Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 94 of 172
Found at i:31642385 original size:3 final size:3
Alignment explanation
Indices: 31642379--31642404 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31642369 AATAGTATGT
31642379 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
31642405 TTACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:31642657 original size:3 final size:3
Alignment explanation
Indices: 31642651--31642707 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
31642641 CTAAAAAAAG
* * * * * *
31642651 ATA ATA ATA ATA TTA ATTA ATA CTA ATA GTA GTA GTA ATG ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31642697 ATA ATA ATA AT
1 ATA ATA ATA AT
31642708 TTGGGCCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:31646725 original size:23 final size:21
Alignment explanation
Indices: 31646700--31646740 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31646690 CACACAAGCG
*
31646700 TGTGTGGGCTTCACATGGGTA
1 TGTGTGGCCTTCACATGGGTA
31646721 TGTGTGGCCTTCACATGGGT
1 TGTGTGGCCTTCACATGGGT
31646741 GTGTAGACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.17, G:0.37, T:0.34
Consensus pattern (21 bp):
TGTGTGGCCTTCACATGGGTA
Found at i:31646743 original size:19 final size:19
Alignment explanation
Indices: 31646699--31646744 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
31646689 CCACACAAGC
*
31646699 GTGTGTGGGCTTCACATGG
1 GTGTGTGGCCTTCACATGG
31646718 GTATGTGTGGCCTTCACATGG
1 G--TGTGTGGCCTTCACATGG
31646739 GTGTGT
1 GTGTGT
31646745 AGACCCCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
21 18 0.75
ACGTcount: A:0.11, C:0.15, G:0.39, T:0.35
Consensus pattern (19 bp):
GTGTGTGGCCTTCACATGG
Found at i:31649506 original size:2 final size:2
Alignment explanation
Indices: 31649499--31649537 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
31649489 ACCTAACAAA
31649499 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
31649538 TATATATATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:31649925 original size:18 final size:18
Alignment explanation
Indices: 31649899--31649934 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31649889 TTTAATTTTA
*
31649899 TGTTGTTTTATTTTATTT
1 TGTTATTTTATTTTATTT
*
31649917 TGTTATTTTCTTTTATTT
1 TGTTATTTTATTTTATTT
31649935 GAAAAAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTTATTTTATTTTATTT
Found at i:31652798 original size:21 final size:22
Alignment explanation
Indices: 31652773--31652820 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
31652763 GTGAAAGCCT
* *
31652773 ACACGCCCATGT-GACGGAGGC
1 ACACGCCCATGTAAAAGGAGGC
31652794 ACACGCCCATGTAAAAGGAGGC
1 ACACGCCCATGTAAAAGGAGGC
31652816 ACACG
1 ACACG
31652821 GTCGTGTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.31, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
ACACGCCCATGTAAAAGGAGGC
Found at i:31653645 original size:6 final size:6
Alignment explanation
Indices: 31653634--31653658 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31653624 GACTTCTTTC
31653634 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
31653659 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:31655663 original size:15 final size:15
Alignment explanation
Indices: 31655643--31655674 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31655633 TTTTGTACTG
31655643 AATTGTAAACAATTA
1 AATTGTAAACAATTA
31655658 AATTGTAAACAATTA
1 AATTGTAAACAATTA
31655673 AA
1 AA
31655675 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTGTAAACAATTA
Found at i:31658748 original size:26 final size:26
Alignment explanation
Indices: 31658716--31658767 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
31658706 ACCGCAACTC
31658716 TTATGAGC-GCCCCATTATATGGCTCT
1 TTATGAGCTGCCCCATTA-ATGGCTCT
* *
31658742 TTATGAGCTTCCCGATTAATGGCTCT
1 TTATGAGCTGCCCCATTAATGGCTCT
31658768 CTGGATCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TTATGAGCTGCCCCATTAATGGCTCT
Found at i:31658901 original size:72 final size:72
Alignment explanation
Indices: 31658726--31658903 Score: 182
Period size: 72 Copynumber: 2.4 Consensus size: 72
31658716 TTATGAGCGC
* * * * *
31658726 CCCATTATATGGCTCTTTATGAGCTTCCCGATTAATGGCTCTCTGGATCTTCCTGATATGGCTCG
1 CCCAATATATAGCTC-TTATGAGCTTCCCG-TTAATGGCTCTCTGGAGCTACCCGATATGGCTCG
31658791 CATGAACTT
64 CATGAACTT
* * * * *
31658800 CCCGATATATGGCTATCTA-GAGCTCCCCGTTAATGGCTCT-TCGGAGCTACCCGTTATTGGCTC
1 CCCAATATATAGCTCT-TATGAGCTTCCCGTTAATGGCTCTCT-GGAGCTACCCGATA-TGGCTC
*
31658863 GCATGAGCTT
63 GCATGAACTT
*
31658873 CCTAAT-TATAGCTCTTATGAGCTTCCCGTTA
1 CCCAATATATAGCTCTTATGAGCTTCCCGTTA
31658904 TACAGCCTGG
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
71 3 0.03
72 40 0.47
73 29 0.34
74 14 0.16
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (72 bp):
CCCAATATATAGCTCTTATGAGCTTCCCGTTAATGGCTCTCTGGAGCTACCCGATATGGCTCGCA
TGAACTT
Found at i:31663124 original size:20 final size:19
Alignment explanation
Indices: 31663099--31663146 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
31663089 GAGGCACCGG
* *
31663099 AGTGCAAGCAAAAGCATCAA
1 AGTGCAAAC-AAAGCACCAA
*
31663119 AGTGCAAACAGAGCACCAA
1 AGTGCAAACAAAGCACCAA
31663138 AGTGCAAAC
1 AGTGCAAAC
31663147 TCATACAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.48, C:0.23, G:0.21, T:0.08
Consensus pattern (19 bp):
AGTGCAAACAAAGCACCAA
Found at i:31664060 original size:11 final size:10
Alignment explanation
Indices: 31664040--31664085 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
31664030 TGTTTTTATG
31664040 TTTTAACATA
1 TTTTAACATA
31664050 TTTTAAACATA
1 TTTT-AACATA
*
31664061 ATTTAACATTA
1 TTTTAACA-TA
*
31664072 TTTTAACTTA
1 TTTTAACATA
31664082 TTTT
1 TTTT
31664086 TCTCTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 14 0.45
11 17 0.55
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAACATA
Found at i:31668493 original size:14 final size:14
Alignment explanation
Indices: 31668461--31668521 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
31668451 TCACAATTTG
* *
31668461 ATTCTCAATTTCTT
1 ATTCTCGATTTGTT
*
31668475 GTTCTCGATTTGTT
1 ATTCTCGATTTGTT
* *
31668489 ATTCTC-AATTGTCA
1 ATTCTCGATTTGT-T
*
31668503 ATTCTCGATTTTTT
1 ATTCTCGATTTGTT
31668517 ATTCT
1 ATTCT
31668522 AAATTATTCG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
13 5 0.14
14 27 0.75
15 4 0.11
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTCTCGATTTGTT
Found at i:31668637 original size:51 final size:52
Alignment explanation
Indices: 31668577--31668676 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
31668567 AAATGGTAAT
* *
31668577 AAAATATTATTTAATTATTTAATATTAATTAGGTAATTATTATGATGTTAAG
1 AAAATATTATTTAATGATTTAATATTAAATAGGTAATTATTATGATGTTAAG
* * *
31668629 AAAA-ATTATTTAATGATTTAATTTTAAATAGTTAATTATTATGTTGTT
1 AAAATATTATTTAATGATTTAATATTAAATAGGTAATTATTATGATGTT
31668677 TATATTAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 39 0.91
52 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (52 bp):
AAAATATTATTTAATGATTTAATATTAAATAGGTAATTATTATGATGTTAAG
Found at i:31681558 original size:14 final size:15
Alignment explanation
Indices: 31681533--31681561 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31681523 ACGTTCCTTG
31681533 ATTTTATTATTATTT
1 ATTTTATTATTATTT
31681548 ATTTT-TTATTATTT
1 ATTTTATTATTATTT
31681562 GTTCAACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTATTATTATTT
Found at i:31682314 original size:21 final size:20
Alignment explanation
Indices: 31682275--31682334 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
31682265 ATTAGAAATT
*
31682275 TTTTTTATAGAAATCGTAAA
1 TTTTTTATAAAAATCGTAAA
*
31682295 TTTTTTATAAAATATTGTAAA
1 TTTTTTATAAAA-ATCGTAAA
* *
31682316 -ATTTTATAAAAATCATAAA
1 TTTTTTATAAAAATCGTAAA
31682335 AAAACTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 6 0.18
20 21 0.62
21 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTTTATAAAAATCGTAAA
Found at i:31682657 original size:61 final size:63
Alignment explanation
Indices: 31682556--31682677 Score: 146
Period size: 61 Copynumber: 2.0 Consensus size: 63
31682546 TTATGAATTT
* * * *
31682556 TATATTTCTTTATATTTTTTATAATATTCTTACGACTTTTTA-A-AATTTTATAATTTTTTTC
1 TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
31682617 TATATTTCTATATATTTTATA-AATTTTATT-TTACGA-TTTTTATATAATTTTACAATCTTTT
1 TATATTTCTATATATTTTATATAA---TATTCTTACGACTTTTTATATAATTTTACAATCTTTT
31682678 ATAATTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
60 2 0.04
61 25 0.48
62 7 0.13
63 18 0.35
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (63 bp):
TATATTTCTATATATTTTATATAATATTCTTACGACTTTTTATATAATTTTACAATCTTTTTC
Found at i:31682687 original size:10 final size:10
Alignment explanation
Indices: 31682529--31682788 Score: 66
Period size: 10 Copynumber: 26.0 Consensus size: 10
31682519 TTTTAGTATG
31682529 ATAA-TTTTT
1 ATAATTTTTT
*
31682538 ATATTTTTTT
1 ATAATTTTTT
31682548 ATGAA--TTTT
1 AT-AATTTTTT
31682557 AT-ATTTCTTT
1 ATAATTT-TTT
31682567 AT-ATTTTTT
1 ATAATTTTTT
*
31682576 ATAATATTCTT
1 ATAAT-TTTTT
** *
31682587 ACGACTTTTT
1 ATAATTTTTT
*
31682597 A-AA-ATTTT
1 ATAATTTTTT
31682605 ATAATTTTTT
1 ATAATTTTTT
* *
31682615 -TCTATATTTCT
1 AT-AAT-TTTTT
*
31682626 AT-ATATTTT
1 ATAATTTTTT
31682635 ATAAATTTTATT
1 AT-AATTTT-TT
*
31682647 TTACGATTTTTAT
1 ATA--ATTTTT-T
31682660 ATAA--TTTT
1 ATAATTTTTT
* *
31682668 ACAATCTTTT
1 ATAATTTTTT
31682678 ATAATTTTTTT
1 ATAA-TTTTTT
*
31682689 ATGA-TTTTT
1 ATAATTTTTT
31682698 ATAATTTTTTTT
1 ATAA--TTTTTT
* *
31682710 CTAATTTTTA
1 ATAATTTTTT
*
31682720 ATAA-ATTTT
1 ATAATTTTTT
31682729 A-AATACTTTTT
1 ATAAT--TTTTT
*
