Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 198 of 279
Found at i:64901417 original size:17 final size:14
Alignment explanation
Indices: 64901377--64901407 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
64901367 CATATTATTA
*
64901377 TATTATTTATTTAT
1 TATTATATATTTAT
64901391 TATTATATATTTAT
1 TATTATATATTTAT
64901405 TAT
1 TAT
64901408 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:64902278 original size:30 final size:30
Alignment explanation
Indices: 64902242--64902301 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
64902232 TATTTTATTA
*
64902242 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
64902272 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
64902302 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:64911090 original size:7 final size:7
Alignment explanation
Indices: 64911078--64911162 Score: 54
Period size: 7 Copynumber: 12.9 Consensus size: 7
64911068 ATCAAATCAT
64911078 TAAACCC
1 TAAACCC
64911085 TAAA-CC
1 TAAACCC
64911091 TAAA-CC
1 TAAACCC
**
64911097 TAAACTT
1 TAAACCC
*
64911104 TGAACCC
1 TAAACCC
*
64911111 CAAACCC
1 TAAACCC
64911118 -AAA-CC
1 TAAACCC
64911123 TAAACCC
1 TAAACCC
* *
64911130 AAAACCT
1 TAAACCC
*
64911137 TAAATCC
1 TAAACCC
*
64911144 TAAA-TC
1 TAAACCC
64911150 TAAACCC
1 TAAACCC
*
64911157 TGAACC
1 TAAACC
64911163 TCAAGGTTTG
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
5 2 0.03
6 23 0.39
7 34 0.58
ACGTcount: A:0.45, C:0.35, G:0.02, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:64911096 original size:13 final size:13
Alignment explanation
Indices: 64911078--64911163 Score: 59
Period size: 13 Copynumber: 6.5 Consensus size: 13
64911068 ATCAAATCAT
64911078 TAAACCCTAAA-CC
1 TAAA-CCTAAACCC
**
64911091 TAAACCTAAACTT
1 TAAACCTAAACCC
* *
64911104 TGAACCCCAAACCC
1 T-AAACCTAAACCC
64911118 -AAACCTAAACCC
1 TAAACCTAAACCC
* *
64911130 AAAACCTTAAATCC
1 TAAACC-TAAACCC
*
64911144 TAAATCTAAACCC
1 TAAACCTAAACCC
*
64911157 TGAACCT
1 TAAACCT
64911164 CAAGGTTTGG
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
12 16 0.29
13 21 0.38
14 18 0.33
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:64911220 original size:21 final size:21
Alignment explanation
Indices: 64911182--64911226 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
64911172 GGGGTTCAGA
*
64911182 GTTTAAGGTTAAACGTTTAAG
1 GTTTAAGGCTAAACGTTTAAG
* * *
64911203 GTTTAAGGCTCAAGGTTTGAG
1 GTTTAAGGCTAAACGTTTAAG
64911224 GTT
1 GTT
64911227 AGAGGTTCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (21 bp):
GTTTAAGGCTAAACGTTTAAG
Found at i:64912682 original size:17 final size:17
Alignment explanation
Indices: 64912650--64912702 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
64912640 TTTTAGTCCT
64912650 AATTATAAAAATATTAAA
1 AATTATAAAAA-ATTAAA
64912668 AATTATAAAAAATT-AA
1 AATTATAAAAAATTAAA
*
64912684 CATTATAAAAAAATTAAA
1 AATTAT-AAAAAATTAAA
64912702 A
1 A
64912703 TTTTTCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 7 0.23
17 11 0.35
18 13 0.42
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AATTATAAAAAATTAAA
Found at i:64912879 original size:20 final size:20
Alignment explanation
Indices: 64912856--64912893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64912846 TATTTACTTA
* *
64912856 ATTTATTTTTTAAAATTTAT
1 ATTTAGTTTTAAAAATTTAT
64912876 ATTTAGTTTTAAAAATTT
1 ATTTAGTTTTAAAAATTT
64912894 TAAGACTTTT
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:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTAGTTTTAAAAATTTAT
Found at i:64917272 original size:60 final size:59
Alignment explanation
Indices: 64917171--64917287 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 59
64917161 GGGTGAGATG
* *
64917171 TTAATGTAAATCTGTATTTTACCATGTAAATTAGGCTATAACTTAAGATTTTAACTATT
1 TTAATGTAAATCTGTATTTTACCATGGAAATTAAGCTATAACTTAAGATTTTAACTATT
* * * *
64917230 TTAATGTAAATTTGTATTTTTAGCATGGAAATTAAGCTATAACTTAGGATTTTGACTA
1 TTAATGTAAATCTGTA-TTTTACCATGGAAATTAAGCTATAACTTAAGATTTTAACTA
64917288 GTTAGTTTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
59 15 0.29
60 36 0.71
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (59 bp):
TTAATGTAAATCTGTATTTTACCATGGAAATTAAGCTATAACTTAAGATTTTAACTATT
Found at i:64917892 original size:23 final size:23
Alignment explanation
Indices: 64917828--64917892 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
64917818 ATGAATGTGT
* *
64917828 ATTTGAAATAATTATTTAA-AAT
1 ATTTGAAATAATTAATTAATAAC
* *
64917850 ATTTCACATATAA--AAATAATAAC
1 ATTTGA-A-ATAATTAATTAATAAC
64917873 ATTTGAAATAATTAATTAAT
1 ATTTGAAATAATTAATTAAT
64917893 TTTATAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
21 4 0.12
22 10 0.31
23 14 0.44
24 4 0.12
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (23 bp):
ATTTGAAATAATTAATTAATAAC
Found at i:64925328 original size:30 final size:30
Alignment explanation
Indices: 64925287--64925351 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
64925277 TTCAAATTCA
64925287 CCTTA-TTTTCATTTGAGAATATTCAATTT
1 CCTTATTTTTCATTTGAGAATATTCAATTT
* *
64925316 CCTTATTTTTCATTTGATAATATTCAGTTT
1 CCTTATTTTTCATTTGAGAATATTCAATTT
*
64925346 CTTTAT
1 CCTTAT
64925352 CAAAAACAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.25, C:0.14, G:0.06, T:0.55
Consensus pattern (30 bp):
CCTTATTTTTCATTTGAGAATATTCAATTT
Found at i:64935990 original size:13 final size:13
Alignment explanation
Indices: 64935972--64935996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64935962 TTTAATTAAT
64935972 AATTATTTATTTA
1 AATTATTTATTTA
64935985 AATTATTTATTT
1 AATTATTTATTT
64935997 GCTACTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTATTTATTTA
Found at i:64939659 original size:7 final size:7
Alignment explanation
Indices: 64939647--64939681 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
64939637 ATAAAAAGGT
64939647 AATAATA
1 AATAATA
64939654 AATAATA
1 AATAATA
64939661 AATAATA
1 AATAATA
64939668 AATAATA
1 AATAATA
64939675 CAATAAT
1 -AATAAT
64939682 TATAAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:64946275 original size:24 final size:24
Alignment explanation
Indices: 64946228--64946276 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
64946218 TAAAATATCG
*
64946228 TGTTCCTTTTAATAAAAAATTATT
1 TGTTCCTTTTAATAAAAAAGTATT
*
64946252 TGTTCCTTTTTAAT-TAAAAGTATT
1 TGTTCC-TTTTAATAAAAAAGTATT
64946276 T
1 T
64946277 ATATTATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (24 bp):
TGTTCCTTTTAATAAAAAAGTATT
Found at i:64946974 original size:47 final size:47
Alignment explanation
Indices: 64946870--64947004 Score: 155
Period size: 47 Copynumber: 2.9 Consensus size: 47
64946860 ATGCCATTTA
* * * *
64946870 TGGACAAGCCACCACATAGA-TGCCAATAAATGGCCACATAACATATCG
1 TGGACAAGCCACCACATA-ATTACCAAT-AACGACCACATAACACATCG
* *
64946918 TGGACAAGCCACCACATAATTTCCAATAACGACCACATAGCACATCG
1 TGGACAAGCCACCACATAATTACCAATAACGACCACATAACACATCG
* * * *
64946965 TGGATAAGCCATCACATAATTACCGATAACAACCACATAA
1 TGGACAAGCCACCACATAATTACCAATAACGACCACATAA
64947005 TCGCAGTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
47 51 0.68
48 24 0.32
ACGTcount: A:0.41, C:0.28, G:0.13, T:0.18
Consensus pattern (47 bp):
TGGACAAGCCACCACATAATTACCAATAACGACCACATAACACATCG
Found at i:64947547 original size:232 final size:232
Alignment explanation
Indices: 64947141--64947608 Score: 936
Period size: 232 Copynumber: 2.0 Consensus size: 232
64947131 CTCGATTTTT
64947141 ACACATGCATGTATCATGCTCACAATTTCACATATCACATAATTTTCACTTTAGTATGCTTTAAT
1 ACACATGCATGTATCATGCTCACAATTTCACATATCACATAATTTTCACTTTAGTATGCTTTAAT
64947206 ATACACATTTATATTAAAACATTGATTTTAACATGCACATACATATATCACATGTTTAGATCATC
66 ATACACATTTATATTAAAACATTGATTTTAACATGCACATACATATATCACATGTTTAGATCATC
64947271 ACATATCAATCTAGCCATAAATCATATAACATAGAGTTGAGATCAATATTACATCATCAGATATA
131 ACATATCAATCTAGCCATAAATCATATAACATAGAGTTGAGATCAATATTACATCATCAGATATA
64947336 AAAAATCATGGATTTTCACATCACTTAATAGTTTAAG
196 AAAAATCATGGATTTTCACATCACTTAATAGTTTAAG
64947373 ACACATGCATGTATCATGCTCACAATTTCACATATCACATAATTTTCACTTTAGTATGCTTTAAT
1 ACACATGCATGTATCATGCTCACAATTTCACATATCACATAATTTTCACTTTAGTATGCTTTAAT
64947438 ATACACATTTATATTAAAACATTGATTTTAACATGCACATACATATATCACATGTTTAGATCATC
66 ATACACATTTATATTAAAACATTGATTTTAACATGCACATACATATATCACATGTTTAGATCATC
64947503 ACATATCAATCTAGCCATAAATCATATAACATAGAGTTGAGATCAATATTACATCATCAGATATA
131 ACATATCAATCTAGCCATAAATCATATAACATAGAGTTGAGATCAATATTACATCATCAGATATA
64947568 AAAAATCATGGATTTTCACATCACTTAATAGTTTAAG
196 AAAAATCATGGATTTTCACATCACTTAATAGTTTAAG
64947605 ACAC
1 ACAC
64947609 TTACTTGGAT
Statistics
Matches: 236, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 236 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (232 bp):
ACACATGCATGTATCATGCTCACAATTTCACATATCACATAATTTTCACTTTAGTATGCTTTAAT
ATACACATTTATATTAAAACATTGATTTTAACATGCACATACATATATCACATGTTTAGATCATC
ACATATCAATCTAGCCATAAATCATATAACATAGAGTTGAGATCAATATTACATCATCAGATATA
AAAAATCATGGATTTTCACATCACTTAATAGTTTAAG
Found at i:64947676 original size:4 final size:4
Alignment explanation
Indices: 64947667--64947695 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
64947657 TAATATACTC
64947667 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
64947696 CATTTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:64952459 original size:100 final size:100
Alignment explanation
Indices: 64952286--64952484 Score: 389
Period size: 100 Copynumber: 2.0 Consensus size: 100
64952276 CTGCTTTTGC
*
