Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 51 of 54
Found at i:20098456 original size:2 final size:2
Alignment explanation
Indices: 20098449--20098491 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
20098439 NNNNNNNNNN
20098449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20098491 A
1 A
20098492 CATACATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20098822 original size:21 final size:21
Alignment explanation
Indices: 20098782--20098823 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20098772 TTTGGTCACT
**
20098782 TGAATTTCGCTGCAGGGAGAA
1 TGAATTTCGCTGCAACGAGAA
20098803 TGAATTTCGCTGCAACGAGAA
1 TGAATTTCGCTGCAACGAGAA
20098824 ACTTTCTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (21 bp):
TGAATTTCGCTGCAACGAGAA
Found at i:20100515 original size:23 final size:23
Alignment explanation
Indices: 20100489--20100533 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20100479 AGTCCTTAAA
20100489 TTTTAATTAGATTT-TTTTTATTT
1 TTTTAATTA-ATTTATTTTTATTT
20100512 TTTTAATTAATTTATTTTTATT
1 TTTTAATTAATTTATTTTTATT
20100534 AAGTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTAATTAATTTATTTTTATTT
Found at i:20100529 original size:37 final size:36
Alignment explanation
Indices: 20100488--20100569 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 36
20100478 AAGTCCTTAA
* *
20100488 ATTTTAATT-AGATTTTTTTTATTTTTTTAATTAATTT
1 ATTTTAATTAAG-TTATTTTAATTTTTTT-ATTAATTT
* * *
20100525 ATTTTTATTAAGTTATTTTAATTTTTTTGTTTATTT
1 ATTTTAATTAAGTTATTTTAATTTTTTTATTAATTT
*
20100561 ACTTTAATT
1 ATTTTAATT
20100570 TGGCTATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
36 13 0.35
37 22 0.59
38 2 0.05
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.70
Consensus pattern (36 bp):
ATTTTAATTAAGTTATTTTAATTTTTTTATTAATTT
Found at i:20100535 original size:18 final size:18
Alignment explanation
Indices: 20100505--20100552 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
20100495 TTAGATTTTT
20100505 TTTATTTTTTTAA-TTAA
1 TTTATTTTTTTAAGTTAA
*
20100522 TTTATTTTTATTAAGTTAT
1 TTTATTTTT-TTAAGTTAA
20100541 TTTAATTTTTTT
1 TTT-ATTTTTTT
20100553 GTTTATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 8 0.30
20 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTTTTTAAGTTAA
Found at i:20100549 original size:19 final size:18
Alignment explanation
Indices: 20100487--20100549 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
20100477 TAAGTCCTTA
*
20100487 AATTTTAATTAGATTTTTTT
1 AATTTT-ATTA-ATTATTTT
* * *
20100507 TATTTTTTTAATTAATTT
1 AATTTTATTAATTATTTT
*
20100525 ATTTTTATTAAGTTATTTT
1 AATTTTATTAA-TTATTTT
20100544 AATTTT
1 AATTTT
20100550 TTTGTTTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 14 0.42
19 14 0.42
20 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
AATTTTATTAATTATTTT
Found at i:20106518 original size:29 final size:31
Alignment explanation
Indices: 20106454--20106519 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
20106444 ATTTCATCTT
* *
20106454 TTACAATTTGGTCTTTCAAACTTTTCATAAA
1 TTACAAGTTGATCTTTCAAACTTTTCATAAA
* *
20106485 TTACAAGTTGATC-TTCCAACTTTTGAT-AA
1 TTACAAGTTGATCTTTCAAACTTTTCATAAA
20106514 TTACAA
1 TTACAA
20106520 CTTCACCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.26
30 12 0.39
31 11 0.35
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (31 bp):
TTACAAGTTGATCTTTCAAACTTTTCATAAA
Found at i:20108026 original size:25 final size:25
Alignment explanation
Indices: 20107998--20108060 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
20107988 CATGTGGTCG
*
20107998 TAACCACGTATATCAACTCGAGGCC
1 TAACCACATATATCAACTCGAGGCC
*
20108023 TAACCACATATATCAACTCGTGGCC
1 TAACCACATATATCAACTCGAGGCC
**
20108048 TTGCCACATATAT
1 TAACCACATATAT
20108061 ATCATAGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (25 bp):
TAACCACATATATCAACTCGAGGCC
Found at i:20113886 original size:2 final size:2
Alignment explanation
Indices: 20113879--20113935 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
20113869 ACTTATATCC
20113879 AT AT AT AT AT AT AT -T AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20113919 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
20113936 ATTGGATAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:20114509 original size:23 final size:22
Alignment explanation
Indices: 20114483--20114541 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
20114473 CATTTTATTT
* *
20114483 TTTATTATTAAAATATTAACTTA
1 TTTATTATTAAAATATGAA-TAA
*
20114506 TTTATTATGAAAATATGAATAA
1 TTTATTATTAAAATATGAATAA
*
20114528 TTAATTATTAAAAT
1 TTTATTATTAAAAT
20114542 TTTTATATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (22 bp):
TTTATTATTAAAATATGAATAA
Found at i:20115549 original size:30 final size:29
Alignment explanation
Indices: 20115489--20115556 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
20115479 AGCCATCAAC
*
20115489 TGCGAGCCAAGCAACGTGCTGGGACAGTT
1 TGCGAGCCAAGCAACGTGCTAGGACAGTT
* * *
20115518 TGTGAGCCAAGCAATGTTGCTAGGTCAGTT
1 TGCGAGCCAAGCAACG-TGCTAGGACAGTT
20115548 TGCGAGCCA
1 TGCGAGCCA
20115557 GGTAGTGTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (29 bp):
TGCGAGCCAAGCAACGTGCTAGGACAGTT
Found at i:20115566 original size:30 final size:30
Alignment explanation
Indices: 20115489--20115591 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 30
20115479 AGCCATCAAC
* * * *
20115489 TGCGAGCCAAGCAACG-TGCTGGGACAGTT
1 TGCGAGCCAGGCAATGTTGCTAGGTCAGTT
* *
20115518 TGTGAGCCAAGCAATGTTGCTAGGTCAGTT
1 TGCGAGCCAGGCAATGTTGCTAGGTCAGTT
* * * * *
20115548 TGCGAGCCAGGTAGTGTTGCTGGGTTA-AT
1 TGCGAGCCAGGCAATGTTGCTAGGTCAGTT
*
20115577 TGCGAGCCAGACAAT
1 TGCGAGCCAGGCAAT
20115592 ATTGTTGGGA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
29 27 0.46
30 32 0.54
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (30 bp):
TGCGAGCCAGGCAATGTTGCTAGGTCAGTT
Found at i:20123410 original size:7 final size:7
Alignment explanation
Indices: 20123398--20123450 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
20123388 CTGCACCAAT
20123398 AAGAAAC
1 AAGAAAC
20123405 AAGAAAC
1 AAGAAAC
20123412 AAGAAAC
1 AAGAAAC
*
20123419 -AGAAAA
1 AAGAAAC
*
20123425 AAGAAAA
1 AAGAAAC
* *
20123432 AAAAAAG
1 AAGAAAC
*
20123439 AAGAAAG
1 AAGAAAC
20123446 AAGAA
1 AAGAA
20123451 GAAAATTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 5 0.12
7 36 0.88
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (7 bp):
AAGAAAC
Found at i:20123417 original size:14 final size:14
Alignment explanation
Indices: 20123398--20123455 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 14
20123388 CTGCACCAAT
*
20123398 AAGAAACAAGAAAC
1 AAGAAACAAGAAAA
20123412 AAGAAAC-AGAAAA
1 AAGAAACAAGAAAA
*
20123425 AAGAAA-AAAAAAA
1 AAGAAACAAGAAAA
*
20123438 GAAGAAAGAAGAAGAA
1 -AAGAAACAAGAA-AA
20123454 AA
1 AA
20123456 TTATAAAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 16 0.43
14 13 0.35
15 6 0.16
16 2 0.05
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAACAAGAAAA
Found at i:20123455 original size:18 final size:18
Alignment explanation
Indices: 20123398--20123455 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
20123388 CTGCACCAAT
*
20123398 AAGAAACAAGAAACAAGAA
1 AAGAAAAAAGAAA-AAGAA
*
20123417 ACAGAAAAAAGAAAAAAAA
1 A-AGAAAAAAGAAAAAGAA
* *
20123436 AAGAAGAAAGAAGAAGAA
1 AAGAAAAAAGAAAAAGAA
20123454 AA
1 AA
20123456 TTATAAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 16 0.48
19 6 0.18
20 11 0.33
ACGTcount: A:0.78, C:0.05, G:0.17, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAGAAAAAGAA
Found at i:20132807 original size:3 final size:3
Alignment explanation
Indices: 20132799--20132839 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
20132789 TGTTTACCAC
*
20132799 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20132840 CAAAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:20151255 original size:95 final size:93
Alignment explanation
Indices: 20151079--20151369 Score: 388
Period size: 95 Copynumber: 3.0 Consensus size: 93
20151069 ACTCAAGATG
* * *
20151079 AAGCTGAGAAACCAAGTAAAGAAGTAAAAAAAAAGTAACAAAG--AGAAGGTGAAGGAATGAAAG
1 AAGCTGAGAAACCCAGTGAAGAAGTAAAAAAAAATTAACAAAGAAAGAAGGTGAAGGAATGAAAG
20151142 CATGCCCCTGACACTCAATCCTCTTAAGC
66 C-TGCCCCTGACACTCAATCCTCTTAAGC
*
20151171 AAGCTGAGAAACCCAGTGAAGAAGTAAAAAAAAATTAACAAAGAAAAGAGGGTGAAGGAATGAAA
1 AAGCTGAGAAACCCAGTGAAGAAGTAAAAAAAAATTAACAAAG-AAAGAAGGTGAAGGAATGAAA
* *
20151236 GCTCGCCCCTGATACTCAATCCTTTTAAGC
65 GCT-GCCCCTGACACTCAATCCTCTTAAGC
* *
20151266 AAACTGAGAAACCCAGTGAAGAAGTTAAAAAAAAAAAAATTAACAAAGAGAAGAAAGTGAAGGAA
1 AAGCTGAGAAACCCAGTGAAGAAG-T----AAAAAAAAATTAACAAAGA-AAGAAGGTGAAGGAA
* *
20151331 TGAAAGTTTGCCCATGACACTCAATCCTCTTAAGC
60 TGAAAG-CTGCCCCTGACACTCAATCCTCTTAAGC
20151366 AAGC
1 AAGC
20151370 ATCACAGGTG
Statistics
Matches: 174, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
