Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 96 of 284
Found at i:31780067 original size:9 final size:9
Alignment explanation
Indices: 31780053--31780077 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31780043 TTTGTTCTTT
31780053 TTTCTTTTA
1 TTTCTTTTA
31780062 TTTCTTTTA
1 TTTCTTTTA
31780071 TTTCTTT
1 TTTCTTT
31780078 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:31780094 original size:8 final size:8
Alignment explanation
Indices: 31780083--31780128 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
31780073 TCTTTATGTT
31780083 TTATTATA
1 TTATTATA
*
31780091 TTATTAAA
1 TTATTATA
31780099 TTATTATATA
1 TTA-T-TATA
*
31780109 TTAATATA
1 TTATTATA
31780117 TTATTATA
1 TTATTATA
31780125 TTAT
1 TTAT
31780129 ATACTTAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 25 0.78
9 1 0.03
10 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTATA
Found at i:31780108 original size:18 final size:18
Alignment explanation
Indices: 31780087--31780125 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31780077 TATGTTTTAT
*
31780087 TATATTATTAAATTATTA
1 TATATTAATAAATTATTA
*
31780105 TATATTAATATATTATTA
1 TATATTAATAAATTATTA
31780123 TAT
1 TAT
31780126 TATATACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTAATAAATTATTA
Found at i:31796221 original size:5 final size:6
Alignment explanation
Indices: 31796205--31796234 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
31796195 TACTTTAGCC
31796205 ATTTTT ATTTTT ATTTTT ATTTCTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTT-TT ATTTT
31796235 CTAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:31810478 original size:304 final size:304
Alignment explanation
Indices: 31809929--31810536 Score: 1216
Period size: 304 Copynumber: 2.0 Consensus size: 304
31809919 ATAATGATAA
31809929 CAAAACATAAAGAAAACCCAAGAACTCTTGAAGGGAATTGAAGGGAGATATTTAGTCTTGAAGGT
1 CAAAACATAAAGAAAACCCAAGAACTCTTGAAGGGAATTGAAGGGAGATATTTAGTCTTGAAGGT
31809994 GAATCCAACTTCTGAGATGGATCAATCGGCTTTCTTCGAGTAATTCCCTGCCTCCTACTCCGTGT
66 GAATCCAACTTCTGAGATGGATCAATCGGCTTTCTTCGAGTAATTCCCTGCCTCCTACTCCGTGT
31810059 GTCTTCTAAGCGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCTAAAAGCCCTCAAGAGTGG
131 GTCTTCTAAGCGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCTAAAAGCCCTCAAGAGTGG
31810124 CCTTTTCCGAATAGAACTAAACTTGGGCCCGACAAGGACATGCCCGTGTGACACGCCCGTGTGCG
196 CCTTTTCCGAATAGAACTAAACTTGGGCCCGACAAGGACATGCCCGTGTGACACGCCCGTGTGCG
31810189 ATTTCTTCAATCCGTGTTCAAGGCTGTTACATAGGCACGGGCGT
261 ATTTCTTCAATCCGTGTTCAAGGCTGTTACATAGGCACGGGCGT
31810233 CAAAACATAAAGAAAACCCAAGAACTCTTGAAGGGAATTGAAGGGAGATATTTAGTCTTGAAGGT
1 CAAAACATAAAGAAAACCCAAGAACTCTTGAAGGGAATTGAAGGGAGATATTTAGTCTTGAAGGT
31810298 GAATCCAACTTCTGAGATGGATCAATCGGCTTTCTTCGAGTAATTCCCTGCCTCCTACTCCGTGT
66 GAATCCAACTTCTGAGATGGATCAATCGGCTTTCTTCGAGTAATTCCCTGCCTCCTACTCCGTGT
31810363 GTCTTCTAAGCGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCTAAAAGCCCTCAAGAGTGG
131 GTCTTCTAAGCGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCTAAAAGCCCTCAAGAGTGG
31810428 CCTTTTCCGAATAGAACTAAACTTGGGCCCGACAAGGACATGCCCGTGTGACACGCCCGTGTGCG
196 CCTTTTCCGAATAGAACTAAACTTGGGCCCGACAAGGACATGCCCGTGTGACACGCCCGTGTGCG
31810493 ATTTCTTCAATCCGTGTTCAAGGCTGTTACATAGGCACGGGCGT
261 ATTTCTTCAATCCGTGTTCAAGGCTGTTACATAGGCACGGGCGT
31810537 GTGGTCTACC
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
304 304 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (304 bp):
CAAAACATAAAGAAAACCCAAGAACTCTTGAAGGGAATTGAAGGGAGATATTTAGTCTTGAAGGT
GAATCCAACTTCTGAGATGGATCAATCGGCTTTCTTCGAGTAATTCCCTGCCTCCTACTCCGTGT
GTCTTCTAAGCGCCTCCTCAGGTGTTTAAATAGGCTTTAGAATGCCTAAAAGCCCTCAAGAGTGG
CCTTTTCCGAATAGAACTAAACTTGGGCCCGACAAGGACATGCCCGTGTGACACGCCCGTGTGCG
ATTTCTTCAATCCGTGTTCAAGGCTGTTACATAGGCACGGGCGT
Found at i:31811577 original size:30 final size:31
Alignment explanation
Indices: 31811530--31811587 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
31811520 GATAATCATG
*
31811530 ATAATAAACAATAAAGAAATAATATAATAAA
1 ATAATAAACAATAAAGAAATAACATAATAAA
*
31811561 ATAATAAA-ACTAAAGAAATAACATAAT
1 ATAATAAACAATAAAGAAATAACATAAT
31811588 CAATAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (31 bp):
ATAATAAACAATAAAGAAATAACATAATAAA
Found at i:31821596 original size:27 final size:27
Alignment explanation
Indices: 31821566--31821620 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31821556 GTTTTGTATG
31821566 AACCTTCTCATTTCTCAACATTTATAT
1 AACCTTCTCATTTCTCAACATTTATAT
31821593 AACCTTCTCATTTCTCAACATTTATAT
1 AACCTTCTCATTTCTCAACATTTATAT
31821620 A
1 A
31821621 TAACCCTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (27 bp):
AACCTTCTCATTTCTCAACATTTATAT
Found at i:31822046 original size:19 final size:20
Alignment explanation
Indices: 31822002--31822047 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
31821992 AGTAATATAA
31822002 TATATATTTATTTTAATTGAG
1 TATATA-TTATTTTAATTGAG
*
31822023 -A-ATATTATTTT-ATTTAG
1 TATATATTATTTTAATTGAG
31822040 TATATATT
1 TATATATT
31822048 CAATGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.23
18 8 0.36
19 8 0.36
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TATATATTATTTTAATTGAG
Found at i:31823198 original size:41 final size:41
Alignment explanation
Indices: 31823141--31823220 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
31823131 AAAAAAGTGC
31823141 AATTTCTATAATAATAATTACACTTTCATCTAATTACTTGT
1 AATTTCTATAATAATAATTACACTTTCATCTAATTACTTGT
*
31823182 AATTTCTATACTAATAATTACACTTTCATCTAATTACTT
1 AATTTCTATAATAATAATTACACTTTCATCTAATTACTT
31823221 TGCAGTATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.01, T:0.46
Consensus pattern (41 bp):
AATTTCTATAATAATAATTACACTTTCATCTAATTACTTGT
Found at i:31826502 original size:30 final size:30
Alignment explanation
Indices: 31826447--31826505 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31826437 ACAAACATAT
* * *
31826447 AAAATAATAATTAAATGATGCATGATATAA
1 AAAACAATAATCAAATAATGCATGATATAA
*
31826477 AAAACAATAATCAAATAATGTATGATATA
1 AAAACAATAATCAAATAATGCATGATATA
31826506 CAAATAGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (30 bp):
AAAACAATAATCAAATAATGCATGATATAA
Found at i:31826717 original size:7 final size:7
Alignment explanation
Indices: 31826705--31826730 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31826695 AAATAGTATT
31826705 TAATATA
1 TAATATA
31826712 TAATATA
1 TAATATA
31826719 TAATATA
1 TAATATA
31826726 TAATA
1 TAATA
31826731 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:31826948 original size:20 final size:19
Alignment explanation
Indices: 31826910--31826952 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31826900 ACAATTTACA
31826910 AATTTAAAATAATATATAT
1 AATTTAAAATAATATATAT
31826929 AATTTAAACATAA-ATAATAT
1 AATTTAAA-ATAATAT-ATAT
31826949 AATT
1 AATT
31826953 GGTAATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATAATATATAT
Found at i:31827129 original size:27 final size:27
Alignment explanation
Indices: 31827068--31827152 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 27
31827058 ATAGCATGTA
*
31827068 ATAATGAA-A-ATTTATATGTAAAAAT
1 ATAATGAATATATATATATGTAAAAAT
*
31827093 A-ATATGAATATATAATATTTGTAAAAAT
1 ATA-ATGAATATAT-ATATATGTAAAAAT
*
31827121 ATAAT-AATATATATATATATAAAAAT
1 ATAATGAATATATATATATGTAAAAAT
31827147 AATAAT
1 -ATAAT
31827153 TATGAGAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 1 0.02
25 6 0.12
26 13 0.26
27 14 0.28
28 15 0.30
29 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (27 bp):
ATAATGAATATATATATATGTAAAAAT
Found at i:31827134 original size:24 final size:26
Alignment explanation
Indices: 31827102--31827152 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
31827092 TAATATGAAT
* *
31827102 ATATAATATTTGTA-AAAATATAATA
1 ATATAATATATATATAAAATATAATA
31827127 ATAT-ATATATATATAAAA-ATAATA
1 ATATAATATATATATAAAATATAATA
31827151 AT
1 AT
31827153 TATGAGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
ATATAATATATATATAAAATATAATA
Found at i:31829208 original size:121 final size:121
Alignment explanation
Indices: 31828931--31829289 Score: 610
Period size: 121 Copynumber: 3.0 Consensus size: 121
31828921 TGAGTCTGTT
**
31828931 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
*
31828996 AATCATCTTGGATCTGGCTTCAGTATAAACATCTGAAGTTTAGATCTGCCATGTGTC
66 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
* * *
31829053 TGAGAACATCTGAGAGTCAAATCTGCTATATCCTCGATTTGTTCCTTGTAAATACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
31829118 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
*
31829174 TGAGAACATCGGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
* * * *
31829239 AATCACCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCCAT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCAT
31829290 ACTGCGGCCT
Statistics
Matches: 223, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
121 148 0.66
122 75 0.34
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (121 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
Found at i:31830594 original size:20 final size:19
Alignment explanation
Indices: 31830556--31830598 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
31830546 ACAATTTACA
31830556 AATTTAAAATAATATATAT
1 AATTTAAAATAATATATAT
31830575 AATTTAAACATAA-ATAATAT
1 AATTTAAA-ATAATAT-ATAT
31830595 AATT
1 AATT
31830599 GGTAATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAATAATATATAT
Found at i:31830779 original size:20 final size:20
Alignment explanation
Indices: 31830749--31830796 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
31830739 AAATAATATG
*
31830749 TATATATAATATATGTAAAAA
1 TATA-ATAATATATATAAAAA
*
31830770 TATAATAATATATATATAAA
1 TATAATAATATATATAAAAA
31830790 TAATAAT
1 T-ATAAT
31830797 TATGAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TATAATAATATATATAAAAA
Found at i:31833228 original size:19 final size:20
Alignment explanation
Indices: 31833184--31833229 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
31833174 AGTAATATAA
31833184 TATATATTTATTTTAATTAAG
1 TATATA-TTATTTTAATTAAG
*
31833205 -A-ATATTATTTT-ATTTAG
1 TATATATTATTTTAATTAAG
31833222 TATATATT
1 TATATATT
31833230 CAATGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.23
18 8 0.36
19 8 0.36
20 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TATATATTATTTTAATTAAG
Found at i:31834380 original size:41 final size:41
Alignment explanation
Indices: 31834323--31834401 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
31834313 TAAAAAAAAG
*
31834323 TGTAATTTCTAAACTAATAATTACACTTTCATCTAATTACT
1 TGTAATTTCTAAACTAATAATTACACTTTCATCCAATTACT
* *
31834364 TGTAATTTCTATACTAATAATTACAGTTTCATCCAATT
1 TGTAATTTCTAAACTAATAATTACACTTTCATCCAATT
31834402 GCTTTGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.44
Consensus pattern (41 bp):
TGTAATTTCTAAACTAATAATTACACTTTCATCCAATTACT
Found at i:31839161 original size:26 final size:26
Alignment explanation
Indices: 31839132--31839235 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
31839122 TGGTACAAAT