64952286 CGTTGTTTCTGTCTCTGTTGCAGGTCGTGGGCGCGGTGGACGAGGGGGTAGTGCGCCAGGCAGCC
1 CGTTGTTTCTGTCTCTGTTGCAGGTCGTGGGCGCGGTGGACGAGGGGGTAGTGCACCAGGCAGCC
64952351 AATGGTTGGCCGATGGTGGGAAGCGGCGGCTGACT
66 AATGGTTGGCCGATGGTGGGAAGCGGCGGCTGACT
64952386 CGTTGTTTCTGTCTCTGTTGCAGGTCGTGGGCGCGGTGGACGAGGGGGTAGTGCACCAGGCAGCC
1 CGTTGTTTCTGTCTCTGTTGCAGGTCGTGGGCGCGGTGGACGAGGGGGTAGTGCACCAGGCAGCC
64952451 AATGGTTGGCCGATGGTGGGAAGCGGCGGCTGAC
66 AATGGTTGGCCGATGGTGGGAAGCGGCGGCTGAC
64952485 AATGGTGGGA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.13, C:0.21, G:0.44, T:0.23
Consensus pattern (100 bp):
CGTTGTTTCTGTCTCTGTTGCAGGTCGTGGGCGCGGTGGACGAGGGGGTAGTGCACCAGGCAGCC
AATGGTTGGCCGATGGTGGGAAGCGGCGGCTGACT
Found at i:64954864 original size:88 final size:88
Alignment explanation
Indices: 64954715--64954975 Score: 513
Period size: 88 Copynumber: 3.0 Consensus size: 88
64954705 GAATTACGGT
64954715 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
1 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
64954780 TACGTTGTTGATTGTTGATTGGA
66 TACGTTGTTGATTGTTGATTGGA
64954803 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
1 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
64954868 TACGTTGTTGATTGTTGATTGGA
66 TACGTTGTTGATTGTTGATTGGA
*
64954891 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAAGTGATTGAGA
1 TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
64954956 TACGTTGTTGATTGTTGATT
66 TACGTTGTTGATTGTTGATT
64954976 TATGTCAATT
Statistics
Matches: 172, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 172 1.00
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (88 bp):
TTGGGATTTGCTAATTTCTTATTTATCTTATACTTTTGCTATATCACTTGCTTAGGTGATTGAGA
TACGTTGTTGATTGTTGATTGGA
Found at i:64956577 original size:17 final size:17
Alignment explanation
Indices: 64956555--64956592 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
64956545 CGTAAGCTCA
64956555 TTTGAGACTCAGTTTAG
1 TTTGAGACTCAGTTTAG
64956572 TTTGAGACTCAGTTTAG
1 TTTGAGACTCAGTTTAG
64956589 TTTG
1 TTTG
64956593 TAAATCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.45
Consensus pattern (17 bp):
TTTGAGACTCAGTTTAG
Found at i:64957021 original size:33 final size:33
Alignment explanation
Indices: 64956984--64957049 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
64956974 TAGATAAGTC
*
64956984 GTCCATAAACAAAAAAGTAGATGAAAAACAATT
1 GTCCATAAACAAAAAAGTAGATGAAAAAAAATT
64957017 GTCCATAAACAAAAAAGTAGATGAAAAAAAATT
1 GTCCATAAACAAAAAAGTAGATGAAAAAAAATT
64957050 ATGGGCATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.59, C:0.11, G:0.12, T:0.18
Consensus pattern (33 bp):
GTCCATAAACAAAAAAGTAGATGAAAAAAAATT
Found at i:64958049 original size:14 final size:15
Alignment explanation
Indices: 64958024--64958053 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64958014 GAGTATAGTA
64958024 AAATATTTTAAAAAT
1 AAATATTTTAAAAAT
*
64958039 AAATATTTAAAAAAT
1 AAATATTTTAAAAAT
64958054 GAGAAATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATTTTAAAAAT
Found at i:64962433 original size:22 final size:22
Alignment explanation
Indices: 64962408--64962469 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
64962398 TAGCCTAAAG
64962408 ATTTACATGCCAACATTAGCTA
1 ATTTACATGCCAACATTAGCTA
* *
64962430 ATTTATA-GCCTA-A--AG---
1 ATTTACATGCCAACATTAGCTA
64962445 ATTTACATGCCAACATTAGCTA
1 ATTTACATGCCAACATTAGCTA
64962467 ATT
1 ATT
64962470 AACCTATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 1 0.03
18 2 0.07
19 2 0.07
20 1 0.03
21 4 0.14
22 9 0.31
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (22 bp):
ATTTACATGCCAACATTAGCTA
Found at i:64962445 original size:37 final size:37
Alignment explanation
Indices: 64962395--64962469 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
64962385 CAATGGCTAG
64962395 TTATAGCCTAAAGATTTACATGCCAACATTAGCTAAT
1 TTATAGCCTAAAGATTTACATGCCAACATTAGCTAAT
64962432 TTATAGCCTAAAGATTTACATGCCAACATTAGCTAAT
1 TTATAGCCTAAAGATTTACATGCCAACATTAGCTAAT
64962469 T
1 T
64962470 AACCTATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (37 bp):
TTATAGCCTAAAGATTTACATGCCAACATTAGCTAAT
Found at i:64966516 original size:131 final size:131
Alignment explanation
Indices: 64966167--64966534 Score: 348
Period size: 135 Copynumber: 2.8 Consensus size: 131
64966157 TTCACGATTG
* * * * * * * *
64966167 TTTAAAACGAATGCGATATTCGATACTTGATAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTG
1 TTTAAAACGAAGGCAAGACTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTG
* * *
64966232 CAATTTCGCGTTGACTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTAAAAAAA
66 CAATTTCTCTTTG-CTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTT---AAAA
*
64966297 AATTC
127 AATCC
* ** * *
64966302 TTTAAAACGAAGGCGAGGTTTGATATTTGGCAATTCGCGGAATCGTGCCCTAAT-GTGTTGGGTT
1 TTTAAAACGAAGGCAAGACTCGATATTTGACAATTCGCGGAATCGTGCCCT-ATCGTGTTGGGTT
* * *
64966366 GCAATTTCTTGTTTGCTCAAAATAATCAAATGA-CCCTTCAAAATTTCACTCGTGTCTTCT-AAA
65 GCAATTTC-TCTTTGCTCAAAATAATCAAAT-ATCCCTTCAAAATTTCACTCATATCTT-TAAAA
64966429 AATCC
127 AATCC
* * * * * *
64966434 TTTAAAACGGAGGCAATACTCGGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTG
1 TTTAAAACGAAGGCAAGACTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTG
** * * *
64966498 TGATTTCTCATTTGCTCAAAACAATCGAATATTCCTT
66 CAATTTCTC-TTTGCTCAAAATAATCAAATATCCCTT
64966535 TAGGTTTTCA
Statistics
Matches: 193, Mismatches: 33, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
130 4 0.02
131 49 0.25
132 35 0.18
135 99 0.51
136 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (131 bp):
TTTAAAACGAAGGCAAGACTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTG
CAATTTCTCTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTAAAAAATC
C
Found at i:64966544 original size:131 final size:131
Alignment explanation
Indices: 64966409--64966660 Score: 283
Period size: 131 Copynumber: 1.9 Consensus size: 131
64966399 CCCTTCAAAA
* * * * *
64966409 TTTCACTCGTGTCTT-CTAAAAATCCTTT-AAAACGGAGGCAATACTCGGTGTTTGACAATTCGG
1 TTTCACGCGTG-CTTACTAAAAA-CCTTTCAAAACGAAGGCAAGACTCGATGTTTGACAATTCGA
* *
64966472 GAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGCTCAAAACAATCGAATATTCCTTTA
64 GAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTAAAAACAATCGAATATTCCTTTA
64966537 GGT
129 GGT
* * * ** * * *
64966540 TTTCACGCTTGCTTATTAAAAACCTTTCAAAACGAAGGCGAGGTTCGATGTTTGGCGATTTGAGA
1 TTTCACGCGTGCTTACTAAAAACCTTTCAAAACGAAGGCAAGACTCGATGTTTGACAATTCGAGA
* * * * * *
64966605 ATCCTGCCCTATTGTGCTGGGTTGCGCTTTTTCATTTGTTAAAAATAATCGAATAT
66 ATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTAAAAACAATCGAATAT
64966661 CTCTTCGGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
130 8 0.08
131 90 0.92
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTCACGCGTGCTTACTAAAAACCTTTCAAAACGAAGGCAAGACTCGATGTTTGACAATTCGAGA
ATCATGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTAAAAACAATCGAATATTCCTTTAGG
T
Found at i:64984051 original size:8 final size:8
Alignment explanation
Indices: 64984031--64984067 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
64984021 TTATTTCTTT
64984031 TATT-TTA
1 TATTATTA
*
64984038 TGTTATTA
1 TATTATTA
64984046 TATTATTA
1 TATTATTA
64984054 TATTATTA
1 TATTATTA
64984062 TATTAT
1 TATTAT
64984068 ATTATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 3 0.11
8 24 0.89
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TATTATTA
Found at i:64984051 original size:13 final size:13
Alignment explanation
Indices: 64984049--64984086 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
64984039 GTTATTATAT
64984049 TATTATATTATTA
1 TATTATATTATTA
*
64984062 TATTATATTATAA
1 TATTATATTATTA
*
64984075 TAATA-ATTATTA
1 TATTATATTATTA
64984087 CTTAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:64984054 original size:21 final size:20
Alignment explanation
Indices: 64984030--64984072 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
64984020 TTTATTTCTT
64984030 TTATTTTATGTTATTATATTA
1 TTATTTTAT-TTATTATATTA
*
64984051 TTATATTATTATATTATATTA
1 TTATTTTATT-TATTATATTA
64984072 T
1 T
64984073 AATAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTTTATTTATTATATTA
Found at i:64999323 original size:5 final size:5
Alignment explanation
Indices: 64999313--64999346 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
64999303 ACAAGATGTG
64999313 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA
64999347 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:64999334 original size:16 final size:16
Alignment explanation
Indices: 64999313--64999346 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
64999303 ACAAGATGTG
64999313 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
64999329 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
64999345 AA
1 AA
64999347 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:65002275 original size:54 final size:53
Alignment explanation
Indices: 65002138--65002326 Score: 195
Period size: 54 Copynumber: 3.5 Consensus size: 53
65002128 GGTTTAAGGA
* * * *
65002138 TACCGTGTAAGACCATGCCAAGACATGGCAATTTG-TAAGGTTTC-TAAGGCAAGGA
1 TACCATGTAAGACCATGTCAAGACATGGC-A-TTGATAA-G-TTCATAAGGCAAAGC
* *
65002193 AATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAG-
1 TACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAAGGCAAAGC
* * * * * *
65002247 TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGC
1 TACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGCAAAGC
65002300 TACCATGTAAGACCATGTCAAGACATG
