Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 62 of 74
Found at i:12320921 original size:20 final size:19
Alignment explanation
Indices: 12320874--12320927 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
12320864 AACTTAATCC
*
12320874 AAAATTTTTATTTTAATAT
1 AAAATTATTATTTTAATAT
**
12320893 ATAGTTTATTATTTTAATAAT
1 A-AAATTATTATTTTAAT-AT
*
12320914 AAAATTATGATTTT
1 AAAATTATTATTTT
12320928 GCATTTAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.04
20 23 0.85
21 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
AAAATTATTATTTTAATAT
Found at i:12322063 original size:17 final size:18
Alignment explanation
Indices: 12322043--12322086 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
12322033 AAAGCTTTTT
*
12322043 ACAAGAAAAAGA-AAAAC
1 ACAAGAAAAAAAGAAAAC
12322060 ACAAGACAAAAAAGAAAAC
1 ACAAGA-AAAAAAGAAAAC
*
12322079 AAAAGAAA
1 ACAAGAAA
12322087 GAGAGATCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.77, C:0.11, G:0.11, T:0.00
Consensus pattern (18 bp):
ACAAGAAAAAAAGAAAAC
Found at i:12322703 original size:17 final size:17
Alignment explanation
Indices: 12322681--12322720 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12322671 TTAAAAAATA
12322681 TTTTTAAAATTTTATTT
1 TTTTTAAAATTTTATTT
** *
12322698 TTTTTAAGTTTTTTTTT
1 TTTTTAAAATTTTATTT
12322715 TTTTTA
1 TTTTTA
12322721 TAAAATTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTTAAAATTTTATTT
Found at i:12323332 original size:20 final size:20
Alignment explanation
Indices: 12323307--12323346 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12323297 TTTACCATAA
12323307 TGTATGTTGTAACCAAATGG
1 TGTATGTTGTAACCAAATGG
12323327 TGTATGTTGTAACCAAATGG
1 TGTATGTTGTAACCAAATGG
12323347 CATCATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (20 bp):
TGTATGTTGTAACCAAATGG
Found at i:12323750 original size:17 final size:18
Alignment explanation
Indices: 12323724--12323758 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
12323714 TAGTTATATG
12323724 TTTTTATTAATTTTTATA
1 TTTTTATTAATTTTTATA
12323742 TTTTT-TTAATTTTTATA
1 TTTTTATTAATTTTTATA
12323759 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTAATTTTTATA
Found at i:12323969 original size:52 final size:52
Alignment explanation
Indices: 12323881--12323985 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
12323871 TGGACAAGAA
* *
12323881 GACTTACAAAAGAAGAATTTCAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAAAGAAGAATTTAAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
* * *
12323933 GACTTGCAAGAGAAGAATTATAAA-AGGAAAGA-GATTCTTAATGGGCAAGTTT
1 GACTTACAAAAGAAGAATT-TAAAGA-GAAAGAGGATTCTTAATAGGCAAGTTT
12323985 G
1 G
12323986 TATGGTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 37 0.80
53 9 0.20
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTTAAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:12324303 original size:90 final size:90
Alignment explanation
Indices: 12324150--12324324 Score: 332
Period size: 90 Copynumber: 1.9 Consensus size: 90
12324140 TGAGAGGGTT
*
12324150 CACATAGGTATGATGCATGGGAACATATGGATATGTGTTTGGTTGTATTGAAAAGGTGTACAAGA
1 CACATAGGTATGATGCATGGGAACATATGGATATGTGTTTGGTTGTATTGAAAAGGTGCACAAGA
12324215 GTTTGGGTTTGTGTTTGTTTAGGTC
66 GTTTGGGTTTGTGTTTGTTTAGGTC
*
12324240 CACATAGGTATGATGTATGGGAACATATGGATATGTGTTTGGTTGTATTGAAAAGGTGCACAAGA
1 CACATAGGTATGATGCATGGGAACATATGGATATGTGTTTGGTTGTATTGAAAAGGTGCACAAGA
12324305 GTTTGGGTTTGTGTTTGTTT
66 GTTTGGGTTTGTGTTTGTTT
12324325 GGGTAGAGAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (90 bp):
CACATAGGTATGATGCATGGGAACATATGGATATGTGTTTGGTTGTATTGAAAAGGTGCACAAGA
GTTTGGGTTTGTGTTTGTTTAGGTC
Found at i:12328454 original size:2 final size:2
Alignment explanation
Indices: 12328447--12328487 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
12328437 ATAGAACTGG
12328447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12328488 GTAGTTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12333533 original size:22 final size:22
Alignment explanation
Indices: 12333473--12333542 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
12333463 AGTTATATTA
*
12333473 ATTTACTATTAAGTT-TTCAATG
1 ATTTACTACTAAGTTATTC-ATG
* *
12333495 ATTAACAACTTAA-TTATTCATG
1 ATTTACTAC-TAAGTTATTCATG
*
12333517 ATTTACTACTAAGTTATTTATG
1 ATTTACTACTAAGTTATTCATG
12333539 ATTT
1 ATTT
12333543 TTTAATTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.08
22 30 0.77
23 6 0.15
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAGTTATTCATG
Found at i:12334017 original size:22 final size:22
Alignment explanation
Indices: 12333992--12334140 Score: 127
Period size: 22 Copynumber: 6.8 Consensus size: 22
12333982 TTTATCCACG
*
12333992 ATTTAATATTAATTTATAAATA
1 ATTTACTATTAATTTATAAATA
* *
12334014 ATTTACCATTAAATTATAAATA
1 ATTTACTATTAATTTATAAATA
* *
12334036 ATTTACTATTAAGTTATAAATG
1 ATTTACTATTAATTTATAAATA
* * **
12334058 ATTTACTTTTAAATTATTGATA
1 ATTTACTATTAATTTATAAATA
** * * *
12334080 ATTTACTATCGAGTTATTAATT
1 ATTTACTATTAATTTATAAATA
* * * * *
12334102 ATTTATTATAAATTTATTACTT
1 ATTTACTATTAATTTATAAATA
12334124 ATTTACTATTAATTTAT
1 ATTTACTATTAATTTAT
12334141 CGATTACATA
Statistics
Matches: 103, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 103 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAATTTATAAATA
Found at i:12334018 original size:44 final size:44
Alignment explanation
Indices: 12333970--12334074 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 44
12333960 GAAATCAATG
* ** * *
12333970 ATTTACTACTAATTTATCCACGATTTAATATTAATTTATAAATA
1 ATTTACTACTAAATTATAAACAATTTAATATTAAGTTATAAATA
* * * * *
12334014 ATTTACCATTAAATTATAAATAATTTACTATTAAGTTATAAATG
1 ATTTACTACTAAATTATAAACAATTTAATATTAAGTTATAAATA
**
12334058 ATTTACTTTTAAATTAT
1 ATTTACTACTAAATTAT
12334075 TGATAATTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.47
Consensus pattern (44 bp):
ATTTACTACTAAATTATAAACAATTTAATATTAAGTTATAAATA
Found at i:12334202 original size:22 final size:22
Alignment explanation
Indices: 12334176--12334309 Score: 69
Period size: 22 Copynumber: 6.2 Consensus size: 22
12334166 TAATTAACTA
*
12334176 ATTTACTATTAAATTATCATTG
1 ATTTACTACTAAATTATCATTG
* * * * *
12334198 ATTTACAACTAAGTTATTAGTA
1 ATTTACTACTAAATTATCATTG
* * * *
12334220 ATTTATTACCATATTAT-TTGTG
1 ATTTACTACTAAATTATCAT-TG
* * *
12334242 ATTTAGTATTAAGTTATCA---
1 ATTTACTACTAAATTATCATTG
* * *
12334261 ATTTATTACTAAATTATCAATA
1 ATTTACTACTAAATTATCATTG
* *
12334283 ATTTACTCCTAAATTATCAATG
1 ATTTACTACTAAATTATCATTG
12334305 ATTTA
1 ATTTA
12334310 GTATTGTATT
Statistics
Matches: 81, Mismatches: 26, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
19 16 0.20
22 65 0.80
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTACTAAATTATCATTG
Found at i:12334330 original size:22 final size:20
Alignment explanation
Indices: 12334305--12334369 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
12334295 ATTATCAATG
* *
12334305 ATTTAGTATTGTATTATTATTT
1 ATTTAATATT-TATTATT-TTA
*
12334327 ATTTACTATTATATTATTTTA
1 ATTTAATATT-TATTATTTTA
12334348 ATTTAATATTTATT-TTTTA
1 ATTTAATATTTATTATTTTA
12334367 ATT
1 ATT
12334370 ATTTACTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 8 0.21
20 4 0.10
21 11 0.28
22 16 0.41
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTAATATTTATTATTTTA
Found at i:12334367 original size:19 final size:19
Alignment explanation
Indices: 12334318--12334369 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
12334308 TAGTATTGTA
* *
12334318 TTATTATTT-ATTTACTAT
1 TTATTTTTTAATTTAATAT
12334336 TATATTATTTTAATTTAATAT
1 T-TATT-TTTTAATTTAATAT
12334357 TTATTTTTTAATT
1 TTATTTTTTAATT
12334370 ATTTACTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 7 0.24
21 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTTAATTTAATAT
Found at i:12334473 original size:22 final size:22
Alignment explanation
Indices: 12334448--12334498 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
12334438 AATACTCTAT
* *
12334448 TAATTTACTTTTAAATTTTCAA
1 TAATTTACTTCTAAATTATCAA
*
12334470 TAATTAACTTCTAAATTATCAA
1 TAATTTACTTCTAAATTATCAA
*
12334492 TTATTTA
1 TAATTTA
12334499 TCATTAAGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTTACTTCTAAATTATCAA
Found at i:12334602 original size:22 final size:22
Alignment explanation
Indices: 12334577--12334663 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 22
12334567 ACCAAAATTG
12334577 ATTTACTATCAAATTATCACTA
1 ATTTACTATCAAATTATCACTA
* * * *
12334599 ATTTACAATTAAGTT-TCTATTA
1 ATTTACTATCAAATTATC-ACTA
* * *
12334621 ATTTATTA-CTAAATTATCATTG
1 ATTTACTATC-AAATTATCACTA
* *
12334643 ATTAACTATCAAGTTATCACT
1 ATTTACTATCAAATTATCACT
12334664 TTTTTTTTAA
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
21 2 0.04
22 43 0.90
23 3 0.06
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTTACTATCAAATTATCACTA
Found at i:12334788 original size:15 final size:15
Alignment explanation
Indices: 12334776--12334808 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12334766 TCAATTATTG
12334776 ACTATTAAATTATCA
1 ACTATTAAATTATCA
*
12334791 ACTATTAAGTTAT-A
1 ACTATTAAATTATCA
12334805 ACTA
1 ACTA
12334809 ATTTATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (15 bp):
ACTATTAAATTATCA
Found at i:12336773 original size:30 final size:30
Alignment explanation
Indices: 12336721--12336778 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
12336711 TTTATTTGGA
* *
12336721 TGCAAATTAAAATTTAAGGGTTTTTTTAAG
1 TGCAAATTAAAAGTTAAGGGTTTATTTAAG
12336751 TGCAAATTAAAAGTTATA-GGTTTATTTA
1 TGCAAATTAAAAGTTA-AGGGTTTATTTA
12336779 GATACAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (30 bp):
TGCAAATTAAAAGTTAAGGGTTTATTTAAG
Found at i:12337943 original size:32 final size:33
Alignment explanation
Indices: 12337901--12337964 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
12337891 TCTGTTTAAA
12337901 GATAATTTTTTTTATTAAACCTCTATTTTAATT
1 GATAATTTTTTTTATTAAACCTCTATTTTAATT
12337934 GATAA-TTTTTTTATTAAACCTCTATTTTAAT
1 GATAATTTTTTTTATTAAACCTCTATTTTAAT
12337965 ACACTACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (33 bp):
GATAATTTTTTTTATTAAACCTCTATTTTAATT
Found at i:12339719 original size:26 final size:26
Alignment explanation
Indices: 12339669--12339719 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
12339659 TATCAATTTA
* * *
12339669 TTTATTTGAATTTTTTTTATGAAAGT
1 TTTAATTGAATTGTTTATATGAAAGT
*
12339695 TTTAATTGAATTGTTTATATTAAAG
1 TTTAATTGAATTGTTTATATGAAAG
12339720 AACTTCACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (26 bp):
TTTAATTGAATTGTTTATATGAAAGT
Found at i:12344534 original size:32 final size:33
Alignment explanation
Indices: 12344498--12344577 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 33
12344488 GTTAAACTTT
12344498 TTGTTAATTTTTGTTGG-ATTTTTTGTTTAGTA
1 TTGTTAATTTTTGTTGGTATTTTTTGTTTAGTA
* *
12344530 TTGTTAATTTTTGTTGGTTTTTTTTTTTTTAGTA
1 TTGTTAATTTTTGTTGG-TATTTTTTGTTTAGTA
12344564 TTGTTGAATATTTT
1 TTGTT-AAT-TTTT
12344578 TATTTGTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 17 0.40
34 18 0.43
35 3 0.07
36 4 0.10
ACGTcount: A:0.15, C:0.00, G:0.16, T:0.69
Consensus pattern (33 bp):
TTGTTAATTTTTGTTGGTATTTTTTGTTTAGTA
Found at i:12346638 original size:23 final size:23
