Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 52 of 91
Found at i:8591122 original size:207 final size:204
Alignment explanation
Indices: 8590758--8591377 Score: 746
Period size: 207 Copynumber: 3.0 Consensus size: 204
8590748 ATAATTTCTA
* ** *
8590758 AGACCTCCAAGCATAATTTTTAAGACCTCTAGGCAAAACATTTTAAATTTTTAAAGTTTCATGGC
1 AGACCTTCAAGCATAATTTTTAAGATTTC-AGGCAAAATATTTTAAATTTTTAAAGTTTCATGGC
** * * * *
8590823 CTTTGATTGGATAAGCATTCAAAGATTTTAAAATCTTTAAGACCT-CTAGCATAATTTTTTAGAC
65 CTTTGATTGGAGGAGCATTCAAAGATTTTGAAATCTCTAAGACCTCCTGGCATAATTTTTAAGAC
* * *
8590887 CTTCGGGCAAAAC-ATTTTAAATTTTTAAAGTTTCATGGCCTTTAATTGGAGGAGCATTCAAAGG
130 CTT-GAGC-AAACTATTTTAAATTTTTAAAGTTTCAT-GCCTTTGATTGGAGGAGCATTCAAAGA
8590951 TTTTGAAATCTCT
192 TTTTGAAATCTCT
*
8590964 GAGACCTTCAAGCATAATTTTTAAGATTTTCAGGCAAAATATTTTAAATTTTTAAAGTTTCAAGG
1 -AGACCTTCAAGCATAATTTTTAAGA-TTTCAGGCAAAATATTTTAAATTTTTAAAGTTTCATGG
* * * * *
8591029 CCTCTAATTGGAGGAGTATTCAAAGATTTTGAAATCTCTGAGACCTCCGGGCATAATTTTTAAGA
64 CCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATCTCTAAGACCTCCTGGCATAATTTTTAAGA
* * * * *
8591094 TCTCTAAGCAAACTGTTTTAAA-TTTTAAAGTTTCATAGCCTTTGATTAGATGAGCATTCAAAGA
129 CCT-TGAGCAAACTATTTTAAATTTTTAAAGTTTCAT-GCCTTTGATTGGAGGAGCATTCAAAGA
*
8591158 TTTTGAAATTTCT
192 TTTTGAAATCTCT
** * *
8591171 AGGAGTTTCGAGCATAATTTTTAAGACCTTTGA-GCAAAATATTTTAAATTTTTAAAGTTTCATG
1 A-GACCTTCAAGCATAATTTTTAAGA--TTTCAGGCAAAATATTTTAAATTTTTAAAGTTTCATG
* * * * * *
8591235 GCCTTTGATTAGAGGAGCATTTAAAGTTTTTGAAATCTCTAAAACCTCTTGGCA-AATTTTCAAG
63 GCCTTTGATTGGAGGAGCATTCAAAGATTTTGAAATCTCTAAGACCTCCTGGCATAATTTTTAAG
* * * *
8591299 ACCTTTGAGCAAAATATTTTAAATTTTTAAAGTTTCATGCCTCTGATTGGAGAAGCATTTAAAGA
128 ACC-TTGAGCAAACTATTTTAAATTTTTAAAGTTTCATGCCTTTGATTGGAGGAGCATTCAAAGA
8591364 TTTTGAAATCTCT
192 TTTTGAAATCTCT
8591377 A
1 A
8591378 AGACTTTCGG
Statistics
Matches: 352, Mismatches: 53, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
206 62 0.18
207 257 0.73
208 32 0.09
209 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (204 bp):
AGACCTTCAAGCATAATTTTTAAGATTTCAGGCAAAATATTTTAAATTTTTAAAGTTTCATGGCC
TTTGATTGGAGGAGCATTCAAAGATTTTGAAATCTCTAAGACCTCCTGGCATAATTTTTAAGACC
TTGAGCAAACTATTTTAAATTTTTAAAGTTTCATGCCTTTGATTGGAGGAGCATTCAAAGATTTT
GAAATCTCT
Found at i:8592784 original size:12 final size:12
Alignment explanation
Indices: 8592767--8592800 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8592757 GGCTGAAAAA
*
8592767 AAAAAAAAAGGT
1 AAAAAAAAAGGC
8592779 AAAAAAAAA-GC
1 AAAAAAAAAGGC
8592790 AAAAAAAAAGG
1 AAAAAAAAAGG
8592801 AAGGATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGGC
Found at i:8593726 original size:63 final size:63
Alignment explanation
Indices: 8593654--8593773 Score: 204
Period size: 63 Copynumber: 1.9 Consensus size: 63
8593644 TTAGCTTCTA
* * *
8593654 TATGTAGTGAAAGAGTCAAATGCAATAGTTGGTCCTACCATGGTCTTGTTTGCCTAGCTTTCG
1 TATGAAGTGAAAGAGTCAAATGCAATAGTTGGTCCCACCATGGTCTTGTTTACCTAGCTTTCG
*
8593717 TATGAAGTGAAAGAGTCAAATGCAATATTTGGTCCCACCATGGTCTTGTTTACCTAG
1 TATGAAGTGAAAGAGTCAAATGCAATAGTTGGTCCCACCATGGTCTTGTTTACCTAG
8593774 TTTTTTTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (63 bp):
TATGAAGTGAAAGAGTCAAATGCAATAGTTGGTCCCACCATGGTCTTGTTTACCTAGCTTTCG
Found at i:8594044 original size:3 final size:3
Alignment explanation
Indices: 8593999--8594027 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8593989 TATAATGATG
8593999 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8594028 GCTAAGATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8594957 original size:24 final size:26
Alignment explanation
Indices: 8594925--8594973 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
8594915 TCATTAATAA
8594925 TTATCATTTATA-AA-GAATGTTATT
1 TTATCATTTATAGAAGGAATGTTATT
* *
8594949 TTATTATTTTTAGAAGGAATGTTAT
1 TTATCATTTATAGAAGGAATGTTAT
8594974 AGTAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 2 0.10
26 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (26 bp):
TTATCATTTATAGAAGGAATGTTATT
Found at i:8597817 original size:15 final size:15
Alignment explanation
Indices: 8597782--8597824 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
8597772 ACATAATTTT
**
8597782 TTAAAAATAAAATGA
1 TTAAAAATAAAAAAA
*
8597797 TGAAAAATAAAAAAA
1 TTAAAAATAAAAAAA
*
8597812 TTAAAATTAAAAA
1 TTAAAAATAAAAA
8597825 TTTATAAGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (15 bp):
TTAAAAATAAAAAAA
Found at i:8601813 original size:17 final size:17
Alignment explanation
Indices: 8601791--8601832 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8601781 TTATATTTTT
*
8601791 TATAAATGTTATAAATA
1 TATAAATATTATAAATA
*
8601808 TATAAATATTATAATTA
1 TATAAATATTATAAATA
*
8601825 TTTAAATA
1 TATAAATA
8601833 AAAATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATAAATATTATAAATA
Found at i:8606184 original size:20 final size:20
Alignment explanation
Indices: 8606161--8606203 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8606151 TTGCATAACA
8606161 TTTTTAATGCTTTACTTTTT
1 TTTTTAATGCTTTACTTTTT
** *
8606181 TTTTTGTTTCTTTACTTTTT
1 TTTTTAATGCTTTACTTTTT
8606201 TTT
1 TTT
8606204 AAAAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTAATGCTTTACTTTTT
Found at i:8607583 original size:60 final size:60
Alignment explanation
Indices: 8607430--8607593 Score: 144
Period size: 59 Copynumber: 2.7 Consensus size: 60
8607420 ATGCCCATAC
** * * *
8607430 AACCATAATTACAAAAATG-CCTTTTTACTATCATTTATAATAATTACTATAATACCTCTCCT
1 AACCATAATTATGAAAATGTCC-TCTTAC-ATAATTTATAA-AATAACTATAATACCTCTCCT
* *
8607492 -ACCATAATTATGAAAATATCACTCATT--ATAATTTATCAAAATAACTATAATACC-CT-TT
1 AACCATAATTATGAAAATGTC-CTC-TTACATAATTTAT-AAAATAACTATAATACCTCTCCT
8607550 AACCATAATTATGAAAATGTCCTCTTACCATAA-TTATGAAAATA
1 AACCATAATTATGAAAATGTCCTCTTA-CATAATTTAT-AAAATA
8607594 CCTCTCATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
57 2 0.02
58 4 0.05
59 31 0.36
60 26 0.31
61 17 0.20
62 2 0.02
63 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (60 bp):
AACCATAATTATGAAAATGTCCTCTTACATAATTTATAAAATAACTATAATACCTCTCCT
Found at i:8607644 original size:86 final size:84
Alignment explanation
Indices: 8607491--8607646 Score: 199
Period size: 86 Copynumber: 1.8 Consensus size: 84
8607481 ATACCTCTCC
* * * *
8607491 TACCATAATTATGAAAATATCACTCATTATAATTTATCAAAATAACTATAATACCCTTTAACCAT
1 TACCATAATTATGAAAATACCACTCATTATAATTGATCAAAATAACTATAATACCCTTAAACAAT
8607556 AATTATGAAAATGTCCTCT
66 AATTATGAAAATGTCCTCT
* * *
8607575 TACCATAATTATGAAAATACCTCTCATATTATAATTG-GCTAAAATTACTATAATA-CCTTCAAA
1 TACCATAATTATGAAAATACCACTC--ATTATAATTGATC-AAAATAACTATAATACCCTT-AAA
8607638 CAATAATTA
62 CAATAATTA
8607647 CAAAAAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
84 23 0.38
85 5 0.08
86 33 0.54
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (84 bp):
TACCATAATTATGAAAATACCACTCATTATAATTGATCAAAATAACTATAATACCCTTAAACAAT
AATTATGAAAATGTCCTCT
Found at i:8608133 original size:24 final size:25
Alignment explanation
Indices: 8608099--8608150 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
8608089 TATTAAGATA
* *
8608099 CCTCTATCCATAA-TATGAAAATGC
1 CCTCTAACCATAATTATGAAAATAC
8608123 CCTCTAACCATAATTATGAAAATAC
1 CCTCTAACCATAATTATGAAAATAC
8608148 CCT
1 CCT
8608151 TATATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (25 bp):
CCTCTAACCATAATTATGAAAATAC
Found at i:8608969 original size:16 final size:16
Alignment explanation
Indices: 8608948--8608978 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8608938 TTAAAGATTT
8608948 CTCTATTTTCTAGTGA
1 CTCTATTTTCTAGTGA
*
8608964 CTCTATTTTTTAGTG
1 CTCTATTTTCTAGTG
8608979 TTGTTTTTGG
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:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (16 bp):
CTCTATTTTCTAGTGA
Found at i:8609662 original size:19 final size:20
Alignment explanation
Indices: 8609628--8609666 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
8609618 ATGCCTGGTT
8609628 TAGATATGTAAATCATGATTG
1 TAGATATG-AAATCATGATTG
8609649 TAGATATG-AATCATGATT
1 TAGATATGAAATCATGATT
8609667 TAAGTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (20 bp):
TAGATATGAAATCATGATTG
Found at i:8615804 original size:19 final size:19
Alignment explanation
Indices: 8615780--8615819 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8615770 TGTGTTTATG
*
8615780 ATCAAATAACTACTAAGTA
1 ATCAAATAACTACTAACTA
8615799 ATCAAATAACTACTAACTA
1 ATCAAATAACTACTAACTA
8615818 AT
1 AT
8615820 TGTTTACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (19 bp):
ATCAAATAACTACTAACTA
Found at i:8616646 original size:22 final size:21
Alignment explanation
Indices: 8616618--8616682 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
8616608 TTCTCTATAA
8616618 GCTTTTTTTTTTTTATTTCTTT
1 GCTTTTTTTTTTTTATTT-TTT
*
8616640 GCTTTTTCTTTTCCTT-TTTTTT
1 GCTTTTT-TTTT-TTTATTTTTT
*
8616662 G-TTTTTTTGTTTTTATCTTTT
1 GCTTTTTTT-TTTTTATTTTTT
8616683 CACTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.11
21 12 0.33
22 11 0.31
23 7 0.19
24 2 0.06
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.80
Consensus pattern (21 bp):
GCTTTTTTTTTTTTATTTTTT
Found at i:8616660 original size:30 final size:32
Alignment explanation
Indices: 8616624--8616696 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
8616614 ATAAGCTTTT
8616624 TTTTTTTTATTTCTTTGCTTTT-TCTTTTC-C
1 TTTTTTTTATTTCTTTGCTTTTATCTTTTCAC
* * *
8616654 TTTTTTTTGTTTTTTTGTTTTTATCTTTTCAC
1 TTTTTTTTATTTCTTTGCTTTTATCTTTTCAC
*
8616686 -TTATTTTATTT
1 TTTTTTTTATTT
8616697 TTTTAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.53
31 16 0.44
32 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (32 bp):
TTTTTTTTATTTCTTTGCTTTTATCTTTTCAC
Found at i:8616661 original size:31 final size:32
Alignment explanation
Indices: 8616624--8616700 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
8616614 ATAAGCTTTT
* *
8616624 TTTTTTTTATTTCTTTGCTTTT-TCTTTTC-C
1 TTTTTTTTGTTTTTTTGCTTTTATCTTTTCAC
*
8616654 TTTTTTTTGTTTTTTTGTTTTTATCTTTTCAC
1 TTTTTTTTGTTTTTTTGCTTTTATCTTTTCAC
* *
8616686 -TTATTTTATTTTTTT
1 TTTTTTTTGTTTTTTT
8616701 AAATTAGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 19 0.47
31 20 0.50
32 1 0.03
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.79
Consensus pattern (32 bp):
TTTTTTTTGTTTTTTTGCTTTTATCTTTTCAC
Found at i:8619195 original size:17 final size:17
Alignment explanation
Indices: 8619175--8619208 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8619165 AAATCACAAG
8619175 TTTATAAAATTATAAAT
1 TTTATAAAATTATAAAT
* *
8619192 TTTATTAATTTATAAAT
1 TTTATAAAATTATAAAT
8619209 AAAAGTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATAAAATTATAAAT
Found at i:8622209 original size:20 final size:20
Alignment explanation
Indices: 8622180--8622264 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
8622170 ACCCCAATTG
8622180 AAACCTCAAATCCAAAACCT
1 AAACCTCAAATCCAAAACCT
* *
8622200 AAATCTCAAATCCAAACCCT
1 AAACCTCAAATCCAAAACCT
* *
8622220 AAACCTTAAATCC-AAACTTT
1 AAACCTCAAATCCAAAAC-CT
*
8622240 AAACCT-AAA-CTCTAAACCT
1 AAACCTCAAATC-CAAAACCT
8622259 AAACCT
1 AAACCT
8622265 TAAACTTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.02
19 14 0.25
20 40 0.73
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACCTCAAATCCAAAACCT
Found at i:8622241 original size:13 final size:13
Alignment explanation
Indices: 8622217--8622300 Score: 68
Period size: 13 Copynumber: 6.5 Consensus size: 13
8622207 AAATCCAAAC
8622217 CCTAAACCTTAAA
1 CCTAAACCTTAAA
*
8622230 TCC-AAACTTTAAA
1 -CCTAAACCTTAAA
8622243 CCTAAA-CTCTAAA
1 CCTAAACCT-TAAA
8622256 CCTAAACCTTAAA
1 CCTAAACCTTAAA
* * *
