Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 148 of 170
Found at i:44280534 original size:116 final size:116
Alignment explanation
Indices: 44280330--44280558 Score: 386
Period size: 116 Copynumber: 2.0 Consensus size: 116
44280320 GCAGGCTGGG
* *
44280330 GTTAATCCTTTGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGTTTATTTTTCAGGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
* *
44280395 AATTAAATTTTGTTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
* * * *
44280446 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTATTTTAGATTGTATGGTTATTTTTCATGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
44280511 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
44280559 CTAGCTTATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (116 bp):
GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
Found at i:44307616 original size:20 final size:20
Alignment explanation
Indices: 44307593--44307636 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44307583 CAAAAAAATT
*
44307593 AAAAAAATTATGGAAA-TATA
1 AAAAAAATTA-GAAAATTATA
*
44307613 AAAAAATTTAGAAAATTATA
1 AAAAAAATTAGAAAATTATA
44307633 AAAA
1 AAAA
44307637 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAAAAATTAGAAAATTATA
Found at i:44307637 original size:28 final size:26
Alignment explanation
Indices: 44307584--44307740 Score: 67
Period size: 28 Copynumber: 6.0 Consensus size: 26
44307574 GTAAAATTAC
*
44307584 AAAAAAATTAAAAAAATTATGGAAATAT
1 AAAAAAATTAAAAAAATTAT--AAAAAT
* *
44307612 AAAAAAATTTAGAAAATTATAAAAATT
1 AAAAAAATTAAAAAAATTATAAAAA-T
* * ** *
44307639 TATAATTTTATAAAAAA-TAGAAAAAT
1 AAAAAAATTA-AAAAAATTATAAAAAT
* * *
44307665 -AAAAAATTATAGAAAACTATTAAAATT
1 AAAAAAATTA-AAAAAATTA-TAAAAAT
* * *
44307692 ATAAAAA-TAACAACA--ATAAAAAT
1 AAAAAAATTAAAAAAATTATAAAAAT
44307715 CATAAAAAATT--AAAAATTATAAAAAT
1 -A-AAAAAATTAAAAAAATTATAAAAAT
44307741 CATAGAAAAG
Statistics
Matches: 96, Mismatches: 23, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
23 6 0.06
24 5 0.05
25 17 0.18
26 20 0.21
27 20 0.21
28 28 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (26 bp):
AAAAAAATTAAAAAAATTATAAAAAT
Found at i:44307698 original size:9 final size:9
Alignment explanation
Indices: 44307586--44307760 Score: 98
Period size: 9 Copynumber: 19.7 Consensus size: 9
44307576 AAAATTACAA
*
44307586 AAAAATTAA
1 AAAAATTAT
44307595 AAAAATTAT
1 AAAAATTAT
** *
44307604 GGAAATATAA
1 AAAAAT-TAT
44307614 AAAAATT-T
1 AAAAATTAT
44307622 AGAAAATTAT
1 A-AAAATTAT
44307632 AAAAATT-T
1 AAAAATTAT
**
44307640 ATAATTTTAT
1 A-AAAATTAT
* *
44307650 AAAAAATAG
1 AAAAATTAT
44307659 AAAAA-TA-
1 AAAAATTAT
44307666 AAAAATTAT
1 AAAAATTAT
*
44307675 AGAAAACTAT
1 A-AAAATTAT
*
44307685 TAAAATTAT
1 AAAAATTAT
44307694 AAAAA-TA-
1 AAAAATTAT
*
44307701 ACAACA--AT
1 A-AAAATTAT
*
44307709 AAAAATCAT
1 AAAAATTAT
*
44307718 AAAAAAT-T
1 AAAAATTAT
44307726 AAAAATTAT
1 AAAAATTAT
*
44307735 AAAAATCAT
1 AAAAATTAT
44307744 AGAAAAGTTAT
1 A-AAAA-TTAT
44307755 AAAAAT
1 AAAAAT
44307761 AAAATTTTAT
Statistics
Matches: 127, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
7 10 0.08
8 20 0.16
9 68 0.54
10 25 0.20
11 4 0.03
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44307736 original size:26 final size:28
Alignment explanation
Indices: 44307707--44307758 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
44307697 AATAACAACA
44307707 ATAAAAATCATA-AAAAATTA-AAAATT
1 ATAAAAATCATAGAAAAATTATAAAATT
*
44307733 ATAAAAATCATAGAAAAGTTATAAAA
1 ATAAAAATCATAGAAAAATTATAAAA
44307759 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 7 0.30
28 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (28 bp):
ATAAAAATCATAGAAAAATTATAAAATT
Found at i:44308229 original size:68 final size:68
Alignment explanation
Indices: 44308120--44308281 Score: 315
Period size: 68 Copynumber: 2.4 Consensus size: 68
44308110 CCCAACAACT
44308120 TGACCAGCTTGATGATAGAGCAACTGAAGGTGAAGCTAAAATGTGGTTGTGATTTAAGTAGAATA
1 TGACCAGCTTGATGATAGAGCAACTGAAGGTGAAGCTAAAATGTGGTTGTGATTTAAGTAGAATA
44308185 AGC
66 AGC
*
44308188 TGACCAGCTTGATGATAGAACAACTGAAGGTGAAGCTAAAATGTGGTTGTGATTTAAGTAGAATA
1 TGACCAGCTTGATGATAGAGCAACTGAAGGTGAAGCTAAAATGTGGTTGTGATTTAAGTAGAATA
44308253 AGC
66 AGC
44308256 TGACCAGCTTGATGATAGAGCAACTG
1 TGACCAGCTTGATGATAGAGCAACTG
44308282 CGGTCGTTGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (68 bp):
TGACCAGCTTGATGATAGAGCAACTGAAGGTGAAGCTAAAATGTGGTTGTGATTTAAGTAGAATA
AGC
Found at i:44308337 original size:19 final size:20
Alignment explanation
Indices: 44308315--44308365 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
44308305 TTTATACTTT
*
44308315 TTTTTATAAGTTTTTTAT-A
1 TTTTTATAAGTTTTATATCA
*
44308334 TTTTTAATAA-TTTTATATCT
1 TTTTT-ATAAGTTTTATATCA
44308354 TTTTTATAAGTT
1 TTTTTATAAGTT
44308366 GTATTTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATAAGTTTTATATCA
Found at i:44308449 original size:18 final size:17
Alignment explanation
Indices: 44308426--44308638 Score: 121
Period size: 18 Copynumber: 11.8 Consensus size: 17
44308416 GTTCTATATT
*
44308426 TTTTTAGAATTTTTAATA
1 TTTTTATAATTTTT-ATA
*
44308444 TTTTTATAAGTGTTTATA
1 TTTTTATAA-TTTTTATA
44308462 TTTTTATAATATTTT-TA
1 TTTTTATAAT-TTTTATA
44308479 TTTTTATAATTTTCTAT-
1 TTTTTATAATTTT-TATA
*
44308496 TTTTTTTAATTTTCTAATA
1 TTTTTATAATTTT-T-ATA
* * **
44308515 TATTCTAAAAAATTTA-A
1 T-TTTTATAATTTTTATA
*
44308532 TTTTAATAA-TTTTATAA
1 TTTTTATAATTTTTAT-A
* * *
44308549 TTTCTAATATTTTTTTAAAA
1 TTT-TTATA-ATTTTT-ATA
44308569 TTTTTCTATAATTTTTCTATAA
1 -TTTT-TATAA-TTTT-TAT-A
44308591 TTTTTATAATATTTT-TA
1 TTTTTATAAT-TTTTATA
44308608 TTTTTATAATTTTCTATA
1 TTTTTATAATTTT-TATA
*
44308626 TTTTTTTAATTTT
1 TTTTTATAATTTT
44308639 CTAATATATT
Statistics
Matches: 155, Mismatches: 19, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
15 4 0.03
16 11 0.07
17 46 0.30
18 47 0.30
19 8 0.05
20 21 0.14
21 16 0.10
22 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (17 bp):
TTTTTATAATTTTTATA
Found at i:44308469 original size:8 final size:8
Alignment explanation
Indices: 44308434--44308499 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
44308424 TTTTTTTAGA
44308434 ATTTTTAAT
1 ATTTTT-AT
44308443 ATTTTTAT
1 ATTTTTAT
*
44308451 AAGTGTTTAT
1 -A-TTTTTAT
44308461 ATTTTTAT
1 ATTTTTAT
44308469 AATATTTT-T
1 -AT-TTTTAT
44308478 ATTTTTAT
1 ATTTTTAT
* *
44308486 AATTTTCT
1 ATTTTTAT
44308494 ATTTTT
1 ATTTTT
44308500 TTTAATTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 4 0.09
8 22 0.47
9 11 0.23
10 10 0.21
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (8 bp):
ATTTTTAT
Found at i:44308480 original size:17 final size:16
Alignment explanation
Indices: 44308426--44308638 Score: 77
Period size: 17 Copynumber: 11.8 Consensus size: 16
44308416 GTTCTATATT
*
44308426 TTTTTAGAATTTTTAATA
1 TTTTTATAA-TTTT-ATA
44308444 TTTTTATAAGTGTTTATA
1 TTTTTATAA-T-TTTATA
*
44308462 TTTTTATAATATTTTTA
1 TTTTTATAAT-TTTATA
*
44308479 TTTTTATAATTTTCTA
1 TTTTTATAATTTTATA
*
44308495 TTTTTTTTAATTTTCTAATA
1 -TTTTTATAA-TTT-T-ATA
* * *
44308515 TATTCTAAAAAATTTA-A
1 T-TT-TTATAATTTTATA
*
44308532 TTTTAATAATTTTATAA
1 TTTTTATAATTTTAT-A
** *
44308549 TTTCTAATATTTTTTTAAAA
1 TTT-T--TATAATTTT-ATA
44308569 TTTTTCTATAATTTTTCTATAA
1 -TTTT-TATAA--TTT-TAT-A
*
44308591 TTTTTATAATATTTTTA
1 TTTTTATAAT-TTTATA
44308608 TTTTTATAATTTTCTATA
1 TTTTTATAA-TTT-TATA
*
44308626 TTTTTTTAATTTT
1 TTTTTATAATTTT
44308639 CTAATATATT
Statistics
Matches: 150, Mismatches: 24, Indels: 44
0.69 0.11 0.20
Matches are distributed among these distances:
15 9 0.06
16 8 0.05
17 45 0.30
18 41 0.27
19 11 0.07
20 19 0.13
21 15 0.10
22 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (16 bp):
TTTTTATAATTTTATA
Found at i:44308573 original size:11 final size:11
Alignment explanation
Indices: 44308549--44308606 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
44308539 AATTTTATAA
*
44308549 TTTCTAATATT
1 TTTCTAAAATT
*
44308560 TTTTTAAAATT
1 TTTCTAAAATT
*
44308571 TTTCTATAATT
1 TTTCTAAAATT
*
44308582 TTTCTATAATT
1 TTTCTAAAATT
* *
44308593 TTTATAATATT
1 TTTCTAAAATT
44308604 TTT
1 TTT
44308607 ATTTTTATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTCTAAAATT
Found at i:44308582 original size:22 final size:21
Alignment explanation
Indices: 44308541--44308607 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
44308531 ATTTTAATAA
*
44308541 TTTTATAA-TTTCTA-ATATTT
1 TTTTAAAATTTTCTATA-ATTT
44308561 TTTTAAAATTTTTCTATAATTT
1 TTTTAAAA-TTTTCTATAATTT
* * *
44308583 TTCTATAATTTT-TATAATAT
1 TTTTAAAATTTTCTATAATTT
44308603 TTTTA
1 TTTTA
44308608 TTTTTATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 18 0.46
21 4 0.10
22 16 0.41
23 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAAATTTTCTATAATTT
Found at i:44308600 original size:9 final size:9
Alignment explanation
Indices: 44308426--44308638 Score: 92
Period size: 9 Copynumber: 23.4 Consensus size: 9
44308416 GTTCTATATT
*
44308426 TTTTTAGAA
1 TTTTTATAA
44308435 TTTTTA-ATA
1 TTTTTATA-A
44308444 TTTTTATAA
1 TTTTTATAA
*
44308453 GTGTTTAT-A
1 -TTTTTATAA
44308462 TTTTTATAA
1 TTTTTATAA
44308471 TATTTT-T-A
1 T-TTTTATAA
44308479 TTTTTATAA
1 TTTTTATAA
44308488 TTTTCTAT--
1 TTTT-TATAA
*
44308496 TTTTTTTAA
1 TTTTTATAA
44308505 TTTTCTA-ATA
1 TTTT-TATA-A
*
44308515 TATTCTA-AA
1 T-TTTTATAA
***
44308524 AAATT-TAA
1 TTTTTATAA
*
44308532 TTTTAATAA
1 TTTTTATAA
44308541 -TTTTATAA
1 TTTTTATAA
* *
44308549 TTTCTAATATT
1 TTT-TTATA-A
*
44308560 TTTTTAAAA
1 TTTTTATAA
44308569 TTTTTCTATAA
1 -TTTT-TATAA
44308580 TTTTTCTATAA
1 -TTTT-TATAA
44308591 TTTTTATAA
1 TTTTTATAA
44308600 TATTTT-T-A
1 T-TTTTATAA
44308608 TTTTTATAA
1 TTTTTATAA
44308617 TTTTCTAT-A
1 TTTT-TATAA
*
44308626 TTTTTTTAA
1 TTTTTATAA
44308635 TTTT
1 TTTT
44308639 CTAATATATT
Statistics
Matches: 158, Mismatches: 21, Indels: 50
0.69 0.09 0.22
Matches are distributed among these distances:
7 10 0.06
8 30 0.19
9 56 0.35
10 42 0.27
11 20 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44308614 original size:129 final size:131
Alignment explanation
Indices: 44308461--44308715 Score: 496
