Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 30 of 126
Found at i:6375554 original size:25 final size:25
Alignment explanation
Indices: 6375502--6375561 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
6375492 AATTTAGCTT
*
6375502 TTTTTTTAATTTTAAATATTTATGA
1 TTTTTTTAATTTTAAAAATTTATGA
*
6375527 TTTTTTTAATTTTAAAAAATTT-TTA
1 TTTTTTTAATTTT-AAAAATTTATGA
6375552 TTTTTATTAA
1 TTTTT-TTAA
6375562 AATCTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTTTAATTTTAAAAATTTATGA
Found at i:6375603 original size:19 final size:18
Alignment explanation
Indices: 6375542--6375625 Score: 73
Period size: 19 Copynumber: 4.6 Consensus size: 18
6375532 TTAATTTTAA
*
6375542 AAAATTTT-TATTTTTATT
1 AAAATTTTGAATTTTT-TT
*
6375560 AAAATCTT-AATTTTTTT
1 AAAATTTTGAATTTTTTT
**
6375577 AATTTTTTGAATTTTGTTT
1 AAAATTTTGAATTTT-TTT
* *
6375596 AAAATTTTGAGATTTTATG
1 AAAATTTTGA-ATTTTTTT
6375615 AAAATTTTGAA
1 AAAATTTTGAA
6375626 GCTTTCCTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
17 7 0.13
18 20 0.37
19 22 0.41
20 5 0.09
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (18 bp):
AAAATTTTGAATTTTTTT
Found at i:6375750 original size:29 final size:29
Alignment explanation
Indices: 6375718--6375775 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6375708 TTTTTGAGTT
6375718 TTTTTAAAGTTTTTGA-AATTCTTTTAGAA
1 TTTTTAAAGTTTTTGAGAATT-TTTTAGAA
* *
6375747 TTTTTAAATTTTTTTAGAATTTTTTAGAA
1 TTTTTAAAGTTTTTGAGAATTTTTTAGAA
6375776 ATCTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.59
Consensus pattern (29 bp):
TTTTTAAAGTTTTTGAGAATTTTTTAGAA
Found at i:6375770 original size:19 final size:20
Alignment explanation
Indices: 6375716--6375770 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
6375706 TTTTTTTGAG
6375716 TTTTTTTA-AAGTTTTTGAAA
1 TTTTTTTAGAA-TTTTTGAAA
*
6375736 TTCTTTTAGAATTTTT-AAA
1 TTTTTTTAGAATTTTTGAAA
6375755 TTTTTTTAGAATTTTT
1 TTTTTTTAGAATTTTT
6375771 TAGAAATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 18 0.56
20 12 0.38
21 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (20 bp):
TTTTTTTAGAATTTTTGAAA
Found at i:6375772 original size:10 final size:10
Alignment explanation
Indices: 6375638--6375775 Score: 67
Period size: 10 Copynumber: 13.9 Consensus size: 10
6375628 TTTCCTAATA
6375638 TTTTTAGAA-
1 TTTTTAGAAT
* *
6375647 ATTTTAAAAGT
1 TTTTTAGAA-T
6375658 TTTTT-GAATT
1 TTTTTAGAA-T
*
6375668 TTTTTTGAACT
1 TTTTTAGAA-T
* *
6375679 TGTTTCGAAT
1 TTTTTAGAAT
6375689 TTTTTA-AAT
1 TTTTTAGAAT
* *
6375698 ATTTTA-ACT
1 TTTTTAGAAT
* *
6375707 TTTTTTGAGTT
1 TTTTTAGA-AT
*
6375718 TTTTTA-AAG
1 TTTTTAGAAT
6375727 TTTTT-GAAAT
1 TTTTTAG-AAT
6375737 TCTTTTAGAA-
1 T-TTTTAGAAT
6375747 TTTTTA-AATT
1 TTTTTAGAA-T
6375757 TTTTTAGAAT
1 TTTTTAGAAT
6375767 TTTTTAGAA
1 TTTTTAGAA
6375776 ATCTTATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
8 2 0.02
9 31 0.32
10 35 0.36
11 29 0.30
12 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.59
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:6382937 original size:17 final size:18
Alignment explanation
Indices: 6382899--6382937 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6382889 TACAGATTTA
* *
6382899 TTATTAATTTTTTAAAAT
1 TTATGAATTTTTTAAAAG
6382917 TTATGAATTTTTT-AAAG
1 TTATGAATTTTTTAAAAG
6382934 TTAT
1 TTAT
6382938 TATTTATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATGAATTTTTTAAAAG
Found at i:6385151 original size:2 final size:2
Alignment explanation
Indices: 6385144--6385177 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6385134 TTTTGATGTC
* *
6385144 TA TA TA TA GA TA TA TA TA TC TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6385178 GGTTTTAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6385597 original size:29 final size:30
Alignment explanation
Indices: 6385536--6385597 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
6385526 AATGGGAATG
* * **
6385536 AAAGGGAAAAATGAAGAAAAATAGAAATCA
1 AAAGGAAAAAATAAAGAAAAATAGAAAAAA
*
6385566 AAAGGAAAAAATAAAGAAAAA-CGAAAAAA
1 AAAGGAAAAAATAAAGAAAAATAGAAAAAA
6385595 AAA
1 AAA
6385598 AAAATGATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (30 bp):
AAAGGAAAAAATAAAGAAAAATAGAAAAAA
Found at i:6391931 original size:16 final size:17
Alignment explanation
Indices: 6391910--6391942 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6391900 AAAATCTTAC
6391910 AAATTTAGT-AAAAAAT
1 AAATTTAGTGAAAAAAT
*
6391926 AAATTTTGTGAAAAAAT
1 AAATTTAGTGAAAAAAT
6391943 GGAACTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (17 bp):
AAATTTAGTGAAAAAAT
Found at i:6396904 original size:61 final size:61
Alignment explanation
Indices: 6396782--6396924 Score: 157
Period size: 61 Copynumber: 2.3 Consensus size: 61
6396772 TGCTTGCCCC
* *
6396782 TAATAATTTTTGGTCAATTATGGCAGAAAGGTATTTTCATAAGTATGGTATAAGAGATATTA
1 TAATAA-TTTTGATCAATTATGGCAGAAAGGTATTTTCATAAGTATGATATAAGAGATATTA
** ** *
6396844 TAATAATTTTGATCAATTATGTTAGAAAGAGTATTTTTGTAATTATGATAATAAG-G-TATTA
1 TAATAATTTTGATCAATTATGGCAGAAAG-GTATTTTCATAAGTATGAT-ATAAGAGATATTA
*
6396905 TAGTAATTTTGA-CAAATTAT
1 TAATAATTTTGATC-AATTAT
6396925 AGTATGAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
60 1 0.01
61 42 0.60
62 22 0.31
63 5 0.07
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.42
Consensus pattern (61 bp):
TAATAATTTTGATCAATTATGGCAGAAAGGTATTTTCATAAGTATGATATAAGAGATATTA
Found at i:6404853 original size:18 final size:19
Alignment explanation
Indices: 6404832--6404871 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6404822 AAAGATTTGC
6404832 GAAAAAAAAAAGGAA-AAA
1 GAAAAAAAAAAGGAACAAA
* *
6404850 GAAAAAATAAAGTAACAAA
1 GAAAAAAAAAAGGAACAAA
6404869 GAA
1 GAA
6404872 TTGAGGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (19 bp):
GAAAAAAAAAAGGAACAAA
Found at i:6405984 original size:14 final size:13
Alignment explanation
Indices: 6405947--6405973 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6405937 AATGATTAAA
6405947 TAAAAACTAAAAT
1 TAAAAACTAAAAT
6405960 TAAAAACTAAAAT
1 TAAAAACTAAAAT
6405973 T
1 T
6405974 GATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAACTAAAAT
Found at i:6406479 original size:22 final size:23
Alignment explanation
Indices: 6406441--6406486 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6406431 AAAATTTTTG
*
6406441 TAAAATTATTTTTAATAATAAAT
1 TAAAATTATATTTAATAATAAAT
*
6406464 TAAAATTA-ATTTAATAATTAAT
1 TAAAATTATATTTAATAATAAAT
6406486 T
1 T
6406487 CAATTTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATTATATTTAATAATAAAT
Found at i:6409821 original size:6 final size:7
Alignment explanation
Indices: 6409800--6409825 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6409790 AAATTTGTAT
6409800 AAATAAA
1 AAATAAA
6409807 AAATAAA
1 AAATAAA
6409814 AAATAAA
1 AAATAAA
6409821 AAATA
1 AAATA
6409826 TATTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:6411945 original size:20 final size:19
Alignment explanation
Indices: 6411894--6411952 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
6411884 AATATAGTGA
*
6411894 ATATCATATAATATAATTAAT
1 ATATCA-ATAATA-AAATAAT
* *
6411915 ATTTCATTAATAAAATAATT
1 ATATCAATAATAAAATAA-T
*
6411935 ATATCAATAATGAAATAA
1 ATATCAATAATAAAATAA
6411953 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATCAATAATAAAATAAT
Found at i:6412151 original size:16 final size:17
Alignment explanation
Indices: 6412127--6412160 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6412117 CTAATTTTAT
6412127 ATTCATCAAATTAATTC
1 ATTCATCAAATTAATTC
*
6412144 ATTC-TCAAATTGATTC
1 ATTCATCAAATTAATTC
6412160 A
1 A
6412161 AATTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (17 bp):
ATTCATCAAATTAATTC
Found at i:6415905 original size:21 final size:19
Alignment explanation
Indices: 6415866--6415906 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
6415856 TTAATTATTA
*
6415866 ATTATTTATTAACATAATT
1 ATTATTTATTAAAATAATT
6415885 ATTATTTACTATAAAATAATT
1 ATTATTTA-T-TAAAATAATT
6415906 A
1 A
6415907 AATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATTTATTAAAATAATT
Found at i:6415992 original size:14 final size:15
Alignment explanation
Indices: 6415973--6416008 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
6415963 TATATACAAA
6415973 TTTTAATTTAA-TAT
1 TTTTAATTTAATTAT
6415987 TTTTAA--TAATTAT
1 TTTTAATTTAATTAT
6416000 TTTTAATTT
1 TTTTAATTT
6416009 CTTTGGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 6 0.32
15 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTTAATTAT
Found at i:6416586 original size:17 final size:18
Alignment explanation
Indices: 6416566--6416609 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
6416556 TTCAGTACTT
6416566 ATTTAAATTCT-ATTATA
1 ATTTAAATTCTAATTATA
6416583 ATTTAAATT-TAATTATA
1 ATTTAAATTCTAATTATA
6416600 ATTTAAATTC
1 ATTTAAATTC
6416610 AATACTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAATTCTAATTATA
Found at i:6417203 original size:24 final size:24
Alignment explanation
Indices: 6417175--6417222 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6417165 TTAATATAAC
6417175 TATTAAAATAT-TAAAAATTATTTT
1 TATTAAAATATATAAAAATT-TTTT
*
6417199 TATTAAAATATATTAAAATTTTTT
1 TATTAAAATATATAAAAATTTTTT
6417223 ACCATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTAAAATATATAAAAATTTTTT
Found at i:6417229 original size:26 final size:25
Alignment explanation
Indices: 6417176--6417244 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
6417166 TAATATAACT
* *
6417176 ATTAAAATAT-TAAAAATTATTTTT
1 ATTAAAATATATTAAAATTATTTTC
6417200 ATTAAAATATATTAAAATT-TTTTACC
1 ATTAAAATATATTAAAATTATTTT--C
*
6417226 ATTAAAAT-TATTAATATTA
1 ATTAAAATATATTAAAATTA
6417245 AAAAAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 14 0.37
25 16 0.42
26 8 0.21
