Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 36 of 147
Found at i:7391566 original size:22 final size:22
Alignment explanation
Indices: 7391453--7391566 Score: 111
Period size: 22 Copynumber: 5.2 Consensus size: 22
7391443 TGAATCAATG
* * * *
7391453 ATAACTTAGTATTAAATCAATA
1 ATAACTTAATAGTAAATTATTA
* *
7391475 TTAACTTAGTAGTAAATTATTA
1 ATAACTTAATAGTAAATTATTA
* * *
7391497 TTAATTTAATAGTAAATTATTG
1 ATAACTTAATAGTAAATTATTA
* *
7391519 ATAACTTAATAGTAAATCATTC
1 ATAACTTAATAGTAAATTATTA
* *
7391541 ATAACTTAATAATAAATTAATA
1 ATAACTTAATAGTAAATTATTA
7391563 ATAA
1 ATAA
7391567 GTATTAACTT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 77 1.00
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATTA
Found at i:7392008 original size:3 final size:3
Alignment explanation
Indices: 7392000--7392036 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7391990 AATTTATGAT
7392000 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7392037 AAGTTTGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7394199 original size:17 final size:17
Alignment explanation
Indices: 7394177--7394230 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
7394167 ATTTATTTAT
7394177 ATATAATATAAAAATTA
1 ATATAATATAAAAATTA
7394194 ATATAA-ATTAAAAATTTA
1 ATATAATA-TAAAAA-TTA
*
7394212 A-ATTAT-TAAAAATATA
1 ATATAATATAAAAAT-TA
7394228 ATA
1 ATA
7394231 AAAAATTCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
15 1 0.03
16 10 0.32
17 16 0.52
18 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATATAATATAAAAATTA
Found at i:7397045 original size:13 final size:13
Alignment explanation
Indices: 7397027--7397051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7397017 TGATATATTT
7397027 ATTTTTTTAATTA
1 ATTTTTTTAATTA
7397040 ATTTTTTTAATT
1 ATTTTTTTAATT
7397052 TTTTAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTTTAATTA
Found at i:7401216 original size:7 final size:7
Alignment explanation
Indices: 7401204--7401241 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
7401194 ATTATAATTT
7401204 AAAAATA
1 AAAAATA
7401211 AAAAATA
1 AAAAATA
7401218 AAAAATA
1 AAAAATA
*
7401225 AAATATA
1 AAAAATA
*
7401232 AAAATTA
1 AAAAATA
7401239 AAA
1 AAA
7401242 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:7401220 original size:27 final size:27
Alignment explanation
Indices: 7401187--7401241 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
7401177 AATTATTTTT
* *
7401187 ATAAAAAATTATAATTTAAAAATAAAAA
1 ATAAAAAA-TAAAATATAAAAATAAAAA
*
7401215 ATAAAAAATAAAATATAAAAATTAAAA
1 ATAAAAAATAAAATATAAAAATAAAAA
7401242 TTCTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (27 bp):
ATAAAAAATAAAATATAAAAATAAAAA
Found at i:7401242 original size:14 final size:14
Alignment explanation
Indices: 7401190--7401242 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
7401180 TATTTTTATA
* *
7401190 AAAAATTATAATTT
1 AAAAATTAAAATAT
*
7401204 AAAAA-TAAAAAAT
1 AAAAATTAAAATAT
*
7401217 AAAAAATAAAATAT
1 AAAAATTAAAATAT
7401231 AAAAATTAAAAT
1 AAAAATTAAAAT
7401243 TCTAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
13 10 0.30
14 23 0.70
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATTAAAATAT
Found at i:7401249 original size:21 final size:21
Alignment explanation
Indices: 7401186--7401249 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
7401176 TAATTATTTT
*
7401186 TATAAAAAATTATAATTTAAA
1 TATAAAAAATTAAAATTTAAA
* * * *
7401207 AATAAAAAATAAAAAATAAAA
1 TATAAAAAATTAAAATTTAAA
7401228 TAT-AAAAATTAAAATTCTAAA
1 TATAAAAAATTAAAATT-TAAA
7401249 T
1 T
7401250 TTACTTACTA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 11 0.33
21 22 0.67
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
TATAAAAAATTAAAATTTAAA
Found at i:7405464 original size:34 final size:34
Alignment explanation
Indices: 7405421--7405495 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
7405411 TCAGATCTGA
7405421 TAACATCTTTTATCTTGCTTGTCTTGGAAATGGT
1 TAACATCTTTTATCTTGCTTGTCTTGGAAATGGT
* *
7405455 TAACATCTTTTATCTTGTTTGTCTTGGAAGTGGT
1 TAACATCTTTTATCTTGCTTGTCTTGGAAATGGT
7405489 T-ACATCT
1 TAACATCT
7405496 GTTGCTTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.15
34 33 0.85
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (34 bp):
TAACATCTTTTATCTTGCTTGTCTTGGAAATGGT
Found at i:7411866 original size:2 final size:2
Alignment explanation
Indices: 7411859--7411886 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7411849 TCCATTCAGC
7411859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7411887 TATGGGAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7412079 original size:2 final size:2
Alignment explanation
Indices: 7412072--7412096 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7412062 TAAGTTGATT
7412072 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7412097 CTTTTACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7412703 original size:3 final size:3
Alignment explanation
Indices: 7412695--7412731 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7412685 TTTTGTTTAG
7412695 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7412732 TTATCAGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7413570 original size:17 final size:17
Alignment explanation
Indices: 7413548--7413587 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
7413538 ATGATCTAAA
7413548 AAAAAGTTGACTTTTAT
1 AAAAAGTTGACTTTTAT
7413565 AAAAAGTTGACTTTTAT
1 AAAAAGTTGACTTTTAT
7413582 ATAAAA
1 A-AAAA
7413588 AAACAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (17 bp):
AAAAAGTTGACTTTTAT
Found at i:7413923 original size:3 final size:3
