Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 265 of 320
Found at i:85971592 original size:15 final size:15
Alignment explanation
Indices: 85971565--85971608 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
85971555 ATATATATAT
*
85971565 ATAAAAAGTAAAAGGA
1 ATAAAAAG-AAAAAGA
85971581 ATAAAAAGAAAAAGA
1 ATAAAAAGAAAAAGA
85971596 ATAGAAAAAGAAA
1 AT--AAAAAGAAA
85971609 GAAAGGATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 8 0.32
17 9 0.36
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (15 bp):
ATAAAAAGAAAAAGA
Found at i:85973466 original size:18 final size:18
Alignment explanation
Indices: 85973445--85973635 Score: 149
Period size: 18 Copynumber: 10.6 Consensus size: 18
85973435 TAACTGATTA
85973445 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
85973463 TTACCGGATACTTGACTG
1 TTACTGAATAATTGACTG
*
85973481 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
85973499 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
* *
85973517 TTGCTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
85973535 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
85973553 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
85973571 TTACTAAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
85973590 TTACTGAAT-ATATGA-TT
1 TTACTGAATAAT-TGACTG
85973607 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
85973625 TTACTGGATAA
1 TTACTGAATAA
85973636 CCGATCAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 19 0.14
18 102 0.74
19 17 0.12
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:85973560 original size:36 final size:36
Alignment explanation
Indices: 85973433--85973715 Score: 125
Period size: 36 Copynumber: 7.6 Consensus size: 36
85973423 AAAGGTATAA
* * *
85973433 AATAACTGATTATTACTGAATAATTGA-CTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATC-ATTACTG
* * * *
85973469 GAT-ACTTGACTGTTACTGGAT-ATTAGA-CTGTTACTG
1 AATAAC-TGATTGTTACTGAATAATT-GATC-ATTACTG
* * *
85973505 AATAACTGAATATTGCTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATCATTACTG
* * *
85973541 AATAACTGATTGTCACTGAATGAA-TGA-CTGTTACTA
1 AATAACTGATTGTTACTGAAT-AATTGATC-ATTACTG
* *
85973577 AATAACTTAATTGTTACTGAAT-ATATGAT-TTTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATCATTACTG
* *
85973613 AATAATTGACTGTTACTGGATAACCGATCAATTGATCGA-TACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATC-ATTACTG
* * * ** *
85973657 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATCATTACTG
* *
85973693 AATAACTAACTGTTACTGAATAA
1 AATAACTGATTGTTACTGAATAA
85973716 ATAATTGTTC
Statistics
Matches: 186, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
35 16 0.09
36 116 0.62
37 26 0.14
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATCATTACTG
Found at i:85973724 original size:18 final size:18
Alignment explanation
Indices: 85973433--85973728 Score: 112
Period size: 18 Copynumber: 16.1 Consensus size: 18
85973423 AAAGGTATAA
* *
85973433 AATAACTGATTATTACTG
1 AATAAATGATTGTTACTG
* * *
85973451 AATAATTGACTGTTACCG
1 AATAAATGATTGTTACTG
* ** *
85973469 GATACTTGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
85973487 GAT-ATTAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * * *
85973505 AATAACTGAATATTGCTG
1 AATAAATGATTGTTACTG
* **
85973523 AATAATTGATCATTACTG
1 AATAAATGATTGTTACTG
* *
85973541 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
* * *
85973559 AATGAATGACTGTTACTA
1 AATAAATGATTGTTACTG
* *
85973577 AATAACTTAATTGTTACTG
1 AATAA-ATGATTGTTACTG
*
85973596 AATATATGATT-TTACTG
1 AATAAATGATTGTTACTG
* *
85973613 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
85973631 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
85973657 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
85973675 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* * *
85973693 AATAACTAACTGTTACTG
1 AATAAATGATTGTTACTG
*
85973711 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
85973728 A
1 A
85973729 TTGTTAATAA
Statistics
Matches: 208, Mismatches: 58, Indels: 25
0.71 0.20 0.09
Matches are distributed among these distances:
17 20 0.10
18 155 0.75
19 15 0.07
21 2 0.01
22 5 0.02
23 2 0.01
26 9 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:85974456 original size:19 final size:18
Alignment explanation
Indices: 85974432--85974477 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
85974422 CTTTCTTTCT
85974432 TTTGCATTCATTCCATGCA
1 TTTGCATTCATTCCAT-CA
* *
85974451 TTTGCATAGCATTGCATCA
1 TTTGCAT-TCATTCCATCA
85974470 TTTGCATT
1 TTTGCATT
85974478 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATTCCATCA
Found at i:85980479 original size:43 final size:44
Alignment explanation
Indices: 85980385--85980493 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 44
85980375 AGCCACCAGC
* *
85980385 CTTATCTCTCT-AAGGTAGCAAGAGAACAGGTTGAAGATACAAGT
1 CTTATCTTTCTGAA-GTAGTAAGAGAACAGGTTGAAGATACAAGT
*
85980429 CTTATCTTTCTGAAGTAGTAAGAGAGCAGGTTGAA-ATACAAGT
1 CTTATCTTTCTGAAGTAGTAAGAGAACAGGTTGAAGATACAAGT
* *
85980472 CTTATCTTCCTGAGGTAGTAAG
1 CTTATCTTTCTGAAGTAGTAAG
85980494 GAAGCAGACT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
43 28 0.47
44 29 0.49
45 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATCTTTCTGAAGTAGTAAGAGAACAGGTTGAAGATACAAGT
Found at i:85980500 original size:43 final size:44
Alignment explanation
Indices: 85980397--85980500 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 44
85980387 TATCTCTCTA
* *
85980397 AGGTAGCAAGAGAA-CAGGTTGAAGATACAAGTCTTATCTTTCTG
1 AGGTAGTAAG-GAAGCAGGTTGAAGATACAAGTCTTATCTTCCTG
*
85980441 AAGTAGTAA-GAGAGCAGGTTGAA-ATACAAGTCTTATCTTCCTG
1 AGGTAGTAAGGA-AGCAGGTTGAAGATACAAGTCTTATCTTCCTG
85980484 AGGTAGTAAGGAAGCAG
1 AGGTAGTAAGGAAGCAG
85980501 ACTGAAATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.04
43 33 0.62
44 18 0.34
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (44 bp):
AGGTAGTAAGGAAGCAGGTTGAAGATACAAGTCTTATCTTCCTG
Found at i:85980691 original size:177 final size:177
Alignment explanation
Indices: 85980426--85980972 Score: 817
Period size: 177 Copynumber: 3.1 Consensus size: 177
85980416 TGAAGATACA
* * *
85980426 AGTCTTATCTTTCTGAAGTAGTAAGAGAGCAGGTTGAA-ATACAAGTCTTATCTTCCTGAGGTAG
1 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
*
85980490 TAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAGATG
66 TAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
*
85980555 GCGAATCTTATCTCCATGTATCGACTGTGGAGCAGATTTTAGCCACC
131 GCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
** * *
85980602 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTATTATCTTCCTAAGGTAG
1 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* *
85980667 CAAGGAAGCAGACTGAAATTGCAGATCTTATCTTCATGTATCGGCTATGGAGCAGATCGAAGATG
66 TAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
* * * *
85980732 GCAAATCTTATCTCCATGTATCGGCTATAGAGTAGATTTTAGCCACC
131 GCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
* * *
85980779 AGTCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTTGAAGGTACAAGTCTTATCTTCCTGAGGTAG
1 AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
* * **
85980844 TAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATAGAATAGATCGAAGAT
66 TAAGGAAGCAGACTG-AAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGAT
* * * *
85980909 GGCGAGTCTTATCTCCATGTATTGACAATGGAGCAGATTTTAGCCATC
130 GGCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
** *
85980957 AACCTTATCTCCCTGA
1 AGTCTTATCTCTCTGA
85980973 ATTTGTAGAG
Statistics
Matches: 329, Mismatches: 40, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
176 35 0.11
177 198 0.60
178 96 0.29
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (177 bp):
AGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
TAAGGAAGCAGACTGAAATTGCAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATG
GCGAATCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACC
Found at i:85982133 original size:22 final size:22
Alignment explanation
Indices: 85982108--85982150 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
85982098 GTCCTTAACT
85982108 TGTTTTGAT-TTATTTATTTTTC
1 TGTTTT-ATATTATTTATTTTTC
85982130 TGTTTTATCATTATTTATTTT
1 TGTTTTAT-ATTATTTATTTT
85982151 AAATCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 6 0.32
23 11 0.58
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (22 bp):
TGTTTTATATTATTTATTTTTC
Found at i:85988730 original size:21 final size:22
Alignment explanation
Indices: 85988687--85988733 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
85988677 TTTTTTATTG
*
85988687 TTTTCTTGTTGTTTTGTTGCTA
1 TTTTCTTGTTGTTTTGTTACTA
85988709 TTTTCTTGTT-TTTT-TTCACTA
1 TTTTCTTGTTGTTTTGTT-ACTA
85988730 TTTT
1 TTTT
85988734 GCTATCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 11 0.48
22 10 0.43
ACGTcount: A:0.06, C:0.11, G:0.11, T:0.72
Consensus pattern (22 bp):
TTTTCTTGTTGTTTTGTTACTA
Found at i:85989737 original size:16 final size:17
Alignment explanation
Indices: 85989704--85989738 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
85989694 TAATTTGAAT
*
85989704 ATTTTTTTAAATATATA
1 ATTTATTTAAATATATA
85989721 ATTTATTTAAA-ATATA
1 ATTTATTTAAATATATA
85989737 AT
1 AT
85989739 GTATGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATTTAAATATATA
Found at i:85996914 original size:19 final size:20
Alignment explanation
Indices: 85996892--85996936 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
85996882 ATTTATATAC
*
85996892 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
85996911 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
85996931 ATATCA
1 ATATCA
85996937 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:85999779 original size:5 final size:5
Alignment explanation
Indices: 85999769--85999800 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
85999759 TTGTGTGTTC
85999769 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
85999801 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:85999783 original size:9 final size:9
Alignment explanation
Indices: 85999769--85999799 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
85999759 TTGTGTGTTC
85999769 TTTATTTTA
1 TTTATTTTA
85999778 TTTATTTTA
1 TTTATTTTA
85999787 TTTTATTTTA
1 -TTTATTTTA
85999797 TTT
1 TTT
85999800 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:86004239 original size:5 final size:5
Alignment explanation
Indices: 86004229--86004260 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
86004219 TTGTGTGTTC
86004229 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
86004261 TCACACTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:86004243 original size:9 final size:9
Alignment explanation
Indices: 86004229--86004259 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
86004219 TTGTGTGTTC
86004229 TTTATTTTA
1 TTTATTTTA
86004238 TTTATTTTA
1 TTTATTTTA
86004247 TTTTATTTTA
1 -TTTATTTTA
86004257 TTT
1 TTT
86004260 TTCACACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:86005019 original size:21 final size:21
Alignment explanation
Indices: 86004995--86005035 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
86004985 CTATTTTTAT
*
86004995 AATTTACCCTTTTATTATAAA
1 AATTTACCCTTTTATAATAAA
* *
86005016 AATTTTCCTTTTTATAATAA
1 AATTTACCCTTTTATAATAA
86005036 TATTTATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTTACCCTTTTATAATAAA
Found at i:86006343 original size:3 final size:3
Alignment explanation
Indices: 86006335--86006370 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
86006325 TTTCTCGTCA
86006335 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
86006371 CCTTCAATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:86008764 original size:22 final size:25
Alignment explanation
Indices: 86008736--86008781 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
86008726 TTATGCAAAC
86008736 ATAAATTACA-A-TTTG-TAAATAT
1 ATAAATTACATAGTTTGCTAAATAT
86008758 ATAAATTACATAGTTTGCTAAATA
1 ATAAATTACATAGTTTGCTAAATA
86008782 AGTATGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.48
23 1 0.05
24 4 0.19
25 6 0.29
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (25 bp):
ATAAATTACATAGTTTGCTAAATAT
Found at i:86013242 original size:44 final size:45
Alignment explanation
Indices: 86013147--86013260 Score: 149
Period size: 44 Copynumber: 2.5 Consensus size: 45
86013137 ACAGGACAGA
* *
86013147 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
86013193 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* **
86013237 ACAGGAATAATTCATGTAAGTCCA
1 ACAGGAATGAGCCATGTAAGTCCA
86013261 CGTCAAAGAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:86021150 original size:19 final size:20
Alignment explanation
Indices: 86021126--86021164 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
86021116 ATTAATAAGC
86021126 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
86021145 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
86021165 CACATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:86022814 original size:3 final size:3
Alignment explanation
Indices: 86022806--86022876 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
86022796 TATATATTAA
* * * *
86022806 ATT ATT ATT ATC ATT ATTT ATT ATT ATG GTT -TT A-T ATT AGAT ATTT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT
86022852 ATT ATT ATT ATT ATT ATT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
86022877 GAAATAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.11
3 42 0.76
4 7 0.13
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:86022840 original size:27 final size:27
Alignment explanation
Indices: 86022806--86022876 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
86022796 TATATATTAA
86022806 ATTATTATTATCATTATTTATTATTATG
1 ATTATTATTAT-ATTATTTATTATTATG
* * * *
86022834 GTTTTATATTAGA-TATTTATTATTATT
1 ATTAT-TATTATATTATTTATTATTATG
86022861 ATTATTATTATATTAT
1 ATTATTATTATATTAT
86022877 GAAATAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
26 6 0.18
27 19 0.56
28 4 0.12
29 5 0.15
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (27 bp):
ATTATTATTATATTATTTATTATTATG
Found at i:86028422 original size:28 final size:25
Alignment explanation
Indices: 86028358--86028423 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
86028348 AATCGAATTT
* *
86028358 TATTTTTTATTTAATATATAATTAA
1 TATTTTATATTTAATATAAAATTAA
* *
86028383 T-TTTAATTTTTATGATATAAAATTGAA
1 TATTTTATATTTA--ATATAAAATT-AA
86028410 TATTTTATATTTAA
1 TATTTTATATTTAA
86028424 AATAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
24 8 0.26
25 1 0.03
26 10 0.32
27 3 0.10
28 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
TATTTTATATTTAATATAAAATTAA
Found at i:86030977 original size:21 final size:21
Alignment explanation
Indices: 86030951--86031008 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
86030941 TTGAAGATTA
* *
86030951 GTTACTTGTGGGTCAACTTTG
1 GTTACTTATGGATCAACTTTG
*
86030972 GTTACTTATGGATCAAGTTTG
1 GTTACTTATGGATCAACTTTG
*
86030993 GTTACTTATGAATCAA
1 GTTACTTATGGATCAA
86031009 GTAAAGTCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (21 bp):
GTTACTTATGGATCAACTTTG
Found at i:86042249 original size:250 final size:251
Alignment explanation
Indices: 86041807--86042303 Score: 960
Period size: 250 Copynumber: 2.0 Consensus size: 251
86041797 GAAAAACCTA
86041807 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
1 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
86041872 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
66 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
86041937 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
131 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
*
86042002 ACTATACCCACGTAACAACCCCTTAAAAATAATTACAATCATAGAGCAAAATACCC
196 ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAATACCC
86042058 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
1 GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
*
86042123 AACATAACACAAAAGAGTAAAGGT-AAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
66 AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
86042187 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
131 GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
*
86042252 ACTATACCCTCGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAAT
196 ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAAT
86042304 CGTTAAACCC
Statistics
Matches: 243, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
250 155 0.64
251 88 0.36
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (251 bp):
GAAAAGTCTAACCTTATCCATGTCGGATACATACCTGTATTCGACACTCACACTCTAGTCCAAGT
AACATAACACAAAAGACTAAAGGTAAAAAACTGAAGTTTACTAAATCTAGAATGAAAATCCCATA
GCTTATATAAAGTAATAACTAACAAGGAAAATCAACAACAGTTGCCTTCTTAATAATAAACAAAC
ACTATACCCACGTAACAACCCCTCAAAAATAATTACAATCATAGAGCAAAATACCC
Found at i:86044689 original size:96 final size:96
Alignment explanation
Indices: 86044532--86044725 Score: 379
Period size: 96 Copynumber: 2.0 Consensus size: 96
86044522 TTTGGGGACC
*
86044532 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAGAA
1 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
86044597 ATTAGTTACTAGAGTAGTTGATTCATACTTT
66 ATTAGTTACTAGAGTAGTTGATTCATACTTT
86044628 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
1 ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
86044693 ATTAGTTACTAGAGTAGTTGATTCATACTTT
66 ATTAGTTACTAGAGTAGTTGATTCATACTTT
86044724 AT
1 AT
86044726 GTAATAACTA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (96 bp):
ATACTCTTAATATATAATTTTTACACATTAGCCTTAATTTTTAATCAACCCATCATCAATTAAAA
ATTAGTTACTAGAGTAGTTGATTCATACTTT
Found at i:86051957 original size:3 final size:3
Alignment explanation
Indices: 86051949--86051980 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
86051939 TTCAAGCACA
86051949 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
86051981 AGCCTTAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:86053103 original size:43 final size:45
Alignment explanation
Indices: 86053053--86053166 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 45
86053043 CGGCATTTCA
* * * *
86053053 CCTGCTAGGCTCG-AGGCCTGATATCAT-T-TCACCGGTATTATAG
1 CCTGCTAGGCTCGAAGGCCCGA-ATAATGTCTCACCGGCATAATAG
86053096 CCTGCTAGGCTCGAAAGGCCCGAATAATGTCTCACCGGCATAATAG
1 CCTGCTAGGCTCG-AAGGCCCGAATAATGTCTCACCGGCATAATAG
* *
86053142 TCTGCTAGGCTCAAAGGCCCGAATA
1 CCTGCTAGGCTCGAAGGCCCGAATA
86053167 TAATACCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 13 0.21
44 4 0.07
45 20 0.33
46 24 0.39
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (45 bp):