92 40 0.23
94 1 0.01
95 67 0.39
96 1 0.01
99 1 0.01
100 63 0.36
101 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (93 bp):
AAGCTGAGAAACCCAGTGAAGAAGTAAAAAAAAATTAACAAAGAAAGAAGGTGAAGGAATGAAAG
CTGCCCCTGACACTCAATCCTCTTAAGC
Found at i:20153409 original size:115 final size:115
Alignment explanation
Indices: 20153207--20153435 Score: 449
Period size: 115 Copynumber: 2.0 Consensus size: 115
20153197 GGATCAATCA
*
20153207 ATAAACTATTGTTGCATTATGTTGGTACAACAGTAGTAAAGCAATTAATATTTTTCAACAAAAAG
1 ATAAACTATTGTTGCATCATGTTGGTACAACAGTAGTAAAGCAATTAATATTTTTCAACAAAAAG
20153272 TTTTTCCTTATTTTGTCAAATTGCAATGTTAATTATGGTATTTAATTATG
66 TTTTTCCTTATTTTGTCAAATTGCAATGTTAATTATGGTATTTAATTATG
20153322 ATAAACTATTGTTGCATCATGTTGGTACAACAGTAGTAAAGCAATTAATATTTTTCAACAAAAAG
1 ATAAACTATTGTTGCATCATGTTGGTACAACAGTAGTAAAGCAATTAATATTTTTCAACAAAAAG
20153387 TTTTTCCTTATTTTGTCAAATTGCAATGTTAATTATGGTATTTAATTAT
66 TTTTTCCTTATTTTGTCAAATTGCAATGTTAATTATGGTATTTAATTAT
20153436 TTATTTAAGT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (115 bp):
ATAAACTATTGTTGCATCATGTTGGTACAACAGTAGTAAAGCAATTAATATTTTTCAACAAAAAG
TTTTTCCTTATTTTGTCAAATTGCAATGTTAATTATGGTATTTAATTATG
Found at i:20164683 original size:12 final size:12
Alignment explanation
Indices: 20164661--20164693 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20164651 TTTTATTTTG
20164661 GAAA-GCAAGAT
1 GAAATGCAAGAT
*
20164672 GAAATTCAAGAT
1 GAAATGCAAGAT
20164684 GAAATGCAAG
1 GAAATGCAAG
20164694 TAAAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.15
Consensus pattern (12 bp):
GAAATGCAAGAT
Found at i:20166206 original size:37 final size:36
Alignment explanation
Indices: 20166159--20166299 Score: 134
Period size: 34 Copynumber: 4.0 Consensus size: 36
20166149 GAGACGAAGA
* * *
20166159 AAAAAGGAGCTTGCTGTCGGTTTGTGAGAGAGAAAG
1 AAAAGGGAGCTTGCTGCCAGTTTGTGAGAGAGAAAG
20166195 TAAAAGGGAGCTTGCTGCC-GTTTTGTGAGAGAGAAAGG
1 -AAAAGGGAGCTTGCTGCCAG-TTTGTGAGAGAGAAA-G
* *
20166233 AGAAA---A-CTTGCTGTCAATTTGTGAGAGA-AAA-
1 A-AAAGGGAGCTTGCTGCCAGTTTGTGAGAGAGAAAG
* *
20166264 AGAAGGGAGCTTGCTGCCAGTTTGTGAGGGAGAAAG
1 AAAAGGGAGCTTGCTGCCAGTTTGTGAGAGAGAAAG
20166300 GAGAAAGTTG
Statistics
Matches: 86, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
30 2 0.02
31 1 0.01
33 4 0.05
34 38 0.44
35 4 0.05
36 1 0.01
37 32 0.37
38 4 0.05
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (36 bp):
AAAAGGGAGCTTGCTGCCAGTTTGTGAGAGAGAAAG
Found at i:20166288 original size:68 final size:70
Alignment explanation
Indices: 20166168--20166305 Score: 201
Period size: 68 Copynumber: 2.0 Consensus size: 70
20166158 AAAAAAGGAG
**
20166168 CTTGCTGTCGGTTTGTGAGAGAGAAAGTAAAAGGGAGCTTGCTGCCGTTTTGTGAGAGAGAAAGG
1 CTTGCTGTCAATTTGTGAGAGAGAAAG-AAAAGGGAGCTTGCTGCCGTTTTGTGAGAGAGAAAGG
20166233 AGAAAA
65 AGAAAA
* *
20166239 CTTGCTGTCAATTTGTGAGAGA-AAA-AGAAGGGAGCTTGCTGCCAG-TTTGTGAGGGAGAAAGG
1 CTTGCTGTCAATTTGTGAGAGAGAAAGAAAAGGGAGCTTGCTGCC-GTTTTGTGAGAGAGAAAGG
20166301 AGAAA
65 AGAAA
20166306 GTTGGCTGGA
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
68 38 0.61
69 1 0.02
70 3 0.05
71 20 0.32
ACGTcount: A:0.32, C:0.10, G:0.35, T:0.23
Consensus pattern (70 bp):
CTTGCTGTCAATTTGTGAGAGAGAAAGAAAAGGGAGCTTGCTGCCGTTTTGTGAGAGAGAAAGGA
GAAAA
Found at i:20166402 original size:38 final size:38
Alignment explanation
Indices: 20166343--20166450 Score: 146
Period size: 38 Copynumber: 2.9 Consensus size: 38
20166333 AACAGAGAAA
* * *
20166343 GAAAAA-AAAGAAAAAGCTGGGTTTTGTGGTGACCGAC
1 GAAAAAGAGAGAAAGAGCTGGGTTTTGTGGTGAACGAC
* *
20166380 GAAAAAGAGAGAAAGAGTTGGGTTTTGTGGTGAACGGC
1 GAAAAAGAGAGAAAGAGCTGGGTTTTGTGGTGAACGAC
**
20166418 GAAAAAGAGAGAAAGAGCTGGGCATTGTGGTGA
1 GAAAAAGAGAGAAAGAGCTGGGTTTTGTGGTGA
20166451 TCGGCAAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
37 6 0.10
38 56 0.90
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (38 bp):
GAAAAAGAGAGAAAGAGCTGGGTTTTGTGGTGAACGAC
Found at i:20167996 original size:39 final size:40
Alignment explanation
Indices: 20167953--20168073 Score: 101
Period size: 36 Copynumber: 3.0 Consensus size: 40
20167943 AGATTGCCTA
20167953 TGTGCGCGATGTGGGGGGAGCACATGATGGTAATAGT-TG-
1 TGTG-GCGATGTGGGGGGAGCACATGATGGTAATAGTATGC
* * *
20167992 TGT-GCAATGT-GGGGGTGCACATGATGATGATGATA-TATGCC
1 TGTGGCGATGTGGGGGGAGCACATGATG--G-TAATAGTATG-C
*
20168033 ATGTGTGCGATGTGGGGGGAGCACATGATGGCAATAG-ATGC
1 -TGTG-GCGATGTGGGGGGAGCACATGATGGTAATAGTATGC
20168074 GCGTGATGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
36 15 0.23
37 6 0.09
38 2 0.03
39 9 0.14
41 1 0.02
42 9 0.14
43 1 0.02
44 6 0.09
45 15 0.23
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.26
Consensus pattern (40 bp):
TGTGGCGATGTGGGGGGAGCACATGATGGTAATAGTATGC
Found at i:20168083 original size:81 final size:81
Alignment explanation
Indices: 20167936--20168099 Score: 222
Period size: 81 Copynumber: 2.0 Consensus size: 81
20167926 AGGGAGTGTG
* * * *
20167936 GATGATGAGATTGCCTATGTGCGCGATGTGGGGGGAGCACATGATGGTAATAGTTGTGTGCAATG
1 GATGATGAGATTGCCTATGTGCGCGATGTGGGGGGAGCACATGATGGCAATAGATGCGCGCAATG
**
20168001 TGGGGGTGCACATGAT
66 TGAAGGTGCACATGAT
* * **
20168017 GATGATGATATATGCC-ATGTGTGCGATGTGGGGGGAGCACATGATGGCAATAGATGCGCGTGAT
1 GATGATGAGAT-TGCCTATGTGCGCGATGTGGGGGGAGCACATGATGGCAATAGATGCGCGCAAT
20168081 GTGAAGGTGCACATGAT
65 GTGAAGGTGCACATGAT
20168098 GA
1 GA
20168100 CTCTAGCTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 68 0.94
82 4 0.06
ACGTcount: A:0.24, C:0.12, G:0.38, T:0.26
Consensus pattern (81 bp):
GATGATGAGATTGCCTATGTGCGCGATGTGGGGGGAGCACATGATGGCAATAGATGCGCGCAATG
TGAAGGTGCACATGAT
Found at i:20168286 original size:19 final size:21
Alignment explanation
Indices: 20168262--20168301 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20168252 ATTGAGAAAA
*
20168262 CTTGA-TTATTGT-CAATGTG
1 CTTGATTTAATGTACAATGTG
20168281 CTTGATTTAATGTACAATGTG
1 CTTGATTTAATGTACAATGTG
20168302 GCATGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (21 bp):
CTTGATTTAATGTACAATGTG
Found at i:20168646 original size:19 final size:21
Alignment explanation
Indices: 20168622--20168661 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20168612 ATTGAGAAAA
*
20168622 CTTGA-TTATTGT-CAATGTG
1 CTTGATTTAATGTACAATGTG
20168641 CTTGATTTAATGTACAATGTG
1 CTTGATTTAATGTACAATGTG
20168662 GCATGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (21 bp):
CTTGATTTAATGTACAATGTG
Found at i:20168650 original size:360 final size:359
Alignment explanation
Indices: 20167989--20168708 Score: 1431
Period size: 360 Copynumber: 2.0 Consensus size: 359
20167979 ATGGTAATAG
20167989 TTGTGTGCAATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGTGCGATGTGGGGGGAG
1 TTGTGTGCAATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGTGCGATGTGGGGGGAG
20168054 CACATGATGGCAATAGATGCGCGTGATGTGAAGGTGCACATGATGACTCTAGCTATGTACGGTGC
66 CACATGATGGCAATAGATGCGCGTGATGTGAAGGTGCACATGATGACTCTAGCTATGTACGGTGC
20168119 AGAGTACCCATGAGCTGGGTGAAGTGGTGATTCTATACATGGTAGTATATATATATATATATATA
131 AGAGTACCCATGAGCTGGGTGAAGTGGTGATTCTATACATGGTAGTATATATATATATATATATA
20168184 TATGCTATAAATATGTTTTTTATATGCTATAGAAAAGGTTATGAAAATAATATGTGACTGCATTA
196 TATGCTATAAATATGTTTTTTATATGCTATAGAAAAGGTTATGAAAATAATATGTGACTGCATTA
20168249 AATATTGAGAAAACTTGATTATTGTCAATGTGCTTGATTTAATGTACAATGTGGCATGAGTGGAT
261 AATATTGAGAAAACTTGATTATTGTCAATGTGCTTGATTTAATGTACAATGTGGCATGAGTGGAT
20168314 TTTCCTTGTGGTAGTGAAAACCCCTTAGATTTTA
326 TTTCCTTGTGGTAGTGAAAACCCCTTAGATTTTA
20168348 NTTGTGTGCAATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGTGCGATGTGGGGGGA
1 -TTGTGTGCAATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGTGCGATGTGGGGGGA
20168413 GCACATGATGGCAATAGATGCGCGTGATGTGAAGGTGCACATGATGACTCTAGCTATGTACGGTG
65 GCACATGATGGCAATAGATGCGCGTGATGTGAAGGTGCACATGATGACTCTAGCTATGTACGGTG
20168478 CAGAGTACCCATGAGCTGGGTGAAGTGGTGATTCTATACATGGTAGTATATATATATATATATAT
130 CAGAGTACCCATGAGCTGGGTGAAGTGGTGATTCTATACATGGTAGTATATATATATATATATAT
20168543 ATATGCTATAAATATGTTTTTTATATGCTATAGAAAAGGTTATGAAAATAATATGTGACTGCATT
195 ATATGCTATAAATATGTTTTTTATATGCTATAGAAAAGGTTATGAAAATAATATGTGACTGCATT
20168608 AAATATTGAGAAAACTTGATTATTGTCAATGTGCTTGATTTAATGTACAATGTGGCATGAGTGGA
260 AAATATTGAGAAAACTTGATTATTGTCAATGTGCTTGATTTAATGTACAATGTGGCATGAGTGGA
20168673 TTTTCCTTGTGGTAGTGAAAACCCCTTAGATTTTA
325 TTTTCCTTGTGGTAGTGAAAACCCCTTAGATTTTA
20168708 T
1 T
20168709 CTGACCAGAA
Statistics
Matches: 360, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
359 1 0.00
360 359 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (359 bp):
TTGTGTGCAATGTGGGGGTGCACATGATGATGATGATATATGCCATGTGTGCGATGTGGGGGGAG
CACATGATGGCAATAGATGCGCGTGATGTGAAGGTGCACATGATGACTCTAGCTATGTACGGTGC
AGAGTACCCATGAGCTGGGTGAAGTGGTGATTCTATACATGGTAGTATATATATATATATATATA
TATGCTATAAATATGTTTTTTATATGCTATAGAAAAGGTTATGAAAATAATATGTGACTGCATTA
AATATTGAGAAAACTTGATTATTGTCAATGTGCTTGATTTAATGTACAATGTGGCATGAGTGGAT
TTTCCTTGTGGTAGTGAAAACCCCTTAGATTTTA