Alignment explanation
Indices: 7413909--7413954 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
7413899 ATTGTTTTAC
*
7413909 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAA AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7413954 A
1 A
7413955 GTGATAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:7414409 original size:21 final size:22
Alignment explanation
Indices: 7414355--7414398 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7414345 AAAATAAAAA
7414355 TAAACCCTAAACCCTCAAAACCC
1 TAAA-CCTAAACCCTCAAAACCC
* *
7414378 TAAAACTAAACCCTTAAAACC
1 TAAACCTAAACCCTCAAAACC
7414399 TTGACCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (22 bp):
TAAACCTAAACCCTCAAAACCC
Found at i:7416845 original size:26 final size:25
Alignment explanation
Indices: 7416816--7416878 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
7416806 TCAATTTACA
*
7416816 TATATACAAATATTAAAAATAAAAAT
1 TATATAAAAATATTAAAAAT-AAAAT
*
7416842 TATATATATAA-ATTAAAAATAAAAT
1 TATATA-AAAATATTAAAAATAAAAT
7416867 TATATAAAAATA
1 TATATAAAAATA
7416879 AAAATTAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 3 0.09
25 12 0.38
26 15 0.47
27 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TATATAAAAATATTAAAAATAAAAT
Found at i:7416897 original size:21 final size:21
Alignment explanation
Indices: 7416831--7416899 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
7416821 ACAAATATTA
*
7416831 AAAATAAAAATT-ATATATAT
1 AAAATAAAAATTAATTTATAT
* * *
7416851 AAATTAAAAATAAAATTATAT
1 AAAATAAAAATTAATTTATAT
7416872 AAAAATAAAAATTAAGTTTA-AT
1 -AAAATAAAAATTAA-TTTATAT
7416894 AAAATA
1 AAAATA
7416900 TATAATTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 10 0.26
21 12 0.31
22 14 0.36
23 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAATAAAAATTAATTTATAT
Found at i:7419637 original size:20 final size:22
Alignment explanation
Indices: 7419588--7419638 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
7419578 CTTGGATGAT
*
7419588 GGAAGAAGAATTATAAATATATA
1 GGAAGAA-AATTATAAATATAAA
7419611 -GAA-AAAATTAT-AAT-TAAA
1 GGAAGAAAATTATAAATATAAA
7419629 GGAAGAAAAT
1 GGAAGAAAAT
7419639 AATGTGAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 3 0.12
19 6 0.24
20 11 0.44
21 2 0.08
22 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.24
Consensus pattern (22 bp):
GGAAGAAAATTATAAATATAAA
Found at i:7421061 original size:2 final size:2
Alignment explanation
Indices: 7421040--7421086 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
7421030 ATAACACTAG
* *
7421040 AT AT A- AT AT AT AC AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7421081 AT AT AT
1 AT AT AT
7421087 TGGTGTCCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7421759 original size:2 final size:2
Alignment explanation
Indices: 7421752--7421784 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7421742 AGATGGGGCA
7421752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7421785 AACTGGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7434806 original size:391 final size:391
Alignment explanation
Indices: 7434085--7434868 Score: 1421
Period size: 391 Copynumber: 2.0 Consensus size: 391
7434075 CATCGAAAAA
7434085 ATGTTTAATCATTTTTTATTATGGTTTTTGTATTGAAAATATATATAATTCGTCCACCATTTAGG
1 ATGTTTAATCATTTTTTATTATGGTTTTTGTATTGAAAATATATATAATTCGTCCACCATTTAGG
* * *
7434150 CTAAAACTAGAAATATCTTATTACTTAGAAATTTCTTAGATAATCAACCATTTGAATTATTAAAA
66 CCAAAACTAGAAATATCTTATTACTTAAAAATTTCTTAGATAATCAACAATTTGAATTATTAAAA
7434215 ATTTCATCATCAAAATTTATTTTTATTTTTATTTATTTCTAAATTTTTAACCATTTGGGTCAATT
131 ATTTCATCATCAAAATTTATTTTTATTTTTATTTATTTCTAAATTTTTAACCATTTGGGTCAATT
* *
7434280 TAAAAATTTTCTTTTTGATTTCTAAAATTTTTCACCATTTAGGTCTATTTAGAAAATTTTTTCTT
196 TAAAAAATTTCTTTTTGATTTCTAAAATTTTTCACCATTTAGATCTATTTAGAAAATTTTTTCTT
** *
7434345 TCTTTTGAAAAGAAAATAATGTGACAATTATTTTTTGAAGTTTTATTTAAATTCTTTCACCATTT
261 TCTTAGGAAAAGAAAATAATATGACAATTATTTTTTGAAGTTTTATTTAAATTCTTTCACCATTT
7434410 GGGACAAATTTAAAGAAATTTCTAACCTAGAGATTTCTTAAAAATTTA-CTATTTGAAAATTTTA
326 GGGACAAATTTAAAGAAATTTCTAACCTAGAGATTTCTTAAAAATTTATC-ATTTGAAAATTTTA
7434474 AG
390 AG
7434476 ATGTTTAATCATTTTTTATTATGGTTTTTGTATTGAAAATATATATAATTCGTCCACCATTTAGG
1 ATGTTTAATCATTTTTTATTATGGTTTTTGTATTGAAAATATATATAATTCGTCCACCATTTAGG
*
7434541 CCAAAACTAGAAATATCTTATTACTTAAAAATTTCTTAGATAATTAACAATTTGCAATTATTAAA
66 CCAAAACTAGAAATATCTTATTACTTAAAAATTTCTTAGATAATCAACAATTTG-AATTATTAAA
7434606 AATTTCATCATCAAAATTTATTTTTATTTTTATTTATTTCTAAATTTTTAACCATTTGGGTCAAT
130 AATTTCATCATCAAAATTTATTTTTATTTTTATTTATTTCTAAATTTTTAACCATTTGGGTCAAT
7434671 TTAAAAAATTTCTTTTTGATTTCT-AAATTTTTCACCATTTAGATCTATTTAGAAAATTTTTTCT
195 TTAAAAAATTTCTTTTTGATTTCTAAAATTTTTCACCATTTAGATCTATTTAGAAAATTTTTTCT
7434735 TTCTTAGGAAAAGAAAATAATATGACAATTATTTTTTGAAGTTTTATTTAAATT-TTGTCACCAT
260 TTCTTAGGAAAAGAAAATAATATGACAATTATTTTTTGAAGTTTTATTTAAATTCTT-TCACCAT
* *
7434799 TTGGGACAAATTTAAAGAAATTTCTCACCTAGAGATTTCTTAAAAATTTATCATTTGAAATTTTT
324 TTGGGACAAATTTAAAGAAATTTCTAACCTAGAGATTTCTTAAAAATTTATCATTTGAAAATTTT
7434864 AAG
389 AAG
7434867 AT
1 AT
7434869 TCTCATCCCT
Statistics
Matches: 379, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
390 2 0.01
391 278 0.73
392 99 0.26
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (391 bp):
ATGTTTAATCATTTTTTATTATGGTTTTTGTATTGAAAATATATATAATTCGTCCACCATTTAGG
CCAAAACTAGAAATATCTTATTACTTAAAAATTTCTTAGATAATCAACAATTTGAATTATTAAAA
ATTTCATCATCAAAATTTATTTTTATTTTTATTTATTTCTAAATTTTTAACCATTTGGGTCAATT
TAAAAAATTTCTTTTTGATTTCTAAAATTTTTCACCATTTAGATCTATTTAGAAAATTTTTTCTT
TCTTAGGAAAAGAAAATAATATGACAATTATTTTTTGAAGTTTTATTTAAATTCTTTCACCATTT