CCTGCTAGGCTCGAAGGCCCGAATAATGTCTCACCGGCATAATAG
Found at i:86053215 original size:38 final size:38
Alignment explanation
Indices: 86053159--86053319 Score: 252
Period size: 38 Copynumber: 4.2 Consensus size: 38
86053149 GGCTCAAAGG
* * *
86053159 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
86053197 CCCGGATATAATACCAGCACGAAGGCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
86053235 CTCGGATA-AATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAA-TACCAGCACGAAGCCTGCGGGATTTAA
*
86053273 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
86053311 CCCGGATAT
1 CCCGGATAT
86053320 CATATTTCGA
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
37 2 0.02
38 109 0.96
39 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:86055528 original size:20 final size:20
Alignment explanation
Indices: 86055496--86055533 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
86055486 TGTTTCACAT
86055496 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
86055516 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
86055534 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:86056044 original size:18 final size:18
Alignment explanation
Indices: 86056021--86056061 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
86056011 TACTTTTCTC
86056021 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
86056039 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
86056057 TTTCT
1 TTTCT
86056062 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:86057211 original size:12 final size:12
Alignment explanation
Indices: 86057196--86057226 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86057186 TTCTCTTTTA
86057196 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
86057208 TTTTTCTTTCTC
1 TTTTTCTTTCCC
86057220 TTTTTCT
1 TTTTTCT
86057227 CCCCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:86063628 original size:29 final size:29
Alignment explanation
Indices: 86063586--86063648 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
86063576 ACACATTCCA
86063586 TACAAACACAACATTCAATTTAACATATT
1 TACAAACACAACATTCAATTTAACATATT
86063615 TACAAACACAACATTCAATTTAACATATT
1 TACAAACACAACATTCAATTTAACATATT
86063644 TACAA
1 TACAA
86063649 GCTCAATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (29 bp):
TACAAACACAACATTCAATTTAACATATT
Found at i:86073687 original size:46 final size:46
Alignment explanation
Indices: 86073627--86073835 Score: 294
Period size: 46 Copynumber: 4.5 Consensus size: 46
86073617 TTTGACATGA
* * * * * *
86073627 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
86073673 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
86073719 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
86073765 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
86073811 TGCCATGGTATCTTTCAACCCTGGT
1 TGCCATGGTATCTTTCAACCATGGT
86073836 ATCTTTCAAC
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 144 0.97
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:86073835 original size:16 final size:16
Alignment explanation
Indices: 86073816--86073851 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
86073806 CAGGTTGCCA
86073816 TGGTATCTTTCAACCC
1 TGGTATCTTTCAACCC
86073832 TGGTATCTTTCAACCC
1 TGGTATCTTTCAACCC
86073848 TGGT
1 TGGT
86073852 CTTACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (16 bp):
TGGTATCTTTCAACCC
Found at i:86073839 original size:62 final size:62
Alignment explanation
Indices: 86073767--86073897 Score: 219
Period size: 62 Copynumber: 2.1 Consensus size: 62
86073757 TATCAGGCTG
*
86073767 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA-TGGTATCTTTCAA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG-CATTGGTATCTTTCAA
* *
86073829 CCCTGGTATCTTTCAACCCTGGTCTTACACATTTCATATCAGGCTGCATTGGTATCTTTCAA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCATTGGTATCTTTCAA
86073891 CCATGGT
1 CCATGGT
86073898 CTTACACATT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 2 0.03
62 62 0.97
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (62 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCATTGGTATCTTTCAA
Found at i:86077030 original size:5 final size:5
Alignment explanation
Indices: 86077022--86077048 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
86077012 TTTAGTTTAT
86077022 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
86077049 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:86083605 original size:5 final size:5
Alignment explanation
Indices: 86083597--86083638 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
86083587 TTTAGTTTAT
* *
86083597 ATATA ATATA ACATA ATATA ACATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
86083639 TAAAACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:86085673 original size:2 final size:2
Alignment explanation
Indices: 86085666--86085691 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86085656 GTATCATTGT
86085666 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
86085692 GCTTGATTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:86090126 original size:4 final size:4
Alignment explanation
Indices: 86090117--86090194 Score: 147
Period size: 4 Copynumber: 19.5 Consensus size: 4
86090107 CAGTACAAAC
*
86090117 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ACGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
86090165 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
86090195 TTGCAAAATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 72 1.00
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:86100992 original size:12 final size:12
Alignment explanation
Indices: 86100977--86101006 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
86100967 TTCTCTTTTA
86100977 TTTTCTTTCCCT
1 TTTTCTTTCCCT
*
86100989 TTTTCTTTCTCT
1 TTTTCTTTCCCT
86101001 TTTTCT
1 TTTTCT
86101007 CCCCTGCGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTCCCT
Found at i:86107487 original size:27 final size:28
Alignment explanation
Indices: 86107419--86107487 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 28
86107409 GAATATCCAA
*
86107419 CCCAAACACACCCGGAATATTATAAATCCT
1 CCCAAACACA-CCGG-ATATAATAAATCCT
* *
86107449 -CCATAACTCACCGG-TATAATATATCCT
1 CCCA-AACACACCGGATATAATAAATCCT
86107476 CCCAAACACACC
1 CCCAAACACACC
86107488 AATAAGGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 18 0.55
28 3 0.09
29 7 0.21
30 5 0.15
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.20
Consensus pattern (28 bp):
CCCAAACACACCGGATATAATAAATCCT
Found at i:86108558 original size:12 final size:12
Alignment explanation
Indices: 86108543--86108573 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
86108533 TTCTCTTTTA
86108543 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
86108555 TTTTTCTTTCTC
1 TTTTTCTTTCCC
86108567 TTTTTCT
1 TTTTTCT
86108574 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:86111396 original size:43 final size:42
Alignment explanation
Indices: 86111264--86111414 Score: 205
Period size: 43 Copynumber: 3.6 Consensus size: 42
86111254 ACTAAGACTA
*
86111264 CGTGTAAGACCATATCTGGGATATGGCATCG-TATGGGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* *
86111305 CGTGTAAGACTATATCTGGGATATGGCGTCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
* * * *
86111347 CGTGTAAAACCATAACTGGGCTATTGGCATCGATATGAGATTA
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTT
* *
86111390 CATGTAAGACCATATATGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
86111415 ACATTGGTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
41 29 0.31
42 30 0.32
43 35 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
Found at i:86111617 original size:15 final size:16
Alignment explanation
Indices: 86111590--86111619 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
86111580 ATGAACCCTT
86111590 AGTAAGATTATGATTG
1 AGTAAGATTATGATTG
86111606 AGTAAG-TTATGATT
1 AGTAAGATTATGATT
86111620 ATAAGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (16 bp):
AGTAAGATTATGATTG
Found at i:86112557 original size:18 final size:19
Alignment explanation
Indices: 86112534--86112584 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
86112524 CAGGTTAGGA
*
86112534 ACACGGGTGTGTGTGA-CC
1 ACACGGGTGTGTGTAAGCC
* *
86112552 ACACGGGCGTGTCCTAAGCC
1 ACACGGGTGTGT-GTAAGCC
86112572 ACACGGGTGTGTG
1 ACACGGGTGTGTG
86112585 GCTCTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 13 0.50
ACGTcount: A:0.18, C:0.25, G:0.37, T:0.20
Consensus pattern (19 bp):
ACACGGGTGTGTGTAAGCC
Found at i:86117870 original size:24 final size:21
Alignment explanation
Indices: 86117830--86117967 Score: 179
Period size: 21 Copynumber: 6.3 Consensus size: 21
86117820 ATTGTTATTC
86117830 ATAATTTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
*
86117851 ATAATGGTTTTTAATATTTAATTA
1 ATAAT--TTTTTTAT-TTTAATTA
*
86117875 ATATTTTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
*
86117896 ATAATGGTTTTTAATATTTAATTA
1 ATAAT--TTTTTTAT-TTTAATTA
*
86117920 ATAATTTTTTTGTTTTAATTA
1 ATAATTTTTTTATTTTAATTA
86117941 ATAA-TTTTTTATTTTAATTA
1 ATAATTTTTTTATTTTAATTA
86117961 ATAATTT
1 ATAATTT
86117968 CATTTTTACT
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
20 19 0.19
21 31 0.30
22 13 0.13
23 14 0.14