Alignment explanation
Indices: 12346585--12346652 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 23
12346575 CTTTCAAGAA
*
12346585 TTTTTTTTT-ATTTTTTTTC-CT
1 TTTTTTTTTCACTTTTTTTCTCT
* *
12346606 TATTTCTTTCACTTTTTTTCTCT
1 TTTTTTTTTCACTTTTTTTCTCT
*
12346629 TTTTTTTTTCTGCCTTTTTTTCTC
1 TTTTTTTTTC--ACTTTTTTTCTC
12346653 CAACTCCCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 7 0.19
22 9 0.24
23 10 0.27
25 11 0.30
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTTTTTTTCACTTTTTTTCTCT
Found at i:12352123 original size:13 final size:14
Alignment explanation
Indices: 12352094--12352140 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
12352084 GGCTTTTTTA
*
12352094 AAATATAAATAAAT
1 AAATAAAAATAAAT
12352108 AAATAAAAAT-AAT
1 AAATAAAAATAAAT
* *
12352121 AAATAATAAACAAAG
1 AAATAA-AAATAAAT
12352136 AAATA
1 AAATA
12352141 TTAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 9 0.32
14 12 0.43
15 7 0.25
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:12352222 original size:12 final size:12
Alignment explanation
Indices: 12352187--12352224 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
12352177 AGCTCTTTGC
*
12352187 ATTATTATTGCT
1 ATTATTATTGTT
12352199 ATTATTATTTGTT
1 ATTATTA-TTGTT
12352212 ATTATTATTGTT
1 ATTATTATTGTT
12352224 A
1 A
12352225 CTGATACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (12 bp):
ATTATTATTGTT
Found at i:12358566 original size:24 final size:24
Alignment explanation
Indices: 12358537--12358584 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
12358527 ATTTTGAAAG
12358537 AAAAAGGG-AAAAAAGTAAAAAAAA
1 AAAAAGGGAAAAAAAG-AAAAAAAA
12358561 AAAAAGGGAAAAAAAGAAAAAAAA
1 AAAAAGGGAAAAAAAGAAAAAAAA
12358585 TTGATCCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAAAGGGAAAAAAAGAAAAAAAA
Found at i:12359084 original size:14 final size:14
Alignment explanation
Indices: 12359065--12359140 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 14
12359055 AAGAAAAAAC
12359065 AAAAAGAAGAATGA
1 AAAAAGAAGAATGA
* *
12359079 AAAAAGAATAGTGA
1 AAAAAGAAGAATGA
12359093 AAAAA-AAG-AT-A
1 AAAAAGAAGAATGA
*
12359104 TAAAAAGAAAGAAAGAA
1 -AAAAAG-AAGAATG-A
12359121 AAAAAGAAGAA--A
1 AAAAAGAAGAATGA
12359133 AAAAAGAA
1 AAAAAGAA
12359141 ATGAATGGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
11 1 0.02
12 15 0.29
13 2 0.04
14 20 0.39
15 6 0.12
16 6 0.12
17 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAAGAAGAATGA
Found at i:12359095 original size:27 final size:25
Alignment explanation
Indices: 12359054--12359141 Score: 72
Period size: 28 Copynumber: 3.3 Consensus size: 25
12359044 CCACTTAGTG
*
12359054 AAAGAAAAAACAAAAAGAAGAATGAAA
1 AAAGAAAGAA-AAAAAGAAGAAT-AAA
*
12359081 AAAGAATAGTGAAAAAA-AAGATATAAAAA
1 AAAGAA-AG-AAAAAAAGAAGA-AT--AAA
12359110 GAAAGAAAGAAAAAAAGAAGAA-AAA
1 -AAAGAAAGAAAAAAAGAAGAATAAA
12359135 AAAGAAA
1 AAAGAAA
12359142 TGAATGGGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
24 7 0.14
25 3 0.06
27 10 0.20
28 15 0.29
29 10 0.20
30 6 0.12
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (25 bp):
AAAGAAAGAAAAAAAGAAGAATAAA
Found at i:12359130 original size:15 final size:15
Alignment explanation
Indices: 12359053--12359137 Score: 50
Period size: 15 Copynumber: 5.7 Consensus size: 15
12359043 TCCACTTAGT
12359053 GAAAGAAAAAACAAAA
1 GAAAGAAAAAA-AAAA
**
12359069 -AGAAGAATGAAAAAA
1 GA-AAGAAAAAAAAAA
**
12359084 GAATAGTGAAAAAAAA
1 GAA-AGAAAAAAAAAA
* * *
12359100 GATA-TAAAAAGAAA
1 GAAAGAAAAAAAAAA
*
12359114 GAAAGAAAAAAAGAA
1 GAAAGAAAAAAAAAA
12359129 GAAA-AAAAA
1 GAAAGAAAAA
12359138 GAAATGAATG
Statistics
Matches: 52, Mismatches: 13, Indels: 10
0.69 0.17 0.13
Matches are distributed among these distances:
14 16 0.31
15 18 0.35
16 18 0.35
ACGTcount: A:0.76, C:0.01, G:0.16, T:0.06
Consensus pattern (15 bp):
GAAAGAAAAAAAAAA
Found at i:12360046 original size:22 final size:22
Alignment explanation
Indices: 12360011--12360123 Score: 97
Period size: 22 Copynumber: 5.1 Consensus size: 22
12360001 TGTAAAAATT
*
12360011 TAAG-CCAAATTTAGTGAGTACA
1 TAAGCCCAAA-TTAGTGAGCACA
*
12360033 TAAGCCCAAATTAGTGAGCACG
1 TAAGCCCAAATTAGTGAGCACA
*
12360055 TAAGCCCAAATTAGTTAGCACA
1 TAAGCCCAAATTAGTGAGCACA
* * ** *
12360077 TATGCCTAGTTTAACT-AGCACA
1 TAAGCCCAAATT-AGTGAGCACA
*
12360099 TAAGCCCAATTTAGTTG-GCACA
1 TAAGCCCAAATTAG-TGAGCACA
12360121 TAA
1 TAA
12360124 ACACAGATTA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.01
22 66 0.89
23 7 0.09
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (22 bp):
TAAGCCCAAATTAGTGAGCACA
Found at i:12360445 original size:33 final size:33
Alignment explanation
Indices: 12360407--12360555 Score: 124
Period size: 33 Copynumber: 4.5 Consensus size: 33
12360397 TTTATGCAAA
* *
12360407 TTTAATCCCAGTTTAACTGATACCCAATGAAAT
1 TTTAAGCCCAGTTTAACTGACACCCAATGAAAT
* * ** * *
12360440 TTTAATCCTAGTTTAGTTGGCA-CCAATGAAAA
1 TTTAAGCCCAGTTTAACTGACACCCAATGAAAT
* * * * *
12360472 TTTAAACCAAGTTTAGCTTACACCTAATGCAAA-
1 TTTAAGCCCAGTTTAACTGACACCCAATG-AAAT
*
12360505 TTTAAGCCCAGTTTAACT-AGCACCTAATGAAAT
1 TTTAAGCCCAGTTTAACTGA-CACCCAATGAAAT
*
12360538 TTTAAGCCTAGTTTAACT
1 TTTAAGCCCAGTTTAACT
12360556 AGCACTAACA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
32 30 0.31
33 63 0.66
34 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (33 bp):
TTTAAGCCCAGTTTAACTGACACCCAATGAAAT
Found at i:12360473 original size:65 final size:65
Alignment explanation
Indices: 12360372--12360555 Score: 156
Period size: 65 Copynumber: 2.8 Consensus size: 65
12360362 ACCCATGAAA
* * *** * * * *
12360372 AAATTTAAATCCAATTTAGTTGGCATTTATGCAAATTTAATCCCAGTTTAACTGATACCCAATG-
1 AAATTTTAATCCAGTTTAGTTGGCACCAATGAAAATTTAAACCAAGTTTAACTGACACCCAATGC
* * *
12360436 AAATTTTAATCCTAGTTTAGTTGGCACCAATGAAAATTTAAACCAAGTTTAGCTTACACCTAATG
1 AAATTTTAATCC-AGTTTAGTTGGCACCAATGAAAATTTAAACCAAGTTTAACTGACACCCAATG
12360501 C
65 C
* ** * * * *
12360502 AAA-TTTAAGCCCAGTTTAACTAGCACCTAATGAAATTTTAAGCCTAGTTTAACT
1 AAATTTTAA-TCCAGTTTAGTTGGCACC-AATGAAAATTTAAACCAAGTTTAACT
12360556 AGCACTAACA
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
64 11 0.11
65 58 0.60
66 27 0.28
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (65 bp):
AAATTTTAATCCAGTTTAGTTGGCACCAATGAAAATTTAAACCAAGTTTAACTGACACCCAATGC
Found at i:12360556 original size:33 final size:33
Alignment explanation
Indices: 12360432--12360617 Score: 182
Period size: 32 Copynumber: 5.7 Consensus size: 33
12360422 ACTGATACCC
* * * *
12360432 AATGAAATTTTAATCCTAGTTTAGTTGGCACC-
1 AATGAAAATTTAAGCCTAGTTTAGCTAGCACCT
* *
12360464 AATGAAAATTTAAACCAAGTTTAGCTTA-CACCT
1 AATGAAAATTTAAGCCTAGTTTAGC-TAGCACCT
* * *
12360497 AATGCAAATTTAAGCCCAGTTTAACTAGCACCT
1 AATGAAAATTTAAGCCTAGTTTAGCTAGCACCT
* *
12360530 AATGAAATTTTAAGCCTAGTTTAACTAGCA-CT
1 AATGAAAATTTAAGCCTAGTTTAGCTAGCACCT
** * * *
12360562 AACAAAAATTTAAGTCAAATTTAGCTAGCA-CT
1 AATGAAAATTTAAGCCTAGTTTAGCTAGCACCT
*
12360594 AATGAAAATTTAAGACTAGTTTAG
1 AATGAAAATTTAAGCCTAGTTTAG
12360618 TTAACATGCA
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
32 73 0.57
33 54 0.43
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (33 bp):
AATGAAAATTTAAGCCTAGTTTAGCTAGCACCT
Found at i:12360570 original size:98 final size:97
Alignment explanation
Indices: 12360370--12360616 Score: 257
Period size: 98 Copynumber: 2.5 Consensus size: 97
12360360 ACACCCATGA
* * * * * *
12360370 AAAAATTTAAATCC-AATTTAGTTGGCATTTATGCAAATTTAATCCCAGTTTAACTGATACCCAA
1 AAAAATTTAAA-CCAAATTTAGCTAGCACTAATGCAAATTTAAGCCCAGTTTAACTGACACCCAA
* ** * *
12360434 TGAAATTTTAATCCTAGTTTAGTTGGCACCAAT
65 TGAAATTTTAAGCCTAGTTTAACTAGCACCAAC
* * *
12360467 GAAAATTTAAACCAAGTTTAGCTTA-CACCTAATGCAAATTTAAGCCCAGTTTAACT-AGCACCT
1 AAAAATTTAAACCAAATTTAGC-TAGCA-CTAATGCAAATTTAAGCCCAGTTTAACTGA-CACCC
*
12360530 AATGAAATTTTAAGCCTAGTTTAACTAGCACTAAC
63 AATGAAATTTTAAGCCTAGTTTAACTAGCACCAAC
** * * *
12360565 AAAAATTTAAGTCAAATTTAGCTAGCACTAATGAAAATTTAAGACTAGTTTA
1 AAAAATTTAAACCAAATTTAGCTAGCACTAATGCAAATTTAAGCCCAGTTTA
12360617 GTTAACATGC
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
96 2 0.02
97 43 0.35
98 78 0.63
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (97 bp):
AAAAATTTAAACCAAATTTAGCTAGCACTAATGCAAATTTAAGCCCAGTTTAACTGACACCCAAT
GAAATTTTAAGCCTAGTTTAACTAGCACCAAC
Found at i:12361790 original size:17 final size:17
Alignment explanation
Indices: 12361758--12361790 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12361748 AAATTTTAAA
*
12361758 AATAAGATAATAAAAAT
1 AATAAGATAAAAAAAAT
12361775 AATAAGATAAAAAAAA
1 AATAAGATAAAAAAAA
12361791 CTTTTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAGATAAAAAAAAT
Found at i:12362111 original size:38 final size:38
Alignment explanation
Indices: 12362031--12362111 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
12362021 ATAAATTCAT
* * * ** *
12362031 AAAATCCTAAATCCTAAGTGAAACTTGAAACTTTAAAT
1 AAAACCCTAAATCCTAAATGAAACTCGAAACCCTAAAC
*
12362069 AAAACCCTAAATCTTAAATGAAACTCGAAACCCTAAAC
1 AAAACCCTAAATCCTAAATGAAACTCGAAACCCTAAAC
12362107 AAAAC
1 AAAAC
12362112 TTTAAAACTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.22
Consensus pattern (38 bp):
AAAACCCTAAATCCTAAATGAAACTCGAAACCCTAAAC
Found at i:12362379 original size:30 final size:30
Alignment explanation
Indices: 12362340--12362396 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12362330 ATTTATATAT
* * *
12362340 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
12362370 ATATTTATATTTAAAAAATAATATTTT
1 ATATATATATTTAAAAAATAATATTTT
12362397 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:12362418 original size:22 final size:21
Alignment explanation
Indices: 12362369--12362421 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
12362359 GATATTTTTA
12362369 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12362389 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
12362410 AATATTTT-TATT
1 AATATTTTATATT
12362422 AATTTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 8 0.25
21 24 0.75
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:12362781 original size:7 final size:7
Alignment explanation
Indices: 12362769--12362806 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
12362759 TTCAACAAGG
12362769 AATAAGA
1 AATAAGA
12362776 AATAAGA
1 AATAAGA
*
12362783 AATAAAA
1 AATAAGA
12362790 AATAA-A
1 AATAAGA
12362796 AATGAAGA
1 AAT-AAGA
12362804 AAT
1 AAT
12362807 GAAATCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 4 0.14
7 20 0.71
8 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (7 bp):
AATAAGA
Found at i:12366931 original size:20 final size:20
Alignment explanation
Indices: 12366906--12366957 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
12366896 TATCCATACA
12366906 AAAATATCATGCAATAATAT
1 AAAATATCATGCAATAATAT
*
12366926 AAAATATCATGTAATAATAT
1 AAAATATCATGCAATAATAT
**
12366946 AAGGTATCATGC
1 AAAATATCATGC
12366958 CAAATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAATATCATGCAATAATAT
Found at i:12366995 original size:20 final size:20
Alignment explanation
Indices: 12366951--12367034 Score: 91
Period size: 20 Copynumber: 4.2 Consensus size: 20
12366941 AATATAAGGT
*
12366951 ATCATGCCAAATAT-TAATT-
1 ATCATG-CAAATATATTATTA
* *