8622269 CTTAAGCCCTAAA
1 CCTAAACCTTAAA
8622282 CCCTAAATCC-T-AA
1 -CCTAAA-CCTTAAA
8622295 CCTAAA
1 CCTAAA
8622301 GCCTAACCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.16
13 38 0.66
14 9 0.16
15 2 0.03
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (13 bp):
CCTAAACCTTAAA
Found at i:8622268 original size:20 final size:19
Alignment explanation
Indices: 8622180--8622300 Score: 77
Period size: 20 Copynumber: 6.2 Consensus size: 19
8622170 ACCCCAATTG
* *
8622180 AAACCTCAAATCCAAAACCT
1 AAACCTTAAAT-CTAAACCT
* * *
8622200 AAATCTCAAATCCAAACCCT
1 AAACCTTAAATCTAAA-CCT
* *
8622220 AAACCTTAAATCCAAACTTT
1 AAACCTTAAATCTAAAC-CT
8622240 AAACC-TAAACTCTAAACCT
1 AAACCTTAAA-TCTAAACCT
*
8622259 AAACCTTAAA-CTTAAGCCCT
1 AAACCTTAAATC-TAA-ACCT
*
8622279 AAACCCTAAATCCT-AACCT
1 AAACCTTAAAT-CTAAACCT
8622298 AAA
1 AAA
8622301 GCCTAACCTT
Statistics
Matches: 83, Mismatches: 10, Indels: 17
0.75 0.09 0.15
Matches are distributed among these distances:
18 1 0.01
19 24 0.29
20 56 0.67
21 1 0.01
22 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.21
Consensus pattern (19 bp):
AAACCTTAAATCTAAACCT
Found at i:8622305 original size:26 final size:25
Alignment explanation
Indices: 8622241--8622323 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 25
8622231 CCAAACTTTA
8622241 AACCTAAA-CTCTAAACCTAAACCTT
1 AACCTAAAGC-CTAAACCTAAACCTT
* *
8622266 AAACTTAAGCCCTAAACCCTAAATCC-T
1 AACCTAAAG-CCTAAA-CCTAAA-CCTT
8622293 AACCTAAAGCCT-AACCTTAAACTCTAT
1 AACCTAAAGCCTAAACC-TAAAC-CT-T
8622320 AACC
1 AACC
8622324 CTAACACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 3 0.07
25 13 0.28
26 8 0.17
27 20 0.43
28 2 0.04
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (25 bp):
AACCTAAAGCCTAAACCTAAACCTT
Found at i:8623350 original size:17 final size:17
Alignment explanation
Indices: 8623328--8623427 Score: 64
Period size: 17 Copynumber: 5.8 Consensus size: 17
8623318 TTGATTTCTT
8623328 AAAAAGTGAAAAAAGAG
1 AAAAAGTGAAAAAAGAG
**
8623345 AAAAAGTATTAGAAAAATTAG
1 AAAAAG---T-GAAAAAAGAG
8623366 AAAAAG-GAAAAAAGA-
1 AAAAAGTGAAAAAAGAG
* *
8623381 ACAAAAGAGAAAAATGA-
1 A-AAAAGTGAAAAAAGAG
*
8623398 AAAAAATGAAAAAA-ATG
1 AAAAAGTGAAAAAAGA-G
*
8623415 AAAAAATGAAAAA
1 AAAAAGTGAAAAA
8623428 TGAAAATGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
15 2 0.03
16 22 0.33
17 28 0.42
20 1 0.01
21 14 0.21
ACGTcount: A:0.73, C:0.01, G:0.16, T:0.10
Consensus pattern (17 bp):
AAAAAGTGAAAAAAGAG
Found at i:8623403 original size:33 final size:33
Alignment explanation
Indices: 8623355--8623461 Score: 95
Period size: 33 Copynumber: 3.4 Consensus size: 33
8623345 AAAAAGTATT
* * *
8623355 AGAAAAATTAGAAAAA-GGAAAAAA-GAACAAAA
1 AGAAAAATGAAAAAAATGAAAAAAATGAA-AAAA
8623387 GAGAAAAATGAAAAAAATGAAAAAAATGAAAAAA
1 -AGAAAAATGAAAAAAATGAAAAAAATGAAAAAA
*
8623421 TGAAAAATG---AAAATG-AAAAAATG-AAAAA
1 AGAAAAATGAAAAAAATGAAAAAAATGAAAAAA
*
8623449 TG-AAAATGAAAAA
1 AGAAAAATGAAAAA
8623462 TTTTGAGAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
27 6 0.09
28 7 0.11
29 8 0.12
30 8 0.12
33 22 0.34
34 11 0.17
35 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.15, T:0.10
Consensus pattern (33 bp):
AGAAAAATGAAAAAAATGAAAAAAATGAAAAAA
Found at i:8623409 original size:7 final size:7
Alignment explanation
Indices: 8623389--8623462 Score: 80
Period size: 7 Copynumber: 10.0 Consensus size: 7
8623379 GAACAAAAGA
8623389 GAAAAAT
1 GAAAAAT
8623396 GAAAAAAAT
1 G--AAAAAT
8623405 GAAAAAAAT
1 G--AAAAAT
8623414 GAAAAAAT
1 G-AAAAAT
8623422 GAAAAAT
1 GAAAAAT
8623429 G-AAAAT
1 GAAAAAT
8623435 GAAAAAAT
1 G-AAAAAT
8623443 GAAAAAT
1 GAAAAAT
8623450 G-AAAAT
1 GAAAAAT
8623456 GAAAAAT
1 GAAAAAT
8623463 TTTGAGAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.19
7 20 0.32
8 14 0.23
9 16 0.26
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
GAAAAAT
Found at i:8623435 original size:13 final size:14
Alignment explanation
Indices: 8623389--8623462 Score: 80
Period size: 13 Copynumber: 5.0 Consensus size: 14
8623379 GAACAAAAGA
8623389 GAAAAATGAAAAAAAT
1 GAAAAATG--AAAAAT
8623405 GAAAAAAATGAAAAAAT
1 G--AAAAATG-AAAAAT
8623422 GAAAAATG-AAAAT
1 GAAAAATGAAAAAT
8623435 GAAAAAATGAAAAAT
1 G-AAAAATGAAAAAT
8623450 G-AAAATGAAAAAT
1 GAAAAATGAAAAAT
8623463 TTTGAGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
13 18 0.33
14 7 0.13
15 13 0.24
16 1 0.02
17 8 0.15
18 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
GAAAAATGAAAAAT
Found at i:8623435 original size:21 final size:21
Alignment explanation
Indices: 8623409--8623461 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
8623399 AAAAATGAAA
8623409 AAAATGAAAAAATGAAAAATG
1 AAAATGAAAAAATGAAAAATG
8623430 AAAATGAAAAAATGAAAAATG
1 AAAATGAAAAAATGAAAAATG
8623451 AAAATGAAAAA
1 AAAATGAAAAA
8623462 TTTTGAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAATGAAAAAATGAAAAATG
Found at i:8623441 original size:8 final size:8
Alignment explanation
Indices: 8623366--8623454 Score: 91
Period size: 8 Copynumber: 11.4 Consensus size: 8
8623356 GAAAAATTAG
*
8623366 AAAAAGGA
1 AAAAATGA
8623374 AAAAA-GA
1 AAAAATGA
8623381 ACAAAA-GA
1 A-AAAATGA
8623389 GAAAAATGAA
1 -AAAAATG-A
8623399 AAAAATGAA
1 AAAAATG-A
8623408 AAAAATGA
1 AAAAATGA
8623416 AAAAATG-
1 AAAAATGA
8623423 AAAAATG-
1 AAAAATGA
8623430 -AAAATGA
1 AAAAATGA
8623437 AAAAATG-
1 AAAAATGA
8623444 AAAAATGA
1 AAAAATGA
8623452 AAA
1 AAA
8623455 TGAAAAATTT
Statistics
Matches: 74, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.08
7 17 0.23
8 32 0.43
9 18 0.24
10 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:8623526 original size:25 final size:25
Alignment explanation
Indices: 8623489--8623565 Score: 100
Period size: 25 Copynumber: 3.1 Consensus size: 25
8623479 TGTTTTACAA
*
8623489 TTCATGCATATTGTAATTATGTCAT
1 TTCATGCATATTGTAATTATATCAT
* *
8623514 TTTATGCATATTGTAAATATATCAT
1 TTCATGCATATTGTAATTATATCAT
* * *
8623539 TTCATGTATATTTTAATTATCTCAT
1 TTCATGCATATTGTAATTATATCAT
8623564 TT
1 TT
8623566 ATTATATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (25 bp):
TTCATGCATATTGTAATTATATCAT
Found at i:8624123 original size:23 final size:23
Alignment explanation
Indices: 8624089--8624138 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
8624079 GGATAAAATG
8624089 AAAAAATGGAAAAAAAAAAAGAAA
1 AAAAAATGGAAAAAAAAAAA-AAA
**
8624113 AAAAAAT-GAAAAACTAAAAAAA
1 AAAAAATGGAAAAAAAAAAAAAA
8624135 AAAA
1 AAAA
8624139 TTCTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.29
23 10 0.42
24 7 0.29
ACGTcount: A:0.84, C:0.02, G:0.08, T:0.06
Consensus pattern (23 bp):
AAAAAATGGAAAAAAAAAAAAAA
Found at i:8624124 original size:20 final size:20
Alignment explanation
Indices: 8624100--8624139 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8624090 AAAAATGGAA
*
8624100 AAAAAAAAAGAAAAAAAAATG
1 AAAAACAAA-AAAAAAAAATG
*
8624121 AAAAACTAAAAAAAAAAAT
1 AAAAACAAAAAAAAAAAAT
8624140 TCTTTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAAATG
Found at i:8624636 original size:115 final size:115
Alignment explanation
Indices: 8624434--8624664 Score: 444
Period size: 115 Copynumber: 2.0 Consensus size: 115
8624424 GAATTGGATT
* *
8624434 ATTTGATAGATGGGTATGTTTTAAAATTACTAGAATTGGTTTATCTGGATTTGAGAAAAAATGAC
1 ATTTGATAGATGGGTATGTTTTAAAATTACTAGAATTAGTTTATCTGGATTTGAAAAAAAATGAC
8624499 ATGATGGATTTATAGGGTATTTGGAATCAGTGGAGTCCAGAAAGGAAGTC
66 ATGATGGATTTATAGGGTATTTGGAATCAGTGGAGTCCAGAAAGGAAGTC
8624549 ATTTGATAGATGGGTATGTTTTAAAATTACTAGAATTAGTTTATCTGGATTTGAAAAAAAATGAC
1 ATTTGATAGATGGGTATGTTTTAAAATTACTAGAATTAGTTTATCTGGATTTGAAAAAAAATGAC
8624614 ATGATGGATTTATAGGGTATTTGGAATCAGTGGAGTCCAGAAAGGAAGTC
66 ATGATGGATTTATAGGGTATTTGGAATCAGTGGAGTCCAGAAAGGAAGTC
8624664 A
1 A
8624665 ACCTTTACAA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (115 bp):
ATTTGATAGATGGGTATGTTTTAAAATTACTAGAATTAGTTTATCTGGATTTGAAAAAAAATGAC
ATGATGGATTTATAGGGTATTTGGAATCAGTGGAGTCCAGAAAGGAAGTC
Found at i:8635058 original size:15 final size:15
Alignment explanation
Indices: 8635034--8635068 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8635024 TTTGTCAAAA
8635034 AAAAAATCAAAAACC
1 AAAAAATCAAAAACC
* *
8635049 AAAAACTCAAAAGCC
1 AAAAAATCAAAAACC
8635064 AAAAA
1 AAAAA
8635069 TGAGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.20, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAAAATCAAAAACC
Found at i:8635098 original size:39 final size:39
Alignment explanation
Indices: 8635055--8635142 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
8635045 AACCAAAAAC
*
8635055 TCAAAAGCCAAAAATGAGAAAGAATCATCTAAAAGAATA
1 TCAAAACCCAAAAATGAGAAAGAATCATCTAAAAGAATA
* *
8635094 TCAAAACCCAAAAATGGGATAGAATCATCTAAAAGAATA
1 TCAAAACCCAAAAATGAGAAAGAATCATCTAAAAGAATA
8635133 TCAAAACCCA
1 TCAAAACCCA
8635143 TTTTAGAGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.56, C:0.17, G:0.11, T:0.16
Consensus pattern (39 bp):
TCAAAACCCAAAAATGAGAAAGAATCATCTAAAAGAATA
Found at i:8635503 original size:48 final size:48
Alignment explanation
Indices: 8635227--8636397 Score: 795
Period size: 47 Copynumber: 24.7 Consensus size: 48
8635217 CTAGACATAC
** * *
8635227 TTTTAAAGTTTGATGGTTATTTTATATG-AGCCCCTTTT-TAGACA-AAT
1 TTTTAAAGTTTGATGCCTATTTTATA-GAAG-CCCTTTTCTAGATAGATT
* * * *
8635274 TTTTAAAGTTTGATGCCTATTTTATAGGAGCCC-TTTCCATATAGA-C
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* * * *
8635320 TTTTAAAGTTTGATGCTTATGATCATAGGAGCCC-TTTCTAGATAGATT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
* * * ** *
8635368 TTTT-AAGTTTGATGCCTGTAATCATA-AGAG-CAATTTCTAGATAAATTTT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGA-AGCCCTTTTCTAGATAGA--TT
* * * * *
8635417 TTTTAAAGTTCGTTGCCTATGATCATATG-AGCCC-TTTCCAGATAGATT
1 TTTTAAAGTTTGATGCCTAT-TTTATA-GAAGCCCTTTTCTAGATAGATT
* * * *
8635465 TTTTAAAATTTGATGCCTATTTTATAGAAACCCTTTTCCAAATAGATT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* *
8635513 TTTT-AAGTTTGATG-CT-TATGATCAGAAGAGCCC-TTTCTAGATAGATT
1 TTTTAAAGTTTGATGCCTATTTTAT-AG-A-AGCCCTTTTCTAGATAGATT
* * * * *
8635560 TTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTTTCCATAGAGATTT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGA-TT
* * * * *
8635609 TTTTAAAGTTTGTTGCCTATAATCATAAAAG-CCTTTTCTAAATAGA-T
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
* * * * *
8635656 TGTTAAAGTTTGATGCCTATTTTATAGGAG-CCTTTGCTAGAAATATTT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGA-TT
** ** *
8635704 TTTTAAAGTTTGATGATTATTTTATA-AGAGCTTTTTTCTAGATATA-T
1 TTTTAAAGTTTGATGCCTATTTTATAGA-AGCCCTTTTCTAGATAGATT
* * * *
8635751 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCGTTTTC-AAACATATT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* * * *
8635798 TTTT-AAGTTTGATGCCTATGATCATAGGAGCCC-TTTCCAGATAGATT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
** *
8635845 TTTTAAAGTTTGATATCTATTTTATA-AGAGCCATTTTCTAGAT-GA-T
1 TTTTAAAGTTTGATGCCTATTTTATAGA-AGCCCTTTTCTAGATAGATT
* * * * *
8635891 TTTT-AAGTTTAATGCCT-TCGATCATAGAAGCCCTTTT-TAAAAAGATTT
1 TTTTAAAGTTTGATGCCTAT--TTTATAGAAGCCCTTTTCTAGATAGA-TT
* * * * ** *
8635939 TTTTAAAGTTCGTTGCCTATAATCATAGGTGTCCTTTTC-AGATAGATT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
*
8635987 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCTTTTTCTAGATAGATT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* *** * * * *
8636035 TTTT-AAGTTTGATGCATATGACCATAGCAGACCTTTTC-AAATAGGTT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
* * *
8636082 TTTTAAAGTTTTATGCTTATTTTATAGAAGCCCTTTTCTAGATACATT
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* * * * * * * * * *
8636130 TTTTGAAGTTCGTTGCTTATGATAATAAAAG--CTTCTCAAAATAGATT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGAAGCCCTTTTCTAGATAGATT
* * * *
8636177 TTTTAAAGTTTGATACCAATTTTATATG-AGCCATTTT-TAGATAGA-C
1 TTTTAAAGTTTGATGCCTATTTTATA-GAAGCCCTTTTCTAGATAGATT
* * * *
8636223 TTTTAAAGTTTGATGCCTATTTTATA-AGAGCCATTTTCCAGACAAATT
1 TTTTAAAGTTTGATGCCTATTTTATAGA-AGCCCTTTTCTAGATAGATT
* * * *
8636271 TTTTAAAAGTTTCATGCCTATTTTACAGGAG-CCTTTACTAGATAGATT
1 TTTT-AAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
* ** * *
8636319 TCTTAAAGTTTGATGCCTATTTTATAAGAA-CTTTTTTCCAAATAGATT
1 TTTTAAAGTTTGATGCCTATTTTAT-AGAAGCCCTTTTCTAGATAGATT
*
8636367 TTTTAAAGTTTGATGCCT-TTTCATAGAAGCC
1 TTTTAAAGTTTGATGCCTATTTTATAGAAGCC
8636398 TATCTTAAAC
Statistics
Matches: 876, Mismatches: 187, Indels: 122
0.74 0.16 0.10
Matches are distributed among these distances:
44 1 0.00
45 20 0.02
46 135 0.15
47 317 0.36
48 250 0.29
49 111 0.13
50 41 0.05
51 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (48 bp):
TTTTAAAGTTTGATGCCTATTTTATAGAAGCCCTTTTCTAGATAGATT
Found at i:8635825 original size:142 final size:142
Alignment explanation
Indices: 8635273--8636384 Score: 796
Period size: 142 Copynumber: 7.8 Consensus size: 142
8635263 TTTAGACAAA
* * * * * * *
8635273 TTTTTAAAGTTTGATGCCTATTTTATAGGAGCC-CTTTCCATATAGACTTTTAAAGTTTGATGCT
1 TTTTTAAAGTTTGATGACTATTTTATAAGAGCCTTTTTCTAGATAGATTTTTAAAGTTTGATGCC
* * * * * * **
8635337 TATGATCATAGGAGCCC-TTTCTAGATAGATTTTTTAAGTTTGATGCCTGTAATCATAAGAGCAA
66 TATAATCATAGAAGCCCTTTTC-AAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAGCCC
*
8635401 TTTCTAGATAAATTT
130 TTTCTAGATAGA--T
* * * * * * * * *
8635416 TTTTTAAAGTTCGTTGCCTATGATCATATGAGCC-CTTTCCAGATAGATTTTTTAAAATTTGATG
1 TTTTTAAAGTTTGATGACTAT-TTTATAAGAGCCTTTTTCTAGATAGA-TTTTTAAAGTTTGATG
* * * * * *
8635480 CCTAT-TTTATAGAAACCCTTTTCCAAATAGATTTTTTAAGTTTGATGCTTATGATCAGAAGAGC
64 CCTATAATCATAGAAGCCCTTTT-CAAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAGC
8635544 CCTTTCTAGATAGAT
128 CCTTTCTAGATAGAT
* * * ** *
8635559 TTTTTAAAGTTTGATGCCTATTTTATAGGAGCCTTTTTCCATAGAGATTTTTTTAAAGTTTGTTG
1 TTTTTAAAGTTTGATGACTATTTTATAAGAGCCTTTTT-C-TAGATAGATTTTTAAAGTTTGATG
* * * * *
8635624 CCTATAATCATAAAAG-CCTTTTCTAAATAGATTGTTAAAGTTTGATGCCTAT-TTTATAGGAG-
64 CCTATAATCATAGAAGCCCTTTTC-AAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAGC
* *
8635686 CCTTTGCTAGAAATATT
128 CCTTT-CTAGATAGA-T
* * *
8635703 TTTTTAAAGTTTGATGATTATTTTATAAGAGCTTTTTTCTAGATATATTTTTAAAGTTTGATGCC
1 TTTTTAAAGTTTGATGACTATTTTATAAGAGCCTTTTTCTAGATAGATTTTTAAAGTTTGATGCC
* * * * *
8635768 TAT-TTTATAGAAGCCGTTTTCAAACATATTTTTTAAGTTTGATGCCTATGATCATAGGAGCCCT
66 TATAATCATAGAAGCCCTTTTCAAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAGCCCT
*
8635832 TTCCAGATAGAT
131 TTCTAGATAGAT
* *
8635844 TTTTTAAAGTTTGAT-ATCTATTTTATAAGAGCCATTTTCTAGAT-GATTTTT-AAGTTTAATGC
1 TTTTTAAAGTTTGATGA-CTATTTTATAAGAGCCTTTTTCTAGATAGATTTTTAAAGTTTGATGC
* * * * * * *
8635906 CT-TCGATCATAGAAGCCCTTTTTAAAAAGATTTTTTTAAAGTTCGTTGCCTATAATCATAGGTG
65 CTAT-AATCATAGAAGCCCTTTTCAAATAGA-TTTTTT-AAGTTTGATGCCTATGATCATAGGAG
*
8635970 TCCTTT-TCAGATAGAT
127 CCCTTTCT-AGATAGAT
* *
8635986 TTTTTAAAGTTTGATGCCTATTTTAT-AGAAGCCTTTTTCTAGATAGATTTTTTAAGTTTGATGC
1 TTTTTAAAGTTTGATGACTATTTTATAAG-AGCCTTTTTCTAGATAGATTTTTAAAGTTTGATGC
* * * * * * * * * * *
8636050 ATATGACCATAGCAGACCTTTTCAAATAGGTTTTTTAAAGTTTTATGCTTAT-TTTATAGAAGCC
65 CTATAATCATAGAAGCCCTTTTCAAATAGATTTTTT-AAGTTTGATGCCTATGATCATAGGAGCC
*
8636114 CTTTTCTAGATACAT
129 C-TTTCTAGATAGAT
* * * * * * * * *
8636129 TTTTTGAAGTTCGTTG-CTTATGATAATAAAAG-C-TTCTCAAAATAGATTTTTTAAAGTTTGAT
1 TTTTTAAAGTTTGATGAC-TAT-TTTATAAGAGCCTTTTTCTAGATAGA-TTTTTAAAGTTTGAT
* * * * * * * * * * * *
8636191 ACCAAT-TTTATATG-AGCCATTTTTAGATAGACTTTTAAAGTTTGATGCCTAT-TTTATAAGAG
63 GCCTATAATCATA-GAAGCCCTTTTCAAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAG
* * * *
8636253 CCATTTTCCAGACAAAT
127 CC-CTTTCTAGATAGAT
* * * * *
8636270 TTTTTAAAAGTTTCATGCCTATTTTACAGGAGCC-TTTACTAGATAGATTTCTTAAAGTTTGATG
1 TTTTT-AAAGTTTGATGACTATTTTATAAGAGCCTTTTTCTAGATAGATTT-TTAAAGTTTGATG
* * **
8636334 CCTAT-TTTATAAGAA-CTTTTTTCCAAATAGATTTTTTAAAGTTTGATGCCT
64 CCTATAATCAT-AGAAGCCCTTTT-CAAATAGATTTTTT-AAGTTTGATGCCT
8636385 TTTCATAGAA
Statistics
Matches: 773, Mismatches: 155, Indels: 81
0.77 0.15 0.08
Matches are distributed among these distances:
138 1 0.00
139 12 0.02
140 26 0.03
141 125 0.16
142 218 0.28
143 145 0.19
144 166 0.21
145 79 0.10
146 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (142 bp):
TTTTTAAAGTTTGATGACTATTTTATAAGAGCCTTTTTCTAGATAGATTTTTAAAGTTTGATGCC
TATAATCATAGAAGCCCTTTTCAAATAGATTTTTTAAGTTTGATGCCTATGATCATAGGAGCCCT
TTCTAGATAGAT
Found at i:8636383 original size:95 final size:94
Alignment explanation
Indices: 8635227--8636397 Score: 766
Period size: 95 Copynumber: 12.3 Consensus size: 94
8635217 CTAGACATAC
** * * * *
8635227 TTTTAAAGTTTGATGGTTATTTTATATGAGCCCCTTTTTAGACAAATTTTTAAAGTTTGATGCCT
1 TTTTAAAGTTTGATGCCTATTTTATAGGAG-CCCTTTCTAGATAGATTTTTAAAGTTTGATGCCT
* * * *
8635292 ATTTTATAGGAGCCC-TTTCCATATAGA-C
65 ATTTTATAAGAACCCTTTTCCAAATAGATT
* * * *
8635320 TTTTAAAGTTTGATGCTTATGATCATAGGAGCCCTTTCTAGATAGATTTTTTAAGTTTGATGCCT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGGAGCCCTTTCTAGATAGATTTTTAAAGTTTGATGCCT
* * * * ** * * *
8635385 GTAATCATAAG-AGCAATTTCTAGATAAATTTT
65 AT-TTTATAAGAACCCTTTTCCAAATAGA--TT
* * * * * * *
8635417 TTTTAAAGTTCGTTGCCTATGATCATATGAGCCCTTTCCAGATAGATTTTTTAAAATTTGATGCC
1 TTTTAAAGTTTGATGCCTAT-TTTATAGGAGCCCTTTCTAGATAGA-TTTTTAAAGTTTGATGCC
8635482 TATTTTAT-AGAAACCCTTTTCCAAATAGATT
64 TATTTTATAAG-AACCCTTTTCCAAATAGATT
* * * * *
8635513 TTTT-AAGTTTGATGCTTATGATCAGAAGAGCCCTTTCTAGATAGATTTTTTAAAGTTTGATGCC
1 TTTTAAAGTTTGATGCCTAT-TTTATAGGAGCCCTTTCTAGATAGA-TTTTTAAAGTTTGATGCC
* * * * *
8635577 TATTTTATAGGAGCCTTTTTCCATAGAGATTT
64 TATTTTATAAGAACCCTTTTCCAAATAGA-TT
* * * ** * * *
8635609 TTTTAAAGTTTGTTGCCTATAATCATAAAAGCCTTTTCTAAATAGATTGTTAAAGTTTGATGCCT
1 TTTTAAAGTTTGATGCCTAT-TTTATAGGAGCCCTTTCTAGATAGATTTTTAAAGTTTGATGCCT
* * ** *
8635674 ATTTTAT-AGGAGCCTTTGCTAGAAATA-TTT
65 ATTTTATAAGAACCCTTT--TCCAAATAGATT
** * ** *
8635704 TTTTAAAGTTTGATGATTATTTTATAAGAGCTTTTTTCTAGATATATTTTTAAAGTTTGATGCCT
1 TTTTAAAGTTTGATGCCTATTTTATAGGAGC-CCTTTCTAGATAGATTTTTAAAGTTTGATGCCT
* * *
8635769 ATTTTAT-AGAAGCCGTTTT-CAAACATATT
65 ATTTTATAAGAA-CCCTTTTCCAAATAGATT
* * * **
8635798 TTTT-AAGTTTGATGCCTATGATCATAGGAGCCCTTTCCAGATAGATTTTTTAAAGTTTGATATC
1 TTTTAAAGTTTGATGCCTAT-TTTATAGGAGCCCTTTCTAGATAGA-TTTTTAAAGTTTGATGCC
* * * *
8635862 TATTTTATAAGAGCCATTTTCTAGAT-GA-T
64 TATTTTATAAGAACCCTTTTCCAAATAGATT
* * * * * * * * *
8635891 TTTT-AAGTTTAATGCCT-TCGATCATAGAAGCCCTTTTTAAAAAGATTTTTTTAAAGTTCGTTG
1 TTTTAAAGTTTGATGCCTAT--TTTATAGGAGCCCTTTCTAGATAGA--TTTTTAAAGTTTGATG
* * * *** *
8635954 CCTATAATCATAGGTGTCCTTTT-CAGATAGATT
62 CCTAT-TTTATAAGAACCCTTTTCCAAATAGATT
* * * *
8635987 TTTTAAAGTTTGATGCCTATTTTATAGAAGCCTTTTTCTAGATAGATTTTTTAAGTTTGATGCAT
1 TTTTAAAGTTTGATGCCTATTTTATAGGAGCC-CTTTCTAGATAGATTTTTAAAGTTTGATGCCT
*** *
8636052 ATGACCAT-AGCAGA-CCTTTT-CAAATAGGTT
65 AT-TTTATAAG-A-ACCCTTTTCCAAATAGATT
* * * * * * * *
8636082 TTTTAAAGTTTTATGCTTATTTTATAGAAGCCCTTTTCTAGATACATTTTTTGAAGTTCGTTGCT
1 TTTTAAAGTTTGATGCCTATTTTATAGGAGCCC-TTTCTAGATAGA-TTTTTAAAGTTTGATGCC
* * * * *
8636147 TATGATAATAA-AA-GCTTCTCAAAATAGATT
64 TAT-TTTATAAGAACCCTTTTCCAAATAGATT
* * * * * *
8636177 TTTTAAAGTTTGATACCAATTTTATATGAGCCATTTTTAGATAGACTTTTAAAGTTTGATGCCTA
1 TTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTTCTAGATAGATTTTTAAAGTTTGATGCCTA
* * * * *
8636242 TTTTATAAGAGCCATTTTCCAGACAAATT
66 TTTTATAAGAACCCTTTTCCAAATAGATT
* *
8636271 TTTTAAAAGTTTCATGCCTATTTTACAGGAG-CCTTTACTAGATAGATTTCTTAAAGTTTGATGC
1 TTTT-AAAGTTTGATGCCTATTTTATAGGAGCCCTTT-CTAGATAGATTT-TTAAAGTTTGATGC
**
8636335 CTATTTTATAAGAACTTTTTTCCAAATAGATT
63 CTATTTTATAAGAACCCTTTTCCAAATAGATT
* *
8636367 TTTTAAAGTTTGATGCCT-TTTCATAGAAGCC
1 TTTTAAAGTTTGATGCCTATTTTATAGGAGCC
8636398 TATCTTAAAC
Statistics
Matches: 848, Mismatches: 189, Indels: 80
0.76 0.17 0.07
Matches are distributed among these distances:
92 6 0.01
93 133 0.16
94 139 0.16
95 312 0.37
96 124 0.15
97 104 0.12
98 30 0.04
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.44
Consensus pattern (94 bp):
TTTTAAAGTTTGATGCCTATTTTATAGGAGCCCTTTCTAGATAGATTTTTAAAGTTTGATGCCTA
TTTTATAAGAACCCTTTTCCAAATAGATT
Found at i:8637741 original size:23 final size:25
Alignment explanation
Indices: 8637702--8637769 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 25
8637692 CAAGGAAAAC
* *
8637702 GAAAAGAAAAG-GTGAAAAATA-G-
1 GAAAAAAAAAGAGAGAAAAATACGT
8637724 GACAAAAAAAAGAG-GAAAAA-ACGT
1 GA-AAAAAAAAGAGAGAAAAATACGT
8637748 GAAAAAAAAAGAGAAGAAAAAT
1 GAAAAAAAAAGAG-AGAAAAAT
8637770 CTTTGGTGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 3 0.08
23 26 0.68
24 3 0.08
25 6 0.16
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (25 bp):
GAAAAAAAAAGAGAGAAAAATACGT
Found at i:8639145 original size:13 final size:13
Alignment explanation
Indices: 8639110--8639167 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
8639100 ACCCTGAACT
8639110 CTAAACTTAAA-C
1 CTAAACTTAAACC
*
8639122 CTTAACTTTAAACC
1 CTAAAC-TTAAACC
*
8639136 CTAAACTTAAGCC
1 CTAAACTTAAACC
* * *
8639149 CTAACCCTAAATC
1 CTAAACTTAAACC
8639162 CTAAAC
1 CTAAAC
8639168 CCCAGCCCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
12 5 0.14
13 25 0.69
14 6 0.17
ACGTcount: A:0.41, C:0.31, G:0.02, T:0.26
Consensus pattern (13 bp):
CTAAACTTAAACC
Found at i:8639153 original size:26 final size:25
Alignment explanation
Indices: 8639110--8639191 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 25
8639100 ACCCTGAACT
* * *
8639110 CTAAACTTAAACCTTAACTTTAAACC
1 CTAAACTTAAGCCCTAAC-CTAAACC
*
8639136 CTAAACTTAAGCCCTAACCCTAAATC
1 CTAAACTTAAGCCCTAA-CCTAAACC
***
8639162 CTAAACCCCAGCCCTAACCTAAACC
1 CTAAACTTAAGCCCTAACCTAAACC
8639187 CTAAA
1 CTAAA
8639192 TCAACCCTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 12 0.26
26 34 0.72
27 1 0.02
ACGTcount: A:0.40, C:0.35, G:0.02, T:0.22
Consensus pattern (25 bp):
CTAAACTTAAGCCCTAACCTAAACC
Found at i:8639711 original size:55 final size:54
Alignment explanation
Indices: 8639596--8639711 Score: 180
Period size: 55 Copynumber: 2.1 Consensus size: 54
8639586 TCTAAAAATT
* *
8639596 AAAAAAAAGTTTTGTTTTAAATTTGATTTGTTTTTGTTTTTAAAAAAAGAAAGA
1 AAAAAAAAGTTTTGTTTTAAATTTGATTTATTTTTGTTTTCAAAAAAAGAAAGA
*
8639650 AGAAAAAAAGTTTTGTTTTAAATTTGATTTATTTTTGGTTTTCAAAAAAAGGAA-A
1 A-AAAAAAAGTTTTGTTTTAAATTTGATTTATTTTT-GTTTTCAAAAAAAGAAAGA
8639705 AAAAAAA
1 AAAAAAA
8639712 GAATTAATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
54 7 0.12
55 35 0.61
56 15 0.26
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.41
Consensus pattern (54 bp):
AAAAAAAAGTTTTGTTTTAAATTTGATTTATTTTTGTTTTCAAAAAAAGAAAGA
Found at i:8639723 original size:54 final size:54
Alignment explanation
Indices: 8639610--8639726 Score: 141
Period size: 55 Copynumber: 2.1 Consensus size: 54
8639600 AAAAGTTTTG
* * **
8639610 TTTTAAATTTGATTTGTTTTTGTTTTTAAAAAAAGAAAGAAGAAAAAAAGTTTTG
1 TTTTAAATTTGATTTATTTTTGTTTTCAAAAAAAGAAAGAAGAAAAAAAG-TTAA
8639665 TTTTAAATTTGATTTATTTTTGGTTTTCAAAAAAAGGAAA-AA-AAAAAGAA-TTAA
1 TTTTAAATTTGATTTATTTTT-GTTTTCAAAAAAA-GAAAGAAGAAAAA-AAGTTAA
8639719 TTTTAAAT
1 TTTTAAAT
8639727 AGGACCATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 10 0.18
55 25 0.45
56 16 0.29
57 4 0.07
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (54 bp):
TTTTAAATTTGATTTATTTTTGTTTTCAAAAAAAGAAAGAAGAAAAAAAGTTAA
Found at i:8643433 original size:16 final size:17
Alignment explanation
Indices: 8643404--8643436 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8643394 AATTCAAATC