Found at i:20171630 original size:28 final size:28
Alignment explanation
Indices: 20171585--20171687 Score: 109
Period size: 28 Copynumber: 3.7 Consensus size: 28
20171575 GTGTCATGGT
** * *
20171585 GGTGA-AAAATTATGATTTTGCCCTTTG
1 GGTGACAAAATTACCATTTTGCCCATAG
*
20171612 AGTGACAAAATTACCATTTTGCCCATAG
1 GGTGACAAAATTACCATTTTGCCCATAG
* * *
20171640 GGTGGCAAAATTACGATTTTGCCCCTAG
1 GGTGACAAAATTACCATTTTGCCCATAG
**
20171668 GGTGGTAAAATTACCATTTT
1 GGTGACAAAATTACCATTTT
20171688 ACCTCTATGC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
27 4 0.06
28 60 0.94
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (28 bp):
GGTGACAAAATTACCATTTTGCCCATAG
Found at i:20179177 original size:28 final size:28
Alignment explanation
Indices: 20179118--20179195 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
20179108 GTGTCTTGGT
* * *
20179118 GGTGG-AAAATTACGATTTTGCCTATGG
1 GGTGGCAAAATTACGATTTTACCCATAG
*
20179145 GGTGGCAAAATTACGATTTTACCCCTAG
1 GGTGGCAAAATTACGATTTTACCCATAG
*
20179173 TGTGGCAAAATTATC-ATTTTACC
1 GGTGGCAAAATTA-CGATTTTACC
20179196 GTTATGCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 5 0.11
28 38 0.86
29 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (28 bp):
GGTGGCAAAATTACGATTTTACCCATAG
Found at i:20184995 original size:38 final size:40
Alignment explanation
Indices: 20184952--20185053 Score: 127
Period size: 38 Copynumber: 2.6 Consensus size: 40
20184942 TAGTGCCCGA
*
20184952 GTGCACGATGTGGGGGGATGTACACGATGGC-ACTGAT-T
1 GTGCACGATGTGGGGGGATGTACACGATGGCGACAGATAT
* * * * *
20184990 GTGCACGATGTGGGGGAATGCACATGATGGCGCCAGCTAT
1 GTGCACGATGTGGGGGGATGTACACGATGGCGACAGATAT
*
20185030 GTGCGCGATGTGGGGGGATGTACA
1 GTGCACGATGTGGGGGGATGTACA
20185054 TGAGCTGGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 28 0.53
39 3 0.06
40 22 0.42
ACGTcount: A:0.21, C:0.17, G:0.41, T:0.22
Consensus pattern (40 bp):
GTGCACGATGTGGGGGGATGTACACGATGGCGACAGATAT
Found at i:20193060 original size:26 final size:26
Alignment explanation
Indices: 20193005--20193060 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
20192995 AAATTTTTAA
**
20193005 TTATAATTTATTTATTTTTAGTTGTT
1 TTATAATTTATTTATTTTTAGTTGAG
20193031 TTATAA-TTATTTTATTTTTAAG-TGAG
1 TTATAATTTA-TTTATTTTT-AGTTGAG
20193057 TTAT
1 TTAT
20193061 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 3 0.12
26 21 0.81
27 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (26 bp):
TTATAATTTATTTATTTTTAGTTGAG
Found at i:20196556 original size:35 final size:35
Alignment explanation
Indices: 20196517--20196636 Score: 104
Period size: 35 Copynumber: 3.5 Consensus size: 35
20196507 TTGATCTCGA
*
20196517 GAAAAACCATTGTTAAAGGTTGTGGCCGAGTCTAT
1 GAAAAACCATTGTTAAAGGTTGTGGCTGAGTCTAT
* * * * * **
20196552 GAAAAGCTATT-TT--AGGTTTTAGTTGA-TCCCGT
1 GAAAAACCATTGTTAAAGGTTGTGGCTGAGT-CTAT
*
20196584 GAAAAACCATTGTTAAAGGTTGTGGCTGAGCCTAT
1 GAAAAACCATTGTTAAAGGTTGTGGCTGAGTCTAT
* *
20196619 GAAAAGCCATTGTAAAAG
1 GAAAAACCATTGTTAAAG
20196637 CTTGGTGGAA
Statistics
Matches: 62, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
31 1 0.02
32 20 0.32
33 2 0.03
34 2 0.03
35 37 0.60
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (35 bp):
GAAAAACCATTGTTAAAGGTTGTGGCTGAGTCTAT
Found at i:20196572 original size:67 final size:68
Alignment explanation
Indices: 20196484--20196625 Score: 232
Period size: 67 Copynumber: 2.1 Consensus size: 68
20196474 CCAAGCCTTA
* * *
20196484 GAAAAGTTAGTTTTAGGTTTTAGTTGATCTCGAGAAAAACCATTGTTAAAGGTTGTGGCCGAGTC
1 GAAAAGCTAGTTTTAGGTTTTAGTTGATCCCGAGAAAAACCATTGTTAAAGGTTGTGGCCGAGCC
20196549 TAT
66 TAT
* *
20196552 GAAAAGCTA-TTTTAGGTTTTAGTTGATCCCGTGAAAAACCATTGTTAAAGGTTGTGGCTGAGCC
1 GAAAAGCTAGTTTTAGGTTTTAGTTGATCCCGAGAAAAACCATTGTTAAAGGTTGTGGCCGAGCC
20196616 TAT
66 TAT
20196619 GAAAAGC
1 GAAAAGC
20196626 CATTGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 61 0.88
68 8 0.12
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (68 bp):
GAAAAGCTAGTTTTAGGTTTTAGTTGATCCCGAGAAAAACCATTGTTAAAGGTTGTGGCCGAGCC
TAT
Found at i:20197355 original size:25 final size:25
Alignment explanation
Indices: 20197321--20197376 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
20197311 GGTTTGTGAT
*
20197321 ATATACGTGGCAAGGCCACAAGTTG
1 ATATACGTGGCAACGCCACAAGTTG
* * *
20197346 ATATATGTGGCTACGCCACTAGTTG
1 ATATACGTGGCAACGCCACAAGTTG
20197371 ATATAC
1 ATATAC
20197377 ATCGTTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
ATATACGTGGCAACGCCACAAGTTG
Found at i:20198560 original size:20 final size:20
Alignment explanation
Indices: 20198535--20198586 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
20198525 TCTAACATAA
*
20198535 AATTAAACTAAAACAACTTG
1 AATTAAACTAAAACAACATG
* **
20198555 AATTAAATTAACTCAACATG
1 AATTAAACTAAAACAACATG
*
20198575 ATTTAAACTAAA
1 AATTAAACTAAA
20198587 TTAAGAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (20 bp):
AATTAAACTAAAACAACATG
Found at i:20201199 original size:28 final size:28
Alignment explanation
Indices: 20201156--20201237 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 28
20201146 TGTAACAAGT
20201156 TGTTGTTACA-TGCCATGTTGAAAAATGA
1 TGTTGTTACACT-CCATGTTGAAAAATGA
20201184 TGTTGTTACACTCCATGTTGATAAAATGA
1 TGTTGTTACACTCCATGTTGA-AAAATGA
* * *
20201213 TGCTGTTACACGCCATGTTCAAAAA
1 TGTTGTTACACTCCATGTTGAAAAA
20201238 AATTATCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 23 0.47
29 26 0.53
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (28 bp):
TGTTGTTACACTCCATGTTGAAAAATGA
Found at i:20203855 original size:15 final size:15
Alignment explanation
Indices: 20203837--20203879 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
20203827 TTACAATAAA
20203837 TTTTTT-TTTTCTTT
1 TTTTTTCTTTTCTTT
*
20203851 TTTTTTCTTTTCCTT
1 TTTTTTCTTTTCTTT
*
20203866 TTCTTTCTTTTCTT
1 TTTTTTCTTTTCTT
20203880 GGTTTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:20203862 original size:5 final size:5
Alignment explanation
Indices: 20203838--20203879 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
20203828 TACAATAAAT
* *
20203838 TTTTT TTTTC TTTTT TTTTC TTTTCC TTTTC -TTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTT-C TTTTC TTTTC TTTTC TT
20203880 GGTTTTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:20216397 original size:17 final size:17
Alignment explanation
Indices: 20216366--20216398 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20216356 TTGTTGATAA
20216366 AATAAAACTTCTTATTG
1 AATAAAACTTCTTATTG
20216383 AATAATAACTT-TTATT
1 AATAA-AACTTCTTATT
20216399 TTATTATTAT
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:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (17 bp):
AATAAAACTTCTTATTG
Found at i:20216457 original size:18 final size:20
Alignment explanation
Indices: 20216420--20216457 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
20216410 TATCTTTATT
20216420 TAAAAGGAATTAATAATAAA
1 TAAAAGGAATTAATAATAAA
*
20216440 TAAAA-GAA-TAATAGTAAA
1 TAAAAGGAATTAATAATAAA
20216458 ACATGAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
TAAAAGGAATTAATAATAAA
Found at i:20216603 original size:28 final size:28
Alignment explanation
Indices: 20216550--20216714 Score: 141
Period size: 28 Copynumber: 5.6 Consensus size: 28
20216540 TCTTATCTTT
*
20216550 AATTAAGACAAATATATTTTATTTTGTCTA
1 AATTAAGACAAATAT-GTTT-TTTTGTCTA
*
20216580 AATTCAGACAAATATGTTTTTTTGTCTA
1 AATTAAGACAAATATGTTTTTTTGTCTA
* * * *
20216608 AATTAAGACAAAAAAATATTTTTCTTATTTTA
1 AATTAAGAC--AAATATGTTTTT-TT-GTCTA
* * * *
20216640 ATTTAAGACAAACATCTTTTCTTGTCTA
1 AATTAAGACAAATATGTTTTTTTGTCTA
* * *
20216668 AATTAAGATCAAATATGTTTTCTTCTTTA
1 AATTAAGA-CAAATATGTTTTTTTGTCTA
*
20216697 AATTAAGACAAACATGTT
1 AATTAAGACAAATATGTT
20216715 AAAGCTGCCA
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
28 36 0.32
29 29 0.26
30 33 0.30
31 2 0.02
32 11 0.10
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (28 bp):
AATTAAGACAAATATGTTTTTTTGTCTA
Found at i:20222935 original size:23 final size:23
Alignment explanation
Indices: 20222903--20222958 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
20222893 TGTACATATA
20222903 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
*
20222926 CTCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
20222949 CCCATCATCA
1 CCCATCATCA
20222959 CCAGCTCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.43, G:0.04, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Found at i:20223043 original size:43 final size:44
Alignment explanation
Indices: 20222953--20223083 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 44
20222943 CACCATCCCA
* * *
20222953 TCATCACC-AGCTCATGCGCACTCCCTACTCGCACAT-GGCTGGG
1 TCATCACCGA-CTTATGCGCACTCCCTACTCGCACATAAGCTGAG
* * *
20222996 TCATCACCGATTTATGCGCACTCCCTACTCGCACATAATC-GAT
1 TCATCACCGACTTATGCGCACTCCCTACTCGCACATAAGCTGAG
* * * *
20223039 TCATCATCGGCTTATGTGCACTCCCTACTCGCACAT-AGCCGAG