24 25 0.25
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATAATTTTTTTATTTTAATTA
Found at i:86117891 original size:45 final size:45
Alignment explanation
Indices: 86117816--86117967 Score: 231
Period size: 45 Copynumber: 3.4 Consensus size: 45
86117806 TCCTAAATAA
* *
86117816 TAATATTGTTATTCATAATTTTTTTATTTTAATTAATAATGGTTTT
1 TAATATT-TAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
*
86117862 TAATATTTAATTAATATTTTTTTTATTTTAATTAATAATGGTTTT
1 TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
*
86117907 TAATATTTAATTAATAATTTTTTTGTTTTAATTAATAAT--TTTT
1 TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
86117950 T-AT-TTTAATTAATAATTT
1 TAATATTTAATTAATAATTT
86117968 CATTTTTACT
Statistics
Matches: 101, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
41 15 0.15
42 2 0.02
43 5 0.05
45 72 0.71
46 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (45 bp):
TAATATTTAATTAATAATTTTTTTATTTTAATTAATAATGGTTTT
Found at i:86121821 original size:52 final size:50
Alignment explanation
Indices: 86121715--86121823 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 50
86121705 AATTAACCCA
* *
86121715 GGATGGATTAAACTGCTATGTCCTAATTAGTACATTCACAATGATAAAAT
1 GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT
* *
86121765 GGATAGATTAACCTGCTATGT-TTAATTAGGAACATATGCACAATGA-AAAGAT
1 GGATAGATTAAACTGCTATGTCCTAATTA-GAACAT-T-CACAATGATAAA-AT
86121817 GGATAGA
1 GGATAGA
86121824 CACAGAACTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
49 6 0.12
50 24 0.47
51 4 0.08
52 17 0.33
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (50 bp):
GGATAGATTAAACTGCTATGTCCTAATTAGAACATTCACAATGATAAAAT
Found at i:86123228 original size:79 final size:79
Alignment explanation
Indices: 86123071--86123229 Score: 185
Period size: 79 Copynumber: 2.0 Consensus size: 79
86123061 CCTACATGTG
** * * * * *
86123071 AACAACCACAGTAGGGGTCGTGTACCTTATATACGATTAGGCGAGAAGAACAACATTACAAAACC
1 AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGAGAAGAACAACATTACAAAACC
**
86123136 TAGGTTTTTATACC
66 TAGGTTTAGATACC
* *
86123150 AACAACCACACCAGAGGCCGTGCACCTTAAATAGGATTACGC-AGGAAGAGCAACATTACAAAAC
1 AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGA-GAAGAACAACATTACAAAAC
* *
86123214 TTGGGTTTAGATACC
65 CTAGGTTTAGATACC
86123229 A
1 A
86123230 TGTTCAGCAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 1 0.02
79 65 0.98
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (79 bp):
AACAACCACACCAGAGGCCGTGCACCTTAAATACGATTACGCGAGAAGAACAACATTACAAAACC
TAGGTTTAGATACC
Found at i:86137478 original size:24 final size:24
Alignment explanation
Indices: 86137451--86137501 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
86137441 TGCTTATTTT
86137451 GGTATACTTTATTAAGAAATTTAA
1 GGTATACTTTATTAAGAAATTTAA
*
86137475 GGTATACTTTATTGAGAAATTTAA
1 GGTATACTTTATTAAGAAATTTAA
86137499 GGT
1 GGT
86137502 GGGTAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (24 bp):
GGTATACTTTATTAAGAAATTTAA
Found at i:86137799 original size:21 final size:21
Alignment explanation
Indices: 86137775--86137821 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
86137765 TAAAATTTCC
* *
86137775 AAAAAAATTATATTTTTAAAA
1 AAAAAAATAATAATTTTAAAA
**
86137796 AAAATTATAATAATTTTAAAA
1 AAAAAAATAATAATTTTAAAA
86137817 AAAAA
1 AAAAA
86137822 TCTAAAGAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAATAATAATTTTAAAA
Found at i:86139289 original size:21 final size:21
Alignment explanation
Indices: 86139263--86139303 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
86139253 TAACTGGACC
*
86139263 GCTGATGTGG-CAAGTTAACTA
1 GCTGATATGGCCAAG-TAACTA
86139284 GCTGATATGGCCAAGTAACT
1 GCTGATATGGCCAAGTAACT
86139304 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
GCTGATATGGCCAAGTAACTA
Found at i:86147591 original size:12 final size:12
Alignment explanation
Indices: 86147574--86147598 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86147564 AAAATAGGGC
86147574 TTTAGTGGCGTT
1 TTTAGTGGCGTT
86147586 TTTAGTGGCGTT
1 TTTAGTGGCGTT
86147598 T
1 T
86147599 GAACAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTTAGTGGCGTT
Found at i:86147720 original size:41 final size:41
Alignment explanation
Indices: 86147668--86147775 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
86147658 AACTGAACAA
*
86147668 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
86147709 TAGCGGCGCTTTTAGAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
86147750 TAGCGGCGCTTTTGAAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
86147776 AAAAAATTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:86148421 original size:14 final size:14
Alignment explanation
Indices: 86148411--86148442 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
86148401 ATTGTTTTTG
86148411 GTTTAGAGTTTATA
1 GTTTAGAGTTTATA
*
86148425 GTTTAGAGTTTGTA
1 GTTTAGAGTTTATA
86148439 GTTT
1 GTTT
86148443 TTTGTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (14 bp):
GTTTAGAGTTTATA
Found at i:86148886 original size:17 final size:18
Alignment explanation
Indices: 86148864--86148897 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86148854 TATTTGTTTT
86148864 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
86148881 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
86148898 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:86153114 original size:19 final size:19
Alignment explanation
Indices: 86153092--86153128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
86153082 TATAATATAG
86153092 AAAATAAATATTATTTAAT
1 AAAATAAATATTATTTAAT
* *
86153111 AAAATATATATTTTTTAA
1 AAAATAAATATTATTTAA
86153129 AGGTTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATAAATATTATTTAAT
Found at i:86153272 original size:43 final size:44
Alignment explanation
Indices: 86153200--86153343 Score: 141
Period size: 43 Copynumber: 3.3 Consensus size: 44
86153190 CGTTTGTAAA
* * * **
86153200 AAAAGTGCCGCTAAAGGTCATGATTTTTAGCGGC-ATTTGCGGG
1 AAAAGTGCCGCTAAAGGCCATGGTCTTTAGCGGCGATTTGCCCG
* * * *
86153243 AAAAGCGCCGCTAAAGGCCATGGTCTTTAGTGGCGCTTTTCCCG
1 AAAAGTGCCGCTAAAGGCCATGGTCTTTAGCGGCGATTTGCCCG
* * * *
86153287 CAAA-TGCCGCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCG
1 AAAAGTGCCGCTAAAGGCCATGGTCTTTAGCGGCGATTTGCCCG
*
86153330 CAAA-TGCCGCTAAA
1 AAAAGTGCCGCTAAA
86153344 AATCATGACC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 79 0.91
44 8 0.09
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (44 bp):
AAAAGTGCCGCTAAAGGCCATGGTCTTTAGCGGCGATTTGCCCG
Found at i:86153357 original size:43 final size:43
Alignment explanation
Indices: 86153249--86153362 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
86153239 CGGGAAAAGC
** ** *
86153249 GCCGCTAAAGGCCATGGTCTTTAGTGGCGCTTTTCCCGCAAAT
1 GCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCCCGCAAAT
* **
86153292 GCCGCTAAAGACCATGGTCTTTAGCGGCGCTTTTCCCGCAAAT
1 GCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCCCGCAAAT
*
86153335 GCCGCTAAAAATCATGACCTTTAGCGGC
1 GCCGCTAAAAACCATGACCTTTAGCGGC
86153363 TTTTTTAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTCCCGCAAAT
Found at i:86160177 original size:141 final size:141
Alignment explanation
Indices: 86159961--86160218 Score: 385
Period size: 141 Copynumber: 1.8 Consensus size: 141
86159951 TTACCCTCAC
**
86159961 CATTCTGAAACCTTTCTCACTCAACTTGATAGCCTCTCTCACTCAGCCTCTATTACTTGCTTCGC
1 CATTCTGAAACCTTTCTCACTCAACCCGATAGCCTCTCTCACTCAGCCTCTATTACTTGCTTCGC
* * *
86160026 CTCTGGCCACTAGCCCCAAACTCTTCTTGGGCATGCCATAAAGAAAGGCAAGAAGAGAGCTGCCT
66 CTCCGACCACTAGCCCCAAACTCTTCTCGGGCATGCCATAAAGAAAGGCAAGAAGAGAGCTGCCT
86160091 CTGTTTTTCTT
131 CTGTTTTTCTT
* * *
86160102 CATTCTGAAACCTTTGTTACTCAACCCGATAGCC-CTTCTCAC-CTAGCCTCTATTGCTTGCTTC
1 CATTCTGAAACCTTTCTCACTCAACCCGATAGCCTC-TCTCACTC-AGCCTCTATTACTTGCTTC
* * *
86160165 GCTTCCGACCACTAGCTCCAAACTCTTCTCGGGCATGCCATAGAGAAAGGCAAG
64 GCCTCCGACCACTAGCCCCAAACTCTTCTCGGGCATGCCATAAAGAAAGGCAAG
86160219 GAGACAGTCG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
140 2 0.02
141 102 0.98
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (141 bp):
CATTCTGAAACCTTTCTCACTCAACCCGATAGCCTCTCTCACTCAGCCTCTATTACTTGCTTCGC
CTCCGACCACTAGCCCCAAACTCTTCTCGGGCATGCCATAAAGAAAGGCAAGAAGAGAGCTGCCT
CTGTTTTTCTT
Found at i:86163146 original size:6 final size:6
Alignment explanation
Indices: 86163135--86163197 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
86163125 ATTTAACCTT
* **
86163135 TTTTAA TTTTAA TTTTAA TATT-- TTTTGT TTTTAA -TTTAA TTGTTACA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TT-TTA-A
*
86163182 TTTTAA TTTTTA TTTT
1 TTTTAA TTTTAA TTTT
86163198 GTTTGATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.06
5 5 0.11
6 30 0.64
7 6 0.13
8 3 0.06
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:86163174 original size:21 final size:21
Alignment explanation
Indices: 86163122--86163174 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
86163112 TTTATTTCTA
**
86163122 TTAATTTAACCTTTTTTAATT
1 TTAATTTAATATTTTTTAATT
**
86163143 TTAATTTTAATATTTTTTGTTT
1 TTAA-TTTAATATTTTTTAATT
86163165 TTAATTTAAT
1 TTAATTTAAT
86163175 TGTTACATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (21 bp):
TTAATTTAATATTTTTTAATT
Found at i:86172218 original size:49 final size:50
Alignment explanation