1 TACCATGTAAGACCATGTCAAGACATG
65002327 ACAATGGTAA
Statistics
Matches: 113, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
52 12 0.11
53 30 0.27
54 37 0.33
55 34 0.30
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (53 bp):
TACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAAGGCAAAGC
Found at i:65002338 original size:107 final size:109
Alignment explanation
Indices: 65002143--65002388 Score: 285
Period size: 107 Copynumber: 2.3 Consensus size: 109
65002133 AAGGATACCG
* *
65002143 TGTAAGACCATGCCAAGACATGGCAATTTGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
* *
65002208 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGTCCCA
66 TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGTCCCA
* * **
65002252 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* * * *
65002314 ATGTCAAGACATGACAATGGTAAGTTTC-AAAAGG---A-TACCA
65 ATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGTCCCA
* * *
65002354 CGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 TGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
65002389 ACCCGTGTAT
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
102 30 0.26
103 3 0.03
106 8 0.07
107 47 0.40
108 6 0.05
109 23 0.20
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGTCCCA
Found at i:65002599 original size:16 final size:16
Alignment explanation
Indices: 65002578--65002608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65002568 ATTAATTTGA
65002578 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65002594 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65002609 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65009880 original size:53 final size:52
Alignment explanation
Indices: 65009709--65009904 Score: 205
Period size: 55 Copynumber: 3.6 Consensus size: 52
65009699 GGATACCGTG
* * * *
65009709 TAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAATCATT
1 TAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGG-TACCATA
* * * *
65009764 TAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCATG
1 TAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGTACCATA
* *
65009819 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTACCATA
1 TAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGG-TACCATA
* *
65009872 TAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGACCATGCCAAGACATGGCATTGGTAAGTT
65009905 TCAAAAGGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
52 6 0.05
53 43 0.36
54 8 0.07
55 58 0.49
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (52 bp):
TAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGTACCATA
Found at i:65009903 original size:108 final size:110
Alignment explanation
Indices: 65009707--65009904 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
65009697 AAGGATACCG
* *
65009707 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATTTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATATAAGACCA
*
65009772 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
65009817 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATATAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATATAAGACC
*
65009879 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
65009905 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATATAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:65010169 original size:16 final size:16
Alignment explanation
Indices: 65010148--65010178 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65010138 ATAAATTTGA
65010148 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65010164 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65010179 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65016060 original size:23 final size:22
Alignment explanation
Indices: 65015996--65016062 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
65015986 TGAGTTGATA
***
65015996 AACGGTAAGCTCCGAAGAGCTG
1 AACGGTAAGCTCATTAGAGCTG
*
65016018 AACGGTAAGCTTATTAGAGCTG
1 AACGGTAAGCTCATTAGAGCTG
*
65016040 AAATGGTAAGCTCA-TACGAGCTG
1 -AACGGTAAGCTCATTA-GAGCTG
65016063 TGGTGAGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 20 0.54
23 17 0.46
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (22 bp):
AACGGTAAGCTCATTAGAGCTG
Found at i:65019500 original size:42 final size:42
Alignment explanation
Indices: 65019441--65019524 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
65019431 GCGCCATACT
65019441 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
1 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
65019483 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
1 ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
65019525 GAAATATAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (42 bp):
ATGTCTCTGATGCTTTCGACACCTGAGATATTGATTACTTCA
Found at i:65022329 original size:46 final size:45
Alignment explanation
Indices: 65022276--65022448 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
65022266 TGGTTGAGCA
*
65022276 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCAAACG
* * * *
65022322 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* *
65022369 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
*
65022415 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
65022449 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 7 0.07
46 57 0.53
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:65022432 original size:93 final size:93
Alignment explanation
Indices: 65022273--65022443 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65022263 GGATGGTTGA
* *
65022273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCCCAACTCGTTGAGT
65022338 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65022366 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCCCAA-CTCGTTGAG
65022430 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65022444 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65022710 original size:19 final size:20
Alignment explanation
Indices: 65022673--65022710 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65022663 ATAAGGTGGT
65022673 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65022693 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65022711 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65029916 original size:46 final size:46
Alignment explanation
Indices: 65029866--65030038 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
65029856 TGGTTGAGCA
*
65029866 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
65029912 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
65029959 TCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
65030005 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
65030039 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 56 0.53
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:65030022 original size:93 final size:93
Alignment explanation
Indices: 65029863--65030033 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65029853 GGATGGTTGA
* *
65029863 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
65029928 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65029956 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
65030020 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65030034 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65030300 original size:19 final size:20
Alignment explanation
Indices: 65030263--65030300 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65030253 ATAAGGTGGT
65030263 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65030283 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65030301 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65033002 original size:17 final size:19
Alignment explanation
Indices: 65032969--65033005 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
65032959 AGCCACTTAG
65032969 TTAGTTTTGTGATTTTATT
1 TTAGTTTTGTGATTTTATT
65032988 TTAGTTTT-T-ATTTTATT
1 TTAGTTTTGTGATTTTATT
65033005 T
1 T
65033006 CAATTTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (19 bp):
TTAGTTTTGTGATTTTATT
Found at i:65038303 original size:26 final size:26
Alignment explanation
Indices: 65038274--65038381 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
65038264 TGGTACAAAT
65038274 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65038300 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65038326 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65038352 TGATAATGGTTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65038378 TGAT
1 TGAT
65038382 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65042026 original size:21 final size:21
Alignment explanation
Indices: 65041982--65042147 Score: 113
Period size: 21 Copynumber: 8.0 Consensus size: 21
65041972 TCGTGTTTAC
*
65041982 TTTCTGTTTAGCTC--ATGAG
1 TTTCTGTTTAACTCTTATGAG
* *
65042001 CTTCTGTTTAACTCATATGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
65042022 TTTCTGTTCAACTCTAATGGG
1 TTTCTGTTTAACTCTTATGAG
* * * *
65042043 TTTCCGTTCAGCTCTTTTGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
65042064 CTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
* * *
65042085 TTTCT-TTTCAGCTTTTAAGAG
1 TTTCTGTTT-AACTCTTATGAG
* * * *
65042106 CTTCTGTTCAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
*
65042127 TTTCTGTTTAGCTCTTATGAG
1 TTTCTGTTTAACTCTTATGAG
65042148 CTTCAGTTCA
Statistics
Matches: 106, Mismatches: 37, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