12366970 ACCATGCAAATAGATTATTA
1 ATCATGCAAATATATTATTA
* *
12366990 ATCATGCAAGTATATTACTA
1 ATCATGCAAATATATTATTA
*
12367010 ATCATACAAATATATTATTA
1 ATCATGCAAATATATTATTA
12367030 ATCAT
1 ATCAT
12367035 ATAAATCATA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 6 0.11
19 9 0.17
20 38 0.72
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATCATGCAAATATATTATTA
Found at i:12370238 original size:19 final size:19
Alignment explanation
Indices: 12370189--12370240 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
12370179 TCATAAACAA
** *
12370189 ATTATATTATTATTATATT
1 ATTATATTAAAATTAAATT
**
12370208 ATTATAAAAAAATTAAATT
1 ATTATATTAAAATTAAATT
12370227 ATTATATTAAAATT
1 ATTATATTAAAATT
12370241 TAGATTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATATTAAAATTAAATT
Found at i:12371587 original size:53 final size:53
Alignment explanation
Indices: 12371452--12371587 Score: 141
Period size: 53 Copynumber: 2.6 Consensus size: 53
12371442 TTTTTAAAAT
* *
12371452 TTAAGAAAAAAATGATATTTTAACTTTTTT-TTAATCATTTAAAAAATTTATC
1 TTAAGAAAAAATTGATATTTTAACTTTTTTCTTAATCATTTAAAAAACTTATC
* * * * ** * * *
12371504 TTAA-AGAAAATTTGATATTTCAAATGTTTTCTTAATTTTTTTAATAACTTATG
1 TTAAGA-AAAAATTGATATTTTAACTTTTTTCTTAATCATTTAAAAAACTTATC
*
12371557 TTAAGAAAAAATTGATATTTTACCTTTTTTC
1 TTAAGAAAAAATTGATATTTTAACTTTTTTC
12371588 CCTAACATTT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
51 1 0.02
52 23 0.35
53 40 0.62
54 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (53 bp):
TTAAGAAAAAATTGATATTTTAACTTTTTTCTTAATCATTTAAAAAACTTATC
Found at i:12371638 original size:54 final size:54
Alignment explanation
Indices: 12371557--12371660 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
12371547 ATAACTTATG
* * * *
12371557 TTAAGAAAAAATTGATATTTTACCTTTTTTCCCTAACATTTTTCAAAATTTTGTC
1 TTAAGAAAAAATTGATATATAAACTTTTAT-CCTAACATTTTTCAAAATTTTGTC
* * **
12371612 TTAA-AAAAAATTTATATATAAACTTTTATCTTTTCATTTTTCAAAATTT
1 TTAAGAAAAAATTGATATATAAACTTTTATCCTAACATTTTTCAAAATTT
12371661 GGTTTTTTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
53 17 0.41
54 20 0.49
55 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.49
Consensus pattern (54 bp):
TTAAGAAAAAATTGATATATAAACTTTTATCCTAACATTTTTCAAAATTTTGTC
Found at i:12371684 original size:17 final size:17
Alignment explanation
Indices: 12371647--12371684 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12371637 TTATCTTTTC
**
12371647 ATTTTTCAAAATTTGGT
1 ATTTTTCAAAATTTCCT
12371664 -TTTTTCAAAATTTCCT
1 ATTTTTCAAAATTTCCT
12371680 ATTTT
1 ATTTT
12371685 AAATAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (17 bp):
ATTTTTCAAAATTTCCT
Found at i:12373153 original size:12 final size:12
Alignment explanation
Indices: 12373136--12373173 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12373126 ATAATAATTT
12373136 ATTAATTTATAA
1 ATTAATTTATAA
12373148 ATTAATTTAT-A
1 ATTAATTTATAA
*
12373159 ATTATATCTATAA
1 ATTA-ATTTATAA
12373172 AT
1 AT
12373174 GTATATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 5 0.22
12 15 0.65
13 3 0.13
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAATTTATAA
Found at i:12374765 original size:29 final size:30
Alignment explanation
Indices: 12374733--12374790 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
12374723 TTTATCTTCT
*
12374733 ATCAAATTTAAATTTAAAA-TTAAA-AAATA
1 ATCAAACTTAAA-TTAAAATTTAAATAAATA
*
12374762 ATCAAGCTTAAATTAAAATTTAAATAAAT
1 ATCAAACTTAAATTAAAATTTAAATAAAT
12374791 TTGAGCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 15 0.60
30 4 0.16
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
ATCAAACTTAAATTAAAATTTAAATAAATA
Found at i:12375099 original size:53 final size:53
Alignment explanation
Indices: 12375041--12375147 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 53
12375031 GAATTATATA
*
12375041 TTAATTATATATTAAAATTAATTATGAGATATAAAAATTCACATCATTTTTTT
1 TTAATTATATATTAAAATTAATCATGAGATATAAAAATTCACATCATTTTTTT
** * *
12375094 TTAATTATATATTAAAATTAATCATGTTATATAATAATTTACATCATTTTTTT
1 TTAATTATATATTAAAATTAATCATGAGATATAAAAATTCACATCATTTTTTT
12375147 T
1 T
12375148 GTAAAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (53 bp):
TTAATTATATATTAAAATTAATCATGAGATATAAAAATTCACATCATTTTTTT
Found at i:12380830 original size:81 final size:81
Alignment explanation
Indices: 12380695--12380857 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
12380685 ATGTTCTTTC
*
12380695 TGCCAGTCAAATTAGAGATTGCTACTAAGATGTTCCTAGATGATGGGTTCTTTGTATTTAAATTT
1 TGCCAGTCAAATTAGAGATTGCTACTAAGATGTTCCTAGATGATGAGTTCTTTGTATTTAAATTT
12380760 ATCATAACAGTTTTTT
66 ATCATAACAGTTTTTT
12380776 TGCCAGTCAAATTAGAGATTGCTACTAAGATGTTCCTAGATGATGAGTTCTTTGTATTTAAATTT
1 TGCCAGTCAAATTAGAGATTGCTACTAAGATGTTCCTAGATGATGAGTTCTTTGTATTTAAATTT
12380841 ATCATAACAGTTTTTT
66 ATCATAACAGTTTTTT
12380857 T
1 T
12380858 CATGTTTTAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (81 bp):
TGCCAGTCAAATTAGAGATTGCTACTAAGATGTTCCTAGATGATGAGTTCTTTGTATTTAAATTT
ATCATAACAGTTTTTT
Found at i:12390393 original size:2 final size:2
Alignment explanation
Indices: 12390386--12390411 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12390376 TTATCTAAAA
12390386 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
12390412 TAGTTTGCTA
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):
AT
Found at i:12396069 original size:14 final size:15
Alignment explanation
Indices: 12396050--12396078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12396040 CGGGTTTTCA
12396050 AATTA-GCTTTGAAT
1 AATTAGGCTTTGAAT
12396064 AATTAGGCTTTGAAT
1 AATTAGGCTTTGAAT
12396079 TGATTTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (15 bp):
AATTAGGCTTTGAAT
Found at i:12402143 original size:39 final size:40
Alignment explanation
Indices: 12402083--12402158 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 40
12402073 AGGTGATACA
12402083 CATTTCAAGTCATCTTTAACACCAATAAT-AGATGATCTAC
1 CATTTCAAGTCATCTTTAACACCAATAATGA-ATGATCTAC
* *
12402123 CATTTCGA-TCAT-TTTCAACACTAATAATGAATGATC
1 CATTTCAAGTCATCTTT-AACACCAATAATGAATGATC
12402159 CATTGTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
38 3 0.09
39 21 0.66
40 8 0.25
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (40 bp):
CATTTCAAGTCATCTTTAACACCAATAATGAATGATCTAC
Found at i:12403569 original size:160 final size:160
Alignment explanation
Indices: 12403387--12403902 Score: 522
Period size: 160 Copynumber: 3.2 Consensus size: 160
12403377 TGTATTATGC
* * *
12403387 TTGTTGATGAACTACTTTTATAGTAATTGAAAGCTTTATATGGTGTATAAGAAATTTTTTATTAA
1 TTGTTGATGAACTACTTTTATAGTAATTGAAAGCCTTATATGGTGTATAA-AAATTCTTTATTGA
* *
12403452 ACTAAATAATATATTGTGTATATTGCGATGTAATGACTTTGTGAAAGGTGAAAACTATCACATAT
65 ACTAAATAGTATATTGTGTATATTGCGATGTAATGACTTTGTGAAAGGTGAAAACTATTACATAT
*
12403517 TTTGCTTTGTAAAGAT-GTTGTATATTGCAA
130 TTTGCTTTGTAAAGATAGCTGTATATTGCAA
* * *
12403547 TTGTTGATAAACTACTTTTATAGTAATTGAAAACCTTATATGGTGTATATTAAATTCTTTATTGA
1 TTGTTGATGAACTACTTTTATAGTAATTGAAAGCCTTATATGGTGTATA-AAAATTCTTTATTGA
* * * * **
12403612 ACTAGAA-AGTATATTGTTTGTATGGTGATGTAATGACTTTGTGAAAAGGTGAAAACTATTATGT
65 ACTA-AATAGTATATTGTGTATATTGCGATGTAATGACTTTGTG-AAAGGTGAAAACTATTACAT
* ** * **
12403676 ATTTTGCTTTATGGAGATAGCTGTGTATTGTGA
128 ATTTTGCTTTGTAAAGATAGCTGTATATTGCAA
* * * * * **
12403709 TTGTTGATGAGCTACTTTTATAGTAATTCAAAGCCTAAAAT-TTGT-GGAAAATTCTTTATTGAA
1 TTGTTGATGAACTACTTTTATAGTAATTGAAAGCCTTATATGGTGTATAAAAATTCTTTATTGAA
* * * * * * * * *
12403772 CTAGATAGTACATTGTGTATTTTGCAATGCAATGACTTTGTAAAAGATGAAAATTATTGCATATT
66 CTAAATAGTATATTGTGTATATTGCGATGTAATGACTTTGTGAAAGGTGAAAACTATTACATATT
** *** * **
12403837 TTGCTTTGCGATTCTCA-TTGTATATTGTGA
131 TTGCTTTGTAAAGAT-AGCTGTATATTGCAA
*
12403867 TTGTTGATGAACTA-TCTTTATAGTAATTCAAAGCCT
1 TTGTTGATGAACTACT-TTTATAGTAATTGAAAGCCT
12403903 AAAAATTATC
Statistics
Matches: 294, Mismatches: 55, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
157 1 0.00
158 72 0.24
159 46 0.16
160 93 0.32
161 37 0.13
162 45 0.15
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (160 bp):
TTGTTGATGAACTACTTTTATAGTAATTGAAAGCCTTATATGGTGTATAAAAATTCTTTATTGAA
CTAAATAGTATATTGTGTATATTGCGATGTAATGACTTTGTGAAAGGTGAAAACTATTACATATT
TTGCTTTGTAAAGATAGCTGTATATTGCAA
Found at i:12403872 original size:158 final size:156
Alignment explanation
Indices: 12403387--12403987 Score: 509
Period size: 158 Copynumber: 3.8 Consensus size: 156
12403377 TGTATTATGC
* * * * * * *
12403387 TTGTTGATGAACTACTTTTATAGTAATTGAAAGCTTTATATGGTGTATAAGAAATTTTTTATTAA
1 TTGTTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAATGGTGTA-AATAAATTCTTTATTGA
* * * *
12403452 ACTAAATAATATATTGTGTATATTGCGATGTAATGACTTTGTGAAAGGTGAAAACTATCACATAT
65 ACTAGATAGTATATTGTGTATATTGC-ATGTAATGACTTTGTAAAAGGTGAAAACTATTACATAT
* * **
12403517 TTTGCTTTGTAAAGATGTTGTATATTGCAA
129 TTTGCTTTG--GAGATATTGTATATTGTGA
* * * * * *
12403547 TTGTTGATAAACTACTTTTATAGTAATTGAAAACCTTATATGGTGTATATTAAATTCTTTATTGA
1 TTGTTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAATGGTGTA-AATAAATTCTTTATTGA
* ** **
12403612 ACTAGAAAGTATATTGTTTGTATGGTG-ATGTAATGACTTTGTGAAAAGGTGAAAACTATTATGT
65 ACTAGATAGTATATTG--TGTATATTGCATGTAATGACTTTGT-AAAAGGTGAAAACTATTACAT
* *
12403676 ATTTTGCTTTATGGAGATAGCTGTGTATTGTGA
127 ATTTTGC-TT-TGGAGATA-TTGTATATTGTGA
* * **
12403709 TTGTTGATGAGCTACTTTTATAGTAATTCAAAGCCTAAAAT-TTGTGGA-AAATTCTTTATTGAA
1 TTGTTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAATGGTGTAAATAAATTCTTTATTGAA
* * * * * *
12403772 CTAGATAGTACATTGTGTATTTTGCAATGCAATGACTTTGTAAAAGATGAAAATTATTGCATATT
66 CTAGATAGTATATTGTGTATATTGC-ATGTAATGACTTTGTAAAAGGTGAAAACTATTACATATT
**
12403837 TTGCTTTGCGATTCTCATTGTATATTGTGA
130 TTGCTTTG-GA-GAT-ATTGTATATTGTGA
* * *
12403867 TTGTTGATGAACTA-TCTTTATAGTAATTCAAAGCCTAAAAAT--TATCAA-AAATT-TAGTATT
1 TTGTTGATGAACTACT-TTTATAGTAATTCAAAGCCT-AAAATGGTGTAAATAAATTCT-TTATT
* * * ** * *
12403927 GAACTAGATAGTGTTTTATGCGTATTG-AGTTGTAATGACTTTGTAAAAAGTGTAAACTATT
63 GAACTAGATAGTATATTGTGTATATTGCA--TGTAATGACTTTGTAAAAGGTGAAAACTATT
12403988 GTGTATTCAA
Statistics
Matches: 362, Mismatches: 63, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
156 3 0.01
157 13 0.04
158 126 0.35
159 48 0.13
160 86 0.24
161 31 0.09
162 53 0.15
163 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (156 bp):
TTGTTGATGAACTACTTTTATAGTAATTCAAAGCCTAAAATGGTGTAAATAAATTCTTTATTGAA
CTAGATAGTATATTGTGTATATTGCATGTAATGACTTTGTAAAAGGTGAAAACTATTACATATTT
TGCTTTGGAGATATTGTATATTGTGA
Found at i:12404958 original size:15 final size:15
Alignment explanation
Indices: 12404938--12404985 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12404928 TATAACACAA
12404938 TTATCGATGAAAAAT
1 TTATCGATGAAAAAT
* *
12404953 TTATCGATGGAATAT
1 TTATCGATGAAAAAT
*
12404968 TTA-CTGATGAAAATT
1 TTATC-GATGAAAAAT
12404983 TTA
1 TTA
12404986 ATTTACCAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (15 bp):
TTATCGATGAAAAAT
Found at i:12406113 original size:20 final size:20
Alignment explanation
Indices: 12406088--12406127 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12406078 ATCATTAAAT
12406088 TTAATTATATA-ATTAATTAA
1 TTAATTATA-AGATTAATTAA
*
12406108 TTAATTTTAAGATTAATTAA
1 TTAATTATAAGATTAATTAA
12406128 ATGTCATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTAATTATAAGATTAATTAA
Found at i:12406499 original size:19 final size:19
Alignment explanation
Indices: 12406475--12406511 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12406465 AGAAGCAAGT
* *
12406475 TTTGAAGAATTGAAAAAAA
1 TTTGAAAAACTGAAAAAAA
12406494 TTTGAAAAACTGAAAAAA
1 TTTGAAAAACTGAAAAAA
12406512 CAAAACATTT
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:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (19 bp):
TTTGAAAAACTGAAAAAAA
Found at i:12411733 original size:3 final size:3
Alignment explanation
Indices: 12411725--12411769 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
12411715 TACCTCTAAC
12411725 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12411770 GATGTTGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12414532 original size:16 final size:16
Alignment explanation
Indices: 12414508--12414542 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12414498 ATACAAGCCC
*
12414508 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
*
12414524 ATACTAATTGTTAAAG
1 ATACCAATTGTTAAAG
12414540 ATA
1 ATA
12414543 TGTCATCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:12421760 original size:19 final size:17
Alignment explanation
Indices: 12421715--12421764 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 17
12421705 ACCAGTTTGA
*
12421715 TTTAAAATTATTTATGC
1 TTTAAAAATATTTATGC
12421732 TTTAAAAATATTTATGC
1 TTTAAAAATATTTATGC
12421749 TTTATCAAAATATTTA
1 TTTA--AAAATATTTA
12421765 ATATTGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 20 0.67
19 10 0.33
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (17 bp):
TTTAAAAATATTTATGC
Found at i:12422374 original size:11 final size:11
Alignment explanation
Indices: 12422358--12422383 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12422348 AATAAAATTG
12422358 AAAATCAAAAT
1 AAAATCAAAAT
12422369 AAAATCAAAAT
1 AAAATCAAAAT
12422380 AAAA
1 AAAA
12422384 AATAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATCAAAAT
Found at i:12422385 original size:18 final size:19
Alignment explanation
Indices: 12422337--12422389 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
12422327 AAAAATCAGT
*
12422337 AAAATGAAATAAATAAAATTG
1 AAAAT-AAA-AAATAAAATTC
*
12422358 AAAAT-CAAAATAAAA-TC
1 AAAATAAAAAATAAAATTC
12422375 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
12422390 TAAAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 16 0.57
19 1 0.04
21 5 0.18
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (19 bp):
AAAATAAAAAATAAAATTC
Found at i:12422416 original size:14 final size:11
Alignment explanation
Indices: 12422376--12422400 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12422366 AATAAAATCA
12422376 AAATAAAAAAT
1 AAATAAAAAAT
12422387 AAATAAAAAAT
1 AAATAAAAAAT
12422398 AAA
1 AAA
12422401 ATCCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:12423218 original size:3 final size:3
Alignment explanation
Indices: 12423193--12423284 Score: 57
Period size: 3 Copynumber: 32.0 Consensus size: 3
12423183 AAAAAAGGGG
* * * *
12423193 ATA A-A ATA A-A ATA A-A AT- ATA ATA ATA ATA ATA ATG ATG ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
12423237 ATG ATG GTG ATA ATA ATA ATA ATA ATA AGA ATA AGA ATA AGA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12423285 GTATATTATA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 8 0.11
3 67 0.89
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:12423692 original size:37 final size:37
Alignment explanation
Indices: 12423620--12423730 Score: 109
Period size: 37 Copynumber: 3.0 Consensus size: 37
12423610 ATAAAACCAC
* * * *
12423620 AAGTCAAGAAAATGATCTGGGCTGAGCCATA-ATCAAA
1 AAGTCAGGAAAATGATCTAGACTAAGCCA-AGATCAAA
* *
12423657 AAG-CTAGGAAAATGATTTAGACTAAGCCGAGATCAAA
1 AAGTC-AGGAAAATGATCTAGACTAAGCCAAGATCAAA
* * *
12423694 AAGTCAGGAAGATGATCTGGACTGAGCCAAGATCAAA
1 AAGTCAGGAAAATGATCTAGACTAAGCCAAGATCAAA
12423731 TGATCGGGAC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
36 2 0.03
37 57 0.95
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (37 bp):
AAGTCAGGAAAATGATCTAGACTAAGCCAAGATCAAA
Found at i:12424039 original size:121 final size:120
Alignment explanation
Indices: 12423914--12424271 Score: 382
Period size: 121 Copynumber: 3.0 Consensus size: 120
12423904 GGATAACCGG
* * * *
12423914 GATGAAACCACAAGTCTAATAGATAAAATGACTAGGACTGAGTCGAGGACGAAGATGAATGACTA
1 GATGAAACCACAAGTCTAAAAGATAAAGTGACTAAGACTGAGTCGAGGTCGAAGATGAATGACTA
* *
12423979 GAACAAAATCTCAAGTCAAAAAAATGATATAGACTGAGTCGAGATCGAATGATCGA
66 GAA-AAAATCTCAAGTCAAAAAAATGATCTAGACTAAGTCGAGATCGAATGATCGA
* * * * ** *
12424035 GATGAAACTACAAGTCTAAAAGATATAGTAACCAAGACCAAGTCGAGGTCGAAGATGAATGA-TC
1 GATGAAACCACAAGTCTAAAAGATAAAGTGACTAAGACTGAGTCGAGGTCGAAGATGAATGACTA
* * * *
12424099 GAAATGAAA-CTAAGAGTCAAGAAAATGATCTAGACTAAATCGAGATTGAATGATCGA
66 GAAA--AAATCTCA-AGTCAAAAAAATGATCTAGACTAAGTCGAGATCGAATGATCGA
** * * *
12424156 GACAAAATCACGAA-TCTAAAAGATAAAGTGATTAAGACTGAGTCGAGGTCAAAGATGAATGATC
1 GATGAAACCAC-AAGTCTAAAAGATAAAGTGACTAAGACTGAGTCGAGGTCGAAGATGAATGA-C
* * * * * *
12424220 AAGATAAAATCACAAGTCAAAAAAATAATCTGGACTAAGCCGAGATC-AATGA
64 TAGAAAAAATCTCAAGTCAAAAAAATGATCTAGACTAAGTCGAGATCGAATGA
12424272 GTGATAAATG
Statistics
Matches: 191, Mismatches: 39, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
119 1 0.01
120 12 0.06
121 171 0.90
122 4 0.02
123 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (120 bp):
GATGAAACCACAAGTCTAAAAGATAAAGTGACTAAGACTGAGTCGAGGTCGAAGATGAATGACTA
GAAAAAATCTCAAGTCAAAAAAATGATCTAGACTAAGTCGAGATCGAATGATCGA
Found at i:12431048 original size:3 final size:3
Alignment explanation
Indices: 12431031--12431099 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
12431021 GGGGAATAAG
12431031 ATA A-A ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12431076 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
12431100 TTATTATTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.10
3 57 0.90
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:12431245 original size:20 final size:19
Alignment explanation
Indices: 12431040--12431276 Score: 87
Period size: 18 Copynumber: 12.7 Consensus size: 19
12431030 GATAAAATAA
* *
12431040 AATAATAATAATAATA-AT
1 AATAATAATTATACTATAT
*
12431058 AATAATAATAATA--ATAT
1 AATAATAATTATACTATAT
* *
12431075 AATAATAATAATAATA-AT
1 AATAATAATTATACTATAT
*
12431093 AATAAT-ATTATTATTAT-T
1 AATAATAATTA-TACTATAT
* * *
12431111 ATTATTATATTATACCATAT
1 AATAATA-ATTATACTATAT
*
12431131 AATAAT-A-TACCAC-AT-T
1 AATAATAATTA-TACTATAT
* *
12431147 AAT-ACAATAATAC-A-AT
1 AATAATAATTATACTATAT
12431163 AAT-ATGATATGCTATACTATATT
1 AATAAT-A-AT--TATACTATA-T
*
12431186 ATATACTATAATGATACTA-AT
1 A-ATA--ATAATTATACTATAT
12431207 AATAAT-ATTATA-T-TAT
1 AATAATAATTATACTATAT
12431223 AATAATACATTATACTATAT
1 AATAATA-ATTATACTATAT
*
12431243 AATAACATATTATACTATAGT
1 AATAATA-ATTATACTATA-T
*
12431264 AATAATAAATATA
1 AATAATAATTATA
12431277 ATAATAACAA
Statistics
Matches: 170, Mismatches: 20, Indels: 56
0.69 0.08 0.23
Matches are distributed among these distances:
15 1 0.01
16 23 0.14
17 29 0.17
18 43 0.25
19 6 0.04
20 41 0.24
21 10 0.06
22 2 0.01
23 8 0.05
24 2 0.01
25 2 0.01
26 1 0.01
27 2 0.01
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (19 bp):
AATAATAATTATACTATAT
Found at i:12432361 original size:48 final size:48
Alignment explanation
Indices: 12432305--12432401 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
12432295 GTGTGCACCA
* * *
12432305 ATGCATCATACTTATGTGAACCCTTTCAATC-TCTTCTAGTCCACTCAC
1 ATGCATCATACCTATATGAACCCTCTCAATCTTCTT-TAGTCCACTCAC
* * *
12432353 ATGCATCATACCTATATGGACTCTCTCAGTCTTCTTTAGTCCACTCAC
1 ATGCATCATACCTATATGAACCCTCTCAATCTTCTTTAGTCCACTCAC
12432401 A
1 A
12432402 AACATACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 38 0.90
49 4 0.10
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (48 bp):
ATGCATCATACCTATATGAACCCTCTCAATCTTCTTTAGTCCACTCAC
Found at i:12433842 original size:870 final size:868
Alignment explanation
Indices: 12432054--12434399 Score: 2588
Period size: 870 Copynumber: 2.7 Consensus size: 868
12432044 GGTAAAAAGT
12432054 CTCAATCTAATCAAA-ATCCAAGCCAGCGGAAGCAAAATCAAACAATCAATCAATCACACAAGAG
1 CTCAATCTAATCAAACATCCAAGCCAGCGGAAGCAAAATCAAACAATCAATCAATCACACAAGAG
** * * * *
12432118 ACAGTAATTTAACGTAGTTCAATCTAA-TCAACTTACATCCATAAATAAGAAAAAAGATCCACTA
66 ACA-TAATTTAACGTAGTTTGATCTAACT-AACCTACATCTACAAATGAGAAAAAAGATCCACTA
* * * * * *
12432182 GTTGTAGAAAATTACATTAAAACATTAAAACAACCACTCACAATTAATAC-CTATAGACTCTCTT
129 GTTGTAGAAAATTACA-TCAAACATCAAAATAACCACTCATAAATAATACTC-ATAGACTCTCTC
* * * *
12432246 AATCTCTTTTAGTCTTATGGAG-ATTCTTAACCCAAACAAATACATACTCGTGTGCACCAATGCA
192 AATCTCTTTTAGTCCTATGGAGTATTCTCAACCCAAACAAATACATACTCATGTGCACCAATGTA
* * * *
12432310 TCATACTTATGTGAACCCT-TTCAATCTCTTCTAGTCCACTCACATGCATCATACCTATATGGAC
257 TTATACCTATGTGAACCCTCTT-AATCTCTTCTAGTCTACTCACATGCATCATACCTATGTGGAC
* * * * * * **
12432374 TCTCTCAGTCTTCTT-TAGTCCACTCACAAACATACAAACATACACACTTC-TAAGACATAAATC
321 TCTCTCAG-CCTCTTCTAGTCTACTCACAAACATACAAATATATATAC-CCATAAGATGTAAATC
* * * * * * *
12432437 TCTAATAATCTTATGGGGTGTCTATCTTATAAAATCTTATAACTCTTTTACATCTTTTTCTCAAA
384 TCCAATAGTCTTATGGGGTGTCTATCATATAAAACCTTACAACTCTCTTACATCTTTTTCTCATA
* * * *
12432502 CCTAACCCTATAGAGACTTCACCTATTTATAAACATATAAACTTTCTTGTTAAAAATCTTTTTCC
449 CCTAACCCTATAGAGACTTCACCTATTTATAAGCATACAAACTTACTTG-TCAAAATCTTTTTCC
* * *
12432567 TCTTAAAATTCTTATTCTACAAGTCTTCTTATCCATCAAGTAATATCTAGTCAATCTCAAACAAA
513 TCTTAGAATTCTTATTCTGCAAGTCTTCTTATCCATCAAGTAATATCTAGCCAATCTCAAACAAA
* * ** *
12432632 TCTCTTATAGGATTTGAGTCACTATTTTTAACAATCTTCACCTTGACTCAAATTCTATCAAATTA
578 TCTCTTATAAGATTTGAGTCATTATTCCTAACAATCTTCACCTTGACTCAAATTCTATCAAATCA
* * * * * **
12432697 TTTATCTTCATGCTAGACATGCTTAGCTCCACCTGTAATAAAAGTCTCGTGACAATTTTTTTTTA
643 TCTATCTTCATGCTAAACATGCTTAGCTCCACCTGTAATAAAAGTCTCATAACAATTCTTCCTTA
* *
12432762 TGTATCTCCACACTTCACGTAAACCAATCTATCAAAGTATGAACTCAAACTCCTCACTTGAATCG
708 TGTATCTCCACACTTCACATAAACCAATCTATCAAAGTATGAACTCAAACTCCTCACTTGAATCA
* * * *** *
12432827 AGCTATTCTAGACTTGCCTTTTCCTATACCTCGAACCTCTAGCTCTTTTTATGTCATGAACCTTC
773 AACTATTCTAGACTTACCTTTTCCCATACCTCGAACCTCTAGCTCTTCCCACGTCATGAACCTTC
*
12432892 AACTCTGATATCACTTACTAGGTGAAAAAAC
838 AACTCTGATACCACTTACTAGGTGAAAAAAC
* * * *
12432923 C-CTAATCCAATCAAACATCTAAACCAGCAGAAGCAAAATCAAACAATCAATCAATCACACAAGA
1 CTC-AATCTAATCAAACATCCAAGCCAGCGGAAGCAAAATCAAACAATCAATCAATCACACAAGA
* ** * * * *
12432987 GATCATAATTTAACGTGGTTTGGCCCAACTAACCTGCATCTACAGATGAGAAAAAAAATCCACTA
65 GA-CATAATTTAACGTAGTTTGATCTAACTAACCTACATCTACAAATGAGAAAAAAGATCCACTA
*
12433052 GTTGTAAAAAATTACATCAATACATCAAAATAACCACTCATAAATAATACTCATAGACTCTCTCA
129 GTTGTAGAAAATTACATCAA-ACATCAAAATAACCACTCATAAATAATACTCATAGACTCTCTCA
** * * * *
12433117 ATCTCTTTTAGTCCTATAAAGTATTCTCAACCCAAACAAATACATACTTATGTACACCCATATAT
193 ATCTCTTTTAGTCCTATGGAGTATTCTCAACCCAAACAAATACATACTCATGTGCACCAATGTAT
* * ** * * * **
12433182 TATACCTATATGGATTCTCTTAATCTCTTCTAGTTTACTCACATGCACCATACTTATGTAAAC-C
258 TATACCTATGTGAACCCTCTTAATCTCTTCTAGTCTACTCACATGCATCATACCTATGTGGACTC
* * * * *
12433246 TTCTTAGCCTCTTCTAGTCTACTTATAAATATACAAATATATATACCCATAAGGTGTAAATCTCC
323 -TCTCAGCCTCTTCTAGTCTACTCACAAACATACAAATATATATACCCATAAGATGTAAATCTCC