31839132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31839158 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31839184 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31839210 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31839236 AGATGGGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31841365 original size:41 final size:41
Alignment explanation
Indices: 31841308--31841390 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
31841298 AATAAAAATG
31841308 TGTAATTTCTATACTAATAATTACACTTTCATCTAATTACT
1 TGTAATTTCTATACTAATAATTACACTTTCATCTAATTACT
31841349 TGTAATTTCTATACTAATAATTACACTTTCATCTAATTACT
1 TGTAATTTCTATACTAATAATTACACTTTCATCTAATTACT
31841390 T
1 T
31841391 TGTAGTATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (41 bp):
TGTAATTTCTATACTAATAATTACACTTTCATCTAATTACT
Found at i:31845656 original size:21 final size:19
Alignment explanation
Indices: 31845640--31845704 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
31845630 AATTTCTATA
31845640 CTAATATTTACACTTTCAT
1 CTAATATTTACACTTTCAT
31845659 CTAATTACTTGTA-A-TTTCTAT
1 CTAA-TA-TT-TACACTTTC-AT
*
31845680 ACTAATAATTACACTTTCAT
1 -CTAATATTTACACTTTCAT
31845700 CTAAT
1 CTAAT
31845705 TACTTTGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
19 11 0.29
20 10 0.26
21 11 0.29
22 6 0.16
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (19 bp):
CTAATATTTACACTTTCAT
Found at i:31845686 original size:41 final size:41
Alignment explanation
Indices: 31845629--31845709 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
31845619 AAAAAAGGTA
*
31845629 TAATTTCTATACTAATATTTACACTTTCATCTAATTACTTG
1 TAATTTCTATACTAATAATTACACTTTCATCTAATTACTTG
31845670 TAATTTCTATACTAATAATTACACTTTCATCTAATTACTT
1 TAATTTCTATACTAATAATTACACTTTCATCTAATTACTT
31845710 TGTGGTATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.48
Consensus pattern (41 bp):
TAATTTCTATACTAATAATTACACTTTCATCTAATTACTTG
Found at i:31852132 original size:22 final size:21
Alignment explanation
Indices: 31852102--31852146 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
31852092 ACACCAAAAC
* *
31852102 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCAGCG-TTTTTT
31852124 AGGCCTTTAGCAGCGTTTTTT
1 AGGCCTTTAGCAGCGTTTTTT
31852145 AG
1 AG
31852147 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGTTTTTT
Found at i:31852289 original size:43 final size:43
Alignment explanation
Indices: 31852216--31852529 Score: 468
Period size: 43 Copynumber: 7.3 Consensus size: 43
31852206 GCGTCGCTAA
*
31852216 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
31852258 CTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
31852301 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* *
31852344 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * *
31852387 CTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAGACGATGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * * *
31852430 TTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCCTGAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* **
31852473 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAAC
1 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
31852516 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
31852530 AAACAACAAA
Statistics
Matches: 247, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
42 12 0.05
43 235 0.95
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:31852539 original size:129 final size:128
Alignment explanation
Indices: 31852216--31852573 Score: 504
Period size: 129 Copynumber: 2.8 Consensus size: 128
31852206 GCGTCGCTAA
*
31852216 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACA
* * *
31852280 AACGACGCTAAAGACCATGATCTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
66 AACGCCGCTAAAGACGATGAT-TTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGAC
* *
31852344 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCGACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACA
*
31852409 AACGCCGCTAAAGACGATGACTTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCCTGAC
66 AACGCCGCTAAAGACGATGA-TTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGAC
* * ** * ***
31852473 CTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACA
* * * *
31852538 AACGCCAC-AATGAAGATGAGTTTTAGCGGCGCTTTT
66 AACGCCGCTAAAGACGATGA-TTTTAGCGACGCTTTT
31852574 TAACAAACAC
Statistics
Matches: 207, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
128 36 0.17
129 170 0.82
130 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (128 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAACA
AACGCCGCTAAAGACGATGATTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGAC
Found at i:31857560 original size:39 final size:39
Alignment explanation
Indices: 31857517--31857601 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
31857507 TGGGCCTAGT
* *
31857517 TTTTTTGCGGCGCTTTTCTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
* * * *
31857556 TTTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
31857595 TTTTTAG
1 TTTTTAG
31857602 TGATTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
Found at i:31858013 original size:8 final size:8
Alignment explanation
Indices: 31858002--31858030 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
31857992 AAATATAACT
31858002 CTAAACCC
1 CTAAACCC
31858010 CTAAACCC
1 CTAAACCC
31858018 CT-AACCC
1 CTAAACCC
31858025 CTAAAC
1 CTAAAC
31858031 TTTAAATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (8 bp):
CTAAACCC
Found at i:31858050 original size:21 final size:22
Alignment explanation
Indices: 31858011--31858051 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31858001 TCTAAACCCC
31858011 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
31858033 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
31858052 AATAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:31858271 original size:16 final size:17
Alignment explanation
Indices: 31858238--31858276 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
31858228 AAGAACACTA
31858238 TATTTAATATATTAAAT
1 TATTTAATATATTAAAT
31858255 TATTTAATATA-TAAAT
1 TATTTAATATATTAAAT
31858271 TATTTA
1 TATTTA
31858277 TAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATATATTAAAT
Found at i:31858425 original size:21 final size:20
Alignment explanation
Indices: 31858387--31858454 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
31858377 AATTAATCTA
* *
31858387 AACCCTAAATCCTAAACCCCT
1 AACCTTAAA-CCTCAACCCCT
31858408 AACTCTT-AACTCTCAACCCCT
1 AAC-CTTAAAC-CTCAACCCCT
*
31858429 AAACCTTAAACCTCAACCCTT
1 -AACCTTAAACCTCAACCCCT
31858450 AACCT
1 AACCT
31858455 ATAACATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.15
21 26 0.65
22 8 0.20
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (20 bp):
AACCTTAAACCTCAACCCCT
Found at i:31858513 original size:7 final size:7
Alignment explanation
Indices: 31858462--31858550 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
31858452 CCTATAACAT
31858462 TAAACCA
1 TAAACCA
*
31858469 TAAACCG
1 TAAACCA
* * *
31858476 CAACCCT
1 TAAACCA
*
31858483 TAAACCC
1 TAAACCA
* *
31858490 TAAATCT
1 TAAACCA
31858497 TAAACCA
1 TAAACCA
*
31858504 TAAACTA
1 TAAACCA
31858511 TAAACCA
1 TAAACCA
* *
31858518 TAACCCT
1 TAAACCA
31858525 TAAACTCA
1 TAAAC-CA
*
31858533 TAATCCA
1 TAAACCA
*
31858540 TAAACCT
1 TAAACCA
31858547 TAAA
1 TAAA
31858551 ATAGTAACTA
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:31858540 original size:22 final size:21
Alignment explanation
Indices: 31858461--31858608 Score: 82
Period size: 21 Copynumber: 7.0 Consensus size: 21
31858451 ACCTATAACA
* ** *
31858461 TTAAACCATAAACCGCAACCC
1 TTAAACTATAAACCATAAACC
** * *
31858482 TTAAACCCTAAATCTTAAACC
1 TTAAACTATAAACCATAAACC
* *
31858503 ATAAACTATAAACCATAACCC
1 TTAAACTATAAACCATAAACC
*
31858524 TTAAACTCATAATCCATAAACC
1 TTAAACT-ATAAACCATAAACC
* *
31858546 TTAAAATAGT-AACTATTAAACC
1 TTAAACTA-TAAACCA-TAAACC
* * *
31858568 TTAAACTCTAAATCATATACC
1 TTAAACTATAAACCATAAACC
* * * *
31858589 CTAAACCAAAAACCTTAAAC
1 TTAAACTATAAACCATAAAC
31858609 TATAGAGATA
Statistics
Matches: 94, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
21 60 0.64
22 34 0.36
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.24
Consensus pattern (21 bp):
TTAAACTATAAACCATAAACC
Found at i:31858890 original size:19 final size:20
Alignment explanation
Indices: 31858864--31858909 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
31858854 ATAGAATTTT
31858864 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
31858882 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
31858902 AATAAAAT
1 AATTAAAT
31858910 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:31858973 original size:41 final size:41
Alignment explanation
Indices: 31858916--31859024 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
31858906 AAATGTTTTT
* *
31858916 GCGGCGCTTTTCCAAAAACGCTGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTA
*
31858957 GCGGCGCTTCTCCAAAAACGCCGCTAAAAACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTA
*
31858998 GCGGCGCTTTTCTAAAAACGCCGCTAA
1 GCGGCGCTTTTCCAAAAACGCCGCTAA
31859025 TGTCCCGAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTA
Found at i:31866263 original size:11 final size:11
Alignment explanation
Indices: 31866232--31866262 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
31866222 ATTAGATAAA
31866232 TATTATTTTAT
1 TATTATTTTAT
31866243 TATTATTTTAT
1 TATTATTTTAT
31866254 TATTTATTT
1 TA-TTATTT
31866263 AGTATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:31868415 original size:46 final size:46
Alignment explanation
Indices: 31868364--31868641 Score: 414
Period size: 46 Copynumber: 6.0 Consensus size: 46
31868354 GTGTGCTCTC
*
31868364 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
31868410 TGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
31868456 TGATATAAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
31868502 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* **
31868548 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
31868594 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
31868640 TG
1 TG
31868642 TCGAAGATAA
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 213 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:31869786 original size:21 final size:22
Alignment explanation
Indices: 31869757--31869797 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
31869747 AACAAATATT
31869757 ATTTATCTAACAACAAGCATAC
1 ATTTATCTAACAACAAGCATAC
* *
31869779 ATTT-TCTATCATCAAGCAT
1 ATTTATCTAACAACAAGCAT
31869798 CAAAATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (22 bp):
ATTTATCTAACAACAAGCATAC
Found at i:31880347 original size:33 final size:33
Alignment explanation
Indices: 31880281--31880347 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
31880271 AATAATTATA
* *
31880281 TTTTATTTGGATCAATTTTAGTTCTTATATTTT
1 TTTTAATTGGATCAATTTTAATTCTTATATTTT
* *
31880314 TTTTAATTGG-TCAATTTTAATTTTTGTATTTT
1 TTTTAATTGGATCAATTTTAATTCTTATATTTT
31880346 TT
1 TT
31880348 GAAATTTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (33 bp):
TTTTAATTGGATCAATTTTAATTCTTATATTTT