1 TCATCACCGACTTATGCGCACTCCCTACTCGCACATAAGCTGAG
20223082 TC
1 TC
20223084 CATATAATTA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.03
43 69 0.95
44 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (44 bp):
TCATCACCGACTTATGCGCACTCCCTACTCGCACATAAGCTGAG
Found at i:20226851 original size:21 final size:22
Alignment explanation
Indices: 20226826--20226866 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20226816 CCTAGGTGGA
*
20226826 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
20226847 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
20226867 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:20226867 original size:20 final size:21
Alignment explanation
Indices: 20226826--20226870 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
20226816 CCTAGGTGGA
*
20226826 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
20226847 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
20226867 AAAA
1 AAAA
20226871 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:20226871 original size:21 final size:20
Alignment explanation
Indices: 20226824--20226871 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
20226814 ACCCTAGGTG
*
20226824 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
20226844 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
20226866 GAAAAA
1 GAAAAA
20226872 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:20231876 original size:2 final size:2
Alignment explanation
Indices: 20231869--20231894 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20231859 TTCATGAAGC
20231869 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
20231895 GAGGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20232247 original size:29 final size:29
Alignment explanation
Indices: 20232205--20232262 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
20232195 TTGAACCCTT
*
20232205 AGGATTGGGAAGAGTTGAATAGGAAAGTA
1 AGGATTGAGAAGAGTTGAATAGGAAAGTA
*
20232234 AGGATTGAGAAGAGTTGAATAGGGAAGTA
1 AGGATTGAGAAGAGTTGAATAGGAAAGTA
20232263 GGAGAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (29 bp):
AGGATTGAGAAGAGTTGAATAGGAAAGTA
Found at i:20234081 original size:13 final size:13
Alignment explanation
Indices: 20234063--20234089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20234053 TACTTGACAG
20234063 CCTCCTATGCCAC
1 CCTCCTATGCCAC
20234076 CCTCCTATGCCAC
1 CCTCCTATGCCAC
20234089 C
1 C
20234090 TTCTAGTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.56, G:0.07, T:0.22
Consensus pattern (13 bp):
CCTCCTATGCCAC
Found at i:20238124 original size:16 final size:16
Alignment explanation
Indices: 20238103--20238136 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20238093 AGGCCCTGTA
20238103 GATTTAAAGATAAGTG
1 GATTTAAAGATAAGTG
*
20238119 GATTTAAAGATGAGTG
1 GATTTAAAGATAAGTG
20238135 GA
1 GA
20238137 AGGAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (16 bp):
GATTTAAAGATAAGTG
Found at i:20251160 original size:2 final size:2
Alignment explanation
Indices: 20251147--20251201 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
20251137 CATGTATACA
*
20251147 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
20251189 TG TG TG TG TG TG T
1 TG TG TG TG TG TG T
20251202 ATAGCTCCTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:20265058 original size:42 final size:42
Alignment explanation
Indices: 20264951--20265066 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
20264941 CTACCTCAGT
* * *
20264951 AAGTGTT-CAACCAGACGCCGAGGTCACAAAGCCTGCTTCTAC
1 AAGTGTTAC-ACCAGACACCGAGGTCTCAAAGCCTGCTTCAAC
*
20264993 AAGTGTTACACCAGAGACCGAGGTCTCAAAGCCTGCTTCAAC
1 AAGTGTTACACCAGACACCGAGGTCTCAAAGCCTGCTTCAAC
* * * *
20265035 AAGTGTTCCGCCTGACACTGAGGTCTCAAAGC
1 AAGTGTTACACCAGACACCGAGGTCTCAAAGC
20265067 ACATTGGTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 63 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (42 bp):
AAGTGTTACACCAGACACCGAGGTCTCAAAGCCTGCTTCAAC
Found at i:20277736 original size:2 final size:2
Alignment explanation
Indices: 20277731--20277783 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
20277721 ATATATATAT
20277731 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20277773 AG AG ACG AG AG
1 AG AG A-G AG AG
20277784 TCTGGCAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20277865 original size:2 final size:2
Alignment explanation
Indices: 20277858--20277927 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
20277848 GCATNATTAC
20277858 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
20277899 GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
20277928 CTTTCTAAGC
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 64 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20292235 original size:46 final size:46
Alignment explanation
Indices: 20292176--20292350 Score: 223
Period size: 46 Copynumber: 3.9 Consensus size: 46
20292166 TCATTCATCG
*
20292176 TCATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATCATTAGC
1 TCATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCATTAGC
* * *
20292222 TCATGTGCACTCCCTACTCGCACATAGCTGGGTCATTATCGGTT---
1 TCATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATC-ATTAGC
* * *
20292266 T-ATATGCACTCCCTACTCGCACATAGCCGGGTCATCATCATAAGT
1 TCATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCATTAGC
* * *
20292311 TCATGTGCACTCCCTATTCACACATAGCTGGGTCATCATC
1 TCATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATC
20292351 GGCTTATGCC
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 35 0.32
44 1 0.01
45 1 0.01
46 71 0.64
47 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.29
Consensus pattern (46 bp):
TCATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCATTAGC
Found at i:20292288 original size:43 final size:43
Alignment explanation
Indices: 20292178--20292393 Score: 209
Period size: 46 Copynumber: 4.9 Consensus size: 43
20292168 ATTCATCGTC
* *
20292178 ATGTGCACTCCCTACTCGCACATAGCCAGGTCATCATC-ATTAGCT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGTT---T
* *
20292223 CATGTGCACTCCCTACTCGCACATAGCTGGGTCATTATCGGTTT
1 -ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGTTT
* * *
20292267 ATATGCACTCCCTACTCGCACATAGCCGGGTCATCATCATAAGTTC
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATC---GGTTT
* * * *
20292313 ATGTGCACTCCCTATTCACACATAGCTGGGTCATCATCGGCTT
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGTTT
** * * * *
20292356 ATGCCCACTCCTTGCTCACACATAGCCAGGTCATCATC
1 ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATC
20292394 ATCACACAAC
Statistics
Matches: 143, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
43 68 0.48
44 1 0.01
46 72 0.50
47 2 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGTGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGTTT
Found at i:20292335 original size:89 final size:89
Alignment explanation
Indices: 20292181--20292395 Score: 313
Period size: 89 Copynumber: 2.4 Consensus size: 89
20292171 CATCGTCATG
* *
20292181 TGCACTCCCTACTCGCACATAGCCAGGTCATCATCATTAGCTCATGTGCACTCCCTACTCGCACA
1 TGCACTCCCTACTCGCACATAGCCAGGTCATCATCATAAGCTCATGTGCACTCCCTACTCACACA
* *
20292246 TAGCTGGGTCATTATCGGTTTATA
66 TAGCTGGGTCATCATCGGCTTATA
* * *
20292270 TGCACTCCCTACTCGCACATAGCCGGGTCATCATCATAAGTTCATGTGCACTCCCTATTCACACA
1 TGCACTCCCTACTCGCACATAGCCAGGTCATCATCATAAGCTCATGTGCACTCCCTACTCACACA
*
20292335 TAGCTGGGTCATCATCGGCTTATG
66 TAGCTGGGTCATCATCGGCTTATA
** * * *
20292359 CCCACTCCTTGCTCACACATAGCCAGGTCATCATCAT
1 TGCACTCCCTACTCGCACATAGCCAGGTCATCATCAT
20292396 CACACAACAT
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 112 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (89 bp):
TGCACTCCCTACTCGCACATAGCCAGGTCATCATCATAAGCTCATGTGCACTCCCTACTCACACA
TAGCTGGGTCATCATCGGCTTATA
Found at i:20296255 original size:24 final size:24
Alignment explanation
Indices: 20296223--20296268 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
20296213 GAATTATAGG
*
20296223 TGTCCTGTAATTCATTGTAGTAGT
1 TGTCCTGTAATTCATTATAGTAGT
* *
20296247 TGTCTTGTAATTCCTTATAGTA
1 TGTCCTGTAATTCATTATAGTA
20296269 ATCTCTCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGTCCTGTAATTCATTATAGTAGT
Found at i:20299432 original size:27 final size:27
Alignment explanation
Indices: 20299373--20299435 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
20299363 TGCTCCCATA
*
20299373 TAATGCAACTTGCAGGCGGCACAGCAT
1 TAATGTAACTTGCAGGCGGCACAGCAT
*
20299400 TAATGTAACTTGCCGGCGGCACAGCAT
1 TAATGTAACTTGCAGGCGGCACAGCAT
20299427 TAATGTAAC
1 TAATGTAAC
20299436 AGTTAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (27 bp):
TAATGTAACTTGCAGGCGGCACAGCAT
Found at i:20304216 original size:38 final size:39
Alignment explanation
Indices: 20304126--20304221 Score: 131
Period size: 38 Copynumber: 2.5 Consensus size: 39
20304116 ACCCAACTCA
* * *