GGGACAAATTTAAAGAAATTTCTAACCTAGAGATTTCTTAAAAATTTATCATTTGAAAATTTTAA
G
Found at i:7436221 original size:44 final size:44
Alignment explanation
Indices: 7436173--7436677 Score: 461
Period size: 43 Copynumber: 11.6 Consensus size: 44
7436163 CTCTAAACAA
* * ***
7436173 AGGCTCTACGACTTTTGAAAAATAAATAAAGCTCTTTTAAATGG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* ** * *
7436217 AGGCTCAACAACTTTAAAAAAATAAATAAGGCTAC-TCTAAGCAA
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCT-CTTTTAAGCAG
* * * * *
7436261 AGGCTCAATGACTTTAGAAAAGTATATAAGGCTCTTCTAAGCAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* * * *
7436305 AGACTCAACGAC-TTTGAAAAATAAATAAAGCTTCTCTTAAGTAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGC-TCTTTTAAGCAG
* * * * * **
7436349 AGGCTCAATGAC-TTTGAAAAGTAAATAAGGTTATTCTAAATAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* *
7436392 AGGCTCAACGAC-TTTGAAAACTAAATAAGGCTCATTTAAGCAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* * * * * *
7436435 AGGCTCAACGAC-TTTAAAAAATAAACAATGTTTTTTTAAACAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* * * *
7436478 AGGCTCAACAACTTTTGAAAAATAAAGAAAGCTCCTTTAAGCAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* * *
7436522 AGGCTCAACGA-TTTTGAAAAGTAAATAAGG-TTTTTCTAAACAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTT-TAAGCAG
* * * * *
7436565 AGACTCAACGA-TTTTGAAAAATAAACAAGGCTCCTTTAAGTAA
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* *
7436608 AGGCTCAACGAC-TTTGAAAACTAAATAAGGCTCTTCTAAGCAG
1 AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
* **
7436651 AGACTCAATAACTTTTGAAAAATAAAT
1 AGGCTCAACGACTTTTGAAAAATAAAT
7436678 CCTCTACAAT
Statistics
Matches: 369, Mismatches: 84, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
42 3 0.01
43 202 0.55
44 163 0.44
45 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (44 bp):
AGGCTCAACGACTTTTGAAAAATAAATAAGGCTCTTTTAAGCAG
Found at i:7436386 original size:87 final size:86
Alignment explanation
Indices: 7436173--7436677 Score: 533
Period size: 87 Copynumber: 5.8 Consensus size: 86
7436163 CTCTAAACAA
* * * * * ** * *
7436173 AGGCTCTACGACTTTTGAAAAATAAATAAAGCTCTTTTAAATGGAGGCTCAACAACTTTAAAAAA
1 AGGCTCAACGAC-TTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAACTTT-GAAAA
* * *
7436238 ATAAATAAGGCTACTCTAAGCAA
64 ATAAATAAGGCTCCTTTAAGCAG
* * * * *
7436261 AGGCTCAATGACTTTAGAAAAGTATATAAGGCTCTTCTAAGCAGAGACTCAACGACTTTGAAAAA
1 AGGCTCAACGACTTT-GAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAACTTTGAAAAA
* * *
7436326 TAAATAAAGCTTCTCTTAAGTAG
65 TAAATAAGGCTCCT-TTAAGCAG
* * * * * *
7436349 AGGCTCAATGACTTTGAAAAGTAAATAAGGTTATTCTAAATAGAGGCTCAACGACTTTGAAAACT
1 AGGCTCAACGACTTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAACTTTGAAAAAT
*
7436414 AAATAAGGCTCATTTAAGCAG
66 AAATAAGGCTCCTTTAAGCAG
* * * * * * *
7436435 AGGCTCAACGACTTTAAAAAATAAACAATGTTTTTTTAAACAGAGGCTCAACAACTTTTGAAAAA
1 AGGCTCAACGACTTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAAC-TTTGAAAAA
* *
7436500 TAAAGAAAGCTCCTTTAAGCAG
65 TAAATAAGGCTCCTTTAAGCAG
* * * *
7436522 AGGCTCAACGATTTTGAAAAGTAAATAAGGTTTTTCTAAACAGAGACTCAACGATTTTGAAAAAT
1 AGGCTCAACGACTTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAACTTTGAAAAAT
* * *
7436587 AAACAAGGCTCCTTTAAGTAA
66 AAATAAGGCTCCTTTAAGCAG
* * * *
7436608 AGGCTCAACGACTTTGAAAACTAAATAAGGCTCTTCTAAGCAGAGACTCAATAACTTTTGAAAAA
1 AGGCTCAACGACTTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAAC-TTTGAAAAA
7436673 TAAAT
65 TAAAT
7436678 CCTCTACAAT
Statistics
Matches: 350, Mismatches: 63, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
86 127 0.36
87 159 0.45
88 64 0.18
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (86 bp):
AGGCTCAACGACTTTGAAAAGTAAATAAGGTTCTTCTAAACAGAGACTCAACAACTTTGAAAAAT
AAATAAGGCTCCTTTAAGCAG
Found at i:7441083 original size:24 final size:25
Alignment explanation
Indices: 7441033--7441084 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
7441023 GTGATTCGAT
* *
7441033 AAAACTGAGTTTTCATGGTGTGATA
1 AAAACTGAGGTTTCATGATGTGATA
* *
7441058 AAAACT-AGGTTTCATGATTTGTTA
1 AAAACTGAGGTTTCATGATGTGATA
7441082 AAA
1 AAA
7441085 TTGAACTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (25 bp):
AAAACTGAGGTTTCATGATGTGATA
Found at i:7441855 original size:31 final size:31
Alignment explanation
Indices: 7441817--7441880 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
7441807 GCCATCCAGT
7441817 AATTGATGAGAGAATCTGAATGCTGCAAATC
1 AATTGATGAGAGAATCTGAATGCTGCAAATC
*
7441848 AATTGATGAGTGAATCTGAATGCTGCAAATC
1 AATTGATGAGAGAATCTGAATGCTGCAAATC
7441879 AA
1 AA
7441881 GGACAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTGATGAGAGAATCTGAATGCTGCAAATC
Found at i:7446059 original size:29 final size:29
Alignment explanation
Indices: 7446018--7446082 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
7446008 TAATTATGTT
* * *
7446018 TAAAAT-ATTAATTTTTTAA-ATTAATATA
1 TAAAATAATCAATTTATTAATA-TAAAATA
*
7446046 TTAAATAATCAATTTATTAATATAAAATA
1 TAAAATAATCAATTTATTAATATAAAATA
7446075 TAAAATAA
1 TAAAATAA
7446083 AATTAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.17
29 24 0.80
30 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TAAAATAATCAATTTATTAATATAAAATA
Found at i:7446863 original size:23 final size:23
Alignment explanation
Indices: 7446835--7446885 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
7446825 GAAAAATTAC
*
7446835 AAAAATTA-AAAAACAAAGAAAAAG
1 AAAATTTACAAAAA-AAA-AAAAAG
*
7446859 AAAATTTACAAAAAGAAAAAAAG
1 AAAATTTACAAAAAAAAAAAAAG
7446882 AAAA
1 AAAA
7446886 AAAGAAGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAATTTACAAAAAAAAAAAAAG
Found at i:7446871 original size:24 final size:23
Alignment explanation
Indices: 7446835--7446886 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
7446825 GAAAAATTAC
7446835 AAAAATTAAAAAACA-AAGAAAAAG
1 AAAAATTAAAAAA-AGAA-AAAAAG
* *
7446859 AAAATTTACAAAAAGAAAAAAAG
1 AAAAATTAAAAAAAGAAAAAAAG
7446882 AAAAA
1 AAAAA
7446887 AAGAAGGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAAATTAAAAAAAGAAAAAAAG
Found at i:7446879 original size:33 final size:32
Alignment explanation
Indices: 7446825--7446888 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
7446815 TTGATTAATT
**
7446825 GAAAAATTACAAAAATTAAAAAACAAAGAAAAA
1 GAAAAATTACAAAAAGAAAAAAACAAA-AAAAA
* *
7446858 GAAAATTTACAAAAAGAAAAAAAGAAAAAAA
1 GAAAAATTACAAAAAGAAAAAAACAAAAAAA
7446889 GAAGGTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.11
Consensus pattern (32 bp):
GAAAAATTACAAAAAGAAAAAAACAAAAAAAA
Found at i:7448611 original size:35 final size:36
Alignment explanation
Indices: 7448542--7448612 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
7448532 ACTGAAATTT
* *
7448542 TTATAAACTTTGGTTTGAAAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTAGAAAAAAATAAAACATAAAA
*
7448578 TTATAAACTTTGGTTAG-AAAAAATAAAGCATAAAA
1 TTATAAACTTTGGTTAGAAAAAAATAAAACATAAAA
7448613 AAAGTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (36 bp):
TTATAAACTTTGGTTAGAAAAAAATAAAACATAAAA
Found at i:7450143 original size:11 final size:12
Alignment explanation
Indices: 7450123--7450201 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 12
7450113 AATATCAAAT
7450123 ATAA-AAATATA
1 ATAATAAATATA
7450134 A-AATAAATATA
1 ATAATAAATATA
7450145 ATAAT-AATATA
1 ATAATAAATATA
7450156 AGTAATAAA-A-A
1 A-TAATAAATATA
*
7450167 ATAATGAATA-A
1 ATAATAAATATA
* *
7450178 TTAAAAAATAATAA
1 ATAATAAAT-AT-A
7450192 ATAATAAATA
1 ATAATAAATA
7450202 AATGTAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 8 0.15
11 26 0.48
12 9 0.17
13 3 0.06
14 8 0.15
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:7450182 original size:18 final size:18
Alignment explanation
Indices: 7450125--7450196 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
7450115 TATCAAATAT
*
7450125 AAAAAT-ATAAAATAAATA
1 AAAAATAAT-AAATAATTA
*
7450143 TAATAATAATATAAGTAA-TA
1 -AAAAATAATA-AA-TAATTA
*
7450163 AAAAATAATGAATAATTA
1 AAAAATAATAAATAATTA
7450181 AAAAATAATAAATAAT
1 AAAAATAATAAATAAT
7450197 AAATAAATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
17 3 0.07
18 19 0.42
19 14 0.31
20 6 0.13
21 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAAATAATAAATAATTA
Found at i:7450187 original size:25 final size:25
Alignment explanation
Indices: 7450133--7450198 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
7450123 ATAAAAATAT
*
7450133 AAAAT-AAATATAATAATAATATAA
1 AAAATAAAAAATAATAATAATATAA
**
7450157 GTAATAAAAAATAATGAATAAT-TAA
1 AAAATAAAAAATAAT-AATAATATAA
*
7450182 AAAATAATAAATAATAA
1 AAAATAAAAAATAATAA
7450199 ATAAATGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 5 0.15
25 23 0.68
26 6 0.18
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (25 bp):
AAAATAAAAAATAATAATAATATAA
Found at i:7450210 original size:25 final size:24
Alignment explanation
Indices: 7450129--7450210 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
7450119 AAATATAAAA
*
7450129 ATATAAAATAA-ATATAATAAT-A
1 ATATAAAATAATAAATAATAATAA
*
7450151 ATATAAGTAATAAAAAATAATGAATAA
1 ATATAA--AATAATAAATAAT-AATAA
* *
7450178 TTAAAAAATAATAAATAATAAATAA
1 ATATAAAATAATAAATAAT-AATAA
*
7450203 ATGTAAAA
1 ATATAAAA
7450211 AGAGAAAGAG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.13
24 5 0.11
25 28 0.60
26 3 0.06
27 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
ATATAAAATAATAAATAATAATAA
Found at i:7450330 original size:18 final size:18
Alignment explanation
Indices: 7450293--7450331 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
7450283 TTTACAACAT
7450293 AAAAAAAGCCCAAATAAA
1 AAAAAAAGCCCAAATAAA
7450311 AAAATAAAGCCCAAATAAA
1 AAAA-AAAGCCCAAATAAA
7450330 AA
1 AA
7450332 GCAAAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.72, C:0.15, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAAGCCCAAATAAA
Found at i:7451154 original size:29 final size:30
Alignment explanation
Indices: 7451117--7451179 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
7451107 TAGAAAAGGT
7451117 GCAGTAAAAA-AAAAGAAAGAAAGAAAGGAA
1 GCAGTAAAAAGAAAAGAAAGAAA-AAAGGAA
* * *
7451147 GCAG-AAAAAGAGAAGAACGGAAAAAGGAA
1 GCAGTAAAAAGAAAAGAAAGAAAAAAGGAA
7451176 GCAG
1 GCAG
7451180 CGAAGGTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.02
Consensus pattern (30 bp):
GCAGTAAAAAGAAAAGAAAGAAAAAAGGAA
Found at i:7453312 original size:60 final size:60
Alignment explanation
Indices: 7453051--7453326 Score: 267
Period size: 61 Copynumber: 4.5 Consensus size: 60
7453041 TTTGTACAAG
* * * *
7453051 AAAAAATTGATACTTTCAGCTTTTTCTC-AAAATA---TTTTTTGAAAACTTTAATTTTGA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAA-TTTAATTTTAA
** * * *
7453108 GGAAAATTGATACTTTGAACTTTTCCTAAAAAAAAACCCTTTTTTTTTTGAAAATTTATTTTTAA
1 AAAAAATTGATACTTTCAACTTTTCCT-CAAAAAAA-CC---TTTTTTTGAAAATTTAATTTTAA
* * ** * **
7453173 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATATTTTTTTGAAATTTTTAATTTCGA
1 AAAAAATTGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTTGAAA-ATTTAATTTTAA
*
7453234 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAATTT-ATTCTTAA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAATTTAATT-TTAA
*
7453294 AAAAAATTGATACCTTCAACTTTTCCTCAAAAA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAA
7453327 TATTTTTTTT
Statistics