Found at i:31891259 original size:10 final size:10
Alignment explanation
Indices: 31891246--31891294 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
31891236 TTTATTTTCG
31891246 TTTATCTTTA
1 TTTATCTTTA
31891256 TTTATCTTTA
1 TTTATCTTTA
*
31891266 ATTATCTTTA
1 TTTATCTTTA
31891276 TTTAT-TTGTA
1 TTTATCTT-TA
31891286 TTTATCTTT
1 TTTATCTTT
31891295 TAGAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:31892043 original size:17 final size:18
Alignment explanation
Indices: 31892011--31892044 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31892001 TTTTCCTCGT
31892011 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
31892029 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
31892045 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:31893692 original size:21 final size:21
Alignment explanation
Indices: 31893651--31893692 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31893641 CAAACTCTTA
* *
31893651 ATTTCCAAAGAGAGACGAAGG
1 ATTTCCAAAGAGAAACCAAGG
31893672 ATTTCCAACAGA-AAACCAAGG
1 ATTTCCAA-AGAGAAACCAAGG
31893693 CATTCATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (21 bp):
ATTTCCAAAGAGAAACCAAGG
Found at i:31898306 original size:10 final size:9
Alignment explanation
Indices: 31898267--31898330 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 9
31898257 AGGCAACGCA
31898267 ATTTTTTTT
1 ATTTTTTTT
*
31898276 CTTTTATTTT
1 ATTTT-TTTT
*
31898286 AGTTTGTTTT
1 A-TTTTTTTT
31898296 ATTTTTATTT
1 ATTTTT-TTT
31898306 ATTTTTTCTT
1 ATTTTTT-TT
31898316 ATTATTTTATT
1 ATT-TTTT-TT
31898327 ATTT
1 ATTT
31898331 ATTATTTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
9 9 0.20
10 24 0.53
11 12 0.27
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:31898310 original size:15 final size:15
Alignment explanation
Indices: 31898267--31898338 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
31898257 AGGCAACGCA
*
31898267 ATTTTT-TTTCTTTT
1 ATTTTTATTTATTTT
*
31898281 A-TTTTAGTTTGTTTT
1 ATTTTTA-TTTATTTT
31898296 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
*
31898311 -TTCTTA-TTATTTT
1 ATTTTTATTTATTTT
31898324 ATTATTTA-TTATTTT
1 ATT-TTTATTTATTTT
31898339 CAGATATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.22
14 8 0.16
15 25 0.51
16 5 0.10
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:31899224 original size:96 final size:97
Alignment explanation
Indices: 31899055--31899237 Score: 305
Period size: 96 Copynumber: 1.9 Consensus size: 97
31899045 TAATTTTTAA
*
31899055 GAATGTGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
1 GAATATGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
* *
31899120 TCGATATATTCTTAAG-AAAAACAAAAATTAG
66 TCAATATATTCCTAAGTAAAAACAAAAATTAG
** *
31899151 GAATATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
1 GAATATGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
31899216 TCAATATATTCCTAAGTAAAAA
66 TCAATATATTCCTAAGTAAAAA
31899238 TAAATAAATA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 75 0.94
97 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (97 bp):
GAATATGTTGGGCTGAGTAACCGGGGTGAAGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGT
TCAATATATTCCTAAGTAAAAACAAAAATTAG
Found at i:31900077 original size:359 final size:359
Alignment explanation
Indices: 31899418--31900135 Score: 1436
Period size: 359 Copynumber: 2.0 Consensus size: 359
31899408 AATACTTTTT
31899418 TCAATTTTACTTAAAGCAAGCTATGGGTTCTCTTTATTTTTCATATGCATTTTTGACTAATTTTT
1 TCAATTTTACTTAAAGCAAGCTATGGGTTCTCTTTATTTTTCATATGCATTTTTGACTAATTTTT
31899483 ATAAAACTTTGGAGTAGTATTTCTTTTACGGCAGGATTTAATTTTCACAGTAGACACGAACCATA
66 ATAAAACTTTGGAGTAGTATTTCTTTTACGGCAGGATTTAATTTTCACAGTAGACACGAACCATA
31899548 CTTGAGGGCAAGCATGGGCTAAGTAGGGGGGATCTGATAATACTCTAGAATGACATATTTTATTT
131 CTTGAGGGCAAGCATGGGCTAAGTAGGGGGGATCTGATAATACTCTAGAATGACATATTTTATTT
31899613 GCTAATTGCATCATTATTTTGAGTATGATCCTACTAATTTGGATTATTTTGTGGTCTTTTATCTT
196 GCTAATTGCATCATTATTTTGAGTATGATCCTACTAATTTGGATTATTTTGTGGTCTTTTATCTT
31899678 TTAGGGACTAAATTGGAGGCAAGAGGAAATTCAATGGCAAAAAATGCAAATTTGAAGATATAATG
261 TTAGGGACTAAATTGGAGGCAAGAGGAAATTCAATGGCAAAAAATGCAAATTTGAAGATATAATG
31899743 GGCCAACATGCAAAGAAAGAGAGAAGTGGTGCCA
326 GGCCAACATGCAAAGAAAGAGAGAAGTGGTGCCA
31899777 TCAATTTTACTTAAAGCAAGCTATGGGTTCTCTTTATTTTTCATATGCATTTTTGACTAATTTTT
1 TCAATTTTACTTAAAGCAAGCTATGGGTTCTCTTTATTTTTCATATGCATTTTTGACTAATTTTT
31899842 ATAAAACTTTGGAGTAGTATTTCTTTTACGGCAGGATTTAATTTTCACAGTAGACACGAACCATA
66 ATAAAACTTTGGAGTAGTATTTCTTTTACGGCAGGATTTAATTTTCACAGTAGACACGAACCATA
31899907 CTTGAGGGCAAGCATGGGCTAAGTAGGGGGGATCTGATAATACTCTAGAATGACATATTTTATTT
131 CTTGAGGGCAAGCATGGGCTAAGTAGGGGGGATCTGATAATACTCTAGAATGACATATTTTATTT
31899972 GCTAATTGCATCATTATTTTGAGTATGATCCTACTAATTTGGATTATTTTGTGGTCTTTTATCTT
196 GCTAATTGCATCATTATTTTGAGTATGATCCTACTAATTTGGATTATTTTGTGGTCTTTTATCTT
31900037 TTAGGGACTAAATTGGAGGCAAGAGGAAATTCAATGGCAAAAAATGCAAATTTGAAGATATAATG
261 TTAGGGACTAAATTGGAGGCAAGAGGAAATTCAATGGCAAAAAATGCAAATTTGAAGATATAATG
31900102 GGCCAACATGCAAAGAAAGAGAGAAGTGGTGCCA
326 GGCCAACATGCAAAGAAAGAGAGAAGTGGTGCCA
31900136 AAAATACAAA
Statistics
Matches: 359, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
359 359 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (359 bp):
TCAATTTTACTTAAAGCAAGCTATGGGTTCTCTTTATTTTTCATATGCATTTTTGACTAATTTTT
ATAAAACTTTGGAGTAGTATTTCTTTTACGGCAGGATTTAATTTTCACAGTAGACACGAACCATA
CTTGAGGGCAAGCATGGGCTAAGTAGGGGGGATCTGATAATACTCTAGAATGACATATTTTATTT
GCTAATTGCATCATTATTTTGAGTATGATCCTACTAATTTGGATTATTTTGTGGTCTTTTATCTT
TTAGGGACTAAATTGGAGGCAAGAGGAAATTCAATGGCAAAAAATGCAAATTTGAAGATATAATG
GGCCAACATGCAAAGAAAGAGAGAAGTGGTGCCA
Found at i:31900278 original size:10 final size:10
Alignment explanation
Indices: 31900263--31900305 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
31900253 TAATTTTAGG
31900263 ATTTAT-TTT
1 ATTTATCTTT
31900272 CATTTATCTTT
1 -ATTTATCTTT
31900283 ATTTATCTTT
1 ATTTATCTTT
*
31900293 AATTATCTTT
1 ATTTATCTTT
31900303 ATT
1 ATT
31900306 ATTCGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 27 0.90
11 3 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31904927 original size:10 final size:10
Alignment explanation
Indices: 31904912--31904961 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
31904902 TAATTTTAGG
31904912 ATTTAT-TTT
1 ATTTATCTTT
31904921 CATTTATCTTT
1 -ATTTATCTTT
*
31904932 AATTATCTTT
1 ATTTATCTTT
31904942 ATTTAT-TTGT
1 ATTTATCTT-T
31904952 ATTTATCTTT
1 ATTTATCTTT
31904962 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:31905709 original size:17 final size:18
Alignment explanation
Indices: 31905677--31905711 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31905667 ATTTTTCCTC
31905677 ATTTAATTTCTGCAATTT
1 ATTTAATTTCTGCAATTT
31905695 ATTTAATTT-TGCAATTT
1 ATTTAATTTCTGCAATTT
31905712 CAATTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (18 bp):
ATTTAATTTCTGCAATTT
Found at i:31906373 original size:12 final size:13
Alignment explanation
Indices: 31906356--31906384 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31906346 CCAAGCAACG
31906356 ATACGAT-GATCA
1 ATACGATCGATCA
31906368 ATACGATCGATCA
1 ATACGATCGATCA
31906381 ATAC
1 ATAC
31906385 TAGACTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (13 bp):
ATACGATCGATCA
Found at i:31907602 original size:17 final size:17
Alignment explanation
Indices: 31907580--31907618 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
31907570 TTTAGGGACT
*
31907580 AAATTTA-ATAAATTGCA
1 AAATTTATATAAAATG-A
31907597 AAATTTATATAAAATGA
1 AAATTTATATAAAATGA
31907614 AAATT
1 AAATT
31907619 GATTGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (17 bp):
AAATTTATATAAAATGA
Found at i:31910724 original size:103 final size:104
Alignment explanation
Indices: 31910545--31910809 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
31910535 AACCGTTATT
* * * *
31910545 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
31910610 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
31910648 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
31910712 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
31910752 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
31910810 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:31911171 original size:30 final size:29
Alignment explanation
Indices: 31911137--31911201 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
31911127 TAATCCACCA
31911137 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
31911167 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
31911197 CCCAA
1 CCCAA
31911202 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:31911175 original size:31 final size:30
Alignment explanation
Indices: 31911144--31911201 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31911134 CCACCCAACT
31911144 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
31911174 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
31911202 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:31912085 original size:41 final size:40
Alignment explanation
Indices: 31912014--31912103 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
31912004 GGCTGTTACA
*
31912014 AGCAAGCTTAGTGTCGGTGTATTTATCGAGCTTAGA-ACCT
1 AGCAGGCTTAGTGTCGGTGTATTTATCGAGC-TAGATACCT
* * *
31912054 AGCAGGCTTCGTGTGGGTGTATTTTATCGAGCTGGATACCT
1 AGCAGGCTTAGTGTCGGTGTA-TTTATCGAGCTAGATACCT
*
31912095 AGAAGGCTT
1 AGCAGGCTT
31912104 TGTGCCAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 21 0.49
41 22 0.51
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (40 bp):
AGCAGGCTTAGTGTCGGTGTATTTATCGAGCTAGATACCT
Found at i:31915508 original size:81 final size:81
Alignment explanation
Indices: 31915373--31915538 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
31915363 CGTTATCTCC
* * *
31915373 TTAACATCGGTCCTACGTGGCAGTCCAAATGAGTTTTAAATGCTAACTTGGATATCCAGATGCTG
1 TTAACAGCGGCCCTACGTGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAGATGCTG
31915438 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
*
31915454 TTAACAGCGGCCCTACGTGGCCGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAGATGCTG
1 TTAACAGCGGCCCTACGTGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAGATGCTG
31915519 GGATGAAAATAGGTTT
66 GGATGAAAATAGGTTT
31915535 TTAA
1 TTAA
31915539 TTAAATAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (81 bp):
TTAACAGCGGCCCTACGTGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATATCCAGATGCTG
GGATGAAAATAGGTTT
Found at i:31918451 original size:258 final size:261
Alignment explanation
Indices: 31917988--31918513 Score: 781
Period size: 258 Copynumber: 2.0 Consensus size: 261
31917978 GAAAAATTAA
* * * * * *
31917988 AGAATGGGAAGTACATTGTCAAAGTTTCGGGTGAAACTTATTCGTGCCCCTTTTGTCCTCAGAAG
1 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCT-AGAAG
* *
31918053 AAAAAGCCAAATTACCGATACATGGATCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTC
65 AAAAA--CAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTC
* * * *
31918118 TGCAAGAAGAACACCAATAGTGAAAGCCAATCACTTGGCTTTGTCGAAGTATTTGGAAAAGGATC
128 TGCAAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATC
* *
31918183 TTGCGCCTTTGGTTAGTTCATTGAAACCTG-TGACTCAGGAGGATCCTCTTAGTGGTTGTGACCA
193 TTGCGCCTTTGGTTAGTTCATTGAAACCTGCAG-CTCAAGAGGATCCTCTTAGTGGTTGTGACCA
31918247 TGATG
257 TGATG
31918252 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCT-G-AGA
1 AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCTAGAAGA
* * ** * *
31918315 AGAA-AATTTACCGATATTTAGACCTTGTCCAGCATGCTTCTGGTGTGGGAAATAGTAGTTCTGC
66 AAAACAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTCTGC
* *
31918379 AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCTAAGTATTTGGAAAAGGGTCTTG
131 AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATCTTG
*
31918444 TGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
196 CGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
31918509 G
261 G
31918510 AGAA
1 AGAA
31918514 AATTGTTTGG
Statistics
Matches: 238, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
258 177 0.74
259 1 0.00
261 6 0.03
262 1 0.00
264 53 0.22
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (261 bp):
AGAATGGGAAGCACATTGTCAAAGCTTCAGATGAAACTTATACGTGCCCCTATTGTCCTAGAAGA
AAAACAAATTACCGATACATAGACCTTGTCCAGCATGCTTCTGCTGTGGCAAATAGTAGTTCTGC
AAGAAGAACACCAATAATGAAAGCCAATCACCTGGCTCTGGCGAAGTATTTGGAAAAGGATCTTG
CGCCTTTGGTTAGTTCATTGAAACCTGCAGCTCAAGAGGATCCTCTTAGTGGTTGTGACCATGAT
G
Found at i:31926119 original size:125 final size:126
Alignment explanation
Indices: 31925562--31926118 Score: 485
Period size: 127 Copynumber: 4.4 Consensus size: 126
31925552 CATAATGCAG
* * * *** * * *
31925562 TATTTCGTGTTGGGAAGTTTGGGAGGCCGTGCCCACTCGTGCTGGGCTTCAATTTTTCATTCGGC
1 TATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGAC
* * * * *
31925627 TAAAATACAGAATATCC-TTTGGAAATTTCGTCCATGCTTTT-TAAAAAATTAAAAGGAGGCAA
66 TAAAATACAGAATATCCTTTTTGAAATTTCATCCACG-TTTTCT-TAAAA-TAAAATGAGGCAA
* * * * *
31925689 TATTTCCTATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCATTTTGTTCATTCG
1 TATTTCGTATTT-GGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTT-TTCATTCG
** * * * * *
31925754 ACT-AAATATGGAATATCCTTTTTTTTAAA-TTCATCCGCATTTTCTTAAAATAAAACGAGGTAA
64 ACTAAAATACAGAATATCC--TTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAATGAGGCAA
* * * * * * * *
31925817 TATTTCGTTTTTGGAAGTTTGGGAAGTCGTGTCCAATCGTGTTGGGCTTCAATTTTCCATTCGAG
1 TATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGAC
** * *
31925882 TAAAATATGGAATATCCTGTTTTGAAATTTCATCCACGCTTTCTTAAAATAAAATGAGGTAA
66 TAAAATACAGAATATCCT-TTTTGAAATTTCATCCACGTTTTCTTAAAATAAAATGAGGCAA
* ** * ** * * * *
31925944 TATTTTGTGCTTGGAAGTTTGGGAGGTCATGCCCAATTGTGCTGGGTTTCGATTTTTTATTCGAC
1 TATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGAC
* * ** *
31926009 TAAAATACAGAATATCC-TTTTGAAATTTCATCCATGTTTTCTCAATTTAAAATGTGGCAA
66 TAAAATACAGAATATCCTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAATGAGGCAA
* * * * *
31926069 TGTTTTGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTC
1 TATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTC
31926119 GGTTTACCGT
Statistics
Matches: 349, Mismatches: 72, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
125 76 0.22
126 16 0.05
127 157 0.45
128 69 0.20
129 18 0.05
130 7 0.02
131 6 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (126 bp):
TATTTCGTATTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGGTTTCAATTTTTCATTCGAC
TAAAATACAGAATATCCTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAATGAGGCAA
Found at i:31937297 original size:64 final size:64
Alignment explanation
Indices: 31937218--31937341 Score: 171
Period size: 64 Copynumber: 1.9 Consensus size: 64
31937208 TCATAATACA
* *
31937218 TCTAGCTAGGAGCACTT-GATTCATTCTAG-TCATAGCATCCTAATTATTTGATATAAGCATCAC
1 TCTAGCTAGGAGCACTTGGATT-ATT-TAGACCATAGCATCCTAATTATTTGACATAAGCATCAC
31937281 G
64 G
* * *
31937282 TCTAGCTAGGAGCACTTGGATTATTTTGACCATAGCATCCTAGTTATTTGGCATAAGCAT
1 TCTAGCTAGGAGCACTTGGATTATTTAGACCATAGCATCCTAATTATTTGACATAAGCAT
31937342 AGATACATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
63 2 0.04
64 47 0.89
65 4 0.08
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (64 bp):
TCTAGCTAGGAGCACTTGGATTATTTAGACCATAGCATCCTAATTATTTGACATAAGCATCACG
Found at i:31937727 original size:134 final size:134
Alignment explanation
Indices: 31937420--31938688 Score: 1774
Period size: 134 Copynumber: 9.5 Consensus size: 134
31937410 CTTATTGTCT
* * *
31937420 TGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATATATTGGCTATGAAGCAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA
* * * *** * ** * **
31937484 TC-AGAAATGGCGAGTCTTATCTC-CATGTACCGGCTA-TGGAGCAGATTTTAGCCA-TTAGTCT
65 TCGA-AAATGACAAGTCTTATCTCTC-TGAAGTTGC-AGTGGAGCAGACTGAAGACAGCAAGTCT
31937545 TATCTTCC
127 TATCTTCC
* *
31937553 TGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
* *
31937618 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
31937683 TTCC
131 TTCC
31937687 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
*
31937752 CGAAAATGACAAATCTTATCT-TCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
66 CGAAAATGACAAGTCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
31937816 CTTCC
130 CTTCC
* *
31937821 TAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
* * * *
31937886 CGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGGCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
31937951 TTCC
131 TTCC
* * * * *
31937955 TGAAGTTACAGGAAGTAGACTGAAAA-TTACAGATCTTATCTCCATATATTGGCTATGAAGCAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA
* * * *** * ** * **
31938019 TC-AGAAATGGCGAGTCTTATCTC-CATGTACCGGCTA-TGGAGCAGATTTTAGCCA-TTAGTCT
65 TCGA-AAATGACAAGTCTTATCTCTC-TGAAGTTGC-AGTGGAGCAGACTGAAGACAGCAAGTCT
31938080 TATCTTCC
127 TATCTTCC
* *
31938088 TGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
* *
31938153 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
31938218 TTCC
131 TTCC
31938222 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
*
31938287 CGAAAATGACAAATCTTATCT-TCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
66 CGAAAATGACAAGTCTTATCTCT-CTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
31938351 CTTCC
130 CTTCC
* *
31938356 TAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
* * * *
31938421 CGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGGCAAGTCTTATC
66 CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
31938486 TTCC
131 TTCC
* * *
31938490 TGAAGTTACAGGAAGTAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGACTATGGAGCAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA
* * *
31938554 TCGAAAATAACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAATACGGCAAGTCTTAT
65 TCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTAT
31938619 CTTCC
130 CTTCC
* *
31938624 TGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATATATCGACTATGGAGCAGA
1 TGAAGTTGCAGGAAGCAGACT-AAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGA
31938688 T
65 T
31938689 TTTAGCCATC
Statistics
Matches: 1022, Mismatches: 95, Indels: 37
0.89 0.08 0.03
Matches are distributed among these distances:
132 10 0.01
133 199 0.19
134 804 0.79
135 9 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (134 bp):
TGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGAT
CGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAGTCTTATC
TTCC
Found at i:31938429 original size:535 final size:535
Alignment explanation
Indices: 31937420--31938688 Score: 2253
Period size: 535 Copynumber: 2.4 Consensus size: 535
31937410 CTTATTGTCT
* *
31937420 TGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
1 TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
31937485 CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGGAGCAGATTTTAGCCATTAGTCTTATCT
66 CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGGAGCAGATTTTAGCCATTAGTCTTATCT
31937550 TCCTGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCA
131 TCCTGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCA
31937615 GATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTT
196 GATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTT
31937680 ATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGG
261 ATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGG
31937745 AGCAGATCGAAAATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAG
326 AGCAGATCGAAAATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAG
31937810 TCTTATCTTCCTAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCT
391 TCTTATCTTCCTAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCT
31937875 ATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGG
456 ATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGG
31937940 CAAGTCTTATCTTCC
521 CAAGTCTTATCTTCC
31937955 TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
1 TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
31938020 CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGGAGCAGATTTTAGCCATTAGTCTTATCT
66 CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGGAGCAGATTTTAGCCATTAGTCTTATCT
31938085 TCCTGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCA
131 TCCTGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCA
31938150 GATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTT
196 GATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTT
31938215 ATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGG
261 ATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGG
31938280 AGCAGATCGAAAATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAG
326 AGCAGATCGAAAATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAG
31938345 TCTTATCTTCCTAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCT
391 TCTTATCTTCCTAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCT
31938410 ATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGG
456 ATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGG
31938475 CAAGTCTTATCTTCC
521 CAAGTCTTATCTTCC
* * * *
31938490 TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATGTATCGACTATGGAGCAGAT
1 TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
** * * *** ** *
31938555 C-GAAAATAACAAGTCTTATCTCTC-TGAAGTTGC-AGTGGAGCAGACTGAATACGGCA--AGTC
66 CAG-AAATGGCGAGTCTTATCTC-CATGTACCGGCTA-TGGAGCAGA-T-TTTA-GCCATTAGTC
* * * *
31938615 TTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATATATCGACTA
125 TTATCTTCCTGAAGTTGCAGGAAGCAAACT-AAAAGTTACAGATCTTATCTCTATGTATCGGCTA
31938679 TGGAGCAGAT
189 TGGAGCAGAT
31938689 TTTAGCCATC
Statistics
Matches: 707, Mismatches: 20, Indels: 13
0.96 0.03 0.02
Matches are distributed among these distances:
534 2 0.00
535 625 0.88
536 71 0.10
537 6 0.01
538 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (535 bp):
TGAAGTTACAGGAAGTAGACTGAAAATTACAGATCTTATCTCCATATATTGGCTATGAAGCAGAT
CAGAAATGGCGAGTCTTATCTCCATGTACCGGCTATGGAGCAGATTTTAGCCATTAGTCTTATCT
TCCTGAAGTTGCAGGAAGCAAACTAAAAGTTACAGATCTTATCTCTATGTATCGGCTATGGAGCA
GATCGAAAATGACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGTAGATAGCAAGTCTT
ATCTTCCTGAAGTTGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCTATGG
AGCAGATCGAAAATGACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAAG
TCTTATCTTCCTAAAGATGCAGGAAGCAGACTAAAAGTTACAGATCTTATCTCCATGTATCGGCT
ATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGG
CAAGTCTTATCTTCC
Found at i:31938687 original size:89 final size:89
Alignment explanation
Indices: 31937540--31938666 Score: 495
Period size: 89 Copynumber: 12.6 Consensus size: 89
31937530 TTTAGCCATT
* * *
31937540 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAAACT-AAAAGTTACAGA-TCTTATCTCTATGTA-T
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAGTCTTATCTC-CTGAAGT
31937602 CGGCTATGGAGCAGA-TCGAAAATGACA
64 CGGC-ATGGAGCAGACT-GAAAATGACA
* * *
31937629 AGTCTTATC-TCTCTGAAGTTGCAGTGGAGCAGACTGTAGA-TAGCA-AGTCTTATCTTCCTGAA
1 AGTCTTATCTTC-CTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGAGTCTTATC-TCCTGAA
* *
31937691 GT-TGCA-GGAAGCAGACT-AAAAGTTAC-
62 GTCGGCATGG-AGCAGACTGAAAA-TGACA
* * * *
31937717 AGATCTTATC-TCCATGTA-TCGGCTATGG-AGCAGA-TCGAAAATGACA-AATCTTATCTTCCT
1 AG-TCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACT-GAAAATTACAGAGTCTTATC-TCCT
*
31937777 GAAGT-TGCAGTGGAGCAGACTGAAGACA-G-CA
59 GAAGTCGGCA-TGGAGCAGACTGAA-A-ATGACA
* * *
31937808 AGTCTTATCTTCCTAAAGATGCAGGAAGCAGACT-AAAAGTTACAGA-TCTTATCTCCATGTA-T
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAGTCTTATCTCC-TGAAGT
31937870 CGGCTATGGAGCAGA-TCGAAAATGACA
64 CGGC-ATGGAGCAGACT-GAAAATGACA
* * * ***
31937897 AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGGCA-AGTCTTATCTTCCTGAAGT
1 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTACAGAGTCTTATC-TCCTGAAGT
** * *
31937961 -TACA-GGAAGTAGACTGAAAATTAC-
64 CGGCATGG-AGCAGACTGAAAATGACA
* * **
31937985 AGATCTTATC-TCCAT-ATA-TTGGCTATGAAGCAGA-TCAGAAATGGC-GAGTCTTATCTCCAT
1 AG-TCTTATCTTCC-TGA-AGTT-GC-AGGAAGCAGACTGA-AAATTACAGAGTCTTATCTCC-T
* * *** *
31938045 GTA-CCGGCTATGGAGCAGA-T-TTTA-GCCA
59 GAAGTCGGC-ATGGAGCAGACTGAAAATGACA
* * *
31938073 TTAGTCTTATCTTCCTGAAGTTGCAGGAAGCAAACT-AAAAGTTACAGA-TCTTATCTCTATGTA
1 --AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAGTCTTATCTC-CTGAA
31938136 -TCGGCTATGGAGCAGA-TCGAAAATGACA
62 GTCGGC-ATGGAGCAGACT-GAAAATGACA
* * *
31938164 AGTCTTATC-TCTCTGAAGTTGCAGTGGAGCAGACTGTAGA-TAGCA-AGTCTTATCTTCCTGAA
1 AGTCTTATCTTC-CTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGAGTCTTATC-TCCTGAA
* *
31938226 GT-TGCA-GGAAGCAGACT-AAAAGTTAC-
62 GTCGGCATGG-AGCAGACTGAAAA-TGACA
* * * *
31938252 AGATCTTATC-TCCATGTA-TCGGCTATGG-AGCAGA-TCGAAAATGACA-AATCTTATCTTCCT
1 AG-TCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACT-GAAAATTACAGAGTCTTATC-TCCT
*
31938312 GAAGT-TGCAGTGGAGCAGACTGAAGACA-G-CA
59 GAAGTCGGCA-TGGAGCAGACTGAA-A-ATGACA
* * *
31938343 AGTCTTATCTTCCTAAAGATGCAGGAAGCAGACT-AAAAGTTACAGA-TCTTATCTCCATGTA-T
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA-TTACAGAGTCTTATCTCC-TGAAGT
31938405 CGGCTATGGAGCAGA-TCGAAAATGACA
64 CGGC-ATGGAGCAGACT-GAAAATGACA
* * * ***
31938432 AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTGAAGACGGCA-AGTCTTATCTTCCTGAAGT
1 AGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTACAGAGTCTTATC-TCCTGAAGT
** * *
31938496 -TACA-GGAAGTAGACTGAAAATTAC-
64 CGGCATGG-AGCAGACTGAAAATGACA
* * *
31938520 AGATCTTATC-TCCATGTA-TCGACTATGG-AGCAGA-TCGAAAATAACA-AGTCTTATCTCTCT
1 AG-TCTTATCTTCC-TGAAGTTG-C-A-GGAAGCAGACT-GAAAATTACAGAGTCTTATCTC-CT
* * * *
31938580 GAAGT-TGCAGTGGAGCAGACTGAATACGGCA
59 GAAGTCGGCA-TGGAGCAGACTGAAAATGACA
31938611 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA-TCTTATCTCC
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAGTCTTATCTCC
31938667 ATATATCGAC
Statistics
Matches: 807, Mismatches: 108, Indels: 247
0.69 0.09 0.21
Matches are distributed among these distances:
87 6 0.01
88 121 0.15
89 428 0.53
90 189 0.23
91 59 0.07
92 2 0.00
93 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (89 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAGTCTTATCTCCTGAAGTCG
GCATGGAGCAGACTGAAAATGACA
Found at i:31940993 original size:127 final size:125
Alignment explanation
Indices: 31940670--31941237 Score: 583
Period size: 127 Copynumber: 4.5 Consensus size: 125
31940660 TCTCAGCATA
* * * * * **
31940670 AGGCAATATTTCGTGTTGGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTGAGCTTCAATTTTTCA
1 AGGCAATATTTCGTATTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTCGTTTTTTCA
* * * * * * *
31940735 TTCCGGCTAAAATACGGAATATCCTTTGGAAATTTCGTCCATGCTTTT-TAAAAAATTAAAAGG
66 TT-CGACTAAAATACGGAATATCCTTTTGAAAATTCATCCACG-TTTTCT-TAAAA-TAAAACG
* *
31940798 AGGCAATATTTCGTATTTGGGGAGTTTGAG-AGATCGTGCCCAATCGTGCTGGGTTTCGTTTTGT
1 AGGCAATATTTCGTATTT-GGAAGTTTGGGAAG-TCGTGCCCAATCGTGCTGGGTTTCGTTTT-T
* * *
31940862 TCATTCGACT-AAATATGGAATATCCTTTTTTTAAAATTCATCCGCGTTTTCTTAAAATAAAACG
63 TCATTCGACTAAAATACGGAATATCC--TTTTGAAAATTCATCCACGTTTTCTTAAAATAAAACG
*
31940926 AGGCAATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTCGTTTTGTTC
1 AGGCAATATTTCGTATTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTCGTTTT-TTC
* * *
31940991 ATTCGACT-AAATATGGAATATCCTTTTTTGAAATTTCATCCACGCTTTCTTAAAATAAAACG
65 ATTCGACTAAAATACGGAATATCC--TTTTGAAAATTCATCCACGTTTTCTTAAAATAAAACG
* * * * **
31941053 AGGTAATATTTCGT-TCTTGGAAGTTTGGGAGGTCGTGCCCAATTGTGCTGAGTTTCAATTTTTC
1 AGGCAATATTTCGTAT-TTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTCGTTTTTTC
* * * ** *
31941117 ATTCGACTAAAATACAGAATATCCTTTTG-AAATTCCATCCATGTTTTCTCAATTTAAAATG
65 ATTCGACTAAAATACGGAATATCCTTTTGAAAATT-CATCCACGTTTTCTTAAAATAAAACG
* * * * **
31941178 TGGCAATGTTTCGTATTTGGAAATTCGATAA-TCGTGCCCAATCGTGCTGGGTTTCAGTTT
1 AGGCAATATTTCGTATTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTC-GTTT
31941238 ACCGTTTGGG
Statistics
Matches: 375, Mismatches: 53, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
124 26 0.07
125 48 0.13
126 13 0.03
127 166 0.44
128 56 0.15
129 46 0.12
130 20 0.05
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (125 bp):
AGGCAATATTTCGTATTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGTTTCGTTTTTTCA
TTCGACTAAAATACGGAATATCCTTTTGAAAATTCATCCACGTTTTCTTAAAATAAAACG
Found at i:31941994 original size:24 final size:23
Alignment explanation
Indices: 31941954--31942006 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
31941944 TATGTATTTT
* *
31941954 TTTATA-TATTTTGTAATTAATA
1 TTTATATTATTTTATAATTAAAA
31941976 TTTATATTAATTTTATAATTAAAA
1 TTTATATT-ATTTTATAATTAAAA
*
31942000 TTCATAT
1 TTTATAT
31942007 CAATCTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 6 0.23
23 1 0.04
24 19 0.73
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATATTATTTTATAATTAAAA
Found at i:31944462 original size:44 final size:44
Alignment explanation
Indices: 31944399--31944575 Score: 354
Period size: 44 Copynumber: 4.0 Consensus size: 44
31944389 GCGAAAATGA
31944399 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
1 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
31944443 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
1 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
31944487 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
1 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
31944531 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
1 AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
31944575 A
1 A
31944576 CCTACGCATC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 133 1.00
ACGTcount: A:0.39, C:0.18, G:0.36, T:0.07
Consensus pattern (44 bp):
AAGGCAAGGAAAGTGGATGACGGGAAACCCGAAGGGTGACAACC
Found at i:31950672 original size:18 final size:18
Alignment explanation
Indices: 31950632--31950687 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
31950622 TTAACTTGTG
*
31950632 AATTTAAAATAAAATATT
1 AATTTATAATAAAATATT
*
31950650 AATTTATAATAATAT-TT
1 AATTTATAATAAAATATT
*
31950667 ATATTTTATAATTAAAT-TT
1 A-A-TTTATAATAAAATATT
31950686 AA
1 AA
31950688 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 14 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTATAATAAAATATT
Found at i:31950685 original size:19 final size:21
Alignment explanation
Indices: 31950652--31950700 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
31950642 AAAATATTAA
31950652 TTTATAA-TAATATTT-ATAT
1 TTTATAATTAATATTTAATAT
31950671 TTTATAATTAA-ATTTAAATAT
1 TTTATAATTAATATTT-AATAT
31950692 TTT-TAATTA
1 TTTATAATTA
31950701 TTATATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATAATTAATATTTAATAT
Found at i:31960919 original size:22 final size:22
Alignment explanation
Indices: 31960894--31960938 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
31960884 TAAAAAATTG
31960894 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
31960916 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
31960938 T
1 T
31960939 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:31963425 original size:22 final size:22
Alignment explanation
Indices: 31963397--31963441 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
31963387 AGGGGGAGTG
31963397 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
31963419 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
31963441 T
1 T
31963442 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:31967889 original size:20 final size:21
Alignment explanation
Indices: 31967845--31967889 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31967835 AAAATTAAAC
*
31967845 CAAATTAAATGTCCACAAGTT
1 CAAATTAAATATCCACAAGTT
* *
31967866 CAAATTACATATCC-CAATTT
1 CAAATTAAATATCCACAAGTT
31967886 CAAA
1 CAAA
31967890 CCCAAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (21 bp):
CAAATTAAATATCCACAAGTT
Found at i:31975030 original size:131 final size:131
Alignment explanation
Indices: 31974771--31975234 Score: 472
Period size: 131 Copynumber: 3.5 Consensus size: 131
31974761 TTATAATCAT
* * * * * *
31974771 TCATGTTTTCTAAAAACCCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGT
1 TCATG-TTTCTAAAAACTCTATAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGAGGAATCGT
* * * * * * *
31974836 GCCCTAAT-GTGCTGGGTCGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTGGAATTT
65 GCCCT-ATCGTGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTT
*
31974900 CAT
129 CAC
* *
31974903 TCATGCTTTCTAAAAACTCTATAAAACGAAGGTAATACTCGATGTTTGGCAATTCG-GGAATCGT
1 TCATG-TTTCTAAAAACTCTATAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGAGGAATCGT
* * *
31974967 GCCCTATCGTGTTGGGTTGCAATTTCCCGTTCATTCAAAACAATCGAATATTCCTTTGAAATTTC
65 GCCCTATCGTGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTTC
31975032 AC
130 AC
* * * * * * *
31975034 CCATGTCAT-TAAAGATTCTATAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGT
1 TCATGT-TTCTAAAAACTCTATAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGAGGAATCGT
** * * ** *
31975098 GCCCTATCGTGCTGGGTTGTGATTTCCTGTTGGTTTTAAATAATCAAATATTCCCTTT-AGAATT
65 GCCCTATCGTGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATATT-CCTTTGA-AATT
31975162 TCAC
128 TCAC
* * * * * *
31975166 TCATGTTTCTTAAAAATTCTA-AAAA-TAAAGCAATGCTCGATGTTTAGAAATTCGAGAAATCGT
1 TCATGTTTC-TAAAAACTCTATAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGAGGAATCGT
31975229 GCCCTA
65 GCCCTA
31975235 ATGTGCTAGG