Period size: 130 Copynumber: 2.0 Consensus size: 131
44308451 AAGTGTTTAT
44308461 ATTTTTATAATATTTTTATTTTTATAATTTTCTAT-TTTTTTTAATTTTCTAATATATTCTAAAA
1 ATTTTTATAATATTTTTATTTTTATAATTTTCTATATTTTTTTAATTTTCTAATATATTCTAAAA
44308525 AATTTAATTTTAATAATTTTATAATTTCTAATA-TTTTTTTAAAATTTTTCTATAATTTTTCTAT
66 AATTTAATTTTAATAATTTTATAATTTCTAATATTTTTTTTAAAATTTTTCTATAATTTTTCTAT
44308589 A
131 A
44308590 ATTTTTATAATATTTTTATTTTTATAATTTTCTATATTTTTTTAATTTTCTAATATATTCTAAAA
1 ATTTTTATAATATTTTTATTTTTATAATTTTCTATATTTTTTTAATTTTCTAATATATTCTAAAA
44308655 AATTTAATTTTAATAATTTTATAATTTCTAATATTTTTTTTAAAATTTTTCTATAATTTTT
66 AATTTAATTTTAATAATTTTATAATTTCTAATATTTTTTTTAAAATTTTTCTATAATTTTT
44308716 ATTGATTTCA
Statistics
Matches: 124, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
129 35 0.28
130 62 0.50
131 27 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (131 bp):
ATTTTTATAATATTTTTATTTTTATAATTTTCTATATTTTTTTAATTTTCTAATATATTCTAAAA
AATTTAATTTTAATAATTTTATAATTTCTAATATTTTTTTTAAAATTTTTCTATAATTTTTCTAT
A
Found at i:44308618 original size:26 final size:26
Alignment explanation
Indices: 44308581--44308643 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
44308571 TTTCTATAAT
44308581 TTTTCTATAATTTT-TATAATATTTTTA
1 TTTT-TATAATTTTCTAT-ATATTTTTA
*
44308608 TTTTTATAATTTTCTATATTTTTTTA
1 TTTTTATAATTTTCTATATATTTTTA
* *
44308634 ATTTTCTAAT
1 TTTTTATAAT
44308644 ATATTCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTATAATTTTCTATATATTTTTA
Found at i:44308692 original size:18 final size:17
Alignment explanation
Indices: 44308529--44308691 Score: 55
Period size: 17 Copynumber: 8.9 Consensus size: 17
44308519 CTAAAAAATT
44308529 TAATTTTAATAATTTTA
1 TAATTTTAATAATTTTA
*
44308546 TAATTTCTAATATTTTTTTA
1 TAATTT-TAATA--ATTTTA
* *
44308566 AAATTTTTCTATAATTTTTCTA
1 TAA-TTTT-AATAA--TTT-TA
*
44308588 TAATTTTTATAATATTT-
1 TAATTTTAATAAT-TTTA
* * *
44308605 TTATTTTTATAATTTTC
1 TAATTTTAATAATTTTA
**
44308622 TATATTTTTTTAATTTTCTAA
1 TA-ATTTTAATAA-TTT-T-A
* **
44308643 TATATTCTAA-AAAATT-
1 TA-ATTTTAATAATTTTA
44308659 TAATTTTAATAATTTTA
1 TAATTTTAATAATTTTA
44308676 TAATTTCTAAT-ATTTT
1 TAATTT-TAATAATTTT
44308692 TTTTAAAATT
Statistics
Matches: 112, Mismatches: 17, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
15 6 0.05
16 9 0.08
17 30 0.27
18 21 0.19
19 6 0.05
20 16 0.14
21 20 0.18
22 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTTAATAATTTTA
Found at i:44309664 original size:19 final size:17
Alignment explanation
Indices: 44309640--44309683 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
44309630 CAATGCATCT
*
44309640 AATAATTATACAAATTACC
1 AATAATAATAC-AATT-CC
*
44309659 AATAATAATTCAATTCC
1 AATAATAATACAATTCC
44309676 AATAATAA
1 AATAATAA
44309684 AACACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATAATACAATTCC
Found at i:44312122 original size:98 final size:98
Alignment explanation
Indices: 44311951--44312144 Score: 343
Period size: 98 Copynumber: 2.0 Consensus size: 98
44311941 CAATAAAACA
*
44311951 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCCT
1 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
* * *
44312016 TTAGAATCCCAAATTTGGAATATTTCCTTTACT
66 TTAAAATCCCAAACTCGGAATATTTCCTTTACT
44312049 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
1 TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
*
44312114 TTAAAATCCCAAACTCGGAATATTTTCTTTA
66 TTAAAATCCCAAACTCGGAATATTTCCTTTA
44312145 TTATTTTTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (98 bp):
TTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCCT
TTAAAATCCCAAACTCGGAATATTTCCTTTACT
Found at i:44312432 original size:22 final size:21
Alignment explanation
Indices: 44312363--44312435 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
44312353 AAATAATGCA
* *
44312363 AATATATGA-ATA-AATAAAT
1 AATAAATGACATATAATATAT
*
44312382 AATGAATGACATATAATATAT
1 AATAAATGACATATAATATAT
44312403 CAAATAAATGAGCAATATAA-ATAT
1 --AATAAATGA-C-ATATAATATAT
44312427 AATAAATGA
1 AATAAATGA
44312436 AATTACGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.16
20 3 0.07
21 6 0.14
22 9 0.20
23 8 0.18
24 5 0.11
25 6 0.14
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (21 bp):
AATAAATGACATATAATATAT
Found at i:44312438 original size:27 final size:25
Alignment explanation
Indices: 44312372--44312438 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
44312362 AAATATATGA
44312372 ATAAATA-AAT-AATG-AATGACAT
1 ATAAATATAATAAATGAAATGACAT
44312394 AT-AATAT-ATCAAAT-AAATGAGCAAT
1 ATAAATATAAT-AAATGAAATGA-C-AT
44312419 ATAAATATAATAAATGAAAT
1 ATAAATATAATAAATGAAAT
44312439 TACGAAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
21 6 0.17
22 2 0.06
23 8 0.22
24 1 0.03
25 4 0.11
26 9 0.25
27 6 0.17
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.28
Consensus pattern (25 bp):
ATAAATATAATAAATGAAATGACAT
Found at i:44314453 original size:45 final size:44
Alignment explanation
Indices: 44314173--44314906 Score: 251
Period size: 44 Copynumber: 16.8 Consensus size: 44
44314163 TCGACTTTAA
* * * * *
44314173 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTACCTTCAA
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* **
44314218 TCTACCTCACTG-AAGCTTCA-GGAGGATAAGACTTGCTTTGCTT-AG
1 TCT-GCTCACTGCAA-CTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
* *
44314263 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-G
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* * * * ** * *
44314303 ATCTACTCTCTGCATCTTCAGAGAGATAAGA-TCTGAGAT-TTTAA
1 -TCTGCTCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
** * * * * ** * *
44314347 TCCACTCCACTGTAACTTCAGGGAAATAGGA-TTGTCGGCTTTAA
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
44314391 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
44314436 TCTGCCTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACATATTC-G
1 TCTG-CTCACTGCAACTTCAGGGA-GATAAGACTTGC---CATCTTCAG
* * * * *
44314483 GCT-C-CACTGCAACCTCAGGGAGATATGACTAG--A--TGC-G
1 TCTGCTCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* * * *** * *
44314520 ATCTGTTCTCTGCAACTTCAGAGAGATAAGA-TCTGAGGT-TTTAA
1 -TCTGCTCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
* * * * *
44314564 TCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTGTCAGCTTTAA
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
44314608 TCTGCTCTACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAG
1 TCTGCTC-ACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* **
44314653 TCTGCCTCACTGCAACTTTA-GGAGGATAAGACTTGCTTTGCTT-AG
1 TCTG-CTCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
* *
44314698 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--A--TGC-G
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* * * * * ** * *
44314738 ATCTACTCTCTGCATCTTCAGAGAGATACGA-TCTGAGAT-TTTAA
1 -TCTGCTCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTCAG
** * * * * * * *
44314782 TCCACTCCACTGTAACTTTAGGGAGATAGGA-TTATCGA-CTTTAA
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTT-GCCATCTTCAG
* *
44314826 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCT-CACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
44314871 TCTGCCTCACTACAACTTTA-GGAGGATAAGACTTGC
1 TCTG-CTCACTGCAACTTCAGGGA-GATAAGACTTGC
44314907 TTACATATTC
Statistics
Matches: 521, Mismatches: 114, Indels: 108
0.70 0.15 0.15
Matches are distributed among these distances:
37 3 0.01
38 2 0.00
39 4 0.01
40 68 0.13
41 10 0.02
42 2 0.00
43 24 0.05
44 195 0.37
45 182 0.35
46 22 0.04
47 3 0.01
48 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTGCTCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:44314583 original size:217 final size:218
Alignment explanation
Indices: 44314109--44315071 Score: 1392
Period size: 217 Copynumber: 4.4 Consensus size: 218
44314099 ACTTTAGGGG
* * * * *
44314109 GATAAGATCGGAGGTTTTAATCCGCTCCACTATAACTTCAGAGAGATATGATTGTCGACTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
* * * *
44314174 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTACCTTCAATCTACCTCACTG-AAGCTTCA
66 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGCCTCACTGCAA-CTTCA
* * *
44314238 GGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
130 GGAGGATAAGACTTGCTTTACATAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCG
*
44314303 ATCTACTCTCTGCATCTTCAGAGA
195 ATCTACTCTCTGCAACTTCAGAGA
* * *
44314327 GATAAGATCTGAGATTTTAATCCACTCCACTGTAACTTCAGGGAAATAGGATTGTCGGCTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
* *
44314392 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGCCTCACTGCAACTTCAG
* * *
44314457 GAGGATAAGACTTGC-TTACATATTCGGCTCCACTGCAACCTCAGGGAGATATGACTAGATGCGA
131 GAGGATAAGACTTGCTTTACATAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGA
**
44314521 TCTGTTCTCTGCAACTTCAGAGA
196 TCTACTCTCTGCAACTTCAGAGA
* * *
44314544 GATAAGATCTGAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
* * * *
44314609 CTGCTCTACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAGTCTGCCTCACTGCAACTTTAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGCCTCACTGCAACTTCAG
* * *
44314674 GAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
131 GAGGATAAGACTTGCTTTACATAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGA
*
44314739 TCTACTCTCTGCATCTTCAGAGA
196 TCTACTCTCTGCAACTTCAGAGA
* * * * * *
44314762 GATACGATCTGAGATTTTAATCCACTCCACTGTAACTTTAGGGAGATAGGATTATCGACTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
* * * *
44314827 CTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTTTAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGCCTCACTGCAACTTCAG
* * *
44314892 GAGGATAAGACTTGC-TTACATATTCTGCTCCACTGCAACCTCAGAGAGATATGACTAGATGCGA
131 GAGGATAAGACTTGCTTTACATAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGA
* *
44314956 TTTGCTCTCTGCAACTTCAGAGA
196 TCTACTCTCTGCAACTTCAGAGA
* * * * * * *
44314979 GGTAAGATTTGAGGTTTTAATCCGCTCTACTGCAATTTCAGGGAGATAGGATTATTGGCTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
44315044 CTGCTCCACTGCAACTTCAGGGAGATAA
66 CTGCTCCACTGCAACTTCAGGGAGATAA
44315072 AACTCAATTT
Statistics