Matches: 177, Mismatches: 29, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
57 22 0.12
59 8 0.05
60 47 0.27
61 49 0.28
62 1 0.01
64 6 0.03
65 33 0.19
66 11 0.06
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (60 bp):
AAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAATTTAATTTTAA
Found at i:7453335 original size:60 final size:60
Alignment explanation
Indices: 7453051--7453336 Score: 278
Period size: 60 Copynumber: 4.7 Consensus size: 60
7453041 TTTGTACAAG
* * *
7453051 AAAAAATTGATACTTTCAGCTTTTTCTC-AAAATA---TTTTTTGAAAACTTTAATTTTGA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAA-TTTAATTTTAA
** * * * *
7453108 GGAAAATTGATACTTTGAACTTTTCCTAAAAAAAAACCCTTTTTTTTTTGAAAATTTATTTTTAA
1 AAAAAATTGATACTTTCAACTTTTCCT-CAAAAATA----TTTTTTTTTGAAAATTTAATTTTAA
* * * **
7453173 GAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATATTTTTTTGAAATTTTTAATTTCGA
1 AAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTTTGAAA-ATTTAATTTTAA
* * **
7453234 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAAATTT-ATTCTTAA
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTAATT-TTAA
*
7453294 AAAAAATTGATACCTTCAACTTTTCCTCAAAAATATTTTTTTT
1 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT
7453337 GTTTTTTTTG
Statistics
Matches: 185, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
57 22 0.12
59 8 0.04
60 55 0.30
61 49 0.26
62 1 0.01
64 6 0.03
65 33 0.18
66 11 0.06
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (60 bp):
AAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAAATTTAATTTTAA
Found at i:7453351 original size:121 final size:124
Alignment explanation
Indices: 7453051--7453337 Score: 367
Period size: 121 Copynumber: 2.4 Consensus size: 124
7453041 TTTGTACAAG
* * * * ** * *
7453051 AAAAAATTGATACTTTCAGCTTTT-TCT-CAAA-ATA-TTTTTTGAAAACTTTAATTTTGAGGAA
1 AAAAAATTGATACCTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTAATTTCGAAGAA
* *
7453112 AATTGATACTTTGAACTTTTCCTAAAAAAAAACCCTTTTTTTTTTGAAAATTTATTTTTAA
66 AATTGATACTTTCAACTTTTCCTAAAAAAAAACCC--TTTTTTTTGAAAATTTATTCTTAA
* *
7453173 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTAATTTCGAAGAA
1 AAAAAATTGATACCTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTAATTTCGAAGAA
*
7453238 AATTGATACTTTCAACTTTTCCT-CAAAAAAA-CC-TTTTTTTGAAAATTTATTCTTAA
66 AATTGATACTTTCAACTTTTCCTAAAAAAAAACCCTTTTTTTTGAAAATTTATTCTTAA
7453294 AAAAAATTGATACCTTCAACTTTT-CCTCAAAAATAT-TTTTTTTG
1 AAAAAATTGATACCTTCAACTTTTCCCT-AAAAATATATTTTTTTG
7453338 TTTTTTTTGA
Statistics
Matches: 147, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
120 11 0.07
121 52 0.35
122 22 0.15
123 2 0.01
124 5 0.03
125 10 0.07
126 45 0.31
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (124 bp):
AAAAAATTGATACCTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTTTAATTTCGAAGAA
AATTGATACTTTCAACTTTTCCTAAAAAAAAACCCTTTTTTTTGAAAATTTATTCTTAA
Found at i:7453368 original size:5 final size:5
Alignment explanation
Indices: 7453360--7453483 Score: 93
Period size: 5 Copynumber: 24.8 Consensus size: 5
7453350 TTTATTTAAA
*
7453360 AAAAT AAAA- AAAAT AAAA- AATAGAA AAAAT AAAAT -AAAT GAAAAT
1 AAAAT AAAAT AAAAT AAAAT AA-A-AT AAAAT AAAAT AAAAT -AAAAT
* *
7453405 -AAAT AAAA- AAAAT -AAA- AAAAT TAAAT AATCCTAAT ATAAT AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA----AAT AAAAT AA-AAT
7453451 -AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
7453484 CGAAAAAAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 32
0.73 0.04 0.24
Matches are distributed among these distances:
4 27 0.28
5 56 0.57
6 9 0.09
7 2 0.02
9 4 0.04
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:7453369 original size:9 final size:9
Alignment explanation
Indices: 7453357--7453483 Score: 96
Period size: 9 Copynumber: 13.3 Consensus size: 9
7453347 AATTTTATTT
7453357 AAAAAAATA
1 AAAAAAATA
7453366 AAAAAAAT-
1 AAAAAAATA
7453374 -AAAAAATA
1 AAAAAAATA
*
7453382 GAAAAAATA
1 AAAAAAATA
*
7453391 AAATAAATGA
1 AAAAAAAT-A
*
7453401 AAATAAATA
1 AAAAAAATA
7453410 AAAAAAATA
1 AAAAAAATA
*
7453419 AAAAAATTA
1 AAAAAAATA
7453428 AATAATCCTAATATA
1 AA-AA----AA-ATA
* *
7453443 ATAATAATA
1 AAAAAAATA
*
7453452 AATAAAATA
1 AAAAAAATA
7453461 AAATAAAATA
1 AAA-AAAATA
7453471 AAATAAAATA
1 AAA-AAAATA
7453481 AAA
1 AAA
7453484 CGAAAAAAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
7 7 0.07
9 52 0.54
10 31 0.32
14 4 0.04
15 3 0.03
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAAAATA
Found at i:7454024 original size:25 final size:26
Alignment explanation
Indices: 7453984--7454036 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
7453974 ACCGGAATCT
*
7453984 AAAAATTTTTC-AAAAATT-TCCAAA
1 AAAAAATTTTCAAAAAATTCTCCAAA
7454008 AAAAAATTTTCACAAAAATTCTCCAAA
1 AAAAAATTTTCA-AAAAATTCTCCAAA
7454035 AA
1 AA
7454037 TTTCTACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
26 7 0.28
27 8 0.32
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAAAATTTTCAAAAAATTCTCCAAA
Found at i:7454145 original size:17 final size:18
Alignment explanation
Indices: 7454111--7454148 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7454101 ATGTCTACCC
7454111 TTTCTCTCCCAGTACTCTT
1 TTTCTCTCCCA-TACTCTT
*
7454130 TTTCTCTCCC-TCCTCTT
1 TTTCTCTCCCATACTCTT
7454147 TT
1 TT
7454149 GTTTCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.05, C:0.39, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTCTCCCATACTCTT
Found at i:7454393 original size:19 final size:20
Alignment explanation
Indices: 7454345--7454476 Score: 61
Period size: 20 Copynumber: 6.4 Consensus size: 20
7454335 AAATAAATAA
* *
7454345 AAATAAAAAAATTAATAGAT