Statistics
Matches: 279, Mismatches: 46, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
130 45 0.16
131 154 0.55
132 70 0.25
133 10 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
TCATGTTTCTAAAAACTCTATAAAACGAAGGCAATGCTCGATGTTTGGCAATTCGAGGAATCGTG
CCCTATCGTGCTGGGTTGCAATTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTTCA
C
Found at i:31978313 original size:44 final size:44
Alignment explanation
Indices: 31978265--31978354 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
31978255 TCATTATTTA
31978265 TTGTCTTTATTTACTTACATTTAAAATTATCAGGATTAAATTAT
1 TTGTCTTTATTTACTTACATTTAAAATTATCAGGATTAAATTAT
* *
31978309 TTGTCTTTATTTACTTACATTTAAATTTATCGGGATTAAATTAT
1 TTGTCTTTATTTACTTACATTTAAAATTATCAGGATTAAATTAT
31978353 TT
1 TT
31978355 TAATTTTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (44 bp):
TTGTCTTTATTTACTTACATTTAAAATTATCAGGATTAAATTAT
Found at i:31987514 original size:20 final size:20
Alignment explanation
Indices: 31987489--31987549 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31987479 AGGGGCACAC
*
31987489 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGAACAT
*
31987509 GCCCGTGTGGCTTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
31987529 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
31987549 G
1 G
31987550 GACGTATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.13, C:0.28, G:0.38, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:31994698 original size:20 final size:20
Alignment explanation
Indices: 31994670--31994730 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31994660 AGGGGCATAC
*
31994670 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGAACAT
*
31994690 GCCCATGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
31994710 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
31994730 G
1 G
31994731 GACATATTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:31997589 original size:131 final size:132
Alignment explanation
Indices: 31997273--31997635 Score: 317
Period size: 131 Copynumber: 2.8 Consensus size: 132
31997263 TAGAGAGTAT
* * ***
31997273 GAGTGAAA-TTCTAAAGGAATCTTCGATCATTTTGGTTAAAC-AGGAAATTGCAACCCAGCACGA
1 GAGTGAAATTTC-AAAGGAATCTTCGATTATCTTGAACAAACGA-GAAATTGCAACCCAGCACGA
* * * **
31997336 TAGGGCACGATTCCCCGAATTGCCAAACATCGAATATTACCCTCGTTTTGAAGAGTTTTTAGAAA
64 TAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTACCCTCATTTCAAAGAGTTTTTAGAAA
*
31997401 ACAT
129 ACAC
* * * * * ** * *
31997405 GAGTGAAATTTCGAAGGAATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCTAGCATGATA
1 GAGTGAAATTTCAAAGGAATCTTCGATTATCTTGAACAAACGAGAAATTGCAACCCAGCACGATA
* ** * * *
31997470 GGGCATGATT-CTTGAGTCGCCAAACATCGAACACTT-CCTTCATTTCAAAGAGTTTTTAGGAAA
66 GGGCACGATTCCCCGAATCGCCAAACATCGAACA-TTACCCTCATTTCAAAGAGTTTTTAGAAAA
31997533 CAC
130 CAC
* *
31997536 GAGTGAAA-TTCTAAAGGGA-CATTCGATTATCTT-AAGCAAACGAGAAATTGCAACCCAACACG
1 GAGTGAAATTTC-AAAGGAATC-TTCGATTATCTTGAA-CAAACGAGAAATTGCAACCCAGCACG
* * ** * *
31997598 ATAAGGCACGATTTCGAGAATTGCCAAACACCGAACAT
63 ATAGGGCACGATTCCCCGAATCGCCAAACATCGAACAT
31997636 CGCCTTCGTT
Statistics
Matches: 182, Mismatches: 42, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
130 6 0.03
131 96 0.53
132 76 0.42
133 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (132 bp):
GAGTGAAATTTCAAAGGAATCTTCGATTATCTTGAACAAACGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCCCGAATCGCCAAACATCGAACATTACCCTCATTTCAAAGAGTTTTTAGAAAAC
AC
Found at i:32004353 original size:48 final size:47
Alignment explanation
Indices: 32004292--32004742 Score: 532
Period size: 48 Copynumber: 9.3 Consensus size: 47
32004282 TATGGTCTTA
* *
32004292 CACATATTCACATATTGATGCCATAGCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATACCCAGCTATGGTCTTACACG-AAT
* *
32004341 CACATATCACATATCGATGTCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATA-CCCAGCTATGGTCTTACACGAAT
*
32004389 CACATATCACATATCGATGCCATAACCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCAT-ACCCAGCTATGGTCTTACACGAAT
*
32004437 CACATATCACATATCGATGCCATAACCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCAT-ACCCAGCTATGGTCTTACACGAAT
*
32004485 CACATATCACATATCGATGCCATAACCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCAT-ACCCAGCTATGGTCTTACACGAAT
32004533 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATA-CCCAGCTATGGTCTTACACGAAT
* * * * * *
32004581 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATA-CCCAGCTATGGTCTTACAC-GAAT
* * * * *
32004628 CATATATCAC--ATCGATGCCATATTCCAGATATGGTCTTATACGGAAG
1 CACATATCACATATCGATGCCATA-CCCAGCTATGGTCTTACAC-GAAT
* *
32004675 CACATAATCACATCTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACAT-ATCACA--TAT-CGATGCCATA-CCCAGCTATGGTCTTACAC-G-AAT
32004729 CACATATCACATAT
1 CACATATCACATAT
32004743 TACCATGGTC
Statistics
Matches: 364, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
46 27 0.07
47 47 0.13
48 219 0.60
49 26 0.07
51 2 0.01
52 1 0.00
53 35 0.10
54 7 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATATCACATATCGATGCCATACCCAGCTATGGTCTTACACGAAT
Found at i:32004443 original size:96 final size:96
Alignment explanation
Indices: 32004257--32004742 Score: 591
Period size: 96 Copynumber: 5.1 Consensus size: 96
32004247 TTACACATCT
* *
32004257 TCACATAAT-GATGACATAGCCCAGCTATGGTCTTACAC--AT---AT-TCACATATTGATGCCA
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCA
* *
32004315 T-AGCCAGCTATGGTCTTACACGTAATCACATA
65 TAACCCAGCTATGGTCTTACACG-GATCACATA
*
32004347 TCACATATCGATGTCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
32004412 AACCCAGCTATGGTCTTACACGGATCACATA
66 AACCCAGCTATGGTCTTACACGGATCACATA
*
32004443 TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
32004508 AACCCAGCTATGGTCTTACACGGATCACATA
66 AACCCAGCTATGGTCTTACACGGATCACATA
* * *
32004539 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-GATGCCAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
* * * * * *
32004602 ATCCCAGATATGGTCTTATACAGTAGCATATA
66 AACCCAGCTATGGTCTTACAC-GGATCACATA
** * * * *
32004634 TCAC--ATCGATGCCATATTCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCCGAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGG-ATCACAT-ATCACA--TAT-CGAT
* *
32004697 GCCATAGCCCAGCTATGGTCTTATACGGAAATCACATA
61 GCCATAACCCAGCTATGGTCTTACACGG--ATCACATA
32004735 TCACATAT
1 TCACATAT
32004743 TACCATGGTC
Statistics
Matches: 348, Mismatches: 28, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
89 2 0.01
90 34 0.10
92 2 0.01
93 29 0.08
94 32 0.09
95 19 0.05
96 168 0.48
97 20 0.06
98 2 0.01
99 1 0.00
100 27 0.08
101 10 0.03
103 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (96 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
AACCCAGCTATGGTCTTACACGGATCACATA
Found at i:32004514 original size:144 final size:143
Alignment explanation
Indices: 32004257--32004742 Score: 589
Period size: 144 Copynumber: 3.4 Consensus size: 143
32004247 TTACACATCT
*
32004257 TCACATAAT-GATGACATAGCCCAGCTATGGTCTTACAC--AT---AT-TCACATATTGATGCCA
1 TCACAT-ATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATA-TGATGCCA
* * *
32004315 T-AGCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGTCATAGCCCAGCTATGGTC
64 TAACCCAGCTATGGTCTTACACG-AATCACATATCACATATCGATGCCATAACCCAGCTATGGTC
32004379 TTACACGGATCACATA
128 TTACACGGATCACATA
*
32004395 TCACATATCGATGCCATAACCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCAT
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATAT-GATGCCAT
*
32004460 AACCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCATAACCCAGCTATGGTCTT
65 AACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAACCCAGCTATGGTCTT
32004525 ACACGGATCACATA
130 ACACGGATCACATA
* * *
32004539 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CTGATGCCATA
1 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATGATGCCATA
* * * * * * ** *
32004603 TCCCAGATATGGTCTTATACAGTAGCATATATCAC--ATCGATGCCATATTCCAGATATGGTCTT
66 ACCCAGCTATGGTCTTACAC-GAATCACATATCACATATCGATGCCATAACCCAGCTATGGTCTT
* *
32004666 ATACGGAAGCACATAA
130 ACACGG-ATCACAT-A
* *
32004682 TCACATCTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCACATAT
1 TCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACACGG--ATCACATATCACATAT
32004743 TACCATGGTC
Statistics
Matches: 304, Mismatches: 26, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
137 2 0.01
138 33 0.11
140 2 0.01
141 30 0.10
142 32 0.11
143 21 0.07
144 119 0.39
145 22 0.07
146 30 0.10
148 12 0.04
149 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (143 bp):
TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATGATGCCATA
ACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAACCCAGCTATGGTCTTA
CACGGATCACATA
Found at i:32004720 original size:53 final size:51
Alignment explanation
Indices: 32004579--32004740 Score: 179
Period size: 53 Copynumber: 3.1 Consensus size: 51
32004569 TCTTACACGA
* * *
32004579 ATCACATATCTCACTGATGCCATATCCCAGATATGGTCTTATACAGTAGCATAT
1 ATCACAT-TCTC-C-GATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT
*
32004633 ATCACA---T-CGATGCCATATTCCAGATATGGTCTTATACGGAAGCACAT
1 ATCACATTCTCCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT
* * *
32004680 AATCACATCTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACAT
1 -ATCACAT-TCTCCGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACAT
32004734 ATCACAT
1 ATCACAT
32004741 ATTACCATGG
Statistics
Matches: 93, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
47 35 0.38
48 7 0.08
50 1 0.01
52 1 0.01
53 36 0.39
54 13 0.14
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (51 bp):
ATCACATTCTCCGATGCCATATCCCAGATATGGTCTTATACGGAAGCACAT
Found at i:32008645 original size:5 final size:5
Alignment explanation
Indices: 32008637--32008670 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
32008627 ATATAATGCA
32008637 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
32008671 ATAATATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:32008797 original size:12 final size:12
Alignment explanation
Indices: 32008780--32008834 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
32008770 TATATATACG
32008780 TAGTAATAGTTT
1 TAGTAATAGTTT
*
32008792 TAGTAATAGTTA
1 TAGTAATAGTTT
*
32008804 TA-T-ATA--TG
1 TAGTAATAGTTT
*
32008812 TAGCAATAGTTT
1 TAGTAATAGTTT
32008824 TAGTAATAGTT
1 TAGTAATAGTT
32008835 ATATACTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
8 3 0.09
10 6 0.18
11 1 0.03
12 24 0.71
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (12 bp):
TAGTAATAGTTT
Found at i:32008804 original size:32 final size:32
Alignment explanation
Indices: 32008764--32008839 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
32008754 ATAATATAAC
*
32008764 AATAGTTATATATACGTAGTAATAGTTTTAGT
1 AATAGTTATATATACGTAGCAATAGTTTTAGT
*
32008796 AATAGTTATATATATGTAGCAATAGTTTTAGT
1 AATAGTTATATATACGTAGCAATAGTTTTAGT
32008828 AATAGTTATATA
1 AATAGTTATATA
32008840 CTATGGGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (32 bp):
AATAGTTATATATACGTAGCAATAGTTTTAGT
Found at i:32008932 original size:19 final size:19
Alignment explanation