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTAAAATATATTAAAATTATTTTC
Found at i:6417293 original size:19 final size:18
Alignment explanation
Indices: 6417258--6417305 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
6417248 AAATTATATT
*
6417258 TTAATAATAATATTTAATA
1 TTAA-AATACTATTTAATA
6417277 TTAAAATACTATGTTAATA
1 TTAAAATACTAT-TTAATA
*
6417296 TAAAAATACT
1 TTAAAATACT
6417306 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAAATACTATTTAATA
Found at i:6417356 original size:23 final size:23
Alignment explanation
Indices: 6417330--6417471 Score: 79
Period size: 23 Copynumber: 6.3 Consensus size: 23
6417320 TTATTATTCT
6417330 TTATATTATTTATTAATATATTA
1 TTATATTATTTATTAATATATTA
* *
6417353 TTATAATATTTATTAAT-TA-AA
1 TTATATTATTTATTAATATATTA
* *
6417374 TTA-ATAATATT-TTATTATATTA
1 TTATATTAT-TTATTAATATATTA
* * *
6417396 TTTACTAATATAATATTATTAT-TTA
1 -TTA-TATTAT-TTATTAATATATTA
*
6417421 TTAATTTTATTTATTAATATA-TA
1 TT-ATATTATTTATTAATATATTA
*
6417444 TTAT-TTATATATATAAT-T-TTA
1 TTATATTATTTAT-TAATATATTA
6417465 TT-TATTA
1 TTATATTA
6417472 ATATAATATT
Statistics
Matches: 93, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
20 8 0.09
21 23 0.25
22 9 0.10
23 31 0.33
24 6 0.06
25 9 0.10
26 7 0.08
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATTATTTATTAATATATTA
Found at i:6417359 original size:13 final size:13
Alignment explanation
Indices: 6417331--6417489 Score: 57
Period size: 13 Copynumber: 12.0 Consensus size: 13
6417321 TATTATTCTT
6417331 TATATTATTTATTAA
1 TATATTA-TTA-TAA
6417346 TATATTATTATAA
1 TATATTATTATAA
*
6417359 TAT-TTATTA-AT
1 TATATTATTATAA
*
6417370 TAAATTA--ATAA
1 TATATTATTATAA
* *
6417381 TATTTTATTATAT
1 TATATTATTATAA
6417394 TAT-TTACTAATATAA
1 TATATTA-T--TATAA
6417409 TATTATTATTTATTAA
1 TA-TATTA-TTA-TAA
*
6417425 TTTTATTTATTA-ATA
1 -TATA-TTATTATA-A
6417440 TATATTATT-TATA
1 TATATTATTATA-A
* *
6417453 TATATAATT-TTA
1 TATATTATTATAA
* *
6417465 TTTATTAATATAA
1 TATATTATTATAA
*
6417478 TAT-TTTTTATAA
1 TATATTATTATAA
6417490 GGTAAATTAT
Statistics
Matches: 110, Mismatches: 19, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
10 1 0.01
11 9 0.08
12 26 0.24
13 34 0.31
14 7 0.06
15 16 0.15
16 9 0.08
17 8 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTATTATAA
Found at i:6417389 original size:5 final size:5
Alignment explanation
Indices: 6417330--6417481 Score: 60
Period size: 5 Copynumber: 31.4 Consensus size: 5
6417320 TTATTATTCT
* * *
6417330 TTATA TTAT- TTATTA ATATA TTATTA TAATA TT-TA TTA-A TTAAA TTA-A
1 TTATA TTATA TTA-TA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA
* * *
6417378 TAATA TTTTA TTATA TTAT- TTACTA --ATA TAATA TTATTA TT-TA TTA-A
1 TTATA TTATA TTATA TTATA TTA-TA TTATA TTATA TTA-TA TTATA TTATA
* *
6417425 TTTTA TT-TA TTA-A TATATA TTAT- TTATA TATATAA TTTTA TT-TA
1 TTATA TTATA TTATA T-TATA TTATA TTATA T-TAT-A TTATA TTATA
*
6417469 TTAATA TAATA TT
1 TT-ATA TTATA TT
6417482 TTTTATAAGG
Statistics
Matches: 113, Mismatches: 13, Indels: 42
0.67 0.08 0.25
Matches are distributed among these distances:
3 2 0.02
4 39 0.35
5 50 0.44
6 20 0.18
7 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:6417389 original size:35 final size:31
Alignment explanation
Indices: 6417343--6417489 Score: 122
Period size: 35 Copynumber: 4.5 Consensus size: 31
6417333 TATTATTTAT
*
6417343 TAATATATTATTATAATATTTATTAATTAAATTAA
1 TAATATTTTATTATAAT-TTTATTAATT-AA-T-A
* *
6417378 TAATATTTTATTAT-A--TTATTTACTAATA
1 TAATATTTTATTATAATTTTATTAATTAATA
*
6417406 TAATATTATTATTTATTAATTTTATTTATTAATA
1 TAATATT-TTA-TTA-TAATTTTATTAATTAATA
*
6417440 TATATTATTTATATATATAATTTTATTTATTAATA
1 TA-A-TATTT-TAT-TATAATTTTATTAATTAATA
6417475 TAATATTTT-TTATAA
1 TAATATTTTATTATAA
6417490 GGTAAATTAT
Statistics
Matches: 98, Mismatches: 4, Indels: 25
0.77 0.03 0.20
Matches are distributed among these distances:
28 8 0.08
29 4 0.04
30 10 0.10
31 9 0.09
32 2 0.02
33 5 0.05
34 16 0.16
35 36 0.37
36 8 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
TAATATTTTATTATAATTTTATTAATTAATA
Found at i:6417469 original size:22 final size:21
Alignment explanation
Indices: 6417444--6417484 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6417434 TTAATATATA
*
6417444 TTATTTATATATATAATTTTAT
1 TTATTAATATA-ATAATTTTAT
*
6417466 TTATTAATATAATATTTTT
1 TTATTAATATAATAATTTT
6417485 TATAAGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTAATATAATAATTTTAT
Found at i:6418195 original size:3 final size:3
Alignment explanation
Indices: 6418187--6418218 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6418177 TCAATCTACT
6418187 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6418219 TAGGTAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6418516 original size:18 final size:17
Alignment explanation
Indices: 6418477--6418537 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
6418467 GAATATCAAT
*
6418477 ATAATTATA-TTTAATTA
1 ATAATAATACTTTAA-TA
*
6418494 ATAATAATACTTTTATCA
1 ATAATAATACTTTAAT-A
*
6418512 ATAATGATAACTTTAATA
1 ATAATAAT-ACTTTAATA
6418530 ATAA-AATA
1 ATAATAATA
6418538 AAATTGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 17 0.47
19 7 0.19
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATAATACTTTAATA
Found at i:6419409 original size:14 final size:14
Alignment explanation
Indices: 6419390--6419416 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6419380 ATCATCGGAT
6419390 AAATATTTTACTTG
1 AAATATTTTACTTG
6419404 AAATATTTTACTT
1 AAATATTTTACTT
6419417 TATGAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATATTTTACTTG
Found at i:6427572 original size:2 final size:2
Alignment explanation
Indices: 6427565--6427599 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6427555 AGCTAAAACC
6427565 TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6427600 CATCAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6429305 original size:7 final size:7
Alignment explanation
Indices: 6429293--6429318 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6429283 GTTGAAGCAG
6429293 AAAATAC
1 AAAATAC
6429300 AAAATAC
1 AAAATAC
6429307 AAAATAC
1 AAAATAC
6429314 AAAAT
1 AAAAT
6429319 GGAGGCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAC
Found at i:6437210 original size:17 final size:17
Alignment explanation
Indices: 6437188--6437222 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6437178 TAAGCATGTT
6437188 ATTATTAATAA-AATAAA
1 ATTATTAA-AAGAATAAA
6437205 ATTATTAAAAGAATAAA
1 ATTATTAAAAGAATAAA
6437222 A
1 A
6437223 ATATATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATTATTAAAAGAATAAA
Found at i:6437319 original size:18 final size:16
Alignment explanation
Indices: 6437280--6437322 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6437270 TTATGTATGA
6437280 TTATTTTTAATATATT
1 TTATTTTTAATATATT
* *
6437296 TAATTTTTAATTTCAATT
1 TTATTTTTAATAT--ATT
6437314 TTATTTTTA
1 TTATTTTTA
6437323 TTAAAGTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTTTAATATATT
Found at i:6437641 original size:3 final size:3
Alignment explanation
Indices: 6437633--6437664 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6437623 GTATTACCTA
6437633 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6437665 ACTCATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6438181 original size:15 final size:15
Alignment explanation
Indices: 6438157--6438190 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6438147 ACTCCATTTG
6438157 TTTTGTAAAAAATGAT
1 TTTTGT-AAAAATGAT
6438173 TTTTG-AAAAATGAT
1 TTTTGTAAAAATGAT
6438187 TTTT
1 TTTT
6438191 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
16 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
TTTTGTAAAAATGAT
Found at i:6438189 original size:13 final size:14
Alignment explanation
Indices: 6438164--6438190 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6438154 TTGTTTTGTA
6438164 AAAAATGATTTTTG
1 AAAAATGATTTTTG
6438178 AAAAATGATTTTT
1 AAAAATGATTTTT
6438191 ATATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
AAAAATGATTTTTG
Found at i:6438461 original size:18 final size:18
Alignment explanation
Indices: 6438372--6438521 Score: 90
Period size: 18 Copynumber: 8.6 Consensus size: 18
6438362 AATTTACCTT
6438372 ATAAA-AATATTATATTA
1 ATAAATAATATTATATTA
*
6438389 ATAAATAAAATTATA-T-
1 ATAAATAATATTATATTA
6438405 AT--ATAATA-TATATTA
1 ATAAATAATATTATATTA
* *
6438420 ATAAA-AAAATTA-ATAA
1 ATAAATAATATTATATTA
6438436 AT-AATAATATTATATTA
1 ATAAATAATATTATATTA
* * *
6438453 GTAAATAATATAATA-AA
1 ATAAATAATATTATATTA
*
6438470 ATATTATTAAT-TTA-ATTA
1 ATA--AATAATATTATATTA
6438488 ATAAATATTATAATAATATATTA
1 ATAAATA--AT-AT--TATATTA
6438511 ATAAATAATAT
1 ATAAATAATAT
6438522 AAAGAATAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 35
0.67 0.09 0.23
Matches are distributed among these distances:
13 4 0.04
14 6 0.06
15 4 0.04
16 19 0.19
17 17 0.17
18 27 0.27
19 5 0.05
20 3 0.03
21 2 0.02
22 2 0.02
23 11 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:6438485 original size:64 final size:64
Alignment explanation
Indices: 6438372--6438536 Score: 153
Period size: 64 Copynumber: 2.6 Consensus size: 64
6438362 AATTTACCTT
* * *
6438372 ATAAAAATATTATATTAATAAATAAAATTATATATATAATATATATTAA-TAA-AAAAATTAATA
1 ATAATAATATTATATTAATAAATAAAATAATAAATATAATATATATTAATTAATAAAAATT-AT-
6438435 A
64 A
* * * *
6438436 ATAATAATATTATATTAGTAAATAATATAATAAA-ATATTAT-TAATTTAATTAATAAATATTAT
1 ATAATAATATTATATTAATAAATAAAATAATAAATATAATATAT-A-TTAATTAATAAAAATTAT
6438499 A
64 A
*
6438500 ATAAT-ATATTA-ATAAATAATATAAAGAATAATAAATA
1 ATAATAATATTATATTAATAA-AT-AA-AATAATAAATA
6438537 GTTTTATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
62 7 0.08
63 15 0.18
64 41 0.49
65 13 0.16
66 7 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (64 bp):