Matches: 664, Mismatches: 79, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
217 340 0.51
218 322 0.48
219 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
GATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGTCGGCTTTAAT
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCACCTTCAGTCTGCCTCACTGCAACTTCAG
GAGGATAAGACTTGCTTTACATAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGA
TCTACTCTCTGCAACTTCAGAGA
Found at i:44314924 original size:435 final size:434
Alignment explanation
Indices: 44314109--44315071 Score: 1595
Period size: 435 Copynumber: 2.2 Consensus size: 434
44314099 ACTTTAGGGG
* ** * *
44314109 GATAAGATCGGAGGTTTTAATCCGCTCCACTATAACTTCAGAGAGATATGATTGTCGACTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCG-CTTTAAT
* *
44314174 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGCTACCTTCAATCTACCTCACTGAAGCTTCAG
65 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAATCTACCTCACTGAAGCTTCAG
44314239 GAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
130 GAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
44314304 TCTACTCTCTGCATCTTCAGAGAGATAAGATCTGAGATTTTAATCCACTCCACTGTAACTTCAGG
195 TCTACTCTCTGCATCTTCAGAGAGATAAGATCTGAGATTTTAATCCACTCCACTGTAACTTCAGG
* *
44314369 GAAATAGGATTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
260 GAAATAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
**
44314434 AGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTGCTTACATATTCGGCTCCACTGCAACCTC
325 AGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACATATTCGGCTCCACTGCAACCTC
* *
44314499 AGGGAGATATGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGA
390 AGAGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
*
44314544 GATAAGATCTGAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGTCAGCTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTC-GCTTTAAT
* * * *
44314609 CTGCTCTACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAGTCTGCCTCACTGCAA-CTTTA
65 CTGCTCCACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAATCTACCTCACTG-AAGCTTCA
44314673 GGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
129 GGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCG
* *
44314738 ATCTACTCTCTGCATCTTCAGAGAGATACGATCTGAGATTTTAATCCACTCCACTGTAACTTTAG
194 ATCTACTCTCTGCATCTTCAGAGAGATAAGATCTGAGATTTTAATCCACTCCACTGTAACTTCAG
* *
44314803 GGAGATAGGATTATCGACTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
259 GGAAATAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
* *
44314868 CAGTCTGCCTCACTACAACTTTAGGAGGATAAGACTTGCTTACATATTCTGCTCCACTGCAACCT
324 CAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACATATTCGGCTCCACTGCAACCT
*
44314933 CAGAGAGATATGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGA
389 CAGAGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
* * * * * *
44314979 GGTAAGATTTGAGGTTTTAATCCGCTCTACTGCAATTTCAGGGAGATAGGATTATTGGCTTTAAT
1 GATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-GTCGCTTTAAT
*
44315044 CTGCTCCACTGCAACTTCAGGGAGATAA
65 CTGCTCCACTACAACTTCAGGGAGATAA
44315072 AACTCAATTT
Statistics
Matches: 491, Mismatches: 34, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
435 487 0.99
436 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (434 bp):
GATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGCTTTAATC
TGCTCCACTACAACTTCAGGGAGATAAGACTTGCCACCTTCAATCTACCTCACTGAAGCTTCAGG
AGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGAT
CTACTCTCTGCATCTTCAGAGAGATAAGATCTGAGATTTTAATCCACTCCACTGTAACTTCAGGG
AAATAGGATTATCGACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCA
GTCTGCCTCACTACAACTTCAGGAGGATAAGACTTGCTTACATATTCGGCTCCACTGCAACCTCA
GAGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
Found at i:44326591 original size:98 final size:98
Alignment explanation
Indices: 44326422--44326618 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
44326412 GTACAATAAA
* *
44326422 ACTTTAAAAGAACATCCACTTATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
44326487 CCTTTAAAATCCCAAATTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
44326520 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
44326585 CCTTTAAAATCCCAAACTCGGAATATTTTCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
44326618 A
1 A
44326619 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:44326908 original size:22 final size:21
Alignment explanation
Indices: 44326851--44326911 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
44326841 TATATGAACA
* *
44326851 AATAAATAATGAATGACATAT
1 AATATATAATAAATGACATAT
44326872 AATATATCAAATAAATGAGCAATAT
1 AATATAT--AATAAATGA-C-ATAT
44326897 AA-ATATAATAAATGA
1 AATATATAATAAATGA
44326912 AATTACGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.18
22 9 0.26
23 8 0.24
24 5 0.15
25 6 0.18
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (21 bp):
AATATATAATAAATGACATAT
Found at i:44328288 original size:17 final size:17
Alignment explanation
Indices: 44328266--44328307 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
44328256 CCAAATCTGC
* * *
44328266 TTTGGGCTTCTGTTTGG
1 TTTGGGCCTCAGTTGGG
44328283 TTTGGGCCTCAGTTGGG
1 TTTGGGCCTCAGTTGGG
44328300 TTTGGGCC
1 TTTGGGCC
44328308 ACCTCGGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.02, C:0.17, G:0.38, T:0.43
Consensus pattern (17 bp):
TTTGGGCCTCAGTTGGG
Found at i:44329135 original size:23 final size:23
Alignment explanation
Indices: 44329102--44329200 Score: 117
Period size: 23 Copynumber: 4.3 Consensus size: 23
44329092 TTATTGATCG
* *
44329102 ATCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
44329125 TTTAGTGGTAGCTACTGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
44329148 ATCAGTGGTAGCTACGACTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
44329171 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
44329194 ATCAGTG
1 ATCAGTG
44329201 TTGCACTTAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:44337418 original size:28 final size:29
Alignment explanation
Indices: 44337374--44337428 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
44337364 TATTATTTTA
*
44337374 ATTTTTTTAAAATTCTTAACAATAATTCT
1 ATTTTTTTAAAATTCTTAAAAATAATTCT
44337403 ATTTTTTTAAAA-TCTTAAAAATAATT
1 ATTTTTTTAAAATTCTTAAAAATAATT
44337429 ATAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTTTTTAAAATTCTTAAAAATAATTCT
Found at i:44337440 original size:28 final size:29
Alignment explanation
Indices: 44337380--44337442 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
44337370 TTTAATTTTT
* * ** *
44337380 TTAAAATTCTTAACAATAATTCTATTTTT
1 TTAAAATTCTTAAAAATAATTATAAATTA
44337409 TTAAAA-TCTTAAAAATAATTATAAATTA
1 TTAAAATTCTTAAAAATAATTATAAATTA
44337437 TTAAAA
1 TTAAAA
44337443 ATAATAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (29 bp):
TTAAAATTCTTAAAAATAATTATAAATTA
Found at i:44341279 original size:11 final size:11
Alignment explanation
Indices: 44341263--44341287 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44341253 ATTGATAAAA
44341263 ATAAGGATGAC
1 ATAAGGATGAC
44341274 ATAAGGATGAC
1 ATAAGGATGAC
44341285 ATA
1 ATA
44341288 GAATGGACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (11 bp):
ATAAGGATGAC
Found at i:44361814 original size:52 final size:52
Alignment explanation
Indices: 44361754--44361857 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
44361744 ATAAAATAGG
* *
44361754 TAATGTGTAAACA-TCAAGGATTACATTTTTAAAAATTAAGAGTAAATTGACA
1 TAATGTGTAAACATTCAAGG-TTAAAATTTTAAAAATTAAGAGTAAATTGACA
** ** *
44361806 TAATGTGTAAGTATTGGAGGTTAAAATTTTAAAAATTAAGATTAAATTGACA
1 TAATGTGTAAACATTCAAGGTTAAAATTTTAAAAATTAAGAGTAAATTGACA
44361858 CTATGTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 40 0.91
53 4 0.09
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (52 bp):
TAATGTGTAAACATTCAAGGTTAAAATTTTAAAAATTAAGAGTAAATTGACA
Found at i:44365030 original size:30 final size:31
Alignment explanation
Indices: 44364962--44365021 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
44364952 GACTTAAATA
* *
44364962 AAAACTTTTGAATAGTTCAATGGCTTGAATG
1 AAAACTTTCGAATAGTTCAATGGATTGAATG
44364993 AAAACTTTCGAATAGTTCAAT-GATTGAAT
1 AAAACTTTCGAATAGTTCAATGGATTGAAT
44365022 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (31 bp):
AAAACTTTCGAATAGTTCAATGGATTGAATG
Found at i:44371147 original size:23 final size:23
Alignment explanation
Indices: 44371121--44371164 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44371111 ATGATATCTG
44371121 TCAACATCATCAACTATCCACTA
1 TCAACATCATCAACTATCCACTA
*
44371144 TCAACATCATCCACTATCCAC
1 TCAACATCATCAACTATCCAC
44371165 ATTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (23 bp):
TCAACATCATCAACTATCCACTA
Found at i:44371157 original size:16 final size:16
Alignment explanation
Indices: 44371136--44371166 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44371126 ATCATCAACT
44371136 ATCCACTATCAACATC
1 ATCCACTATCAACATC
*
44371152 ATCCACTATCCACAT
1 ATCCACTATCAACAT
44371167 TTAATTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (16 bp):
ATCCACTATCAACATC
Found at i:44375784 original size:11 final size:11
Alignment explanation
Indices: 44375770--44375796 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44375760 TTATGTGTAA
44375770 ATTATTTATTT
1 ATTATTTATTT
44375781 ATTATTTATTT
1 ATTATTTATTT
44375792 ATTAT
1 ATTAT
44375797 ACTTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:44379466 original size:5 final size:5
Alignment explanation
Indices: 44379456--44379480 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44379446 TTGCTCCCTC
44379456 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
44379481 TCTCTCTGCC
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):
CTTTT
Found at i:44381554 original size:22 final size:21
Alignment explanation
Indices: 44381529--44381574 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
44381519 AAATTGTTGC
* *
44381529 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
44381551 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
44381572 ATT
1 ATT
44381575 GCCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:44381588 original size:23 final size:23