19 12 0.11
20 3 0.03
21 89 0.84
22 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCTTATGAG
Found at i:65042084 original size:42 final size:42
Alignment explanation
Indices: 65042018--65042160 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
65042008 TTAACTCATA
* * * *
65042018 TGAGTTTCTGTTCAACTCTAATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* *
65042060 TGAGCTTCTGTTTAACCCTTATGGGTTTCTTTTCAGCT-TTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* * *
65042101 AAGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTTA
1 -TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
*
65042144 TGAGCTTCAGTTCAACC
1 TGAGCTTCTGTTCAACC
65042161 TTCGGGCTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.03
42 81 0.94
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
Found at i:65044173 original size:21 final size:21
Alignment explanation
Indices: 65044149--65044189 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65044139 TTTATTGTTC
65044149 AATTAATACATATACTAATAA
1 AATTAATACATATACTAATAA
*
65044170 AATTAATATATATACTAATA
1 AATTAATACATATACTAATA
65044190 TATATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTAATACATATACTAATAA
Found at i:65045584 original size:31 final size:31
Alignment explanation
Indices: 65045542--65045604 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
65045532 CAAAAACAAG
* * *
65045542 AATGCAGACATAGATGGATGGCCATTTATAT
1 AATGCAAACATAGACGGATGACCATTTATAT
65045573 AATGCAAACATAGACGGATGACCATTTATAT
1 AATGCAAACATAGACGGATGACCATTTATAT
65045604 A
1 A
65045605 TTTTACCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (31 bp):
AATGCAAACATAGACGGATGACCATTTATAT
Found at i:65049445 original size:2 final size:2
Alignment explanation
Indices: 65049440--65049470 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
65049430 GAATGATATA
65049440 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
65049471 AAACTTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:65058875 original size:22 final size:22
Alignment explanation
Indices: 65058845--65058887 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
65058835 ACACCAAAAC
* *
65058845 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
65058867 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
65058888 AACCCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:65059030 original size:42 final size:42
Alignment explanation
Indices: 65058979--65059184 Score: 324
Period size: 42 Copynumber: 4.9 Consensus size: 42
65058969 GTTTACAAAC
* *
65058979 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
65059021 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
65059063 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
65059105 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
65059147 AAAAACGCCGCTAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
65059185 TTATACAAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
41 3 0.02
42 144 0.96
43 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:65059276 original size:14 final size:14
Alignment explanation
Indices: 65059253--65059286 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65059243 GCCCTCCTGT
*
65059253 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
65059267 AGCAACATTTCAAA
1 AGCAACATTTCAAA
65059281 AGCAAC
1 AGCAAC
65059287 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:65059578 original size:21 final size:21
Alignment explanation
Indices: 65059510--65059580 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
65059500 TTTTGCTCTG
* *
65059510 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
65059531 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
65059552 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
65059573 CTCTGCTT
1 CTCTGCTT
65059581 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:65065080 original size:11 final size:9
Alignment explanation
Indices: 65065032--65065236 Score: 78
Period size: 9 Copynumber: 22.0 Consensus size: 9
65065022 AATTGCAATG
65065032 GTAAGTTAT
1 GTAAGTTAT
65065041 GTAAGTTAT
1 GTAAGTTAT
65065050 GTAAGTTAAAT
1 GTAAGTT--AT
65065061 GT-A-TTAT
1 GTAAGTTAT
65065068 GTAAGTTAAAT
1 GTAAGTT--AT
65065079 GTAAG-T-T
1 GTAAGTTAT
65065086 GTAAGTTAT
1 GTAAGTTAT
*
65065095 -TATGTATTAT
1 GTAAG--TTAT
65065105 GTAAG-T-T
1 GTAAGTTAT
65065112 GTAAGTTAAAT
1 GTAAGTT--AT
* *
65065123 GTATTGTGTAA
1 GTA-AGT-TAT
*
65065134 GTGAAATTGCAAT
1 GT-AAGTT---AT
65065147 GGTAAGTTAT
1 -GTAAGTTAT
65065157 GTAAGTTAT
1 GTAAGTTAT
65065166 GTAAGTTAAAT
1 GTAAGTT--AT
65065177 GT-A-TTAT
1 GTAAGTTAT
65065184 GTAAGTTAAAT
1 GTAAGTT--AT
65065195 GTAAG-T-T
1 GTAAGTTAT
65065202 GTAAGTTAT
1 GTAAGTTAT
*
65065211 -TATGTATTAT
1 GTAAG--TTAT
65065221 GTAAG-T-T
1 GTAAGTTAT
65065228 GTAAGTTAT
1 GTAAGTTAT
65065237 TATGTATTGT
Statistics
Matches: 151, Mismatches: 10, Indels: 70
0.65 0.04 0.30
Matches are distributed among these distances:
7 32 0.21
8 14 0.09
9 43 0.28
10 15 0.10
11 36 0.24
12 3 0.02
13 6 0.04
14 2 0.01
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:65065111 original size:26 final size:26
Alignment explanation
Indices: 65065077--65065393 Score: 250
Period size: 26 Copynumber: 12.1 Consensus size: 26
65065067 TGTAAGTTAA
65065077 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
65065103 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * ***
65065128 GTGTAAG-TG-AAATTGCAATGGTAAGTT
1 ATGTAAGTTGTAAGTTATTAT-GT-A-TT
*
65065155 ATGTAAGTTATGTAAGTTA-AATGTATT
1 ATGTAAG-T-TGTAAGTTATTATGTATT
65065182 ATGTAAGTTAAATGTAAGTTGTAAGTTAT-TATGTATT
1 ATGTAAG-T---TGTAAG-T-T-A-TTATGTAT----T
65065219 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
65065245 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
65065270 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
65065288 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
65065314 ATGTAAGTAAG-AAGTTATTATGTATT
1 ATGTAAGT-TGTAAGTTATTATGTATT
*
65065340 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
65065366 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
65065392 AT
1 AT
65065394 TTAATAAAAT
Statistics
Matches: 242, Mismatches: 19, Indels: 60
0.75 0.06 0.19
Matches are distributed among these distances:
18 12 0.05
19 1 0.00
21 3 0.01
22 3 0.01
23 4 0.02
24 6 0.02
25 27 0.11
26 114 0.47
27 20 0.08
28 1 0.00
29 13 0.05
30 10 0.04
31 6 0.02
32 2 0.01
33 9 0.04
34 2 0.01
36 1 0.00
37 8 0.03
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:65065224 original size:116 final size:117
Alignment explanation
Indices: 65065020--65065252 Score: 450
Period size: 116 Copynumber: 2.0 Consensus size: 117
65065010 ATTTTCACCA
65065020 GAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGT
1 GAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGT
65065085 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGT
66 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATAATGTATTGTGTAAGT
65065136 GAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGT
1 GAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGT
*
65065201 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGT
66 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATAATGTATTGTGTAAGT
65065253 TGTAAGTTAA
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
116 100 0.87
117 15 0.13
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.43
Consensus pattern (117 bp):
GAAATTGCAATGGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTAAATGTAAGT
TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATAATGTATTGTGTAAGT
Found at i:65065342 original size:95 final size:96
Alignment explanation
Indices: 65065193--65065369 Score: 313
Period size: 95 Copynumber: 1.9 Consensus size: 96
65065183 TGTAAGTTAA
*
65065193 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAGTAAGTTATTATGTATTGTGTAAGTTGTAA
65065258 GTTA-AATGTATTATGTCAGTCAAATGTATT
66 GTTATAATGTATTATGTCAGTCAAATGTATT
65065288 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAAG-AAGTTATTATGTATTGTGTAAGTTGTA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGT-AGTAAGTTATTATGTATTGTGTAAGTTGTA
*
65065352 AGTTATTATGTATTATGT
65 AGTTATAATGTATTATGT
65065370 AAGTTGTAAG
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
95 66 0.85
96 12 0.15
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (96 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAGTAAGTTATTATGTATTGTGTAAGTTGTAA
GTTATAATGTATTATGTCAGTCAAATGTATT
Found at i:65065459 original size:39 final size:39
Alignment explanation
Indices: 65065401--65065536 Score: 149
Period size: 39 Copynumber: 3.6 Consensus size: 39
65065391 TATTTAATAA
* **
65065401 AATAATATATAATTTAATAACATTACTAATATAATTATT
1 AATAATATTTAATAAAATAACATTACTAATATAATTATT
* *
65065440 AATAATATTTAATAAAATAACATT--T--TAT-TTTAAT
1 AATAATATTTAATAAAATAACATTACTAATATAATTATT
* **
65065474 AGTCAAT-TTTAATTTAATAACATTACTAATATAATTATT
1 AAT-AATATTTAATAAAATAACATTACTAATATAATTATT
65065513 AATAATATTTAATAAAATAACATT
1 AATAATATTTAATAAAATAACATT
65065537 TTATTTTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
34 21 0.27
35 6 0.08
36 1 0.01
37 1 0.01
38 6 0.08
39 42 0.55
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (39 bp):
AATAATATTTAATAAAATAACATTACTAATATAATTATT
Found at i:65065485 original size:34 final size:34
Alignment explanation
Indices: 65065447--65065560 Score: 122
Period size: 34 Copynumber: 3.2 Consensus size: 34