ATAATAATATTATATTAATAAATAAAATAATAAATATAATATATATTAATTAATAAAAATTATA
Found at i:6438524 original size:32 final size:35
Alignment explanation
Indices: 6438387--6438536 Score: 116
Period size: 35 Copynumber: 4.3 Consensus size: 35
6438377 AATATTATAT
6438387 TAATA-AATAAAATTATATATATAATATATATTAATAAA
1 TAATATAATAAAA-TAT-TA-ATAATATA-ATTAATAAA
* * * *
6438425 -AAAATTAAT-AAATAATAATATTAT-ATTAGTAAA
1 TAATA-TAATAAAATATTAATAATATAATTAATAAA
* *
6438458 TAATATAATAAAATATTATTAATTTAATTAATAAA
1 TAATATAATAAAATATTAATAATATAATTAATAAA
* *
6438493 TATTATAATAATATATTAATAA-ATAATATAA-AGAA
1 TAATATAATAAAATATTAATAATATAAT-TAATA-AA
6438528 TAATA-AATA
1 TAATATAATA
6438537 GTTTTATTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
33 12 0.13
34 23 0.26
35 42 0.47
36 2 0.02
37 5 0.06
38 3 0.03
39 3 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (35 bp):
TAATATAATAAAATATTAATAATATAATTAATAAA
Found at i:6438536 original size:23 final size:22
Alignment explanation
Indices: 6438482--6438536 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
6438472 ATTATTAATT
* *
6438482 TAATTAATAAATATTATAATAA
1 TAATTAATAAATAATATAAGAA
6438504 TATATTAATAAATAATATAAAGAA
1 TA-ATTAATAAATAATAT-AAGAA
*
6438528 TAATAAATA
1 TAATTAATA
6438537 GTTTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.07
23 20 0.71
24 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATTAATAAATAATATAAGAA
Found at i:6438596 original size:19 final size:19
Alignment explanation
Indices: 6438549--6438596 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
6438539 TTTATTTTTA
*
6438549 AGTATTTTTATATTAACAT
1 AGTATTTTAATATTAACAT
6438568 AGTATTTTAATATTAA-AT
1 AGTATTTTAATATTAACAT
*
6438586 ATTATTATTAA
1 AGTATT-TTAA
6438597 AATATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
AGTATTTTAATATTAACAT
Found at i:6438717 original size:18 final size:19
Alignment explanation
Indices: 6438694--6438729 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6438684 TATTAATATT
6438694 ATTTTT-AAAAAAAAACAG
1 ATTTTTCAAAAAAAAACAG
*
6438712 ATTTTTCAAAAAACAACA
1 ATTTTTCAAAAAAAAACA
6438730 AATAACGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (19 bp):
ATTTTTCAAAAAAAAACAG
Found at i:6439282 original size:23 final size:23
Alignment explanation
Indices: 6439256--6439304 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
6439246 ATAAGTATTG
6439256 AATTTAAATTATAATTA-AATTTA
1 AATTTAAATTATAA-TAGAATTTA
6439279 AATTTAAATTATAATAGAATTTA
1 AATTTAAATTATAATAGAATTTA
6439302 AAT
1 AAT
6439305 AAGTACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTTAAATTATAATAGAATTTA
Found at i:6439894 original size:14 final size:15
Alignment explanation
Indices: 6439862--6439897 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
6439852 TATACCAAAG
6439862 AAATTAAAAATAATT
1 AAATTAAAAATAATT
6439877 --ATTAAAAAT-ATT
1 AAATTAAAAATAATT
6439889 AAATTAAAA
1 AAATTAAAA
6439898 TTTGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAAAAATAATT
Found at i:6449906 original size:22 final size:22
Alignment explanation
Indices: 6449881--6449925 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
6449871 TATGTAACAA
6449881 AATTTTTTAATTT-ATCAATTTT
1 AATTTTTT-ATTTAATCAATTTT
*
6449903 AATTTTTTATTTAATCATTTTT
1 AATTTTTTATTTAATCAATTTT
6449925 A
1 A
6449926 TTAGAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
AATTTTTTATTTAATCAATTTT
Found at i:6451461 original size:18 final size:19
Alignment explanation
Indices: 6451425--6451464 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6451415 GAAACCTCAA
6451425 TTCTTTGTTACTTTATTTT
1 TTCTTTGTTACTTTATTTT
* *
6451444 TTCTTT-TTCCTTTTTTTT
1 TTCTTTGTTACTTTATTTT
6451462 TTC
1 TTC
6451465 GCAAATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (19 bp):
TTCTTTGTTACTTTATTTT
Found at i:6459512 original size:61 final size:62
Alignment explanation
Indices: 6459397--6459529 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 62
6459387 ATAATTTGTC
* * *
6459397 AAAATTACTATAATACCTTATTATCATAATTACAAAAATACTCTTTCTAACATAATTGAC-A
1 AAAATTATTATAATACCTTATTACCATAATTACAAAAATACTCCTTCTAACATAATTGACAA
* **
6459458 AAAATTATTATAATATCTCTTA-TACCATAATTATAAAAATAC-CCTTCTGTCATAATTGACAA
1 AAAATTATTATAATA-C-CTTATTACCATAATTACAAAAATACTCCTTCTAACATAATTGACAA
6459520 AAAATTATTA
1 AAAATTATTA
6459530 GGGGCGAGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
61 29 0.46
62 30 0.48
63 4 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (62 bp):
AAAATTATTATAATACCTTATTACCATAATTACAAAAATACTCCTTCTAACATAATTGACAA
Found at i:6464585 original size:16 final size:17
Alignment explanation
Indices: 6464555--6464587 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6464545 AACTAGTTCC
6464555 ATTTTTTCACAAAATTT
1 ATTTTTTCACAAAATTT
*
6464572 ATTTTTT-ACTAAATTT
1 ATTTTTTCACAAAATTT
6464588 GTAAGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTTTCACAAAATTT
Found at i:6469343 original size:18 final size:16
Alignment explanation
Indices: 6469304--6469350 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6469294 TTTTTTTGAA
*
6469304 TTTTTTTTGTTTTTGC
1 TTTTTTTTGTTTTTCC
6469320 TCTTTTTTTGTCTTTATCC
1 T-TTTTTTTGT-TTT-TCC
6469339 TTTTTTTT-TTTT
1 TTTTTTTTGTTTT
6469351 AATAAAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 10 0.37
18 10 0.37
19 3 0.11
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTTTGTTTTTCC
Found at i:6469344 original size:19 final size:17
Alignment explanation
Indices: 6469304--6469347 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
6469294 TTTTTTTGAA
*
6469304 TTTTTTTTGTTTTTGCT
1 TTTTTTTTGTTTTTCCT
*
6469321 CTTTTTTTGTCTTTATCCT
1 TTTTTTTTGT-TTT-TCCT
6469340 TTTTTTTT
1 TTTTTTTT
6469348 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTTTTTTGTTTTTCCT
Found at i:6469593 original size:16 final size:18
Alignment explanation
Indices: 6469573--6469613 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
6469563 TTATATAAAA
*
6469573 AATAATATTTTATA-AAT
1 AATAATATATTATACAAT
*
6469590 -ATAAAATATTATACAAT
1 AATAATATATTATACAAT
6469607 AATAATA
1 AATAATA
6469614 ACAAATTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.58
17 3 0.16
18 5 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATATATTATACAAT
Found at i:6470991 original size:3 final size:3
Alignment explanation
Indices: 6470983--6471020 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6470973 ATACCTTTTA
6470983 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6471021 CTACTGGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6475451 original size:11 final size:11
Alignment explanation
Indices: 6475435--6475475 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
6475425 ATACAATGAT
6475435 ATAATATAAAA
1 ATAATATAAAA
6475446 ATAATATAAAA
1 ATAATATAAAA
* *
6475457 AAAGATATGAAA
1 ATA-ATATAAAA
6475469 ATAATAT
1 ATAATAT
6475476 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:6487818 original size:1 final size:1
Alignment explanation
Indices: 6487812--6487837 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6487802 AAAGAGAAGT
6487812 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
6487838 GGGAGGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6488287 original size:43 final size:43
Alignment explanation
Indices: 6488234--6488324 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
6488224 AATAAATTTG
* *
6488234 AATTGATTTGATTTGATTATTTCAATTAACACATAAT-ATTTTA
1 AATTTATTTGATTTAATTATTTCAATTAACACAT-ATCATTTTA
* *
6488277 AATTTATTTGATTTAATTATTTCAATTAATACATATCATTTTT
1 AATTTATTTGATTTAATTATTTCAATTAACACATATCATTTTA
6488320 AATTT
1 AATTT
6488325 TTAAAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (43 bp):
AATTTATTTGATTTAATTATTTCAATTAACACATATCATTTTA
Found at i:6504197 original size:29 final size:29
Alignment explanation
Indices: 6504136--6504204 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
6504126 TTTAGTTAAT
* *
6504136 TATTATGATTTAAAATCTTATTTTCTAAAA
1 TATTAT-ATTTAAAATCTTATTTCCCAAAA
*
6504166 TATTATATTTATAAA-CTTATTTCCCAATA
1 TATTATATTTA-AAATCTTATTTCCCAAAA
*
6504195 TATAATATTT
1 TATTATATTT
6504205 TTTGCCATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTATATTTAAAATCTTATTTCCCAAAA
Found at i:6507614 original size:160 final size:162
Alignment explanation
Indices: 6507253--6508333 Score: 1164
Period size: 160 Copynumber: 6.7 Consensus size: 162
6507243 CTTATTCATG
* * * * *
6507253 CATATCAACTGT-AAAACCAAGTTTAATCATTCGGATAAATATAATATCATGTATTGAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * *
6507317 CAAACTGTTAAAACAAAACACTAATAGCAAAATTGTATTTTTATCTTTTAACGA-CACAAAAAGT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
** * *
6507381 -TCTAAACAGATGTAAACGGTAGCTTTTTTACA
131 CT-TAAACAGATGTAAACAATAACTTTTTCACA
* *
6507413 CATATCAA-TAGTGGATACCAAGTTCAATCATTC-GCACAAGTTTAATATCATGTATTGAAGCTA
1 CATATCAACT-GTGAAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTGAAGCTA
* * * * *
6507476 TCCAAACTGTTAAAATAGCACAATAGTAGCAAATTTGCA-TTTTACCTGTTAACGAG-ACAAAAT
64 TCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAA
* *
6507539 CTCTTAAATAGATGTAAACAATAACTTTTTCACA
129 ATCTTAAACAGATGTAAACAATAACTTTTTCACA
*
6507573 CATATCAACTATGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * * * *
6507638 TAAATTGTTAAAATAGAACAATAACATCAAATTTGTA-TTTTGCATTTTAACG-GCACAAAAAAT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
* * * * * * * *
6507701 CCTAAATAAACGTAAACAACAATTTTTTTATA
131 CTTAAACAGATGTAAACAATAACTTTTTCACA
* * * * * * *
6507733 CATATCAACTGTGGAAACAAAGTTCAATTATTCAAACAAATTTAATATCATGTGTTGAAGCTATT
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * * *
6507798 CAAACTGTTAAAATAAAATAATAATAGCAAATTTGTA-TTTTACCTTTTGACGA-CATAAAAAGT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
* * * *