* * * * * * * *
12433311 ATTAGTCTTTTGGGGTATTTATCATATTAAACCTTCCAACTCTCTTACATCTTATTCTCATAGCT
387 AATAGTCTTATGGGGTGTCTATCATATAAAACCTTACAACTCTCTTACATCTTTTTCTCATACCT
* *
12433376 AA-CCTCATAAAGACTTCACCTATTTATAAGCATACAAACTTACTTGTCAAGAAT-TCTTTTCTT
452 AACCCT-ATAGAGACTTCACCTATTTATAAGCATACAAACTTACTTGTCAA-AATCT-TTTTCCT
* * * * *
12433439 CTTAGAATT-TTTTTTTGTAAGTCTTCTTGTCCATCAAGTAATATCTAGCCAATCTCAAATAAAT
514 CTTAGAATTCTTATTCTGCAAGTCTTCTTATCCATCAAGTAATATCTAGCCAATCTCAAACAAAT
*
12433503 CTCTTATAAGATTTGAG-CATTTATTCCTAACAATC-TCTACCTTGACTCAAATTTTATCAAATC
579 CTCTTATAAGATTTGAGTCA-TTATTCCTAACAATCTTC-ACCTTGACTCAAATTCTATCAAATC
* * * * **
12433566 ATCTATTTTTATGTTAAACATGCTTGGCTCCACCTGTAATGTAAGTCTCATAACAA-TCTTCCTT
642 ATCTATCTTCATGCTAAACATGCTTAGCTCCACCTGTAATAAAAGTCTCATAACAATTCTTCCTT
* ** * * * * * * * *
12433630 ATGTGTCTTTACCCTTCATATAAATCGATTTATCAAAGTATGAATTCGAACTCTTCACTTGAATC
707 ATGTATCTCCACACTTCACATAAACCAATCTATCAAAGTATGAACTCAAACTCCTCACTTGAATC
* * * *
12433695 AAACTTTTCTAGACTTACTTTTTCCCATATCTTGAACCTCTAGCTCTTCCCACGT-ATTGAACCT
772 AAACTATTCTAGACTTACCTTTTCCCATACCTCGAACCTCTAGCTCTTCCCACGTCA-TGAACCT
* * *
12433759 TCAACTTTGATACCACTT-GTTGG-G-AAAAAC
836 TCAACTCTGATACCACTTACTAGGTGAAAAAAC
* * * * * *
12433789 CTCAATTTAATCAAACATCCAAGCCAACGGAAACAAAATCAAACAATCAATCAATTACATAAGAT
1 CTCAATCTAATCAAACATCCAAGCCAGCGGAAGCAAAATCAAACAATCAATCAATCACACAAGAG
* * * * *
12433854 ACAATAATTTAACATCGTTTGATATAACTAACCTACAT-TCACAAATGAGAAAAATGATCTACTA
66 AC-ATAATTTAACGTAGTTTGATCTAACTAACCTACATCT-ACAAATGAGAAAAAAGATCCACTA
** * * *
12433918 GTTACAGAGAATTACATCAAAGCATCAAAATAGCCAC-C-TACAATTAATACTCATA-AATCCTC
129 GTTGTAGAAAATTACATCAAA-CATCAAAATAACCACTCATA-AA-TAATACTCATAGACT-CTC
* * * * *
12433980 TCAATCT-TCTCTAATCCTATGGAGTATTCTCAACCCAAACTAACACATAC-CATGTGCACTAAT
190 TCAATCTCT-TTTAGTCCTATGGAGTATTCTCAACCCAAACAAATACATACTCATGTGCACCAAT
* * * * * * **
12434043 GTATTATACCTATGTGAACCCTCTCAGTCTCCTCTAATCTATTTACATATATCATACCTATGTGG
254 GTATTATACCTATGTGAACCCTCTTAATCTCTTCTAGTCTACTCACATGCATCATACCTATGTGG
** *
12434108 ACTCTCTCAATCTCTTCTAGT-TAACTCACAAACATACAAATATATATACCCATAAGTTGTAAAT
319 ACTCTCTCAGCCTCTTCTAGTCT-ACTCACAAACATACAAATATATATACCCATAAGATGTAAAT
* * * * ** *
12434172 TTCCAGTGGTCTTATGGTGTGTCTATCCCATAAAACCTTACAACTCTCTTATAT-TTTTTCTCAT
383 CTCCAATAGTCTTATGGGGTGTCTATCATATAAAACCTTACAACTCTCTTACATCTTTTTCTCAT
* * * *
12434236 ACCTAACCCTGTAGAGACTTAATCTATTTATAAGCATACAAACTTACTTTTCAATAATCTTTTTC
448 ACCTAACCCTATAGAGACTTCACCTATTTATAAGCATACAAACTTACTTGTCAA-AATCTTTTTC
* * * *
12434301 CTCTTAGAATTCTTATTCTGCAAGTTTTCTTATCTATCAAGCAATATCTAGCCAATCCCAAACAA
512 CTCTTAGAATTCTTATTCTGCAAGTCTTCTTATCCATCAAGTAATATCTAGCCAATCTCAAACAA
*
12434366 ATCTCTTAT-TGAATTTGAGTCATTATTCCTAACA
577 ATCTCTTATAAG-ATTTGAGTCATTATTCCTAACA
12434400 CTTACAACTA
Statistics
Matches: 1216, Mismatches: 229, Indels: 68
0.80 0.15 0.04
Matches are distributed among these distances:
864 75 0.06
865 236 0.19
866 197 0.16
867 2 0.00
868 5 0.00
869 143 0.12
870 321 0.26
871 235 0.19
872 2 0.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (868 bp):
CTCAATCTAATCAAACATCCAAGCCAGCGGAAGCAAAATCAAACAATCAATCAATCACACAAGAG
ACATAATTTAACGTAGTTTGATCTAACTAACCTACATCTACAAATGAGAAAAAAGATCCACTAGT
TGTAGAAAATTACATCAAACATCAAAATAACCACTCATAAATAATACTCATAGACTCTCTCAATC
TCTTTTAGTCCTATGGAGTATTCTCAACCCAAACAAATACATACTCATGTGCACCAATGTATTAT
ACCTATGTGAACCCTCTTAATCTCTTCTAGTCTACTCACATGCATCATACCTATGTGGACTCTCT
CAGCCTCTTCTAGTCTACTCACAAACATACAAATATATATACCCATAAGATGTAAATCTCCAATA
GTCTTATGGGGTGTCTATCATATAAAACCTTACAACTCTCTTACATCTTTTTCTCATACCTAACC
CTATAGAGACTTCACCTATTTATAAGCATACAAACTTACTTGTCAAAATCTTTTTCCTCTTAGAA
TTCTTATTCTGCAAGTCTTCTTATCCATCAAGTAATATCTAGCCAATCTCAAACAAATCTCTTAT
AAGATTTGAGTCATTATTCCTAACAATCTTCACCTTGACTCAAATTCTATCAAATCATCTATCTT
CATGCTAAACATGCTTAGCTCCACCTGTAATAAAAGTCTCATAACAATTCTTCCTTATGTATCTC
CACACTTCACATAAACCAATCTATCAAAGTATGAACTCAAACTCCTCACTTGAATCAAACTATTC
TAGACTTACCTTTTCCCATACCTCGAACCTCTAGCTCTTCCCACGTCATGAACCTTCAACTCTGA
TACCACTTACTAGGTGAAAAAAC
Found at i:12434544 original size:2 final size:2
Alignment explanation
Indices: 12434537--12434580 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
12434527 TGATGTATCA
* * * *
12434537 AT AT AT AT AT AT AT AT AT AT AT AT TT AC AC AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12434579 AT
1 AT
12434581 TAGTCTTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12440396 original size:141 final size:141
Alignment explanation
Indices: 12440142--12440423 Score: 510
Period size: 141 Copynumber: 2.0 Consensus size: 141
12440132 ATGTAAAATG
*
12440142 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTTCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
* **
12440207 AGAGCTTAGGTGCGACTGTTTATATTTAGGATCCCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCTTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
*
12440272 TATTTTTAATA
131 TATTATTAATA
12440283 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
12440348 AGAGCTTAGGTGCGACTGTTCATATTTAAAATCTCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCTTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
12440413 TATTATTAATA
131 TATTATTAATA
12440424 TGAATTATGA
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 135 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (141 bp):
AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCTTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
TATTATTAATA
Found at i:12441148 original size:27 final size:25
Alignment explanation
Indices: 12441109--12441162 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 25
12441099 GGTCTGACCG
12441109 GTTCGGCGGTTGGATCGACGGTTCA
1 GTTCGGCGGTTGGATCGACGGTTCA
*
12441134 GTTCGGTCTGGTTGGTTCGACGGTTCA
1 GTTCGG-C-GGTTGGATCGACGGTTCA
12441161 GT
1 GT
12441163 ACCGGTTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 19 0.73
ACGTcount: A:0.09, C:0.19, G:0.39, T:0.33
Consensus pattern (25 bp):
GTTCGGCGGTTGGATCGACGGTTCA
Found at i:12442181 original size:16 final size:16
Alignment explanation
Indices: 12442157--12442202 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
12442147 TGTTTACTTG
12442157 TTTTGTTTTTTTTCTA
1 TTTTGTTTTTTTTCTA
* *
12442173 TTTTATTTTTTTTCTT
1 TTTTGTTTTTTTTCTA
12442189 TTTTGTTTTGTTTT
1 TTTTGTTTT-TTTT
12442203 GTTAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTGTTTTTTTTCTA
Found at i:12442698 original size:147 final size:144
Alignment explanation
Indices: 12442369--12443083 Score: 965
Period size: 147 Copynumber: 4.9 Consensus size: 144
12442359 ACAGAAAAGG
* * *
12442369 GCTCCTCTTAGCAGAGGCTCATCAACTTTAAAATT-TCTTCTTGAAAAAGCTCCTTTCAACAGAG
1 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCT-TTCTTGAAAAAGCTCCTCTCAACAGAG
* * * *
12442433 GCTCCACAACTTTAAAATT-TCATTTTGGAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
65 GCTCCACAACTTTAAAATTCT-TTTTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAA
*
12442497 A-TTCTTTCTTGAAAAA
129 ATTTC-TTCTTGGAAAA
12442513 GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAG
1 -GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAG
* *
12442578 GCTCCACAACTTTAAAAATTCTTATTTCGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
65 GCTCCACAACTTT-AAAATTCTT-TTTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
12442643 AATTTCTTCTTGGAAAA
128 AATTTCTTCTTGGAAAA
* * * *
12442660 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATT-TCTTCTTGAAAAAGCTCCTTTCAATAGAG
1 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCT-TTCTTGAAAAAGCTCCTCTCAACAGAG
* *
12442724 GCTCCACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAA
65 GCTCCACAACTTTAAAATTCTTTTTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
*
12442789 TTCTTTCTTTTTGGAAAA
130 ---TTTCTTCTTGGAAAA
* *
12442807 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGGAAAAGCTCCTCTCAGCAGAGG
1 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
* * *
12442872 CTCAACGACTTTAAAA-TCTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAA
66 CTCCACAACTTTAAAATTCTTTT-TTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
*
12442936 TTCTTTCTTTTTGGAAAA
130 ---TTTCTTCTTGGAAAA
* * * *
12442954 GCTCTTCTCAGCAGAGGTTCAACAACTTTAAAATTCTTTCTTGGAAAAGCTCCTCTCAGCAGAGG
1 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
** * * *
12443019 CTTAACGACTTTAAAA-TCTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCATAACTTTAAAA
66 CTCCACAACTTTAAAATTCTTTT-TTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
12443083 T
130 T
12443084 CTCAGCTGTT
Statistics
Matches: 528, Mismatches: 31, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
144 40 0.08
145 82 0.16
146 83 0.16
147 319 0.60
148 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (144 bp):
GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAAGCTCCTCTCAACAGAGG
CTCCACAACTTTAAAATTCTTTTTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT
TTCTTCTTGGAAAA
Found at i:12443085 original size:48 final size:48
Alignment explanation
Indices: 12442369--12443083 Score: 888
Period size: 48 Copynumber: 14.7 Consensus size: 48
12442359 ACAGAAAAGG
* * *
12442369 GCTCCTCTTAGCAGAGGCTCATCAACTTTAAAATTTCTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTTGAAAAA
* * * *
12442417 GCTCCTTTCAACAGAGGCTCCACAACTTTAAAATTTCATT-TTGGAAAG
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
*
12442465 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
*
12442513 GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTCTTTCTTGAAAAA
1 -GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
* * * *
12442562 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTTATTTCGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTT-CTT-GAAAAA
*
12442612 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTTGAAAAA
*
12442660 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTTCTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTTGAAAAA
* * *
12442708 GCTCCTTTCAATAGAGGCTCCACAACTTTAAAA-TTCTTTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
* * *
12442756 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTTTCTTTTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAA---TTTCTTCTTGAAAAA
* *
12442807 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TTCTTTCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
* *
12442855 GCTCCTCTCAGCAGAGGCTCAACGACTTTAAAATCTT-TTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT-TTCTTCTTGAAAAA
* * *
12442903 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTTTCTTTTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAA---TTTCTTCTTGAAAAA
* * * *
12442954 GCTCTTCTCAGCAGAGGTTCAACAACTTTAAAA-TTCTTTCTTGGAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTC-TTCTTGAAAAA
* * *
12443002 GCTCCTCTCAGCAGAGGCTTAACGACTTTAAAATCTT-TTCTTGAAAAA
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT-TTCTTCTTGAAAAA
* *
12443050 GCTCCTCTCAACAGAGGCTCCATAACTTTAAAAT
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT
12443084 CTCAGCTGTT
Statistics
Matches: 592, Mismatches: 54, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
47 14 0.02
48 391 0.66
49 57 0.10
50 48 0.08
51 79 0.13
52 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (48 bp):
GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTCTTCTTGAAAAA
Found at i:12443085 original size:195 final size:191
Alignment explanation
Indices: 12442369--12443083 Score: 981
Period size: 195 Copynumber: 3.7 Consensus size: 191
12442359 ACAGAAAAGG
* * * * *
12442369 GCTCCTCTTAGCAGAGGCTCATCAACTTTAAAATT-TCTTCTTGAAAAAGCTCCTTTCAACAGAG
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCT-TTCTTGGAAAAGCTCCTCTCAACAGAG
* * *
12442433 GCTCCACAACTTTAAAATTTCATT-TTGGAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
65 GCTCAACAACTTTAAAATTTC-TTCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAA
*
12442497 ATTCTTTCTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAA
129 ATT-TTTCTTGAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAA
*
12442562 GCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATTCTTAT-TTCGGAAAAGCTCCTCTCAACAG
1 GCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATTCTT-TCTT-GGAAAAGCTCCTCTCAACAG
*
12442626 AGGCTCAACAACTTTAAAATTTCTTCTTGGAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAA
63 AGGCTCAACAACTTTAAAATTTCTTCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAA
* * *
12442691 AATTTCTTCTTGAAAAAGCTCCTTTCAATAGAGGCTCCACAACTTTAAAATTCTTTCTTGAAAAA
128 AATTT-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAA
* *
12442756 GCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTTTCTTTTTGGAAAAGCTCCTCTCAGCAG
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTC---TTGGAAAAGCTCCTCTCAACAG
* *
12442821 AGGCTCAACAACTTTAAAA-TTCTTTCTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTTA
63 AGGCTCAACAACTTTAAAATTTC-TTCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTA
* *
12442885 AAATCTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAATTCTTTCTTTTTGG
127 AAAT-TTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTC---TTGA
12442950 AAAA
188 AAAA
* * * *
12442954 GCTCTTCTCAGCAGAGGTTCAACAACTTTAAAATTCTTTCTTGGAAAAGCTCCTCTCAGCAGAGG
1 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTCTTGGAAAAGCTCCTCTCAACAGAGG
* * * * *
12443019 CTTAACGACTTTAAAATCTT-TTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCATAACTTTAAAA
66 CTCAACAACTTTAAAAT-TTCTTCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
12443083 T
130 T
12443084 CTCAGCTGTT
Statistics
Matches: 471, Mismatches: 34, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
192 1 0.00
193 34 0.07
194 87 0.18
195 300 0.64
196 4 0.01
197 2 0.00
198 43 0.09
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (191 bp):
GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTCTTGGAAAAGCTCCTCTCAACAGAGG
CTCAACAACTTTAAAATTTCTTCTTGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT
TTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTTTCTTGAAAAA
Found at i:12451481 original size:18 final size:18
Alignment explanation
Indices: 12451439--12451481 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12451429 ATTAATTTCC
* *
12451439 TTTATTT-AAAAAAATAT
1 TTTATTTAAAAAAAAAAA
*
12451456 TTTTTTTAAAAAAAAAAA
1 TTTATTTAAAAAAAAAAA
12451474 TTTATTTA
1 TTTATTTA
12451482 GGAATATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATTTAAAAAAAAAAA
Found at i:12451991 original size:140 final size:141
Alignment explanation
Indices: 12451738--12452018 Score: 501
Period size: 140 Copynumber: 2.0 Consensus size: 141
12451728 ATGTAAAATG
12451738 AAATGCAATTTAAGAGTTAGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTAGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
* * *
12451803 AGAGCTTAGGTGCGACTGTTTATATTTAAGATCCCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCCTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
*
12451868 TATTTTTAATA
131 TATTATTAATA
*
12451879 AAATGCAATTTAAGAGTTGGATTCTTAAATATAATGAGA-CACCCCGACTCTCCAACATCTAGGC
1 AAATGCAATTTAAGAGTTAGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
*
12451943 AGAGCCTAGGTGCGACTGTTCATATTTAAAATCTCAATTTTATTATACTTTTTATTTATTAATCT
66 AGAGCCTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
12452008 TATTATTAATA
131 TATTATTAATA
12452019 TGAATTATGA
Statistics
Matches: 134, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
140 96 0.72
141 38 0.28
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (141 bp):
AAATGCAATTTAAGAGTTAGATTCTTAAATATAATGAGACCACCCCGACTCTCCAACATCTAGGC
AGAGCCTAGGTGCGACTGTTCATATTTAAAATCCCAATTTTATTATACTTTTTATTTATTAATCT
TATTATTAATA
Found at i:12453731 original size:5 final size:5
Alignment explanation
Indices: 12453723--12453757 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
12453713 GTTTGTTTAC
* *
12453723 TTGTT TTGTT TTTTT TTTTT TTGTT TTGTT TTGTT
1 TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT TTGTT
12453758 AAATATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (5 bp):
TTGTT
Found at i:12453751 original size:25 final size:27
Alignment explanation
Indices: 12453703--12453757 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
12453693 GACTTCTTGC
12453703 TTTTTTTTTTGTTTGTTTACTTGTTTTG
1 TTTTTTTTTTGTTTGTTTA-TTGTTTTG
*
12453731 TTTTTTTTTTTTTTG-TT-TTGTTTTG
1 TTTTTTTTTTGTTTGTTTATTGTTTTG
12453756 TT
1 TT
12453758 AAATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.38
27 2 0.08
28 14 0.54
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (27 bp):
TTTTTTTTTTGTTTGTTTATTGTTTTG
Found at i:12454535 original size:2 final size:2
Alignment explanation
Indices: 12454528--12454560 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12454518 AAACCCACTT
12454528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12454561 TCTTCACATC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12457701 original size:16 final size:16
Alignment explanation
Indices: 12457681--12457737 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
12457671 CTAAACTTTT
12457681 CAAACCCTAAACCCTC
1 CAAACCCTAAACCCTC
* *
12457697 TAAACCCTAAA--ATC
1 CAAACCCTAAACCCTC
* * *
12457711 GAAATCTTAAACCCTC
1 CAAACCCTAAACCCTC
12457727 CAAACCCTAAA
1 CAAACCCTAAA
12457738 AACTAAAAAC
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
14 10 0.33
16 20 0.67
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.18
Consensus pattern (16 bp):
CAAACCCTAAACCCTC
Found at i:12457805 original size:29 final size:29
Alignment explanation
Indices: 12457719--12457803 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
12457709 TCGAAATCTT
*
12457719 AAACCCTCCAAACCCTAAAAACTAAAAACCCTA
1 AAACCCT--AAACCTTAAAAA--AAAAACCCTA
* * ***
12457752 AAACCTTAAACCTTTAAATTGAAACCCTA
1 AAACCCTAAACCTTAAAAAAAAAACCCTA
12457781 AAACCCTAAA-CTTAAAAAAAAAA
1 AAACCCTAAACCTTAAAAAAAAAA
12457804 ACTTTTAAAC
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
28 9 0.22
29 17 0.41
31 9 0.22
33 6 0.15
ACGTcount: A:0.54, C:0.27, G:0.01, T:0.18
Consensus pattern (29 bp):
AAACCCTAAACCTTAAAAAAAAAACCCTA
Found at i:12459641 original size:17 final size:17
Alignment explanation
Indices: 12459606--12459643 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
12459596 TCATATACTA
*
12459606 TACTTATTTTTTTTATT
1 TACTTATTTTTTATATT
12459623 TACTTATTTATTTAT-TT
1 TACTTATTT-TTTATATT
12459640 TACT
1 TACT
12459644 AACATTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (17 bp):
TACTTATTTTTTATATT
Found at i:12463820 original size:16 final size:16
Alignment explanation
Indices: 12463799--12463829 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12463789 TGGGTAATGA
12463799 AAAAGATGTAAGGATC
1 AAAAGATGTAAGGATC
*
12463815 AAAAGATGTATGGAT
1 AAAAGATGTAAGGAT
12463830 GAAGTGAGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
AAAAGATGTAAGGATC
Found at i:12470762 original size:35 final size:34
Alignment explanation
Indices: 12470671--12470765 Score: 95
Period size: 35 Copynumber: 2.8 Consensus size: 34
12470661 TTGACTCACG
12470671 GTTTAATCTTGATC-TTTTTATATTTTAACTTGCA
1 GTTTAATCTTGATCGTTTTTAT-TTTTAACTTGCA
* * ** *
12470705 GTTCAATCTTGGTCGTCGTTATTCTTTGACTTGCTA
1 GTTTAATCTTGATCGTTTTTATT-TTTAACTTGC-A
*
12470741 -TTTAATCTCGATCGTTTTTATTTTT
1 GTTTAATCTTGATCGTTTTTATTTTT
12470766 CTGGCTTGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
34 16 0.33
35 31 0.65
36 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.13, T:0.55
Consensus pattern (34 bp):
GTTTAATCTTGATCGTTTTTATTTTTAACTTGCA
Found at i:12470973 original size:35 final size:35
Alignment explanation
Indices: 12470934--12471169 Score: 111
Period size: 35 Copynumber: 6.7 Consensus size: 35
12470924 CTAGTTGTTG
** * *
12470934 TTATTCTCTAACTTGTGGTTTAGTCCCGGTCATTT
1 TTATTCTCTAACTCATGGTTTAATCCCGATCATTT
*
12470969 TTATTCTCTGACTCATGGTTTAATCCCGATCATTT
1 TTATTCTCTAACTCATGGTTTAATCCCGATCATTT
* * * * ** **
12471004 TTATAT-TTTAACTCACGATTCAATCTTTG-TCATCA
1 TTAT-TCTCTAACTCATGGTTTAATC-CCGATCATTT
* * * * *
12471039 TTATTCTTTGACTCACGATTTAATCTCGATCATTT
1 TTATTCTCTAACTCATGGTTTAATCCCGATCATTT
* * * ** * * **
12471074 TTATTTTTTTGACTCGCGATTCAATCCC-ATTCATCA
1 TTA-TTCTCTAACTCATGGTTTAATCCCGA-TCATTT
* * *
12471110 TTATTCTCTAACTCATGGTTCAAT-CCTAGTCATCT
1 TTATTCTCTAACTCATGGTTTAATCCCGA-TCATTT
* *
12471145 TTATTCTTTAACTCATGATTTAATC
1 TTATTCTCTAACTCATGGTTTAATC
12471170 TCAGTTGTTT
Statistics
Matches: 157, Mismatches: 36, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
34 5 0.03
35 123 0.78
36 29 0.18
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (35 bp):
TTATTCTCTAACTCATGGTTTAATCCCGATCATTT
Found at i:12471133 original size:106 final size:106
Alignment explanation
Indices: 12471012--12471228 Score: 260
Period size: 106 Copynumber: 2.0 Consensus size: 106
12471002 TTTTATATTT
* * *
12471012 TAACTCACGATTCAATCTTTGTCATCATTATTCTTTGACTCACGATTTAATCTC-GATCATTTTT
1 TAACTCACGATTCAATCCTAGTCATCATTATTCTTTAACTCACGATTTAATCTCAG-TCATTTTT
* *
12471076 ATTTTTTTGACTCG-CGATTCAATCCC-ATTCATCATTATTCTC
65 ATTCTTTTAACTCGTCGATT-AATCCCAATT-ATCATTATTCTC
* * * * **
12471118 TAACTCATGGTTCAATCCTAGTCATCTTTATTCTTTAACTCATGATTTAATCTCAGTTGTTTTTA
1 TAACTCACGATTCAATCCTAGTCATCATTATTCTTTAACTCACGATTTAATCTCAGTCATTTTTA
* * *
12471183 TTCTTTTAACTCGTGGCTTAATCCCAATTGTCATTATTCTC
66 TTCTTTTAACTCGTCGATTAATCCCAATTATCATTATTCTC
12471224 TAACT
1 TAACT
12471229 TGAGGTTTAG
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
106 87 0.93
107 7 0.07
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (106 bp):
TAACTCACGATTCAATCCTAGTCATCATTATTCTTTAACTCACGATTTAATCTCAGTCATTTTTA
TTCTTTTAACTCGTCGATTAATCCCAATTATCATTATTCTC
Found at i:12471148 original size:71 final size:72
Alignment explanation
Indices: 12470969--12471169 Score: 216
Period size: 71 Copynumber: 2.9 Consensus size: 72
12470959 CCGGTCATTT
**
12470969 TTATTCTCTGACTCATGGTTTAATCC-CGATCATTTTTA-TATTTTAACTCACGATTCAATCTTT
1 TTATTCTCTGACTCATGGTTTAATCCTCGATCATTTTTATTATTTTAACTCACGATTCAATCCAT
12471032 GTCATCA
66 GTCATCA
* * * * * *
12471039 TTATTCTTTGACTCACGATTTAAT-CTCGATCATTTTTATTTTTTTGACTCGCGATTCAATCCCA
1 TTATTCTCTGACTCATGGTTTAATCCTCGATCATTTTTATTATTTTAACTCACGATTCAAT-CCA
12471103 T-TCATCA
65 TGTCATCA
* * * * * * *
12471110 TTATTCTCTAACTCATGGTTCAATCCTAG-TCATCTTTATT-CTTTAACTCATGATTTAATC
1 TTATTCTCTGACTCATGGTTTAATCCTCGATCATTTTTATTATTTTAACTCACGATTCAATC
12471170 TCAGTTGTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
69 2 0.02
70 47 0.44
71 53 0.50