20304126 TGTGCATCCCCCCACATCGTGCACATAGTTGGGGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AGTTAGGGCCATAG
* *
20304166 TGTGCATCCCCCCTCATCGTGCAC-AGTTAGTGCCATAG
1 TGTGCATCCCCCCACATCGTGCACAAGTTAGGGCCATAG
20304204 TGTGCATCCCCCCACATC
1 TGTGCATCCCCCCACATC
20304222 ATACACACGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 27 0.54
40 23 0.46
ACGTcount: A:0.18, C:0.36, G:0.21, T:0.25
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAGTTAGGGCCATAG
Found at i:20305120 original size:22 final size:21
Alignment explanation
Indices: 20305095--20305143 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
20305085 AAGGGAAGAA
20305095 GGAAGGAGAAGAAGAAGCTACT
1 GGAAGGAGAA-AAGAAGCTACT
* * *
20305117 GGAAATGTGAAAAGAAGCTGCT
1 GG-AAGGAGAAAAGAAGCTACT
20305139 GGAAG
1 GGAAG
20305144 CTGATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 14 0.64
23 6 0.27
ACGTcount: A:0.43, C:0.08, G:0.37, T:0.12
Consensus pattern (21 bp):
GGAAGGAGAAAAGAAGCTACT
Found at i:20310707 original size:40 final size:38
Alignment explanation
Indices: 20310648--20310746 Score: 126
Period size: 38 Copynumber: 2.6 Consensus size: 38
20310638 ATCCAGCTTA
* *
20310648 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-A-CCAGAGCCATCG
* ** *
20310688 TGTGCATCCCCCCATATCGTGCACAATTAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAACCAGAGCCATCG
20310726 TGTGCATCCCCCCACATCGTG
1 TGTGCATCCCCCCACATCGTG
20310747 TACACGGGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 27 0.52
39 1 0.02
40 24 0.46
ACGTcount: A:0.19, C:0.37, G:0.20, T:0.23
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAACCAGAGCCATCG
Found at i:20312427 original size:19 final size:20
Alignment explanation
Indices: 20312392--20312437 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
20312382 TTTTTTTTTT
*
20312392 AAACACAAATAAAACATGCA
1 AAACATAAATAAAACATGCA
20312412 AAACATAAAT-AAACATGCA
1 AAACATAAATAAAACATGCA
*
20312431 AGACATA
1 AAACATA
20312438 TCTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.63, C:0.17, G:0.07, T:0.13
Consensus pattern (20 bp):
AAACATAAATAAAACATGCA
Found at i:20317692 original size:13 final size:13
Alignment explanation
Indices: 20317674--20317698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20317664 TTTCAGAAAA
20317674 TTTATAAAATCAT
1 TTTATAAAATCAT
20317687 TTTATAAAATCA
1 TTTATAAAATCA
20317699 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:20320643 original size:15 final size:16
Alignment explanation
Indices: 20320623--20320665 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
20320613 AAATCAAATT
*
20320623 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
*
20320638 AAAATAAACTAATTATA
1 AAAAT-AACTAACTATA
20320655 AAAATAACTAA
1 AAAATAACTAA
20320666 AAATAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:20321890 original size:21 final size:21
Alignment explanation
Indices: 20321864--20321943 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
20321854 ATGAAAAAAT
20321864 TGTATTGATACATTATGAACA
1 TGTATTGATACATTATGAACA
*
20321885 TGTATTGAT--A-TATGACCA
1 TGTATTGATACATTATGAACA
* *
20321903 TATATATCGATACATTTTGAACA
1 TGTAT-T-GATACATTATGAACA
*
20321926 TGTATCGATACATT-TGAA
1 TGTATTGATACATTATGAA
20321944 GCAAAATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 11 0.23
19 2 0.04
20 7 0.15
21 17 0.35
22 1 0.02
23 10 0.21
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATTGATACATTATGAACA
Found at i:20323165 original size:31 final size:30
Alignment explanation
Indices: 20323084--20323169 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
20323074 ACTTTATTAA
* * * *
20323084 ACCTTTTCAAAGTTAAGGTTTAACATCTTT
1 ACCTTTTAAAAGTTAACGTATAACAACTTT
* *
20323114 ACCTTTTAAATAATTAACGTATAGCCAACTTT
1 ACCTTTTAAA-AGTTAACGTATA-ACAACTTT
20323146 ACCTTTTAAAAGTTAACGTATAAC
1 ACCTTTTAAAAGTTAACGTATAAC
20323170 CTTTCACCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 10 0.22
31 20 0.43
32 16 0.35
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.38
Consensus pattern (30 bp):
ACCTTTTAAAAGTTAACGTATAACAACTTT
Found at i:20324688 original size:21 final size:22
Alignment explanation
Indices: 20324653--20324698 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
20324643 TTAATTATCT
* *
20324653 TAATTATTATATATTTTTAATA
1 TAATTACTATATATTATTAATA
*
20324675 TAATTACT-TATATTATTATTA
1 TAATTACTATATATTATTAATA
20324696 TAA
1 TAA
20324699 AAATATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTACTATATATTATTAATA
Found at i:20325569 original size:2 final size:2
Alignment explanation
Indices: 20325564--20325592 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20325554 TATATATATA
20325564 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20325593 TTGAAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20326974 original size:23 final size:21
Alignment explanation
Indices: 20326948--20326996 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
20326938 GAATGCAAAG
20326948 TAAAAAGTAAAATATAAATAATC
1 TAAAAA-TAAAATATAAA-AATC
*
20326971 TAAATAATAAACTATAAAAATC
1 TAAA-AATAAAATATAAAAATC
20326993 -AAAA
1 TAAAA
20326997 CAAACAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 4 0.17
23 14 0.58
24 2 0.08
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAAATAAAATATAAAAATC
Found at i:20338093 original size:27 final size:27
Alignment explanation
Indices: 20338042--20338093 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
20338032 ATGTCCTGAT
*
20338042 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
*
20338069 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
20338094 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:20338164 original size:20 final size:20
Alignment explanation
Indices: 20338139--20338184 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
20338129 CTTCTAAACC
20338139 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
20338159 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
20338179 TCAAAT
1 TCAAAT
20338185 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:20340080 original size:20 final size:21
Alignment explanation
Indices: 20340029--20340117 Score: 72
Period size: 20 Copynumber: 4.7 Consensus size: 21
20340019 ATTAAATAAT
20340029 TTAAATATTAATA-TTTTAAG
1 TTAAATATTAATATTTTTAAG
20340049 TT-AA-A--AAT-TTTTTAA-
1 TTAAATATTAATATTTTTAAG
*
20340064 TTAAATATTAATATTTTCAA-
1 TTAAATATTAATATTTTTAAG
* * *
20340084 -AAAATTTTAACA-TTTTAAG
1 TTAAATATTAATATTTTTAAG
20340103 TTAAATATTAATATT
1 TTAAATATTAATATT
20340118 CATCAATTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
15 2 0.04
16 11 0.21
17 1 0.02
18 6 0.12
19 14 0.27
20 17 0.33
21 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAATATTAATATTTTTAAG
Found at i:20340088 original size:19 final size:19
Alignment explanation
Indices: 20340066--20340117 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
20340056 TTTTTTAATT
20340066 AAATATTAATATTTTCAA-A
1 AAATATTAATATTTT-AAGA
* * *
20340085 AAATTTTAACATTTTAAGTT
1 AAATATTAATATTTTAAG-A
20340105 AAATATTAATATT
1 AAATATTAATATT
20340118 CATCAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.08
19 13 0.50
20 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
AAATATTAATATTTTAAGA
Found at i:20358129 original size:36 final size:36
Alignment explanation
Indices: 20358067--20358139 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
20358057 CTTGATTGAG
* *
20358067 GATGAAGAAGATGACATGCACAGAGATGAAGATGAA
1 GATGAAGAAGATGACATGCACAGAGATAAAGAAGAA
*
20358103 GATGAAGAAGATGACATGGA-AGGAGATAAAGAAGAA
1 GATGAAGAAGATGACATGCACA-GAGATAAAGAAGAA
20358139 G
1 G
20358140 TTAAGGACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.49, C:0.05, G:0.33, T:0.12
Consensus pattern (36 bp):
GATGAAGAAGATGACATGCACAGAGATAAAGAAGAA
Found at i:20374136 original size:20 final size:20
Alignment explanation
Indices: 20374079--20374141 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
20374069 TATATACCCA
*
20374079 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
20374098 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
20374118 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
20374138 TCAT
1 TCAT
20374142 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:20374188 original size:43 final size:43
Alignment explanation
Indices: 20374140--20374258 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
20374130 TCACCAGCTC
** * *
20374140 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
20374183 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
20374226 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
20374259 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:20383911 original size:48 final size:44
Alignment explanation
Indices: 20383800--20383917 Score: 118
Period size: 45 Copynumber: 2.6 Consensus size: 44
20383790 GAAAACATAA
20383800 AAACATAAATTAAACTAAACT-AATAAATAACTTAAAATAAAAT