Indices: 86172138--86172360 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 50
86172128 ATCTATTGTG
* *
86172138 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
* * * *
86172188 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA-TT
* ** * * **
86172238 CGGTCATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
* * *
86172288 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
*
86172338 -GGTCGCATGTGTAGTACTAAGTG
1 AGGTCACATGTGTAGTACTAAGTG
86172361 TAGACTACTA
Statistics
Matches: 146, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 62 0.42
50 46 0.32
51 38 0.26
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
Found at i:86172347 original size:101 final size:98
Alignment explanation
Indices: 86172144--86172360 Score: 262
Period size: 100 Copynumber: 2.2 Consensus size: 98
86172134 TGTGAGGTCA
* * *
86172144 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACTAAG
1 CATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAG
*
86172209 TGCAAGCTACTATGCGTACCCGATAACTTCGGT
66 TGCAAGCTACTACGCGTACCCGATAACTTCGGT
** *
86172242 CATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-TCAGATGGTTAGGTCACGTGTGTAGTAC
1 CA--TGTGTAGTACTAAGTGCAAGCTACTACGTGTACT-AGATAATT-GGTCACATGTGTAGTAC
* *
86172306 TAAGTGCAGGCTACTACGTGTA-CCGAATAA-TT-GGT
62 TAAGTGCAAGCTACTACGCGTACCCG-ATAACTTCGGT
86172341 CGCATGTGTAGTACTAAGTG
1 --CATGTGTAGTACTAAGTG
86172361 TAGACTACTA
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
98 2 0.02
99 20 0.19
100 41 0.40
101 40 0.39
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
CATGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAATTGGTCACATGTGTAGTACTAAG
TGCAAGCTACTACGCGTACCCGATAACTTCGGT
Found at i:86172413 original size:150 final size:150
Alignment explanation
Indices: 86172138--86172413 Score: 396
Period size: 150 Copynumber: 1.8 Consensus size: 150
86172128 ATCTATTGTG
* *
86172138 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGT
* ** * *
86172203 ACTAAGTGCAAGCTACTATGCGTACCCGATAACTTCGGTCATGTGTGTAGTACTAAGTGCAAGCT
66 ACTAAGTGCAAGCTACTATGCGTACCAGATAACTTCGGTCAAATGTGTAGAAATAAGTGCAAGCT
86172268 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
*
86172288 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGT
* * * *
86172353 ACTAAGTG-TAGACTACTATGCGTACCAGATAGCTTTGGCTACAAATGTG-A-AAATATGTGCA
66 ACTAAGTGCAAG-CTACTATGCGTACCAGATAACTTCGG-T-CAAATGTGTAGAAATAAGTGCA
86172414 GGCAACTGAG
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
149 2 0.02
150 101 0.91
151 2 0.02
152 6 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGT
ACTAAGTGCAAGCTACTATGCGTACCAGATAACTTCGGTCAAATGTGTAGAAATAAGTGCAAGCT
ACTACGTGTATCAGATGGTT
Found at i:86175469 original size:18 final size:18
Alignment explanation
Indices: 86175425--86175475 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
86175415 GCCCATTAAG
86175425 CCCCCAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
***
86175443 CCAAAAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
86175461 CCCCCAAAAAAAACC
1 CCCCCAAAAAAAACC
86175476 AAGAAACCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:86188087 original size:20 final size:21
Alignment explanation
Indices: 86188053--86188092 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
86188043 AAAGAAATAT
86188053 TTTTTAAAATATTTTTATTAA
1 TTTTTAAAATATTTTTATTAA
*
86188074 TTTTTAATAT-TTTTTATTA
1 TTTTTAAAATATTTTTATTA
86188093 TAATATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTAAAATATTTTTATTAA
Found at i:86188461 original size:19 final size:19
Alignment explanation
Indices: 86188433--86188469 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
86188423 TGATTTCTGG
86188433 AAAATAATTTACTTTTCTA
1 AAAATAATTTACTTTTCTA
*
86188452 AAAATGATTTACTTTTCT
1 AAAATAATTTACTTTTCT
86188470 GGTGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAATAATTTACTTTTCTA
Found at i:86188613 original size:36 final size:36
Alignment explanation
Indices: 86188542--86188613 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
86188532 CTGAAAAAGC
*
86188542 TGTTTTTACATATATTAATAAATTTATATTTTAAAT
1 TGTTTTTACATATATTAATAAATTTATATTATAAAT
86188578 TGTTTTTACATATATTGTAAT-AATTTAT-TTATAAAT
1 TGTTTTTACATATA-T-TAATAAATTTATATTATAAAT
86188614 AAATAAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 21 0.64
37 8 0.24
38 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (36 bp):
TGTTTTTACATATATTAATAAATTTATATTATAAAT
Found at i:86190170 original size:28 final size:28
Alignment explanation
Indices: 86190106--86190164 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
86190096 AAGGAAGAAC
86190106 AACCCGAAAGTGGAACTCAAAGAGAGCA
1 AACCCGAAAGTGGAACTCAAAGAGAGCA
86190134 AACCCGAAAGTGGAACTCAAAGAGAGCA
1 AACCCGAAAGTGGAACTCAAAGAGAGCA
86190162 AAC
1 AAC
86190165 TGGAAACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.22, G:0.24, T:0.07
Consensus pattern (28 bp):
AACCCGAAAGTGGAACTCAAAGAGAGCA
Found at i:86191512 original size:17 final size:18
Alignment explanation
Indices: 86191487--86191532 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
86191477 AGAAGATGAA
*
86191487 GAATGGAAGAAGGAAA-AT
1 GAAT-GAAGAAGGAAAGAG
*
86191505 GAATGAAGAACGAAAGAG
1 GAATGAAGAAGGAAAGAG
86191523 GAA-GAAGAAG
1 GAATGAAGAAG
86191533 AAGGAGCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.35, T:0.07
Consensus pattern (18 bp):
GAATGAAGAAGGAAAGAG
Found at i:86192561 original size:67 final size:63
Alignment explanation
Indices: 86192489--86192614 Score: 162
Period size: 63 Copynumber: 1.9 Consensus size: 63
86192479 AAGTGCCAAC
* * ** *
86192489 GTTGAAGTGGCTGACACCGATTCAAAACTTTAAAAATTTGATTTTTTTTTTATTTTTTGGTGCCG
1 GTTGAAGTGGCCGACACCAATT-AAAAAATTAAAAA-AT-A-TTTTTTTTTATTTTTTGGTGCCG
86192554 GT
62 GT
*
86192556 GTTGAAGTGGCCGATACCAATTAAAAAATTAAAAAATATTTTTTTTTATTTTTTGGTGC
1 GTTGAAGTGGCCGACACCAATTAAAAAATTAAAAAATATTTTTTTTTATTTTTTGGTGC
86192615 TAGTGCTGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 21 0.40
64 1 0.02
65 1 0.02
66 11 0.21
67 19 0.36
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (63 bp):
GTTGAAGTGGCCGACACCAATTAAAAAATTAAAAAATATTTTTTTTTATTTTTTGGTGCCGGT
Found at i:86192961 original size:28 final size:28
Alignment explanation
Indices: 86192929--86192994 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
86192919 CCAAAGAAAT
*
86192929 AACAAGTTTTAACATTAATGGTCCACCA
1 AACAAATTTTAACATTAATGGTCCACCA
*
86192957 AACAAATTTTAACATTAATGTTCCACCA
1 AACAAATTTTAACATTAATGGTCCACCA
*
86192985 AATAAATTTT
1 AACAAATTTT
86192995 GAAATAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (28 bp):
AACAAATTTTAACATTAATGGTCCACCA
Found at i:86197958 original size:59 final size:60
Alignment explanation
Indices: 86197868--86197981 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
86197858 ATATTAAACT
** * *
86197868 AAACACAGTAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
86197928 AAACACAAAAATTT-TAACATAATCCTAAATTACTAACAAATTAATTTTAAAATA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATA
86197982 GTTATAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 38 0.76
60 12 0.24
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:86198407 original size:22 final size:22
Alignment explanation
Indices: 86198380--86198430 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
86198370 ATATTTTTAA
*
86198380 TAAAAATAAAAAAATATTTTATT
1 TAAAAA-ACAAAAATATTTTATT
* * *
86198403 TAAAAAACAAAAAAATTTAATA
1 TAAAAAACAAAAATATTTTATT
86198425 TAAAAA
1 TAAAAA
86198431 TTGAATCGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAACAAAAATATTTTATT
Found at i:86200566 original size:21 final size:22
Alignment explanation
Indices: 86200522--86200593 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 22
86200512 AGCCCTCCCC
86200522 AAAAAAAACCTAACCCCCCAAAAAA
1 AAAAAAAACCTAA---CCCAAAAAA
*
86200547 AGAAAAAACCTAACCC-AAAAA
1 AAAAAAAACCTAACCCAAAAAA
**
86200568 AAAAAAAACCTAACCCCCAAAA
1 AAAAAAAACCTAACCCAAAAAA
86200590 AAAA
1 AAAA
86200594 CCAAGAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 20 0.47
22 11 0.26
25 12 0.28
ACGTcount: A:0.67, C:0.28, G:0.01, T:0.04
Consensus pattern (22 bp):
AAAAAAAACCTAACCCAAAAAA
Found at i:86200987 original size:27 final size:27
Alignment explanation
Indices: 86200957--86201013 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
86200947 GGCCACCGTA
86200957 GGCGGTGGCCGGCGGTGGCCGACGACG
1 GGCGGTGGCCGGCGGTGGCCGACGACG
86200984 GGCGGTGGCCGGCGGTGGCCGACGACG
1 GGCGGTGGCCGGCGGTGGCCGACGACG
86201011 GGC
1 GGC
86201014 AGCGACCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.07, C:0.30, G:0.56, T:0.07
Consensus pattern (27 bp):
GGCGGTGGCCGGCGGTGGCCGACGACG
Found at i:86203131 original size:12 final size:12
Alignment explanation
Indices: 86203114--86203149 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
86203104 ATTCATTTGA
86203114 CATTCATGCATT
1 CATTCATGCATT
86203126 CATTCATGCATT
1 CATTCATGCATT
* *
86203138 CACTCATACATT
1 CATTCATGCATT
86203150 GCATATCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:86211542 original size:69 final size:70
Alignment explanation
Indices: 86211368--86211542 Score: 226
Period size: 70 Copynumber: 2.5 Consensus size: 70
86211358 CTTTTCAAGG
* * * * *
86211368 AAAATCAACTCATATTGCAAGAGATGAGTTGGGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