Alignment explanation
Indices: 44381560--44381643 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
44381550 GATTTGTTCT
44381560 GAAATTGTTTTGATTGCCTGCTG
1 GAAATTGTTTTGATTGCCTGCTG
* * *
44381583 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGCCTGCTG
* *
44381606 AAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGCCTGCTG
*
44381629 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
44381644 TGTTTATGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.43
Consensus pattern (23 bp):
GAAATTGTTTTGATTGCCTGCTG
Found at i:44386219 original size:28 final size:27
Alignment explanation
Indices: 44386188--44386260 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 27
44386178 ATTTATTAGT
44386188 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTTATGTAAT-A
* * *
44386216 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATGTAATA
*
44386243 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
44386261 CATTTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
26 9 0.26
27 8 0.23
28 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATGTAATA
Found at i:44386314 original size:66 final size:63
Alignment explanation
Indices: 44386239--44386436 Score: 175
Period size: 66 Copynumber: 3.2 Consensus size: 63
44386229 AAATATATTT
44386239 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
44386304 G
63 G
* * * * **
44386305 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
44386359 AATAATAATTATGTT-AATTTATATTTTACAGTATCATGTATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
44386423 AG
62 AG
44386425 AATATTAATTAT
1 AATATTAATTAT
44386437 AATATATTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 30
0.69 0.10 0.20
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 4 0.04
57 3 0.03
58 1 0.01
59 9 0.09
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 4 0.04
65 6 0.06
66 30 0.29
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:44386341 original size:120 final size:120
Alignment explanation
Indices: 44386201--44386436 Score: 363
Period size: 120 Copynumber: 2.0 Consensus size: 120
44386191 AATTATTTTA
*
44386201 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
44386263 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
44386321 AATTTTAT-TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATGT-AATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTT
*
44386385 TACAGTATCATGTATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT
44386437 AATATATTTA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
119 7 0.07
120 98 0.92
121 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:44386361 original size:15 final size:15
Alignment explanation
Indices: 44386326--44386377 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44386316 TTAAGAATTT
*
44386326 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44386340 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44386354 TATTTAATAATAAT-
1 TATTTAATTATAATA
44386368 TATGTTAATT
1 TAT-TTAATT
44386378 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44386619 original size:16 final size:16
Alignment explanation
Indices: 44386598--44386632 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44386588 ATATATTAAA
44386598 TAACAATAACAATATT
1 TAACAATAACAATATT
44386614 TAACAATAACAATATT
1 TAACAATAACAATATT
44386630 TAA
1 TAA
44386633 TAATTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:44386697 original size:18 final size:17
Alignment explanation
Indices: 44386669--44386703 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44386659 ATTATTAAGA
*
44386669 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44386686 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44386704 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44394179 original size:21 final size:21
Alignment explanation
Indices: 44394155--44394195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44394145 ATCTCACCTC
*
44394155 TACAGTATCCAATCTCACTGT
1 TACAGTAACCAATCTCACTGT
*
44394176 TACAGTAACTAATCTCACTG
1 TACAGTAACCAATCTCACTG
44394196 CCACCGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
TACAGTAACCAATCTCACTGT
Found at i:44395045 original size:27 final size:27
Alignment explanation
Indices: 44395015--44395066 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
44395005 AATTTGACAA
* *
44395015 AAAAAAACGTTAAGGGCCAAAGTGATC
1 AAAAAAACATAAAGGGCCAAAGTGATC
* *
44395042 AAAAAAATATAAAGGGTCAAAGTGA
1 AAAAAAACATAAAGGGCCAAAGTGA
44395067 CCTAACAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.21, T:0.15
Consensus pattern (27 bp):
AAAAAAACATAAAGGGCCAAAGTGATC
Found at i:44396155 original size:41 final size:41
Alignment explanation
Indices: 44396098--44396180 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
44396088 TCTTTTATTC
44396098 TTTGGTTGCTATGGTGTTTGATAAAGAATGTGACACCAGTT
1 TTTGGTTGCTATGGTGTTTGATAAAGAATGTGACACCAGTT
44396139 TTTGGTTGCTATGGTGTTTGATAAAGAATGTGACACCAGTT
1 TTTGGTTGCTATGGTGTTTGATAAAGAATGTGACACCAGTT
44396180 T
1 T
44396181 ATCTTTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.40
Consensus pattern (41 bp):
TTTGGTTGCTATGGTGTTTGATAAAGAATGTGACACCAGTT
Found at i:44397518 original size:3 final size:3
Alignment explanation
Indices: 44397503--44397553 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
44397493 TATGTATATA
* *
44397503 ATT ATT ATA ATT ATT AACT ATT ATT ATGGT -TT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT
44397550 ATT A
1 ATT A
44397554 AATAAAGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 3 0.08
5 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:44399176 original size:44 final size:44
Alignment explanation
Indices: 44399109--44399208 Score: 155
Period size: 44 Copynumber: 2.2 Consensus size: 44
44399099 GCCGACTACT
**
44399109 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTA-CGATTCAACACTTTGTGTGTCGAATACTGTTACC
* *
44399154 GTTACTGTTACGATTCAACACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACGATTCAACACTTTGTGTGTCGAATACTGTTACC
44399198 GTTACTGTTAC
1 GTTACTGTTAC
44399209 TGTTATCGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 41 0.80
45 10 0.20
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (44 bp):
GTTACTGTTACGATTCAACACTTTGTGTGTCGAATACTGTTACC
Found at i:44399199 original size:6 final size:6
Alignment explanation
Indices: 44399188--44399236 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
44399178 GTGTGTTGAA
44399188 TACTGT TACTGT TACTGT TACTGT TA-TCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TACTG-T TACTG
44399237 GTGTGTTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
5 1 0.03
6 25 0.64
7 13 0.33
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:44401484 original size:33 final size:33
Alignment explanation
Indices: 44401447--44401590 Score: 129
Period size: 33 Copynumber: 4.5 Consensus size: 33
44401437 AATCTATTGA
*
44401447 GACAATAAACATAGAATAGAGATAGTTCGTTGG
1 GACAATAAACACAGAATAGAGATAGTTCGTTGG
* *
44401480 GACAAT-AACACATAAT--AGATAGTCCGCTT-G
1 GACAATAAACACAGAATAGAGATAGTTCG-TTGG
* * * * *
44401510 GACAGTAAATACAGAACAAAGATAG-TCTGTTAG
1 GACAATAAACACAGAATAGAGATAGTTC-GTTGG
*
44401543 GAAAATAAACACAGAATAGAGATAGTAT-GTTGG
1 GACAATAAACACAGAATAGAGATAGT-TCGTTGG
*
44401576 GACAGTAAACACAGA
1 GACAATAAACACAGA
44401591 TAAAGTCCAC
Statistics
Matches: 87, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
30 15 0.17
31 9 0.10
32 11 0.13
33 51 0.59
35 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (33 bp):
GACAATAAACACAGAATAGAGATAGTTCGTTGG
Found at i:44401564 original size:96 final size:95
Alignment explanation
Indices: 44401402--44401588 Score: 236
Period size: 96 Copynumber: 2.0 Consensus size: 95
44401392 ACATTCAAAG
* * *
44401402 AGATAGTCCGCTAGAACAGTAAACACAAAAGAGATAATCTATTGAGACAATAAACATAGAATAGA
1 AGATAGTCCGCTAGAACAGTAAACACAAAAAAGATAATCTATTGAGAAAATAAACACAGAATAGA
44401467 GATAGT-TCGTTGGGACAAT-AACACATAAT
66 GATAGTAT-GTTGGGACAATAAACACATAAT
* * * * *
44401496 AGATAGTCCGCTTGGACAGTAAATACAGAACAAAGATAGTCTGTT-AGGAAAATAAACACAGAAT
1 AGATAGTCCGCTAGAACAGTAAACACA-AA-AAAGATAATCTATTGA-GAAAATAAACACAGAAT
*
44401560 AGAGATAGTATGTTGGGACAGTAAACACA
63 AGAGATAGTATGTTGGGACAATAAACACA
44401589 GATAAAGTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
94 24 0.30
95 3 0.04
96 45 0.57
97 7 0.09
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.21
Consensus pattern (95 bp):
AGATAGTCCGCTAGAACAGTAAACACAAAAAAGATAATCTATTGAGAAAATAAACACAGAATAGA
GATAGTATGTTGGGACAATAAACACATAAT
Found at i:44404277 original size:23 final size:23
Alignment explanation
Indices: 44404206--44404287 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 23
44404196 CCTGATCAGT
44404206 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
* ** *
44404227 A-ACAACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
*
44404247 ATATGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
44404270 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
44404288 TTGGTCGGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
20 8 0.17
21 21 0.45
23 18 0.38
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:44405460 original size:13 final size:13
Alignment explanation
Indices: 44405431--44405471 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
44405421 CCCGTTTTGC
44405431 TCTCTGTTTCT-T
1 TCTCTGTTTCTAT
44405443 TCTCTGTTTCTAT
1 TCTCTGTTTCTAT
*
44405456 TCTCTTTTTCTAT
1 TCTCTGTTTCTAT
44405469 TCT
1 TCT
44405472 TTCTTTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.66
Consensus pattern (13 bp):
TCTCTGTTTCTAT
Found at i:44410827 original size:24 final size:25
Alignment explanation
Indices: 44410798--44410852 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
44410788 TAATAACTGC
*
44410798 TTTATTTATATAA-AATA-ATAATTA
1 TTTATTTA-ATAATAATATATAAATA
*
44410822 TTTA-TTAATAATTATATATAAATA
1 TTTATTTAATAATAATATATAAATA
44410846 TTTATTT
1 TTTATTT
44410853 TCTTCGGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 6 0.23
24 14 0.54
25 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATTTAATAATAATATATAAATA
Found at i:44410832 original size:14 final size:14
Alignment explanation
Indices: 44410813--44410852 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44410803 TTATATAAAA
44410813 TAATAATTATTTAT
1 TAATAATTATTTAT
*
44410827 TAATAATTATATAT
1 TAATAATTATTTAT
* *
44410841 AAATATTTATTT
1 TAATAATTATTT
44410853 TCTTCGGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATAATTATTTAT
Found at i:44418420 original size:11 final size:11
Alignment explanation
Indices: 44418404--44418428 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44418394 ACATGCTTTA
44418404 AATATTAAAAT
1 AATATTAAAAT
44418415 AATATTAAAAT
1 AATATTAAAAT
44418426 AAT
1 AAT
44418429 TTTTTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:44423840 original size:19 final size:20
Alignment explanation
Indices: 44423816--44423863 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
44423806 AAAAGTATAT
44423816 AAATATAAAA-ATTCAAAAA
1 AAATATAAAATATTCAAAAA
* *
44423835 AAATATAAAATTTTGAAAAA
1 AAATATAAAATATTCAAAAA
44423855 AAATATAAA
1 AAATATAAA
44423864 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATATAAAATATTCAAAAA
Found at i:44423855 original size:20 final size:20
Alignment explanation
Indices: 44423816--44423883 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 20
44423806 AAAAGTATAT
* *
44423816 AAATATAAAA-ATTCAAAAA
1 AAATATAAAATTTTAAAAAA
*
44423835 AAATATAAAATTTTGAAAAA
1 AAATATAAAATTTTAAAAAA
44423855 AAATAT-AAATTTTAAAAATA
1 AAATATAAAATTTTAAAAA-A
44423875 AAAT-TAAAA
1 AAATATAAAA
44423884 AAATGTGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 22 0.51
20 21 0.49
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (20 bp):
AAATATAAAATTTTAAAAAA
Found at i:44424240 original size:20 final size:21
Alignment explanation
Indices: 44424190--44424266 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
44424180 TTAAAAACAT
44424190 TTTTTAATATTTAAATATTTA-A
1 TTTTTAAT-TTTAAAT-TTTATA
* **
44424212 TATTATAATTTTTTATTTT-TA
1 T-TTTTAATTTTAAATTTTATA
44424233 TTTTTAA-TTTAAATTTTATA
1 TTTTTAATTTTAAATTTTATA
44424253 TTTTTAA-TTTAAAT
1 TTTTTAATTTTAAAT
44424267 AAACTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.17
20 21 0.46
21 5 0.11
22 6 0.13
23 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTAAATTTTATA
Found at i:44424247 original size:26 final size:28
Alignment explanation
Indices: 44424207--44424267 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
44424197 TATTTAAATA
*
44424207 TTTAATATTATAATTTTTTATTTTTATT
1 TTTAATATTATAATTTTATATTTTTATT
*
44424235 TTTAAT-TTA-AATTTTATATTTTTAAT
1 TTTAATATTATAATTTTATATTTTTATT
*
44424261 TTAAATA
1 TTTAATA
44424268 AACTTAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 20 0.69
27 3 0.10
28 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTAATATTATAATTTTATATTTTTATT
Found at i:44426110 original size:125 final size:125
Alignment explanation
Indices: 44425847--44426224 Score: 571
Period size: 125 Copynumber: 3.0 Consensus size: 125
44425837 TTAGGGTTTT
* * * * *
44425847 TAGGTCCTGGAAGAAAT-AATTTTGAGTTGATGTTTCTAATCAAATAGTATAAAATCACTTCTAG
1 TAGGTCATGGAAGAAATAAATTTT--TTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAG
* * *
44425911 CAGGATGCTATTTGAGAAGAATTTGTG-AAATCGCGCCTTAGTGGACGCGCTTTTGCTACAG
64 CAGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
*
44425972 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACCA
1 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCA
** *
44426037 AAATGCTATTTGAGAAGAATTTGTGAAAATAGCGCCCTCGTGGACGCACTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
* * *
44426097 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGA
1 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCA
**
44426162 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCATCCTCGTGGACGCACTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
44426222 TAG
1 TAG
44426225 CACGTTTGAG
Statistics
Matches: 230, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 59 0.26
125 165 0.72
126 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
Found at i:44429379 original size:17 final size:17
Alignment explanation
Indices: 44429312--44429379 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
44429302 TATGTGAATG
*
44429312 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
44429328 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
44429347 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
44429366 TAAAATTATTAATT
1 TAAAATTATTAATT
44429380 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:44429475 original size:23 final size:23
Alignment explanation
Indices: 44429447--44429886 Score: 461
Period size: 23 Copynumber: 19.8 Consensus size: 23
44429437 TTAATTTCGT
*
44429447 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
***
44429470 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAATTAGG
**
44429493 TTAGGGTTTTTAAG-TAA-CGGG
1 TTAGGGTTTTTAAGTTAATTAGG
44429514 TTAGGGTTTTTAAG-T--TTAGGG
1 TTAGGGTTTTTAAGTTAATTA-GG
*
44429535 TTTAGGGGTTTTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGG
*
44429559 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429580 TTAGAG-TTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
44429602 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
44429625 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
44429646 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429669 TTAGAGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429690 TTAGGGTTTTTAATTTAATTAAG
1 TTAGGGTTTTTAAGTTAATTAGG
*
44429713 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429736 TTAGAGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
44429757 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
44429780 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429801 TTAGAGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
44429824 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
44429845 TTTAAGGTTTTTAA-TTAATTTAGT
1 -TTAGGGTTTTTAAGTTAA-TTAGG
*
44429869 TTATGGTTTTTAAGTTAA
1 TTAGGGTTTTTAAGTTAA
44429887 GGGTATTAAT
Statistics
Matches: 351, Mismatches: 42, Indels: 47
0.80 0.10 0.11
Matches are distributed among these distances:
20 10 0.03
21 107 0.30
22 35 0.10
23 187 0.53
24 9 0.03
25 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAAGTTAATTAGG
Found at i:44429524 original size:44 final size:44
Alignment explanation
Indices: 44429447--44429890 Score: 535
Period size: 44 Copynumber: 10.0 Consensus size: 44
44429437 TTAATTTCGT
44429447 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
* ** *
44429493 TTAGGGTTTTTAA-GTAA-CGGGTTAGGGTTTTTAAGTTTAGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
* *
44429535 TTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
* *
44429580 TTAGAG-TTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
* * *
44429625 TTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
* * * * **
44429669 TTAGAGTTTTTAAGTTAA--GGGTTAGGGTTTTTAATTTAATTAAG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGG
*
44429713 TTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
44429757 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
*
44429801 TTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
* * *
44429845 TTTAAGGTTTTTAA-TTAATTTAGTTTATGGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAATTTAA-TTAGGTTAGGGTTTTTAAGTTAAGGG
44429890 T
1 T
44429891 ATTAATTGTT
Statistics
Matches: 356, Mismatches: 32, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
42 3 0.01
43 45 0.13
44 200 0.56
45 67 0.19
46 41 0.12
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (44 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
Found at i:44429646 original size:111 final size:110
Alignment explanation
Indices: 44429447--44429841 Score: 571
Period size: 111 Copynumber: 3.6 Consensus size: 110
44429437 TTAATTTCGT
* * * * ***
44429447 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAG-TAA-
1 TTAGGGTTTTTAAGTTAA--GGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAT
** * *
44429510 CGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGGTTTTAATTAAATTAGG
64 TAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATT-AATTAGG
44429559 TTAGGGTTTTTAAGTTAAGGGTTAGAG-TTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA
1 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA
44429623 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATTAGG
66 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA-TTAATTAGG
* * * *
44429669 TTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAATTTAATTA
1 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA
*
44429734 GGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTAGG
66 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA-TTAATTAGG
44429780 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
44429842 GGGTTTAAGG
Statistics
Matches: 258, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
109 26 0.10
110 54 0.21
111 161 0.62
112 17 0.07
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (110 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATTA
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTAATTAGG
Found at i:44429759 original size:155 final size:154
Alignment explanation
Indices: 44429447--44429886 Score: 629
Period size: 155 Copynumber: 2.8 Consensus size: 154
44429437 TTAATTTCGT
44429447 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAG-TAA-
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAT
** * * * *
44429510 CGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT
64 TAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTT
* *
44429575 AAGGGTTAGAGTTTTAATTTAATTAGG
129 AAAGGTTAGAGTTTTAAGTTAA-TAGG
*
44429602 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATTA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATTA
* *
44429667 GGTTAGAGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAATTTAA
66 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTTAA
*
44429731 TTAGGTTAGAGTTTTTAAGTTAA-GGG
131 --AGGTTAGAG-TTTTAAGTTAATAGG
* *