1 AAACATAAATTAAACTAAACTAAATAAATAACTTAAAATAAAAT
** * *
20383843 AATTATAAA-T-AACGTAAAACTAACATCATTAACTTAAAATAAACATTT
1 AAACATAAATTAAAC-T-AAACTAA-ATAAATAACTTAAAATAAA-A--T
20383891 AAACATAAATTAAACTAAACT-AATAAA
1 AAACATAAATTAAACTAAACTAAATAAA
20383918 ATAAATAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
41 3 0.05
42 2 0.03
43 12 0.21
44 1 0.02
45 17 0.29
46 4 0.07
47 1 0.02
48 13 0.22
49 2 0.03
50 3 0.05
ACGTcount: A:0.61, C:0.11, G:0.01, T:0.27
Consensus pattern (44 bp):
AAACATAAATTAAACTAAACTAAATAAATAACTTAAAATAAAAT
Found at i:20385300 original size:73 final size:73
Alignment explanation
Indices: 20385207--20385370 Score: 215
Period size: 73 Copynumber: 2.2 Consensus size: 73
20385197 GACATACTTT
**
20385207 CTTCTTGGTCGACTAAGTTGGTTCTGTCTTCTGGTCGCAGA-GTTTGGCAGAGAGCAT-TTAGTC
1 CTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTC-CAGATGTTTGGCAG-GAGCATCTTAGTC
*
20385270 GACTAACTCA
64 AACTAACTCA
* * * * *
20385280 TTTCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTTGGCAGTAGCTTCTTAGTCAA
1 CTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAGATGTTTGGCAGGAGCATCTTAGTCAA
20385345 CTAACTCA
66 CTAACTCA
*
20385353 CATCTTGGTCGACTAAGT
1 CTTCTTGGTCGACTAAGT
20385371 CAGTTATGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
72 8 0.10
73 71 0.90
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (73 bp):
CTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCCAGATGTTTGGCAGGAGCATCTTAGTCAA
CTAACTCA
Found at i:20391464 original size:14 final size:14
Alignment explanation
Indices: 20391445--20391472 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20391435 TGATTAGTTA
20391445 CACCAGTGTCAATC
1 CACCAGTGTCAATC
20391459 CACCAGTGTCAATC
1 CACCAGTGTCAATC
20391473 TTGGAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (14 bp):
CACCAGTGTCAATC
Found at i:20394321 original size:73 final size:73
Alignment explanation
Indices: 20394216--20394419 Score: 200
Period size: 73 Copynumber: 2.8 Consensus size: 73
20394206 CAAATTGCAA
* * ** *
20394216 GCAGAGAGC-TCTTAGTCGATTAACTTTCTTCTTGGTTGACTAAGTTGGTTCTATCTTCTGGTCA
1 GCAG-GAGCATCTTAGTCAACTAACTCACTTCTTGGTTGACTAAGTTGGTTCTATCTTCTAGTC-
20394280 CAGATTCTT-
64 CAGATTCTTG
* * ** *
20394289 GCAGAGAGCAT-TTAGTCAACTAACTCATTTCTTGGTTGACTAAGTTGGTTCTGTCTTGAAGTCT
1 GCAG-GAGCATCTTAGTCAACTAACTCACTTCTTGGTTGACTAAGTTGGTTCTATCTTCTAGTCC
*
20394353 AGATTTTTG
65 AGATTCTTG
* * * * **
20394362 GCAGTAGCTTCTTAGTCAACTAACTCACATCTTGGTCGACTAAGTCAGTTCTAT-TTCT
1 GCAGGAGCATCTTAGTCAACTAACTCACTTCTTGGTTGACTAAGTTGGTTCTATCTTCT
20394420 TAATACTCTT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
72 13 0.12
73 93 0.87
74 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (73 bp):
GCAGGAGCATCTTAGTCAACTAACTCACTTCTTGGTTGACTAAGTTGGTTCTATCTTCTAGTCCA
GATTCTTG
Found at i:20394848 original size:26 final size:27
Alignment explanation
Indices: 20394791--20394850 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
20394781 CGTTATGTTA
*
20394791 AAAAAAATATTGTTACAGGCCATCTTG
1 AAAAAAATATTGTTACAGGCAATCTTG
* * *
20394818 AAAAAAATATTGTTACATGTAATTTTG
1 AAAAAAATATTGTTACAGGCAATCTTG
20394845 AAAAAA
1 AAAAAA
20394851 TGTTGATGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (27 bp):
AAAAAAATATTGTTACAGGCAATCTTG
Found at i:20394970 original size:27 final size:27
Alignment explanation
Indices: 20394914--20394977 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
20394904 AAAATGTTAT
* *
20394914 TACACACTATATTCAAAATAATTTTGC
1 TACACACCATATACAAAATAATTTTGC
20394941 TACACACCATATACAGAAA-AAGTTTT-C
1 TACACACCATATACA-AAATAA-TTTTGC
*
20394968 TACACGCCAT
1 TACACACCAT
20394978 GTTAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 25 0.78
28 7 0.22
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (27 bp):
TACACACCATATACAAAATAATTTTGC
Found at i:20396857 original size:22 final size:22
Alignment explanation
Indices: 20396815--20396857 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20396805 TGTGCATTAC
*
20396815 GTGACTGGTTTGTAGGCATTGT
1 GTGACTGGTTTGTAGGAATTGT
* *
20396837 GTGACTGGTTTTTAGTAATTG
1 GTGACTGGTTTGTAGGAATTG
20396858 CATTGCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (22 bp):
GTGACTGGTTTGTAGGAATTGT
Found at i:20397682 original size:22 final size:22
Alignment explanation
Indices: 20397657--20397705 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
20397647 TTATTTATAG
20397657 GCATTAAGTGAATGGATATTAT
1 GCATTAAGTGAATGGATATTAT
**
20397679 GCATTGTGTGAATGGATATTAT
1 GCATTAAGTGAATGGATATTAT
20397701 GCATT
1 GCATT
20397706 GTCTAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (22 bp):
GCATTAAGTGAATGGATATTAT
Found at i:20397706 original size:22 final size:22
Alignment explanation
Indices: 20397664--20397728 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
20397654 TAGGCATTAA
20397664 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
20397686 GTGAATGGATATTATGCATTGT
1 GTGAATGGATATTATGCATTGT
* * * *
20397708 CTAAATAGATATTAGGCATTG
1 GTGAATGGATATTATGCATTG
20397729 CGTGTTTGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (22 bp):
GTGAATGGATATTATGCATTGT
Found at i:20397964 original size:22 final size:22
Alignment explanation
Indices: 20397939--20397987 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
20397929 TTAGGCCTTG
* *
20397939 CGTGACTAATTTTTATGTATTT
1 CGTGACTAATTGTTATGTATTA
*
20397961 CGTGACTTATTGTTATGTATTA
1 CGTGACTAATTGTTATGTATTA
20397983 CGTGA
1 CGTGA
20397988 TGTTGGGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (22 bp):
CGTGACTAATTGTTATGTATTA
Found at i:20402689 original size:62 final size:62
Alignment explanation
Indices: 20402577--20402694 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 62
20402567 TGTATGGGCA
* * * **
20402577 AAATTATAAAATTTCTAGAAAGCAAAGACAAGTTATAAAAATTTCTAAATTATTAGAGGGAT
1 AAATTATAAAATTTCTAAAAAACAAAGACAAATTATAAAAATTTAAAAATTATTAGAGGGAT
* * * * *
20402639 AAATTATAAAATTTTTAAAAAATACAGATAAATTATAAAAATTTAAAAATTGTTAG
1 AAATTATAAAATTTCTAAAAAACAAAGACAAATTATAAAAATTTAAAAATTATTAG
20402695 GGGGCAAGGG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 46 1.00
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.33
Consensus pattern (62 bp):
AAATTATAAAATTTCTAAAAAACAAAGACAAATTATAAAAATTTAAAAATTATTAGAGGGAT
Found at i:20404559 original size:23 final size:23
Alignment explanation
Indices: 20404528--20404606 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
20404518 GATACAAAAT
*
20404528 AAATAAGTCACACAATACCATATC
1 AAAT-AGTCACACAATTCCATATC
* *
20404552 AAATAGTCACTCGATTCCATATC
1 AAATAGTCACACAATTCCATATC
* **
20404575 AACTAGTCACGTAATTCCATATC
1 AAATAGTCACACAATTCCATATC
*
20404598 AACTAGTCA
1 AAATAGTCA
20404607 TGTAATTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 44 0.92
24 4 0.08
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.27
Consensus pattern (23 bp):
AAATAGTCACACAATTCCATATC
Found at i:20404611 original size:23 final size:23
Alignment explanation
Indices: 20404545--20404871 Score: 279
Period size: 23 Copynumber: 14.2 Consensus size: 23
20404535 TCACACAATA
*
20404545 CCATATCAAATAGTCAC-TCGATT
1 CCATATCAACTAGTCACGT-GATT
*
20404568 CCATATCAACTAGTCACGTAATT
1 CCATATCAACTAGTCACGTGATT
* *
20404591 CCATATCAACTAGTCATGTAATT
1 CCATATCAACTAGTCACGTGATT
20404614 CCATAAT-AACTAGTCACGTGATT
1 CCAT-ATCAACTAGTCACGTGATT
* * ** * *
20404637 CTATGTTTACTACTCACGCGATT
1 CCATATCAACTAGTCACGTGATT
* *
20404660 CAATATCAACTAATCACGTGATT
1 CCATATCAACTAGTCACGTGATT
* * * **
20404683 TCAAATCAAATAGTCACACGATT
1 CCATATCAACTAGTCACGTGATT
* *
20404706 TCATATCAAC-AGTTCACGCGATT
1 CCATATCAACTAG-TCACGTGATT
*
20404729 CCATAT-ATACTACTCACGTGATT
1 CCATATCA-ACTAGTCACGTGATT
* *
20404752 -CAGTATTAACTAGTCACTTGATT
1 CCA-TATCAACTAGTCACGTGATT
* *
20404775 CCATATTAACTAGTCACGCGATT
1 CCATATCAACTAGTCACGTGATT
* * **
20404798 CCATATCAACTACTCGCACGATT
1 CCATATCAACTAGTCACGTGATT
**
20404821 CCATATCAACTAGTCGTGTGATT
1 CCATATCAACTAGTCACGTGATT
*
20404844 CAATATCAACTAGTCACAG-GATT
1 CCATATCAACTAGTCAC-GTGATT
20404867 CCATA
1 CCATA
20404872 CACACCATTC
Statistics
Matches: 249, Mismatches: 45, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
22 6 0.02
23 235 0.94
24 8 0.03
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (23 bp):
CCATATCAACTAGTCACGTGATT
Found at i:20405209 original size:26 final size:26
Alignment explanation
Indices: 20405169--20405236 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
20405159 TGCCATTCTC
*
20405169 TTTGTTAAATGATACAA-ATAAGATTAA
1 TTTG-TAAATGATACAACA-AAGAATAA
*
20405196 TTTGTAAATAATACAACAAAGAATAA
1 TTTGTAAATGATACAACAAAGAATAA
*
20405222 TTTGGAAATGATACA
1 TTTGTAAATGATACA
20405237 CAACAATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 31 0.86
27 5 0.14
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (26 bp):
TTTGTAAATGATACAACAAAGAATAA
Found at i:20407146 original size:15 final size:15
Alignment explanation