86211433 GTTTC
66 GTTTC
* ** *
86211438 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
86211503 GTTT-
66 GTTTC
* ** *
86211507 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
86211543 TTTAATTTCT
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 31 0.34
70 60 0.66
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTC
Found at i:86211764 original size:139 final size:140
Alignment explanation
Indices: 86211514--86211772 Score: 407
Period size: 139 Copynumber: 1.9 Consensus size: 140
86211504 TTTTAAATTG
* *
86211514 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTCAAAATCAGCCCATATTAC
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTGTAATTTCTACTTTTTCAAAATCAACCCATATTAC
* * *
86211579 GAGAGGTGAGTTGAGCCCAGGTCACGCTGAGGTATTTTTAATTTCTGT-TTTCAATTTATGTTGT
66 GAGAGGTGAGTTGAGCCCAGGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAATTTATGTTGT
86211643 TCAAGAATCA
131 TCAAGAATCA
* * *
86211653 ACTCATATTGCGAGAGGTGGGTTGAA-CCTTGTAATTTCTACTTTTT-AAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTGTAATTTCTACTTTTTCAAAATCAACCCATATTA
86211716 CGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAA
65 CGAGAGGTGAGTTGAGCC-CAGGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAA
86211773 AAAAATCAAC
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
138 32 0.29
139 69 0.63
140 8 0.07
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (140 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTGTAATTTCTACTTTTTCAAAATCAACCCATATTAC
GAGAGGTGAGTTGAGCCCAGGACACGCTGAGGTAATTTCAATTTCTGTCTTTCAATTTATGTTGT
TCAAGAATCA
Found at i:86211845 original size:14 final size:14
Alignment explanation
Indices: 86211826--86211852 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86211816 ATACGCCGAG
86211826 GTATTTCAATTTCC
1 GTATTTCAATTTCC
86211840 GTATTTCAATTTC
1 GTATTTCAATTTC
86211853 TGCCTTTCAA
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:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
GTATTTCAATTTCC
Found at i:86212004 original size:74 final size:73
Alignment explanation
Indices: 86211842--86212767 Score: 674
Period size: 72 Copynumber: 12.3 Consensus size: 73
86211832 CAATTTCCGT
** *
86211842 ATTTCAATTTCTGCCTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 ATTTCAATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
86211907 CACTGAGGTA
64 CACTGAGGTA
* * * *
86211917 ATTTCAATTTCTGTTGTC-AAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTA-GTCAC
1 ATTTCAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACAC
86211980 A-TGCCAAGGTA
65 ACTG---AGGTA
* ***** * * * *
86211991 TTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAATCAACTCATAT-TGCGAGAGGTGAGT
1 ATTTCAATTTCTG--TTTCAA-----AAAAATC---AACTC-A-T-AT-TGCGAGA--GGCGAGT
* *
86212055 GGAGCCTCAGGACACGCTGAGGTA
50 TGAGCCTCAGGACACACTGAGGTA
* *** *
86212079 ATTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCG-GAAATGAGTTGAGCCTCAAGA-A
1 ATTTCAATTTCTGTT-T-CAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
**
86212142 GTGCTGAGGTA
64 -CACTGAGGTA
* * * *
86212153 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 ATTTCAATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
*
86212218 CGCTGAGGTA
64 CACTGAGGTA
* ** * * *
86212228 ATTTCGATTTCTGTTT-TTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 ATTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACA
86212292 CTGAGGTA
66 CTGAGGTA
* * *** *
86212300 ATTTCAATTTCTATTGTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGAC
1 ATTTCAATTTCTGTT-TC--AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
**
86212365 ATGCTGAGGTA
63 ACACTGAGGTA
* * * * *
86212376 TTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGACA
1 ATTTCAATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACA
**
86212440 TGCTGAGGTA
64 CACTGAGGTA
* *** *
86212450 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 ATTTCAATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACAC
**
86212513 GTTGAGGTA
65 ACTGAGGTA
* * * *
86212522 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCA
1 ATTTCAATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-ACA
86212586 CATGCTGAGGTA
64 CA--CTGAGGTA
* *** *
86212598 TTTTCAATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 ATTTCAATTTCTG--TTTC--AAAAAAA-TCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG
**
86212663 ACACGTTGAGGTA
61 ACACACTGAGGTA
* *** *
86212676 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 ATTTCAATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACAC
**
86212739 GTTGAGGTA
65 ACTGAGGTA
86212748 ATTTCAATTTCTG-TTCAAAA
1 ATTTCAATTTCTGTTTCAAAA
86212768 TGAGTTGAGC
Statistics
Matches: 701, Mismatches: 101, Indels: 101
0.78 0.11 0.11
Matches are distributed among these distances:
70 3 0.00
71 2 0.00
72 197 0.28
73 50 0.07
74 174 0.25
75 52 0.07
76 87 0.12
77 13 0.02
78 22 0.03
79 8 0.01
80 37 0.05
81 3 0.00
83 2 0.00
84 4 0.01
86 3 0.00
87 5 0.01
88 20 0.03
89 13 0.02
90 4 0.01
91 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
ATTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACA
CTGAGGTA
Found at i:86212010 original size:14 final size:14
Alignment explanation
Indices: 86211991--86212017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86211981 TGCCAAGGTA
86211991 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
86212005 TTTTCAATTTCTG
1 TTTTCAATTTCTG
86212018 CCTTTCAAAA
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:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:86212023 original size:14 final size:14
Alignment explanation
Indices: 86211992--86212025 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
86211982 GCCAAGGTAT
**
86211992 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
86212006 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
86212020 TTTCAA
1 TTTCAA
86212026 AAAATCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:86212087 original size:88 final size:88
Alignment explanation
Indices: 86211918--86212093 Score: 230
Period size: 89 Copynumber: 2.0 Consensus size: 88
86211908 ACTGAGGTAA
* * * * *
86211918 TTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGTCACATG
1 TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGTCACACG
*
86211983 CCAAGGTATTTTCAATTTCTGTT
66 CCAAGGTAATTTCAATTTCTGTT
* *
86212006 TTTCAATTTCTGCCTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG-GACA
1 TTTCAATTTCTG--TTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGTCACA
**
86212069 CGCTGAGGTAATTTCAATTTCTGTT
64 CGCCAAGGTAATTTCAATTTCTGTT
86212094 GTAAAAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
88 36 0.47
89 38 0.50
90 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGTCACACG
CCAAGGTAATTTCAATTTCTGTT
Found at i:86212272 original size:72 final size:72
Alignment explanation
Indices: 86212006--86212762 Score: 854
Period size: 72 Copynumber: 10.2 Consensus size: 72
86211996 AATTTCTGTT
* ** * *
86212006 TTTCAATTTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACACG
1 TTTCAATTTCTG--TTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
86212071 CTGAGGTAA
64 CTGAGGTAA
*
86212080 TTTCAATTTCTGTTGTAAAAAAAAATCAACTCATATTGCG-GAAATGAGTTGAGCCTCAAGA-AG
1 TTTCAATTTCTGTT-T--TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA-
* *
86212143 TGCTGAGGTAT
62 CGCTGAGGTAA
* ** **
86212154 TTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTCAATTTCTGT-TTT--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
86212219 GCTGAGGTAA
63 GCTGAGGTAA
* * * ** *
86212229 TTTCGATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
86212294 GAGGTAA
66 GAGGTAA
* * *
86212301 TTTCAATTTCTATTGTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
1 TTTCAATTTCTGTT-T---TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
86212366 TGCTGAGGTAT
62 CGCTGAGGTAA
* * ** ** *
86212377 TTTCAATTTTTGTCTTTCAAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGGACATG
1 TTTCAATTTCTGT-TTT-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
86212442 CTGAGGTAA
64 CTGAGGTAA
* * *
86212451 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
*
86212516 GAGGTAT
66 GAGGTAA
* ** *
86212523 TTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 TTTCAATTTCTGTTTT--AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---AC
* *
86212587 ATGCTGAGGTAT
61 ACGCTGAGGTAA
86212599 TTTCAATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
1 TTTCAATTTCTGT-TTT----AAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
*
86212664 CACGTTGAGGTAA
60 CACGCTGAGGTAA
* * *
86212677 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
86212742 GAGGTAA
66 GAGGTAA
86212749 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
86212763 CAAAATGAGT
Statistics
Matches: 589, Mismatches: 69, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
72 193 0.33
73 11 0.02
74 171 0.29
75 59 0.10
76 86 0.15
77 7 0.01
78 24 0.04
79 7 0.01
80 30 0.05
81 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTCAATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAA
Found at i:86212447 original size:222 final size:223
Alignment explanation
Indices: 86212006--86212762 Score: 1123
Period size: 222 Copynumber: 3.4 Consensus size: 223
86211996 AATTTCTGTT
* * ** * *