31682740 AT-GTTTTTT
1 ATAATTTTTT
** *
31682749 ATTAAAATTTA
1 A-TAATTTTTT
*
31682760 ATCA-TTTTT
1 ATAATTTTTT
31682769 ATAATTTTTT
1 ATAATTTTTT
*
31682779 ATCATTTTTT
1 ATAATTTTTT
31682789 GCTACATGTC
Statistics
Matches: 182, Mismatches: 38, Indels: 61
0.65 0.14 0.22
Matches are distributed among these distances:
7 1 0.01
8 11 0.06
9 51 0.28
10 63 0.35
11 35 0.19
12 13 0.07
13 8 0.04
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:31682705 original size:19 final size:19
Alignment explanation
Indices: 31682532--31682707 Score: 67
Period size: 19 Copynumber: 8.8 Consensus size: 19
31682522 TAGTATGATA
*
31682532 ATTTTTATATTTTTTTATG
1 ATTTTTATAATTTTTTATG
*
31682551 AATTTTAT-ATTTCTTTAT-
1 ATTTTTATAATTT-TTTATG
* *
31682569 ATTTTTTATAATATTCTTACG
1 A-TTTTTATAAT-TTTTTATG
* *
31682590 ACTTTTTA-AA-ATTTTATA
1 A-TTTTTATAATTTTTTATG
* * *
31682608 ATTTTTTTCTATATTTCTAT-
1 ATTTTTAT-AAT-TTTTTATG
*
31682628 ATATTTTATAAATTTTATTTTACG
1 AT-TTTTAT-AA--TT-TTTTATG
* **
31682652 ATTTTTAT-ATAATTTTACA
1 ATTTTTATAAT-TTTTTATG
31682671 ATCTTTTATAATTTTTTTATG
1 AT-TTTTATAA-TTTTTTATG
31682692 ATTTTTATAATTTTTT
1 ATTTTTATAATTTTTT
31682708 TTCTAATTTT
Statistics
Matches: 115, Mismatches: 24, Indels: 36
0.66 0.14 0.21
Matches are distributed among these distances:
17 5 0.04
18 9 0.08
19 34 0.30
20 23 0.20
21 29 0.25
22 2 0.02
23 11 0.10
24 2 0.02
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTTTATG
Found at i:31682777 original size:30 final size:31
Alignment explanation
Indices: 31682705--31682780 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
31682695 TTTATAATTT
* * *
31682705 TTTTTCTAA-TTTTTAATAAATTTTAAATAC
1 TTTTTATAATTTTTTATTAAAATTTAAATAC
*
31682735 TTTTTAT-GTTTTTTATTAAAATTT-AAT-C
1 TTTTTATAATTTTTTATTAAAATTTAAATAC
31682763 ATTTTTATAATTTTTTAT
1 -TTTTTATAATTTTTTAT
31682781 CATTTTTTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 10 0.26
30 27 0.71
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTTTATAATTTTTTATTAAAATTTAAATAC
Found at i:31683020 original size:97 final size:93
Alignment explanation
Indices: 31682872--31683059 Score: 236
Period size: 97 Copynumber: 2.0 Consensus size: 93
31682862 AATTGAGTGC
* *
31682872 AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAGTTTAAGGACCTTTTTGATGAATTTTGAA
1 AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAATTTAAGGACCTTTTTGATGAATTGTGAA
*
31682937 AGTTCAAATA-CCTAATTGAGTGAAAAGA
66 AGTTCAAATATCC-AAGTGAGTGAAAAGA
* ** *
31682965 AAAAAAGAAAGT-AGAAGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGTCTTTTTGATGCATT
1 AAAAAA-AAAGTAAG-A-CTTAATTGC-TTTTTTG-AAAAAATTTAAGGACCTTTTTGATGAATT
*
31683029 GTGAAAGTTCAAGTATCCAAGTGAGTGAAAA
61 GTGAAAGTTCAAATATCCAAGTGAGTGAAAA
31683060 AAATACTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
93 8 0.10
94 6 0.07
95 9 0.11
96 7 0.09
97 49 0.60
98 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (93 bp):
AAAAAAAAAGTAAGACTTAATTGCTTTTTTGAAAAAATTTAAGGACCTTTTTGATGAATTGTGAA
AGTTCAAATATCCAAGTGAGTGAAAAGA
Found at i:31683710 original size:34 final size:33
Alignment explanation
Indices: 31683668--31683791 Score: 142
Period size: 34 Copynumber: 3.7 Consensus size: 33
31683658 TGATTTTAAA
** *
31683668 AATTAAATTAGGGTTTATAATTTTAAAAAAAATT
1 AATTAAATTAGGGTTTAGGATTTT-AAATAAATT
* * *
31683702 AATTAAATTAGGTTTTAGGGGTTTTAAGTAAATT
1 AATTAAATTAGGGTTTA-GGATTTTAAATAAATT
*
31683736 AATTAAA-TAGGGTTTAGGATTTTTAATAAATT
1 AATTAAATTAGGGTTTAGGATTTTAAATAAATT
* *
31683768 AATTAAATTAGTGTTTAGGGTTTT
1 AATTAAATTAGGGTTTAGGATTTT
31683792 TTAAAAATAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
32 20 0.26
33 22 0.29
34 30 0.39
35 4 0.05
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAGGATTTTAAATAAATT
Found at i:31683760 original size:33 final size:33
Alignment explanation
Indices: 31683668--31683792 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 33
31683658 TGATTTTAAA
** * *
31683668 AATTAAATTAGGGTTTATAATTTTAAAAAAAATT
1 AATTAAATTAGGGTTTAGGATTTT-TAATAAATT
* **
31683702 AATTAAATTAGGTTTTAGGGGTTTTAAGTAAATT
1 AATTAAATTAGGGTTTAGGATTTTTAA-TAAATT
31683736 AATTAAA-TAGGGTTTAGGATTTTTAATAAATT
1 AATTAAATTAGGGTTTAGGATTTTTAATAAATT
* *
31683768 AATTAAATTAGTGTTTAGGGTTTTT
1 AATTAAATTAGGGTTTAGGATTTTT
31683793 TAAAAATAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.17
33 33 0.43
34 31 0.40
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (33 bp):
AATTAAATTAGGGTTTAGGATTTTTAATAAATT
Found at i:31684022 original size:125 final size:126
Alignment explanation
Indices: 31683882--31684403 Score: 633
Period size: 125 Copynumber: 4.2 Consensus size: 126
31683872 GACTTTGTTT
* * * *
31683882 TTTTTCTGTAGTAGTTTCTGAAAAATTAATTTTGAGCAGACGGTTTTGAAAAAATAGTGACAAAA
1 TTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGATAAAA
* * *
31683947 ACGCTTCAAGCAGGATGCACCGTCAGCAAAAGTACT-AAAAAAGTTCCTACGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGAACGCTC
* * * *
31684007 TTTTTCTATAGTAGTTTTTGAAAAAATAATTTTGAGAAAAC-GTTTCTGAAAAAATAATGTTAAA
1 TTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTT-TGAAAAAATAGTGATAAA
* * *
31684071 AACGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGAACGCTC
* * *
31684133 TTTTTCTACAATAG-TTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGT-ATAAA
1 TTTTTCTATAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGAT-AA
* * * *
31684196 AAACGCTTCAAGTAGGATGCACTGTCAGTAAAATTACT-AAAAAAGCTCCCACGT-AGGCGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGA-ACGCTC
* * * * * *
31684258 TTTTTCTACAGTAGTTCCTGAAAAACTAATTTTAAGAAGACAGTTTTGAAAAAATAGTGTTAAAA
1 TTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGATAAAA
** * * * * * * *
31684323 ACGCTTCAAATAGGATCCGCTATCAGCAAAATTACTGAAAAAAAGATCCCATGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTG-AAAAAAGCTCCCACGTGAACGCTC
31684385 TTTTTCTATAGTAGTTTCT
1 TTTTTCTATAGTAGTTTCT
31684404 ACTTGGCCTT
Statistics
Matches: 340, Mismatches: 46, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
124 4 0.01
125 193 0.57
126 104 0.31
127 39 0.11
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTATAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGATAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGAACGCTC
Found at i:31684325 original size:251 final size:252
Alignment explanation
Indices: 31683900--31684392 Score: 679
Period size: 251 Copynumber: 2.0 Consensus size: 252
31683890 TAGTAGTTTC
* * * *
31683900 TGAAAAATTAATTTTGAGCAGACGGTTTTGAAAAAATAGTGACAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGAAAAAAACGCTTCAAGCAGGATGC
* * * **
31683965 ACCGTCAGCAAAAGTACTAAAAAAGTTCCTACGTGAACGCTCTTTTTCTATAGTAGTTTTTGAAA
66 ACCGTCAGCAAAAGTACTAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCCTGAAA
* * * * *
31684030 AAATAATTTTGAGAAAACGTTTCTGAAAAAATAATGTTAAAAACGCTTCAAGCAGTATGCACTGT
131 AAATAATTTTAAGAAAACGTTTCTGAAAAAATAATGTTAAAAACGCTTCAAACAGGATCCACTAT
* *
31684095 CAGCAAAAGTACTG-AAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAATAGTTCT
196 CAGCAAAAGTACTGAAAAAAAGATCCCACGTGGACGCTCTTTTTCTACAATAGTTCT
*
31684151 TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGT-ATAAAAAACGCTTCAAGTAGGATG
1 TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGA-AAAAAACGCTTCAAGCAGGATG
* * * *
31684215 CACTGTCAGTAAAATTACTAAAAAAGCTCCCACGT-AGGCGCTCTTTTTCTACAGTAGTTCCTGA
65 CACCGTCAGCAAAAGTACTAAAAAAGCTCCCACGTGA-ACGCTCTTTTTCTACAGTAGTTCCTGA
* * * * *
31684279 AAAACTAATTTTAAGAAGACAGTTT-TGAAAAAATAGTGTTAAAAACGCTTCAAATAGGATCCGC
129 AAAAATAATTTTAAGAAAAC-GTTTCTGAAAAAATAATGTTAAAAACGCTTCAAACAGGATCCAC
* *
31684343 TATCAGCAAAATTACTGAAAAAAAGATCCCATGTGGACGCTCTTTTTCTA
193 TATCAGCAAAAGTACTGAAAAAAAGATCCCACGTGGACGCTCTTTTTCTA
31684393 TAGTAGTTTC
Statistics
Matches: 210, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
250 2 0.01
251 175 0.83
252 33 0.16
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (252 bp):
TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGAAAAAAACGCTTCAAGCAGGATGC
ACCGTCAGCAAAAGTACTAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAGTAGTTCCTGAAA
AAATAATTTTAAGAAAACGTTTCTGAAAAAATAATGTTAAAAACGCTTCAAACAGGATCCACTAT
CAGCAAAAGTACTGAAAAAAAGATCCCACGTGGACGCTCTTTTTCTACAATAGTTCT
Found at i:31688235 original size:39 final size:40
Alignment explanation
Indices: 31688190--31688361 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
31688180 GCTCCTCGTT
* * *
31688190 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
31688230 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31688269 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
31688309 CAAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
31688349 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31688362 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31688290 original size:40 final size:39
Alignment explanation
Indices: 31688192--31688414 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
31688182 TCCTCGTTCA
* * * *
31688192 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
31688231 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
31688270 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
31688310 AAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
31688350 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
31688391 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31688415 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:31688423 original size:41 final size:41
Alignment explanation
Indices: 31688346--31688423 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31688336 TTTGTATCTC
* * *