6507861 TTTAAACAGAGGTAAACAACAACTTTTTCATA
131 CTTAAACAGATGTAAACAATAACTTTTTCACA
* *** * *
6507893 TATATCAACTGTGAAAATGTAGTTCAATCATTCAGATAAGTTTAATATCATGTATTGAAGCTATT
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * * **
6507958 CAAATTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTTCCTTTTAA-TAGCGTAAAAAAT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
* * * * *
6508022 CCTAAACAGATGTAAATAGTAGCTTTTTCTCA
131 CTTAAACAGATGTAAACAATAACTTTTTCACA
* * * **
6508054 TATATCAACTATGAAAATCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGCTATC
1 CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
* * ** * * *
6508119 CAAATTGTTAAAATAGCACAATAATAATAAATTTGCATTTTTGCCTTTTAACG-GCATAAAAAAT
66 CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
* ** * *
6508183 CTTAAATAGACATAAACGATAACTTATTCACA
131 CTTAAACAGATGTAAACAATAACTTTTTCACA
* * * *
6508215 CATATCAACTGT-AGAAACTAAGTTCAATCATTTAGACAAATTTAATATCACGTATTGAAGCTAT
1 CATATCAACTGTGA-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTAT
* * * *
6508279 TCAAACTGTTAAAATAGAATAATAATAGCAAATTTATATTTTTGCCTTTTAACGA
65 CCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGA
6508334 CATAATTTTT
Statistics
Matches: 771, Mismatches: 136, Indels: 26
0.83 0.15 0.03
Matches are distributed among these distances:
159 2 0.00
160 413 0.54
161 356 0.46
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (162 bp):
CATATCAACTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAGCTATC
CAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAACGAGCACAAAAAAT
CTTAAACAGATGTAAACAATAACTTTTTCACA
Found at i:6508453 original size:134 final size:133
Alignment explanation
Indices: 6508209--6508471 Score: 368
Period size: 134 Copynumber: 2.0 Consensus size: 133
6508199 CGATAACTTA
*
6508209 TTCACACATATCAACTGTAGAAACTAAGTTCAATCATTTAGACAAATTTAATATCACGTATTGAA
1 TTCACACATATCAACTGTAGAAAATAAGTTCAATCATTTAGACAAATTTAATATCACGTATTGAA
* * * *
6508274 GCTATTCAAACTGTTAAAATAGAATAATAATAGCAAATTTATATTTTTGCCTTTTAACGACATAA
66 GCTATCCAAACTGGTAAAACAGAACAATAATAGCAAATTTATATTTTT-CCTTTTAACGACATAA
6508339 TTTT
130 TTTT
* *
6508343 TTCACACATATCAACTGT-GAAAATCAAGTTCGATCATTT-GAACAAATTTAATATCATGTATTG
1 TTCACACATATCAACTGTAGAAAAT-AAGTTCAATCATTTAG-ACAAATTTAATATCACGTATTG
* * * * * *
6508406 AAGCTGTCCAAATTGGTAAAACAGAACAATAATAGTAAATTTGTATTTTTTCTTTTAATGACATA
64 AAGCTATCCAAACTGGTAAAACAGAACAATAATAGCAAATTTATATTTTTCCTTTTAACGACATA
6508471 A
129 A
6508472 AAACTCCTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
133 20 0.18
134 94 0.82
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (133 bp):
TTCACACATATCAACTGTAGAAAATAAGTTCAATCATTTAGACAAATTTAATATCACGTATTGAA
GCTATCCAAACTGGTAAAACAGAACAATAATAGCAAATTTATATTTTTCCTTTTAACGACATAAT
TTT
Found at i:6508710 original size:161 final size:161
Alignment explanation
Indices: 6508335--6509597 Score: 1236
Period size: 161 Copynumber: 7.9 Consensus size: 161
6508325 TTTTAACGAC
* * * * * *
6508335 ATAATTTTTTCACACATATCAACTGTGAAAATCAAGTTCGATCATT-TGAACAAATTTAATATCA
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCA
* * * * * *
6508399 TGTATTGAAGCTGTCCAAATTGGTAAAACAGAACAATAATAGTAAATTTGTATTTTT-TCTTTTA
65 TGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTA
* * *
6508463 ATGACATAAAAACTCCTAAACAAA-GATAAATA
130 ATGACACAAAAAGTCCTAAACAAATG-TAAACA
* * * * * * * * *
6508495 GTAATTTTTTCACATATATCAACTGT-AGAAACCAAGTTTAATAATTCGGACAAGTTTAAAATCG
1 ATAACTTTTTCACACATATCAATTGTGA-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCA
* * * * * * * * **
6508559 TGTATTGAAACTATCCAAATTGCTAAAACAAAACAATAATAGCAATTTTACATTTTCGCCTTTTA
65 TGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTA
**
6508624 ATGACACAAAAAGTCCTAAACAAATGTAAATG
130 ATGACACAAAAAGTCCTAAACAAATGTAAACA
* * * *
6508656 GTAACTTTTTCACACATATCAATTAT-AGAAATCAAGTACAATCATTCAGACAAGTTTAATATCA
1 ATAACTTTTTCACACATATCAATTGTGA-AAACCAAGTTCAATCATTCAGACAAGTTTAATATCA
* *** * * *
6508720 TGCATTGAAGCTATATGAATTGTTAAAATAGAACAATAATAGTAAATTTACATTTTTACCTTTCA
65 TGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTA
** * * * *
6508785 ACAACATAAAAAGTCTTAAACAGATGTAAACG
130 ATGACACAAAAAGTCCTAAACAAATGTAAACA
* * *
6508817 ATAACTTTTTCACACATATC---------AA-C-TGTTCAATCATTTAAACAAGTTTAATATCAT
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
* * * * * *
6508871 GCATTGAAGCTATTCAAACTGTTAAAACATAACAATAACAATAAATTTATATTTTTACCTTTTAA
66 GTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTAA
* *
6508936 TGACACAAAAATTCCTAAACAAAGGTAAACA
131 TGACACAAAAAGTCCTAAACAAATGTAAACA
* *
6508967 ACAACTTTTTCACACATATTAATTGTGAAAACCAAGTTCAATCATTC-GAACAAGTTTAATATCA
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCA
* * * * *
6509031 TGCATTAAAGTTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTA
65 TGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTA
* * * * *
6509096 A-CAGCACAAAAAATCTTAAACAGATGTAAACG
130 ATGA-CACAAAAAGTCCTAAACAAATGTAAACA
* **
6509128 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATAATTTGGACAAGTTTAATATCAT
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
* * *
6509193 GTATTGAAGCTATCCAAACTGTTAAAATAAAACAATAATAGCAAATTTATATTTTTGCCTTTTAA
66 GTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTAA
* ** * * **
6509258 CGGTAC-AAAAGTCCTAAATAGACATAAACA
131 TGACACAAAAAGTCCTAAACAAATGTAAACA
* * * *** ** * *
6509288 ATAATTTTTTCATACATATTAACCATGAAAACCAAGTTCAATC-TTTTGAATAAGTTTAATATTA
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAG-ACAAGTTTAATATCA
* * *
6509352 TGTATTGAAGCTATCCAAACTATTAAAATAGAACAACAATAGTAAATTTGTATTTTTACCTTTTA
65 TGTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTA
* * * * **
6509417 ACGGCATAAAAAGTCTTAAACAAACATAAACA
130 ATGACACAAAAAGTCCTAAACAAATGTAAACA
* * * *
6509449 ACAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATTATTAAAACAAGTTTAATATCAT
1 ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
* * * * * * *
6509514 GTATTGAAACTATCAAAATTGTTAAAATAGAGCAATAATTGTAAATTTACATTTTTGCCTTTTAA
66 GTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTAA
6509579 T-AGCACAAAAAGTCCTAAA
131 TGA-CACAAAAAGTCCTAAA
6509598 TGGACATAAA
Statistics
Matches: 917, Mismatches: 163, Indels: 45
0.82 0.14 0.04
Matches are distributed among these distances:
150 123 0.13
151 1 0.00
152 2 0.00
159 7 0.01
160 231 0.25
161 549 0.60
162 4 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (161 bp):
ATAACTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCAGACAAGTTTAATATCAT
GTATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTATATTTTTACCTTTTAA
TGACACAAAAAGTCCTAAACAAATGTAAACA
Found at i:6509541 original size:321 final size:320
Alignment explanation
Indices: 6508335--6509674 Score: 1403
Period size: 321 Copynumber: 4.2 Consensus size: 320
6508325 TTTTAACGAC
* * * * *
6508335 ATAATTTTTTCACACATATCAACTGTGAAAATCAAGTTCGATCATTTGAACAAATTTAATATCAT
1 ATAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCAT
* * * * * *
6508400 GTATTGAAGCTGTCCAAATTGGTAAAACAGAACAATAATAGTAAATTTGTATTTTT-TCTTTTAA
66 GCATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTGTATTTTTACCTTTTAA
** * * * * * * *
6508464 TGACATAAAAACTCCTAAACAAAGATAAATAGTAATTTTTTCACATATATCAACTGTAGAAACCA
131 CAACATAAAAAGTCTTAAACAAATATAAACAATAACTTTTTCACACATATCAACTGTA-AAACCA
* ** * * * *
6508529 AGTTTAATAATTCGGACAAGTTTAAAATCGTGTATTGAAACTATCCAAATTGCTAAAACAAAACA
195 AGTTCAATAATT-AAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAACAAAACA
* * ** **
6508594 ATAATAGCAATTTTACATTTTCGCCTTTTAATGACACAAAAAGTCCTAAACAAATGTAAATG
259 ATAATAGCAAATTTACATTTTTGCCTTTTAATGACACAAAAAGTCCTAAACAAACATAAACA
* * * * *
6508656 GTAACTTTTTCACACATATCAATTAT-AGAAATCAAGTACAATCA-TTCAGACAAGTTTAATATC
1 ATAACTTTTTCACACATATCAACTATGA-AAACCAAGTTCAATCATTTGA-ACAAGTTTAATATC
*** * ** *
6508719 ATGCATTGAAGCTATATGAATTGTTAAAATAGAACAATAATAGTAAATTTACATTTTTACCTTTC
64 ATGCATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTGTATTTTTACCTTTT
* * * *
6508784 AACAACATAAAAAGTCTTAAACAGATGTAAACGATAACTTTTTCACACATATCAACTGT----TC
129 AACAACATAAAAAGTCTTAAACAAATATAAACAATAACTTTTTCACACATATCAACTGTAAAACC
* * * *
6508845 AA--TC-AT--TTAAACAAGTTTAATATCATGCATTGAAGCTATTCAAACTGTTAAAACATAACA
194 AAGTTCAATAATTAAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAACAAAACA
* ** * * * **
6508905 ATAACAATAAATTTATATTTTTACCTTTTAATGACACAAAAATTCCTAAACAAAGGTAAACA
259 ATAATAGCAAATTTACATTTTTGCCTTTTAATGACACAAAAAGTCCTAAACAAACATAAACA
* * * * *
6508967 ACAACTTTTTCACACATATTAATTGTGAAAACCAAGTTCAATCATTCGAACAAGTTTAATATCAT
1 ATAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCAT
* * *
6509032 GCATTAAAGTTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTACCTTTTAA
66 GCATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTGTATTTTTACCTTTTAA
* * * * * * *
6509097 CAGCACAAAAAATCTTAAACAGATGTAAACGATAACTTTTTCACACATATCAATTGTGAAAACCA
131 CAACATAAAAAGTCTTAAACAAATATAAACAATAACTTTTTCACACATATCAACTGT-AAAACCA
** * *
6509162 AGTTCAATAATTTGGACAAGTTTAATATCATGTATTGAAGCTATCCAAACTGTTAAAATAAAACA
195 AGTTCAATAA-TTAAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAACAAAACA
* * ** * *
6509227 ATAATAGCAAATTTATATTTTTGCCTTTTAACGGTAC-AAAAGTCCTAAATAGACATAAACA
259 ATAATAGCAAATTTACATTTTTGCCTTTTAATGACACAAAAAGTCCTAAACAAACATAAACA
* * * * * * *
6509288 ATAATTTTTTCATACATATTAACCATGAAAACCAAGTTCAATCTTTTGAATAAGTTTAATATTAT
1 ATAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCAT
* * *
6509353 GTATTGAAGCTATCCAAACTATTAAAATAGAACAACAATAGTAAATTTGTATTTTTACCTTTTAA
66 GCATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTGTATTTTTACCTTTTAA
** * * *
6509418 CGGCATAAAAAGTCTTAAACAAACATAAACAACAACTTTTTCACACATATCAATTGTGAAAACCA
131 CAACATAAAAAGTCTTAAACAAATATAAACAATAACTTTTTCACACATATCAACTGT-AAAACCA
* * * * * *
6509483 AGTTCAATTATTAAAACAAGTTTAATATCATGTATTGAAACTATCAAAATTGTTAAAATAGAGCA