86212006 TTTCAATTTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACACG
1 TTTCAATTTCTG-TTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
86212071 CTGAGGTAATTTCAATTTCTGTTGT-AAAAAAAAATCAACTCATATTGCG-GAAATGAGTTGAGC
64 CTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
86212134 CTCAAGA-AGTGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAG
129 CTCAAGACA-TGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAG
86212198 GTGAGTTGAGCCTCGGGACACGCTGAGGTAA
193 GTGAGTTGAGCCTCGGGACACGCTGAGGTAA
* * ** *
86212229 TTTCGATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* *
86212294 GAGGTAATTTCAATTTCTATTGTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCT
66 GAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
86212359 CAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTC-AAAAAATCAACTCATATTGAGAGAGGTG
131 CAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
*
86212423 AGTTGAGCCTCGGGACATGCTGAGGTAA
196 AGTTGAGCCTCGGGACACGCTGAGGTAA
*
86212451 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * * **
86212516 GAGGTATTTTCAATTTCTGTTTTC--AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
66 GAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* *
86212579 C-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAATTCAACTCATATTGCGA
131 CAAG---ACATGCTGAGGTATTTTCAATTTTTGTCTTTC--AAAAAAA-TCAACTCATATTGCGA
** ** *
86212643 GAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
190 GAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA
*
86212677 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
86212742 GAGGTAATTTCAATTTCTGTT
66 GAGGTAATTTCAATTTCTGTT
86212763 CAAAATGAGT
Statistics
Matches: 492, Mismatches: 32, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
219 1 0.00
220 36 0.07
221 68 0.14
222 191 0.39
223 61 0.12
224 1 0.00
225 6 0.01
226 128 0.26
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (223 bp):
TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
GAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTCGGGACACGCTGAGGTAA
Found at i:86212773 original size:49 final size:47
Alignment explanation
Indices: 86212716--86212809 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 47
86212706 ATATTGCGAG
*
86212716 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGA-GT-ATTTCAATTTCTGTTCA
* *
86212765 AAATGAGTTGAGCCTCAAGACACGCTGAGTCTTTTAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGTATTTCAATTTCTGTT
86212810 TTTCAAAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 13 0.31
48 2 0.05
49 27 0.64
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (47 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGTATTTCAATTTCTGTTCA
Found at i:86212986 original size:13 final size:13
Alignment explanation
Indices: 86212953--86212987 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
86212943 ACGTGCTGAG
* *
86212953 CTGTTTTCAATTT
1 CTGTTTTTAATGT
86212966 CTGTTTTTAATGT
1 CTGTTTTTAATGT
86212979 CTGTTTTTA
1 CTGTTTTTA
86212988 GAGAGTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.63
Consensus pattern (13 bp):
CTGTTTTTAATGT
Found at i:86214475 original size:37 final size:37
Alignment explanation
Indices: 86214433--86214534 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
86214423 CTAATATTTT
86214433 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
86214470 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
86214513 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
86214535 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:86219303 original size:45 final size:45
Alignment explanation
Indices: 86219234--86219775 Score: 750
Period size: 45 Copynumber: 12.1 Consensus size: 45
86219224 GGAAAGAACA
86219234 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
86219279 GGTGAAATGTTATTCGGGCTTTTGACCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
86219324 GGTGAAATGTTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCT
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
86219369 AGTGAAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCG
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
86219414 GGTGAAATGTTATTCGGGCCTTTGAGCCTAACAGGTTATAATGCG
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
86219459 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
86219504 GGTGAAATGTTATTCGGGCCTTTGAGGCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
86219549 GGTGAAATGTTATTCTGGCCTTTGAGCCTAGCAGACTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * * *
86219594 GGTGAGATATTATTCAGGCCTTTGAGCCTAGTAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * * *
86219639 AGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATACTGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* ** * * * *
86219684 GGTGAGATACTATTC-AGACTTTCGAGCCTAACAGGCTATAATGCT
1 GGTGAAATGTTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
** * *
86219729 GGTGAAATGACA-TCGGGCC-TCGAGCCTAGCAGGCGA-AATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
86219771 AGTGA
1 GGTGA
86219776 TTTGAGAAAA
Statistics
Matches: 447, Mismatches: 48, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
42 9 0.02
43 13 0.03
44 8 0.02
45 417 0.93
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (45 bp):
GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:86220577 original size:13 final size:13
Alignment explanation
Indices: 86220559--86220583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86220549 TCGAACCCTG
86220559 TTCCGGCGAGGGA
1 TTCCGGCGAGGGA
86220572 TTCCGGCGAGGG
1 TTCCGGCGAGGG
86220584 GTGTTACAAT
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:0.12, C:0.24, G:0.48, T:0.16
Consensus pattern (13 bp):
TTCCGGCGAGGGA
Found at i:86223017 original size:12 final size:12
Alignment explanation
Indices: 86222986--86223010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86222976 AATTTTCCTT
86222986 TCTTTTTCTTTC
1 TCTTTTTCTTTC
86222998 TCTTTTTCTTTC
1 TCTTTTTCTTTC
86223010 T
1 T
86223011 TTCTTTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:86226863 original size:20 final size:20
Alignment explanation
Indices: 86226838--86226891 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
86226828 ATATATATAC
86226838 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
86226858 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
86226878 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
86226892 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:86233802 original size:15 final size:15
Alignment explanation
Indices: 86233782--86233832 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
86233772 ACAGAACGAT
*
86233782 AACGTAAGTAAGTAA
1 AACGTAAGTAACTAA
** **
86233797 AACGTAA-TATTTCG
1 AACGTAAGTAACTAA
86233811 AACGTAAGTAACTAA
1 AACGTAAGTAACTAA
86233826 AACGTAA
1 AACGTAA
86233833 TATTTCAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.24
Consensus pattern (15 bp):
AACGTAAGTAACTAA
Found at i:86233815 original size:29 final size:29
Alignment explanation
Indices: 86233782--86233838 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
86233772 ACAGAACGAT
*
86233782 AACGTAAGTAAGTAAAACGTAATATTTCG
1 AACGTAAGTAACTAAAACGTAATATTTCG
86233811 AACGTAAGTAACTAAAACGTAATATTTC
1 AACGTAAGTAACTAAAACGTAATATTTC
86233839 AAATATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (29 bp):
AACGTAAGTAACTAAAACGTAATATTTCG
Found at i:86233853 original size:29 final size:29
Alignment explanation
Indices: 86233794--86233864 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
86233784 CGTAAGTAAG
* * *
86233794 TAAAACGTAATATTTCGAACGTAAGTAAC
1 TAAAACGTAATATTTCAAACATAAATAAC
* *
86233823 TAAAACGTAATATTTCAAATATAAATGAC
1 TAAAACGTAATATTTCAAACATAAATAAC
*
86233852 TAAAATGTAATAT
1 TAAAACGTAATAT
86233865 GAGGTAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
TAAAACGTAATATTTCAAACATAAATAAC
Found at i:86234494 original size:27 final size:26
Alignment explanation
Indices: 86234445--86234514 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
86234435 TTTAATTAAT
* *
86234445 TTTTTAAAATTTAAAAATATTAAT-T
1 TTTTTAAATTTTAAAAATATTAATGA
* *
86234470 TTTTTATACTTTTAAATAATGTTAATGA
1 TTTTTA-AATTTTAAA-AATATTAATGA
86234498 TTTTTAAATTTTAAAAA
1 TTTTTAAATTTTAAAAA
86234515 CAAGTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 6 0.16
26 9 0.24
27 16 0.43
28 6 0.16
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (26 bp):
TTTTTAAATTTTAAAAATATTAATGA
Found at i:86240538 original size:30 final size:30
Alignment explanation
Indices: 86240504--86240563 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
86240494 TTTATTAAAA
86240504 TATTAGGTACATTCAAGTGTGATCATTCAT
1 TATTAGGTACATTCAAGTGTGATCATTCAT
**
86240534 TATTAGGTATGTTCAAGTGTGATCATTCAT
1 TATTAGGTACATTCAAGTGTGATCATTCAT
86240564 ATTTAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (30 bp):
TATTAGGTACATTCAAGTGTGATCATTCAT
Found at i:86242445 original size:23 final size:23
Alignment explanation
Indices: 86242415--86242461 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
86242405 CACGCGTATT
86242415 TTAGGAAAAATAAATAACTTGGA
1 TTAGGAAAAATAAATAACTTGGA
86242438 TTAGGAAAAATAAATAACTTGGA
1 TTAGGAAAAATAAATAACTTGGA
86242461 T
1 T
86242462 AGATACGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (23 bp):
TTAGGAAAAATAAATAACTTGGA