Indices: 20407118--20407173 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
20407108 GCAAGAGTAA
20407118 CAACATGAAG-AGCAT
1 CAACA-GAAGTAGCAT
*
20407133 CAACAGGAGTAGCAT
1 CAACAGAAGTAGCAT
* *
20407148 GAAGAGAAGTAGCAT
1 CAACAGAAGTAGCAT
*
20407163 CAAGAGAAGTA
1 CAACAGAAGTA
20407174 TAAGGAACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 3 0.09
15 32 0.91
ACGTcount: A:0.46, C:0.14, G:0.27, T:0.12
Consensus pattern (15 bp):
CAACAGAAGTAGCAT
Found at i:20409057 original size:23 final size:23
Alignment explanation
Indices: 20409026--20409081 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
20409016 TGAACAATAT
* *
20409026 TCACACAATGACTTATCAACCAC
1 TCACGCAATGACCTATCAACCAC
20409049 TCACGCAATGACCTATCAACCAC
1 TCACGCAATGACCTATCAACCAC
*
20409072 TTACGCAATG
1 TCACGCAATG
20409082 TTAAACCCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.34, G:0.09, T:0.21
Consensus pattern (23 bp):
TCACGCAATGACCTATCAACCAC
Found at i:20409260 original size:123 final size:123
Alignment explanation
Indices: 20408985--20409261 Score: 356
Period size: 123 Copynumber: 2.3 Consensus size: 123
20408975 ACAATTAAAC
*
20408985 CAATCACGCACACACTAAGTGACGCCATGCCTGAACAATATTCACACAATGACTTATCAACCACT
1 CAATCACGCACACCCTAAGTGACGCCATGCCTGAACAATATTCACACAATGACTTATCAACCACT
* * * **
20409050 CACGCAATGACCTATCAACCACTTACGCAATGTTAAACCCTAAACGTAGTGCCTAACG
66 CACGCAATGACCTATCAACCACTCACGCAATATGAAACCCTAAACACAGTGCCTAACG
* * * * * ** *
20409108 CAATCACGCACACCCTAAATGACACCATGCTTGAACCATTTTCACGTAATTACTTATCAACCACT
1 CAATCACGCACACCCTAAGTGACGCCATGCCTGAACAATATTCACACAATGACTTATCAACCACT
* * * ** *
20409173 CACGCAATGACCTATCAACTAGTCACGCAATATGAAACCCTAAATACAGTGTTTAATG
66 CACGCAATGACCTATCAACCACTCACGCAATATGAAACCCTAAACACAGTGCCTAACG
* *
20409231 CAATCACGCACCCCCTAAGTGACGTCATGCC
1 CAATCACGCACACCCTAAGTGACGCCATGCC
20409262 AAAATCCATT
Statistics
Matches: 129, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
123 129 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.22
Consensus pattern (123 bp):
CAATCACGCACACCCTAAGTGACGCCATGCCTGAACAATATTCACACAATGACTTATCAACCACT
CACGCAATGACCTATCAACCACTCACGCAATATGAAACCCTAAACACAGTGCCTAACG
Found at i:20409677 original size:20 final size:20
Alignment explanation
Indices: 20409652--20409700 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
20409642 TAATCACTCT
20409652 AAAATGCTTTTATCTTGTAA
1 AAAATGCTTTTATCTTGTAA
20409672 AAAATGCTTTTATCTTGTAA
1 AAAATGCTTTTATCTTGTAA
20409692 AAAATGCTT
1 AAAATGCTT
20409701 GAAAGTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (20 bp):
AAAATGCTTTTATCTTGTAA
Found at i:20412609 original size:2 final size:2
Alignment explanation
Indices: 20412602--20412627 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20412592 AGATTATGTG
20412602 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
20412628 AGAAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20414794 original size:17 final size:18
Alignment explanation
Indices: 20414774--20414807 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20414764 TTGTGTTGAT
20414774 CGAATTAATT-GATTAAC
1 CGAATTAATTCGATTAAC
*
20414791 CGAATTAGTTCGATTAA
1 CGAATTAATTCGATTAA
20414808 TTCGATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
CGAATTAATTCGATTAAC
Found at i:20418459 original size:27 final size:28
Alignment explanation
Indices: 20418398--20418459 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
20418388 GATCTAAAGC
20418398 TTACAAAGCTTACATAACACAACATTTT
1 TTACAAAGCTTACATAACACAACATTTT
* **
20418426 ATA-AAAGCTTACATGGCACAAC-TTTT
1 TTACAAAGCTTACATAACACAACATTTT
20418452 TTACAAAG
1 TTACAAAG
20418460 TTGATTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.21
27 21 0.72
28 2 0.07
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (28 bp):
TTACAAAGCTTACATAACACAACATTTT
Found at i:20423460 original size:60 final size:60
Alignment explanation
Indices: 20423390--20423571 Score: 233
Period size: 60 Copynumber: 3.0 Consensus size: 60
20423380 AGACATTAGC
* * *
20423390 ACCTACTGGTGGGAATTGCCCACCG-CA-CCATATATAAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTGGTGGGAACTACCCA-CGACACCCA-ATATAAATCGGGGATTCAGGTCCCCCTTT
* * * *
20423450 ACCTATTGGTGGGACCTACCCACGCCACCCAATATAAATCGGGGGTTCAGGTCCCCCTTT
1 ACCTACTGGTGGGAACTACCCACGACACCCAATATAAATCGGGGATTCAGGTCCCCCTTT
* * * *
20423510 ACCTACTCGTGGGAACTACCCACGACACCCAATATGAATCAGGGATTCAGGTCCCCTTTT
1 ACCTACTGGTGGGAACTACCCACGACACCCAATATAAATCGGGGATTCAGGTCCCCCTTT
20423570 AC
1 AC
20423572 AATCAAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
59 2 0.02
60 102 0.95
61 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (60 bp):
ACCTACTGGTGGGAACTACCCACGACACCCAATATAAATCGGGGATTCAGGTCCCCCTTT
Found at i:20424270 original size:13 final size:13
Alignment explanation
Indices: 20424249--20424308 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
20424239 CCAACTGGCA
20424249 CTTCTCTTTCTCTT
1 CTTC-CTTTCTCTT
*
20424263 CTTCCTTTTTCTT
1 CTTCCTTTCTCTT
20424276 -TT-CTCTTCTTCCTT
1 CTTCCT-TTC-T-CTT
*
20424290 CTTCATTTCTCTT
1 CTTCCTTTCTCTT
20424303 CTTCCT
1 CTTCCT
20424309 CTTTCTCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
11 2 0.05
12 4 0.11
13 17 0.46
14 8 0.22
15 5 0.14
16 1 0.03
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (13 bp):
CTTCCTTTCTCTT
Found at i:20424280 original size:20 final size:20
Alignment explanation
Indices: 20424250--20424314 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
20424240 CAACTGGCAC
20424250 TTCTCTTTCTCTTCTTCCTTT
1 TTCT-TTTCTCTTCTTCCTTT
*
20424271 TTCTTTTCTCTTCTTCCTTC
1 TTCTTTTCTCTTCTTCCTTT
* *
20424291 TTCATTTCTCTTCTTCCTCT
1 TTCTTTTCTCTTCTTCCTTT
20424311 TTCT
1 TTCT
20424315 CCTCTGACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTTTTCTCTTCTTCCTTT
Found at i:20431196 original size:2 final size:2
Alignment explanation
Indices: 20431189--20431221 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20431179 TGGACATTTT
20431189 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
20431222 AAGAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20431333 original size:79 final size:78
Alignment explanation
Indices: 20431202--20431357 Score: 294
Period size: 79 Copynumber: 2.0 Consensus size: 78
20431192 GAGAGAGAGA
20431202 GAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGGGGCTTTCCATAATAGCTTGACAAACTCTTGAAA
1 GAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGGGGCTTTCCATAATAGCTTGACAAACTCTTGAAA
20431267 AGGAATTCAACTNT
66 AGGAATTCAACT-T
*
20431281 GAGAGGGAGAGAGAGAGAGAAAGAAAGAAAGGGGCTTTCCATAATAGCTTGACAAACTCTTGAAA
1 GAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGGGGCTTTCCATAATAGCTTGACAAACTCTTGAAA
20431346 AGGAATTCAACT
66 AGGAATTCAACT
20431358 ACAAAATCAC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (78 bp):
GAGAGAGAGAGAGAGAGAGAAAGAAAGAAAGGGGCTTTCCATAATAGCTTGACAAACTCTTGAAA
AGGAATTCAACTT
Found at i:20432004 original size:39 final size:37
Alignment explanation
Indices: 20431958--20432051 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 37
20431948 GTGGTGTGCC
20431958 GTGGGAGTGCACACACTGATGATATATACCATGTGCAGT
1 GTGGGAGTGCACACA-TGATGATAT-TACCATGTGCAGT
* * **
20431997 GTGGGAGTG--CACATGATGATATTGCCTTGTGTGGT
1 GTGGGAGTGCACACATGATGATATTACCATGTGCAGT
20432032 GTGGGAGTG--CACATGATGAT
1 GTGGGAGTGCACACATGATGAT
20432052 TCTAGCTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 29 0.57
36 9 0.18
37 4 0.08
39 9 0.18
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (37 bp):
GTGGGAGTGCACACATGATGATATTACCATGTGCAGT
Found at i:20432071 original size:36 final size:36
Alignment explanation
Indices: 20431916--20432083 Score: 148
Period size: 36 Copynumber: 4.7 Consensus size: 36
20431906 TAACCGTGCG
* * *
20431916 TGTGTGGTGTGGGAGTGCACATGACGGT-GATAG-T
1 TGTGTGGTGTGGGAGTGCACATGATGATATATAGCT
* ** * *
20431950 GGTGTGCCGTGGGAGTGCACACACTGATGATATATACCA
1 TGTGTGGTGTGGGAGTG--CACA-TGATGATATATAGCT
**
20431989 TGTGCAGTGTGGGAGTGCACATGATGATAT-T-GCCT
1 TGTGTGGTGTGGGAGTGCACATGATGATATATAG-CT
*
20432024 TGTGTGGTGTGGGAGTGCACATGATGAT-TCTAGCT
1 TGTGTGGTGTGGGAGTGCACATGATGATATATAGCT
*
20432059 ATGTGTGGTGTGGGAGTTCACATGA
1 -TGTGTGGTGTGGGAGTGCACATGA
20432084 GTTGGTGAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
34 15 0.14
35 31 0.29
36 37 0.35
37 9 0.08
38 3 0.03
39 12 0.11
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.30
Consensus pattern (36 bp):
TGTGTGGTGTGGGAGTGCACATGATGATATATAGCT
Found at i:20432071 original size:71 final size:72
Alignment explanation
Indices: 20431916--20432083 Score: 173
Period size: 71 Copynumber: 2.3 Consensus size: 72
20431906 TAACCGTGCG
*
20431916 TGTGTGGTGTGGGAGTGCACATGACGGTGATAGTGGTGTGCCGTGGGAGTGCACACACTGATGAT
1 TGTGTGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCCGTGGGAGTG-ACACACTGATGAT
20431981 ATATACCA
65 ATATACCA
** * * * **
20431989 TGTGCAGTGTGGGAGTGCACATGATGAT-ATTGCCTTGTGTGGTGTGGGAGTG-CACA-TGATGA