195 AGTTCAATAATT-AAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAACAAAACA
* * *** **
6509548 ATAATTGTAAATTTACATTTTTGCCTTTTAAT-AGCACAAAAAGTCCTAAATGGACATAAATT
259 ATAATAGCAAATTTACATTTTTGCCTTTTAATGA-CACAAAAAGTCCTAAACAAACATAAACA
** * * * * * *
6509610 GCAACTTTTTCAAACATAACAACAATGGAAACCAAGTTCAATCATTTGGATAAGTTTAATATCAT
1 ATAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCAT
6509675 AAACTTACTT
Statistics
Matches: 853, Mismatches: 147, Indels: 37
0.82 0.14 0.04
Matches are distributed among these distances:
311 253 0.30
312 5 0.01
314 2 0.00
315 1 0.00
316 3 0.00
317 3 0.00
318 2 0.00
319 2 0.00
320 6 0.01
321 372 0.44
322 204 0.24
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (320 bp):
ATAACTTTTTCACACATATCAACTATGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATCAT
GCATTGAAGCTATCCAAACTGTTAAAATAGAACAATAATAGTAAATTTGTATTTTTACCTTTTAA
CAACATAAAAAGTCTTAAACAAATATAAACAATAACTTTTTCACACATATCAACTGTAAAACCAA
GTTCAATAATTAAACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTTAAAACAAAACAAT
AATAGCAAATTTACATTTTTGCCTTTTAATGACACAAAAAGTCCTAAACAAACATAAACA
Found at i:6514187 original size:248 final size:249
Alignment explanation
Indices: 6513711--6514209 Score: 876
Period size: 248 Copynumber: 2.0 Consensus size: 249
6513701 CATTGAAATC
*
6513711 TTGGTATTAATGAAAAATGCCGTAAACCTTTATAGGCTTCTTTTTTACATAGACTTCATCATCAT
1 TTGGTATTAAAGAAAAATGCCGTAAACCTTTATAGGCTTCTTTTTTACATAGACTTCATCATCAT
* * *
6513776 CTTCATTTAACATTTCATCAGGATTTGTGTCCAACCAACTAGAATAACTACACACATGATAAGAT
66 CCTCATTCAACATTTCATCAGGATTTGTGTCCAACCAACTAGAATAACTACACACATGACAAGAT
* * *
6513841 TCTTGATTTTTTTATCACCCTAATACAACATGCAATTATTAGTATAATTATGAATTTTGTTATAT
131 TCTTGATTTTTTTATCACCCTAATACAACATGCAATTATTAGGACAATTATGAATTTTCTTATAT
6513906 CCAAGACCCAAATCCTTGATCATCTTCTTTGAATCCTTACAAGATTAAGAGATT
196 CCAAGACCCAAATCCTTGATCATCTTCTTTGAATCCTTACAAGATTAAGAGATT
*
6513960 TTGGTATTAAAGAAAAATGTCGTAAACCTTTATAGGCTTCTTTTTTACATAGACTTCATCATCAT
1 TTGGTATTAAAGAAAAATGCCGTAAACCTTTATAGGCTTCTTTTTTACATAGACTTCATCATCAT
* *
6514025 CCTCATTCAACCTTTTATCAGGATTTGTGTCCAACCAA-TGAGAATAACTACACA-ATGACAAGA
66 CCTCATTCAACATTTCATCAGGATTTGTGTCCAACCAACT-AGAATAACTACACACATGACAAGA
6514088 TTCTTGATTTTTTTATCACCCTAATACAACATGCAATTATTAGGACAATTATGAATTTTCTTATA
130 TTCTTGATTTTTTTATCACCCTAATACAACATGCAATTATTAGGACAATTATGAATTTTCTTATA
*
6514153 TCCAAGACCCAAATCCTTGATCATCTTCTTTGAATCTTTACAAGATTAAGAGATT
195 TCCAAGACCCAAATCCTTGATCATCTTCTTTGAATCCTTACAAGATTAAGAGATT
6514208 TT
1 TT
6514210 TGAAAAAAAA
Statistics
Matches: 238, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
248 127 0.53
249 111 0.47
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (249 bp):
TTGGTATTAAAGAAAAATGCCGTAAACCTTTATAGGCTTCTTTTTTACATAGACTTCATCATCAT
CCTCATTCAACATTTCATCAGGATTTGTGTCCAACCAACTAGAATAACTACACACATGACAAGAT
TCTTGATTTTTTTATCACCCTAATACAACATGCAATTATTAGGACAATTATGAATTTTCTTATAT
CCAAGACCCAAATCCTTGATCATCTTCTTTGAATCCTTACAAGATTAAGAGATT
Found at i:6520126 original size:11 final size:12
Alignment explanation
Indices: 6520110--6520150 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
6520100 ATATTTCTTT
6520110 TAAAATATGT-A
1 TAAAATATGTAA
6520121 TAAAATATGTAA
1 TAAAATATGTAA
**
6520133 TAAAA-ACATAA
1 TAAAATATGTAA
6520144 TAAAATA
1 TAAAATA
6520151 AAAGTGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (12 bp):
TAAAATATGTAA
Found at i:6529490 original size:18 final size:18
Alignment explanation
Indices: 6529464--6529499 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6529454 AATTTTGTTC
6529464 ATACAATCAAAATCATCA
1 ATACAATCAAAATCATCA
* *
6529482 ATACCATCAAGATCATCA
1 ATACAATCAAAATCATCA
6529500 GAGCAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (18 bp):
ATACAATCAAAATCATCA
Found at i:6529859 original size:27 final size:27
Alignment explanation
Indices: 6529823--6529874 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6529813 AGGAAGGATC
6529823 ATTGAGGAGGAGGTA-GAGAATGAGGAG
1 ATTGAGGAGGAGG-AGGAGAATGAGGAG
* *
6529850 ATTGATGAGGATGAGGAGAATGAGG
1 ATTGAGGAGGAGGAGGAGAATGAGG
6529875 GAAATGCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.37, C:0.00, G:0.46, T:0.17
Consensus pattern (27 bp):
ATTGAGGAGGAGGAGGAGAATGAGGAG
Found at i:6534682 original size:34 final size:34
Alignment explanation
Indices: 6534639--6534704 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
6534629 GTATGATTAG
6534639 AGAAGGGTAAAGCTGTTACAACATGTGCGGTTAC
1 AGAAGGGTAAAGCTGTTACAACATGTGCGGTTAC
6534673 AGAAGGGTAAAGCTGTTACAACATGTGCGGTT
1 AGAAGGGTAAAGCTGTTACAACATGTGCGGTT
6534705 CTTCATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (34 bp):
AGAAGGGTAAAGCTGTTACAACATGTGCGGTTAC
Found at i:6535067 original size:22 final size:22
Alignment explanation
Indices: 6535042--6535085 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6535032 ATTTTTTGTC
*
6535042 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
*
6535064 CTTAATTCTAGATATACAAATA
1 CTTAATTCTAGAGATACAAATA
6535086 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:6536424 original size:3 final size:3
Alignment explanation
Indices: 6536416--6536443 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6536406 CCTTTCAGTG
6536416 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6536444 CTCATTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6539614 original size:32 final size:31
Alignment explanation
Indices: 6539552--6539632 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
6539542 ATGCGATGTA
* *
6539552 TAAATTTTAAA-AA-TATTTAATATGAAATT
1 TAAATTATAAATAATTAATTAATATGAAATT
*
6539581 TAAATTATAAATATATTAATTAATATGATATT
1 TAAATTATAAATA-ATTAATTAATATGAAATT
* * *
6539613 TAATTTTTAAGTAATTAATT
1 TAAATTATAAATAATTAATT
6539633 TTAAATGATG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 10 0.23
30 1 0.02
31 8 0.19
32 24 0.56
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (31 bp):
TAAATTATAAATAATTAATTAATATGAAATT
Found at i:6539615 original size:16 final size:16
Alignment explanation
Indices: 6539568--6539617 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6539558 TTAAAAATAT
*
6539568 TTAATATGAAATTTAAA
1 TTAATATGATATTT-AA
*
6539585 TT-ATA-AATATATTAA
1 TTAATATGATAT-TTAA
6539600 TTAATATGATATTTAA
1 TTAATATGATATTTAA
6539616 TT
1 TT
6539618 TTTAAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
15 7 0.26
16 14 0.52
17 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
TTAATATGATATTTAA
Found at i:6539689 original size:29 final size:30
Alignment explanation
Indices: 6539631--6539685 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 30
6539621 AAGTAATTAA
*
6539631 TTTTAAATGATGATATATAATGAATAATTT
1 TTTTAAATGATCATATATAATGAATAATTT
*
6539661 TTTTAAAT-ATCATAT-TAATTAATAA
1 TTTTAAATGATCATATATAATGAATAA
6539686 ATTTATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 9 0.39
29 6 0.26
30 8 0.35
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (30 bp):
TTTTAAATGATCATATATAATGAATAATTT
Found at i:6539694 original size:27 final size:27
Alignment explanation
Indices: 6539619--6539721 Score: 68
Period size: 28 Copynumber: 3.7 Consensus size: 27
6539609 TATTTAATTT
* * *
6539619 TTAAGTAATTAATTTTAAATGATGATA
1 TTAATTAATAAATTTTAAATGATCATA
* *
6539646 TATAATGAATAATTTTTTTAAAT-ATCATA
1 T-TAATTAATAA--ATTTTAAATGATCATA
* *
6539675 TTAATTAATAAATTTATAAATTA-AATA
1 TTAATTAATAAATTT-TAAATGATCATA
6539702 TTATATTAA-AAATGTTTAAA
1 TTA-ATTAATAAAT-TTTAAA
6539722 ATTCAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
26 3 0.05
27 20 0.33
28 24 0.39
29 6 0.10
30 8 0.13
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.46
Consensus pattern (27 bp):
TTAATTAATAAATTTTAAATGATCATA
Found at i:6548262 original size:27 final size:27
Alignment explanation
Indices: 6548223--6548276 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6548213 ATAAGTAAAA
* ** *
6548223 TTTAATAATTTTTGGTATAATTTTGAT
1 TTTAATAACTTTTAATAAAATTTTGAT
*
6548250 TTTAATCACTTTTAATAAAATTTTGAT
1 TTTAATAACTTTTAATAAAATTTTGAT
6548277 AATTGTAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTAATAACTTTTAATAAAATTTTGAT
Found at i:6548309 original size:21 final size:20
Alignment explanation
Indices: 6548268--6548341 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
6548258 CTTTTAATAA
* *
6548268 AATTTTGATAATTGTAAATAT
1 AATTTTGATAATTAT-GATAT
6548289 AATTTTGATAACTTATGATAT
1 AATTTTGATAA-TTATGATAT
* * *
6548310 AATTTTGACAAATATTGATGT
1 AATTTTGATAATTA-TGATAT
6548331 AATTTTGATAA
1 AATTTTGATAA
6548342 AATTAATAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.04
21 40 0.89
22 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (20 bp):
AATTTTGATAATTATGATAT
Found at i:6550442 original size:115 final size:113
Alignment explanation
Indices: 6550308--6550513 Score: 299
Period size: 115 Copynumber: 1.8 Consensus size: 113
6550298 AAAATATAGT
* * *
6550308 TTTTATTGAAAATATAAAAAATATATTTTTTCAAAATTTAATAAAAATGATATTTTT-AAAATAT
1 TTTTATTGAAAATATAAAAAAAATATTTTTT-AAAATTCAATAAAAATGACATTTTTGAAAATA-
*
6550372 AAAAA-GTAATCTTTGTTGAAAAGATGACGTTTTTAAGACAAAAGTGTAA
64 AAAAATATAATCTTTGTTGAAAAGATGACGTTTTTAAGACAAAAGTGTAA
*
6550421 TTTTAGTTGAAAATATGAAAAAAAATATTTTTTAAAATTCAATAAAAATGACGTTTTTGAAAATA
1 TTTTA-TTGAAAATAT-AAAAAAAATATTTTTTAAAATTCAATAAAAATGACATTTTTGAAAATA
* *
6550486 AAAAATATAATTTTTGTTGAAAATATGA
64 AAAAATATAATCTTTGTTGAAAAGATGA
6550514 AAATGTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
113 5 0.06
114 37 0.45
115 40 0.49
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.39
Consensus pattern (113 bp):
TTTTATTGAAAATATAAAAAAAATATTTTTTAAAATTCAATAAAAATGACATTTTTGAAAATAAA
AAATATAATCTTTGTTGAAAAGATGACGTTTTTAAGACAAAAGTGTAA
Found at i:6550635 original size:41 final size:41
Alignment explanation
Indices: 6550545--6550636 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
6550535 AAAGATAACG
* *