31688346 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31688387 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31688424 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31696172 original size:39 final size:40
Alignment explanation
Indices: 31696127--31696298 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
31696117 GCTCCTCGTT
* * *
31696127 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
31696167 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31696206 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
31696246 CAAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
31696286 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31696299 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31696227 original size:40 final size:39
Alignment explanation
Indices: 31696129--31696351 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
31696119 TCCTCGTTCA
* * * *
31696129 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
31696168 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
31696207 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
31696247 AAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
31696287 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
31696328 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31696352 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:31696360 original size:41 final size:41
Alignment explanation
Indices: 31696283--31696360 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31696273 TTTGTATCTC
* * *
31696283 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31696324 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31696361 ATTAATCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31697456 original size:60 final size:60
Alignment explanation
Indices: 31697392--31697512 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
31697382 GAAAAGGATG
**
31697392 AACAAAGATCTTCTTCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACT
1 AACAAAGATCTTCCCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACT
31697452 AACAAAGATCTTCCCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACT
1 AACAAAGATCTTCCCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACT
31697512 A
1 A
31697513 CACACTTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (60 bp):
AACAAAGATCTTCCCCTCTCTTTTCTTTAGCTCACGGCAATGGGGGGAAAAGAATCAACT
Found at i:31702517 original size:14 final size:14
Alignment explanation
Indices: 31702498--31702524 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31702488 TGCATCTCCC
31702498 CATGCATGAATCTA
1 CATGCATGAATCTA
31702512 CATGCATGAATCT
1 CATGCATGAATCT
31702525 GTCCAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
CATGCATGAATCTA
Found at i:31702726 original size:20 final size:20
Alignment explanation
Indices: 31702701--31702755 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
31702691 TAACACATGT
31702701 ATTAAATTAAGACAAACTTA
1 ATTAAATTAAGACAAACTTA
* * *
31702721 ATTAAATCAAGACATATTTA
1 ATTAAATTAAGACAAACTTA
* *
31702741 ATTTAACTAAGACAA
1 ATTAAATTAAGACAA
31702756 GACAAATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
ATTAAATTAAGACAAACTTA
Found at i:31705233 original size:15 final size:16
Alignment explanation
Indices: 31705210--31705241 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
31705200 TTTCTCACAC
31705210 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
31705226 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
31705241 T
1 T
31705242 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:31705286 original size:15 final size:16
Alignment explanation
Indices: 31705266--31705295 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31705256 CGCACACTTT
31705266 TTCTTTTTC-TTTTTC
1 TTCTTTTTCGTTTTTC
31705281 TTCTTTTTCGTTTTT
1 TTCTTTTTCGTTTTT
31705296 ATTACAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (16 bp):
TTCTTTTTCGTTTTTC
Found at i:31706184 original size:23 final size:24
Alignment explanation
Indices: 31706158--31706202 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31706148 CTTCGTATTT
31706158 TTTC-CTTTTTTTTAATTTTCCTA
1 TTTCTCTTTTTTTTAATTTTCCTA
* *
31706181 TTTCTTTTTTTTTTACTTTTCC
1 TTTCTCTTTTTTTTAATTTTCC
31706203 AATACAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTCTCTTTTTTTTAATTTTCCTA
Found at i:31708483 original size:24 final size:23
Alignment explanation
Indices: 31708456--31708521 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
31708446 AATTTAGAGG
31708456 ATGTATAATGCTTTCCTTTAAATA
1 ATGTATAATGC-TTCCTTTAAATA
* *
31708480 ATGTA-ACA-GC-TCCTTTGAATG
1 ATGTATA-ATGCTTCCTTTAAATA
31708501 ATGTATAATGCTCTCCTTTAA
1 ATGTATAATGCT-TCCTTTAA
31708522 TTGATGTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
21 15 0.44
22 3 0.09
23 3 0.09
24 13 0.38
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (23 bp):
ATGTATAATGCTTCCTTTAAATA
Found at i:31708526 original size:24 final size:23
Alignment explanation
Indices: 31708455--31708529 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
31708445 GAATTTAGAG
*
31708455 GATGTATAATGCTTTCCTTTAAAT
1 GATGTATAATGCTCTCCTTT-AAT
*
31708479 AATGTA-ACA-G--CTCCTTTGAAT
1 GATGTATA-ATGCTCTCCTTT-AAT
31708500 GATGTATAATGCTCTCCTTTAATT
1 GATGTATAATGCTCTCCTTTAA-T
31708524 GATGTA
1 GATGTA
31708530 ACGGCCCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
21 15 0.37
22 2 0.05
23 4 0.10
24 20 0.49
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (23 bp):
GATGTATAATGCTCTCCTTTAAT
Found at i:31722353 original size:129 final size:129
Alignment explanation
Indices: 31722123--31722382 Score: 486
Period size: 129 Copynumber: 2.0 Consensus size: 129
31722113 ATTCTTGAAA
* *
31722123 TCTCTTCGAATAGCAAACTTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGCGA
1 TCTCTTCGAAAAGCAAAATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGCGA
31722188 ATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAGCTTTTGAATGGTC
66 ATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAGCTTTTGAATGGTC
31722252 TCTCTTCGAACAAG-AAAATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGCG
1 TCTCTTCGAA-AAGCAAAATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGCG
31722316 AATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAGCTTTTGAATGGTC
65 AATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAGCTTTTGAATGGTC
31722381 TC
1 TC
31722383 ATTTAGTTTG
Statistics
Matches: 128, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
129 126 0.98
130 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (129 bp):
TCTCTTCGAAAAGCAAAATTGGGCCAAGATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGCGA
ATCTTGATTTTCTTGTTCTCTCGTGTATGCATCTAAGGCCTTGCTAACAAGCTTTTGAATGGTC
Found at i:31738499 original size:15 final size:15
Alignment explanation
Indices: 31738479--31738521 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
31738469 ACTTTTTTCA
31738479 TTCTTTTCTTTCTTT
1 TTCTTTTCTTTCTTT
**
31738494 TTCTTTTCACTCTTT
1 TTCTTTTCTTTCTTT
31738509 TTGCTTTTACTTT
1 TT-CTTTT-CTTT
31738522 TTTCTTTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 15 0.68
16 5 0.23
17 2 0.09
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:31746374 original size:18 final size:19
Alignment explanation
Indices: 31746353--31746389 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
31746343 TGCAAATACA
31746353 TTCTATTTTTCA-CTCCCT
1 TTCTATTTTTCATCTCCCT
*
31746371 TTCTTTTTTTCATCTCCCT
1 TTCTATTTTTCATCTCCCT
31746390 CTTTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.59
Consensus pattern (19 bp):
TTCTATTTTTCATCTCCCT
Found at i:31746392 original size:17 final size:17
Alignment explanation
Indices: 31746353--31746394 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
31746343 TGCAAATACA
*
31746353 TTCTATTTTTCACTCCC
1 TTCTTTTTTTCACTCCC
31746370 TTTCTTTTTTTCATCTCCC
1 -TTCTTTTTTTCA-CTCCC
31746389 -TCTTTT
1 TTCTTTT
31746395 CTCACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.07, C:0.31, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTTTCACTCCC
Found at i:31746413 original size:22 final size:20
Alignment explanation
Indices: 31746388--31746462 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 20
31746378 TTTCATCTCC
31746388 CTCTTTTCTCACATTTTTTTCA
1 CTCTTTTCT--CATTTTTTTCA
* *
31746410 CTCTCTTTTTTCATTTTTTTCT
1 --CTCTTTTCTCATTTTTTTCA
* *
31746432 TTCTTCTTCTCATTTTTCTTCG
1 CTCTT-TTCTCATTTTT-TTCA
31746454 CTCTTTTCT
1 CTCTTTTCT
31746463 TTTTCCCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 4 0.09
21 14 0.33
22 17 0.40
24 8 0.19
ACGTcount: A:0.07, C:0.27, G:0.01, T:0.65
Consensus pattern (20 bp):
CTCTTTTCTCATTTTTTTCA
Found at i:31746415 original size:24 final size:24
Alignment explanation
Indices: 31746374--31746430 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 24
31746364 ACTCCCTTTC
31746374 TTTTTTTCATCTCCCTCTTTTCTCACA
1 TTTTTTTCATCT-CCTCTTTT-T-ACA
*
31746401 TTTTTTTCA-CT-CTCTTTTTTCA
1 TTTTTTTCATCTCCTCTTTTTACA
31746423 TTTTTTTC
1 TTTTTTTC
31746431 TTTCTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.34
23 1 0.03
24 7 0.24
26 2 0.07
27 9 0.31
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTTCATCTCCTCTTTTTACA
Found at i:31746436 original size:20 final size:22
Alignment explanation
Indices: 31746399--31746448 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
31746389 TCTTTTCTCA
*
31746399 CATTTTTTTCACTCTCTT-TTTT
1 CATTTTTTT-ACTCTCTTCTTCT
*
31746421 CATTTTTTT-CTTTCTTCTTCT
1 CATTTTTTTACTCTCTTCTTCT
31746442 CATTTTT
1 CATTTTT
31746449 CTTCGCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 9 0.36
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (22 bp):