*
8643404 ATTTTTATTTTTTAATT
1 ATTTTTATTATTTAATT
8643421 ATTTTTA-TATTTAATT
1 ATTTTTATTATTTAATT
8643437 TAAAATCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTATTATTTAATT
Found at i:8645429 original size:24 final size:25
Alignment explanation
Indices: 8645393--8645441 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
8645383 CTAATACTAA
*
8645393 AAAAAATGAATAACAATACAAATAT
1 AAAAAATGAATAAAAATACAAATAT
* *
8645418 AAAAAAT-TATAAAAATTCAAATAT
1 AAAAAATGAATAAAAATACAAATAT
8645442 GATATCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAAAATGAATAAAAATACAAATAT
Found at i:8646787 original size:59 final size:59
Alignment explanation
Indices: 8646686--8646843 Score: 198
Period size: 59 Copynumber: 2.7 Consensus size: 59
8646676 TTGTACATGA
* **
8646686 AAAAATTGATACTTTCAACTTTTCTCCCAAAAA-A-GTTTTTGG-AAGCTT-TAATTTTGAG
1 AAAAATTGATACTTTCAACTTTT-TCCCAAAAATATTTTTTTGGAAAGCTTGT--TTTCAAG
*
8646744 AAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGGAAAGCTTGTTTTCAAG
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAAGCTTGTTTTCAAG
* * *
8646803 GAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
8646844 TAGATTTTAT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
57 8 0.09
58 24 0.27
59 49 0.56
60 6 0.07
61 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAAGCTTGTTTTCAAG
Found at i:8646898 original size:22 final size:21
Alignment explanation
Indices: 8646884--8646952 Score: 86
Period size: 21 Copynumber: 3.1 Consensus size: 21
8646874 AAACAAAATG
8646884 AAAGTGAAAATAAAAATAAAGA
1 AAAGT-AAAATAAAAATAAAGA
*
8646906 AAAGTAAAATAAAAATAAAAAA
1 AAAGTAAAATAAAAAT-AAAGA
8646928 TAAAGTAAAGATAAAAATAAA-A
1 -AAAGTAAA-ATAAAAATAAAGA
8646950 AAA
1 AAA
8646953 TATTAAACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
21 14 0.33
22 10 0.23
23 11 0.26
24 8 0.19
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAGTAAAATAAAAATAAAGA
Found at i:8646899 original size:6 final size:6
Alignment explanation
Indices: 8646860--8646950 Score: 53
Period size: 6 Copynumber: 14.7 Consensus size: 6
8646850 TTATTTAAAG
* * * *
8646860 AAAAT- AAAATA ATAAA-A CAAAATG AAAGTG AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AA-AATA
* *
8646909 GTAAAATA AAAATA AAAA-A TAAAGTA AAGATA AAAATA AAAA
1 --AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA AAAA
8646951 AATATTAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
5 6 0.09
6 48 0.72
7 8 0.12
8 3 0.04
9 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:8646904 original size:17 final size:14
Alignment explanation
Indices: 8646890--8646954 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 14
8646880 AATGAAAGTG
8646890 AAAATAAAAATAAA
1 AAAATAAAAATAAA
8646904 GAAAAGT-AAAATAAA
1 -AAAA-TAAAAATAAA
*
8646919 AATA-AAAAATAAA
1 AAAATAAAAATAAA
8646932 GTAAAGATAAAAATAAA
1 --AAA-ATAAAAATAAA
8646949 AAAATA
1 AAAATA
8646955 TTAAACAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
13 8 0.19
14 6 0.14
15 17 0.40
16 2 0.05
17 9 0.21
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.15
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:8646904 original size:45 final size:44
Alignment explanation
Indices: 8646855--8646954 Score: 134
Period size: 45 Copynumber: 2.2 Consensus size: 44
8646845 AGATTTTATT
*
8646855 TAAAGAAAATAAAATAATAAA-ACAAAATGAAAGTGAAA-ATAAAAA
1 TAAAGAAAATAAAATAA-AAATAAAAAAT-AAAGT-AAAGATAAAAA
8646900 TAAAGAAAAGTAAAATAAAAATAAAAAATAAAGTAAAGATAAAAA
1 TAAAGAAAA-TAAAATAAAAATAAAAAATAAAGTAAAGATAAAAA
8646945 TAAA-AAAATA
1 TAAAGAAAATA
8646955 TTAAACAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
43 2 0.04
44 7 0.14
45 28 0.55
46 14 0.27
ACGTcount: A:0.75, C:0.01, G:0.08, T:0.16
Consensus pattern (44 bp):
TAAAGAAAATAAAATAAAAATAAAAAATAAAGTAAAGATAAAAA
Found at i:8646979 original size:3 final size:3
Alignment explanation
Indices: 8646971--8646997 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8646961 AAATCTAATC
8646971 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8646998 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8647925 original size:22 final size:22
Alignment explanation
Indices: 8647864--8647951 Score: 92
Period size: 22 Copynumber: 4.1 Consensus size: 22
8647854 AAATAAAAAT
*
8647864 ATTAATAAAAATAATCAGATAA
1 ATTAAAAAAAATAATCAGATAA
* *
8647886 A-CAAAAAAATTAA-CAGATAA
1 ATTAAAAAAAATAATCAGATAA
8647906 ATTAAAAATAAATAAT-AGATAA
1 ATTAAAAA-AAATAATCAGATAA
* * *
8647928 ATTATAATATATAATCAGATAA
1 ATTAAAAAAAATAATCAGATAA
8647950 AT
1 AT
8647952 ATATATAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.15
21 20 0.37
22 26 0.48
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (22 bp):
ATTAAAAAAAATAATCAGATAA
Found at i:8648052 original size:6 final size:6
Alignment explanation
Indices: 8648013--8648123 Score: 68
Period size: 6 Copynumber: 17.2 Consensus size: 6
8648003 AATAAATAGT
*
8648013 AATAATA AATAAA TAATAAA TACAT-AA GATAAA AATAAA AGA-AATA
1 AATAA-A AATAAA -AATAAA -A-ATAAA AATAAA AATAAA A-ATAA-A
8648059 TATATAAA TAATAAA AAT-AA AAT-AA AATAAA AATATAA AATACAAA
1 -A-ATAAA -AATAAA AATAAA AATAAA AATAAA AATA-AA AAT--AAA
*
8648105 AATAAA AATAAA AAGAAA A
1 AATAAA AATAAA AATAAA A
8648124 CGGGCTTACC
Statistics
Matches: 89, Mismatches: 4, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
5 12 0.13
6 35 0.39
7 27 0.30
8 12 0.13
9 3 0.03
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:8648067 original size:19 final size:18
Alignment explanation
Indices: 8648044--8648117 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 18
8648034 ACATAAGATA
*
8648044 AAAATAAAAGAAAT-ATAT
1 AAAATAAAA-AAATAAAAT
8648062 ATAAATAATAAAAATAAAAT
1 A-AAATAA-AAAAATAAAAT
*
8648082 AAAATAAAAATATAAAAT
1 AAAATAAAAAAATAAAAT
8648100 ACAAA-AATAAAAATAAAA
1 A-AAATAA-AAAAATAAAA
8648118 AGAAAACGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 14 0.29
19 28 0.58
20 6 0.12
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAT
Found at i:8648081 original size:33 final size:32
Alignment explanation
Indices: 8648030--8648123 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 32
8648020 AATAAATAAT
* *
8648030 AAATACATAAGATAAAAATAAAAGAAATATATA
1 AAATACA-AAAATAAAAATAAAAGAAAAATATA
* *
8648063 TAAATAATAAAAAT-AAAATAAAATAAAAATATA
1 -AAAT-ACAAAAATAAAAATAAAAGAAAAATATA
8648096 AAATACAAAAATAAAAATAAAAAGAAAA
1 AAATACAAAAATAAAAAT-AAAAGAAAA
8648124 CGGGCTTACC
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 7 0.14
32 9 0.18
33 25 0.49
34 8 0.16
35 2 0.04
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (32 bp):
AAATACAAAAATAAAAATAAAAGAAAAATATA
Found at i:8648100 original size:66 final size:64
Alignment explanation
Indices: 8647992--8648122 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
8647982 AATAATAAGG
* * * *
8647992 ATATATATATTAATAAATAGTAATAATAAATAAATAATAAATACATAAGATAAAAAT-AAAAGAA
1 ATATATATAATAATAAATAATAATAATAAATAAAAAATAAATACA-AAAATAAAAATAAAAAGAA
8648056 ATATATATAAATAATAAA-AATAA-AATAAAATAAAAATATAAAATACAAAAATAAAAATAAAAA
1 ATATATAT-AATAATAAATAATAATAAT-AAATAAAAA-AT-AAATACAAAAATAAAAATAAAAA
8648119 GAA
62 GAA
8648122 A
1 A
8648123 ACGGGCTTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
63 3 0.05
64 20 0.34
65 20 0.34
66 15 0.26
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (64 bp):
ATATATATAATAATAAATAATAATAATAAATAAAAAATAAATACAAAAATAAAAATAAAAAGAA
Found at i:8648498 original size:86 final size:87
Alignment explanation
Indices: 8648299--8648772 Score: 511
Period size: 85 Copynumber: 5.5 Consensus size: 87
8648289 TTGATCAAAA
* * * * * * *
8648299 CTCCTTTAAGCAGAGGCTTAATGACTTTGAAAAACATAAA-CAAGACTCCTCTAATCAGAGGCTC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAA-ATAAATAAAGGCTCCTCTAATCAGAGGCTC
* * *
8648363 AATGACTTTAAAAATGAATAAACAATG
65 AACGACTTT-GAAA--AATAAATAA-G
* * * * *
8648390 CTTCTCTAATCAGAGGCTCAACAACTTT-GAAAAATAAATAAAGGCTCCTCTAATAAGAGGTTTA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAATCAGAGGCTCA
* *
8648454 ACGATTTTGAAAAAATAAAT-GG
66 ACGACTTTG-AAAAATAAATAAG
* * * *
8648476 CTCCTCTAATCAGAGGCTCAACAACTTTGGAAAGATAAACAAA-GCTCCTCTAATCAGAGGCTTA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAATCAGAGGCTCA
8648540 ACGACTTTGAAAAATAAATAAAG
66 ACGACTTTGAAAAATAAAT-AAG
*
8648563 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT---GGCTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAATCAGAGGCTCA
* * *
8648625 ACAACTTTAGAAAGATAAACAAAG
66 ACGACTTT-GAAAAATAAA-TAAG
* *
8648649 CTCCTCTAATCAAAGGCT-AACGACTTTAGAAAAATAAAT---GGCTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAATCAGAGGCTCA
*
8648710 ATGACTTTGAAAAATAAATTAAG
66 ACGACTTTGAAAAATAAA-TAAG
* *
8648733 CTCTTCTTATCAGAGGCTCAACGACTTTGGAAAAATAAAT
1 CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAAT
8648773 TACTCCTTGA
Statistics
Matches: 330, Mismatches: 44, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
84 27 0.08
85 104 0.32
86 84 0.25
87 49 0.15
88 6 0.02
89 5 0.02
90 33 0.10
91 22 0.07
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (87 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAATCAGAGGCTCA
ACGACTTTGAAAAATAAATAAG
Found at i:8648571 original size:43 final size:43
Alignment explanation
Indices: 8648299--8648772 Score: 507
Period size: 43 Copynumber: 10.9 Consensus size: 43
8648289 TTGATCAAAA
* * * * *
8648299 CTCCTTTAAGCAGAGGCTTAATGACTTTGAAAAACATAAA-CAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAA-ATAAATAAAG
* *
8648343 ACTCCTCTAATCAGAGGCTCAATGACTTT-AAAAATGAATAAACAATG
1 -CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAT-AA-ATA-AA-G
* *
8648390 CTTCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATAAAGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAA-G
* * * * *
8648434 CTCCTCTAATAAGAGGTTTAACGATTTTGAAAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAATAAATAAAG
* * *
8648476 CTCCTCTAATCAGAGGCTCAACAACTTTGGAAAGATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATAAAG
*
8648520 CTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
*
8648563 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAATAAATAAAG
* * *
8648605 CTCCTCTAATCAGAGGCTCAACAACTTTAGAAAGATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATAAAG
* *
8648649 CTCCTCTAATCAAAGGCT-AACGACTTTAGAAAAATAAAT--GG
1 CTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATAAAG
* *
8648690 CTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATTAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
* *
8648733 CTCTTCTTATCAGAGGCTCAACGACTTTGGAAAAATAAAT
1 CTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAAT
8648773 TACTCCTTGA
Statistics
Matches: 366, Mismatches: 45, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
41 29 0.08
42 78 0.21
43 93 0.25
44 93 0.25
45 37 0.10
46 29 0.08
47 7 0.02
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
Found at i:8648614 original size:129 final size:129
Alignment explanation
Indices: 8648299--8648771 Score: 594
Period size: 129 Copynumber: 3.6 Consensus size: 129
8648289 TTGATCAAAA
* * * * * *
8648299 CTCCTTTAAGCAGAGGCTTAATGACTTTGAAAAACATAAACAAGACTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-AT-AA-ATGGCTCCTCTAATCAGAGGCTCA
** * * * * *
8648364 ATGACTTTAAAAATGAATAAACAATGCTTCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAAT
63 ACAACTTTAGAAA-G-ATAAACAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAAT
8648429 AAAGG
126 AAA-G
* * * *
8648434 CTCCTCTAATAAGAGGTTTAACGATTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
*
8648499 ACTTTGGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