65065437 ATTAATAATA
65065447 TTTAATAAAATAACATTTTATTTTAATAGTCAAT
1 TTTAATAAAATAACATTTTATTTTAATAGTCAAT
** * * *
65065481 TTTAATTTAATAACATTACTAATATAATTATTAAT-AAT
1 TTTAATAAAATAACATT--T--TAT-TTTAATAGTCAAT
65065519 ATTTAATAAAATAACATTTTATTTTAATAGTCAAT
1 -TTTAATAAAATAACATTTTATTTTAATAGTCAAT
65065554 TTTAATA
1 TTTAATA
65065561 TTCCACATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
34 28 0.44
35 6 0.10
36 1 0.02
37 1 0.02
38 6 0.10
39 21 0.33
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTAATAAAATAACATTTTATTTTAATAGTCAAT
Found at i:65065493 original size:73 final size:73
Alignment explanation
Indices: 65065410--65065559 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
65065400 AAATAATATA
65065410 TAATTTAATAACATTACTAATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATA
1 TAATTTAATAACATTACTAATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATA
65065475 GTCAATTT
66 GTCAATTT
65065483 TAATTTAATAACATTACTAATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATA
1 TAATTTAATAACATTACTAATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATA
65065548 GTCAATTT
66 GTCAATTT
65065556 TAAT
1 TAAT
65065560 ATTCCACATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (73 bp):
TAATTTAATAACATTACTAATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATA
GTCAATTT
Found at i:65065744 original size:13 final size:13
Alignment explanation
Indices: 65065726--65065770 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
65065716 ATTTATAATT
65065726 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
65065739 ATTTAAGTAACAT
1 ATTTAAGTAATAA
*
65065752 ATTTTAGTAATAA
1 ATTTAAGTAATAA
65065765 ATTTAA
1 ATTTAA
65065771 ACAAATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:65065778 original size:23 final size:25
Alignment explanation
Indices: 65065726--65065784 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
65065716 ATTTATAATT
* *
65065726 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTTAGTAATAAATTTAAG-AACAA
65065752 ATTTTAGTAATAAATTT-A-AACAA
1 ATTTTAGTAATAAATTTAAGAACAA
65065775 ATTTTAGTAA
1 ATTTTAGTAA
65065785 GTAATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 14 0.45
25 1 0.03
26 16 0.52
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (25 bp):
ATTTTAGTAATAAATTTAAGAACAA
Found at i:65065841 original size:17 final size:17
Alignment explanation
Indices: 65065819--65066016 Score: 132
Period size: 17 Copynumber: 10.6 Consensus size: 17
65065809 ATTTAAACAA
65065819 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
65065836 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
65065853 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
65065870 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
65065893 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
65065910 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
65065933 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
65065950 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
65065967 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
65065990 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
65066007 ATTTTAGTAA
1 ATTTTAGTAA
65066017 TAAATTTAAC
Statistics
Matches: 147, Mismatches: 10, Indels: 48
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.03
17 93 0.63
18 5 0.03
22 5 0.03
23 34 0.23
24 5 0.03
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:65065872 original size:57 final size:57
Alignment explanation
Indices: 65065775--65066025 Score: 311
Period size: 57 Copynumber: 4.6 Consensus size: 57
65065765 ATTTAAACAA
*
65065775 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
65065836 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
* *
65065893 ATTTTAG-AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
*
65065933 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
65065990 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
65066026 CATTCAATCG
Statistics
Matches: 167, Mismatches: 6, Indels: 38
0.79 0.03 0.18
Matches are distributed among these distances:
40 18 0.11
41 6 0.04
44 1 0.01
45 5 0.03
47 8 0.05
50 8 0.05
52 5 0.03
53 1 0.01
56 6 0.04
57 87 0.52
58 1 0.01
61 21 0.13
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:65065883 original size:40 final size:40
Alignment explanation
Indices: 65065836--65065942 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
65065826 TAAGTAATGT
65065836 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
65065876 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
65065916 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
65065943 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:65065919 original size:97 final size:99
Alignment explanation
Indices: 65065742--65065996 Score: 426
Period size: 97 Copynumber: 2.6 Consensus size: 99
65065732 GTAATAAATT
** *
65065742 TAAGTAACATATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGTAATTAAT
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG-AA-TAAT
65065807 AAATTTAAACAAATTT-TAGTAAGTAATGTATTTTAG
64 AAATTTAAACAAATTTAT-GTAAGTAATGTATTTTAG
65065843 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG-A-AATAA
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAATAATAA
65065906 ATTTAAACAAATTTATGTAAGTAATGTATTTTAG
66 ATTTAAACAAATTTATGTAAGTAATGTATTTTAG
*
65065940 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
65065997 TAAGTAATGT
Statistics
Matches: 149, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
97 93 0.62
98 1 0.01
99 1 0.01
101 54 0.36
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (99 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAATAATAA
ATTTAAACAAATTTATGTAAGTAATGTATTTTAG
Found at i:65067375 original size:11 final size:11
Alignment explanation
Indices: 65067359--65067398 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
65067349 GATGATAATA
65067359 CATTAGTTACC
1 CATTAGTTACC
65067370 CATTAGTTACC
1 CATTAGTTACC
*
65067381 CACTAGTTACC
1 CATTAGTTACC
65067392 CA-TAGTT
1 CATTAGTT
65067399 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:65067943 original size:14 final size:14
Alignment explanation
Indices: 65067924--65067953 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65067914 CACGAACAGC
65067924 AAGATGATTAACTA
1 AAGATGATTAACTA
65067938 AAGATGATTAACTA
1 AAGATGATTAACTA
65067952 AA
1 AA
65067954 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:65069299 original size:27 final size:27
Alignment explanation
Indices: 65069267--65069318 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
65069257 TCTTACTTTT
* *
65069267 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
65069294 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
65069319 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:65069409 original size:8 final size:10
Alignment explanation
Indices: 65069386--65069422 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
65069376 TAATAACTAT
65069386 ATATATATCC
1 ATATATATCC
*
65069396 ATATATATTC
1 ATATATATCC
65069406 ATATATATCC
1 ATATATATCC
65069416 ATATATA
1 ATATATA
65069423 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:65070441 original size:82 final size:82
Alignment explanation
Indices: 65070322--65070580 Score: 491
Period size: 82 Copynumber: 3.2 Consensus size: 82
65070312 GCTACCGGAA
*
65070322 AAAACGCCACTAACTTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
65070387 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
65070404 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
65070469 TTGCGGCGTTTTACCTT
66 TTGCGGCGTTTTACCTT
65070486 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
1 AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
* *
65070551 TTACGGCGTTTTCCCTT
66 TTGCGGCGTTTTACCTT
65070568 AAAACGCCACTAA
1 AAAACGCCACTAA
65070581 TAGAGTACAC
Statistics
Matches: 174, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 174 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (82 bp):
AAAACGCCACTAAATTTTCAATTACAGAAAGAAACGGTGACGTTTTCACAAAATTGTAGACATAT
TTGCGGCGTTTTACCTT
Found at i:65072357 original size:13 final size:13
Alignment explanation
Indices: 65072339--65072402 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
65072329 AGTTTGGTAA
65072339 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
65072352 TGTTTTTGAAAAG
1 TGTTTTTGAAAAG
* *
65072365 TG-ATATGAAAAAG
1 TGTTTTTG-AAAAG
*
65072378 TGTTTTTGAGAAG
1 TGTTTTTGAAAAG
65072391 TGTTTTTGAAAA
1 TGTTTTTGAAAA
65072403 ATTTGATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 3 0.07
13 37 0.86
14 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.42
Consensus pattern (13 bp):
TGTTTTTGAAAAG
Found at i:65072824 original size:30 final size:30
Alignment explanation
Indices: 65072788--65072846 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
65072778 CTTAACAAGC
65072788 AAATGTCTCTAAAATAATAACAAAATTAAT
1 AAATGTCTCTAAAATAATAACAAAATTAAT
*
65072818 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
65072847 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAT
Found at i:65072904 original size:22 final size:22
Alignment explanation
Indices: 65072879--65072921 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65072869 TATCCAAACA
65072879 ATAACA-TCAAAATAGTAGCAAC
1 ATAACAGT-AAAATAGTAGCAAC
*
65072901 ATAATAGTAAAATAGTAGCAA
1 ATAACAGTAAAATAGTAGCAA
65072922 AATACGGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAGTAAAATAGTAGCAAC
Found at i:65072925 original size:11 final size:11
Alignment explanation
Indices: 65072886--65072925 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
65072876 ACAATAACAT
65072886 CAAAATAGTAG
1 CAAAATAGTAG
* *
65072897 CAACATAATAG
1 CAAAATAGTAG
*
65072908 TAAAATAGTAG
1 CAAAATAGTAG
65072919 CAAAATA
1 CAAAATA
65072926 CGGAGCAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:65074181 original size:24 final size:23
Alignment explanation
Indices: 65074147--65074192 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
65074137 TTTTTTTGTA
65074147 TTTTATATATTCAATTACTTTTAG
1 TTTTATATATTCAATTA-TTTTAG
* *
65074171 TTTTATTTATTTAATTATTTTA
1 TTTTATATATTCAATTATTTTA
65074193 TTAGTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATATATTCAATTATTTTAG
Found at i:65074444 original size:29 final size:28
Alignment explanation
Indices: 65074379--65074454 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
65074369 AATATTTAAT
65074379 AAATTTAGGTACCAAATTGAACCTAAAA
1 AAATTTAGGTACCAAATTGAACCTAAAA
** *
65074407 AAATCTTAGGTACCAAATTGGGCCCTAAAG
1 AAAT-TTAGGTACCAAATT-GAACCTAAAA
* *
65074437 AAGTTTAGATACCAAATT
1 AAATTTAGGTACCAAATT
65074455 AAAAAAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.10
29 27 0.66
30 10 0.24
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (28 bp):
AAATTTAGGTACCAAATTGAACCTAAAA
Found at i:65074509 original size:59 final size:59
Alignment explanation
Indices: 65074417--65074544 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 59
65074407 AAATCTTAGG
*
65074417 TACCAAATTGGGCCCTAAAGAAGTTTAGATACCAAATTA-AAAAAAATGTCAAGTTCAGA
1 TACCAAATTGGG-CCTAAAAAAGTTTAGATACCAAATTAGAAAAAAATGTCAAGTTCAGA
* *
65074476 TACCAAATTGGG-CTAAAAAAAGTTATA-AGTACCAAATTAGGAAAAAATTGTCAAGTTCATA
1 TACCAAATTGGGCCT-AAAAAAGTT-TAGA-TACCAAATTA-GAAAAAAATGTCAAGTTCAGA
*
65074537 TATCAAAT
1 TACCAAAT
65074545 GTTATATTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
57 2 0.03
58 9 0.15
59 24 0.40
61 25 0.42
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (59 bp):
TACCAAATTGGGCCTAAAAAAGTTTAGATACCAAATTAGAAAAAAATGTCAAGTTCAGA
Found at i:65076883 original size:16 final size:18
Alignment explanation
Indices: 65076844--65076885 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
65076834 TAAGTTTATA
65076844 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
65076861 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
65076878 A-ATTTATA
1 ATATTTATA
65076886 ATACATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:65080532 original size:3 final size:3
Alignment explanation
Indices: 65080524--65080553 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
65080514 CTTTTGTATG
65080524 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65080554 TGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65082606 original size:165 final size:165
Alignment explanation
Indices: 65082331--65082694 Score: 464
Period size: 165 Copynumber: 2.2 Consensus size: 165
65082321 TTTTGCGGCA
* * *
65082331 TTTTTACAATAGCGCCACTAATGATTAACATTTAGCAGCGTTTACCCAATAGCACCTCTAATGAT
1 TTTTTACCATAGCGCCACTAATGATTGACATTTAGCAGCGTTTACCCAATAGCACCTCTAATCAT
* * *
65082396 TTTTACGCCTTTTTGATAAAACGACGTCATCTAGCTTACTGCCCATATTTACTTGCGGCATTTTC
66 TTTTACGCCTTTTTGATAAAACGACGTCATCAAGCTTAATGCCCATATATACTTGCGGCATTTTC
* * ***
65082461 CCAAGAGTGTTGCTAATGCTCAACATTTAGCGGTG
131 CCAAGACTGTCGCTAATGCTCAACATTTAGCAACG
* * * * *
65082496 TTTTTACCATAGCGCCACTAATGTTTGACATTTAGCAGTGTTTTCCCAGTAGC-GCTGCTAA-CA
1 TTTTTACCATAGCGCCACTAATGATTGACATTTAGCAGCGTTTACCCAATAGCACCT-CTAATCA
* * * *
65082559 TTTTTTGCGCCTTTTTGATAAAACGACGTCGTCAAGCTTAATGCCCATATATATTTGCGGTATTT
65 -TTTTTACGCCTTTTTGATAAAACGACGTCATCAAGCTTAATGCCCATATATACTTGCGGCATTT
* *
65082624 TCCCAATACTGTCGCTAATGCTCGACATTTAGCAACG
129 TCCCAAGACTGTCGCTAATGCTCAACATTTAGCAACG
* *
65082661 CTTTTA-CACTAGCGCCACTAATGCTTGACATTTA
1 TTTTTACCA-TAGCGCCACTAATGATTGACATTTA
65082695 AGCTCACTAA
Statistics
Matches: 172, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
164 5 0.03
165 167 0.97
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (165 bp):
TTTTTACCATAGCGCCACTAATGATTGACATTTAGCAGCGTTTACCCAATAGCACCTCTAATCAT
TTTTACGCCTTTTTGATAAAACGACGTCATCAAGCTTAATGCCCATATATACTTGCGGCATTTTC
CCAAGACTGTCGCTAATGCTCAACATTTAGCAACG
Found at i:65083462 original size:22 final size:22
Alignment explanation
Indices: 65083437--65083510 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
65083427 GAATTTTTTT
65083437 GGGTTTAGGGTTTTAGGATTTA
1 GGGTTTAGGGTTTTAGGATTTA
* * **
65083459 GGGTTTATGTTTTTAAAATTTA
1 GGGTTTAGGGTTTTAGGATTTA
** *
65083481 AAGTTTAGGG-TTTAGGAATTA
1 GGGTTTAGGGTTTTAGGATTTA
65083502 GGGGTTTAG
1 -GGGTTTAG
65083511 AGAAAGCCAT
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
21 8 0.21
22 30 0.79
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
GGGTTTAGGGTTTTAGGATTTA
Found at i:65083704 original size:17 final size:18
Alignment explanation
Indices: 65083671--65083706 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65083661 AAAGTTAGTT
65083671 TCAAATATCAAAATAAAA
1 TCAAATATCAAAATAAAA
*
65083689 TCAAAT-TCAAACTAAAA
1 TCAAATATCAAAATAAAA
65083706 T
1 T
65083707 AAGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (18 bp):
TCAAATATCAAAATAAAA
Found at i:65083897 original size:41 final size:42
Alignment explanation
Indices: 65083833--65083999 Score: 175
Period size: 41 Copynumber: 4.1 Consensus size: 42
65083823 CGAAAATGGC
* **
65083833 TGCTCAACTTTTT-GCGGTATTTGGACCAAAAACGCCGCTAT
1 TGCTCAACTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTAT
* ** *
65083874 TGATCAACTTTTT-GTGGCGTTTGGATTAAAAACACCGCTAT
1 TGCTCAACTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTAT
* * *
65083915 TGCT-AAGTTTTTAGCT-GCGTTTGTACC-AAAACGCTGCTAT
1 TGCTCAACTTTTTAG-TGGCGTTTGGACCAAAAACGCCGCTAT
* *
65083955 TGCTC-AGTTTTTAGTTGCGTTTGGACCAAAAACGCCGCTAT
1 TGCTCAACTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTAT
65083996 TGCT
1 TGCT
65084000 GAGTTTTTAC
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 41 0.39
41 62 0.59
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
TGCTCAACTTTTTAGTGGCGTTTGGACCAAAAACGCCGCTAT
Found at i:65083954 original size:81 final size:82
Alignment explanation
Indices: 65083852--65084008 Score: 210
Period size: 81 Copynumber: 1.9 Consensus size: 82
65083842 TTTTGCGGTA
**
65083852 TTTGGACCAAAAACGCCGCTATTGATCAACTTTTT-GTGGCGTTTGGATTAAAAACACCGCTATT
1 TTTGGACCAAAAACGCCGCTATTGATC-ACTTTTTAGTGGCGTTTGGACCAAAAACACCGCTATT
65083916 GCTAAGTTTTTAGCTGCG
65 GCTAAGTTTTTAGCTGCG
* * * * * *
65083934 TTTGTACC-AAAACGCTGCTATTGCTCAGTTTTTAGTTGCGTTTGGACCAAAAACGCCGCTATTG
1 TTTGGACCAAAAACGCCGCTATTGATCACTTTTTAGTGGCGTTTGGACCAAAAACACCGCTATTG
*
65083998 CTGAGTTTTTA
66 CTAAGTTTTTA
65084009 CAGTGTTTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 6 0.09
81 52 0.80
82 7 0.11
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (82 bp):
TTTGGACCAAAAACGCCGCTATTGATCACTTTTTAGTGGCGTTTGGACCAAAAACACCGCTATTG
CTAAGTTTTTAGCTGCG
Found at i:65084005 original size:41 final size:41
Alignment explanation
Indices: 65083852--65084008 Score: 192
Period size: 41 Copynumber: 3.9 Consensus size: 41
65083842 TTTTGCGGTA
* * *
65083852 TTTGGACCAAAAACGCCGCTATTGATCAACTTTTT-GTGGCG
1 TTTGGACCAAAAACGCCGCTATTGCT-AAGTTTTTAGTTGCG
** * *
65083893 TTTGGATTAAAAACACCGCTATTGCTAAGTTTTTAGCTGCG
1 TTTGGACCAAAAACGCCGCTATTGCTAAGTTTTTAGTTGCG
* * *
65083934 TTTGTACC-AAAACGCTGCTATTGCTCAGTTTTTAGTTGCG
1 TTTGGACCAAAAACGCCGCTATTGCTAAGTTTTTAGTTGCG
*
65083974 TTTGGACCAAAAACGCCGCTATTGCTGAGTTTTTA
1 TTTGGACCAAAAACGCCGCTATTGCTAAGTTTTTA
65084009 CAGTGTTTTC
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 42 0.43
41 55 0.57
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (41 bp):
TTTGGACCAAAAACGCCGCTATTGCTAAGTTTTTAGTTGCG
Found at i:65085711 original size:12 final size:11
Alignment explanation
Indices: 65085683--65085737 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
65085673 ATATTCTATT
65085683 AATTTAATA-A
1 AATTTAATATA
*
65085693 GATTTAATATTA
1 AATTTAATA-TA
65085705 AATTTAATATA
1 AATTTAATATA
65085716 AATATTAGA-ATA
1 AAT-TTA-ATATA
*
65085728 AATTCAATAT
1 AATTTAATAT
65085738 TAAAGTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 9 0.24
11 9 0.24
12 18 0.49
13 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (11 bp):
AATTTAATATA
Found at i:65088053 original size:215 final size:215
Alignment explanation
Indices: 65087678--65088113 Score: 854
Period size: 215 Copynumber: 2.0 Consensus size: 215
65087668 TAGCATAAAA
65087678 TAAAGTAGTAAGTTCCACATGAACTTATCTGGTCAAAATACCAAACAAGCTAAAACTTTAAGGAC
1 TAAAGTAGTAAGTTCCACATGAACTTATCTGGTCAAAATACCAAACAAGCTAAAACTTTAAGGAC
65087743 TAATCTACAACTTTTTTCTTTTCCTCGATTATCTCTGATTTGATCCAATTCTTGATCTATTCAAT
66 TAATCTACAACTTTTTTCTTTTCCTCGATTATCTCTGATTTGATCCAATTCTTGATCTATTCAAT
*
65087808 TATTTCATTCAATCCATCAATATCAAAAATTTATACATTATATCTTTACATGAATGAACCTATGA
131 TATTTCATTCAATCCATCAATATAAAAAATTTATACATTATATCTTTACATGAATGAACCTATGA
65087873 AATCTTATTTTTGATACCCC
196 AATCTTATTTTTGATACCCC
*
65087893 TAAAGTAGTAAGTTCCACATGAACTTATCTGGTCAAAATACCAAACAAGCTAAAACTTTAATGAC
1 TAAAGTAGTAAGTTCCACATGAACTTATCTGGTCAAAATACCAAACAAGCTAAAACTTTAAGGAC
65087958 TAATCTACAACTTTTTTCTTTTCCTCGATTATCTCTGATTTGATCCAATTCTTGATCTATTCAAT
66 TAATCTACAACTTTTTTCTTTTCCTCGATTATCTCTGATTTGATCCAATTCTTGATCTATTCAAT
65088023 TATTTCATTCAATCCATCAATATAAAAAATTTATACATTATATCTTTACATGAATGAACCTATGA