CATTTTTTTACTCTCTTCTTCT
Found at i:31754098 original size:21 final size:21
Alignment explanation
Indices: 31754081--31754130 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 21
31754071 AGAAAGAGTG
31754081 GAAAAAGAAATTGAAAGAAAA
1 GAAAAAGAAATTGAAAGAAAA
*
31754102 GAAAAAGAGATTG--A-AAAA
1 GAAAAAGAAATTGAAAGAAAA
31754120 GAAAAAGAAAT
1 GAAAAAGAAAT
31754131 AAAAAAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 14 0.52
19 1 0.04
21 12 0.44
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (21 bp):
GAAAAAGAAATTGAAAGAAAA
Found at i:31754102 original size:30 final size:30
Alignment explanation
Indices: 31754057--31754142 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
31754047 AAAAGAAATT
* *
31754057 GAAAGAGAAGGAAAAGAAAGAGTGGAAAAA
1 GAAAAAGAAAGAAAAGAAAGAGTGGAAAAA
** *
31754087 GAAATTGAAAGAAAAGAAAAAGAGATTGAAAAA
1 GAAAAAGAAAGAAAAG--AAAGAG-TGGAAAAA
*
31754120 GAAAAAGAAATAAAA-AAAGAGTG
1 GAAAAAGAAAGAAAAGAAAGAGTG
31754143 TGAGGTTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
29 1 0.02
30 19 0.42
32 6 0.13
33 19 0.42
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (30 bp):
GAAAAAGAAAGAAAAGAAAGAGTGGAAAAA
Found at i:31754136 original size:18 final size:18
Alignment explanation
Indices: 31754081--31754139 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
31754071 AGAAAGAGTG
31754081 GAAAAAGAAATTGAAAGAAAA
1 GAAAAAGAAA-T-AAA-AAAA
* **
31754102 GAAAAAGAGATTGAAAAA
1 GAAAAAGAAATAAAAAAA
31754120 GAAAAAGAAATAAAAAAA
1 GAAAAAGAAATAAAAAAA
31754138 GA
1 GA
31754140 GTGTGAGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 21 0.66
19 1 0.03
20 1 0.03
21 9 0.28
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAATAAAAAAA
Found at i:31761113 original size:27 final size:29
Alignment explanation
Indices: 31761071--31761140 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
31761061 ATTTTTAATG
31761071 CATG-TTTT-AATATGTCATA-TCTAGTA
1 CATGTTTTTAAATATGTCATAGTCTAGTA
* *
31761097 CATGTTTTTAAAT-TGTCTTAGTCTATTA
1 CATGTTTTTAAATATGTCATAGTCTAGTA
31761125 CATGTTTTT-AATATGT
1 CATGTTTTTAAATATGT
31761141 TCTTGTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 4 0.11
27 13 0.34
28 21 0.55
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.51
Consensus pattern (29 bp):
CATGTTTTTAAATATGTCATAGTCTAGTA
Found at i:31767830 original size:28 final size:28
Alignment explanation
Indices: 31767767--31767826 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
31767757 TTTTGTGATA
* * *
31767767 AATGTGTTTTATTTTAATGCATGTTATT
1 AATGTGTCTAATTTTAATGCATGGTATT
*
31767795 AATGTGTCTAATTTTATTGCATGGT-TT
1 AATGTGTCTAATTTTAATGCATGGTATT
31767822 AATGT
1 AATGT
31767827 TGTCCAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (28 bp):
AATGTGTCTAATTTTAATGCATGGTATT
Found at i:31772574 original size:20 final size:20
Alignment explanation
Indices: 31772530--31772578 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
31772520 TTAATATGCT
*
31772530 TTGTCTTA-TTTGAATTAAT
1 TTGTCTTAGTTTGAATTAAG
31772549 TGTGTCTTAGTTT-AATTAAAG
1 T-TGTCTTAGTTTGAATT-AAG
31772570 TTGTCTTAG
1 TTGTCTTAG
31772579 ATTATTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.73
21 6 0.23
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.53
Consensus pattern (20 bp):
TTGTCTTAGTTTGAATTAAG
Found at i:31776718 original size:20 final size:20
Alignment explanation
Indices: 31776690--31776731 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
31776680 TAAATGCAAA
*
31776690 CTAAATGAGCTACGAATGAG
1 CTAAATGAGCTACGAACGAG
* *
31776710 CTAAGTGAGCTAGGAACGAG
1 CTAAATGAGCTACGAACGAG
31776730 CT
1 CT
31776732 CGTTGAGCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.19
Consensus pattern (20 bp):
CTAAATGAGCTACGAACGAG
Found at i:31785662 original size:47 final size:47
Alignment explanation
Indices: 31785610--31786635 Score: 1723
Period size: 47 Copynumber: 21.5 Consensus size: 47
31785600 GATAATTGTG
* * * * *
31785610 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
*
31785657 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* *
31785706 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGATTCGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGAT------G-A-GGCC--T-AAT-GGCCGATGTGATGA
*
31785765 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31785814 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31785861 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31785908 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31785955 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786002 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786049 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786096 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786143 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786190 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786237 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786284 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786331 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786378 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786425 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* *
31786472 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
31786519 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
* * * * * *
31786566 ATGTGAAAGTGTACATATGTGAT-AGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATGA-GGCCTAATGGCCGATGTGATGA
31786613 ATGTGAAAGTGTATCA-ATGTGAT
1 ATGTGAAAGTGTAT-ATATGTGAT
31786636 AAGTCCCGAA
Statistics
Matches: 939, Mismatches: 22, Indels: 36
0.94 0.02 0.04
Matches are distributed among these distances:
46 1 0.00
47 816 0.87
48 1 0.00
49 69 0.07
50 2 0.00
51 1 0.00
53 4 0.00
54 2 0.00
55 4 0.00
57 1 0.00
58 2 0.00
59 24 0.03
61 12 0.01
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
Found at i:31785767 original size:59 final size:60
Alignment explanation
Indices: 31785692--31785807 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 60
31785682 AAGGCCTAAT
*
31785692 GGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCGATGATTC
1 GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGATTC
*
31785751 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCGATG
31785808 TGATGAATGT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
59 24 0.45
61 29 0.55
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (60 bp):
GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCGATGATTC
Found at i:31788924 original size:40 final size:40
Alignment explanation
Indices: 31788869--31789890 Score: 1884
Period size: 40 Copynumber: 25.6 Consensus size: 40
31788859 CGACGATGAT
31788869 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31788909 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31788949 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31788989 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789029 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789069 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789109 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789149 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789189 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789229 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789269 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789309 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789349 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789389 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789429 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789469 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789509 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789549 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789589 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
31789629 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* *
31789669 CCGGGCTAAGTCCCGAAGAGCCTTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* *
31789709 CTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* *
31789749 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* * * *
31789789 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
* * * * *
31789829 CCGTGCTAA-ACCTCGAAGAGCATTCGTGCTAGTGTTATAT
1 CCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGTGATGTAC
*
31789869 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
31789891 ATCATGCTGG
Statistics
Matches: 962, Mismatches: 18, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 959 1.00
41 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAC
Found at i:31790205 original size:57 final size:58
Alignment explanation
Indices: 31790102--31790210 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 58
31790092 CGAATGATTA
*
31790102 GAGGCACTGTGTGTGCAAATTCTTTTAACCAAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
31790160 GAGGCACTGTGTGTGCGAGTTC-TTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCG
31790211 ATCAGTGGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 27 0.57
58 20 0.43
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:31795004 original size:41 final size:41
Alignment explanation
Indices: 31794898--31795305 Score: 439
Period size: 41 Copynumber: 9.7 Consensus size: 41
31794888 TAATCGTTAC
* ** *
31794898 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACC-CCTTATAATC-AATGAT
31794941 ATCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 A-CGGTGGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * *
31794984 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGAT
*
31795026 ATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * *
31795068 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGAT
*
31795110 ATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * *
31795152 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGAT
*
31795194 ATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACC-CCTTATAATCAATGAT
* * * * *
31795236 AC-GAGGAATCAGCACATAGCAACCCCTTTTTGATAAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCCC-TTATAATCAATGAT
* * *
31795277 TC-GAGGAATCTGCACTTAGCAACCCCTTA
1 ACGGTGGAATCAGCACTTAGCAACCCCTTA
31795306 CATTTAAAGA
Statistics
Matches: 314, Mismatches: 37, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
40 10 0.03
41 117 0.37
42 79 0.25
43 70 0.22
44 38 0.12
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACCCCTTATAATCAATGAT
Found at i:31795059 original size:84 final size:84
Alignment explanation
Indices: 31794935--31795264 Score: 642
Period size: 84 Copynumber: 3.9 Consensus size: 84
31794925 CTCATGTTCA
31794935 AAGGATATCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
1 AAGGATAT-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
31795000 TAGCAACCCCTTTCACAATC
65 TAGCAACCCCTTTCACAATC
31795020 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
31795085 AGCAACCCCTTTCACAATC
66 AGCAACCCCTTTCACAATC
31795104 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
31795169 AGCAACCCCTTTCACAATC
66 AGCAACCCCTTTCACAATC
*
31795188 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACAT
1 AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
31795253 AGCAACCCCTTT
66 AGCAACCCCTTT
31795265 TTGATAAATG
Statistics
Matches: 244, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
84 236 0.97
85 8 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (84 bp):
AAGGATATGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
AGCAACCCCTTTCACAATC
Found at i:31796709 original size:39 final size:39
Alignment explanation
Indices: 31796666--31796756 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
31796656 GTCCAAACTT
** * *
31796666 TGACATAATTAAAAAATTTTATCAATGATGTTTAGATTA
1 TGACATAATTAAAAAATCATATCAATGATGTTCAAATTA
* *
31796705 TGACATAATTAAAAACTCATATTAATGATGTTCAAATTA
1 TGACATAATTAAAAAATCATATCAATGATGTTCAAATTA
31796744 TGACATAATTAAA
1 TGACATAATTAAA
31796757 GACTTAAACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (39 bp):
TGACATAATTAAAAAATCATATCAATGATGTTCAAATTA
Found at i:31799753 original size:18 final size:19
Alignment explanation
Indices: 31799718--31799767 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
31799708 CATCTATTGT
*
31799718 AATTGAAAAAAAAATCAA-
1 AATTCAAAAAAAAATCAAG
*
31799736 AATT-AAAAAAAATTTCAAG
1 AATTCAAAAAAAA-ATCAAG
*
31799755 TATTCAAAAAAAA
1 AATTCAAAAAAAA
31799768 GTGAAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 3 0.11
20 8 0.30
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (19 bp):
AATTCAAAAAAAAATCAAG
Found at i:31803070 original size:19 final size:20
Alignment explanation
Indices: 31803032--31803071 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31803022 AGCAAGCTGA
*
31803032 CTTTAGCTCAATTTCAGCTC
1 CTTTAGCTCAATTCCAGCTC
*
31803052 CTTTAGCT-TATTCCAGCTC
1 CTTTAGCTCAATTCCAGCTC
31803071 C
1 C
31803072 AACCAACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.17, C:0.33, G:0.10, T:0.40
Consensus pattern (20 bp):
CTTTAGCTCAATTCCAGCTC
Found at i:31808272 original size:39 final size:40
Alignment explanation
Indices: 31808068--31808290 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31808058 TTGAATGCTG
* * * * * *
31808068 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
31808108 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31808148 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
31808188 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
31808228 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
31808267 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31808291 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:31808310 original size:79 final size:80
Alignment explanation
Indices: 31808143--31808325 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
31808133 GTGCGAGATA
* * *
31808143 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31808208 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
31808223 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
31808287 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
31808302 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31808326 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31809895 original size:53 final size:51
Alignment explanation
Indices: 31809832--31809958 Score: 141
Period size: 50 Copynumber: 2.5 Consensus size: 51
31809822 GAACAATGAA
* *
31809832 TTACTTAATGCATGACTTCATTAAAAAAATGCAAACTTTAACTAACATGAGAG
1 TTACATAATGCATGACTT-ATTAAAAAAATGCAAAC-TTAACTAACATAAGAG
* * ** *
31809885 TTACATAATGCATGACATAATT--TATGATGCAATCTTAACTAACATAAGAG
1 TTACATAATGCATGAC-TTATTAAAAAAATGCAAACTTAACTAACATAAGAG
*
31809935 TAACATAATGCATGACTTATTAAA
1 TTACATAATGCATGACTTATTAAA
31809959 TACAGAACAC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
49 4 0.07
50 30 0.49
51 8 0.13
53 18 0.30
54 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (51 bp):
TTACATAATGCATGACTTATTAAAAAAATGCAAACTTAACTAACATAAGAG
Found at i:31812197 original size:39 final size:39
Alignment explanation
Indices: 31812136--31812252 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
31812126 TTAAAACATG
* * *
31812136 TATTAAAT-ATGTCCAAACTATGACATAATTAAAGACTCT
1 TATT-AATGATGTTCAAATTATGACATAATTAAAGACTCA
* *
31812175 TATTAATGATGTTCAGATTATGACATAATTAAAAACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACTCA
* *
31812214 TATTATTGATGTTCAAATTCTGACATAATTAAAGACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACTCA
31812253 AACTAAAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 3 0.04
39 65 0.96
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (39 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAGACTCA
Found at i:31820611 original size:15 final size:17
Alignment explanation
Indices: 31820593--31820625 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
31820583 ATAGATGGAT
31820593 AGTTTA-ACTAA-GTTG
1 AGTTTAGACTAATGTTG
31820608 AGTTTAGACTAATGTTG
1 AGTTTAGACTAATGTTG
31820625 A
1 A
31820626 AGAACAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (17 bp):
AGTTTAGACTAATGTTG
Found at i:31821373 original size:13 final size:13
Alignment explanation
Indices: 31821355--31821385 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31821345 TTAACTCCTT
31821355 TGAATATTATTCA
1 TGAATATTATTCA
*
31821368 TGAATATTGTTCA
1 TGAATATTATTCA
31821381 TGAAT
1 TGAAT
31821386 TAATCATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (13 bp):
TGAATATTATTCA
Found at i:31824395 original size:27 final size:27
Alignment explanation
Indices: 31824365--31824542 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31824355 ATATTGAGTC
* * * *
31824365 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31824392 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31824419 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31824447 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31824474 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31824501 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31824528 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31824543 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31824504 original size:82 final size:81
Alignment explanation
Indices: 31824386--31824541 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31824376 TGCTATATAA
* *
31824386 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31824451 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31824468 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31824532 CACTTAGTGC
65 CACTTAGTGC
31824542 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31831891 original size:16 final size:16
Alignment explanation
Indices: 31831872--31831906 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31831862 TAGGGGTGTT
31831872 ACAATCCATACAAGTC
1 ACAATCCATACAAGTC
31831888 ACAATCCATACAAGTC
1 ACAATCCATACAAGTC
31831904 ACA
1 ACA
31831907 CATGATATAT
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:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (16 bp):
ACAATCCATACAAGTC
Found at i:31834143 original size:17 final size:17
Alignment explanation
Indices: 31834121--31834157 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
31834111 CACTCGATCA
31834121 TAAGCTTTGCTCATATC
1 TAAGCTTTGCTCATATC
31834138 TAAGCTTTGCTCATATC
1 TAAGCTTTGCTCATATC
31834155 TAA
1 TAA
31834158 CTCTAGAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (17 bp):
TAAGCTTTGCTCATATC
Found at i:31837347 original size:12 final size:12
Alignment explanation
Indices: 31837321--31837393 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
31837311 CAGTGATGTC
31837321 TAAAA-AATAAAA
1 TAAAAGAAT-AAA
*
31837333 TAAAAGAATATA
1 TAAAAGAATAAA
*
31837345 TAATAGAATAAA
1 TAAAAGAATAAA
*
31837357 TAAAA-ATTAAAA
1 TAAAAGAAT-AAA
**
31837369 TTTAAGAATAAA
1 TAAAAGAATAAA
31837381 TAAAA-AATAAA
1 TAAAAGAATAAA
31837392 TA
1 TA
31837394 CTACTTACTT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 10 0.21
12 33 0.69
13 5 0.10
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (12 bp):
TAAAAGAATAAA
Found at i:31837368 original size:36 final size:35
Alignment explanation