Indices: 32008889--32008926 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32008879 AAACTAAAGT
32008889 AGTTTTACTACATTTCATA
1 AGTTTTACTACATTTCATA
*
32008908 AGTTTTACTATATTTCATA
1 AGTTTTACTACATTTCATA
32008927 TTTTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (19 bp):
AGTTTTACTACATTTCATA
Found at i:32009408 original size:20 final size:20
Alignment explanation
Indices: 32009371--32009408 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32009361 TTTTGGACCA
*
32009371 ATTAATAGTTATATATATGT
1 ATTAATAGTTATAAATATGT
*
32009391 ATTAATAGTTTTAAATAT
1 ATTAATAGTTATAAATAT
32009409 ATTAGTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTAATAGTTATAAATATGT
Found at i:32011750 original size:18 final size:19
Alignment explanation
Indices: 32011719--32011761 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
32011709 GAAAAAAATA
*
32011719 TTTTAAAATGTATA-ACATT
1 TTTTAAAATATATATA-ATT
32011738 TTTTAAAA-ATATATAATT
1 TTTTAAAATATATATAATT
32011756 TTTTAA
1 TTTTAA
32011762 CACATAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTTAAAATATATATAATT
Found at i:32011915 original size:9 final size:9
Alignment explanation
Indices: 32011901--32011948 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 9
32011891 TTTTAAAATT
32011901 TAAAATATA
1 TAAAATATA
32011910 T-AAA-ATA
1 TAAAATATA
*
32011917 TAAAATATT
1 TAAAATATA
32011926 TAAAATTATA
1 TAAAA-TATA
32011936 TAAAAT-TA
1 TAAAATATA
32011944 TAAAA
1 TAAAA
32011949 AAATATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 4 0.12
8 13 0.38
9 9 0.26
10 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATA
Found at i:32011915 original size:16 final size:16
Alignment explanation
Indices: 32011894--32011932 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
32011884 ATTATTATTT
32011894 TAAAATTTAAAATATA
1 TAAAATTTAAAATATA
* *
32011910 TAAAATATAAAATATT
1 TAAAATTTAAAATATA
32011926 TAAAATT
1 TAAAATT
32011933 ATATAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATTTAAAATATA
Found at i:32011940 original size:26 final size:26
Alignment explanation
Indices: 32011898--32011948 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
32011888 TTATTTTAAA
32011898 ATTTAAAATATATAAAA-TATAAAAT
1 ATTTAAAATATATAAAATTATAAAAT
32011923 ATTTAAAATTATATAAAATTATAAAA
1 ATTTAAAA-TATATAAAATTATAAAA
32011949 AAATATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 8 0.33
26 9 0.38
27 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTAAAATATATAAAATTATAAAAT
Found at i:32011941 original size:10 final size:10
Alignment explanation
Indices: 32011914--32011959 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
32011904 AATATATAAA
32011914 ATATAAAA-T
1 ATATAAAATT
*
32011923 ATTTAAAATT
1 ATATAAAATT
32011933 ATATAAAATT
1 ATATAAAATT
* *
32011943 ATAAAAAAAT
1 ATATAAAATT
32011953 AT-TAAAA
1 ATATAAAA
32011960 CTATTATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 11 0.35
10 20 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATAAAATT
Found at i:32012375 original size:23 final size:25
Alignment explanation
Indices: 32012349--32012400 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
32012339 AATTTTAATA
32012349 AATAGAAATAT-TAAATT-AAAAAT
1 AATAGAAATATATAAATTAAAAAAT
* **
32012372 AATATAAATATATATTTTAAAAAAT
1 AATAGAAATATATAAATTAAAAAAT
32012397 AATA
1 AATA
32012401 TGAGTGGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 4 0.17
25 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
AATAGAAATATATAAATTAAAAAAT
Found at i:32012674 original size:17 final size:17
Alignment explanation
Indices: 32012652--32012702 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
32012642 TTTAAAATAC
32012652 ATAAAATTTGATATTTT
1 ATAAAATTTGATATTTT
* *
32012669 ATAAAATCTGGTA--TT
1 ATAAAATTTGATATTTT
*
32012684 ATAAAATTTGATTTTTT
1 ATAAAATTTGATATTTT
32012701 AT
1 AT
32012703 TATAAATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 12 0.44
17 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (17 bp):
ATAAAATTTGATATTTT
Found at i:32012728 original size:17 final size:16
Alignment explanation
Indices: 32012702--32012735 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32012692 TGATTTTTTA
32012702 TTATAAATTTATAAATT
1 TTATAAATTT-TAAATT
*
32012719 TTATATATTTTAAATT
1 TTATAAATTTTAAATT
32012735 T
1 T
32012736 CAAATGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAAATTTTAAATT
Found at i:32013124 original size:24 final size:24
Alignment explanation
Indices: 32013097--32013143 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32013087 TAGCCTTAAC
*
32013097 CTCTTATTT-TCCACATTTTACCCT
1 CTCTTATTTCTCCA-AATTTACCCT
32013121 CTCTTATTTCTCCAAATTTACCC
1 CTCTTATTTCTCCAAATTTACCC
32013144 AAGAAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (24 bp):
CTCTTATTTCTCCAAATTTACCCT
Found at i:32013787 original size:15 final size:15
Alignment explanation
Indices: 32013767--32013797 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32013757 GCAATTCGTG
32013767 TGTGGTCGTTAAATT
1 TGTGGTCGTTAAATT
32013782 TGTGGTCGTTAAATT
1 TGTGGTCGTTAAATT
32013797 T
1 T
32013798 CCCATGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.48
Consensus pattern (15 bp):
TGTGGTCGTTAAATT
Found at i:32015161 original size:285 final size:285
Alignment explanation
Indices: 32014643--32015216 Score: 752
Period size: 285 Copynumber: 2.0 Consensus size: 285
32014633 GGACCCTAAC
*
32014643 TTGGATAAAATAGTAGTAAAAGATTTTGAGCCTTCTATCTTCAAGGTGATGCTTCCTTTTACTTT
1 TTGGATAAAATAGTAATAAAAGATTTTGAGCCTTCTATCTTCAAGGTGATGCTTCCTTTTACTTT
* * *
32014708 CTTTTGGTTTTGGACTTCGAAGAATAACCAACAATTAAGTATATTGCATAAGGAAACCCTTGAAA
66 C---T--TTTTGGACTTCGAAGAATAACCAACAATTAAGCATATTGCACAAGCAAACCCTTGAAA
*
32014773 TAAATATATGATTCTTCTCAATTAATTGAAATAGAAATAAGGTTCAATAAACTGTAGTTCTTATA
126 T-AATATATGATTCTTCTCAATTAATTGAAATAGAAATAAGGTTCAACAAACTGTAGTTCTTATA
* *
32014838 TTTGCTTGGATGTGAAGATTCAAGTGTAGATTTTAGTTATATAGATGTGCTTTTTCATTCATTGG
190 TTTGCTTGGATGTGAAGATCCAAGTATAGATTTTAGTTATATAGATGTGCTTTTTCATTCATTGG
32014903 CTAATGAAAGGATCAACTCAAATGAGAATTCAT
255 CTAATG-AA-GATCAACTCAAATGAGAATTCAT
* * * *
32014936 TTGGATAAAGA-AGTAATGAAAGATTTTGAGTCTTCTATCTTCAAGGTGATGCTTTCTTTTAGTT
1 TTGGATAAA-ATAGTAATAAAAGATTTTGAGCCTTCTATCTTCAAGGTGATGCTTCCTTTTACTT
*
32015000 TC-TTTTGGACTTTGAAGAATGAACCTAA-AATTAAGCATATTGCACAAGCAAACCCTTGAAAT-
65 TCTTTTTGGACTTCGAAGAAT-AACC-AACAATTAAGCATATTGCACAAGCAAACCCTTGAAATA
* * * * *
32015062 A-ATGTGATTCTTCAT-AATTCATTTG-ATTAGAAAT-AGGATTCAACAAATTGTGGTTCTTATA
128 ATATATGATTCTTC-TCAATT-AATTGAAATAGAAATAAGG-TTCAACAAACTGTAGTTCTTATA
* * *
32015123 TTTGCCTT-GATGTGAAGATCCAAGTATAGATTTTAGTTATGTTGATGTGCTTTTTCATTTATTG
190 TTTG-CTTGGATGTGAAGATCCAAGTATAGATTTTAGTTATATAGATGTGCTTTTTCATTCATTG
* *
32015187 GCTAATGAATATCATCTCAAATGAGAATTC
254 GCTAATGAAGATCAACTCAAATGAGAATTC
32015217 GTCATTACCC
Statistics
Matches: 252, Mismatches: 22, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
283 19 0.08
284 5 0.02
285 105 0.42
286 9 0.04
287 17 0.07
288 35 0.14
289 2 0.01
293 59 0.23
294 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (285 bp):
TTGGATAAAATAGTAATAAAAGATTTTGAGCCTTCTATCTTCAAGGTGATGCTTCCTTTTACTTT
CTTTTTGGACTTCGAAGAATAACCAACAATTAAGCATATTGCACAAGCAAACCCTTGAAATAATA
TATGATTCTTCTCAATTAATTGAAATAGAAATAAGGTTCAACAAACTGTAGTTCTTATATTTGCT
TGGATGTGAAGATCCAAGTATAGATTTTAGTTATATAGATGTGCTTTTTCATTCATTGGCTAATG
AAGATCAACTCAAATGAGAATTCAT
Found at i:32020075 original size:3 final size:3
Alignment explanation
Indices: 32020067--32020094 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
32020057 TTTTACAATC
32020067 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
32020095 ATGTTATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:32021298 original size:20 final size:20
Alignment explanation
Indices: 32021257--32021302 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32021247 ATTTAGAAAC
* * *
32021257 AAGAA-ATTAGTAAGAAGTG
1 AAGAATATTAGAAAAAAGAG
32021276 AAGAATATTAGAAAAAAGAG
1 AAGAATATTAGAAAAAAGAG
32021296 AAGAATA
1 AAGAATA
32021303 ATGATGAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (20 bp):
AAGAATATTAGAAAAAAGAG
Found at i:32023582 original size:15 final size:17
Alignment explanation
Indices: 32023562--32023593 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32023552 CATTTGATTT
32023562 GTTGTTT-T-GTTTTTG
1 GTTGTTTATGGTTTTTG
32023577 GTTGTTTATGGTTTTTG
1 GTTGTTTATGGTTTTTG
32023594 TTTATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (17 bp):
GTTGTTTATGGTTTTTG
Found at i:32023816 original size:6 final size:6
Alignment explanation
Indices: 32023805--32023838 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
32023795 TCTCAACCCT
32023805 CCAATC CCAATC CCAATC CC-A-C CCAATC CCAATC
1 CCAATC CCAATC CCAATC CCAATC CCAATC CCAATC
32023839 TCATCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.12
5 2 0.08
6 21 0.81
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (6 bp):
CCAATC
Found at i:32048619 original size:21 final size:21
Alignment explanation
Indices: 32048593--32048632 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32048583 TTAAATTGAT
32048593 CATATTGAAAAAAAAGAAACA
1 CATATTGAAAAAAAAGAAACA
* *
32048614 CATATTGAAATAATAGAAA
1 CATATTGAAAAAAAAGAAA
32048633 AACTCAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (21 bp):
CATATTGAAAAAAAAGAAACA
Found at i:32052450 original size:43 final size:44
Alignment explanation
Indices: 32052389--32052481 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
32052379 TCCTAATTGG
32052389 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
32052432 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
32052476 -AAAATA
1 GAAAATA
32052482 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:32053692 original size:20 final size:20
Alignment explanation
Indices: 32053644--32053696 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
32053634 ATCCGATTTT
*
32053644 GGTATCAATA-CTTATTAGG
1 GGTATCAATACCTTATTAGA
* * *
32053663 GGTATAAATACCTTGTTATA
1 GGTATCAATACCTTATTAGA
32053683 GGTATCAATACCTT
1 GGTATCAATACCTT
32053697 TGATTTTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
GGTATCAATACCTTATTAGA
Found at i:32059012 original size:18 final size:18
Alignment explanation
Indices: 32058959--32059009 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
32058949 AGCACGTAAT
* *
32058959 ATTAATT-AATGAGTTTG
1 ATTAATTCAATTAATTTG
*
32058976 GTTAATTCAATTAATTTG
1 ATTAATTCAATTAATTTG
*
32058994 ATTAATT-ATTTAATTT
1 ATTAATTCAATTAATTT
32059010 TGAACCGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (18 bp):
ATTAATTCAATTAATTTG
Found at i:32061830 original size:24 final size:24
Alignment explanation
Indices: 32061779--32061849 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
32061769 TTAGATAATT
* *
32061779 ATATATAAAATTTTAATAAATAAAAA
1 ATATATAAAA--TTATTAAATATAAA
*
32061805 ATATATAAAATTATTAAATATTAA
1 ATATATAAAATTATTAAATATAAA
*
32061829 AT-TA-AAAATAATATAAATATA
1 ATATATAAAATTAT-TAAATATA
32061850 TATTTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 13 0.33
26 10 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATATAAAATTATTAAATATAAA
Found at i:32063196 original size:60 final size:60
Alignment explanation
Indices: 32063071--32063201 Score: 156
Period size: 60 Copynumber: 2.2 Consensus size: 60
32063061 ATTAGTAAAT
* * * ** * **
32063071 TTCTTTTTTGATCACTTAACTATCAAAAGTTACAATATGGTCACTTAATTATTTGATTTG
1 TTCTTTTTTGGTCACTCAACTATCAAAAGTTACAAAATGGTCACCAAACTATTCAATTTG
**
32063131 TTCTTTTTTGGTCACTCAACTATGGAAAGTTACAAAATGGTCACCAAACTATTCAATTT-
1 TTCTTTTTTGGTCACTCAACTATCAAAAGTTACAAAATGGTCACCAAACTATTCAATTTG
32063190 TGTCTTTTTTGG
1 T-TCTTTTTTGG
32063202 CCACCATTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 59 0.98
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (60 bp):
TTCTTTTTTGGTCACTCAACTATCAAAAGTTACAAAATGGTCACCAAACTATTCAATTTG
Found at i:32063750 original size:31 final size:31
Alignment explanation
Indices: 32063707--32063767 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
32063697 TACAATTTGG
* *
32063707 TCATTAAGTTATTCGAATGTTTTCATTTAAA
1 TCATTAAGTTATTCAAAAGTTTTCATTTAAA
*
32063738 TCATTGAA-TTATTCAAAAGTTTTTATTTAA
1 TCATT-AAGTTATTCAAAAGTTTTCATTTAA
32063768 GTTACTAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (31 bp):
TCATTAAGTTATTCAAAAGTTTTCATTTAAA
Found at i:32078657 original size:16 final size:15
Alignment explanation
Indices: 32078637--32078704 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
32078627 GGGAGGAATG
*
32078637 GAATAGAACTGTAAT
1 GAATAGAGCTGTAAT
*
32078652 GTAATAGAGTTGTAAT
1 G-AATAGAGCTGTAAT
32078668 GGAATAGAGCTGTAAT
1 -GAATAGAGCTGTAAT
*
32078684 AGAATAGACCTGTAAT
1 -GAATAGAGCTGTAAT
32078700 GAATA
1 GAATA
32078705 ATTCAGTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 6 0.13
16 39 0.85
17 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:32078674 original size:32 final size:32
Alignment explanation
Indices: 32078633--32078704 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
32078623 GGTTGGGAGG
**
32078633 AATGGAATAGAACTGTAAT-GTAATAGAGTTGT
1 AATGGAATAGAACTGTAATAG-AATAGACCTGT
*
32078665 AATGGAATAGAGCTGTAATAGAATAGACCTGT
1 AATGGAATAGAACTGTAATAGAATAGACCTGT
32078697 AAT-GAATA
1 AATGGAATA
32078705 ATTCAGTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 5 0.14
32 30 0.83
33 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.28
Consensus pattern (32 bp):
AATGGAATAGAACTGTAATAGAATAGACCTGT
Found at i:32078919 original size:26 final size:26
Alignment explanation
Indices: 32078864--32078919 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
32078854 TTTTAAATTT
* * * *
32078864 TAATAAAATTATTATTAAATATAATT
1 TAATAAAAATAATAATAAATATAATA
32078890 TAATAAAAATAATAATAAATAATAA-A
1 TAATAAAAATAATAATAAAT-ATAATA
32078916 TAAT
1 TAAT
32078920 TTAATCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TAATAAAAATAATAATAAATATAATA
Found at i:32079023 original size:57 final size:58
Alignment explanation
Indices: 32078899--32079032 Score: 143
Period size: 57 Copynumber: 2.3 Consensus size: 58
32078889 TTAATAAAAA
* * *
32078899 TAATAATAAATAATAAATAATTTAATCATATTTTAACATAAGTATTATTAAATATAATT
1 TAATAA-AAATAATATATAATTTAATAACATTTTAACATAAGTATTATTAAATATAATT
*
32078958 TAAT-AAAATAATATATAATTTAATAACATTCTT-A-AT-ATTATTATTAAATTATGAA-T
1 TAATAAAAATAATATATAATTTAATAACATT-TTAACATAAGTATTATTAAA-TAT-AATT
*
32079014 TAATAAAAATCATAATATA
1 TAATAAAAATAAT-ATATA
32079033 TAATATTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
55 11 0.17
56 10 0.15
57 32 0.49
58 8 0.12
59 4 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (58 bp):
TAATAAAAATAATATATAATTTAATAACATTTTAACATAAGTATTATTAAATATAATT
Found at i:32084030 original size:154 final size:154
Alignment explanation
Indices: 32083743--32084046 Score: 482
Period size: 154 Copynumber: 2.0 Consensus size: 154
32083733 CAATTTTGTT
* * *
32083743 GCATATTTTGGAAATCTTGAGATGATCTCAGTTTTTGGAGGCTTAAAATATCGTGTCCTAACGAG
1 GCATATTTTGGAAATCTTAAGACGATCTCAGTTTTTGAAGGCTTAAAATATCGTGTCCTAACGAG
* * * **
32083808 ATGGATGTGGTATTTTATTTCTTTGGAACGAGTGAATCTTGAAATCTGACTCAAGTTGTTCACAC
66 ATGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTTAAAATCCAACTCAAGTTGTTCACAC
32083873 ATTTTTAAGGGGATCGTATTCATC
131 ATTTTTAAGGGGATCGTATTCATC
* *
32083897 GCATATTTTGGAAATCTTAAGGCGATCTCAGTTTTTGAAGGCTTAAAATATCGTGTCCTAACGTG
1 GCATATTTTGGAAATCTTAAGACGATCTCAGTTTTTGAAGGCTTAAAATATCGTGTCCTAACGAG
* * * *
32083962 CTGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTTAAAATCCAACTCGAGTTGTTTACGC
66 ATGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTTAAAATCCAACTCAAGTTGTTCACAC
32084027 ATTTTTAAGGGGATCGTATT
131 ATTTTTAAGGGGATCGTATT
32084047 TTAACATTTT
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 136 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (154 bp):
GCATATTTTGGAAATCTTAAGACGATCTCAGTTTTTGAAGGCTTAAAATATCGTGTCCTAACGAG
ATGGATGTGGTATTTTATTCCTTTGGAACAAGTGAATCTTAAAATCCAACTCAAGTTGTTCACAC
ATTTTTAAGGGGATCGTATTCATC
Found at i:32090754 original size:21 final size:21
Alignment explanation
Indices: 32090711--32090754 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32090701 CTTTCATGTC
* *
32090711 TTATTTTGAGCAAATATTCTT
1 TTATCTTGAGCAAATATTATT
32090732 TTATCTTGAGCAAACT-TTATT
1 TTATCTTGAGCAAA-TATTATT
32090753 TT
1 TT
32090755 CTTAGATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (21 bp):
TTATCTTGAGCAAATATTATT
Found at i:32093970 original size:10 final size:10
Alignment explanation
Indices: 32093964--32093989 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32093954 TTATTTTTTC
32093964 TTTTTTTCTT
1 TTTTTTTCTT
32093974 TTTTTTTCTT
1 TTTTTTTCTT
32093984 TTTTTT
1 TTTTTT
32093990 ATGGGGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:32102156 original size:16 final size:16
Alignment explanation
Indices: 32102126--32102173 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
32102116 GAAAATTAAT
32102126 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
32102141 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
32102158 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
32102173 A
1 A
32102174 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:32102172 original size:11 final size:11
Alignment explanation
Indices: 32102117--32102187 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
32102107 ATAGCTTAAG
*
32102117 AAAATTAATAT
1 AAAATTAAAAT
32102128 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
32102140 AATAA-T-AATT
1 AA-AATTAAAAT
*
32102150 AAAAAT-AAAT
1 AAAATTAAAAT
32102160 AAAATTAAAAT
1 AAAATTAAAAT
*
32102171 AAACTTAAAAT
1 AAAATTAAAAT
*
32102182 AGAATT
1 AAAATT
32102188 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:32105598 original size:129 final size:130
Alignment explanation
Indices: 32105342--32105634 Score: 507
Period size: 129 Copynumber: 2.2 Consensus size: 130
32105332 AAATGGCGAG
* *
32105342 TCTTATCTCCATGTATCGGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTT--A
*
32105407 GTGGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACA
64 GTAGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACA
32105472 GA
129 GA
* * *
32105474 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGGCTTATTTCTCTGAAGTT-GT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTAGT
32105538 AGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
66 AGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
32105603 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
32105635 CAGAAATGGC
Statistics
Matches: 154, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
129 97 0.63
132 57 0.37
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (130 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTAGT
AGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
Found at i:32105782 original size:177 final size:176
Alignment explanation
Indices: 32105474--32106072 Score: 767
Period size: 177 Copynumber: 3.4 Consensus size: 176
32105464 AAATTACAGA
* *
32105474 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGGCTTATTTCTCTGAAGTTG--
1 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCA
*
32105537 TAGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
66 GAGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
32105602 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
131 ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
* * *
32105648 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTGGCA
1 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-
* * * * * * * *
32105713 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGAAAGTAGACTGAAAATTACA
65 AGAGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACA
* *
32105778 GATCTTATCTCCATGTATCGACTATGGGGCAGATC-GAAAATGGCGAG
130 GATCTTATCTCCATGTATCGGCTATGGAGCAGATCAG-AAATGGCGAG
* * * *
32105825 TCTTATCAAC-ATGTATCAGCTATTGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTAC
1 TCTTATC-TCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC
* *
32105889 AGTGGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGGAGTTGCAGGAAGCAGACTGAAAATTAC
65 AG-AGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTAC
* * * * * * * **
32105954 AAATCTTATATTCACGTATCGGCTATGGAGCAAATAAAAAATAAC-AG
129 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
* * * * * * *
32106001 ATCTTATTTCTATGTATCGGCTATGGAGCAGATTTTAGTCATCAACCATATCTCCCTAAAGTTGC
1 -TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC
32106066 AGTAGAG
65 AG-AGAG
32106073 TAAGTTGAAG
Statistics
Matches: 360, Mismatches: 56, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
174 58 0.16
176 6 0.02
177 295 0.82
178 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (176 bp):
TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCA
GAGAGCAGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAG
ATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAG
Found at i:32106988 original size:26 final size:26
Alignment explanation
Indices: 32106959--32107010 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
32106949 TTTAAATAAT
32106959 AAAGTAAAACAGCATGGGGTTTGGAA
1 AAAGTAAAACAGCATGGGGTTTGGAA
*
32106985 AAAGTAAAGCAGCATGGGGTTTGGAA
1 AAAGTAAAACAGCATGGGGTTTGGAA
32107011 GTTCGCGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.33, T:0.19
Consensus pattern (26 bp):
AAAGTAAAACAGCATGGGGTTTGGAA
Found at i:32107583 original size:12 final size:13
Alignment explanation
Indices: 32107548--32107603 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 13
32107538 ATTAAGTCTT
*
32107548 TTTATGTAAATTA
1 TTTATGTATATTA
* *
32107561 -ATATGTGTATTA
1 TTTATGTATATTA
32107573 TTT-TGTATATTA
1 TTTATGTATATTA
*
32107585 TTTACTTTATATTA
1 TTTA-TGTATATTA
32107599 TTTAT
1 TTTAT
32107604 TTTAAAGTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 20 0.59
13 2 0.06
14 12 0.35
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (13 bp):
TTTATGTATATTA
Found at i:32107597 original size:14 final size:14
Alignment explanation
Indices: 32107578--32107607 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32107568 TATTATTTTG
32107578 TATATTATTTACTT
1 TATATTATTTACTT
*
32107592 TATATTATTTATTT
1 TATATTATTTACTT
32107606 TA
1 TA
32107608 AAGTTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TATATTATTTACTT
Done.