Found at i:86247665 original size:32 final size:31
Alignment explanation
Indices: 86247605--86247666 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
86247595 TTTTTATGTG
* *
86247605 AAATAAAATACATATTATATTATATAAAATA
1 AAATAAAATAAATATTATAATATATAAAATA
* *
86247636 AAATAAAATAAAATATTCTAATATTTAAAAT
1 AAATAAAAT-AAATATTATAATATATAAAAT
86247667 TGGATTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATAAAATAAATATTATAATATATAAAATA
Found at i:86249832 original size:22 final size:21
Alignment explanation
Indices: 86249787--86249886 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 21
86249777 CTCATGTAGC
**
86249787 TCACATAGGTCATAGTTTGCATA
1 TCACAT-GG-CATAGTTCACATA
* *
86249810 TCACATGGTATATGTTCGCATA
1 TCACATGGCATA-GTTCACATA
* *
86249832 TCACTTTAGCATAAGTTCACATA
1 TCAC-ATGGCAT-AGTTCACATA
86249855 TCACATGGCATAGGTTCACATA
1 TCACATGGCATA-GTTCACATA
86249877 TCACATGGCA
1 TCACATGGCA
86249887 ATCACACAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
21 4 0.06
22 38 0.58
23 22 0.34
24 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (21 bp):
TCACATGGCATAGTTCACATA
Found at i:86250059 original size:31 final size:32
Alignment explanation
Indices: 86250009--86250069 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
86249999 AGTAAGCTCA
86250009 CACATGGGTAGGTTTCACACAATGGTAAGGCT
1 CACATGGGTAGGTTTCACACAATGGTAAGGCT
*
86250041 CACAT-GGTATGG-TTCACACAGTGGTAAGG
1 CACATGGGTA-GGTTTCACACAATGGTAAGG
86250070 TTTGCACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (32 bp):
CACATGGGTAGGTTTCACACAATGGTAAGGCT
Found at i:86250071 original size:17 final size:16
Alignment explanation
Indices: 86250006--86250093 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 16
86249996 ATAAGTAAGC
86250006 TCACACATGGGT-AGGTT
1 TCACACAT-GGTAAGG-T
86250023 TCACACAATGGTAAGG-
1 TCACAC-ATGGTAAGGT
* *
86250039 -CTCACATGGTATGGT
1 TCACACATGGTAAGGT
86250054 TCACACAGTGGTAAGGT
1 TCACACA-TGGTAAGGT
** *
86250071 TTGCACATAGGT-AGAT
1 TCACACAT-GGTAAGGT
86250087 TCACACA
1 TCACACA
86250094 AGGATTTGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
14 8 0.14
15 4 0.07
16 14 0.25
17 25 0.45
18 5 0.09
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (16 bp):
TCACACATGGTAAGGT
Found at i:86250090 original size:33 final size:31
Alignment explanation
Indices: 86250022--86250094 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
86250012 ATGGGTAGGT
*
86250022 TTCACACAATGGTAAGGCTCACATGGTATGG
1 TTCACACAATGGTAAGGCTCACATGGTATGA
* *
86250053 TTCACACAGTGGTAAGGTTTGCACATAGGTA-GA
1 TTCACACAATGGTAAGG-CT-CACAT-GGTATGA
86250086 TTCACACAA
1 TTCACACAA
86250095 GGATTTGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 16 0.46
32 1 0.03
33 14 0.40
34 4 0.11
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (31 bp):
TTCACACAATGGTAAGGCTCACATGGTATGA
Found at i:86250181 original size:23 final size:22
Alignment explanation
Indices: 86250153--86250256 Score: 88
Period size: 24 Copynumber: 4.4 Consensus size: 22
86250143 TCACATATGA
*
86250153 GGTGATAGGGTTCTCATGTCACT
1 GGTGATAGGGTTCACATGT-ACT
86250176 GGTGATAGGGGTTCGCACATG-ACT
1 GGTGATA-GGGTT--CACATGTACT
86250200 GGTGATAAGGGTTTGCACATGT-CT
1 GGTGAT-AGGG-TT-CACATGTACT
86250224 GGTGATAGGGGTTTGCACATGT-CT
1 GGTGATA-GGG-TT-CACATGTACT
86250248 GGTGATAGG
1 GGTGATAGG
86250257 TGGTTATATA
Statistics
Matches: 73, Mismatches: 1, Indels: 14
0.83 0.01 0.16
Matches are distributed among these distances:
23 10 0.14
24 55 0.75
25 3 0.04
26 5 0.07
ACGTcount: A:0.19, C:0.13, G:0.37, T:0.31
Consensus pattern (22 bp):
GGTGATAGGGTTCACATGTACT
Found at i:86250200 original size:24 final size:24
Alignment explanation
Indices: 86250173--86250261 Score: 133
Period size: 24 Copynumber: 3.7 Consensus size: 24
86250163 TTCTCATGTC
*
86250173 ACTGGTGATAGGGGTTCGCACATG
1 ACTGGTGATAGGGGTTTGCACATG
*
86250197 ACTGGTGATAAGGGTTTGCACATG
1 ACTGGTGATAGGGGTTTGCACATG
*
86250221 TCTGGTGATAGGGGTTTGCACATG
1 ACTGGTGATAGGGGTTTGCACATG
*
86250245 TCTGGTGATAGGTGGTT
1 ACTGGTGATAGG-GGTT
86250262 ATATACTAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 56 0.93
25 4 0.07
ACGTcount: A:0.19, C:0.12, G:0.37, T:0.31
Consensus pattern (24 bp):
ACTGGTGATAGGGGTTTGCACATG
Found at i:86250369 original size:22 final size:22
Alignment explanation
Indices: 86250301--86250361 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
86250291 AGCAATGTAG
*
86250301 GGGTTCGTATATTAATTTATCA
1 GGGTTCGCATATTAATTTATCA
86250323 GGGTTCGCATATTAATTTATCA
1 GGGTTCGCATATTAATTTATCA
*
86250345 GGGTTTGCATATTAATT
1 GGGTTCGCATATTAATT
86250362 AAGTAGGGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (22 bp):
GGGTTCGCATATTAATTTATCA
Found at i:86251546 original size:32 final size:31
Alignment explanation
Indices: 86251482--86251547 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
86251472 CCTAAAACTT
* * *
86251482 TTAATTCTAATTATTTTAATATTTTATTTAA
1 TTAATTCTAATTATTTTAATATCTAATCTAA
86251513 TTAATTACTAATTA-TTTAATTATCTAATCTAA
1 TTAATT-CTAATTATTTTAA-TATCTAATCTAA
86251545 TTA
1 TTA
86251548 CGGGCTCTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 11 0.37
32 19 0.63
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAATTCTAATTATTTTAATATCTAATCTAA
Found at i:86256017 original size:3 final size:3
Alignment explanation
Indices: 86256005--86256049 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
86255995 TATTAGATTA
*
86256005 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
86256050 AATAAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:86256214 original size:25 final size:25
Alignment explanation
Indices: 86256186--86256233 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
86256176 AGATAAAAAG
*
86256186 TATATTATAAATTAAATTAAATTAT
1 TATATTATAAAATAAATTAAATTAT
*
86256211 TATATTATAAAATAAATTGAATT
1 TATATTATAAAATAAATTAAATT
86256234 GTAACAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TATATTATAAAATAAATTAAATTAT
Found at i:86256905 original size:44 final size:44
Alignment explanation
Indices: 86256820--86256911 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
86256810 TGTTCAGAGA
* *
86256820 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGACACTATAAGTGTAGTACTGT
**
86256864 TACTTCGA-CTTCGAGTCGATGAGACACCT-TGTGTGTAGTACTGT
1 TACTTCGACCTT-GAGTCGATGAGACA-CTATAAGTGTAGTACTGT
86256908 TACT
1 TACT
86256912 GTTACTTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 3 0.07
44 37 0.88
45 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGACACTATAAGTGTAGTACTGT
Found at i:86258771 original size:21 final size:21
Alignment explanation
Indices: 86258742--86258781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
86258732 ACATTCATCC
*
86258742 ATAAAAATTTTAACTTGACCT
1 ATAAAAATTTCAACTTGACCT
*
86258763 ATAATAATTTCAACTTGAC
1 ATAAAAATTTCAACTTGAC
86258782 ACGTGGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAAAAATTTCAACTTGACCT
Found at i:86260102 original size:23 final size:22
Alignment explanation
Indices: 86260074--86260134 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
86260064 AAAAATATTT
*
86260074 TTAAAATAATATTTATTATTTTG
1 TTAAAATAATATTT-TTATTTCG
*
86260097 TTAAAATAATGATTTTTGTTTCG
1 TTAAAATAAT-ATTTTTATTTCG
*
86260120 TT-AAAGAATATTTTT
1 TTAAAATAATATTTTT
86260135 TTTATAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 6 0.18
23 18 0.53
24 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (22 bp):
TTAAAATAATATTTTTATTTCG
Found at i:86265305 original size:19 final size:19
Alignment explanation
Indices: 86265283--86265336 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
86265273 AAAACTAAGA
86265283 TAAAAACTAAAATTAAAAT-
1 TAAAAA-TAAAATTAAAATG
*
86265302 TAAAAATAATAAATAAAATG
1 TAAAAATAA-AATTAAAATG
*
86265322 AAAAAAATAAAATTA
1 -TAAAAATAAAATTA
86265337 TCGACACTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 4 0.14
21 8 0.28
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAAAATAAAATTAAAATG
Found at i:86266173 original size:11 final size:11
Alignment explanation
Indices: 86266149--86266179 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
86266139 GACTTACAAC
86266149 ACATTTATACAT
1 ACATTTA-ACAT
86266161 ACATTTAACAT
1 ACATTTAACAT
86266172 ACATTTAA
1 ACATTTAA
86266180 TCAAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (11 bp):
ACATTTAACAT
Found at i:86270100 original size:93 final size:93
Alignment explanation
Indices: 86269988--86270159 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
86269978 CGCCCATAAG
* *
86269988 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86270053 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
86270081 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
86270146 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
86270160 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:86270156 original size:46 final size:46
Alignment explanation
Indices: 86269981--86270156 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
86269971 TGTAACCCGC
* * *
86269981 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
86270027 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
86270077 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
86270120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
86270157 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Done.