44429757 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAATTTAATTA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATTA
* * *
44429822 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAA-TTAATTTAGTTTATGGTTTTTAAGTTA
66 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAAG-TTAGGGTTTTTAAGTTA
44429886 A
130 A
44429887 GGGTATTAAT
Statistics
Matches: 258, Mismatches: 20, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
153 17 0.07
154 40 0.16
155 155 0.60
156 36 0.14
157 10 0.04
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (154 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAATTA
GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTTAA
AGGTTAGAGTTTTAAGTTAATAGG
Found at i:44431020 original size:7 final size:7
Alignment explanation
Indices: 44431010--44431034 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44431000 TTATATACAT
44431010 AATACTA
1 AATACTA
44431017 AATACTA
1 AATACTA
44431024 AATACTA
1 AATACTA
44431031 AATA
1 AATA
44431035 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:44432150 original size:12 final size:12
Alignment explanation
Indices: 44432133--44432163 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44432123 ATTTTTACGG
44432133 TTTAAAAAAATT
1 TTTAAAAAAATT
*
44432145 TTTAAAAAATTT
1 TTTAAAAAAATT
44432157 TTTAAAA
1 TTTAAAA
44432164 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAAAAAATT
Found at i:44432157 original size:10 final size:11
Alignment explanation
Indices: 44432137--44432175 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
44432127 TTACGGTTTA
44432137 AAAAAATTTTT
1 AAAAAATTTTT
44432148 AAAAAATTTTT
1 AAAAAATTTTT
*
44432159 -TAAAATTATTT
1 AAAAAATT-TTT
44432170 AAAAAA
1 AAAAAA
44432176 AGGGAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 6 0.25
11 14 0.58
12 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAAAATTTTT
Found at i:44438668 original size:125 final size:125
Alignment explanation
Indices: 44438445--44438678 Score: 387
Period size: 125 Copynumber: 1.9 Consensus size: 125
44438435 CCCAACGGTT
* *
44438445 AAAAATTATTTCTTACATAACCTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATT
1 AAAAATTATTTCTTACATAACATACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATT
* * *
44438510 TCTACTCAAATAGCATCCTCGTAGAAGTAATTTTATACTATTTGCTTAGAAACATCAAAA
66 TCTACTCAAATAACATCCTCGTAGAAGCAATTTTATACAATTTGCTTAGAAACATCAAAA
*
44438570 AAAAATTATTTCTTACATGACATACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATT
1 AAAAATTATTTCTTACATAACATACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATT
* * *
44438635 TCTTCTCAAATAACATCCTGGTAGAAGCGATTTTATACAATTTG
66 TCTACTCAAATAACATCCTCGTAGAAGCAATTTTATACAATTTG
44438679 ACCAGAAAAC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 100 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (125 bp):
AAAAATTATTTCTTACATAACATACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATT
TCTACTCAAATAACATCCTCGTAGAAGCAATTTTATACAATTTGCTTAGAAACATCAAAA
Found at i:44440998 original size:296 final size:291
Alignment explanation
Indices: 44440500--44441037 Score: 683
Period size: 296 Copynumber: 1.8 Consensus size: 291
44440490 TTCAAATCAG
* *
44440500 TCTTTTAATTTGTTTTTGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
1 TCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
* * * ** *
44440565 TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACTCTGTAAAGTCTTCTAATTTTATTTTATTG
66 TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATTTAATTACATCG
* * * *
44440630 TTTCTGCTAAGCGCTGGCTCCAAAAAGTAATAAAAGCACTTCTTTTTCTACGTTTAAGAGCTTAT
131 TTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCA--TCTTATTCTACGTTTAAGAACTTAT
*
44440695 TGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTTCATCTTATATGATGAGAGGAAAA
194 TGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCTTATATGATGAGAGGAAAA
44440760 CCGAATTTGTTTAAGATTTTTTTTTTAAAACAA
259 CCGAATTTGTTTAAGATTTTTTTTTTAAAACAA
* *
44440793 TCTTTTAAATTTCTTTTCGTT-TTTTTTCTCGTAAAAGG-GATATATTAGGTTTAAGGTTTAACA
1 TCTTTT-AATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAG-TATATTAGGTTTAAGATTTAAC-
* * *
44440856 TTTTTTAGGTAATGGTTTGAGTATTTACTAGCGTCTGGACCCTGGGAAGTC-TC--ATATTAATT
63 -GTTTTAGGTAAT-GATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAAT-TTAATT
* * * *
44440918 ACATCGTTTCTGCTAATCATTTGATCCAAACTCAAAAGTAATAAAAGCA-CTTATTCTGCGTTTA
125 ACATCGTTTCTGCTAAGCACTGGATCC--A---AAAAGTAATAAAAGCATCTTATTCTACGTTTA
* * * *
44440982 GGAATTTCTTGATCGATGTATGTTCAAATTTATTGCAGGCATTAGCGTCTCCATCT
185 AGAACTTATTGATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCT
44441038 CAGAGACGCA
Statistics
Matches: 208, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
292 1 0.00
293 45 0.22
294 36 0.17
295 13 0.06
296 97 0.47
299 16 0.08
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.42
Consensus pattern (291 bp):
TCTTTTAATTTCTTTTCGTTGTTTTTTCTCGAAAAAGGAGTATATTAGGTTTAAGATTTAACGTT
TTAGGTAATGATTGAGTATTTACTAGCGTCTGGACCCTGGAAAGTCTTCTAATTTAATTACATCG
TTTCTGCTAAGCACTGGATCCAAAAAGTAATAAAAGCATCTTATTCTACGTTTAAGAACTTATTG
ATCGATGTATGTTCAAATTGATTGCAGGCATTAGCGTCTCCATCTTATATGATGAGAGGAAAACC
GAATTTGTTTAAGATTTTTTTTTTAAAACAA
Found at i:44444460 original size:13 final size:13
Alignment explanation
Indices: 44444442--44444469 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44444432 TATACCTCTA
44444442 TGGAGTTGAATTT
1 TGGAGTTGAATTT
44444455 TGGAGTTGAATTT
1 TGGAGTTGAATTT
44444468 TG
1 TG
44444470 AAAGTGATGC
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:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (13 bp):
TGGAGTTGAATTT
Found at i:44450928 original size:45 final size:45
Alignment explanation
Indices: 44450870--44450957 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
44450860 ATAATATTCA
* * *
44450870 ATTATTTTTATATGTGAAATATTTCA-ATTAATTATTTCAAATATC
1 ATTATATTTATATGTGAAATATTTCAGA-TAACTATTTAAAATATC
44450915 ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATA
1 ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATA
44450958 CACGTATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 38 0.97
46 1 0.03
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (45 bp):
ATTATATTTATATGTGAAATATTTCAGATAACTATTTAAAATATC
Found at i:44455443 original size:15 final size:16
Alignment explanation
Indices: 44455417--44455446 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44455407 AATAAATTAT
44455417 TAAAAATACATAAAAA
1 TAAAAATACATAAAAA
44455433 TAAAAAT-CATAAAA
1 TAAAAATACATAAAA
44455447 TTTATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAAATACATAAAAA
Found at i:44455762 original size:29 final size:30
Alignment explanation
Indices: 44455727--44455788 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
44455717 AACTCCCAAA
* *
44455727 CCTTTTTACTTTTCCCTC-AAAACTTTTACT
1 CCTTTTCAC-TTTCCCCCAAAAACTTTTACT
44455757 CCTTTTCACTTTCCCCCAAAAACTTTTACT
1 CCTTTTCACTTTCCCCCAAAAACTTTTACT
44455787 CC
1 CC
44455789 CCTCCCCTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (30 bp):
CCTTTTCACTTTCCCCCAAAAACTTTTACT
Found at i:44457008 original size:27 final size:28
Alignment explanation
Indices: 44456944--44457008 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
44456934 TTAAAAAATC
*
44456944 AATTATC-CATTAATTTATTTATCAATG
1 AATTATCAAATTAATTTATTTATCAATG
* * *
44456971 AATT-GCTAAATTAATTT-TTTATCATTT
1 AATTATC-AAATTAATTTATTTATCAATG
44456998 AATTATCAAAT
1 AATTATCAAAT
44457009 GAATAGTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.03
27 20 0.67
28 9 0.30
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTATCAAATTAATTTATTTATCAATG
Found at i:44458688 original size:15 final size:15
Alignment explanation
Indices: 44458655--44458690 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44458645 ATATAATATT
44458655 AAAATAAATAAAATA
1 AAAATAAATAAAATA
* *
44458670 AAAATAAATTAATTA
1 AAAATAAATAAAATA
44458685 AAAATA
1 AAAATA
44458691 TTATCCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:44463239 original size:20 final size:22
Alignment explanation
Indices: 44463216--44463258 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
44463206 ACAATATAAT
*
44463216 TATTTTTAT-TATG-TTTTAAA
1 TATTTTTATATAGGTTTTTAAA
44463236 TATTTTTATATAGGTTTTTAAA
1 TATTTTTATATAGGTTTTTAAA
44463258 T
1 T
44463259 TTAAACCAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATATAGGTTTTTAAA
Found at i:44463563 original size:32 final size:32
Alignment explanation
Indices: 44463501--44463564 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
44463491 TTAAAATATG
* * *
44463501 TTTGTTAAAAATTTTTAAATTCTTATTTTTTT
1 TTTGTGAAAAATTTTAAAATTCTTAATTTTTT
* *
44463533 TTTGTGAATAATTTTAAAATT-TTAAATTTTT
1 TTTGTGAAAAATTTTAAAATTCTTAATTTTTT
44463564 T
1 T
44463565 AAACACATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (32 bp):
TTTGTGAAAAATTTTAAAATTCTTAATTTTTT
Found at i:44466671 original size:26 final size:26
Alignment explanation
Indices: 44466592--44466671 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
44466582 GCACACCGCA
* *
44466592 GCTCTTA-TGAACGTCCCGTTATATG
1 GCTCTTAGTGAACTTCCCATTATATG
* * * *
44466617 GCTCTTATTGAGCTTTCCGATTA-AAG
1 GCTCTTAGTGAAC-TTCCCATTATATG
44466643 GCTCATT-GTGAACTTCCCATTATATG
1 GCTC-TTAGTGAACTTCCCATTATATG
44466669 GCT
1 GCT
44466672 ATCCGGTGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
25 15 0.36
26 19 0.45
27 8 0.19
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
GCTCTTAGTGAACTTCCCATTATATG
Found at i:44467046 original size:15 final size:16
Alignment explanation
Indices: 44467019--44467049 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
44467009 CCGAGTTACA
44467019 AAATTCATTCAAATTT
1 AAATTCATTCAAATTT
44467035 AAATTC-TTCAAATTT
1 AAATTCATTCAAATTT
44467050 TTAACATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTCATTCAAATTT
Found at i:44468739 original size:16 final size:16
Alignment explanation
Indices: 44468718--44468749 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44468708 GTTTTGTTGC
*
44468718 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
44468734 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