6550545 TTTTTAAGATATAAAATGTAATTTTTATTAAAAAGAAGACA
1 TTTTTAAGATAAAAAATGTAATCTTTATTAAAAAGAAGACA
* * * *
6550586 TTTATAAGATAAAAAAATGTAATCTTTGTTAAAAA-ATGATA
1 TTTTTAAGAT-AAAAAATGTAATCTTTATTAAAAAGAAGACA
6550627 TTTTTAAGAT
1 TTTTTAAGAT
6550637 CAATTTATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (41 bp):
TTTTTAAGATAAAAAATGTAATCTTTATTAAAAAGAAGACA
Found at i:6553873 original size:26 final size:26
Alignment explanation
Indices: 6553841--6553894 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
6553831 GGAAAGGAAG
6553841 CAGTGGCATATTTATGTATTTTAGGA
1 CAGTGGCATATTTATGTATTTTAGGA
6553867 CAGTGGCATATTTATGTATTTTAGGA
1 CAGTGGCATATTTATGTATTTTAGGA
6553893 CA
1 CA
6553895 ATCATTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
CAGTGGCATATTTATGTATTTTAGGA
Found at i:6553947 original size:26 final size:26
Alignment explanation
Indices: 6553914--6553964 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6553904 TGAGCTATTA
6553914 ATTTTCCATTCATGTATTATCGCATT
1 ATTTTCCATTCATGTATTATCGCATT
*
6553940 ATTTTCCATTCGTGTATTATCGCAT
1 ATTTTCCATTCATGTATTATCGCAT
6553965 AATACAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTTTCCATTCATGTATTATCGCATT
Found at i:6556373 original size:16 final size:17
Alignment explanation
Indices: 6556352--6556383 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6556342 TTCAGATGTT
6556352 ATTTTATTT-AAAAACA
1 ATTTTATTTGAAAAACA
6556368 ATTTTATTTGAAAAAC
1 ATTTTATTTGAAAAAC
6556384 TTAATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTTTATTTGAAAAACA
Found at i:6556580 original size:20 final size:20
Alignment explanation
Indices: 6556538--6556582 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6556528 TGAGGGGCAA
* *
6556538 GGGTTGGTTTTAGGATTTGG
1 GGGTTGGTTTAAGGATTTAG
**
6556558 GGGTTGGTTTAAGTTTTTAG
1 GGGTTGGTTTAAGGATTTAG
6556578 GGGTT
1 GGGTT
6556583 AGGGGTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (20 bp):
GGGTTGGTTTAAGGATTTAG
Found at i:6556685 original size:34 final size:35
Alignment explanation
Indices: 6556642--6556707 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
6556632 GGGGTTTTTG
*
6556642 TTTAAGTTTT-AAGTTTTAAGGTTTA-GGGTTAGGA
1 TTTAAGTTTTCAAG-CTTAAGGTTTATGGGTTAGGA
*
6556676 TTTAGGTTTTCAAGCTTAAGGTTTATGGGTTA
1 TTTAAGTTTTCAAGCTTAAGGTTTATGGGTTA
6556708 AGGTTTGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 19 0.68
35 9 0.32
ACGTcount: A:0.24, C:0.03, G:0.26, T:0.47
Consensus pattern (35 bp):
TTTAAGTTTTCAAGCTTAAGGTTTATGGGTTAGGA
Found at i:6556861 original size:20 final size:21
Alignment explanation
Indices: 6556833--6556882 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6556823 TAGAGAATGC
6556833 TTTAAGGTTTCAT-A-GGTGGT
1 TTTAAGGTTT-ATAAGGGTGGT
*
6556853 TTTAGGGTTTATAAGGGTGG-
1 TTTAAGGTTTATAAGGGTGGT
6556873 TTTAAGGTTT
1 TTTAAGGTTT
6556883 GAAGGATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTATAAGGGTGGT
Found at i:6565965 original size:33 final size:33
Alignment explanation
Indices: 6565922--6566018 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
6565912 ATTCTCAATA
* *
6565922 TGTATATGTTTAACCAATTCATCCAAGGTAATT
1 TGTATGTGTTTAACTAATTCATCCAAGGTAATT
*
6565955 TGTATGTGTTTAACTAATTCATCCAAGATAATT
1 TGTATGTGTTTAACTAATTCATCCAAGGTAATT
6565988 TGTATGTGTTTAACTAATTCATCCAAGGTAA
1 TGTATGTGTTTAACTAATTCATCCAAGGTAA
6566019 ATGATCCTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATGTGTTTAACTAATTCATCCAAGGTAATT
Found at i:6568941 original size:13 final size:13
Alignment explanation
Indices: 6568923--6568948 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6568913 ATGAAGTAAG
6568923 AAAGAAAGAGAAC
1 AAAGAAAGAGAAC
6568936 AAAGAAAGAGAAC
1 AAAGAAAGAGAAC
6568949 GAGAATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAGAAC
Found at i:6573703 original size:40 final size:40
Alignment explanation
Indices: 6573659--6573738 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
6573649 TTTAAGTTTA
* *
6573659 CTCAACTAGGGAAAAAGAGCTATTCAAAATTTTGAAAGTG
1 CTCAACAAGGGAAAAAGAGCTATTCAAAATTCTGAAAGTG
* * * *
6573699 CTCAAGAAGGGATAGAGAGTTATTCAAAATTCTGAAAGTG
1 CTCAACAAGGGAAAAAGAGCTATTCAAAATTCTGAAAGTG
6573739 GCGACTCTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCAACAAGGGAAAAAGAGCTATTCAAAATTCTGAAAGTG
Found at i:6575809 original size:2 final size:2
Alignment explanation
Indices: 6575802--6575855 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
6575792 TAGATAGCTC
*
6575802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
6575844 AT AT AT AT AT AT
1 AT AT AT AT AT AT
6575856 GTACCCCCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6576356 original size:26 final size:28
Alignment explanation
Indices: 6576308--6576363 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
6576298 TATCAATCAA
6576308 TAAATATAAATAATGTATAAATAAAATC
1 TAAATATAAATAATGTATAAATAAAATC
*
6576336 TAAATA-AAA-AAT-TATATAATAAAGTC
1 TAAATATAAATAATGTATA-AATAAAATC
6576362 TA
1 TA
6576364 TGCATATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 3 0.12
28 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
TAAATATAAATAATGTATAAATAAAATC
Found at i:6577312 original size:15 final size:15
Alignment explanation
Indices: 6577275--6577314 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
6577265 ATGATTGTTC
6577275 TCAGGATTTCTCCGA
1 TCAGGATTTCTCCGA
* *
6577290 TGAAGATTTCTCCGA
1 TCAGGATTTCTCCGA
*
6577305 TCTGGATTTC
1 TCAGGATTTC
6577315 CTCCAGCTCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (15 bp):
TCAGGATTTCTCCGA
Found at i:6582561 original size:16 final size:16
Alignment explanation
Indices: 6582540--6582572 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6582530 TGAACTATCA
*
6582540 TTTTTTTTTCCTTTTC
1 TTTTTTTTCCCTTTTC
6582556 TTTTTTTTCCCTTTTC
1 TTTTTTTTCCCTTTTC
6582572 T
1 T
6582573 AATTTCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTCCCTTTTC
Found at i:6589481 original size:22 final size:22
Alignment explanation
Indices: 6589427--6589482 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
6589417 CATTTATTCC
*
6589427 AAAAAAAG-AAAAACAAAAAAG
1 AAAACAAGAAAAAACAAAAAAG
* * *
6589448 AAAAGAGGAAAAAACAAAGAAG
1 AAAACAAGAAAAAACAAAAAAG
*
6589470 AAAACAATAAAAA
1 AAAACAAGAAAAA
6589483 GAAAAACAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAACAAGAAAAAACAAAAAAG
Found at i:6589495 original size:12 final size:13
Alignment explanation
Indices: 6589428--6589495 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 13
6589418 ATTTATTCCA
* *
6589428 AAAAAAGAAAAAC
1 AAAAAACAAAAAG
*
6589441 AAAAAAGAAAAGAGG
1 AAAAAACAAAA-A-G
6589456 AAAAAACAAAGAAG
1 AAAAAACAAA-AAG
*
6589470 AAAACAATAAAAAG
1 AAAA-AACAAAAAG
6589484 -AAAAACAAAAAG
1 AAAAAACAAAAAG
6589496 GGAAAGGAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
12 8 0.17
13 14 0.30
14 9 0.19
15 15 0.32
16 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAG
Found at i:6589705 original size:25 final size:25
Alignment explanation
Indices: 6589677--6589730 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
6589667 TTTGAAGTCT
6589677 ATAAGAAAACCCACTTTAAGAGCCC
1 ATAAGAAAACCCACTTTAAGAGCCC
* *
6589702 ATAAGAAAGCCTACTTTAAGAGCCC
1 ATAAGAAAACCCACTTTAAGAGCCC
6589727 ATAA
1 ATAA
6589731 AATGCATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (25 bp):
ATAAGAAAACCCACTTTAAGAGCCC
Found at i:6590346 original size:143 final size:144
Alignment explanation
Indices: 6590153--6590495 Score: 420
Period size: 143 Copynumber: 2.4 Consensus size: 144
6590143 TTTTTTTATG
* *
6590153 AAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAATTACAGCAATA
1 AAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGAATTTGAAATCACAGCAATA
* ** *
6590218 CCCTAGAAGGTATGAAATTACCAAAATAACCATTAGGGGTA-TTTCGTAATTTAGCT-TTTTCAA
66 CCCTAGAAGGTATGAAATTACCAAAATAACCATTAAGAATATTTTCATAATTT-GCTCTTTTCAA
6590281 ACTTGAATTTTCACA
130 ACTTGAATTTTCACA
* * * * * * * * *
6590296 AAACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTAGAGAATTTGAAATCACGGTAGTA
1 AAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGAATTTGAAATCACAGCAATA
* * * * * * * *
6590361 CCCTAGGAGGTGTGAAATTATCAAAATATCCCTTAAGAATATTTTCATAATTTGGTCTTTTCGAG
66 CCCTAGAAGGTATGAAATTACCAAAATAACCATTAAGAATATTTTCATAATTTGCTCTTTTCAAA
**
6590426 CTTGAATTTTCATG
131 CTTGAATTTTCACA
* *
6590440 AAACTTTTTAGATCTTAATTTCATAATATTTTATGATTTTTGGTGAATTTTAAATC
1 AAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGAATTTGAAATC
6590496 TTAGTAGTGC
Statistics
Matches: 166, Mismatches: 32, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
143 89 0.54
144 77 0.46
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.41
Consensus pattern (144 bp):
AAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGAATTTGAAATCACAGCAATA
CCCTAGAAGGTATGAAATTACCAAAATAACCATTAAGAATATTTTCATAATTTGCTCTTTTCAAA
CTTGAATTTTCACA
Found at i:6590470 original size:144 final size:141
Alignment explanation
Indices: 6590145--6590622 Score: 464
Period size: 144 Copynumber: 3.3 Consensus size: 141
6590135 GGGTTAATTT
* * * * *
6590145 TTTTTATGAAACTTTTTAGATCTAAATTTCATAATATTTTATGATTTTTGGTGCATTTGAAATTA
1 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCA
* * * * * * * *
6590210 CAGCAATACCCTAGAAGGTATGAAATTACCAAAATAACCATTAGGGGTA-TTTCGTAATTTAGCT
66 CAGTAGTACCCTAGGAGGTGTGAAATTA-CAAAAT-ACCCTTAGGGATATTTTCATAATTTGGC-
* *
6590274 TTTTCAAACTTGAA
128 TTTTCGAGCTTGAA
** * * * * *
6590288 TTTTCACAAAACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTAGAGAATTTGAAATCA
1 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCA
* * *
6590353 CGGTAGTACCCTAGGAGGTGTGAAATTATCAAAATATCCCTTAAGAATATTTTCATAATTTGGTC
66 CAGTAGTACCCTAGGAGGTGTGAAATTA-CAAAATA-CCCTTAGGGATATTTTCATAATTTGG-C
6590418 TTTTCGAGCTTGAA
128 TTTTCGAGCTTGAA
* * *