66 ACTTTAGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
8648563 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
* *
8648628 ACTTTAGAAAGATAAACAAAGCTCCTCTAATCAAAGGC-TAACGACTTTAGAAAAATAAAT--GG
66 ACTTTAGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTTAACGACTTT-GAAAAATAAATAAAG
* * * *
8648690 CTCCTCTAATCAGAGGCTCAATGACTTTG-AAAAATAAATTAAGCTCTTCTTATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAA-T-GGCTCCTCTAATCAGAGGCTCAA
* * *
8648754 CGACTTTGGAAAAATAAA
64 CAACTTTAGAAAGATAAA
8648772 TTACTCCTTG
Statistics
Matches: 305, Mismatches: 30, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
126 9 0.03
127 30 0.10
128 45 0.15
129 109 0.36
130 48 0.16
131 1 0.00
132 31 0.10
133 2 0.01
134 2 0.01
135 28 0.09
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (129 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACA
ACTTTAGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATAAAG
Found at i:8649797 original size:10 final size:10
Alignment explanation
Indices: 8649784--8649808 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8649774 TCCTTTTTCA
8649784 TTTTTTCATT
1 TTTTTTCATT
8649794 TTTTTTCATT
1 TTTTTTCATT
8649804 TTTTT
1 TTTTT
8649809 AGGCATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:8660436 original size:22 final size:21
Alignment explanation
Indices: 8660428--8660487 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
8660418 AATGAAAGTG
8660428 AAAATAAAAATAAAGAAAGGT
1 AAAATAAAAATAAAGAAAGGT
* *
8660449 AAAATAAAAATTAAAAAATAAAGT
1 AAAATAAAAA-T-AAAGA-AAGGT
8660473 AAAGATAAAAATAAA
1 AAA-ATAAAAATAAA
8660488 AGAATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 10 0.30
22 1 0.03
23 7 0.21
24 8 0.24
25 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
AAAATAAAAATAAAGAAAGGT
Found at i:8660455 original size:46 final size:44
Alignment explanation
Indices: 8660393--8660487 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 44
8660383 GGATTTTATT
*
8660393 TAAAGAAAATAAAATAATAAA-ACAAAATGAAAGTGAAA-ATAAAAA
1 TAAAGAAAATAAAATAA-AAATAAAAAAT-AAAGT-AAAGATAAAAA
*
8660438 TAAAGAAAGGTAAAATAAAAATTAAAAAATAAAGTAAAGATAAAAA
1 TAAAGAAA-ATAAAATAAAAA-TAAAAAATAAAGTAAAGATAAAAA
8660484 TAAA
1 TAAA
8660488 AGAATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
45 14 0.32
46 24 0.55
47 6 0.14
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.17
Consensus pattern (44 bp):
TAAAGAAAATAAAATAAAAATAAAAAATAAAGTAAAGATAAAAA
Found at i:8660480 original size:25 final size:24
Alignment explanation
Indices: 8660422--8660493 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
8660412 AAACAAAATG
8660422 AAAGTGAAAATAAAAAT-AAAG-A-
1 AAAGT-AAAATAAAAATAAAAGAAT
*
8660444 AAGGTAAAATAAAAATTAAAA-AAT
1 AAAGTAAAATAAAAA-TAAAAGAAT
8660468 AAAGTAAAGATAAAAATAAAAGAAT
1 AAAGTAAA-ATAAAAATAAAAGAAT
8660493 A
1 A
8660494 TTAAACAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 10 0.24
22 5 0.12
23 4 0.10
24 12 0.29
25 11 0.26
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (24 bp):
AAAGTAAAATAAAAATAAAAGAAT
Found at i:8660775 original size:23 final size:24
Alignment explanation
Indices: 8660748--8660793 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
8660738 CTTGATCGAG
8660748 CCTT-CTCTCTCTCTCCC-TCTCTT
1 CCTTCCTCT-TCTCTCCCTTCTCTT
8660771 CCTTCCTCTTCTCTCCCTTCTCT
1 CCTTCCTCTTCTCTCCCTTCTCT
8660794 CTAAAATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (24 bp):
CCTTCCTCTTCTCTCCCTTCTCTT
Found at i:8661423 original size:22 final size:22
Alignment explanation
Indices: 8661360--8661447 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
8661350 AAATAAAAAT
8661360 ATTAATAA-AAATAATCAGATAA
1 ATTAA-AATAAATAATCAGATAA
** *
8661382 ACCAAAA-AATTAA-CAGATAA
1 ATTAAAATAAATAATCAGATAA
8661402 ATTAAAAATAAATAAT-AGATAA
1 ATT-AAAATAAATAATCAGATAA
* *
8661424 ATTATAATATATAATCAGATAA
1 ATTAAAATAAATAATCAGATAA
8661446 AT
1 AT
8661448 CTATATAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.15
21 21 0.39
22 25 0.46
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (22 bp):
ATTAAAATAAATAATCAGATAA
Found at i:8661530 original size:21 final size:21
Alignment explanation
Indices: 8661460--8661532 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
8661450 ATATAAATAT
8661460 TAATAAA-AAA-AA-TAGTAA
1 TAATAAATAAATAATTAGTAA
* *
8661478 TAAT-AAT-AATAATAAG-GA
1 TAATAAATAAATAATTAGTAA
* *
8661496 TATATATATTAATAATTAGTAA
1 TA-ATAAATAAATAATTAGTAA
8661518 TAATAAATAAATAAT
1 TAATAAATAAATAAT
8661533 AAATACATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
17 4 0.10
18 9 0.22
19 4 0.10
20 2 0.05
21 19 0.46
22 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATAAATAAATAATTAGTAA
Found at i:8661560 original size:24 final size:24
Alignment explanation
Indices: 8661520--8661579 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
8661510 ATTAGTAATA
* *
8661520 ATAAATAA-ATAATAAATACATAAG
1 ATAAATAATAAAAGAAATACAT-AG
* *
8661544 ATAAA-AATAAAAGAAATATATAT
1 ATAAATAATAAAAGAAATACATAG
8661567 ATAAATAATAAAA
1 ATAAATAATAAAA
8661580 ATAAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 8 0.27
24 22 0.73
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (24 bp):
ATAAATAATAAAAGAAATACATAG
Found at i:8661561 original size:35 final size:35
Alignment explanation
Indices: 8661522--8661623 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 35
8661512 TAGTAATAAT
*
8661522 AAATAAATA-ATAAATACAT-AAGATAAAAATAAAAG
1 AAATAAATATATAAATA-ATAAAAAT-AAAATAAAAG
*
8661557 AAATATATATATAAATAATAAAAATAAAATAAAA-
1 AAATAAATATATAAATAATAAAAATAAAATAAAAG
* *
8661591 TAA-AAATATA-AAAT-ACAAAAAT-AAA-AAAAG
1 AAATAAATATATAAATAATAAAAATAAAATAAAAG
8661621 AAA
1 AAA
8661624 ATGGGCTTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
29 4 0.07
30 5 0.09
31 7 0.12
32 4 0.07
33 6 0.10
34 2 0.03
35 19 0.33
36 11 0.19
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (35 bp):
AAATAAATATATAAATAATAAAAATAAAATAAAAG
Found at i:8661589 original size:11 final size:11
Alignment explanation
Indices: 8661516--8661598 Score: 51
Period size: 11 Copynumber: 6.9 Consensus size: 11
8661506 AATAATTAGT
8661516 AATAATAAATAAA
1 AATAA-AAAT-AA
8661529 TAATAAATACATAA
1 -AATAAA-A-ATAA
*
8661543 GATAAAAATAA
1 AATAAAAATAA
* *
8661554 AAGAAATATATA
1 AATAAAAATA-A
*
8661566 TATAAATAATAA
1 AATAAA-AATAA
8661578 AA-ATAAAATAA
1 AATA-AAAATAA
8661589 AATAAAAATA
1 AATAAAAATA
8661599 TAAAATACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
11 25 0.45
12 11 0.20
13 9 0.16
14 8 0.15
15 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:8661600 original size:31 final size:30
Alignment explanation
Indices: 8661516--8661619 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 30
8661506 AATAATTAGT
* * *
8661516 AATAATAAATAAATAATAAATACATAAGATAAA
1 AATAA-AAA-AAATAA-AAATATAAAATATAAA
* * *
8661549 AATAAAAGAAATATATATAT-AAATAATAAA
1 AATAAAAAAAATAAAAATATAAAAT-ATAAA
*
8661579 AATAAAATAAAATAAAAATATAAAATACAAA
1 AATAAAA-AAAATAAAAATATAAAATATAAA
8661610 AATAAAAAAA
1 AATAAAAAAA
8661620 GAAAATGGGC
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
29 2 0.03
30 19 0.33
31 26 0.45
32 6 0.10
33 5 0.09
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (30 bp):
AATAAAAAAAATAAAAATATAAAATATAAA
Found at i:8661624 original size:13 final size:13
Alignment explanation
Indices: 8661547--8661625 Score: 56
Period size: 13 Copynumber: 6.0 Consensus size: 13
8661537 ACATAAGATA
8661547 AAAATAAAAGAAAT
1 AAAATAAAA-AAAT
* *
8661561 ATATATATAAATAAT
1 A-AAATA-AAAAAAT
*
8661576 -AAA-AATAAAAT
1 AAAATAAAAAAAT
*
8661587 AAAATAAAAATAT
1 AAAATAAAAAAAT
*
8661600 AAAATACAAAAAT
1 AAAATAAAAAAAT
8661613 AAAA-AAAGAAAAT
1 AAAATAAA-AAAAT
8661626 GGGCTTACCC
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
11 5 0.10
12 6 0.12
13 28 0.56
14 1 0.02
15 7 0.14
16 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:8663143 original size:195 final size:196
Alignment explanation
Indices: 8662744--8663273 Score: 570
Period size: 195 Copynumber: 2.7 Consensus size: 196
8662734 TTAATGATGT
* * * * * **
8662744 TAATTATGTTACCAATATTGTGACGATTTACTTTCATCACTAATATATCAGATTTTATCATTCGT
1 TAATTATGTTACCAATACTATGACGATTTACTTTCGTCACTAATATATTAAATTTTATCATTTAT
* * * * *
8662809 TTTG-GAATGATTATAGCCTTCAATGACATTTTTCTTCATAAATAGCTAATAAAAACTAAAGTCA
66 TTTGTG-ATGATTATAGCCTTTAATGATATGTTT-TTCATAAATAGCTGACAAAAACTAAAGTCA
* * * * * *
8662873 CAAAAAAAAGTATAATGATATTTGATTTTATTATGACATTTGACATTATCTTATAATCATTCATG
129 CAAAAAAAAGTATAA-GACATTTGATTTTATTATCACAATAGACATTATCTTACAATCATTCATA
8662938 ATAA
193 ATAA
* * * *
8662942 TAATTATGTCATCAATACTATGACAATTTATCTTTGGTCACTAATATATTAAATTTTATCATTTA
1 TAATTATGTTACCAATACTATGACGATTTA-CTTTCGTCACTAATATATTAAATTTTATCATTTA
* * * *
8663007 TTTTGTGATGATTATAACCTTTAATGATGTGTTTTTCATAAATAACTGACAAAAACTAACGTCAC
65 TTTTGTGATGATTATAGCCTTTAATGATATGTTTTTCATAAATAGCTGACAAAAACTAAAGTCAC
* * * * * **
8663072 AAAGCATAAG-GT-A-ACATTTGATTTTATTGTCACAATAGACATTATCTTACAATTATTGGTAA
130 AAA-AAAAAGTATAAGACATTTGATTTTATTATCACAATAGACATTATCTTACAATCATTCATAA
8663134 TAA
194 TAA
* *
8663137 TAATTATGTTACCAATACTATGATGATTTAACTTTCGTTACTAATATA-TAAGATTTTATCATTT
1 TAATTATGTTACCAATACTATGACGATTT-ACTTTCGTCACTAATATATTAA-ATTTTATCATTT
* * * * * *
8663201 ATTTTGTGACGAATATAGCATTTAATGATTTG-TTTTCATATATAGCTGACAAAAATTAATA-TC
64 ATTTTGTGATGATTATAGCCTTTAATGATATGTTTTTCATAAATAGCTGACAAAAACTAA-AGTC
8663264 ACAAAAAAAA
128 ACAAAAAAAA
8663274 AGGTGATGTT
Statistics
Matches: 276, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
193 3 0.01
194 34 0.12
195 121 0.44
196 1 0.00
197 1 0.00
198 56 0.20
199 59 0.21
200 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41
Consensus pattern (196 bp):
TAATTATGTTACCAATACTATGACGATTTACTTTCGTCACTAATATATTAAATTTTATCATTTAT
TTTGTGATGATTATAGCCTTTAATGATATGTTTTTCATAAATAGCTGACAAAAACTAAAGTCACA
AAAAAAAGTATAAGACATTTGATTTTATTATCACAATAGACATTATCTTACAATCATTCATAATA
A
Found at i:8664880 original size:23 final size:21
Alignment explanation
Indices: 8664809--8664939 Score: 66
Period size: 22 Copynumber: 6.0 Consensus size: 21
8664799 TAATAATTAT
* *
8664809 TGATAACTTAATAGTAAATCA
1 TGATAGCTTAATAGTAAATAA
* *
8664830 TGAATAGCTTACTAGTAAATTAG
1 TG-ATAGCTTAATAGTAAA-TAA
*
8664853 CGATAGCTTAATTAGTAAATGAA
1 TGATAGCTTAA-TAGTAAAT-AA
* * **
8664876 TGATA-ATCTAATAATCGATAA
1 TGATAGCT-TAATAGTAAATAA
* *
8664897 TTGATAACTTAATAGCAAATTAA
1 -TGATAGCTTAATAGTAAA-TAA
* * *
8664920 TAATAGCATAATAATAAATA
1 TGATAGCTTAATAGTAAATA
8664940 TATAATAACT
Statistics
Matches: 80, Mismatches: 22, Indels: 16
0.68 0.19 0.14
Matches are distributed among these distances:
21 6 0.08
22 53 0.66
23 21 0.26
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (21 bp):
TGATAGCTTAATAGTAAATAA
Found at i:8665082 original size:22 final size:22
Alignment explanation
Indices: 8665054--8665101 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
8665044 TTAATCATTG
*
8665054 ATAAATTAATAATAACTTAGTA
1 ATAAATTAATAATAACTTAATA
* *
8665076 ATAAATTAGTAATAATTTAATA
1 ATAAATTAATAATAACTTAATA
8665098 ATAA
1 ATAA
8665102 TCAATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAAATTAATAATAACTTAATA
Found at i:8665102 original size:11 final size:11
Alignment explanation
Indices: 8665054--8665101 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
8665044 TTAATCATTG
8665054 ATAAATTAATA
1 ATAAATTAATA
* *
8665065 ATAACTTAGTA
1 ATAAATTAATA
*
8665076 ATAAATTAGTA
1 ATAAATTAATA
*
8665087 ATAATTTAATA
1 ATAAATTAATA
8665098 ATAA
1 ATAA
8665102 TCAATTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:8665253 original size:43 final size:44
Alignment explanation
Indices: 8665191--8665294 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 44