Indices: 31837321--31837393 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
31837311 CAGTGATGTC
* *
31837321 TAAAAAATAAAATAAAAGAATATATAATAGAATAAA
1 TAAAAAATAAAATAAAAGAATAAATAA-AAAATAAA
* **
31837357 TAAAAATTAAAATTTAAGAATAAATAAAAAATAAA
1 TAAAAAATAAAATAAAAGAATAAATAAAAAATAAA
31837392 TA
1 TA
31837394 CTACTTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (35 bp):
TAAAAAATAAAATAAAAGAATAAATAAAAAATAAA
Found at i:31840969 original size:43 final size:42
Alignment explanation
Indices: 31840934--31841023 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
31840924 TCTTACATAT
**
31840934 AATCAAATGTCAATGCCTCTGTCCCAGACAGGGTCTTACACGA
1 AATCAAAT-TCAATGCCGATGTCCCAGACAGGGTCTTACACGA
* * * *
31840977 AATTAGATTCAATGCCGATGTCCCAGACATGGTCTTATACGTA
1 AATCAAATTCAATGCCGATGTCCCAGACAGGGTCTTACACG-A
31841020 AATC
1 AATC
31841024 TCAATCGAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.74
43 10 0.26
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
AATCAAATTCAATGCCGATGTCCCAGACAGGGTCTTACACGA
Found at i:31841361 original size:9 final size:9
Alignment explanation
Indices: 31841333--31841374 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
31841323 TTCAATACAA
31841333 ATTCAA-TC
1 ATTCAATTC
*
31841341 GTTCAA-TC
1 ATTCAATTC
31841349 ATTCAATTC
1 ATTCAATTC
*
31841358 ATTCATTTC
1 ATTCAATTC
31841367 ATTCAATT
1 ATTCAATT
31841375 TAATCCATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 12 0.41
9 17 0.59
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.45
Consensus pattern (9 bp):
ATTCAATTC
Found at i:31846628 original size:29 final size:28
Alignment explanation
Indices: 31846592--31846663 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
31846582 TCATGAGATT
*
31846592 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
31846622 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
31846649 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
31846664 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:31846895 original size:175 final size:174
Alignment explanation
Indices: 31846622--31846950 Score: 568
Period size: 175 Copynumber: 1.9 Consensus size: 174
31846612 AAATTGTACA
*
31846622 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCATGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
* * *
31846687 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTACAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
31846752 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
31846797 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
* *
31846862 TGTGCGAACCCAATATATATTTTCTACAAATTATTTATATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTACAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
31846927 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
31846951 ACCTTGAGTA
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
174 11 0.08
175 134 0.92
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTACAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:31852001 original size:9 final size:9
Alignment explanation
Indices: 31851979--31852023 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
31851969 AAAAATTTAA
31851979 TCATTCAA-
1 TCATTCAAT
31851987 TCATTCAAT
1 TCATTCAAT
*
31851996 TCATTCATT
1 TCATTCAAT
*
31852005 TCATTCATT
1 TCATTCAAT
31852014 TCATTCAAT
1 TCATTCAAT
31852023 T
1 T
31852024 TAATTCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 8 0.24
9 26 0.76
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (9 bp):
TCATTCAAT
Found at i:31852003 original size:13 final size:13
Alignment explanation
Indices: 31851981--31852023 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
31851971 AAATTTAATC
*
31851981 ATTCAATCATTCA
1 ATTCATTCATTCA
31851994 ATTCATTCATTTC-
1 ATTCATTCA-TTCA
31852007 ATTCATTTCATTCA
1 ATTCA-TTCATTCA
31852021 ATT
1 ATT
31852024 TAATTCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTCATTCATTCA
Found at i:31853795 original size:27 final size:27
Alignment explanation
Indices: 31853743--31853814 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
31853733 TGGTAATAGT
* *
31853743 CTAAGACAAATTAATAACAAGTATTAA
1 CTAAGACAAATTAAAAACAAGCATTAA
* *
31853770 CTAAGACATATTAAAAACATGCATTAAA
1 CTAAGACAAATTAAAAACAAGCATT-AA
* *
31853798 TTAAAACACAATTAAAA
1 CTAAGACA-AATTAAAA
31853815 CATACTTAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 21 0.58
28 8 0.22
29 7 0.19
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (27 bp):
CTAAGACAAATTAAAAACAAGCATTAA
Found at i:31857998 original size:25 final size:25
Alignment explanation
Indices: 31857969--31858019 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31857959 TACTCAATAA
31857969 AGCTTTCCATATCAATTTCATGTTC
1 AGCTTTCCATATCAATTTCATGTTC
31857994 AGCTTTCCATATCAATTTCATGTTC
1 AGCTTTCCATATCAATTTCATGTTC
31858019 A
1 A
31858020 ATCAACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (25 bp):
AGCTTTCCATATCAATTTCATGTTC
Found at i:31863918 original size:6 final size:6
Alignment explanation
Indices: 31863909--31863940 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
31863899 TTGCTATTAC
31863909 TATTTT TATTTT TATTTT TATTATT TATTTT T
1 TATTTT TATTTT TATTTT TATT-TT TATTTT T
31863941 GAAGACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:31865854 original size:20 final size:20
Alignment explanation
Indices: 31865823--31865868 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
31865813 ACTCAGAAGT
31865823 TCACAC-GGCCTGAGCACCC
1 TCACACGGGCCTGAGCACCC
31865842 TCACACGGGCCTGAGCACCC
1 TCACACGGGCCTGAGCACCC
31865862 TCACACG
1 TCACACG
31865869 AGCATGACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.22, C:0.46, G:0.22, T:0.11
Consensus pattern (20 bp):
TCACACGGGCCTGAGCACCC
Found at i:31882146 original size:19 final size:20
Alignment explanation
Indices: 31882102--31882147 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
31882092 ATCACAGACG
31882102 CCCGTGTAGCTTGGGACACA
1 CCCGTGTAGCTTGGGACACA
*
31882122 CCCGTGTGGCTTGGGACAC-
1 CCCGTGTAGCTTGGGACACA
31882141 CCCGTGT
1 CCCGTGT
31882148 CCCTAGCCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.22
Consensus pattern (20 bp):
CCCGTGTAGCTTGGGACACA
Found at i:31883357 original size:48 final size:48
Alignment explanation
Indices: 31883300--31883473 Score: 174
Period size: 48 Copynumber: 3.6 Consensus size: 48
31883290 CATGGTAGGG
* * *
31883300 TGCCAATGCCATATCCCGGATATGGTCTTACAAGGGACCACATATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACATATCGA
* * * *
31883348 TGCCAATGCCATGTCCCTA-ACATGGTCTTACATGGGATCACTTAACGA
1 TGCCAATGCCATATCCC-AGACATGGTCTTACATGGGACCACATATCGA
** * * *
31883396 TATCAAAGCCATGTGCCAGACATGGTCTTACATGGGATCTCACAT-T-GA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-C-CACATATCGA
* *
31883444 TGCCGATGCCATATCCCAGATATGGTCTTA
1 TGCCAATGCCATATCCCAGACATGGTCTTA
31883474 TACGGGATCT
Statistics
Matches: 101, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
47 1 0.01
48 96 0.95
50 4 0.04
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACATATCGA
Found at i:31883860 original size:30 final size:28
Alignment explanation
Indices: 31883812--31883870 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
31883802 AATCATATTT
*
31883812 TTTCAAAATTACAATTTTGCCCCTGAAC
1 TTTCAAAATTACAATTTTGCCCCTAAAC
* *
31883840 TTTCAAATATTTACACTTTTGTCCCTAAAC
1 TTTCAAA-A-TTACAATTTTGCCCCTAAAC
31883870 T
1 T
31883871 CGTAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 1 0.04
30 18 0.69
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.41
Consensus pattern (28 bp):
TTTCAAAATTACAATTTTGCCCCTAAAC
Found at i:31894386 original size:39 final size:41
Alignment explanation
Indices: 31894291--31894434 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 41
31894281 TTGAATGATG
*
31894291 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
31894330 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
31894370 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
31894409 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31894435 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
38 2 0.02
39 50 0.55
40 27 0.30
41 11 0.12
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:31894448 original size:40 final size:39
Alignment explanation
Indices: 31894371--31894453 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
31894361 GATACTAATT
** *
31894371 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
31894410 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
31894450 CCGG
1 CCGG
31894454 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:31906077 original size:40 final size:41
Alignment explanation
Indices: 31906014--31906197 Score: 209
Period size: 40 Copynumber: 4.6 Consensus size: 41
31906004 TATTCGAATG
* * *
31906014 ATATCCGGGCTAAG-TCCCAAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCTCGAAGGCATTTATGCTAGTGACT
* * * * *
31906054 ATATCCAGACTAAGATC-CGAAGGCATTTGTTCGAGTTG-CT
1 ATATCCGGGCTAAGATCTCGAAGGCATTTATGCTAG-TGACT
* *
31906094 ATATCCGGGCTAAGA-CTCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCTCGAAGGCATTTATGCTAGTGACT
*
31906134 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCTCGAAGGCATTTATGCTAGTGACT
*
31906174 ATATCCGGGCTAAGA-CCCGAAGGC
1 ATATCCGGGCTAAGATCTCGAAGGC
31906198 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 116 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCTCGAAGGCATTTATGCTAGTGACT
Found at i:31913115 original size:26 final size:27
Alignment explanation
Indices: 31913021--31913177 Score: 185
Period size: 27 Copynumber: 5.9 Consensus size: 27
31913011 AATATACCTT
* * * *