1 AAATAAAAAAATAAAAAGAT
* *
7454365 AATTAGAAAAA-AAAAAGAT
1 AAATAAAAAAATAAAAAGAT
* *
7454384 AAATAAAAAATATTACAAGAT
1 AAATAAAAAA-ATAAAAAGAT
*
7454405 AAA-AAAAATCATAATAATAGAT
1 AAATAAAAA-AATAA-AA-AGAT
* * * *
7454427 AAATTATAATATATAAATGAAT
1 AAATAAAAAAATA-AAAAG-AT
* * **
7454449 AAATAAATATATAACTAGAT
1 AAATAAAAAAATAAAAAGAT
7454469 AAATAAAA
1 AAATAAAA
7454477 TATATATATA
Statistics
Matches: 82, Mismatches: 22, Indels: 16
0.68 0.18 0.13
Matches are distributed among these distances:
19 14 0.17
20 27 0.33
21 13 0.16
22 24 0.29
23 4 0.05
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
AAATAAAAAAATAAAAAGAT
Found at i:7454459 original size:20 final size:21
Alignment explanation
Indices: 7454380--7454496 Score: 89
Period size: 21 Copynumber: 5.4 Consensus size: 21
7454370 GAAAAAAAAA
* *
7454380 AGATAAATAAAAAATATTACA-
1 AGATAAATAAAATATA-TAAAT
*
7454401 AGATAAAAAAAATCATA-ATAAT
1 AGATAAATAAAAT-ATATA-AAT
*
7454423 AGATAAATTATAATATATAAAT
1 AGATAAA-TAAAATATATAAAT
*
7454445 -GAATAAAT-AAATATATAACT
1 AG-ATAAATAAAATATATAAAT
7454465 AGATAAATAAAATATATATATAT
1 AGATAAATAAAATATATA-A-AT
*
7454488 ATATAAATA
1 AGATAAATA
7454497 TTAATAGAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
20 17 0.22
21 24 0.31
22 22 0.29
23 14 0.18
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (21 bp):
AGATAAATAAAATATATAAAT
Found at i:7454616 original size:7 final size:7
Alignment explanation
Indices: 7454604--7454654 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
7454594 AAATATATAC
7454604 ATAAAAT
1 ATAAAAT
7454611 ATAAAAT
1 ATAAAAT
7454618 A-AAAAT
1 ATAAAAT
7454624 A-AAAAT
1 ATAAAAT
7454630 AATAAAAAAT
1 -AT--AAAAT
7454640 ATAAAAT
1 ATAAAAT
*
7454647 ACAAAAT
1 ATAAAAT
7454654 A
1 A
7454655 AAAGTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 11 0.28
7 21 0.54
9 2 0.05
10 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
ATAAAAT
Found at i:7454621 original size:12 final size:12
Alignment explanation
Indices: 7454593--7454657 Score: 55
Period size: 12 Copynumber: 5.3 Consensus size: 12
7454583 GATACAAAGG
*
7454593 AAAATATATACAT
1 AAAATATA-AAAT
7454606 AAAATATAAAAT
1 AAAATATAAAAT
7454618 AAAA-ATAAAAAT
1 AAAATAT-AAAAT
7454630 AATAA-A-AAATAT
1 AA-AATATAAA-AT
*
7454642 AAAATACAAAAT
1 AAAATATAAAAT
7454654 AAAA
1 AAAA
7454658 GTAAAATTGG
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
11 7 0.15
12 25 0.54
13 14 0.30
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATATAAAAT
Found at i:7454621 original size:25 final size:25
Alignment explanation
Indices: 7454570--7454626 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
7454560 ATAAATAAAT
* *
7454570 AATAAATACATAAGATACAAAGGAA
1 AATAAATACATAAAATACAAAAGAA
* * *
7454595 AATATATACATAAAATATAAAATAAA
1 AATAAATACATAAAATACAAAA-GAA
7454621 AATAAA
1 AATAAA
7454627 AATAATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (25 bp):
AATAAATACATAAAATACAAAAGAA
Found at i:7454935 original size:42 final size:43
Alignment explanation
Indices: 7454832--7455020 Score: 276
Period size: 42 Copynumber: 4.4 Consensus size: 43
7454822 TTGATCAAAA
* * *
7454832 CTCCTCTAAGTAGAGGCTCAACGACTTTGAAAAACATAAACAATG
1 CTCCTCTAATTAGAGGCTCAACGACTTTG-AAAA-ATAAATAAAG
*
7454877 CTCCTCTAATTAGAGGCTCAACGACTTTG-AAAATGAATAAAG
1 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAATAAAG
7454919 CTCCTCT-ATTCAGAGGCTCAACGACTTTGAAAAATAAATAAAG
1 CTCCTCTAATT-AGAGGCTCAACGACTTTGAAAAATAAATAAAG
* *
7454962 CTCCTCTAATCAGAGGCTCAACGACTTTG-AAAATGAATAAAG
1 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAATAAAG
7455004 CTCCTCTAATTAGAGGC
1 CTCCTCTAATTAGAGGC
7455021 AATTTTTTGT
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
41 3 0.02
42 60 0.45
43 40 0.30
44 2 0.02
45 28 0.21
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (43 bp):
CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAATAAATAAAG
Found at i:7454987 original size:85 final size:87
Alignment explanation
Indices: 7454832--7455020 Score: 312
Period size: 85 Copynumber: 2.2 Consensus size: 87
7454822 TTGATCAAAA
* * *
7454832 CTCCTCTAAGTAGAGGCTCAACGACTTTGAAAAACATAAACAATGCTCCTCTAATTAGAGGCTCA
1 CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCA
7454897 ACGACTTTGAAAATGAATAAAG
66 ACGACTTTGAAAATGAATAAAG
*
7454919 CTCCTCT-ATTCAGAGGCTCAACGACTTTG-AAAA-ATAAATAAAGCTCCTCTAATCAGAGGCTC
1 CTCCTCTAATT-AGAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTC
7454981 AACGACTTTGAAAATGAATAAAG
65 AACGACTTTGAAAATGAATAAAG
7455004 CTCCTCTAATTAGAGGC
1 CTCCTCTAATTAGAGGC
7455021 AATTTTTTGT
Statistics
Matches: 96, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
85 62 0.65
86 9 0.09
87 25 0.26
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (87 bp):
CTCCTCTAATTAGAGGCTCAACGACTTTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCA
ACGACTTTGAAAATGAATAAAG
Found at i:7455155 original size:41 final size:41
Alignment explanation
Indices: 7455110--7455213 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
7455100 GAGGCTCCAT
*
7455110 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGTCAACGA
1 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
* *
7455151 AACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
7455192 AACTTTGAAAAAATAAATTGCT
1 AACTTTG-AAAAGTAAATTGCT
7455214 AATTGACAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 45 0.79
42 12 0.21
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (41 bp):
AACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
Found at i:7455570 original size:43 final size:42
Alignment explanation
Indices: 7455507--7455588 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 42