72 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (72 bp):
TTATTCTCTGACTCATGGTTTAATCCTCGATCATTTTTATTATTTTAACTCACGATTCAATCCAT
GTCATCA
Found at i:12471220 original size:36 final size:36
Alignment explanation
Indices: 12471145--12471222 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
12471135 CTAGTCATCT
* * * **
12471145 TTATTC-TTTAACTCATGATTTAATCTCAGTTGTTT
1 TTATTCTTTTAACTCATGACTTAATCCCAATTGTCA
* *
12471180 TTATTCTTTTAACTCGTGGCTTAATCCCAATTGTCA
1 TTATTCTTTTAACTCATGACTTAATCCCAATTGTCA
12471216 TTATTCT
1 TTATTCT
12471223 CTAACTTGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 6 0.17
36 29 0.83
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (36 bp):
TTATTCTTTTAACTCATGACTTAATCCCAATTGTCA
Found at i:12471433 original size:71 final size:67
Alignment explanation
Indices: 12471349--12471481 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 67
12471339 TTTAATCTTG
* * *
12471349 ATCATTGTTATTCTCTAACTAACTATTTAACTACGGTTGTTTTTATTTTTTTGACTCGCGGTTCA
1 ATCATCGTTATTCTCTAACTAACAATTTAA-T-C-CTTGTTTTT-TTTTTTTGACTCGCGGTTCA
12471414 ACACCA
62 ACACCA
* * * *
12471420 ATCATCGTTATTCTTTGACTAGCAATTTAATCCTTGTTTTTTTTTTTTGACTTGCGGTTCAA
1 ATCATCGTTATTCTCTAACTAACAATTTAATCCTTGTTTTTTTTTTTTGACTCGCGGTTCAA
12471482 TCCCAGCCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 20 0.36
68 8 0.15
69 1 0.02
70 1 0.02
71 25 0.45
ACGTcount: A:0.22, C:0.18, G:0.12, T:0.48
Consensus pattern (67 bp):
ATCATCGTTATTCTCTAACTAACAATTTAATCCTTGTTTTTTTTTTTTGACTCGCGGTTCAACAC
CA
Found at i:12471727 original size:69 final size:67
Alignment explanation
Indices: 12471634--12471821 Score: 196
Period size: 69 Copynumber: 2.7 Consensus size: 67
12471624 ATTATGATTG
* * * * *
12471634 TTTTTATATTGTGACTCATGGTTCAATCCTGATCATCATTCTTCTCTGACTTGTGGTTTACCCTT
1 TTTTTATATTTTGACTCAT-GTTCAATCCTGATCATCATTATTCTCTGACTTGAGGTTTAACC-G
12471699 ATCA
64 ATCA
* ** * * * *
12471703 TTTTTATATTTTGACTTATAGTTCAATCCTGGCCATCGTTATTCTCCGATTTGAGGTTTAATCGA
1 TTTTTATATTTTGACTCAT-GTTCAATCCTGATCATCATTATTCTCTGACTTGAGGTTTAACCGA
12471768 TCA
65 TCA
* ** *
12471771 TTTTTATTTTTTGACTCATGATTCAATCCCAATCATCATTATTCTTTGACT
1 TTTTTATATTTTGACTCATG-TTCAATCCTGATCATCATTATTCTCTGACT
12471822 CATAATTTAA
Statistics
Matches: 95, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
67 1 0.01
68 43 0.45
69 51 0.54
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (67 bp):
TTTTTATATTTTGACTCATGTTCAATCCTGATCATCATTATTCTCTGACTTGAGGTTTAACCGAT
CA
Found at i:12471806 original size:35 final size:35
Alignment explanation
Indices: 12471767--12472110 Score: 173
Period size: 35 Copynumber: 9.9 Consensus size: 35
12471757 GGTTTAATCG
* *
12471767 ATCATTTTTATTTTTTGACTCATGATTCAATCCCA
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* * * * *
12471802 ATCATCATTATTCTTTGACTCATAATTTAATCCCA
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* * * * * *
12471837 ATCGT-TTTTTTTTTCTAACT-TTCGATTTAATCTCA
1 ATCATCTTTATTTTT-TGACTCGT-GATTCAATCCCA
* ** ** *
12471872 ATCATTTTTATTTTTTGACTCGCCATTCAATTTCG
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* * *
12471907 ATCGTCTTTATTTTTTGACTCGTGGTTTAATCCCA
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* * *
12471942 GTCGTCTTTATTTTTTGACTCGTGATTCAAT-CTA
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* * * *
12471976 GATC-TCATTATTCTCTT-ACTCAT-AGTTCAATCCTA
1 -ATCATCTTTATT-TTTTGACTCGTGA-TTCAATCCCA
* * ** *
12472011 GTC-TCTTTATTTTTTTACTC-ACAGTTCAATCCTA
1 ATCATCTTTATTTTTTGACTCGTGA-TTCAATCCCA
* ** * * * * * *
12472045 GTTGTCATTATTTTCTGACTCATGGTTTAATCCTA
1 ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
* *
12472080 GTCGTCTTTATTTTTTGACTCGTGATTCAAT
1 ATCATCTTTATTTTTTGACTCGTGATTCAAT
12472111 TTTGATCCTT
Statistics
Matches: 240, Mismatches: 57, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
33 4 0.02
34 54 0.22
35 174 0.73
36 8 0.03
ACGTcount: A:0.22, C:0.20, G:0.09, T:0.49
Consensus pattern (35 bp):
ATCATCTTTATTTTTTGACTCGTGATTCAATCCCA
Found at i:12471900 original size:105 final size:107
Alignment explanation
Indices: 12471767--12471957 Score: 251
Period size: 105 Copynumber: 1.8 Consensus size: 107
12471757 GGTTTAATCG
**
12471767 ATCATTTTTATTTTTTGACTCATGATTCAATCCCAATCATCATTATTCTTTGACTCATAATTTAA
1 ATCATTTTTATTTTTTGACTCACCATTCAATCCCAATCATCATTATTCTTTGACTCATAATTTAA
12471832 TCCCAATCGT-TTT-TTTTTTCTAACTTTCGATTTAATCTCA
66 TCCCAATCGTCTTTATTTTTTCTAACTTTCGATTTAATCTCA
* ** * * * * * **
12471872 ATCATTTTTATTTTTTGACTCGCCATTCAATTTCGATCGTCTTTATTTTTTGACTCGTGGTTTAA
1 ATCATTTTTATTTTTTGACTCACCATTCAATCCCAATCATCATTATTCTTTGACTCATAATTTAA
*
12471937 TCCCAGTCGTCTTTATTTTTT
66 TCCCAATCGTCTTTATTTTTT
12471958 GACTCGTGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 62 0.87
106 3 0.04
107 6 0.08
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.51
Consensus pattern (107 bp):
ATCATTTTTATTTTTTGACTCACCATTCAATCCCAATCATCATTATTCTTTGACTCATAATTTAA
TCCCAATCGTCTTTATTTTTTCTAACTTTCGATTTAATCTCA
Found at i:12472125 original size:69 final size:69
Alignment explanation
Indices: 12471878--12472143 Score: 261
Period size: 69 Copynumber: 3.8 Consensus size: 69
12471868 CTCAATCATT
* * * * * *
12471878 TTTATTTTTTGACTCGCCATTCAATTTCGATCGTCTTTATTTTTTGACTCGTGGTTTAATCCCAG
1 TTTATTTTTTGACTCGTCATTCAATTTTGATC-TCATTATTTTCTGACTCATGGTTTAATCCTAG
12471943 TCGTC
65 TCGTC
* * * * * * *
12471948 TTTATTTTTTGACTCGTGATTCAATCTAGATCTCATTATTCTCTTACTCATAGTTCAATCCTAGT
1 TTTATTTTTTGACTCGTCATTCAATTTTGATCTCATTATTTTCTGACTCATGGTTTAATCCTAGT
12472013 C-TC
66 CGTC
* * * * * *
12472016 TTTATTTTTTTACTC-ACAGTTCAATCCTAGTTGTCATTATTTTCTGACTCATGGTTTAATCCTA
1 TTTATTTTTTGACTCGTCA-TTCAAT-TTTGATCTCATTATTTTCTGACTCATGGTTTAATCCTA
12472080 GTCGTC
64 GTCGTC
* * *
12472086 TTTATTTTTTGACTCGTGATTCAATTTTGATC-CTTTTATTTTCTAACTCACT-GTTTAA
1 TTTATTTTTTGACTCGTCATTCAATTTTGATCTC-ATTATTTTCTGACTCA-TGGTTTAA
12472144 CCTTGGTCTC
Statistics
Matches: 160, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
67 1 0.01
68 23 0.14
69 84 0.52
70 51 0.32
71 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (69 bp):
TTTATTTTTTGACTCGTCATTCAATTTTGATCTCATTATTTTCTGACTCATGGTTTAATCCTAGT
CGTC
Found at i:12472169 original size:138 final size:138
Alignment explanation
Indices: 12471914--12472179 Score: 342
Period size: 138 Copynumber: 1.9 Consensus size: 138
12471904 TCGATCGTCT
* *
12471914 TTATTTTTTGACTCGTGGTTTAATCCCAGTCGTCTTTATTTTTTGACTCGTGATTCAATCTAGAT
1 TTATTTTCTGACTCATGGTTTAATCCCAGTCGTCTTTATTTTTTGACTCGTGATTCAATCTAGAT
* * * * *
12471979 CTCATTATTCTCTTACTCATAGTTCAATCCTAGTCTCTTTATTTTTTTACTCACA-GTTCAATCC
66 CTCATTATTCTCTAACTCATAGTTCAATCCTAGTCTCGTTATTCTCTGACTCA-AGGTTCAATCC
12472043 TAGTTGTCA
130 TAGTTGTCA
* * *
12472052 TTATTTTCTGACTCATGGTTTAATCCTAGTCGTCTTTATTTTTTGACTCGTGATTCAATTTTGAT
1 TTATTTTCTGACTCATGGTTTAATCCCAGTCGTCTTTATTTTTTGACTCGTGATTCAATCTAGAT
* * * *
12472117 C-CTTTTATTTTCTAACTCACT-GTTTAA-CCTTGGTCTCGTTATTCTCTGACTCAAGGTTCAAT
66 CTC-ATTATTCTCTAACTCA-TAGTTCAATCC-TAGTCTCGTTATTCTCTGACTCAAGGTTCAAT
12472179 C
128 C
12472180 TCGGTCTCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
137 4 0.04
138 105 0.95
139 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.48
Consensus pattern (138 bp):
TTATTTTCTGACTCATGGTTTAATCCCAGTCGTCTTTATTTTTTGACTCGTGATTCAATCTAGAT
CTCATTATTCTCTAACTCATAGTTCAATCCTAGTCTCGTTATTCTCTGACTCAAGGTTCAATCCT
AGTTGTCA
Found at i:12472186 original size:34 final size:34
Alignment explanation
Indices: 12472148--12472216 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
12472138 GTTTAACCTT
*
12472148 GGTCTCGTTATTCTCTGACTCA-AGGTTCAATCTC
1 GGTCTCGTTATTCTCTGACTCACA-ATTCAATCTC
* * *
12472182 GGTCTCTTTATTTTTTGACTCACAATTCAATCTC
1 GGTCTCGTTATTCTCTGACTCACAATTCAATCTC
12472216 G
1 G
12472217 ATTGTCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (34 bp):
GGTCTCGTTATTCTCTGACTCACAATTCAATCTC
Found at i:12472364 original size:34 final size:34
Alignment explanation
Indices: 12472325--12472439 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
12472315 CCCTATTGTT
12472325 TTTATTTTCTGACTCATTGTTCAATCTCGATCTC
1 TTTATTTTCTGACTCATTGTTCAATCTCGATCTC
* * * * ** *
12472359 GTTATTTTTTTATTCACAGTTCAATC-CCAGTCTC
1 TTTATTTTCTGACTCATTGTTCAATCTCGA-TCTC
* * * * *
12472393 TTTATTTTTTGACTCGTTATTCAATCTCGGTTGTC
1 TTTATTTTCTGACTCATTGTTCAATCTC-GATCTC
12472428 TTTATTTTCTGA
1 TTTATTTTCTGA
12472440 TTCACGATTC
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
33 2 0.03
34 43 0.72
35 15 0.25
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.52
Consensus pattern (34 bp):
TTTATTTTCTGACTCATTGTTCAATCTCGATCTC
Found at i:12472395 original size:103 final size:102
Alignment explanation
Indices: 12472172--12472486 Score: 262
Period size: 103 Copynumber: 3.1 Consensus size: 102
12472162 CTGACTCAAG
* * * * * * * * *
12472172 GTTCAATCTCGGTCTCTTTATTTTTTGACTCACAATTCAATCTCGATTGTC-ATATTCTCTAACT
1 GTTCAATCCCAGTCTCTTTAATTTTTGACTCGCGATTCAATCCCGATTGTCTTTATTTTCTGAC-
* * * * * **
12472236 TGA-GATTTAATCCCAGTCAT-TTTATTTTTTGACTTGCA
65 TCACGATTCAATCTCA-TC-TCATTATTTTTTTACTCACA
* * * *
12472274 GTTTAAT-CCTGTTCTCTTTAATTTTTGACTCGCGATTCAATCCCTATTGTTTTTATTTTCTGAC
1 GTTCAATCCCAG-TCTCTTTAATTTTTGACTCGCGATTCAATCCCGATTGTCTTTATTTTCTGAC
* * *
12472338 TCATTG-TTCAATCTCGATCTCGTTATTTTTTTATTCACA
65 TCA-CGATTCAATCTC-ATCTCATTATTTTTTTACTCACA
* ** * * *
12472377 GTTCAATCCCAGTCTCTTTATTTTTTGACTCGTTATTCAATCTCGGTTGTCTTTATTTTCTGATT
1 GTTCAATCCCAGTCTCTTTAATTTTTGACTCGCGATTCAATCCCGATTGTCTTTATTTTCTGACT
*
12472442 CACGATTCAATTTCATCTCATTATTTTTTTACTCACA
66 CACGATTCAATCTCATCTCATTATTTTTTTACTCACA
*
12472479 TTTCAATC
1 GTTCAATC
12472487 TCAATCATTT
Statistics
Matches: 170, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
101 2 0.01
102 71 0.42
103 92 0.54
104 5 0.03
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (102 bp):
GTTCAATCCCAGTCTCTTTAATTTTTGACTCGCGATTCAATCCCGATTGTCTTTATTTTCTGACT
CACGATTCAATCTCATCTCATTATTTTTTTACTCACA
Found at i:12472466 original size:68 final size:68
Alignment explanation
Indices: 12472326--12472476 Score: 162
Period size: 68 Copynumber: 2.2 Consensus size: 68
12472316 CCTATTGTTT
* * * *
12472326 TTATTTTCTGACTCATTGTTCAATCTCGATCTCGTTATTTTTTTATTCACAGTTCAATCCCAGTC
1 TTATTTTTTGACTCATTATTCAATCTCGATCTCGTTATTTTCTGATTCACAGTTCAATCCCAGTC
*
12472391 TCT
66 TCA
* * * * **
12472394 TTATTTTTTGACTCGTTATTCAATCTCGGTTGTCTTTATTTTCTGATTCAC-GATTCAATTTCA-
1 TTATTTTTTGACTCATTATTCAATCTC-GATCTCGTTATTTTCTGATTCACAG-TTCAATCCCAG
12472457 TCTCA
64 TCTCA
*
12472462 TTATTTTTTTACTCA
1 TTATTTTTTGACTCA
12472477 CATTTCAATC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 42 0.62
69 26 0.38
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.52
Consensus pattern (68 bp):
TTATTTTTTGACTCATTATTCAATCTCGATCTCGTTATTTTCTGATTCACAGTTCAATCCCAGTC
TCA
Found at i:12473849 original size:20 final size:21
Alignment explanation
Indices: 12473826--12473864 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12473816 AAAAATTTTA
*
12473826 TTTTTGATTTAT-TTATTTGT
1 TTTTTAATTTATATTATTTGT
12473846 TTTTTAATTTATATTATTT
1 TTTTTAATTTATATTATTT
12473865 TTAGTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTATATTATTTGT
Found at i:12474098 original size:3 final size:3
Alignment explanation
Indices: 12474092--12474117 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12474082 TCTTTAAATA