44468750 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:44469037 original size:51 final size:51
Alignment explanation
Indices: 44468977--44469167 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 51
44468967 CCAGTTCACA
* *
44468977 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * * * *
44469028 TAGTAGCCTGCACATAGTACTATACACATGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * *
44469079 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
44469129 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
44469168 TTCACTTTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 42 0.36
51 68 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:44469183 original size:101 final size:102
Alignment explanation
Indices: 44468970--44469155 Score: 286
Period size: 102 Copynumber: 1.8 Consensus size: 102
44468960 AATGATACCA
*
44468970 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* *
44469035 CTGCACATAGTACTATACACATGATCGAAGCTATCCG
66 CTGCACATAGTACTACACACATGATCCAAGCTATCCG
* * * *
44469072 GTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
44469135 CCTGCACATAGTACTACACAC
65 CCTGCACATAGTACTACACAC
44469156 GTGACCATCA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 35 0.45
102 38 0.49
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACATGATCCAAGCTATCCG
Found at i:44485658 original size:20 final size:20
Alignment explanation
Indices: 44485633--44485673 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
44485623 ATGTCCCTAT
44485633 GATGTCGAGAAGGAGAAGAA
1 GATGTCGAGAAGGAGAAGAA
44485653 GATGTCGAGAAGGAGAAGAA
1 GATGTCGAGAAGGAGAAGAA
44485673 G
1 G
44485674 GGTTATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.41, T:0.10
Consensus pattern (20 bp):
GATGTCGAGAAGGAGAAGAA
Found at i:44486553 original size:23 final size:20
Alignment explanation
Indices: 44486540--44486584 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
44486530 GAGAGAAAGG
44486540 AGAAGAAGAGAAAGAGAAAA
1 AGAAGAAGAGAAAGAGAAAA
44486560 AGAAGAAGAG-AAGAAGAAGAA
1 AGAAGAAGAGAAAG-AGAA-AA
44486581 AGAA
1 AGAA
44486585 AAAAGGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAGAAAGAGAAAA
Found at i:44486556 original size:14 final size:14
Alignment explanation
Indices: 44486518--44486583 Score: 64
Period size: 14 Copynumber: 4.6 Consensus size: 14
44486508 GCCACACGGT
* *
44486518 AGAGAAAAAAAAG-
1 AGAGAAAGAGAAGA
44486531 AGAGAAAGGAGAAGA
1 AGAGAAA-GAGAAGA
*
44486546 AGAGAAAGAGAAAA
1 AGAGAAAGAGAAGA
44486560 AGA-AGAAGAGAAGA
1 AGAGA-AAGAGAAGA
44486574 AGAAGAAAGA
1 AG-AGAAAGA
44486584 AAAAAGGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.18
14 23 0.52
15 12 0.27
16 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAGAAGA
Found at i:44486578 original size:34 final size:33
Alignment explanation
Indices: 44486518--44486585 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 33
44486508 GCCACACGGT
*
44486518 AGAGAAAAAAAAGAGAGAAAGGAGAAGAAGAGAA
1 AGAGAAAAAAAAGAGAGAAAGAAGAAGAA-AGAA
*
44486552 AGAGAAAAAGAAGA-AGAGAAGAAGAAGAAAGAA
1 AGAGAAAAAAAAGAGAGA-AAGAAGAAGAAAGAA
44486585 A
1 A
44486586 AAAGGTAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (33 bp):
AGAGAAAAAAAAGAGAGAAAGAAGAAGAAAGAA
Found at i:44486817 original size:19 final size:19
Alignment explanation
Indices: 44486770--44486826 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
44486760 TTTAACTTTT
*
44486770 TTGTATGAATATTATAATTT
1 TTGTATGAATATTATAA-TG
*
44486790 TTTTATGAATATTATAATG
1 TTGTATGAATATTATAATG
*
44486809 TTGTATGAATATTGTAAT
1 TTGTATGAATATTATAAT
44486827 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTATAATG
Found at i:44486832 original size:83 final size:83
Alignment explanation
Indices: 44486745--44486979 Score: 219
Period size: 83 Copynumber: 2.8 Consensus size: 83
44486735 TTAGATTAGA
*
44486745 ATTTTGTATGAATATTTTAACTTTTTTGTATGAATATTATAATTTTTT-TATGAATATTATAATG
1 ATTTTGTATGAATATTTTAA-TTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATG
* *
44486809 TTGTATGAATATTGTAATT
65 TTGTATGAACATTATAATT
* * * * * *
44486828 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATTTTTTGTATGAATATTGTA
1 ATTTTGT-ATGAATATTT-TAATTTTTTG-TATGAATATTA-TAATTTTTTGTATGAATATTGTA
*
44486889 ATTTTGTATGAACATTATAATT
62 ATGTTGTATGAACATTATAATT
* * *
44486911 TTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTTTTTTGTATGAATATTG
1 ATTTTGTATGAATATTTTAA---T-T--TTTTGTATGAATATTATAATTTTTTGTATGAATATTG
44486976 TAAT
60 TAAT
44486980 ATTATAATTT
Statistics
Matches: 118, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
81 4 0.03
82 19 0.16
83 54 0.46
84 5 0.04
86 1 0.01
87 1 0.01
88 3 0.03
89 27 0.23
90 4 0.03
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (83 bp):
ATTTTGTATGAATATTTTAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAATGT
TGTATGAACATTATAATT
Found at i:44486895 original size:19 final size:19
Alignment explanation
Indices: 44486871--44486937 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
44486861 ATTAGTAATT
44486871 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
44486890 TTTTGTATGAACATTATAA
1 TTTTGTATGAATATTGTAA
44486909 TTTTTTTGTATGAATATTGTAA
1 ---TTTTGTATGAATATTGTAA
44486931 TTTTGTA
1 TTTTGTA
44486938 ATTTTGTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 24 0.59
22 17 0.41
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.55
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:44486914 original size:41 final size:40
Alignment explanation
Indices: 44486746--44486979 Score: 172
Period size: 42 Copynumber: 5.5 Consensus size: 40
44486736 TAGATTAGAA
*
44486746 TTTTGTATGAATATTTTAACTTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAA---TTTTGTATGAATATTATAATT
* * *
44486789 TTTT-TATGAATATTATAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
44486828 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
*
44486871 TTTTGTATGAATATTGTAATTTTGTATGAACATTATAATTT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAA-TT
*
44486912 TTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATATTT
1 TTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTATAATT
44486960 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
44486980 ATTATAATTT
Statistics
Matches: 155, Mismatches: 15, Indels: 45
0.72 0.07 0.21
Matches are distributed among these distances:
39 22 0.14
40 15 0.10
41 29 0.19
42 36 0.23
43 12 0.08
44 3 0.02
46 2 0.01
47 2 0.01
48 11 0.07
49 23 0.15
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.56
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:44486948 original size:27 final size:26
Alignment explanation
Indices: 44486880--44487006 Score: 137
Period size: 27 Copynumber: 5.1 Consensus size: 26
44486870 TTTTTGTATG
* *
44486880 AATATTGTAATTTTGTATGAACATTAT
1 AATATT-TAATTTTGTATGAATATTGT
44486907 -A-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
*
44486929 AATTTTGTAATTTTGTATGAATA-T-T
1 AATATT-TAATTTTGTATGAATATTGT
44486954 -ATATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
44486977 AATATTATAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
44487004 AAT
1 AAT
44487007 GTGGGGATAT
Statistics
Matches: 85, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
21 13 0.15
22 16 0.19
23 3 0.04
24 12 0.14
25 6 0.07
26 2 0.02
27 33 0.39
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (26 bp):
AATATTTAATTTTGTATGAATATTGT
Found at i:44486979 original size:48 final size:49
Alignment explanation
Indices: 44486880--44487059 Score: 217
Period size: 48 Copynumber: 3.7 Consensus size: 49
44486870 TTTTTGTATG
*
44486880 AATATTGTAATTTTGTATGAACATTATAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
*
44486929 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
* * * ** *
44486977 AATATTATAATTTTGTATGAATATTGTAA--TGTGGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
* *
44487022 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTATAATTTTTTT
44487060 ATAATTTATT
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
45 16 0.14
47 24 0.21
48 45 0.40
49 27 0.24
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGT
Found at i:44487089 original size:33 final size:33
Alignment explanation
Indices: 44487052--44487148 Score: 84
Period size: 33 Copynumber: 3.1 Consensus size: 33
44487042 GAATATTGTA
44487052 ATTATTTTATAATTTATTTGTTAGTAATTTAGG
1 ATTATTTTATAATTTATTTGTTAGTAATTTAGG
* *
44487085 ATTATGTTATAAATT-TTTG-T-GT--TTGTA--
1 ATTATTTTATAATTTATTTGTTAGTAATT-TAGG
* *
44487112 ATTA-TTTAAAATTTAATTTATTAGTAATTTAGG
1 ATTATTTTATAATTT-ATTTGTTAGTAATTTAGG
44487145 ATTA
1 ATTA
44487149 AGCTATAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
26 7 0.14
27 4 0.08
28 5 0.10
29 3 0.06
30 4 0.08
31 3 0.06
32 6 0.12
33 17 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (33 bp):
ATTATTTTATAATTTATTTGTTAGTAATTTAGG
Found at i:44487136 original size:60 final size:60
Alignment explanation
Indices: 44487047--44487168 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
44487037 TGTATGAATA
* * * * *
44487047 TTGTAATTATTTTATAATTTATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTTATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
44487107 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAATTT-ATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
44487167 TT
1 TT
44487169 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 9 0.16
60 46 0.84
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTTATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:44487247 original size:38 final size:38
Alignment explanation
Indices: 44487202--44487283 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
44487192 CATATAAAGT
44487202 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
44487240 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
44487278 TTATAA
1 TTATAA
44487284 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:44487361 original size:15 final size:15
Alignment explanation
Indices: 44487320--44487361 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
44487310 GTTAACTCAT
*
44487320 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