7455497 TTTGGCAAAG
* *
7455507 TTGGAATTCATATCCAAAAA-TCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCAAAAAATTC-AAAGCTTTTCATTTGAATT
7455549 TTGGAAATTCACATCAAAAAATTCAAAGCTTTTCATTTGA
1 TTGG-AATTCACATCAAAAAATTCAAAGCTTTTCATTTGA
7455589 GTTCAAATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 4 0.11
43 30 0.83
44 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCAAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:7455820 original size:22 final size:21
Alignment explanation
Indices: 7455772--7455812 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7455762 GGTTTCACTC
*
7455772 CTCAAAGATTTTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
7455794 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
7455813 GTTCTCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:7457095 original size:7 final size:8
Alignment explanation
Indices: 7457076--7457129 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
7457066 TTGAACCTCT
7457076 TTTTTTCA
1 TTTTTTCA
7457084 TTTTTTCA
1 TTTTTTCA
7457092 TTTTTTTTCA
1 --TTTTTTCA
*
7457102 -TTCTT--
1 TTTTTTCA
7457107 TTTTTTCTA
1 TTTTTTC-A
7457116 TTTTTTCA
1 TTTTTTCA
7457124 TTTTTT
1 TTTTTT
7457130 TCTTCATCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
6 4 0.11
7 4 0.11
8 15 0.39
9 7 0.18
10 8 0.21
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:7457119 original size:32 final size:32
Alignment explanation
Indices: 7457075--7457147 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 32
7457065 TTTGAACCTC
7457075 TTTTTTTCATTTTTTCA-TTTTTT-TTCATTCT
1 TTTTTTTCATTTTTTCATTTTTTTCTTCA-TCT
7457106 TTTTTTTCTATTTTTTCATTTTTTTCTTCATCT
1 TTTTTTTC-ATTTTTTCATTTTTTTCTTCATCT
7457139 TTTTTTTCA
1 TTTTTTTCA
7457148 ATCCCATTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
31 8 0.21
32 10 0.26
33 17 0.44
34 4 0.10
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.77
Consensus pattern (32 bp):
TTTTTTTCATTTTTTCATTTTTTTCTTCATCT
Found at i:7457131 original size:18 final size:18
Alignment explanation
Indices: 7457075--7457132 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
7457065 TTTGAACCTC
7457075 TTTTTTTC-ATTTTTTCA
1 TTTTTTTCTATTTTTTCA
*
7457092 TTTTTTT-TCA----TTCT
1 TTTTTTTCT-ATTTTTTCA
7457106 TTTTTTTCTATTTTTTCA
1 TTTTTTTCTATTTTTTCA
7457124 TTTTTTTCT
1 TTTTTTTCT
7457133 TCATCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 13
0.68 0.04 0.28
Matches are distributed among these distances:
14 11 0.34
15 1 0.03
17 7 0.22
18 13 0.41
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTCTATTTTTTCA
Found at i:7457141 original size:22 final size:22
Alignment explanation
Indices: 7457084--7457143 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
7457074 CTTTTTTTCA
*
7457084 TTTTTTCATTTTTTTTCATTCTT
1 TTTTTTCATATTTTTTCATTC-T
7457107 TTTTTTC-TATTTTTTCATT-T
1 TTTTTTCATATTTTTTCATTCT
*
7457127 TTTTCTTCATCTTTTTT
1 TTTT-TTCATATTTTTT
7457144 TTCAATCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 5 0.15
21 3 0.09
22 18 0.55
23 7 0.21
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTCATATTTTTTCATTCT
Found at i:7463028 original size:15 final size:15
Alignment explanation
Indices: 7463004--7463033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7462994 AGATTATTAT
7463004 TTATAAAGGTCATAA
1 TTATAAAGGTCATAA
*
7463019 TTATACAGGTCATAA
1 TTATAAAGGTCATAA
7463034 CTATCTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (15 bp):
TTATAAAGGTCATAA
Found at i:7463342 original size:2 final size:2
Alignment explanation
Indices: 7463335--7463369 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7463325 GTGTTAAATT
*
7463335 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7463370 GGAGAGAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7463715 original size:7 final size:7
Alignment explanation
Indices: 7463703--7463735 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
7463693 TGGTTAATTT
7463703 ATTTTCA
1 ATTTTCA
7463710 ATTTTCA
1 ATTTTCA
7463717 ATTTTCA
1 ATTTTCA
7463724 ATTTTCA
1 ATTTTCA
7463731 ATTTT
1 ATTTT
7463736 TTATTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTTCA
Found at i:7463760 original size:26 final size:25
Alignment explanation
Indices: 7463724--7463800 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
7463714 TCAATTTTCA
*
7463724 ATTTTCAATTTTTTATTTTGATTTT
1 ATTTTCTATTTTTTATTTTGATTTT
7463749 GATTTTCTA---TTTATTTTGATTTT
1 -ATTTTCTATTTTTTATTTTGATTTT
*
7463772 -TTTGTTTATTTATTTATTTT-ATTTT
1 ATTT-TCTATTT-TTTATTTTGATTTT
7463797 ATTT
1 ATTT
7463801 AAAAACAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 14 0.33
25 5 0.12
26 18 0.42
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (25 bp):
ATTTTCTATTTTTTATTTTGATTTT
Found at i:7470256 original size:25 final size:25
Alignment explanation
Indices: 7470228--7470277 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7470218 ATAAGAGAGT
* * *
7470228 CTAATTATAATAATATTAATATTCA
1 CTAATAATAAAAACATTAATATTCA
7470253 CTAATAATAAAAACATTAATATTCA
1 CTAATAATAAAAACATTAATATTCA
7470278 AATATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
CTAATAATAAAAACATTAATATTCA
Found at i:7470286 original size:23 final size:24
Alignment explanation
Indices: 7470242--7470288 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
7470232 TTATAATAAT
7470242 ATTAATATTCACTAATAATAAAAAC
1 ATTAATATTCAC-AATAATAAAAAC
*
7470267 ATTAATATTCA-AATATTAAAAA
1 ATTAATATTCACAATAATAAAAA
7470289 GATGAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTAATATTCACAATAATAAAAAC
Found at i:7470661 original size:19 final size:20
Alignment explanation