131 TATTTCATTCAATCCATCAATATAAAAAATTTATACATTATATCTTTACATGAATGAACCTATGA
65088088 AATCTTATTTTTGATACCCC
196 AATCTTATTTTTGATACCCC
65088108 TAAAGT
1 TAAAGT
65088114 TTTACATTTT
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 219 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (215 bp):
TAAAGTAGTAAGTTCCACATGAACTTATCTGGTCAAAATACCAAACAAGCTAAAACTTTAAGGAC
TAATCTACAACTTTTTTCTTTTCCTCGATTATCTCTGATTTGATCCAATTCTTGATCTATTCAAT
TATTTCATTCAATCCATCAATATAAAAAATTTATACATTATATCTTTACATGAATGAACCTATGA
AATCTTATTTTTGATACCCC
Found at i:65090439 original size:34 final size:33
Alignment explanation
Indices: 65090385--65090481 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 33
65090375 TTTAGAGTTT
* *
65090385 TTTTAAAAAAAATTAATTAAATTATGTTTTAAGGG
1 TTTT-AAAAAAATTAATTAAATTATGGTTT-AGAG
* *
65090420 TTTTAAATAAATTATTTAAATTATGGTTTAGAG
1 TTTTAAAAAAATTAATTAAATTATGGTTTAGAG
* *
65090453 TTTTCAAGAAAATTAATTAAATTAGGGTT
1 TTTT-AAAAAAATTAATTAAATTATGGTT
65090482 CAATTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 7 0.13
34 42 0.79
35 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTAAAAAAATTAATTAAATTATGGTTTAGAG
Found at i:65090718 original size:125 final size:125
Alignment explanation
Indices: 65090562--65091073 Score: 608
Period size: 125 Copynumber: 4.1 Consensus size: 125
65090552 TTAAAATAAA
* * * *
65090562 TTTTTTTACAGTAGTT-TTAGAAAAATTAATTTTAAGAAGACGGTTCTGAAAAAATAATGTCAAA
1 TTTTTCTACAGTAGTTCCT-GAAAAAATAATTTTAAGAAGACGGTTCT-AAAAAATAGTGTCAAA
* * *
65090626 AACGCTTCAAGCAGGATGCATTGTCAGTAAAATTACTGAAAAAAACTCCCACGTAGACGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * *
65090688 TTTTTCTCCAGTCGTTCCTGAAAAAA-AATTTTGAA-AAGACAGTTCTGAAAAATAGTTTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTT-AAGAAGACGGTTCTAAAAAATAGTGTCAAAA
* * * * * ** * * * *
65090751 ACTCTTTAAGTAGAATGCACTATCAAAAAAATTACTGAAATAAGCTCCCACATGGACTCTT
65 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
65090812 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
* * * *
65090877 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACGT--TCGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
65090935 TTTTTCTACAGTAGTTCTTGAAAAAATAATGTTGAGAAAACGGTTCTAAAAAATAGTG-C-CAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
* *
65090998 TGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTG-AAAAAGCTCCCACGTGGATGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
65091057 TTTTTCTACGGTAGTTC
1 TTTTTCTACAGTAGTTC
65091074 ATGTTTGGCC
Statistics
Matches: 324, Mismatches: 56, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
120 15 0.05
121 35 0.11
122 21 0.06
123 58 0.18
124 85 0.26
125 88 0.27
126 21 0.06
127 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTAAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:65098796 original size:31 final size:31
Alignment explanation
Indices: 65098758--65098818 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
65098748 CAAATTGATC
65098758 ACTAAACTAATAAAAAGTTTTAATTTAAGTT
1 ACTAAACTAATAAAAAGTTTTAATTTAAGTT
* * * *
65098789 ACTAAACTATTCAAATGTTTTTATTTAAGT
1 ACTAAACTAATAAAAAGTTTTAATTTAAGT
65098819 CATTGAGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.43
Consensus pattern (31 bp):
ACTAAACTAATAAAAAGTTTTAATTTAAGTT
Found at i:65099134 original size:5 final size:5
Alignment explanation
Indices: 65099109--65099149 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
65099099 GTTGATAAAG
*
65099109 AAAAT -AAAT AAAA- AACA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
65099150 GCATAATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 10 0.31
5 22 0.69
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:65100004 original size:19 final size:19
Alignment explanation
Indices: 65099975--65100020 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
65099965 GCAATTGTAT
65099975 TTTTATTCTATTC-AATTCTG
1 TTTT-TTCTATTCAAATT-TG
65099995 TTTTTTCTATTCAAATTTG
1 TTTTTTCTATTCAAATTTG
65100014 TTTTTTC
1 TTTTTTC
65100021 ATGCACCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTTCTATTCAAATTTG
Found at i:65102217 original size:29 final size:29
Alignment explanation
Indices: 65102148--65102218 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
65102138 AGAGCCAAAT
65102148 TATACAT-AAATAAACTTAAAAGAGAATA
1 TATACATAAAATAAACTTAAAAGAGAATA
* * *
65102176 TACACATATAATAAATTTAAAAGAGAATA
1 TATACATAAAATAAACTTAAAAGAGAATA
*
65102205 TTTACATAAAATAA
1 TATACATAAAATAA
65102219 TATGAAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (29 bp):
TATACATAAAATAAACTTAAAAGAGAATA
Found at i:65102226 original size:29 final size:29
Alignment explanation
Indices: 65102151--65102226 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
65102141 GCCAAATTAT
65102151 ACAT-AAATAAACTT-AAAAGAGAATATAC
1 ACATAAAATAAA-TTGAAAAGAGAATATAC
* * **
65102179 ACATATAATAAATTTAAAAGAGAATATTT
1 ACATAAAATAAATTGAAAAGAGAATATAC
65102208 ACATAAAAT-AATATGAAAA
1 ACATAAAATAAAT-TGAAAA
65102227 CAATAATGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 9 0.22
29 31 0.77
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.26
Consensus pattern (29 bp):
ACATAAAATAAATTGAAAAGAGAATATAC
Found at i:65107350 original size:25 final size:26
Alignment explanation
Indices: 65107304--65107354 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
65107294 TTTAAAAATT
*
65107304 TATATTTGATACATACTTATAAAAAA
1 TATATTTGATACATACTCATAAAAAA
* *
65107330 TATATTTTA-ACATTCTCATAAAAAA
1 TATATTTGATACATACTCATAAAAAA
65107355 AAGACATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
TATATTTGATACATACTCATAAAAAA
Found at i:65110683 original size:21 final size:21
Alignment explanation
Indices: 65110657--65110699 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
65110647 GCATATCTAT
65110657 TTTCTCTTTAATATACTAGCA
1 TTTCTCTTTAATATACTAGCA
* *
65110678 TTTCTCTTTGATATTCTAGCA
1 TTTCTCTTTAATATACTAGCA
65110699 T
1 T
65110700 GGTATCAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTCTCTTTAATATACTAGCA
Found at i:65112049 original size:46 final size:46
Alignment explanation
Indices: 65111921--65112051 Score: 174
Period size: 46 Copynumber: 2.8 Consensus size: 46
65111911 TTTGACATGA
* * * * *
65111921 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGC
* *
65111967 TGCCATGGTATCTTTCAACGATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
*
65112013 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
65112052 ATTAGAGAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
45 4 0.05
46 71 0.95
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGC
Found at i:65114227 original size:18 final size:20
Alignment explanation
Indices: 65114212--65114248 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65114202 TAATAATAAA
*
65114212 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
65114232 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
65114249 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:65115082 original size:30 final size:29
Alignment explanation
Indices: 65115048--65115131 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
65115038 ATGGCCATGT
65115048 TTATAATGCTGGTCAAACTATTGGTCAAAA
1 TTATAATGCTGGTCAAA-TATTGGTCAAAA
* *
65115078 TTATAATGCTGGCCAAA-ATGCTTGTCAAAA
1 TTATAATGCTGGTCAAATAT--TGGTCAAAA
* *
65115108 TTATCATGCTAGTCAAA-ATTGGTC
1 TTATAATGCTGGTCAAATATTGGTC
65115132 TCTGCTAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
28 6 0.13
30 40 0.87
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (29 bp):
TTATAATGCTGGTCAAATATTGGTCAAAA
Found at i:65118748 original size:20 final size:20
Alignment explanation
Indices: 65118711--65118748 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
65118701 TGATGGGGAG
*
65118711 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
65118731 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
65118749 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:65120610 original size:46 final size:46
Alignment explanation
Indices: 65120558--65120697 Score: 156
Period size: 46 Copynumber: 3.0 Consensus size: 46
65120548 GTGTGCTCTC
* *
65120558 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** * * *
65120604 TGATATGAAATGAACAACACCGTGGTTGAAAGATACCATGGAAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
65120650 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
65120696 TG
1 TG
65120698 TCAAAGATAA
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 1 0.01
46 75 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:65122338 original size:21 final size:21
Alignment explanation
Indices: 65122291--65122354 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
65122281 ATAGTTTTTC
*
65122291 CATTTCTCTTTGCATA-TCTA-
1 CATTTCTCTTT-AATATTCTAG
65122311 C-TTTCTCTTTAATATTCTAG
1 CATTTCTCTTTAATATTCTAG
*
65122331 CATTTCTCTTTGATATTCTAG
1 CATTTCTCTTTAATATTCTAG
65122352 CAT
1 CAT
65122355 CTTCCACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.08
19 13 0.33
20 2 0.05
21 21 0.54
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (21 bp):
CATTTCTCTTTAATATTCTAG
Found at i:65129756 original size:60 final size:60
Alignment explanation
Indices: 65129656--65129792 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 60
65129646 AACTGTGTTC
* *
65129656 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
* * * * *
65129716 ATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCATATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGACCCAGATTAATACTG
65129776 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
65129793 GTTAACACTA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 50 0.76
61 12 0.18
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTAATACTG
Found at i:65131173 original size:3 final size:3
Alignment explanation
Indices: 65131130--65131370 Score: 171
Period size: 3 Copynumber: 79.7 Consensus size: 3
65131120 TTATTTTTGC
* * * *
65131130 TAT T-T TAT TAT TTT TAT TTT TAT TTT TAT TAT CAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * *
65131175 TAT TAT TAT TACT T-T TAT TAT TAT TAC TAT CAT TAT TAT TTT TAG
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * ** * *
65131220 TAG TAG TAT TAT TAT AAT TAT TCT TTT TAT TAT TGT CCT TAC TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
65131268 TAT TCTT TAT TAT TAT TAA TAT TAT TAA TATT TAT TAT TAT TAC TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * *
65131315 TAT TAT TAG TAT TAT TAT TAC TAC CAT TAT TTT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
65131363 AAT TAT TA
1 TAT TAT TA
65131371 CATTTCTCTT
Statistics
Matches: 182, Mismatches: 50, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
2 4 0.02
3 169 0.93
4 9 0.05
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:65139099 original size:15 final size:15
Alignment explanation
Indices: 65139079--65139116 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
65139069 GTTAAAACTA
65139079 TTTTTTATATATTAT
1 TTTTTTATATATTAT
*
65139094 TTTTTTATGTATTAT
1 TTTTTTATATATTAT
65139109 TTATTTTA
1 TT-TTTTA
65139117 AAAATTGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTTTATATATTAT
Found at i:65140317 original size:22 final size:23
Alignment explanation
Indices: 65140283--65140329 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
65140273 GTTTTCTAGT
* *
65140283 TTTTCATAGACCAAAA-ACATTA
1 TTTTAATAAACCAAAATACATTA
*
65140305 TTTTAATAAACCAAAATACTTTA
1 TTTTAATAAACCAAAATACATTA
65140328 TT
1 TT
65140330 AAAATGATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (23 bp):
TTTTAATAAACCAAAATACATTA
Found at i:65142543 original size:3 final size:3
Alignment explanation
Indices: 65142535--65143354 Score: 1640
Period size: 3 Copynumber: 273.3 Consensus size: 3
65142525 CCAATAATTA
65142535 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142583 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142631 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142679 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142727 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142775 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142823 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142871 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142919 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65142967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143015 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143111 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143159 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143207 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143303 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65143351 AAT A
1 AAT A
65143355 TGAGCATCAT
Statistics
Matches: 817, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 817 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65147103 original size:3 final size:3
Alignment explanation
Indices: 65147095--65147129 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65147085 AGATATACAC
*
65147095 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65147130 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147249 original size:3 final size:3
Alignment explanation
Indices: 65147241--65147275 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65147231 AGATATACAC
*
65147241 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65147276 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147318 original size:146 final size:146
Alignment explanation
Indices: 65147054--65148012 Score: 1738
Period size: 146 Copynumber: 6.5 Consensus size: 146
65147044 GTCTTAATTC
65147054 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65147119 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
66 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
65147184 AAAAATAATACTATGT
131 AAAAATAATACTATGT
65147200 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65147265 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
66 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
65147330 AAAAATAATACTATGT
131 AAAAATAATACTATGT
65147346 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65147411 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
66 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
65147476 AAAAATAATACTATGT
131 AAAAATAATACTATGT
65147492 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65147557 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
66 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
65147622 AAAAATAATACTATGT
131 AAAAATAATACTATGT
65147638 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65147703 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
66 TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATT-
65147768 AAAAAATAATACTATGT
130 AAAAAATAATACTATGT
65147785 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACAC---------------TAATAATAA
* *
65147850 TAATAATAATAATAATAATAATAATATTGAAATACAAAAGGCAAATATAATATAATAAAAATATT
51 TAATAATAATAATAATAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATT
*
65147915 AAAATAAAGTAATTAAAAAATAATATTATGT
116 AAAATAAAGTAATTAAAAAATAATACTATGT
*
65147946 ATAAATATATATACATATACATATACAATAAAAATATACACTAATAATAATAATAATAATAATAA
1 ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
65148011 TA
66 TA
65148013 ATAAACGTAA
Statistics
Matches: 793, Mismatches: 4, Indels: 32
0.96 0.00 0.04
Matches are distributed among these distances:
146 593 0.75
147 58 0.07
161 56 0.07
162 86 0.11
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (146 bp):
ATAAATATATATACATATACATATACAATAAAGATATACACTAATAATAATAATAATAATAATAA
TAGTAATAATATTGAAATACAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTA
AAAAATAATACTATGT
Found at i:65147395 original size:3 final size:3
Alignment explanation
Indices: 65147387--65147421 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65147377 AGATATACAC
*
65147387 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65147422 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147541 original size:3 final size:3
Alignment explanation
Indices: 65147533--65147567 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65147523 AGATATACAC
*
65147533 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65147568 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147687 original size:3 final size:3
Alignment explanation
Indices: 65147679--65147713 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
65147669 AGATATACAC
*
65147679 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
65147714 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147834 original size:3 final size:3
Alignment explanation
Indices: 65147826--65147875 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
65147816 AGATATACAC
65147826 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
65147874 TA
1 TA
65147876 TTGAAATACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65147995 original size:3 final size:3
Alignment explanation
Indices: 65147987--65148016 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
65147977 AAATATACAC
65147987 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
65148017 ACGTAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:65149425 original size:44 final size:44
Alignment explanation
Indices: 65149375--65149511 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 44
65149365 ATGAATGGTG
65149375 GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTTGTA
1 GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTTGTA
* * ** * * * * * * *
65149419 GCTTCGA-TCTAATCC-GCTGGAACTTT-AAGAAGATACGAATGGTG
1 GCTTCGAGCCT-CTCCAG-TGCCA-TTTCAGGGAGAAAAGATTTGTA
* *
65149463 GCTTTGAGCCTCTCCAGTGCCATTTCAGGGAGCAAAGATTTGTA
1 GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTTGTA
65149507 GCTTC
1 GCTTC
65149512 AACCTGCTCC
Statistics
Matches: 62, Mismatches: 25, Indels: 12
0.63 0.25 0.12
Matches are distributed among these distances:
43 6 0.10
44 50 0.81
45 6 0.10
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (44 bp):
GCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTTGTA
Found at i:65149472 original size:88 final size:88
Alignment explanation
Indices: 65149351--65149511 Score: 277
Period size: 88 Copynumber: 1.8 Consensus size: 88
65149341 ACTCCGTTGA
* *
65149351 AACTTCAAGGAGATATGAATGGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTT
1 AACTTCAAGAAGATACGAATGGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTT
65149416 GTAGCTTCGATCTAATCCGCTGG
66 GTAGCTTCGATCTAATCCGCTGG
* * *
65149439 AACTTTAAGAAGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGGAGCAAAGATTT
1 AACTTCAAGAAGATACGAATGGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTT
65149504 GTAGCTTC
66 GTAGCTTC
65149512 AACCTGCTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (88 bp):
AACTTCAAGAAGATACGAATGGTGGCTTCGAGCCTCTCCAGTGCCATTTCAGGGAGAAAAGATTT
GTAGCTTCGATCTAATCCGCTGG
Done.