAAATA
1 TATAAACTATTAAAATA
2875109 GTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAACTATTAAAATA
Found at i:2877866 original size:60 final size:60
Alignment explanation
Indices: 2877799--2877924 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
2877789 TTAGTCATAA
* * *
2877799 AACTATGAAAAGTTACAACATAATCACTTAATTATTAGTAAATTTATTTTTTGGTCACCC
1 AACTATGAAAAGTTACAAAATAATCACCTAACTATTAGTAAATTTATTTTTTGGTCACCC
* * *
2877859 AACTATGAAAAGTTACAAAATGATCACCTAACTATTAGTAAATTTGTTTTTTGTTCACCC
1 AACTATGAAAAGTTACAAAATAATCACCTAACTATTAGTAAATTTATTTTTTGGTCACCC
2877919 AACTAT
1 AACTAT
2877925 CTTTGATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (60 bp):
AACTATGAAAAGTTACAAAATAATCACCTAACTATTAGTAAATTTATTTTTTGGTCACCC
Found at i:2878029 original size:29 final size:29
Alignment explanation
Indices: 2877987--2878044 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
2877977 CCAAAATTGA
*
2877987 ATAGTTAGATGATCAAAAAATAACTTTTC
1 ATAGTTAGATGATCAAAAAATAAATTTTC
* *
2878016 ATAGTTGGGTGATCAAAAAATAAATTTTC
1 ATAGTTAGATGATCAAAAAATAAATTTTC
2878045 TAATAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (29 bp):
ATAGTTAGATGATCAAAAAATAAATTTTC
Found at i:2882246 original size:14 final size:15
Alignment explanation
Indices: 2882227--2882255 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2882217 AATATATGTG
2882227 TTTTTATT-TTTTAT
1 TTTTTATTATTTTAT
2882241 TTTTTATTATTTTAT
1 TTTTTATTATTTTAT
2882256 AATCATCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTATTTTAT
Found at i:2884394 original size:19 final size:19
Alignment explanation
Indices: 2884370--2884408 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2884360 CTTTGTGCCG
*
2884370 TGTGTGTGTTTATTTTATT
1 TGTGTGTGTTAATTTTATT
2884389 TGTGTGTGTTAATTTTATT
1 TGTGTGTGTTAATTTTATT
2884408 T
1 T
2884409 TGATTGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.67
Consensus pattern (19 bp):
TGTGTGTGTTAATTTTATT
Found at i:2884505 original size:4 final size:4
Alignment explanation
Indices: 2884496--2884562 Score: 59
Period size: 4 Copynumber: 17.0 Consensus size: 4
2884486 AAATAACCGG
* *
2884496 GAAA GAAA GAAA GAAAA GAAA GAAA GAAA G-AA G-AA GAAG GAGAG GAAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA
* *
2884544 AAAA G-AA GAAA GAGA GAAA
1 GAAA GAAA GAAA GAAA GAAA
2884563 TGTAATGTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
3 9 0.17
4 36 0.68
5 8 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2884515 original size:13 final size:13
Alignment explanation
Indices: 2884497--2884524 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2884487 AATAACCGGG
2884497 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
2884510 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
2884523 AA
1 AA
2884525 GAAGAAGAAG
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:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:2884518 original size:17 final size:17
Alignment explanation
Indices: 2884496--2884562 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
2884486 AAATAACCGG
2884496 GAAAGAAAGAAAGAAAA
1 GAAAGAAAGAAAGAAAA
2884513 GAAAGAAAGAAAGAAGAA
1 GAAAGAAAGAAAGAA-AA
* *
2884531 GAAGGAGAGGAAA-AAAA
1 GAAAGA-AAGAAAGAAAA
*