6590432 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTTATGATTTTTGGTGAATTTTAAATCT
1 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCA
* * * *
6590497 TAGTAGT-GCCTCGAGAGGTGTAAAATTACTAAAATACCTCTTAGGGGAT-TTTTCATAATTTGG
66 CAGTAGTACCCTAG-GAGGTGTGAAATTAC-AAAATACC-CTTA-GGGATATTTTCATAATTTGG
*
6590560 CCTTCTT-GAGC--AAA
127 -CTT-TTCGAGCTTGAA
** * * *
6590574 TTTTTGTGAAACTTTTTAGATATTAATTTTATAATATTTCATTATTTTT
1 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTT
6590623 TGTGCTTTAA
Statistics
Matches: 277, Mismatches: 50, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
142 46 0.17
143 98 0.35
144 127 0.46
145 6 0.02
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (141 bp):
TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCA
CAGTAGTACCCTAGGAGGTGTGAAATTACAAAATACCCTTAGGGATATTTTCATAATTTGGCTTT
TCGAGCTTGAA
Found at i:6598054 original size:3 final size:3
Alignment explanation
Indices: 6598046--6598087 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6598036 TTTCATGTAA
*
6598046 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6598088 TTTTATGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6598804 original size:25 final size:24
Alignment explanation
Indices: 6598759--6598806 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6598749 TCATCAATGA
*
6598759 TTATTATTTATAAAGAGTGTTATT
1 TTATTATTTATAAAGAATGTTATT
6598783 TTATTATTT-TAGAAGGAATGTTAT
1 TTATTATTTATA-AA-GAATGTTAT
6598807 GACAAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.52
25 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (24 bp):
TTATTATTTATAAAGAATGTTATT
Found at i:6603528 original size:99 final size:99
Alignment explanation
Indices: 6603347--6603543 Score: 342
Period size: 99 Copynumber: 2.0 Consensus size: 99
6603337 TACGAGCATG
* *
6603347 CAGAGGTTAAATGCATGGTCTTACTTTCATTATCCTAATAAAATGATGAATGTGATGCATTTCAC
1 CAGAGGTCAAATGCATGGTCTTACTTTCATTATCCTAATAAAATGATGAATGTGATGCATGTCAC
*
6603412 ATATACCATTTTCTTTATTTTTTTTCTCTCTATA
66 ATATACCATTTTCTTTATTTTTTCTCTCTCTATA
6603446 CAGAGGTCAAATGCATGGTCTTACTTTCATTATCCTAATAAAATGATGAATGTGATGCATGTCAC
1 CAGAGGTCAAATGCATGGTCTTACTTTCATTATCCTAATAAAATGATGAATGTGATGCATGTCAC
*
6603511 ATATACCGTCTTT-TTTATTTTTTCTCTCTCTAT
66 ATATACCAT-TTTCTTTATTTTTTCTCTCTCTAT
6603544 TTTCTTATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
99 90 0.97
100 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (99 bp):
CAGAGGTCAAATGCATGGTCTTACTTTCATTATCCTAATAAAATGATGAATGTGATGCATGTCAC
ATATACCATTTTCTTTATTTTTTCTCTCTCTATA
Found at i:6607042 original size:10 final size:10
Alignment explanation
Indices: 6607027--6607074 Score: 62
Period size: 11 Copynumber: 4.6 Consensus size: 10
6607017 TTAAAAAAAG
6607027 GAAAAAAGAAA
1 GAAAAAAG-AA
6607038 GAAAAAATGAA
1 GAAAAAA-GAA
6607049 GAAAAAAGAA
1 GAAAAAAGAA
6607059 GAAAACAA-AA
1 GAAAA-AAGAA
6607069 GAAAAA
1 GAAAAA
6607075 GGAGATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.03
10 15 0.43
11 18 0.51
12 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (10 bp):
GAAAAAAGAA
Found at i:6608269 original size:35 final size:35
Alignment explanation
Indices: 6608230--6608381 Score: 110
Period size: 35 Copynumber: 4.3 Consensus size: 35
6608220 TTAATCTTGG
* *
6608230 TCATTCTCATTCTTCAACTCACGGTTCAAT-CCTGA
1 TCATTTTCATTCTTCAACTCACAGTTCAATCCCT-A
* * ** *
6608265 TCATTTTTATTTTTTGACTCACAGTTTAATCCCTA
1 TCATTTTCATTCTTCAACTCACAGTTCAATCCCTA
** * * * * *
6608300 TCATTTTCATTCTTTGACTTATAATTTAAT-CTTAA
1 TCATTTTCATTCTTCAACTCACAGTTCAATCCCT-A
* * * *
6608335 TCATTTTTATTCTTCAACTCGCAATTCAATCCCGA
1 TCATTTTCATTCTTCAACTCACAGTTCAATCCCTA
6608370 TCATTTTCATTC
1 TCATTTTCATTC
6608382 CTTGACTTAT
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
34 2 0.02
35 85 0.93
36 4 0.04
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (35 bp):
TCATTTTCATTCTTCAACTCACAGTTCAATCCCTA
Found at i:6608387 original size:105 final size:105
Alignment explanation
Indices: 6608194--6608388 Score: 248
Period size: 105 Copynumber: 1.9 Consensus size: 105
6608184 GTTCAATCCA
* ** ** **
6608194 ATCATATTTATTCTTTGATTTATGGTTTAATCTTGGTCATTCTCATTCTTCAACTCACGGTTCAA
1 ATCATATTTATTCTTTGACTTATAATTTAATCTTAATCATTCTCATTCTTCAACTCACAATTCAA
* * **
6608259 TCCTGATCATTTTTATTTTTTGACTCACAGTTTAATCCCT
66 TCCCGATCATTTTCATTCCTTGACTCACAGTTTAATCCCT
* * *
6608299 ATCAT-TTTCATTCTTTGACTTATAATTTAATCTTAATCATTTTTATTCTTCAACTCGCAATTCA
1 ATCATATTT-ATTCTTTGACTTATAATTTAATCTTAATCATTCTCATTCTTCAACTCACAATTCA
6608363 ATCCCGATCATTTTCATTCCTTGACT
65 ATCCCGATCATTTTCATTCCTTGACT
6608389 TATGGTTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
104 3 0.04
105 72 0.96
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (105 bp):
ATCATATTTATTCTTTGACTTATAATTTAATCTTAATCATTCTCATTCTTCAACTCACAATTCAA
TCCCGATCATTTTCATTCCTTGACTCACAGTTTAATCCCT
Found at i:6608409 original size:70 final size:70
Alignment explanation
Indices: 6608264--6608486 Score: 207
Period size: 70 Copynumber: 3.2 Consensus size: 70
6608254 TTCAATCCTG
** * * * * *
6608264 ATCATTTTTATTTTTTGACTCACAGTTTAATCCCTATCATTTTCATTCTTTGACTTATAATTTAA
1 ATCATTTTTATTTTTCAACTCGCAATTCAATCCCGATCATTTTCATTCTTTGACTTATAATTCAA
*
6608329 TCTTA
66 TCTCA
* * **
6608334 ATCATTTTTATTCTTCAACTCGCAATTCAATCCCGATCATTTTCATTCCTTGACTTATGGTTCAA
1 ATCATTTTTATTTTTCAACTCGCAATTCAATCCCGATCATTTTCATTCTTTGACTTATAATTCAA
6608399 GT-TCA
66 -TCTCA
* * * * * ** *
6608404 GTCATTTTAATTTTTCAACTTGCAATTCAATCTCGGTCATGTTT-ATTCTTTGACTTGCAATCCA
1 ATCATTTTTATTTTTCAACTCGCAATTCAATCCCGATCAT-TTTCATTCTTTGACTTATAATTCA
* *
6608468 AACTCG
65 ATCTCA
*
6608474 ATCATTTTCATTT
1 ATCATTTTTATTT
6608487 CCTAACTTAT
Statistics
Matches: 122, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
70 118 0.97
71 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.47
Consensus pattern (70 bp):
ATCATTTTTATTTTTCAACTCGCAATTCAATCCCGATCATTTTCATTCTTTGACTTATAATTCAA
TCTCA
Found at i:6608443 original size:35 final size:33
Alignment explanation
Indices: 6608404--6608486 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 33
6608394 TTCAAGTTCA
* *
6608404 GTCATTTTAATTTTTCAACTTGCAATTCAATCTCG
1 GTCATTTT-ATTTTT-AACTTGCAATCCAAACTCG
*
6608439 GTCATGTTTATTCTTTGACTTGCAATCCAAACTCG
1 GTCAT-TTTATT-TTTAACTTGCAATCCAAACTCG
*
6608474 ATCATTTTCATTT
1 GTCATTTT-ATTT
6608487 CCTAACTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
34 4 0.10
35 31 0.76
36 6 0.15
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (33 bp):
GTCATTTTATTTTTAACTTGCAATCCAAACTCG
Found at i:6608527 original size:105 final size:105
Alignment explanation
Indices: 6608335--6608530 Score: 227
Period size: 105 Copynumber: 1.9 Consensus size: 105
6608325 TTAATCTTAA
* * * * *
6608335 TCATTTTTATTCTTCAACTCGCAATTCAATCCCGATCATTTTCATTCCTTGACTTATGGTTCAAG
1 TCATGTTTATTCTTCAACTCGCAATCCAAACCCGATCATTTTCATTCCTTAACTTATGCTTCAAG
* **
6608400 TTCAGTCATTTTAATTTTTCAACTTGCAATTCAATCTCGG
66 TTCAGTCATTCTAATTCATCAACTTGCAATTCAATCTCGG
** * * *
6608440 TCATGTTTATTCTTTGACTTGCAATCCAAACTCGATCATTTTCATTTCC-TAACTTATGCTT-TA
1 TCATGTTTATTCTTCAACTCGCAATCCAAACCCGATCATTTTCA-TTCCTTAACTTATGCTTCAA
6608503 GTCTCAGTCATATCT-ATTCATCAACTTG
65 GT-TCAGTCAT-TCTAATTCATCAACTTG
6608531 TGGTTCAATC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
104 3 0.04
105 66 0.88
106 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (105 bp):
TCATGTTTATTCTTCAACTCGCAATCCAAACCCGATCATTTTCATTCCTTAACTTATGCTTCAAG
TTCAGTCATTCTAATTCATCAACTTGCAATTCAATCTCGG
Found at i:6608642 original size:35 final size:35
Alignment explanation
Indices: 6608603--6608989 Score: 143
Period size: 35 Copynumber: 11.1 Consensus size: 35
6608593 TGACTCACAA
* *
6608603 TTCAATTTCGGTCATTTTCATTATTTGACTTATGG
1 TTCAATTTCGGTCATTTTCATTCTTTGACTTGTGG
* *
6608638 TTCAA-TTCTAGTCATATTT-ATTCTTTGACTCGTGG
1 TTCAATTTC-GGTCAT-TTTCATTCTTTGACTTGTGG
* * * * *
6608673 TTTAATTTTGATCATTTTTATT-TTCTGACTTGCGG
1 TTCAATTTCGGTCATTTTCATTCTT-TGACTTGTGG
* * * * ** **
6608708 CTCAATGTCAGTC-TTTTATATTC-TCAACTTGTAA
1 TTCAATTTCGGTCATTTT-CATTCTTTGACTTGTGG
* * *
6608742 TTCAACTT-GGTCATTTTCATT-TTTCTACATGTGG
1 TTCAATTTCGGTCATTTTCATTCTTT-GACTTGTGG
* * **
6608776 TTCAATCTT-GATCATTTTCATTCTTCGACTTACGG
1 TTCAAT-TTCGGTCATTTTCATTCTTTGACTTGTGG
* * ****
6608811 TTCAATCTT-GATCATTTTCATTCTTCGACTCACAG
1 TTCAAT-TTCGGTCATTTTCATTCTTTGACTTGTGG
* ** * * *
6608846 TTCAATCTATGTTATTTTCATT-TTCTGACTTATGA
1 TTCAATTTCGGTCATTTTCATTCTT-TGACTTGTGG
* ** * **
6608881 TTTAATTTCAATCATTTTTATTCTTCAACTTGTGG
1 TTCAATTTCGGTCATTTTCATTCTTTGACTTGTGG
** * *
6608916 TTCAACCT-GGTCATTTTCATTCCTTGACTCGTGG
1 TTCAATTTCGGTCATTTTCATTCTTTGACTTGTGG
* * * *
6608950 TTCAGTTTCAGTCATATTT-ATTCATCGA-TTCGTGG
1 TTCAATTTCGGTCAT-TTTCATTCTTTGACTT-GTGG
6608985 TTCAA
1 TTCAA
6608990 ACTAGGTCAT
Statistics
Matches: 256, Mismatches: 78, Indels: 36
0.69 0.21 0.10
Matches are distributed among these distances:
33 7 0.03
34 64 0.25
35 173 0.68
36 12 0.05
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (35 bp):
TTCAATTTCGGTCATTTTCATTCTTTGACTTGTGG
Found at i:6608713 original size:70 final size:70
Alignment explanation
Indices: 6608548--6608713 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 70
6608538 ATCTAAGTCA
* * * *
6608548 TTTCATT-TCTTGGCTTGCGACTCAATCCTAGTCATTTTTATTTTTTGACTCACAATTCAATTTC
1 TTTCATTAT-TTGACTTGCGGCTCAATCCTAGTCATATTTATTCTTTGACTCACAATTCAATTTC
*
6608612 GGTCAT
65 GATCAT
** * * **** * *
6608618 TTTCATTATTTGACTTATGGTTCAATTCTAGTCATATTTATTCTTTGACTCGTGGTTTAATTTTG
1 TTTCATTATTTGACTTGCGGCTCAATCCTAGTCATATTTATTCTTTGACTCACAATTCAATTTCG
6608683 ATCAT
66 ATCAT
*
6608688 TTTTATT-TTCTGACTTGCGGCTCAAT
1 TTTCATTATT-TGACTTGCGGCTCAAT
6608714 GTCAGTCTTT
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
69 2 0.03
70 72 0.96
71 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (70 bp):
TTTCATTATTTGACTTGCGGCTCAATCCTAGTCATATTTATTCTTTGACTCACAATTCAATTTCG