31913021 ACATAGGGGCCAAACAATCATCTTAGC
1 ACATAAGGGCAAAACAATCATTTTACC
* * * *
31913048 ATATAAGGGAAAAATAGTCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
* *
31913075 TCATAAGGGCAAAACAAACATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
31913102 ACA-AAGGGCAAAACAATCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
*
31913128 ACATAAGGGCAAAACAGTCATTTTACC
1 ACATAAGGGCAAAACAATCATTTTACC
*
31913155 ACA-AA-TGCAAAACAATCATTTTA
1 ACATAAGGGCAAAACAATCATTTTA
31913178 TCATATTGGG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 16 0.15
26 27 0.25
27 67 0.61
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (27 bp):
ACATAAGGGCAAAACAATCATTTTACC
Found at i:31913122 original size:53 final size:52
Alignment explanation
Indices: 31913065--31913177 Score: 181
Period size: 53 Copynumber: 2.2 Consensus size: 52
31913055 GGAAAAATAG
*
31913065 TCATTTTACCTCATAAGGGCAAAACAAACATTTTACCACAAAGGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAACAAACATTTTACCACAAA-GGCAAAACAA
** *
31913118 TCATTTTACCACATAAGGGCAAAACAGTCATTTTACCACAAATGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAACAAACATTTTACCACAAAGGCAAAACAA
31913170 TCATTTTA
1 TCATTTTA
31913178 TCATATTGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 17 0.30
53 39 0.70
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (52 bp):
TCATTTTACCACATAAGGGCAAAACAAACATTTTACCACAAAGGCAAAACAA
Found at i:31914662 original size:31 final size:31
Alignment explanation
Indices: 31914619--31914680 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
31914609 TAATCATACC
* *
31914619 TCCCTTAACTACTCAGTTCAAATTCTATTCA
1 TCCCCTAACTACTCAGTTCAAATTCCATTCA
*
31914650 TCCCCTAACTACTCAGTTCGAATTCCATTCA
1 TCCCCTAACTACTCAGTTCAAATTCCATTCA
31914681 AACACTTCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (31 bp):
TCCCCTAACTACTCAGTTCAAATTCCATTCA
Found at i:31915376 original size:17 final size:17
Alignment explanation
Indices: 31915354--31915386 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31915344 AAATTTTAAT
31915354 AATTA-TTAAGTAGTTTC
1 AATTATTTAAG-AGTTTC
31915371 AATTATTTAAGAGTTT
1 AATTATTTAAGAGTTT
31915387 ATGTCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.48
Consensus pattern (17 bp):
AATTATTTAAGAGTTTC
Found at i:31915789 original size:28 final size:27
Alignment explanation
Indices: 31915756--31915814 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
31915746 ATCTATCTTC
* *
31915756 TTTATTGTACA-ATCTTTGATTTTATTAT
1 TTTATTCTACATATC-TTGATTAT-TTAT
*
31915784 TTTATTCTATATATCTTGATTATTTAT
1 TTTATTCTACATATCTTGATTATTTAT
31915811 TTTA
1 TTTA
31915815 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 16 0.59
29 3 0.11
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTATTCTACATATCTTGATTATTTAT
Found at i:31916844 original size:33 final size:33
Alignment explanation
Indices: 31916807--31916873 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
31916797 TTAATATGTA
31916807 TGAAATAGTATCACATATTCATATGATCAAACT
1 TGAAATAGTATCACATATTCATATGATCAAACT
31916840 TGAAATAGTATCACATATTCATATGATCAAACT
1 TGAAATAGTATCACATATTCATATGATCAAACT
31916873 T
1 T
31916874 ACCTTGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (33 bp):
TGAAATAGTATCACATATTCATATGATCAAACT
Found at i:31922580 original size:10 final size:9
Alignment explanation
Indices: 31922558--31922582 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31922548 AAACGAACTC
31922558 AAAAACATT
1 AAAAACATT
31922567 AAAAACATT
1 AAAAACATT
31922576 AAAAACA
1 AAAAACA
31922583 GGACCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAACATT
Found at i:31926688 original size:99 final size:99
Alignment explanation
Indices: 31926513--31926707 Score: 345
Period size: 99 Copynumber: 2.0 Consensus size: 99
31926503 GATTATGTAC
* * *
31926513 TTAGACATTGTTTTGAAAAAGAAGAAGAGAAATAACAACTTGAGCATTTAGTAAAAAAAACAATA
1 TTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATA
*
31926578 TAGGTACTAACTTTTCAATTTTCATAAAGTATAG
66 TAAGTACTAACTTTTCAATTTTCATAAAGTATAG
31926612 TTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATA
1 TTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATA
*
31926677 TAAGTATTAACTTTTCAATTTTCATAAAGTA
66 TAAGTACTAACTTTTCAATTTTCATAAAGTA
31926708 GAGGGACCAA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.30
Consensus pattern (99 bp):
TTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATA
TAAGTACTAACTTTTCAATTTTCATAAAGTATAG
Found at i:31926817 original size:112 final size:114
Alignment explanation
Indices: 31926609--31926834 Score: 334
Period size: 112 Copynumber: 2.0 Consensus size: 114
31926599 TCATAAAGTA
31926609 TAGTTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACA
1 TAGTTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACA
* * *
31926674 ATATAAGTATTAACTTTTCAATTTTCATAAAGTAGAGGGACCAATTTTG
66 ATATAAGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACAAATTTTG
* * *
31926723 TAGTTAGACATTGTTTTG-CAAAAAAAAAGAGAAATAACAACTTGAGCATTTAGT-TAAAAAACA
1 TAGTTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACA
* *
31926786 ATA-AAG-AGGCTAACTTCTCAATTTTCATAAAGTAGGGGGATAAATTTTG
66 ATATAAGTA--CTAACTTCTCAATTTTCATAAAGTAGAGGGACAAATTTTG
31926835 GAATTAGAAC
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
110 1 0.01
111 3 0.03
112 46 0.45
113 34 0.33
114 18 0.18
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (114 bp):
TAGTTAGACATTGTTTTGAAAAAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACA
ATATAAGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACAAATTTTG
Found at i:31926861 original size:113 final size:112
Alignment explanation
Indices: 31926630--31926861 Score: 281
Period size: 112 Copynumber: 2.0 Consensus size: 112
31926620 TGTTTTGAAA
* *
31926630 AAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATATAAGTATTAACTTTTCAA
1 AAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATATAAGTACTAACTTCTCAA
* * * ***
31926695 TTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAGACATTGTTTTGC
66 TTTTCATAAAGTAGAGGGACAAATTTTGGAATTAGACATTGTAAAGC
* *
31926742 AAAAAAAAAGAGAAATAACAACTTGAGCATTTAGT-TAAAAAACAATA-AAG-AGGCTAACTTCT
1 -AAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATATAAGTA--CTAACTTCT
* *
31926804 CAATTTTCATAAAGTAGGGGGATAAATTTTGGAATTAGAACATTTAGTAAAGC
63 CAATTTTCATAAAGTAGAGGGACAAATTTTGGAATTAG-ACA-TT-GTAAAGC
31926857 AAAAA
1 AAAAA
31926862 CAATAAAGGG
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
110 1 0.01
111 3 0.03
112 51 0.50
113 36 0.35
114 7 0.07
115 4 0.04
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (112 bp):
AAAAAAAAGAGAAACAACAACTTGAGCATTTAGTAAAAAAAACAATATAAGTACTAACTTCTCAA
TTTTCATAAAGTAGAGGGACAAATTTTGGAATTAGACATTGTAAAGC
Found at i:31930398 original size:16 final size:16
Alignment explanation
Indices: 31930347--31930400 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
31930337 GAAAATTTAT
*
31930347 ATTTTCCATCTTTCTA
1 ATTTTCCATCTTTCCA
* * *
31930363 CTTTTCCACCCTTT-CG
1 ATTTTCCA-TCTTTCCA
31930379 ATTTTCCATCTTTCCA
1 ATTTTCCATCTTTCCA
31930395 ATTTTC
1 ATTTTC
31930401 TTCCCACCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.15, C:0.31, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTTCCATCTTTCCA
Found at i:31931549 original size:22 final size:21
Alignment explanation
Indices: 31931509--31931549 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31931499 AAAATCTAAT
*
31931509 TAAATAAAAAAATTCTATTAA
1 TAAATAAAAAAATTATATTAA
*
31931530 TAAATAAAAATATTTATATT
1 TAAATAAAAA-AATTATATT
31931550 TATATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATAAAAAAATTATATTAA
Found at i:31931958 original size:25 final size:26
Alignment explanation
Indices: 31931924--31931984 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
31931914 TAGGAGGTTT
**
31931924 TTTTTATTTAATTTTAATATAA-TTA
1 TTTTTATTTAATACTAATATAACTTA
*
31931949 TTTTTATTTAATACTAATATAACTTT
1 TTTTTATTTAATACTAATATAACTTA
31931975 TTTTTATTTA
1 TTTTTATTTA
31931985 GTTCAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTATTTAATACTAATATAACTTA
Found at i:31932898 original size:7 final size:7
Alignment explanation
Indices: 31932886--31932912 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31932876 TAGTGGATTC
31932886 GTATTTA
1 GTATTTA
31932893 GTATTTA
1 GTATTTA
31932900 GTATTTA
1 GTATTTA
31932907 GTATTT
1 GTATTT
31932913 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:31933462 original size:30 final size:30
Alignment explanation
Indices: 31933410--31933475 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
31933400 CGACGACGCA
*
31933410 GGCCCATCAACGGCACCCACACAATCACCC
1 GGCCCAGCAACGGCACCCACACAATCACCC
* * *
31933440 GGCCCAGCAACAGG-ACCTACACAGTCACCG
1 GGCCCAGCAAC-GGCACCCACACAATCACCC
31933470 GGCCCA
1 GGCCCA
31933476 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.45, G:0.20, T:0.06
Consensus pattern (30 bp):
GGCCCAGCAACGGCACCCACACAATCACCC
Found at i:31933552 original size:18 final size:18
Alignment explanation
Indices: 31933529--31933571 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
31933519 TACCAGGTAC
*
31933529 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
31933547 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
31933565 GTTTCCT
1 GTATCCT
31933572 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:31934159 original size:116 final size:116
Alignment explanation
Indices: 31933955--31934453 Score: 892
Period size: 116 Copynumber: 4.3 Consensus size: 116
31933945 TATTTGTACA
*
31933955 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
31934020 TGTAATTTACTTTTATATTTTTAATAAAATGGATATTATTTTAAATAAGAC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