8665181 TAAATAATTG
* * *
8665191 ATAATTTAGTAGTTAATCATTAGA-AACTTAAAAATAAATCAA-A
1 ATAACTTAGTAGTAAATCATCA-ATAACTTAAAAATAAATCAACA
* * *
8665234 ATAACTTAGTAGTAAATCATCAATAACTTAATAGTTAATCAACA
1 ATAACTTAGTAGTAAATCATCAATAACTTAAAAATAAATCAACA
*
8665278 ATAACTTAATAGTAAAT
1 ATAACTTAGTAGTAAAT
8665295 TATGCATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 34 0.65
44 17 0.33
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATCAATAACTTAAAAATAAATCAACA
Found at i:8665261 original size:22 final size:22
Alignment explanation
Indices: 8665130--8665405 Score: 116
Period size: 22 Copynumber: 12.6 Consensus size: 22
8665120 TAATTAATTG
* *
8665130 TTAAGAGTAAATCATAAATAAT
1 TTAATAGTAAATCATAAATAAC
* *
8665152 TTAATTGTAAATCA-ATGATAAC
1 TTAATAGTAAATCATA-AATAAC
* * * ** *
8665174 TTATTACTAAATAATTGATAAT
1 TTAATAGTAAATCATAAATAAC
* * *
8665196 TTAGTAGTTAATCATTAGA-AAC
1 TTAATAGTAAATCA-TAAATAAC
* *
8665218 TTAAAAATAAATCA-AAATAAC
1 TTAATAGTAAATCATAAATAAC
* *
8665239 TTAGTAGTAAATCATCAATAAC
1 TTAATAGTAAATCATAAATAAC
*
8665261 TTAATAGTTAATCA-ACAATAAC
1 TTAATAGTAAATCATA-AATAAC
* ** *
8665283 TTAATAGTAAATTATGCATAAT
1 TTAATAGTAAATCATAAATAAC
*
8665305 TTAATA-TAAATCAGT-GATAAC
1 TTAATAGTAAATCA-TAAATAAC
* ** * ** * *
8665326 TTGATAGCGAATTATGGATGAT
1 TTAATAGTAAATCATAAATAAC
* * *
8665348 TTAGTAGTAAATCATTAATAAT
1 TTAATAGTAAATCATAAATAAC
* * *
8665370 TTTATAGTAAATAATAAA-AAA
1 TTAATAGTAAATCATAAATAAC
*
8665391 TTAAGTAGTAGATCA
1 TTAA-TAGTAAATCA
8665406 ATAATAATAT
Statistics
Matches: 185, Mismatches: 58, Indels: 22
0.70 0.22 0.08
Matches are distributed among these distances:
20 2 0.01
21 36 0.19
22 144 0.78
23 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (22 bp):
TTAATAGTAAATCATAAATAAC
Found at i:8665294 original size:65 final size:66
Alignment explanation
Indices: 8665146--8665294 Score: 149
Period size: 65 Copynumber: 2.3 Consensus size: 66
8665136 GTAAATCATA
* * * * ** * * *
8665146 AATAATTTAATTGTAAATCAATGATAACTTATTACTAAATAATTGATAATTTAGTAGTTAATCAT
1 AATAACTTAATAGTAAATCAATAATAACTTAGTACTAAATAATCAATAACTTAATAGTTAATCAA
*
8665211 T
66 C
* * * *
8665212 AGA-AACTTAAAAATAAATCAA-AATAACTTAGTAGTAAATCATCAATAACTTAATAGTTAATCA
1 A-ATAACTTAATAGTAAATCAATAATAACTTAGTACTAAATAATCAATAACTTAATAGTTAATCA
8665275 AC
65 AC
8665277 AATAACTTAATAGTAAAT
1 AATAACTTAATAGTAAAT
8665295 TATGCATAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
64 1 0.02
65 48 0.74
66 15 0.23
67 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (66 bp):
AATAACTTAATAGTAAATCAATAATAACTTAGTACTAAATAATCAATAACTTAATAGTTAATCAA
C
Found at i:8665309 original size:44 final size:44
Alignment explanation
Indices: 8665225--8665412 Score: 141
Period size: 44 Copynumber: 4.3 Consensus size: 44
8665215 AACTTAAAAA
* * *
8665225 TAAATCAA-AATAACTTAGTAGTAAATCAT-CAATAACTTAATAG
1 TAAATCAATAATAACTTAATAGTAAATTATGC-ATAATTTAATAG
* *
8665268 TTAATCAACAATAACTTAATAGTAAATTATGCATAATTTAATA-
1 TAAATCAATAATAACTTAATAGTAAATTATGCATAATTTAATAG
* * * ** * * *
8665311 TAAATCAGTGATAACTTGATAGCGAATTATGGATGATTTAGTAG
1 TAAATCAATAATAACTTAATAGTAAATTATGCATAATTTAATAG
* * * * * * *
8665355 TAAATCATTAATAATTTTATAGTAAATAAT-AAAAAATTAAGTAG
1 TAAATCAATAATAACTTAATAGTAAATTATGCATAATTTAA-TAG
*
8665399 TAGATCAATAATAA
1 TAAATCAATAATAA
8665413 TATAGTAGTA
Statistics
Matches: 113, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
43 45 0.40
44 67 0.59
45 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (44 bp):
TAAATCAATAATAACTTAATAGTAAATTATGCATAATTTAATAG
Found at i:8665506 original size:19 final size:19
Alignment explanation
Indices: 8665448--8665509 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
8665438 ATGGTAAATC
8665448 ATTGATAA-TTCAGTAGTAAA
1 ATTGATAACTT-AGTAGT-AA
* **
8665468 TTATTGATAACATAAAAGTAA
1 --ATTGATAACTTAGTAGTAA
8665489 ATTGATAACTTAGTAGTAA
1 ATTGATAACTTAGTAGTAA
8665508 AT
1 AT
8665510 CACAACTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 18 0.55
21 2 0.06
22 12 0.36
23 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (19 bp):
ATTGATAACTTAGTAGTAA
Found at i:8665708 original size:22 final size:22
Alignment explanation
Indices: 8665581--8665708 Score: 98
Period size: 22 Copynumber: 5.8 Consensus size: 22
8665571 TAAATTAATT
**
8665581 AATCATTAATAACTTTGTAGTA
1 AATCATTAATAACTTAATAGTA
* * * *
8665603 AAT-TTTCAATAAATTACTAATA
1 AATCATT-AATAACTTAATAGTA
* * *
8665625 AATTAGTT-ATAACTTTATAATA
1 AATCA-TTAATAACTTAATAGTA
*
8665647 AATCAATAATAACTTAATAGTA
1 AATCATTAATAACTTAATAGTA
* *
8665669 AATCATTAATAATTTAATCGTA
1 AATCATTAATAACTTAATAGTA
* *
8665691 AATCATTCATAACATAAT
1 AATCATTAATAACTTAAT
8665709 GATAACTCAT
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
21 3 0.04
22 78 0.94
24 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
AATCATTAATAACTTAATAGTA
Found at i:8666095 original size:44 final size:44
Alignment explanation
Indices: 8666032--8666134 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
8666022 AAACATAGTT
* * * *
8666032 TAATAAAAAAT-AAGTGATAACTTAATAGTTAATCATTAATAACA
1 TAATAATAAATCAA-TGATAACCTAATAGTAAATCAGTAATAACA
* * *
8666076 TAATAATAAATCAATGATAACCTAGTAGTAAATTAGTAATAACT
1 TAATAATAAATCAATGATAACCTAATAGTAAATCAGTAATAACA
*
8666120 TAACAATAAATCAAT
1 TAATAATAAATCAAT
8666135 ATTAGTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 48 0.96
45 2 0.04
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (44 bp):
TAATAATAAATCAATGATAACCTAATAGTAAATCAGTAATAACA
Found at i:8666213 original size:111 final size:113
Alignment explanation
Indices: 8666027--8666273 Score: 272
Period size: 111 Copynumber: 2.2 Consensus size: 113
8666017 GCATCAAACA
** * * *
8666027 TAGTTTAATAAAAAATAAGTGAT-AACTTAATAGTTAATCATTAATAACATAATAATAAATCAAT
1 TAGTTTAATAGTAAATAATTGATAAACTTAATAGTAAATCATAAATAACATAATAATAAATCAAT
* * *
8666091 GATAACCTAGTAGTAAATTAGT-A-ATAACTTAACAA-TAAATCAATAT
66 GACAACCTAGTAGTAAATTAATCATAAAACTTAA-AAGTAAATCAATAT
* *
8666137 TAGTTTAATAGTAATTAATTGATAAACTTAGA-AGTAAATCATAAATAACTTAATAATAAATCAA
1 TAGTTTAATAGTAAATAATTGATAAACTTA-ATAGTAAATCATAAATAACATAATAATAAATCAA
* ** * *
8666201 TGGCAATTTAGTAGTTAATTAATCATTAAAACTTAAAAGTAAATTAATAT
65 TGACAACCTAGTAGTAAATTAATCA-TAAAACTTAAAAGTAAATCAATAT
* *
8666251 AAG-TTAATAGTAAATCATTGATA
1 TAGTTTAATAGTAAATAATTGATA
8666274 TCTAATAATT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
110 19 0.17
111 52 0.46
112 2 0.02
113 20 0.18
114 20 0.18
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (113 bp):
TAGTTTAATAGTAAATAATTGATAAACTTAATAGTAAATCATAAATAACATAATAATAAATCAAT
GACAACCTAGTAGTAAATTAATCATAAAACTTAAAAGTAAATCAATAT
Found at i:8666279 original size:21 final size:22
Alignment explanation
Indices: 8666046--8666471 Score: 145
Period size: 22 Copynumber: 19.3 Consensus size: 22
8666036 AAAAAATAAG
*
8666046 TGATAACTTAATAGTTAATCAT
1 TGATAACTTAATAGTAAATCAT
* * * *
8666068 TAATAACATAATAATAAATCAA
1 TGATAACTTAATAGTAAATCAT
* * * *
8666090 TGATAACCTAGTAGTAAATTAG
1 TGATAACTTAATAGTAAATCAT
* * * *
8666112 TAATAACTTAACAATAAATCAA
1 TGATAACTTAATAGTAAATCAT
** * *
8666134 T-ATTAGTTTAATAGTAATTAAT
1 TGA-TAACTTAATAGTAAATCAT
8666156 TGATAAACTTAGA-AGTAAATCAT
1 TGAT-AACTTA-ATAGTAAATCAT
** * *
8666179 AAATAACTTAATAATAAATCAA
1 TGATAACTTAATAGTAAATCAT
** * *
8666201 TGGCAATTTAGTAGTTAATTAATCAT
1 TGATAACTTAATAG-T-A--AATCAT
* * * *
8666227 T-AAAACTTAAAAGTAAATTAA
1 TGATAACTTAATAGTAAATCAT
*
8666248 T-ATAAGTTAATAGTAAATCAT
1 TGATAACTTAATAGTAAATCAT
* * * *
8666269 TGATATC-TAATAATTAATCAA
1 TGATAACTTAATAGTAAATCAT
8666290 TGATAACTTAATAGTAAATCAT
1 TGATAACTTAATAGTAAATCAT
* * * * *
8666312 AGATAATTTAATA-TAATTTAG
1 TGATAACTTAATAGTAAATCAT
* ** *
8666333 TGATAATTTTGTAGTGAATCAT
1 TGATAACTTAATAGTAAATCAT
* * * * *
8666355 GGATAA-TATAGTAATACATCTT
1 TGATAACT-TAATAGTAAATCAT
* * *
8666377 TTATAA-TTCCATAGTAAATAAT
1 TGATAACTT-AATAGTAAATCAT
* * * *
8666399 TGAAAAATTAAGTAGTAAATTAA
1 TGATAACTTAA-TAGTAAATCAT
* *
8666422 TGATAACATAGTAGTAAAT-A-
1 TGATAACTTAATAGTAAATCAT
8666442 T-ATAACAATATAATAGTAAATCAT
1 TGATAAC--T-TAATAGTAAATCAT
8666466 TGATAA
1 TGATAA
8666472 TTTATTAATA
Statistics
Matches: 283, Mismatches: 99, Indels: 41
0.67 0.23 0.10
Matches are distributed among these distances:
19 5 0.02
20 1 0.00
21 58 0.20
22 162 0.57
23 36 0.13
24 4 0.01
25 11 0.04
26 6 0.02
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATCAT
Found at i:8666288 original size:111 final size:110
Alignment explanation
Indices: 8666028--8666310 Score: 261
Period size: 111 Copynumber: 2.6 Consensus size: 110
8666018 CATCAAACAT
** * * * *
8666028 AGTTTAATAAAAAATAAGTGAT-AACTTAATAGTTAATCATTAATAACATAATAATAAATCAATG
1 AGTTTAATAGTAAATAATTGATAAAC-TAATAATTAATCATAAATAACTTAATAATAAATCAATG
* * * *
8666092 ATAACCTAGTAGTAAATTAGTAATAACTTAACAATAAATCAATATT
65 ACAACCTAGTAGTAAATTAATAAAAACTTAACAATAAATCAATATA
* * * *
8666138 AGTTTAATAGTAATTAATTGATAAACTTAGAAGTAAATCATAAATAACTTAATAATAAATCAATG
1 AGTTTAATAGTAAATAATTGATAAACTAATAA-TTAATCATAAATAACTTAATAATAAATCAATG
* ** * *
8666203 GCAATTTAGTAGTTAATTAATCATTAAAACTTAA-AAGTAAATTAATATA
65 ACAACCTAGTAGTAAATTAAT-A--AAAACTTAACAA-TAAATCAATATA
* * * *
8666252 AG-TTAATAGTAAATCATTGAT-ATCTAATAATTAATCA-ATGATAACTTAATAGTAAATCA
1 AGTTTAATAGTAAATAATTGATAAACTAATAATTAATCATA-AATAACTTAATAATAAATCA
8666311 TAGATAATTT
Statistics
Matches: 139, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
110 22 0.16
111 71 0.51
112 7 0.05
113 19 0.14
114 20 0.14
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.34
Consensus pattern (110 bp):
AGTTTAATAGTAAATAATTGATAAACTAATAATTAATCATAAATAACTTAATAATAAATCAATGA
CAACCTAGTAGTAAATTAATAAAAACTTAACAATAAATCAATATA
Found at i:8666527 original size:55 final size:55
Alignment explanation
Indices: 8666424--8666527 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
8666414 TAAATTAATG
* * * * *
8666424 ATAACATAGTAGTAAATATATAACAATATAATAGTAAATCATTGATAATTTATTA
1 ATAACATAATAGTAAATATATAAAAATATAATAGTAAATAACTAATAATTTATTA
* *
8666479 ATAACTTAATAGTAAATA-ACTAAAAATATAGTAGTAAATAACTAATAAT
1 ATAACATAATAGTAAATATA-TAAAAATATAATAGTAAATAACTAATAAT
8666528 GTGGTTGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 1 0.02
55 40 0.98
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (55 bp):
ATAACATAATAGTAAATATATAAAAATATAATAGTAAATAACTAATAATTTATTA
Found at i:8666617 original size:22 final size:21
Alignment explanation
Indices: 8666592--8666790 Score: 85
Period size: 22 Copynumber: 9.1 Consensus size: 21
8666582 ATTAGTTAAC
8666592 TATTAATAACTTTATAGTAAAT
1 TATTAATAA-TTTATAGTAAAT
* * *
8666614 TATTGATAAATTAATAATAAAT
1 TATTAAT-AATTTATAGTAAAT
* *
8666636 CAATT-ATAATTTATAATAAAT
1 -TATTAATAATTTATAGTAAAT
** *
8666657 TACCAATAAATTGATAGTAAAT
1 TATTAAT-AATTTATAGTAAAT
*
8666679 TATCAATAATTTAGTAGTAAAT
1 TATTAATAATTTA-TAGTAAAT
* * * *
8666701 CATTTATAAATTAGTAATAAAT
1 TATTAATAATTTA-TAGTAAAT
* * * *
8666723 CAATGATAATTTAAGAGTAAAT
1 TATTAATAATTT-ATAGTAAAT
* * ***
8666745 CATTGATAGCATAGTAGTAAAT
1 TATTAATAATTTA-TAGTAAAT
* * *
8666767 CATTGATAATATAATAGTAAAT
1 TATTAATAAT-TTATAGTAAAT
8666789 TA
1 TA
8666791 ATAAAAACTT
Statistics
Matches: 137, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.01
21 21 0.15
22 108 0.79
23 7 0.05
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (21 bp):
TATTAATAATTTATAGTAAAT
Found at i:8666633 original size:11 final size:11
Alignment explanation
Indices: 8666595--8666736 Score: 63
Period size: 11 Copynumber: 13.0 Consensus size: 11
8666585 AGTTAACTAT
* *
8666595 TAATAACTTTA
1 TAATAAATTAA
* *
8666606 TAGTAAATTAT
1 TAATAAATTAA
*
8666617 TGATAAATTAA
1 TAATAAATTAA
*
8666628 TAATAAATCAA
1 TAATAAATTAA
* *
8666639 TTAT-AATTTA
1 TAATAAATTAA
*
8666649 TAATAAATTAC
1 TAATAAATTAA