2884548 G-AAGAAAGAGAGAAA
1 GAAAGAAAGAAAGAAA
2884563 TGTAATGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
15 4 0.10
16 6 0.14
17 18 0.43
18 9 0.21
19 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAAGAAAA
Found at i:2886607 original size:18 final size:18
Alignment explanation
Indices: 2886553--2886612 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
2886543 CAACAATTTT
2886553 AAAAATTATAAACTATTAA
1 AAAAATTATAAA-TATTAA
2886572 AAAAATTA-AAAT-TATAA
1 AAAAATTATAAATAT-TAA
**
2886589 AAAGTTTATAAATATTAA
1 AAAAATTATAAATATTAA
2886607 AAAAAT
1 AAAAAT
2886613 AGCATGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
18 14 0.41
19 9 0.26
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAATATTAA
Found at i:2887858 original size:20 final size:21
Alignment explanation
Indices: 2887819--2887858 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2887809 TTCACATGTA
* *
2887819 TTTTATATTATTTTTAATTTC
1 TTTTAAATTATTTATAATTTC
2887840 TTTTAAATT-TTTATAATTT
1 TTTTAAATTATTTATAATTT
2887859 TAAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTAAATTATTTATAATTTC
Found at i:2890766 original size:20 final size:20
Alignment explanation
Indices: 2890729--2890766 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2890719 ATTAGCCCTC
*
2890729 AATTAAATTAAAATTTAATT
1 AATTAAATTAAAAGTTAATT
2890749 AATTAAA-TAAATAGTTAA
1 AATTAAATTAAA-AGTTAA
2890767 AATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AATTAAATTAAAAGTTAATT
Found at i:2905865 original size:56 final size:56
Alignment explanation
Indices: 2905767--2905952 Score: 218
Period size: 56 Copynumber: 3.4 Consensus size: 56
2905757 TTAGGTCCCA
* * *
2905767 AAAATATTTTTTTGGGTGTTTGTCATCCAATGGCTTACACCACATTTCTCAGATTT
1 AAAATACTTTTTTGGGTGTTTGTCATCCAATGACTTACACCACCTTTCTCAGATTT
* * *
2905823 AAAAATA-TTTTTTGGGTGTTTGTCATCTAATGACTTATACCACCTTTCTCA-AATT
1 -AAAATACTTTTTTGGGTGTTTGTCATCCAATGACTTACACCACCTTTCTCAGATTT
** * * * *
2905878 AAAAT--TTTTTTTAGTGTTTGTAACCCAATGACCTACACCACCTTTTTCAGATTT
1 AAAATACTTTTTTGGGTGTTTGTCATCCAATGACTTACACCACCTTTCTCAGATTT
*
2905932 AAAATACTTTGTTGGGTGTTT
1 AAAATACTTTTTTGGGTGTTT
2905953 AGCAAGTAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
53 36 0.33
54 13 0.12
55 3 0.03
56 51 0.47
57 6 0.06
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (56 bp):
AAAATACTTTTTTGGGTGTTTGTCATCCAATGACTTACACCACCTTTCTCAGATTT
Found at i:2909725 original size:14 final size:14
Alignment explanation
Indices: 2909706--2909734 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2909696 ATGTATTCAC
2909706 AATGCATACATAAA
1 AATGCATACATAAA
2909720 AATGCATACATAAA
1 AATGCATACATAAA
2909734 A
1 A
2909735 GAAGACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AATGCATACATAAA
Found at i:2914298 original size:31 final size:31
Alignment explanation
Indices: 2914263--2914323 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
2914253 AGTCACTAAC
* *
2914263 TTAAAAAAAAACTTTCGAATAGTTTAATAAT
1 TTAAAAAAAAACTTTCGAATAATTCAATAAT
** *
2914294 TTAAATGAAAACTTTTGAATAATTCAATAA
1 TTAAAAAAAAACTTTCGAATAATTCAATAA
2914324 CTATTTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (31 bp):
TTAAAAAAAAACTTTCGAATAATTCAATAAT
Found at i:2928586 original size:7 final size:7