31934071 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
31934136 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
31934187 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
31934252 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
* * * *
31934303 AACATTTTGAATATTTGTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
31934368 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAA-AGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGA-C
*
31934419 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
31934454 AAAATATAAA
Statistics
Matches: 369, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
116 369 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
Found at i:31936937 original size:126 final size:126
Alignment explanation
Indices: 31936643--31936929 Score: 468
Period size: 126 Copynumber: 2.3 Consensus size: 126
31936633 GCCCAAGTTA
* * *
31936643 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
* *
31936708 TGCATCATGCTTGAAGCATTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TACATCATGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
*
31936769 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
* * *
31936834 TACATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TACATCATGCTTGAAGCATTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
*
31936895 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGT
31936930 AGAAGCTTTT
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 1 0.01
126 148 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (126 bp):
TTTCAGAGACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
TACATCATGCTTGAAGCATTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:31937032 original size:15 final size:15
Alignment explanation
Indices: 31937012--31937041 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31937002 TTTCTTAAAT
31937012 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
31937027 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
31937042 TCTATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:31937154 original size:96 final size:97
Alignment explanation
Indices: 31937017--31937212 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 97
31937007 TAAATACCCT
* * * * *
31937017 AAAACCCTAAACCCTAAAATCCTAATCTATTTTTTTTAAATTTA-TAATTAATTTACTCAAGTAA
1 AAAACCATAAACACTAAAATCCTAATCTA-ATTTTTTAAAATTAGTAATTAATTTAATCAA-TAA
* * *
31937081 TC-CTAAACCCTAATTTATTTGATTTTTTTCTTA
64 ACACTAAACCCTAATTTATTTAATTTTTTCCTTA
*
31937114 AAAACCATAAACACT-AAA-CCATAATCTAATTTTTTAAAATTAGTAATTAATTTAATTAATAAA
1 AAAACCATAAACACTAAAATCC-TAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAATAAA
31937177 CACTAAACCCTAATTTATTTAATTTTTTCCTTA
65 CACTAAACCCTAATTTATTTAATTTTTTCCTTA
31937210 AAA
1 AAA
31937213 CCCTAAAATT
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
95 18 0.21
96 56 0.64
97 13 0.15
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (97 bp):
AAAACCATAAACACTAAAATCCTAATCTAATTTTTTAAAATTAGTAATTAATTTAATCAATAAAC
ACTAAACCCTAATTTATTTAATTTTTTCCTTA
Found at i:31937786 original size:21 final size:22
Alignment explanation
Indices: 31937750--31937796 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
31937740 AAGAAGAGCT
*
31937750 GTTTTGGTTCGCATTTCAATTA
1 GTTTTGGTTAGCATTTCAATTA
31937772 GTTTT-GTTAGCATTTCAATTA
1 GTTTTGGTTAGCATTTCAATTA
31937793 GTTT
1 GTTT
31937797 GATATCGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.53
Consensus pattern (22 bp):
GTTTTGGTTAGCATTTCAATTA
Found at i:31939161 original size:95 final size:94
Alignment explanation
Indices: 31939020--31939208 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 94
31939010 TTATATAAGC
* *
31939020 CAGTGTAAGACATGTCTGGGACACGCATCAGCCTCGAGATATGAAAG-CTAGTGTAAGACCATGT
1 CAGTGTAAGACATGTCTGGGACACGCATCAGCCTCGAGATATGAAAGCCT-GTGTAAGAACATAT
* *
31939084 CTGGAACATGGCATCGGC-TTGATATGTGT
65 CTGGAACATGGCATCAGCATCGATATGTGT
* * *
31939113 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCCTGTGTAAGAACATA
1 CAGTGTAAGA-CATGTCTGGGACA-CGCATCAGCCTCGAGATATGAAAGCCTGTGTAAGAACATA
* *
31939178 TCTGGGATATGGCATCAGCATCGATATGTGT
64 TCTGGAACATGGCATCAGCATCGATATGTGT
31939209 AAGATTTCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 10 0.12
94 13 0.16
95 48 0.58
96 12 0.14
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
CAGTGTAAGACATGTCTGGGACACGCATCAGCCTCGAGATATGAAAGCCTGTGTAAGAACATATC
TGGAACATGGCATCAGCATCGATATGTGT
Found at i:31939182 original size:50 final size:50
Alignment explanation
Indices: 31939016--31939204 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 50
31939006 GCTGTTATAT
* *
31939016 AAGCCAGTGTAAG-ACATGTCTGGGACA-CGCATCAGCCTCGAGATATGA
1 AAGCCAGTGTAAGAACATGTCTGGGACATGGCATCAGCCTCGATATATGA
* * * * *
31939064 AAGCTAGTGTAAGACCATGTCTGGAACATGGCATC-GGCTTG--ATATG-
1 AAGCCAGTGTAAGAACATGTCTGGGACATGGCATCAGCCTCGATATATGA
* * * *
31939110 -TGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGA
1 AAGCCAGTGTAAGAACATGTCTGGGACATGGCATCAGCCTCGATATATGA
* * * *
31939159 AAGCCTGTGTAAGAACATATCTGGGATATGGCATCAGCATCGATAT
1 AAGCCAGTGTAAGAACATGTCTGGGACATGGCATCAGCCTCGATAT
31939205 GTGTAAGATT
Statistics
Matches: 114, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
45 30 0.26
46 4 0.04
47 5 0.04
48 17 0.15
49 16 0.14
50 42 0.37
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
AAGCCAGTGTAAGAACATGTCTGGGACATGGCATCAGCCTCGATATATGA
Found at i:31953437 original size:40 final size:40
Alignment explanation
Indices: 31953411--31953632 Score: 304
Period size: 40 Copynumber: 5.5 Consensus size: 40
31953401 ATGGTCACTA
31953411 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
* * *
31953451 GCACAAATGCCTTCAGAACTTATCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
31953491 GCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTC
* * *
31953531 GCACAAATGCCTTCAGAACTTATCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * *
31953571 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
* * *
31953611 GCACAATTGTCTTTGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
31953633 ACCCCGTTAG
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.01
40 155 0.96
41 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTC
Found at i:31953632 original size:80 final size:80
Alignment explanation
Indices: 31953411--31953599 Score: 378
Period size: 80 Copynumber: 2.4 Consensus size: 80
31953401 ATGGTCACTA
31953411 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGAACTTATCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGAACTTATCC
31953476 CGGAATTAGTAACTC
66 CGGAATTAGTAACTC
31953491 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGAACTTATCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGAACTTATCC
31953556 CGGAATTAGTAACTC
66 CGGAATTAGTAACTC
31953571 GCACAAATGCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA
31953600 ATTAATCACT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 109 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGAACTTATCC
CGGAATTAGTAACTC
Found at i:31961713 original size:40 final size:40
Alignment explanation
Indices: 31961668--31961902 Score: 355
Period size: 40 Copynumber: 5.9 Consensus size: 40
31961658 GAATATAGCT
* *
31961668 ACTCGCTCAAATTCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
31961708 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
31961748 ACTCGTACAATTGCCTTCGGGATTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
31961788 ACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
31961828 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
31961868 ACTCGCGCAAATGCCTTCGGG-CTTAGCTCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
31961903 CAATCTGAAT
Statistics
Matches: 179, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.07
40 167 0.93
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:31962652 original size:25 final size:25
Alignment explanation
Indices: 31962616--31962665 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
31962606 TCAAAACTCG
31962616 GCTAATACACATATATACACTAGTA
1 GCTAATACACATATATACACTAGTA
*
31962641 GCTAATATACATATATACACTAGTA
1 GCTAATACACATATATACACTAGTA
31962666 ATCAAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (25 bp):
GCTAATACACATATATACACTAGTA
Found at i:31974087 original size:21 final size:20
Alignment explanation
Indices: 31974059--31974097 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31974049 GAATCGTCAT
31974059 GGAGTTGAAAAGGCTATGTG
1 GGAGTTGAAAAGGCTATGTG
*
31974079 GGAGCTTGAAAATGCTATG
1 GGAG-TTGAAAAGGCTATG
31974098 AAACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.08, G:0.36, T:0.26
Consensus pattern (20 bp):
GGAGTTGAAAAGGCTATGTG
Found at i:31981266 original size:50 final size:50
Alignment explanation
Indices: 31981183--31981430 Score: 289
Period size: 50 Copynumber: 4.9 Consensus size: 50
31981173 TATGTGGGTT
31981183 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * * * * *
31981233 TTAGGTCGCATGTGTAGTACTAAGTACAAGCTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * ** * *
31981283 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * *
31981334 TTAGGTCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACTAGATTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* ** * *
31981384 TTAGGTCGCAAGTGTAGTACTAAGTTCAGGCTACTATGCGTACCAGA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
31981431 GAGGTTCGGC
Statistics
Matches: 162, Mismatches: 35, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
50 124 0.77
51 38 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
Done.