* *
8666660 CAATAAATTGA
1 TAATAAATTAA
*
8666671 TAGTAAATT-A
1 TAATAAATTAA
* *
8666681 TCAATAATTTAG
1 T-AATAAATTAA
* * *
8666693 TAGTAAATCAT
1 TAATAAATTAA
* *
8666704 TTATAAATTAG
1 TAATAAATTAA
*
8666715 TAATAAATCAA
1 TAATAAATTAA
* *
8666726 TGATAATTTAA
1 TAATAAATTAA
8666737 GAGTAAATCA
Statistics
Matches: 91, Mismatches: 37, Indels: 6
0.68 0.28 0.04
Matches are distributed among these distances:
10 9 0.10
11 81 0.89
12 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8666676 original size:65 final size:66
Alignment explanation
Indices: 8666596--8666722 Score: 166
Period size: 65 Copynumber: 1.9 Consensus size: 66
8666586 GTTAACTATT
* * ** *
8666596 AATAACTTTATAGTAAATTATTGATAAATTAATAATAAATCAATTATAATTTA-TAATAAATTAC
1 AATAAATTGATAGTAAATTATCAATAAATTAATAATAAATCAATTATAAATTAGTAATAAATTAC
8666660 C
66 C
* * * *
8666661 AATAAATTGATAGTAAATTATCAATAATTTAGTAGTAAATCATTTATAAATTAGTAATAAAT
1 AATAAATTGATAGTAAATTATCAATAAATTAATAATAAATCAATTATAAATTAGTAATAAAT
8666723 CAATGATAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
65 44 0.85
66 8 0.15
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (66 bp):
AATAAATTGATAGTAAATTATCAATAAATTAATAATAAATCAATTATAAATTAGTAATAAATTAC
C
Found at i:8666760 original size:44 final size:44
Alignment explanation
Indices: 8666607--8666788 Score: 133
Period size: 44 Copynumber: 4.2 Consensus size: 44
8666597 ATAACTTTAT
* * *
8666607 AGTAAATTATTGATAAATTAATAATAAATCAATTATAATTTATA-
1 AGTAAATCATTGATAAATTAGTAATAAATCAATGATAATTTA-AG
* *** * * *
8666651 A-TAAATTACCAATAAATT-GATAGTAAAT-TATCAATAATTT-AG
1 AGTAAATCATTGATAAATTAG-TAATAAATCAAT-GATAATTTAAG
*
8666693 TAGTAAATCATTTATAAATTAGTAATAAATCAATGATAATTTAAG
1 -AGTAAATCATTGATAAATTAGTAATAAATCAATGATAATTTAAG
* * * * *
8666738 AGTAAATCATTGATAGCA-TAGTAGTAAATCATTGATAATATAAT
1 AGTAAATCATTGATA-AATTAGTAATAAATCAATGATAATTTAAG
8666782 AGTAAAT
1 AGTAAAT
8666789 TAATAAAAAC
Statistics
Matches: 109, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 29 0.27
44 71 0.65
45 6 0.06
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (44 bp):
AGTAAATCATTGATAAATTAGTAATAAATCAATGATAATTTAAG
Found at i:8669365 original size:53 final size:51
Alignment explanation
Indices: 8669298--8669484 Score: 125
Period size: 53 Copynumber: 3.6 Consensus size: 51
8669288 TTCTTTTGAG
* *
8669298 AAAAAATTTGATATTCCAACTCTTTCTTCAAAATTTTTATTTCTAACAATTTA
1 AAAAAAATTAATATTCCAACTCTTTCTT-AAAATTTTTATTT-TAACAATTTA
* * * * **
8669351 AAAAAAATTAATATTCTAACTTTTTATTAAATATTTTCAAATT--C-ATTTGA
1 AAAAAAATTAATATTCCAACTCTTTCTTAAA-ATTTTTATTTTAACAATTT-A
* * * * * *
8669401 AAAAAAAATAATATTTCAATTTCTTCCTCGAAAA-TTTTATTTTTAATAATTT-
1 AAAAAAATTAATATTCCAA-CTCTTTCT-TAAAATTTTTA-TTTTAACAATTTA
* *
8669453 AAAAAAATTGATATTTCAACTCTTT-TTAAAAT
1 AAAAAAATTAATATTCCAACTCTTTCTTAAAAT
8669485 AATTTCAAAA
Statistics
Matches: 100, Mismatches: 25, Indels: 21
0.68 0.17 0.14
Matches are distributed among these distances:
49 8 0.08
50 23 0.23
51 11 0.11
52 24 0.24
53 30 0.30
54 4 0.04
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (51 bp):
AAAAAAATTAATATTCCAACTCTTTCTTAAAATTTTTATTTTAACAATTTA
Found at i:8669406 original size:104 final size:102
Alignment explanation
Indices: 8669271--8669493 Score: 247
Period size: 103 Copynumber: 2.2 Consensus size: 102
8669261 TTATTTTAAC
* * ** * *
8669271 TTTTAAACATTTTCAAATTCTTTTGAGAAAAAATTTGATATTCCAA-CTCTTTCTTC-AAAATTT
1 TTTTAAATATTTTCAAATTCATTTGA-AAAAAAAATAATATTCCAATCTC-TTCCTCGAAAA-TT
8669334 TTATTTCTAACAATTTAAAAAAAATTAATA-TTCTAACT-TT
63 TTATTTCTAACAATTT-AAAAAAATTAATATTTC-AACTCTT
* *
8669374 TTATTAAATATTTTCAAATTCATTTGAAAAAAAAATAATATTTCAATTTCTTCCTCGAAAATTTT
1 TT-TTAAATATTTTCAAATTCATTTGAAAAAAAAATAATATTCCAATCTCTTCCTCGAAAATTTT
* * *
8669439 ATTTTTAATAATTTAAAAAAATTGATATTTCAACTCTT
65 ATTTCTAACAATTTAAAAAAATTAATATTTCAACTCTT
* *
8669477 TTTAAAATAATTTCAAA
1 TTTTAAATATTTTCAAA
8669494 ATTATTATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
102 29 0.28
103 45 0.44
104 28 0.27
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (102 bp):
TTTTAAATATTTTCAAATTCATTTGAAAAAAAAATAATATTCCAATCTCTTCCTCGAAAATTTTA
TTTCTAACAATTTAAAAAAATTAATATTTCAACTCTT
Found at i:8669517 original size:24 final size:23
Alignment explanation
Indices: 8669488--8669545 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
8669478 TTAAAATAAT
8669488 TTCAAAATTATTATTATTTTTTAA
1 TTCAAAATTATTATTA-TTTTTAA
* * * *
8669512 TTCAAACTTTTTTTTATTTTTAG
1 TTCAAAATTATTATTATTTTTAA
8669535 TTCAAGAATTA
1 TTCAA-AATTA
8669546 AATTTCAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (23 bp):
TTCAAAATTATTATTATTTTTAA
Found at i:8685115 original size:18 final size:18
Alignment explanation
Indices: 8685088--8685123 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8685078 TGATATGATT
* *
8685088 CTAAGGAAGTCCGAGTAG
1 CTAAGAAAGTCCAAGTAG
8685106 CTAAGAAAGTCCAAGTAG
1 CTAAGAAAGTCCAAGTAG
8685124 AAATTCCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.17
Consensus pattern (18 bp):
CTAAGAAAGTCCAAGTAG
Found at i:8694764 original size:30 final size:31
Alignment explanation
Indices: 8694725--8694786 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
8694715 AGATAATACA
*
8694725 TACATTGCATCCCATCCACATCAATGGATAG
1 TACATTGCATCCCATCCACATCAATAGATAG
*
8694756 TACA-TGCATCCCATTCACATCAATAGATAG
1 TACATTGCATCCCATCCACATCAATAGATAG
8694786 T
1 T
8694787 TTATGCGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (31 bp):
TACATTGCATCCCATCCACATCAATAGATAG
Found at i:8694798 original size:30 final size:30
Alignment explanation
Indices: 8694725--8694800 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
8694715 AGATAATACA
* *
8694725 TACATTGCATCCCATCCACATCAATGGATAG
1 TACA-TGCATCCCATTCACATCAATAGATAG
8694756 TACATGCATCCCATTCACATCAATAGATAG
1 TACATGCATCCCATTCACATCAATAGATAG
** *
8694786 TTTATGCGTCCCATT
1 TACATGCATCCCATT
8694801 TTATGCATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 36 0.90
31 4 0.10
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (30 bp):
TACATGCATCCCATTCACATCAATAGATAG
Found at i:8697490 original size:14 final size:13
Alignment explanation
Indices: 8697432--8697496 Score: 62
Period size: 14 Copynumber: 4.9 Consensus size: 13
8697422 GGGGCAAGTT
*
8697432 AAAAAATAATAAC
1 AAAAAATAAAAAC
*
8697445 AAAAAA-AAAACC
1 AAAAAATAAAAAC
*
8697457 AAAAAA-AAAGAAG
1 AAAAAATAAA-AAC
8697470 AAAAAATGAAAAAC
1 AAAAAAT-AAAAAC
8697484 AAAAAATGAAAAA
1 AAAAAAT-AAAAA
8697497 AGAGAAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 13 0.30
13 13 0.30
14 15 0.34
15 3 0.07
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAATAAAAAC
Found at i:8697518 original size:14 final size:15
Alignment explanation
Indices: 8697463--8697520 Score: 75
Period size: 14 Copynumber: 4.0 Consensus size: 15
8697453 AACCAAAAAA
8697463 AAAGAAGAAAAAATG
1 AAAGAAGAAAAAATG
*
8697478 AAA-AACAAAAAATG
1 AAAGAAGAAAAAATG
* *
8697492 AAAAAAGAGAAAA-G
1 AAAGAAGAAAAAATG
8697506 AAAGAAGAAAAAATG
1 AAAGAAGAAAAAATG
8697521 GTTATGACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (15 bp):
AAAGAAGAAAAAATG
Found at i:8698036 original size:17 final size:17
Alignment explanation
Indices: 8698016--8698057 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
8698006 AAAAGGAAGG
* *
8698016 AAAGAAAAAATGAACGA
1 AAAGAAAAAATAAAAGA
*
8698033 AAAGAAAGAATAAAAGA
1 AAAGAAAAAATAAAAGA
8698050 AAA-AAAAA
1 AAAGAAAAA
8698058 GAAAACGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAATAAAAGA
Found at i:8698039 original size:21 final size:18
Alignment explanation
Indices: 8698015--8698062 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
8698005 AAAAAGGAAG
8698015 GAAAGAAAAAATGAACGAAAA
1 GAAAGAAAAAA-GAA--AAAA
8698036 GAAAGAATAAAAGAAAAAA
1 GAAAGAA-AAAAGAAAAAA
8698055 -AAAGAAAA
1 GAAAGAAAA
8698063 CGAAATGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 6 0.23
19 4 0.15
21 10 0.38
22 4 0.15
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
GAAAGAAAAAAGAAAAAA
Found at i:8699296 original size:36 final size:36
Alignment explanation
Indices: 8699254--8699324 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
8699244 CTAGACATTT
8699254 ACATTTGCATCACTTGCATCTGCATCAAGAAAAAAG
1 ACATTTGCATCACTTGCATCTGCATCAAGAAAAAAG
* *
8699290 ACATTTGCATCACTTGCATTTGCATCATGAAAAAA
1 ACATTTGCATCACTTGCATCTGCATCAAGAAAAAA
8699325 AAAACATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (36 bp):
ACATTTGCATCACTTGCATCTGCATCAAGAAAAAAG
Found at i:8699944 original size:33 final size:33
Alignment explanation
Indices: 8699902--8700016 Score: 164
Period size: 33 Copynumber: 3.5 Consensus size: 33
8699892 TTTTAAATTC
*
8699902 AAAGTTTCATGGCCTATGATTAAAGGAGCACTT
1 AAAGTTTCATGGCCTCTGATTAAAGGAGCACTT
8699935 AAAGTTTCATGGCCTCTGATTAGAA-GAGCA-TT
1 AAAGTTTCATGGCCTCTGATTA-AAGGAGCACTT
* *
8699967 CAAAGTATCATGGCCTCTGATTAGAGGAGCAC-T
1 -AAAGTTTCATGGCCTCTGATTAAAGGAGCACTT
8700000 AAAGTTTCATGGCCTCT
1 AAAGTTTCATGGCCTCT
8700017 AATTGGAAGA
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
32 19 0.26
33 53 0.72
34 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (33 bp):
AAAGTTTCATGGCCTCTGATTAAAGGAGCACTT
Found at i:8700121 original size:33 final size:33
Alignment explanation
Indices: 8700084--8700168 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
8700074 AACATTTTAA
8700084 ATTCAAAGTTTCATGGCCTCTGATTAGAGAAGC
1 ATTCAAAGTTTCATGGCCTCTGATTAGAGAAGC
*
8700117 ATTCAAAGTTTCATGGCCTCTGATTAGAGGAGC
1 ATTCAAAGTTTCATGGCCTCTGATTAGAGAAGC
*
8700150 ACTCAAAGTTTCATGGCCT
1 ATTCAAAGTTTCATGGCCT
8700169 TTAATTGGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (33 bp):
ATTCAAAGTTTCATGGCCTCTGATTAGAGAAGC
Found at i:8700127 original size:186 final size:187
Alignment explanation
Indices: 8699811--8700168 Score: 549
Period size: 186 Copynumber: 1.9 Consensus size: 187
8699801 TTTTAAATTT
* * ***
8699811 CTAAAGTTTTATGGCCTCTGATTGGAAGAGCATTTAAAGATTTTGAAATTTATAAGACCTTTGGG
1 CTAAAGTTTCATGGCCTCTAATTGGAAGAGCATTTAAAGATTTTGAAATTTATAAGACCTTTCAA
*
8699876 GCATAATCTCCAAACATTTTAAATTCAAAGTTTCATGGCCTATGATTAAAGGAGCACTTAAAGTT
66 GCATAATCTCCAAACATTTTAAATTCAAAGTTTCATGGCCTATGATTAAAGAAGCACTTAAAGTT
*
8699941 TCATGGCCTCTGATTAGAAGAGCATTCAAAGTATCATGGCCTCTGATTAGAGGAGCA
131 TCATGGCCTCTGATTAGAAGAGCACTCAAAGTATCATGGCCTCTGATTAGAGGAGCA
* * *
8699998 CTAAAGTTTCATGGCCTCTAATTGGAAGAGTATTTAAAGATTTTGAGATTTGTAAGA-CTTTCAA
1 CTAAAGTTTCATGGCCTCTAATTGGAAGAGCATTTAAAGATTTTGAAATTTATAAGACCTTTCAA
* * * *
8700062 GCATAATTTTCAAACATTTTAAATTCAAAGTTTCATGGCCTCTGATTAGAGAAGCA-TTCAAAGT
66 GCATAATCTCCAAACATTTTAAATTCAAAGTTTCATGGCCTATGATTAAAGAAGCACTT-AAAGT
* *
8700126 TTCATGGCCTCTGATTAGAGGAGCACTCAAAGTTTCATGGCCT
130 TTCATGGCCTCTGATTAGAAGAGCACTCAAAGTATCATGGCCT
8700169 TTAATTGGAG
Statistics
Matches: 154, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
185 2 0.01
186 100 0.65
187 52 0.34
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (187 bp):
CTAAAGTTTCATGGCCTCTAATTGGAAGAGCATTTAAAGATTTTGAAATTTATAAGACCTTTCAA
GCATAATCTCCAAACATTTTAAATTCAAAGTTTCATGGCCTATGATTAAAGAAGCACTTAAAGTT
TCATGGCCTCTGATTAGAAGAGCACTCAAAGTATCATGGCCTCTGATTAGAGGAGCA
Found at i:8700235 original size:154 final size:154
Alignment explanation
Indices: 8699935--8700315 Score: 579
Period size: 154 Copynumber: 2.5 Consensus size: 154
8699925 AGGAGCACTT
*
8699935 AAAGTTTCATGGCCTCTGATTAGA-AGAGCATTCAAAGTATCATGGCCTCTGATTAGAGGAGCAC
1 AAAGTTTCATGGCCTCTGATTAGAGA-AGCATTCAAAGTTTCATGGCCTCTGATTAGAGGAGCAC
* *
8699999 T-AAAGTTTCATGGCCTCTAATTGGAAGAGTATTTAAAGATTTTGAGATTTGTAAGACTTTCAAG
65 TCAAAGTTTCATGGCCTCTAATTGGAAGAGTATATAAAGATTTTGAGATTTGTAAGACCTTCAAG
* *
8700063 CATAATTTTCAAACATTTTAAATTC
130 CATAATCTCCAAACATTTTAAATTC