Alignment explanation
Indices: 2928574--2928605 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
2928564 TAATAATAAG
2928574 TTTAATC
1 TTTAATC
2928581 TTTAATC
1 TTTAATC
2928588 TTTAATC
1 TTTAATC
*
2928595 TTTAATA
1 TTTAATC
2928602 TTTA
1 TTTA
2928606 TAGTTTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTAATC
Found at i:2942718 original size:76 final size:76
Alignment explanation
Indices: 2942592--2942739 Score: 296
Period size: 76 Copynumber: 1.9 Consensus size: 76
2942582 ATGGACGAAA
2942592 GTCCATGTAACACTGGCCAATAACTTGCAACAAAAACATCAAAGCCTTCCCCATTGTATTTAAGA
1 GTCCATGTAACACTGGCCAATAACTTGCAACAAAAACATCAAAGCCTTCCCCATTGTATTTAAGA
2942657 CAGACATTTTC
66 CAGACATTTTC
2942668 GTCCATGTAACACTGGCCAATAACTTGCAACAAAAACATCAAAGCCTTCCCCATTGTATTTAAGA
1 GTCCATGTAACACTGGCCAATAACTTGCAACAAAAACATCAAAGCCTTCCCCATTGTATTTAAGA
2942733 CAGACAT
66 CAGACAT
2942740 GAGACATGTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (76 bp):
GTCCATGTAACACTGGCCAATAACTTGCAACAAAAACATCAAAGCCTTCCCCATTGTATTTAAGA
CAGACATTTTC
Found at i:2944264 original size:21 final size:23
Alignment explanation
Indices: 2944240--2944296 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 23
2944230 GCTAATGTCA
2944240 ATAAATAATTG-GAAATAAA-CC
1 ATAAATAATTGTGAAATAAATCC
2944261 ATAAATAATATGTTGAAATAAATCC
1 ATAAATAAT-TG-TGAAATAAATCC
2944286 ATGAAATAATT
1 AT-AAATAATT
2944297 TCTCCTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.29
22 2 0.06
24 8 0.26
25 5 0.16
26 7 0.23
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAAATAATTGTGAAATAAATCC
Found at i:2950838 original size:32 final size:32
Alignment explanation
Indices: 2950759--2950888 Score: 165
Period size: 30 Copynumber: 4.0 Consensus size: 32
2950749 AAAGAAAGAA
2950759 TAACAATCCATTAGATTAAATTCATT-AAAA-
1 TAACAATCCATTAGATTAAATTCATTAAAAAG
* *
2950789 TAATAATCCATTTGATTAAATTCATTAAAAAG
1 TAACAATCCATTAGATTAAATTCATTAAAAAG
2950821 TAACAATCCATTAGATTAAATTCATTTAAAAAAG
1 TAACAATCCATTAGATTAAATTCA-TT-AAAAAG
* *
2950855 AATAACAATCCATAAAGATTAAATTCGTTAAAAA
1 --TAACAATCCAT-TAGATTAAATTCATTAAAAA
2950889 ATCGCAAAGA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
30 24 0.28
31 4 0.05
32 22 0.25
33 2 0.02
34 6 0.07
35 5 0.06
36 13 0.15
37 11 0.13
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (32 bp):
TAACAATCCATTAGATTAAATTCATTAAAAAG
Found at i:2952897 original size:21 final size:20
Alignment explanation
Indices: 2952864--2952905 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2952854 CTAAAATATG
*
2952864 TATATAAGAAATTTAATTAT
1 TATATAAAAAATTTAATTAT
2952884 TATATTAAAAAATTTAATTAT
1 TATA-TAAAAAATTTAATTAT
2952905 T
1 T
2952906 TAAATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TATATAAAAAATTTAATTAT
Found at i:2955378 original size:14 final size:16
Alignment explanation
Indices: 2955356--2955397 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
2955346 ATTTAAGAAT
*
2955356 TTTAATTAATT-AA-A
1 TTTATTTAATTAAAGA
2955370 TTTATTTAATTAAAGA
1 TTTATTTAATTAAAGA
2955386 TTTATTTCAATT
1 TTTATTT-AATT
2955398 TGAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 2 0.08
16 8 0.33
17 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTATTTAATTAAAGA
Done.