44487335 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
44487351 TTAAATTTTAT
1 TTAAATTTTAT
44487362 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:44489002 original size:12 final size:12
Alignment explanation
Indices: 44488985--44489034 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
44488975 TCATGCACCG
*
44488985 GAGCCAGAACCA
1 GAGCCAGACCCA
*
44488997 GAGCCAGAGCCA
1 GAGCCAGACCCA
*
44489009 GACCCAGACCCA
1 GAGCCAGACCCA
44489021 GAGCCAGACCCA
1 GAGCCAGACCCA
44489033 GA
1 GA
44489035 CCCAAAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.36, C:0.38, G:0.26, T:0.00
Consensus pattern (12 bp):
GAGCCAGACCCA
Found at i:44489008 original size:18 final size:18
Alignment explanation
Indices: 44488985--44489038 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
44488975 TCATGCACCG
* *
44488985 GAGCCAGAACCAGAGCCA
1 GAGCCAGACCCAGACCCA
44489003 GAGCCAGACCCAGACCCA
1 GAGCCAGACCCAGACCCA
44489021 GAGCCAGACCCAGACCCA
1 GAGCCAGACCCAGACCCA
44489039 AAACTACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.35, C:0.41, G:0.24, T:0.00
Consensus pattern (18 bp):
GAGCCAGACCCAGACCCA
Found at i:44489035 original size:6 final size:6
Alignment explanation
Indices: 44488988--44489038 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
44488978 TGCACCGGAG
* * * *
44488988 CCAGAA CCAGAG CCAGAG CCAGAC CCAGAC CCAGAG CCAGAC CCAGAC
1 CCAGAC CCAGAC CCAGAC CCAGAC CCAGAC CCAGAC CCAGAC CCAGAC
44489036 CCA
1 CCA
44489039 AAACTACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.35, C:0.43, G:0.22, T:0.00
Consensus pattern (6 bp):
CCAGAC
Found at i:44492396 original size:22 final size:21
Alignment explanation
Indices: 44492361--44492403 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
44492351 TACCTAATTT
*
44492361 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
44492382 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
44492404 CTTCTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:44492407 original size:18 final size:18
Alignment explanation
Indices: 44492374--44492408 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44492364 TCTTCTTTTC
* *
44492374 CTTCCTTCTTTTCTTCTG
1 CTTCCTTCCTTCCTTCTG
44492392 CTTCCTTCCTTCCTTCT
1 CTTCCTTCCTTCCTTCT
44492409 TATTTCTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.40, G:0.03, T:0.57
Consensus pattern (18 bp):
CTTCCTTCCTTCCTTCTG
Found at i:44492505 original size:27 final size:28
Alignment explanation
Indices: 44492475--44492550 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
44492465 AAAATAACAG
*
44492475 CATTGGCGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
44492502 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
44492529 CATTGGCGCCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
44492551 GCCAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.20, C:0.38, G:0.25, T:0.17
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:44495475 original size:13 final size:13
Alignment explanation
Indices: 44495457--44495482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44495447 AAAGTGCAAG
44495457 CCTGTTGAAGACA
1 CCTGTTGAAGACA
44495470 CCTGTTGAAGACA
1 CCTGTTGAAGACA
44495483 ATATGCAAAG
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:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:44501913 original size:18 final size:18
Alignment explanation
Indices: 44501890--44501940 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
44501880 CGTTTACGGT
44501890 ACTATTCACGTATATGGC
1 ACTATTCACGTATATGGC
* *
44501908 ACTATTCACGTATACGGT
1 ACTATTCACGTATATGGC
*
44501926 ACTGTTCACGTATAT
1 ACTATTCACGTATAT
44501941 AGTAGTTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (18 bp):
ACTATTCACGTATATGGC
Found at i:44508106 original size:20 final size:22
Alignment explanation
Indices: 44508069--44508110 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
44508059 GACTCTTTTT
44508069 TTTTAATAAATACCAAAAAATTA
1 TTTTAATAAATA-CAAAAAATTA
44508092 TTTTAA-AAATA-AAAAAATT
1 TTTTAATAAATACAAAAAATT
44508111 TTAAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTTAATAAATACAAAAAATTA
Found at i:44508145 original size:29 final size:30
Alignment explanation
Indices: 44508083--44508145 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
44508073 AATAAATACC
* **
44508083 AAAAAATTATTTTAAAAATAAAAAAATTTT
1 AAAAAAGTATTTTAAAAATAAAAAAATTAA
*
44508113 AAAAAAGTATTTT-AAAATTAAAAAATTAA
1 AAAAAAGTATTTTAAAAATAAAAAAATTAA
44508142 AAAA
1 AAAA
44508146 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAAAAGTATTTTAAAAATAAAAAAATTAA
Found at i:44508154 original size:30 final size:31
Alignment explanation
Indices: 44508083--44508155 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
44508073 AATAAATACC
*
44508083 AAAAAAT-TAT-TTTAAAAATAAAAAAATTT
1 AAAAAATATATATTTTAAAATAAAAAAATTT
* * *
44508112 TAAAAA-A-GTATTTTAAAATTAAAAAA-TT
1 AAAAAATATATATTTTAAAATAAAAAAATTT
44508140 AAAAAATATATATTTT
1 AAAAAATATATATTTT
44508156 TATTATATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 8 0.24
29 20 0.59
30 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (31 bp):
AAAAAATATATATTTTAAAATAAAAAAATTT
Found at i:44508577 original size:24 final size:24
Alignment explanation
Indices: 44508562--44508613 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44508552 AATCAAAGTC
44508562 AAATATATTATACTAAAAAATGCT
1 AAATATATTATACTAAAAAATGCT
* * *
44508586 AAATATATTATACTTATAAATACT
1 AAATATATTATACTAAAAAATGCT
44508610 AAAT
1 AAAT
44508614 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAAAAAATGCT
Found at i:44519509 original size:13 final size:11
Alignment explanation
Indices: 44519477--44519510 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
44519467 GTAGGAATTA
44519477 GTACAATATAT
1 GTACAATATAT
44519488 GTACAATATAT
1 GTACAATATAT
44519499 GTACAATATAT
1 GTACAATATAT
44519510 G
1 G
44519511 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:44519788 original size:18 final size:18
Alignment explanation
Indices: 44519765--44519802 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
44519755 CAATTGAAAA
*
44519765 AAATGCTCAACTTTAAAC
1 AAATGCACAACTTTAAAC
44519783 AAATGCACAACTTTAAAC
1 AAATGCACAACTTTAAAC
44519801 AA
1 AA
44519803 CAGCAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATGCACAACTTTAAAC
Found at i:44520419 original size:16 final size:16
Alignment explanation
Indices: 44520398--44520431 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44520388 GGACGGAGAG
*
44520398 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
44520414 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
44520430 GA
1 GA
44520432 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:44530015 original size:3 final size:3
Alignment explanation
Indices: 44530000--44530107 Score: 92
Period size: 3 Copynumber: 36.0 Consensus size: 3
44529990 TTTAAGATTT
* * ** * * * * *
44530000 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
44530047 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
44530093 GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
44530108 AATTTTTTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
2 1 0.01
3 87 0.96
4 3 0.03
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:44534432 original size:17 final size:18
Alignment explanation
Indices: 44534398--44534443 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
44534388 CCGTTATGTC
44534398 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
44534413 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
44534430 CGCGACCGCGACCG
1 CGCGACCGCGACCG
44534444 CAATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:44534806 original size:24 final size:23
Alignment explanation
Indices: 44534773--44534843 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
44534763 GACCCGCAGC
44534773 CAGAGTCAGAGCCAAAACCGGAGG
1 CAGAGTCAGAG-CAAAACCGGAGG
* *
44534797 CAGAGACAGAGCAAGAACC-GAAG
1 CAGAGTCAGAGCAA-AACCGGAGG
*
44534820 CAAGAGTTAGAGGCAAAACCGGAG
1 C-AGAGTCAGA-GCAAAACCGGAG
44534844 CCGGATCCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.18
24 25 0.66
25 6 0.16
ACGTcount: A:0.42, C:0.21, G:0.32, T:0.04
Consensus pattern (23 bp):
CAGAGTCAGAGCAAAACCGGAGG
Found at i:44534894 original size:66 final size:66
Alignment explanation
Indices: 44534779--44534926 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
44534769 CAGCCAGAGT
* * * *
44534779 CAGAGCCAAAACCGGAGGCAGAGACAGAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGGAG
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
44534844 C
66 C
* * ** * * *
44534845 CGGATCCAGAACCGGAGGCAGAGCCAAAGCAAGAATGGGAGCCCA-AGTTAGAGGGAAAACCGAA
1 CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAG-CAAGAGTTAGAGGCAAAACCGAA
44534909 GC
65 GC
44534911 CAGATCCAGAACCGGA
1 CAGATCCAGAACCGGA
44534927 ACCAAAACCG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
66 67 0.97
67 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.32, T:0.05
Consensus pattern (66 bp):
CAGATCCAGAACCGGAGGCAGAGACAAAGCAAGAACCGAAGCAAGAGTTAGAGGCAAAACCGAAG
C
Found at i:44534966 original size:30 final size:30
Alignment explanation
Indices: 44534932--44534992 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44534922 CCGGAACCAA
* *
44534932 AACCGGAGACAGAGCCAGAGTTAGAGGCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
* * *
44534962 AACCGAAGTCGGATCCAGAGTTAGAGCCAG
1 AACCGAAGACAGAGCCAGAGTTAGAGCCAG
44534992 A
1 A
44534993 GTCAGAACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.33, T:0.10
Consensus pattern (30 bp):
AACCGAAGACAGAGCCAGAGTTAGAGCCAG
Found at i:44535061 original size:24 final size:24
Alignment explanation
Indices: 44535034--44535082 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44535024 CCAGAATCGA
* *
44535034 AGTCAGACCCGCAGCTAGAGTCAG
1 AGTCAGACCCGCAGCCAGAGACAG
**
44535058 AGTCAGAGTCGCAGCCAGAGACAG
1 AGTCAGACCCGCAGCCAGAGACAG
44535082 A
1 A
44535083 ACCAGTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.31, T:0.10
Consensus pattern (24 bp):
AGTCAGACCCGCAGCCAGAGACAG
Done.