8700088 AAAGTTTCATGGCCTCTGATTAGAGAAGCATTCAAAGTTTCATGGCCTCTGATTAGAGGAGCACT
1 AAAGTTTCATGGCCTCTGATTAGAGAAGCATTCAAAGTTTCATGGCCTCTGATTAGAGGAGCACT
* * * *
8700153 CAAAGTTTCATGGCCTTTAATTGGAGGAGTATATAAAGATTTTGATATTTGTAAGACCTTCGAGC
66 CAAAGTTTCATGGCCTCTAATTGGAAGAGTATATAAAGATTTTGAGATTTGTAAGACCTTCAAGC
*
8700218 ATAATCTCCAAATATTTTAAATTC
131 ATAATCTCCAAACATTTTAAATTC
* * * * *
8700242 AAAGTTTCATGGCCTTTGATTAAAGAAACACTT-AAAGTTTCATGGCCTCTTATTAGAGGAGCAT
1 AAAGTTTCATGGCCTCTGATTAGAGAAGCA-TTCAAAGTTTCATGGCCTCTGATTAGAGGAGCAC
8700306 TCAAAAGTTT
65 TC-AAAGTTT
8700316 TGTGGTTCGT
Statistics
Matches: 209, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
153 62 0.30
154 138 0.66
155 9 0.04
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (154 bp):
AAAGTTTCATGGCCTCTGATTAGAGAAGCATTCAAAGTTTCATGGCCTCTGATTAGAGGAGCACT
CAAAGTTTCATGGCCTCTAATTGGAAGAGTATATAAAGATTTTGAGATTTGTAAGACCTTCAAGC
ATAATCTCCAAACATTTTAAATTC
Found at i:8700350 original size:67 final size:67
Alignment explanation
Indices: 8700275--8700451 Score: 259
Period size: 67 Copynumber: 2.6 Consensus size: 67
8700265 AGAAACACTT
* * * *
8700275 AAAGTTTCATGGCCTCTTATTAGAGGAGCATTCAAAAGTTTTGTGGTTCGTAACATATTTTAAAT
1 AAAGTTTCATGGCCTCTTATTAGAGGAGCATTCAAAAGTTTTATGATTCATAAAATATTTTAAAT
8700340 TC
66 TC
*
8700342 AAAGTTTCATGGCCTCTAATTAGAGGAGCATTCAAAAGTTTTATGATTCATAAAATATTTTAAAT
1 AAAGTTTCATGGCCTCTTATTAGAGGAGCATTCAAAAGTTTTATGATTCATAAAATATTTTAAAT
8700407 TC
66 TC
*
8700409 AACA-TTTCATGGCCT-TTGATTAGAGGAGCACTCAAAAAGTTTT
1 AA-AGTTTCATGGCCTCTT-ATTAGAGGAGCATTC-AAAAGTTTT
8700452 TCAAATTTAA
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
66 1 0.01
67 89 0.89
68 10 0.10
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (67 bp):
AAAGTTTCATGGCCTCTTATTAGAGGAGCATTCAAAAGTTTTATGATTCATAAAATATTTTAAAT
TC
Found at i:8700375 original size:33 final size:33
Alignment explanation
Indices: 8700238--8700382 Score: 89
Period size: 33 Copynumber: 4.3 Consensus size: 33
8700228 AATATTTTAA
* * * * *
8700238 ATTCAAAGTTTCATGGCCTTTGATTAAAGAAAC
1 ATTCAAAGTTTCATGGCCTCTAATTAGAGGAGC
*
8700271 ACTT-AAAGTTTCATGGCCTCTTATTAGAGGAGC
1 A-TTCAAAGTTTCATGGCCTCTAATTAGAGGAGC
** * * **** *
8700304 ATTCAAAAGTTTTGTGG-TTCGTAACATATTTTA-A
1 ATTC-AAAGTTTCATGGCCTC-TAA-TTAGAGGAGC
8700338 ATTCAAAGTTTCATGGCCTCTAATTAGAGGAGC
1 ATTCAAAGTTTCATGGCCTCTAATTAGAGGAGC
8700371 ATTCAAAAGTTT
1 ATTC-AAAGTTT
8700383 TATGATTCAT
Statistics
Matches: 80, Mismatches: 24, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
32 5 0.06
33 45 0.56
34 27 0.34
35 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (33 bp):
ATTCAAAGTTTCATGGCCTCTAATTAGAGGAGC
Found at i:8700382 original size:34 final size:34
Alignment explanation
Indices: 8700275--8700382 Score: 87
Period size: 34 Copynumber: 3.2 Consensus size: 34
8700265 AGAAACACTT
*
8700275 AAAGTTTCATGGCCTCTTATTAGAGGAGCATTCA
1 AAAGTTTCATGGCCTCTAATTAGAGGAGCATTCA
** * * **** *
8700309 AAAGTTTTGTGG-TTCGTAACATATTTTA-AATTC-
1 AAAGTTTCATGGCCTC-TAA-TTAGAGGAGCATTCA
8700342 AAAGTTTCATGGCCTCTAATTAGAGGAGCATTCA
1 AAAGTTTCATGGCCTCTAATTAGAGGAGCATTCA
8700376 AAAGTTT
1 AAAGTTT
8700383 TATGATTCAT
Statistics
Matches: 50, Mismatches: 19, Indels: 10
0.63 0.24 0.13
Matches are distributed among these distances:
32 3 0.06
33 19 0.38
34 25 0.50
35 3 0.06
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (34 bp):
AAAGTTTCATGGCCTCTAATTAGAGGAGCATTCA
Found at i:8701347 original size:145 final size:146
Alignment explanation
Indices: 8701081--8701391 Score: 369
Period size: 145 Copynumber: 2.1 Consensus size: 146
8701071 AAAAAGTATA
* ** *
8701081 AAAGGGTATTTTCATAATTTGGCATTCCCAAGCTTAGAATCTCATGAAACTTTTCAAATCTCACT
1 AAAGGGTATTTTCATAATTTGACATTCCCAAGCTTAGAATCTCACAAAACTTTCCAAATCTCACT
* * * * *
8701146 TTTGTAACATTTCATGATTTTTGGCGAGTTTGGAATCATAATAGTATCCCAAAAAGTATGAAATT
66 TTTATAACATTTCATGATTTTTGACGAGTTTGAAATCATAACAGTACCCCAAAAAGTATGAAATT
*
8701211 ACCAAAATACCCT-TT
131 ACCAAAATACCCTCAT
* * * * * *
8701226 GAGGGGTATTTTCATAATTTGACCTTTCCAAGCTT-GAAATTTCACAAAACTTTCCAGATC-CTA
1 AAAGGGTATTTTCATAATTTGACATTCCCAAGCTTAG-AATCTCACAAAACTTTCCAAATCTC-A
* * * * *
8701289 CTTTTATAATATTTTATGATTTTTGATGTA-TTTGAAATTATAACAGTACCCCAAAAAGTGTGAA
64 CTTTTATAACATTTCATGATTTTTGACG-AGTTTGAAATCATAACAGTACCCCAAAAAGTATGAA
*
8701353 ATTATCAAAATACCCTCAT
128 ATTACCAAAATACCCTCAT
8701372 AAAGGGTATTTTCATAATTT
1 AAAGGGTATTTTCATAATTT
8701392 AGCCTTTTTG
Statistics
Matches: 138, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
144 2 0.01
145 116 0.84
146 20 0.14
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (146 bp):
AAAGGGTATTTTCATAATTTGACATTCCCAAGCTTAGAATCTCACAAAACTTTCCAAATCTCACT
TTTATAACATTTCATGATTTTTGACGAGTTTGAAATCATAACAGTACCCCAAAAAGTATGAAATT
ACCAAAATACCCTCAT
Found at i:8701443 original size:146 final size:145
Alignment explanation
Indices: 8701174--8701472 Score: 341
Period size: 146 Copynumber: 2.1 Consensus size: 145
8701164 TTTTGGCGAG
* * * * * *
8701174 TTTGGAATCATAATAGTATCCCAAAAAGTATGAAATTACCAAAATACCCTTTGAGGGGTATTTTC
1 TTTGAAATCATAACAGTACCCCAAAAAGTATGAAATTACCAAAATACCCTATAAAGGGTATTTTC
* * * ** *
8701239 ATAATTTGACCTTTCCAAGCTTGAAATTTCACAAAACTTTCCAGATCCTACTTTTATAATATTTT
66 ATAATTTGACCTTTCCAAGCTCGAAATTTCACAAAACTTTCCAGATCATAATCCTATAATATTTA
8701304 ATGATTTTTGATGTA
131 ATGATTTTTGATGTA
* * *
8701319 TTTGAAATTATAACAGTACCCCAAAAAGTGTGAAATTATCAAAATACCCTCATAAAGGGTATTTT
1 TTTGAAATCATAACAGTACCCCAAAAAGTATGAAATTACCAAAATACCCT-ATAAAGGGTATTTT
*** ** ** *
8701384 CATAATTT-AGCCTTTTTGAGCTCGGGATTTCATGAAATTTTCCAGATCATAATCCTATAATATT
65 CATAATTTGA-CCTTTCCAAGCTCGAAATTTCACAAAACTTTCCAGATCATAATCCTATAATATT
*
8701448 TAATGATTTTTGGTGT-
129 TAATGATTTTTGATGTA
*
8701464 TTTAAAATC
1 TTTGAAATC
8701473 TCAAAAATGG
Statistics
Matches: 126, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
145 52 0.41
146 74 0.59
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (145 bp):
TTTGAAATCATAACAGTACCCCAAAAAGTATGAAATTACCAAAATACCCTATAAAGGGTATTTTC
ATAATTTGACCTTTCCAAGCTCGAAATTTCACAAAACTTTCCAGATCATAATCCTATAATATTTA
ATGATTTTTGATGTA
Found at i:8702370 original size:19 final size:19
Alignment explanation
Indices: 8702342--8702380 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8702332 TAGCTTAAAA
8702342 TCATCCTTTATTCTTCTTT
1 TCATCCTTTATTCTTCTTT
*
8702361 TCATCTTTTATTCTTCTTT
1 TCATCCTTTATTCTTCTTT
8702380 T
1 T
8702381 TGGATTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (19 bp):
TCATCCTTTATTCTTCTTT
Found at i:8707353 original size:9 final size:10
Alignment explanation
Indices: 8707337--8707376 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
8707327 CAAATGTTTC
8707337 AAAAAAAAGA
1 AAAAAAAAGA
*
8707347 AATAAAAAGA
1 AAAAAAAAGA
8707357 AAAAAAAGAGTA
1 AAAAAAA-AG-A
8707369 AAAAAAAA
1 AAAAAAAA
8707377 ATACACCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:8707370 original size:18 final size:18
Alignment explanation
Indices: 8707337--8707377 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
8707327 CAAATGTTTC
8707337 AAAAAAAAGAAATAAAAA
1 AAAAAAAAGAAATAAAAA
*
8707355 GAAAAAAAAG-AGTAAAAA
1 -AAAAAAAAGAAATAAAAA
8707373 AAAAA
1 AAAAA
8707378 TACACCTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 7 0.33
19 9 0.43
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAAAAGAAATAAAAA
Found at i:8708875 original size:26 final size:26
Alignment explanation
Indices: 8708826--8708875 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8708816 TTTGCATGTG
* * **
8708826 CATCATGAGAAAGATATTTGCATTCA
1 CATCATGAAAAAGACATTCACATTCA
8708852 CATCATGAAAAAGACATTCACATT
1 CATCATGAAAAAGACATTCACATT
8708876 ATGAAAAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (26 bp):
CATCATGAAAAAGACATTCACATTCA
Found at i:8708895 original size:20 final size:20
Alignment explanation
Indices: 8708846--8708895 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
8708836 AAGATATTTG
*
8708846 CATTCACATCATGAAAAAGA
1 CATTCACATTATGAAAAAGA
8708866 CATTCACATTATGAAAAAGA
1 CATTCACATTATGAAAAAGA
*
8708886 CATTCGCATT
1 CATTCACATT
8708896 TGCATCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (20 bp):
CATTCACATTATGAAAAAGA
Found at i:8709426 original size:23 final size:23
Alignment explanation
Indices: 8709381--8709426 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8709371 TGGTTGAGAT
* *
8709381 TTTAAGCCTAATTTAGTTGGCAC
1 TTTAAGCCTAATTTAGCTAGCAC
8709404 TTTAAG-CTCAATTTAGCTAGCAC
1 TTTAAGCCT-AATTTAGCTAGCAC
8709427 ACTAAGCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (23 bp):
TTTAAGCCTAATTTAGCTAGCAC
Found at i:8709625 original size:22 final size:22
Alignment explanation
Indices: 8709597--8709676 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
8709587 TTTTAAGATT
8709597 TATAAGACCTTTGAGCATAATC
1 TATAAGACCTTTGAGCATAATC
*
8709619 TTTAAGACCTTT-AGACATAATC
1 TATAAGACCTTTGAG-CATAATC
* * *
8709641 TATAAGATCTCTAAGCATAATC
1 TATAAGACCTTTGAGCATAATC
*
8709663 TATAAGACTTTTGA
1 TATAAGACCTTTGA
8709677 TCAAAACATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.04
22 44 0.92
23 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (22 bp):
TATAAGACCTTTGAGCATAATC
Found at i:8709763 original size:148 final size:148
Alignment explanation
Indices: 8709502--8709776 Score: 415
Period size: 148 Copynumber: 1.9 Consensus size: 148
8709492 CTCCAAAACT
* * * *
8709502 TCTAAGCATAATCTATAAGACTTCTGGGCAAAACATTTTAATTTTTTAAAGTTTCAATGCCTCTG
1 TCTAAGCATAATCTATAAGACTTCTGAGCAAAACATTCTAAATTTTTAAAGTTTCAATGCCTCTA
* * *
8709567 ATACGATGAGCATTCAAAGATTTTAAGATTTATAAGACCTTTGAGCATAATCTTTAAGACCTTTA
66 ATACGAGGAACATTCAAAGATTTTAAGATTTATAAGACCTTTGAGCATAATCTCTAAGACCTTTA
8709632 GACATAATCTATAAGATC
131 GACATAATCTATAAGATC
* * * *
8709650 TCTAAGCATAATCTATAAGACTTTTGATCAAAACATTCTAAATTTTTAAAGTTTCAATGTCTTTA
1 TCTAAGCATAATCTATAAGACTTCTGAGCAAAACATTCTAAATTTTTAAAGTTTCAATGCCTCTA
* * * *
8709715 ATATGAGGAACATTCAAAGATTTTAAGATTTGTAAGACTTTTGGGCATAATCTCTAAGACCT
66 ATACGAGGAACATTCAAAGATTTTAAGATTTATAAGACCTTTGAGCATAATCTCTAAGACCT
8709777 CCAACCATAA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
148 112 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (148 bp):
TCTAAGCATAATCTATAAGACTTCTGAGCAAAACATTCTAAATTTTTAAAGTTTCAATGCCTCTA
ATACGAGGAACATTCAAAGATTTTAAGATTTATAAGACCTTTGAGCATAATCTCTAAGACCTTTA
GACATAATCTATAAGATC
Found at i:8709798 original size:22 final size:22
Alignment explanation
Indices: 8709760--8709801 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8709750 GACTTTTGGG
*
8709760 CATAATCTCTAAGACCTCCAAC
1 CATAATCTATAAGACCTCCAAC
8709782 CATAATCTATGAA-ACCTCCA
1 CATAATCTAT-AAGACCTCCA
8709802 GGCAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.33, G:0.05, T:0.24
Consensus pattern (22 bp):
CATAATCTATAAGACCTCCAAC
Found at i:8712235 original size:3 final size:3
Alignment explanation
Indices: 8712227--8712254 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8712217 CAAAATATAT
8712227 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8712255 ACAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8717531 original size:29 final size:29
Alignment explanation
Indices: 8717489--8717595 Score: 126
Period size: 29 Copynumber: 3.6 Consensus size: 29
8717479 ATACTCTTTA
*
8717489 ATTTTTAGGAATTTAGTCCTTATAGTATT
1 ATTTTAAGGAATTTAGTCCTTATAGTATT
* * *
8717518 ATTTAAAGGAATTTAGTCCTTGTAATATT
1 ATTTTAAGGAATTTAGTCCTTATAGTATT
*
8717547 ATTTCTAAGAAATTTAGT-CTGTATAGTATT
1 ATTT-TAAGGAATTTAGTCCT-TATAGTATT
8717577 ATTTCTTAAGGAATTTAGT
1 A-TT-TTAAGGAATTTAGT
8717596 TCCTGTGCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
29 31 0.48
30 19 0.29
31 14 0.22
32 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTTTAAGGAATTTAGTCCTTATAGTATT
Done.