12474092 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12474118 CAAAAAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12474149 original size:16 final size:17
Alignment explanation
Indices: 12474120--12474153 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12474110 AATAATAACA
*
12474120 AAAAATGCTTAAAAAAT
1 AAAAATGCTAAAAAAAT
12474137 AAAAAT-CTAAAAAAAT
1 AAAAATGCTAAAAAAAT
12474153 A
1 A
12474154 TGATAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATGCTAAAAAAAT
Found at i:12474270 original size:18 final size:17
Alignment explanation
Indices: 12474249--12474304 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
12474239 TTGAAAAATT
12474249 ATAAAAAAACATAAAAAG
1 ATAAAAAAA-ATAAAAAG
*
12474267 ATAATAAATAATAAAACA-
1 ATAA-AAAAAATAAAA-AG
* *
12474285 ATAATAAAAATAAATAG
1 ATAAAAAAAATAAAAAG
12474302 ATA
1 ATA
12474305 TTATTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.35
18 14 0.45
19 5 0.16
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (17 bp):
ATAAAAAAAATAAAAAG
Found at i:12474557 original size:16 final size:16
Alignment explanation
Indices: 12474536--12474573 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12474526 ACCCTAAATG
12474536 CAAAAC-TAAAAACTTT
1 CAAAACTTAAAAA-TTT
*
12474552 CAAAACTTCAAAATTT
1 CAAAACTTAAAAATTT
12474568 CAAAAC
1 CAAAAC
12474574 CCTAATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
CAAAACTTAAAAATTT
Found at i:12476992 original size:14 final size:15
Alignment explanation
Indices: 12476953--12476992 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
12476943 GTTCATAATC
12476953 AATAAATAAATTATA
1 AATAAATAAATTATA
*
12476968 ATTAAATAAATT-TA
1 AATAAATAAATTATA
*
12476982 AATAAACAAAT
1 AATAAATAAAT
12476993 CCTAAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATAAATTATA
Found at i:12477018 original size:20 final size:21
Alignment explanation
Indices: 12476983--12477028 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
12476973 ATAAATTTAA
**
12476983 ATAAACAAATCCTAAATGAAT
1 ATAAACAAATCCTAAACAAAT
*
12477004 ATAAACATA-CCTAAACAAAT
1 ATAAACAAATCCTAAACAAAT
12477024 ATAAA
1 ATAAA
12477029 GATTATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.61, C:0.15, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAAACAAATCCTAAACAAAT
Found at i:12481083 original size:24 final size:24
Alignment explanation
Indices: 12481056--12481101 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12481046 ATTCACCATT
*
12481056 ATTAAAAATATGGGATACAAAAAA
1 ATTAAAAAAATGGGATACAAAAAA
* *
12481080 ATTAAAAAAATGTGATATAAAA
1 ATTAAAAAAATGGGATACAAAA
12481102 TGGATGATAT
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:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (24 bp):
ATTAAAAAAATGGGATACAAAAAA
Found at i:12481117 original size:136 final size:136
Alignment explanation
Indices: 12480857--12481128 Score: 483
Period size: 136 Copynumber: 2.0 Consensus size: 136
12480847 CCTCTTTACT
12480857 TTTCCTTTTATTCTATACTTTATTATCAATAAAAATAATTCTAACATAAATCAATTCACCATTAT
1 TTTCCTTTTATTCTATACTTTATTATCAATAAAAATAATTCTAACATAAATCAATTCACCATTAT
* * *
12480922 TAGAAATATGGCATATAAAAAAAATTTAAAAAATGTGATATCAAATGGATGATATAAAAAAATTA
66 TAAAAATATGGCATATAAAAAAAATTAAAAAAATGTGATATAAAATGGATGATATAAAAAAATTA
12480987 AAAAGA
131 AAAAGA
*
12480993 TTTCCTTTTATTCTATGCTTTATTATCAATAAAAATAATTCTAACATAAATCAATTCACCATTAT
1 TTTCCTTTTATTCTATACTTTATTATCAATAAAAATAATTCTAACATAAATCAATTCACCATTAT
* *
12481058 TAAAAATATGGGATA-CAAAAAAATTAAAAAAATGTGATATAAAATGGATGATATAAAAAAATTA
66 TAAAAATATGGCATATAAAAAAAATTAAAAAAATGTGATATAAAATGGATGATATAAAAAAATTA
12481122 AAAAGA
131 AAAAGA
12481128 T
1 T
12481129 GTAATACAAA
Statistics
Matches: 130, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
135 53 0.41
136 77 0.59
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (136 bp):
TTTCCTTTTATTCTATACTTTATTATCAATAAAAATAATTCTAACATAAATCAATTCACCATTAT
TAAAAATATGGCATATAAAAAAAATTAAAAAAATGTGATATAAAATGGATGATATAAAAAAATTA
AAAAGA
Found at i:12482557 original size:207 final size:209
Alignment explanation
Indices: 12482216--12482641 Score: 685
Period size: 207 Copynumber: 2.0 Consensus size: 209
12482206 AAAAAAAAAA
12482216 TCTAAATGAGCAAAACATGTCTGAAAACAAAAATTTCATAACTTATAATATCTATTAACATAAAA
1 TCTAAATGAGCAAAACATGTCTGAAAACAAAAATTTCATAACTTATAATATCTATTAACATAAAA
* *
12482281 GATTAAATACTTAAAAATTCATTAAAATCGAAATATTCACTTAAGGTAAAAAAAATCTAATTTAT
66 GATGAAATAC------ATTCATTAAAACCGAAATATTCACTTAAGGTAAAAAAAATCTAATTTAT
*
12482346 AATAATATGAATGTTTATGTATCTAAGACAATCCTAAAAGTCTTGAAAACATAACCAAAGTTTCA
125 AATAATATGAATGTTTATGTATCTAAGACAATCCTAAAAGTATTGAAAACATAACCAAAGTTTCA
12482411 AAACATCACTCTCCAAGATT
190 AAACATCACTCTCCAAGATT
* * * *
12482431 TCTAAATGAGCAAAACGTGTGTGAAAACGAAAATTTCATAACTTCTAATAT-TATTAACATAAAA
1 TCTAAATGAGCAAAACATGTCTGAAAACAAAAATTTCATAACTTATAATATCTATTAACATAAAA
* *
12482495 GATGAAATAC-TTCATTAAAACCGAAATATTCACTTAAGGTCAAAAATATCTAATTTATAATAAT
66 GATGAAATACATTCATTAAAACCGAAATATTCACTTAAGGTAAAAAAAATCTAATTTATAATAAT
12482559 ATGAATGTTTATGTATCTAAGACAATCCTAAAAGTATTGAAAACATAACCAAAGTTTCAAAACAT
131 ATGAATGTTTATGTATCTAAGACAATCCTAAAAGTATTGAAAACATAACCAAAGTTTCAAAACAT
* *
12482624 CACTTTCCGAGATT
196 CACTCTCCAAGATT
12482638 TCTA
1 TCTA
12482642 CATGCATGAC
Statistics
Matches: 200, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
207 131 0.65
214 22 0.11
215 47 0.23
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (209 bp):
TCTAAATGAGCAAAACATGTCTGAAAACAAAAATTTCATAACTTATAATATCTATTAACATAAAA
GATGAAATACATTCATTAAAACCGAAATATTCACTTAAGGTAAAAAAAATCTAATTTATAATAAT
ATGAATGTTTATGTATCTAAGACAATCCTAAAAGTATTGAAAACATAACCAAAGTTTCAAAACAT
CACTCTCCAAGATT
Found at i:12484893 original size:23 final size:23
Alignment explanation
Indices: 12484863--12484907 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12484853 TTTATTGTAA
*
12484863 GCCCATAAAAAGTAATTCTCTTG
1 GCCCATAAAAAGTAATGCTCTTG
*
12484886 GCCCATAAATAGTAATGCTCTT
1 GCCCATAAAAAGTAATGCTCTT
12484908 ACTTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (23 bp):
GCCCATAAAAAGTAATGCTCTTG
Found at i:12487440 original size:52 final size:52
Alignment explanation
Indices: 12487383--12487487 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
12487373 TGGATAAGAA
*
12487383 GACTTACAAAAGAAGAATTCTAAGAGAAAAAAAATTCTTAATA-AGCAAGTTT
1 GACTTACAAAAGAAGAACTCTAAGAGAAAAAAAATTCTTAATAGA-CAAGTTT
* * * * **
12487435 GACTTATAGAATAAGAACTCTAAGAGGAAAATGATTCTTAATAGACAAGTTT
1 GACTTACAAAAGAAGAACTCTAAGAGAAAAAAAATTCTTAATAGACAAGTTT
12487487 G
1 G
12487488 TATAGTTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.27
Consensus pattern (52 bp):
GACTTACAAAAGAAGAACTCTAAGAGAAAAAAAATTCTTAATAGACAAGTTT
Found at i:12488292 original size:11 final size:11
Alignment explanation
Indices: 12488276--12488318 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
12488266 AATCCCATAA
12488276 AAGATTTGTTT
1 AAGATTTGTTT
12488287 AAGATTTG-TT
1 AAGATTTGTTT
12488297 AGAGATTTGTTT
1 A-AGATTTGTTT
*
12488309 GAGATTTGTT
1 AAGATTTGTT
12488319 AGATTTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 3 0.10
11 24 0.83
12 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (11 bp):
AAGATTTGTTT
Found at i:12488328 original size:21 final size:22
Alignment explanation
Indices: 12488277--12488331 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
12488267 ATCCCATAAA
*
12488277 AGATTTGTTTAAGATTTGTTAG
1 AGATTTGTTTGAGATTTGTTAG
12488299 AGATTTGTTTGAGATTTGTTAG
1 AGATTTGTTTGAGATTTGTTAG
*
12488321 A-TTTTGTTTGA
1 AGATTTGTTTGA
12488332 TGGATAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (22 bp):
AGATTTGTTTGAGATTTGTTAG
Found at i:12490274 original size:15 final size:14
Alignment explanation
Indices: 12490256--12490309 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
12490246 AAAATCATCA
12490256 AATAAAAAATCAAAT
1 AATAAAAAAT-AAAT
12490271 AATAATAATAAT-AAT
1 AATAA-AA-AATAAAT
12490286 AATAAATAAATAAAT
1 AATAAA-AAATAAAT
12490301 AATAAAAAA
1 AATAAAAAA
12490310 CTTGGCCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.20
15 23 0.66
16 2 0.06
17 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAAAATAAAT
Found at i:12490764 original size:37 final size:37
Alignment explanation
Indices: 12490711--12490843 Score: 95
Period size: 37 Copynumber: 3.5 Consensus size: 37
12490701 AGAGTAGCAA
12490711 AAATAAAAACAAAAAAAAAACCTTATAGTAAAAACAAG
1 AAATAAAAAC-AAAAAAAAACCTTATAGTAAAAACAAG
* * ** * * *
12490749 AAATAAAAACCAAAAAACACCTTGCAATAGAAACACG
1 AAATAAAAACAAAAAAAAACCTTATAGTAAAAACAAG
* ** * * * *
12490786 AAAAAAAAAACCAAAAGCATACCCTATGGTAAAAACATG
1 -AAATAAAAA-CAAAAAAAAACCTTATAGTAAAAACAAG
* *
12490825 AAGTAGAAACAAAAAAAAA
1 AAATAAAAACAAAAAAAAA
12490844 ATAAAAACGA
Statistics
Matches: 68, Mismatches: 25, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
37 27 0.40
38 24 0.35
39 17 0.25
ACGTcount: A:0.65, C:0.15, G:0.08, T:0.11
Consensus pattern (37 bp):
AAATAAAAACAAAAAAAAACCTTATAGTAAAAACAAG
Found at i:12492043 original size:3 final size:3
Alignment explanation
Indices: 12492037--12492096 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
12492027 ACTATGTTAA
*
12492037 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12492085 AAT AAT AAT AAT
1 AAT AAT AAT AAT
12492097 TTCACCTAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12492319 original size:14 final size:14
Alignment explanation
Indices: 12492302--12492385 Score: 66
Period size: 14 Copynumber: 6.2 Consensus size: 14
12492292 ATTAAGATAT
* *
12492302 TAAAATTGAATCCC
1 TAAAATTAAAACCC
12492316 TAAAATTAAAACCC
1 TAAAATTAAAACCC
** *
12492330 T-AAATCGAAACCT
1 TAAAATTAAAACCC
12492343 TAAAATTAAAA-CC
1 TAAAATTAAAACCC
* * *
12492356 TTAAA-TGAAACCT
1 TAAAATTAAAACCC
*
12492369 TAAAATCAAAACCC
1 TAAAATTAAAACCC
12492383 TAA
1 TAA
12492386 GTGAAACCCG
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
12 4 0.08
13 20 0.38
14 28 0.54
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.24
Consensus pattern (14 bp):
TAAAATTAAAACCC
Found at i:12492334 original size:27 final size:27
Alignment explanation
Indices: 12492304--12492393 Score: 112
Period size: 26 Copynumber: 3.4 Consensus size: 27
12492294 TAAGATATTA
* *
12492304 AAATTGAATCCCTAAAATTAAAACCCT
1 AAATTGAAACCTTAAAATTAAAACCCT
* *
12492331 AAATCGAAACCTTAAAATTAAAACCTT
1 AAATTGAAACCTTAAAATTAAAACCCT
*
12492358 AAA-TGAAACCTTAAAATCAAAACCCT
1 AAATTGAAACCTTAAAATTAAAACCCT
*
12492384 -AAGTGAAACC
1 AAATTGAAACC
12492394 CGAAACCCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
25 2 0.04
26 27 0.49
27 26 0.47
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.22
Consensus pattern (27 bp):
AAATTGAAACCTTAAAATTAAAACCCT
Found at i:12492368 original size:12 final size:12
Alignment explanation
Indices: 12492324--12492372 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
12492314 CCTAAAATTA
*
12492324 AAACCCTAAATCG
1 AAACCTTAAAT-G
*
12492337 AAACCTTAAAATTA
1 AAACCTT-AAA-TG
12492351 AAACCTTAAATG
1 AAACCTTAAATG
12492363 AAACCTTAAA
1 AAACCTTAAA
12492373 ATCAAAACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 11 0.35
13 9 0.29
14 10 0.32
15 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.22
Consensus pattern (12 bp):
AAACCTTAAATG
Done.