ATCAT
Found at i:6608919 original size:70 final size:70
Alignment explanation
Indices: 6608752--6608937 Score: 173
Period size: 70 Copynumber: 2.7 Consensus size: 70
6608742 TTCAACTTGG
* * * *
6608752 TCATTTTCATTTTTCTACATGTGGTTCAATCTTGATCATTTTCATTCTTCGACTTACGGTTCAAT
1 TCATTTTCATTCTTCAACTTGTGGTTCAATCTTGATCATTTTCATTCTTCGACTTACGATTCAAT
*
6608817 CTTGA
66 CTTAA
* **** * * *
6608822 TCATTTTCATTCTTCGACTCACAGTTCAATCTATG-TTATTTTCATT-TTCTGACTTATGATTTA
1 TCATTTTCATTCTTCAACTTGTGGTTCAATCT-TGATCATTTTCATTCTTC-GACTTACGATTCA
6608885 AT-TTCAA
64 ATCTT-AA
* * *
6608892 TCATTTTTATTCTTCAACTTGTGGTTCAA-CCTGGTCATTTTCATTC
1 TCATTTTCATTCTTCAACTTGTGGTTCAATCTTGATCATTTTCATTC
6608938 CTTGACTCGT
Statistics
Matches: 91, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
68 2 0.02
69 16 0.18
70 71 0.78
71 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (70 bp):
TCATTTTCATTCTTCAACTTGTGGTTCAATCTTGATCATTTTCATTCTTCGACTTACGATTCAAT
CTTAA
Found at i:6610175 original size:146 final size:147
Alignment explanation
Indices: 6609921--6610252 Score: 343
Period size: 146 Copynumber: 2.3 Consensus size: 147
6609911 TTTTTTCATG
* *
6609921 AAACTTTTCAGATCTCAATTTTATAATATTTCATGA--TTTTTGATGCATCTGAAATCACAACAG
1 AAACTTTCCAAATCTCAATTTTATAATATTTCATGATTTTTTTGATGCATCTGAAATCACAACAG
** * * * **
6609984 TACCCTGAGAGATGTGAAATGAGCAAAATATCCTTTAGGGATATTTTTGTA-ATCTGGCTTTTGT
66 TACCCCAAGAGATGTGAAATGACCAAAATATCCTTTAGGGATATTTTGGTACATCTGGCCTTTCC
* * *
6610048 GAGCTCAGATTTTCACA
131 AACCTCAAATTTTCACA
* * * * * **
6610065 AACCTTTCCAAATCTC-ATTTTCATAATATTTCATGATTTTTTTGGTGCATTTGAAATTATAGTA
1 AAACTTTCCAAATCTCAATTTT-ATAATATTTCATGATTTTTTTGATGCATCTGAAATCACAACA
* * * * *
6610129 GTACCCCAAGAGGTGTGAAATTACCATAATA-CCTCTTATGGG-TATTTTGGTACTTTTGGCCTT
65 GTACCCCAAGAGATGTGAAATGACCAAAATATCCT-TTA-GGGATATTTTGGTACATCTGGCCTT
6610192 TCCAACCTCAAATTTTCACA
128 TCCAACCTCAAATTTTCACA
* * * *
6610212 AAACTTTTCAGATTTCAATTTTATAATATTTAATGATTTTT
1 AAACTTTCCAAATCTCAATTTTATAATATTTCATGATTTTT
6610253 GGTACTTTAA
Statistics
Matches: 152, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
143 5 0.03
144 27 0.18
145 3 0.02
146 57 0.38
147 55 0.36
148 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (147 bp):
AAACTTTCCAAATCTCAATTTTATAATATTTCATGATTTTTTTGATGCATCTGAAATCACAACAG
TACCCCAAGAGATGTGAAATGACCAAAATATCCTTTAGGGATATTTTGGTACATCTGGCCTTTCC
AACCTCAAATTTTCACA
Found at i:6611874 original size:92 final size:94
Alignment explanation
Indices: 6611690--6611867 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 94
6611680 TCAATTTAAA
* *
6611690 CTTAATAATAATAGAAAAAGGTCCCATCATGAAGAAAGCTTAAGGCTTTCATACTTTTGCCTACA
1 CTTAATAATAATAGAAAAAGGTCACATCATGAAGAAAGCTTAAAGCTTTCATACTTTTGCCTACA
*
6611755 TGGTAAAGAAAGCTTGAAAATGACATGAG
66 TGGTAAAGAAAGCTTAAAAATGACATGAG
* * * * *
6611784 CTTAATAATAA-A-AAAAAGTTTACATCGTGAAGAAAGCTTAAAGTTTTCATACTTTTTCCTACA
1 CTTAATAATAATAGAAAAAGGTCACATCATGAAGAAAGCTTAAAGCTTTCATACTTTTGCCTACA
6611847 TGGTAAAGAAAGCTTAAAAAT
66 TGGTAAAGAAAGCTTAAAAAT
6611868 TGCATGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
92 64 0.84
93 1 0.01
94 11 0.14
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (94 bp):
CTTAATAATAATAGAAAAAGGTCACATCATGAAGAAAGCTTAAAGCTTTCATACTTTTGCCTACA
TGGTAAAGAAAGCTTAAAAATGACATGAG
Found at i:6612136 original size:3 final size:3
Alignment explanation
Indices: 6612128--6612163 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6612118 TATGCAATAC
6612128 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
6612164 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6612168 original size:3 final size:3
Alignment explanation
Indices: 6612162--6612222 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
6612152 AATAATAATA
6612162 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6612210 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
6612223 AATTTTATGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6614444 original size:18 final size:18
Alignment explanation
Indices: 6614421--6614487 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
6614411 TGTCTAAAGG
6614421 TAATATATTATTAATAAA
1 TAATATATTATTAATAAA
*
6614439 TAATATATTATTAA-ATA
1 TAATATATTATTAATAAA
* *
6614456 TCAT-TA-TATTAAT-AT
1 TAATATATTATTAATAAA
*
6614471 TATTATATTATTAATAA
1 TAATATATTATTAATAA
6614488 CAAATAGAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 8 0.21
16 4 0.10
17 12 0.31
18 15 0.38
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATATATTATTAATAAA
Found at i:6614447 original size:15 final size:17
Alignment explanation
Indices: 6614429--6614469 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6614419 GGTAATATAT
6614429 TATTAATAAATA-A-TA
1 TATTAATAAATACATTA
*
6614444 TATTATTAAATATCATTA
1 TATTAATAAATA-CATTA
6614462 TATTAATA
1 TATTAATA
6614470 TTATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAATAAATACATTA
Found at i:6614480 original size:14 final size:14
Alignment explanation
Indices: 6614425--6614478 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
6614415 TAAAGGTAAT
6614425 ATATTATTA-ATAA
1 ATATTATTATATAA
6614438 ATAATATATTAT-TAA
1 AT-AT-TATTATATAA
* *
6614453 ATATCATTATATTA
1 ATATTATTATATAA
6614467 ATATTATTATAT
1 ATATTATTATAT
6614479 TATTAATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 7 0.21
14 17 0.50
15 10 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTATTATATAA
Found at i:6615445 original size:22 final size:22
Alignment explanation
Indices: 6615417--6615462 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6615407 CCATTCAACC
6615417 TTAAACTCCTTGCTATACTACA
1 TTAAACTCCTTGCTATACTACA
*
6615439 TTAAACTCCTTGCTATACTTCA
1 TTAAACTCCTTGCTATACTACA
6615461 TT
1 TT
6615463 CCACAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.41
Consensus pattern (22 bp):
TTAAACTCCTTGCTATACTACA
Found at i:6616127 original size:22 final size:22
Alignment explanation
Indices: 6616082--6616128 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6616072 GATTTCAAGG
*
6616082 CCATGCCATATGAAGTGCTTAT
1 CCATGCCATATGAACTGCTTAT
*
6616104 CCATGTCATATGAACTG-TTGAT
1 CCATGCCATATGAACTGCTT-AT
6616126 CCA
1 CCA
6616129 ATTCAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (22 bp):
CCATGCCATATGAACTGCTTAT
Found at i:6617169 original size:119 final size:120
Alignment explanation
Indices: 6616957--6617194 Score: 302
Period size: 119 Copynumber: 2.0 Consensus size: 120
6616947 AAATAAAAAA
* *
6616957 CCTTACCGATATATTGAAAGGCAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAGAAC
1 CCTTACCAATATATTGAAAGGCAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAAAAC
* * ** * *
6617022 CTTATTAATTTTTTATGAAAAGCAAATTTTTAG-AAC-AAATAGTTTTCAATAAAG
66 ATTATGAATTTTTTAAAAAAAACAAATTTTTAGAAACGAAATAATTTTC-ATAAAG
* * *
6617076 CCTTACCAATATATT-AGAAGGCAATTTGATTTTTAAGATAAGGTTTTACCAACATATTGGAAAA
1 CCTTACCAATATATTGA-AAGGCAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAAAA
* * **
6617140 TATTATGATTTTTTTAAAAAAAATTAATTTTTAGAAACGAAATAATTTTCATAAA
65 CATTATGAATTTTTTAAAAAAAACAAATTTTTAGAAACGAAATAATTTTCATAAA
6617195 ATCCTCCCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
118 1 0.01
119 82 0.81
120 8 0.08
121 10 0.10
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (120 bp):
CCTTACCAATATATTGAAAGGCAATTTGATTTTTAAAATAAGATTTTACCAACATATTAGAAAAC
ATTATGAATTTTTTAAAAAAAACAAATTTTTAGAAACGAAATAATTTTCATAAAG
Found at i:6618000 original size:32 final size:33
Alignment explanation
Indices: 6617939--6618004 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
6617929 CAAAGCTTAA
6617939 TTTAAAATTAAAAAATTTTCTTTGAATGTTTTG
1 TTTAAAATTAAAAAATTTTCTTTGAATGTTTTG
* * *
6617972 TTTAAAATT-AAGATTTTTTTTTGAATGTTTTG
1 TTTAAAATTAAAAAATTTTCTTTGAATGTTTTG
6618004 T
1 T
6618005 CTATTTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (33 bp):
TTTAAAATTAAAAAATTTTCTTTGAATGTTTTG
Found at i:6618623 original size:61 final size:61
Alignment explanation
Indices: 6618510--6618641 Score: 149
Period size: 61 Copynumber: 2.2 Consensus size: 61
6618500 TCATCTTTCA
* * * * * *
6618510 TGCATCATTATAAGGCAAACATTAACTCATGTATCTATTGATGCTGTTATTTGTTCATTCG
1 TGCATCATTATAAGGCAAACATTAACTCATGCATCCATTCATACAGTCATTTGTTCATTCG
* * * * *
6618571 TGCATTATTATGAGGCAAACATTAACTTATGCATCCATTCATACAGTCATTTG-TCAATCCA
1 TGCATCATTATAAGGCAAACATTAACTCATGCATCCATTCATACAGTCATTTGTTC-ATTCG
6618632 TGCATCATTA
1 TGCATCATTA
6618642 AATTGTTATG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
60 2 0.03
61 56 0.97
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (61 bp):
TGCATCATTATAAGGCAAACATTAACTCATGCATCCATTCATACAGTCATTTGTTCATTCG
Found at i:6618699 original size:13 final size:13
Alignment explanation
Indices: 6618681--6618724 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6618671 GTTCATGCAT
6618681 CATTCAATTATTG
1 CATTCAATTATTG
6618694 CATTCAA-TATGTG
1 CATTCAATTAT-TG
*
6618707 CATTCATTTATT-
1 CATTCAATTATTG
6618719 CATTCA
1 CATTCA
6618725 TGCATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.32
13 16 0.57
14 3 0.11
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (13 bp):
CATTCAATTATTG
Found at i:6620736 original size:56 final size:55
Alignment explanation
Indices: 6620651--6620759 Score: 137
Period size: 56 Copynumber: 2.0 Consensus size: 55
6620641 TAGGTAAAAG
* *
6620651 ATGTTTTAATTTTCTCACCTATACCGATGGCTAGCGCCTATTAGTATAAACTTAT
1 ATGTTTTAATTTTCTCACCTATACCGATGGCTAACGCCTATCAGTATAAACTTAT
* * * * * *
6620706 ATGTTTTAATTTTTTTGACCTATACTGATGGTTAATGCCTATCAGTATATACTT
1 ATGTTTTAA-TTTTCTCACCTATACCGATGGCTAACGCCTATCAGTATAAACTT
6620760 TTAATTTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
55 9 0.20
56 36 0.80
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (55 bp):
ATGTTTTAATTTTCTCACCTATACCGATGGCTAACGCCTATCAGTATAAACTTAT
Done.