1 TGTGTGGTGTGGGAGTGCACATGACGATGATAG--TGGTGTGCCGTGGGAGTGACACACTGATGA
* *
20432051 T-TCTAGCTA
64 TATATA-CCA
*
20432060 TGTGTGGTGTGGGAGTTCACATGA
1 TGTGTGGTGTGGGAGTGCACATGA
20432084 GTTGGTGAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
70 3 0.04
71 30 0.38
72 7 0.09
73 24 0.30
74 15 0.19
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.30
Consensus pattern (72 bp):
TGTGTGGTGTGGGAGTGCACATGACGATGATAGTGGTGTGCCGTGGGAGTGACACACTGATGATA
TATACCA
Found at i:20438772 original size:2 final size:2
Alignment explanation
Indices: 20438765--20438794 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20438755 AAGAAAACCT
20438765 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20438795 GAGGAGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20438891 original size:2 final size:2
Alignment explanation
Indices: 20438884--20438915 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20438874 AAGAAAACCT
20438884 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20438916 GGAGGAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20438898 original size:119 final size:118
Alignment explanation
Indices: 20438686--20438913 Score: 447
Period size: 119 Copynumber: 1.9 Consensus size: 118
20438676 CTAAATTATT
20438686 TTCTCTCAATTTTTTCTATGGCAAATTTTCTTTGTGTGAGGCTTGTAGAAAATTGCTAATTGGAG
1 TTCTCTCAATTTTTTCTATGGCAAATTTTCTTTGTGTGAGGCTTGTAGAAAATTGCTAATTGGAG
20438751 CAAAAAGAAAACCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGTAG
66 CAAAAAGAAAACCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGTAG
20438804 TNTCTCTCAATTTTTTCTATGGCAAATTTTCTTTGTGTGAGGCTTGTAGAAAATTGCTAATTGGA
1 T-TCTCTCAATTTTTTCTATGGCAAATTTTCTTTGTGTGAGGCTTGTAGAAAATTGCTAATTGGA
20438869 GCAAAAAGAAAACCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
65 GCAAAAAGAAAACCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
20438914 AGGGAGGAGT
Statistics
Matches: 109, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 1 0.01
119 108 0.99
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.27
Consensus pattern (118 bp):
TTCTCTCAATTTTTTCTATGGCAAATTTTCTTTGTGTGAGGCTTGTAGAAAATTGCTAATTGGAG
CAAAAAGAAAACCTAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGGAGTAG
Found at i:20439399 original size:34 final size:36
Alignment explanation
Indices: 20439338--20439413 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 36
20439328 TTATCTCAAT
*
20439338 AAATATTTTCTATTTAAGACAACTTTTGTCTTA-AA
1 AAATATTTTCTATTTAAGACAACTTTTGACTTACAA
20439373 AAATA-TTTCTATATTAAGACAA-TTTTGACTTACTAA
1 AAATATTTTCTAT-TTAAGACAACTTTTGACTTAC-AA
20439409 AAATA
1 AAATA
20439414 ATATGATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 16 0.43
35 14 0.38
36 7 0.19
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (36 bp):
AAATATTTTCTATTTAAGACAACTTTTGACTTACAA
Found at i:20443308 original size:20 final size:20
Alignment explanation
Indices: 20443280--20443332 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
20443270 AATGTCTAAG
*
20443280 TTTCTAGCAACTTCTTCAAA
1 TTTCCAGCAACTTCTTCAAA
*
20443300 TTTCCAGCAGA-TTCTTCAAG
1 TTTCCAGCA-ACTTCTTCAAA
* *
20443320 CTTCCAACAACTT
1 TTTCCAGCAACTT
20443333 TTTCTTCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (20 bp):
TTTCCAGCAACTTCTTCAAA
Found at i:20443444 original size:20 final size:19
Alignment explanation
Indices: 20443400--20443447 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
20443390 TTTCATGTGA
*
20443400 TTTTTCC-TTGTTTTCTTT
1 TTTTTCCTTTGTTTTCTTC
*
20443418 TTATTTCCTTTTTTTTCTTAC
1 TT-TTTCCTTTGTTTTCTT-C
20443439 TTTTTCCTT
1 TTTTTCCTT
20443448 CTCCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 5 0.20
20 16 0.64
21 2 0.08
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTCCTTTGTTTTCTTC
Found at i:20452645 original size:28 final size:30
Alignment explanation
Indices: 20452587--20452646 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
20452577 TTTTTGAAAT
*
20452587 TTACACTTTTGCCCCTATAAAAGTCAAAAA
1 TTACACTTTTGCCCCTATAAAACTCAAAAA
* *
20452617 TTACATTTTTGCCCC-A-AAAACTGAAAAA
1 TTACACTTTTGCCCCTATAAAACTCAAAAA
20452645 TT
1 TT
20452647 GCCCATAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 14 0.52
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCCTATAAAACTCAAAAA
Found at i:20465385 original size:43 final size:43
Alignment explanation
Indices: 20465235--20465385 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
20465225 CCAGCTCATG
* ** *
20465235 CGCAGTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATA
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATA
* * *
20465278 CGCACTCCTTACTCGCACGTAATCGGGTCATCACCGGGTTATA
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATA
* * * *
20465321 CGCACTCCCTACTCGTACATAACCAGGTCATC-CTCGGCTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTTATA
*
20465364 CGCACTCCTTACTCGCACATAA
1 CGCACTCCCTACTCGCACATAA
20465386 TCGAGTCAAC
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATA
Found at i:20466687 original size:25 final size:26
Alignment explanation
Indices: 20466646--20466694 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20466636 CAACTGCTGG
*
20466646 GGTGAAAATTTACCGA-TTTGCCCGA
1 GGTGAAAAATTACCGATTTTGCCCGA
20466671 GGTGAAAAAATTA-CGATTTTGCCC
1 GGTG-AAAAATTACCGATTTTGCCC
20466695 CTATACTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (26 bp):
GGTGAAAAATTACCGATTTTGCCCGA
Found at i:20469201 original size:102 final size:101
Alignment explanation
Indices: 20469025--20469227 Score: 361
Period size: 102 Copynumber: 2.0 Consensus size: 101
20469015 CGAGGAAAAA
20469025 GGATGACTCTTAGGAATTGTGGTATTGCATAAGATGCAATGATCAAGTTAAGATAAATCTTTGAG
1 GGATGACTCTTAGGAATTGTGGTATTGCATAAGATGCAATGATCAAGTTAAGATAAATCTTTGAG
20469090 GCATCAATGGGATTATAAAGCATACACGCATAATAG
66 GCATCAATGGGATTATAAAGCATACACGCATAATAG
* * * *
20469126 NGGATGACTCTTAGTAATTGTGGTATTGCATGAGATGTAATGATCAAGTTAGGATAAATCTTTGA
1 -GGATGACTCTTAGGAATTGTGGTATTGCATAAGATGCAATGATCAAGTTAAGATAAATCTTTGA
20469191 GGCATCAATGGGATTATAAAGCATACACGCATAATAG
65 GGCATCAATGGGATTATAAAGCATACACGCATAATAG
20469228 ATTATAATTC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (101 bp):
GGATGACTCTTAGGAATTGTGGTATTGCATAAGATGCAATGATCAAGTTAAGATAAATCTTTGAG
GCATCAATGGGATTATAAAGCATACACGCATAATAG
Found at i:20498822 original size:53 final size:54
Alignment explanation
Indices: 20498750--20498861 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 54
20498740 AGGGTTATCA
*
20498750 CTTGATCTCATTAAAAAGCAAAAAGCTCTTTAGTGGATTGTAT-AAGGTTATTG
1 CTTGATCCCATTAAAAAGCAAAAAGCTCTTTAGTGGATTGTATAAAGGTTATTG
** * * * *
20498803 CTTGATCCCATTAGGAAGCAAGAATCTCTTTTGTGGATTGTGTAAAGGTTATTG
1 CTTGATCCCATTAAAAAGCAAAAAGCTCTTTAGTGGATTGTATAAAGGTTATTG
20498857 CTTGA
1 CTTGA
20498862 AGTTGTTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 36 0.71
54 15 0.29
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.37
Consensus pattern (54 bp):
CTTGATCCCATTAAAAAGCAAAAAGCTCTTTAGTGGATTGTATAAAGGTTATTG
Found at i:20498876 original size:54 final size:53
Alignment explanation
Indices: 20498758--20498887 Score: 145
Period size: 53 Copynumber: 2.5 Consensus size: 53
20498748 CACTTGATCT
* * * *
20498758 CATTAAAAAGCAAAAAGCTCTTTAGTGGATTGTATAAGGTTATTGCTTGATCC
1 CATTAAAAAGCAAGAATCTCTTTTGTGGATTGTATAAGGTTATTGCTTGAACC
** * **
20498811 CATTAGGAAGCAAGAATCTCTTTTGTGGATTGTGTAAAGGTTATTGCTTGAAGT
1 CATTAAAAAGCAAGAATCTCTTTTGTGGATTGTAT-AAGGTTATTGCTTGAACC
**
20498865 TGTTAAAAAGCAAGAATC-CTTTT
1 CATTAAAAAGCAAGAATCTCTTTT
20498888 AGTCGATCGA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
53 34 0.54
54 29 0.46
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (53 bp):
CATTAAAAAGCAAGAATCTCTTTTGTGGATTGTATAAGGTTATTGCTTGAACC
Found at i:20531884 original size:24 final size:24
Alignment explanation
Indices: 20531856--20531904 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
20531846 CAAACCCTAG
* *
20531856 GTGGAAAATTTCAAGAGAAA-AAGT
1 GTGGAAAA-ATCAAGAAAAACAAGT
20531880 GTGGAAAAATCAAGAAAAACAAGT
1 GTGGAAAAATCAAGAAAAACAAGT
20531904 G
1 G
20531905 AAAAAGGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.16
Consensus pattern (24 bp):
GTGGAAAAATCAAGAAAAACAAGT
Found at i:20557231 original size:32 final size:31
Alignment explanation
Indices: 20557159--20557269 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 31
20557149 TGCCTTTCTC
* * *
20557159 AGCATAATTATAAATCAACACCCTCATTTCT
1 AGCATAATCATAAATCAACACCATCATTCCT
20557190 AGGCATAATCATAAATCAACACTCATCATTCCT
1 A-GCATAATCATAAATCAACAC-CATCATTCCT
* * * * * *
20557223 AGCCTAATCATAAACCAACCCCGTCTTTCCA
1 AGCATAATCATAAATCAACACCATCATTCCT
*
20557254 AGCGTAATCATAAATC
1 AGCATAATCATAAATC
20557270 GGGTTTAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
31 22 0.33
32 36 0.54
33 9 0.13
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.27
Consensus pattern (31 bp):
AGCATAATCATAAATCAACACCATCATTCCT
Done.