Indices: 7470634--7470676 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
7470624 TTTCTTATGT
* *
7470634 TTAATATGAATAAAAT-ATA
1 TTAAAATGAAAAAAATAATA
7470653 TTAAAATGAAAAAAATAATA
1 TTAAAATGAAAAAAATAATA
7470673 TTAA
1 TTAA
7470677 TAGTACATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TTAAAATGAAAAAAATAATA
Found at i:7472928 original size:16 final size:16
Alignment explanation
Indices: 7472892--7472929 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7472882 ATTTTGGATT
*
7472892 TTTATTTTTATTTTTTA
1 TTTA-TTTTATTTTTCA
7472909 -TTATTTTATTTTTCA
1 TTTATTTTATTTTTCA
7472924 TTTATT
1 TTTATT
7472930 GAATTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTATTTTTCA
Found at i:7473152 original size:25 final size:25
Alignment explanation
Indices: 7473124--7473204 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 25
7473114 ATTTTCATGA
7473124 TAATTCCTAGTTTTTGAATATGAAG
1 TAATTCCTAGTTTTTGAATATGAAG
* * * * * * *
7473149 TAA-TCCAAAATTATTTTATTTTCATG
1 TAATTCC-TAGTT-TTTGAATATGAAG
7473175 ATAATTCCTAGTTTTTGAATATGAAG
1 -TAATTCCTAGTTTTTGAATATGAAG
7473201 TAAT
1 TAAT
7473205 CCAAAATTCT
Statistics
Matches: 38, Mismatches: 14, Indels: 8
0.63 0.23 0.13
Matches are distributed among these distances:
24 3 0.08
25 10 0.26
26 16 0.42
27 6 0.16
28 3 0.08
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (25 bp):
TAATTCCTAGTTTTTGAATATGAAG
Found at i:7473176 original size:52 final size:52
Alignment explanation
Indices: 7473109--7473212 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
7473099 TTCAAGATAA
7473109 ATTTTATTTTCATGATAATTCCTAGTTTTTGAATATGAAGTAATCCAAAATT
1 ATTTTATTTTCATGATAATTCCTAGTTTTTGAATATGAAGTAATCCAAAATT
7473161 ATTTTATTTTCATGATAATTCCTAGTTTTTGAATATGAAGTAATCCAAAATT
1 ATTTTATTTTCATGATAATTCCTAGTTTTTGAATATGAAGTAATCCAAAATT
7473213 CTCCCGGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (52 bp):
ATTTTATTTTCATGATAATTCCTAGTTTTTGAATATGAAGTAATCCAAAATT
Found at i:7474956 original size:22 final size:22
Alignment explanation
Indices: 7474930--7474973 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7474920 TGTATATTTA
*
7474930 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
*
7474952 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
7474974 GAAGATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:7478273 original size:17 final size:18
Alignment explanation
Indices: 7478251--7478286 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
7478241 CAAAATACCC
7478251 AAAATAGAAACG-AAAAA
1 AAAATAGAAACGTAAAAA
7478268 AAAATAGAAACGTAAAAA
1 AAAATAGAAACGTAAAAA
7478286 A
1 A
7478287 CAGAAATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.75, C:0.06, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAATAGAAACGTAAAAA
Found at i:7478291 original size:15 final size:14
Alignment explanation
Indices: 7478266--7478313 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
7478256 AGAAACGAAA
*
7478266 AAAAAATAGAAACG
1 AAAAAACAGAAACG
*
7478280 TAAAAAACAGAAATG
1 -AAAAAACAGAAACG
*
7478295 CAAAAACAGAAAC-
1 AAAAAACAGAAACG
7478308 AAAAAA
1 AAAAAA
7478314 AGCTACAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 12 0.43
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAACAGAAACG
Found at i:7479476 original size:16 final size:16
Alignment explanation
Indices: 7479451--7479490 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
7479441 CCAAACCCCA
*
7479451 AAAT-CAAAATCCCTT
1 AAATCCAAAATCCCTG
7479466 AAATCCAAAATCCCTG
1 AAATCCAAAATCCCTG
7479482 AAATCCAAA
1 AAATCCAAA
7479491 GTCCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATCCAAAATCCCTG
Found at i:7485272 original size:14 final size:14
Alignment explanation
Indices: 7485255--7485284 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7485245 GAAAAGATGT
7485255 AAAAAAAAAAAAGA
1 AAAAAAAAAAAAGA
*
7485269 AAAAAAAAGAAAGA
1 AAAAAAAAAAAAGA
7485283 AA
1 AA
7485285 TGAATGGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:7486159 original size:33 final size:33
Alignment explanation
Indices: 7486112--7486655 Score: 663
Period size: 33 Copynumber: 16.5 Consensus size: 33
7486102 TAAGAAAAAA
* *
7486112 CTTTAAGCCCAGTTTTTCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
7486145 CTTTAAGCCTAGTTTATCTGGCCATCAATGATA-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGA-AG
*
7486178 -TTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
7486210 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
7486243 CTTTAAGCCCAGTTTATCTAGCCATCAATGATA-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGA-AG
* *
7486276 -TTTAAACCCAGTTTATCTAGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* *
7486308 ATTTAAGCCCAGTTTATCTGGCCATCAATGATG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
7486341 CTTTAATCCCAGTTTATCTAGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* * *
7486374 ATTTAAGTCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
7486407 ATTTAAGCTCAGTTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
7486440 CTTTTAGCCCAGTTTATCTGGCCTTCAAATAAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
* * *
7486474 ATTTAAGCCCAGTTTATCTGACCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
7486507 CTTTAAGCCCAGTTTATCTGGCCATCAATTGATG
1 CTTTAAGCCCAGTTTATCTGGCCATCAA-TGAAG
*
7486541 CTTTACGCCCAGTTTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
*
7486574 ATTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * * *
7486607 TTTTAAGCCCAATTTAGCTGGCCTTTAAT-AAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
*
7486639 ATTTAAGCCCAGTTTAT
1 CTTTAAGCCCAGTTTAT
7486656 TTGACCCTAA
Statistics
Matches: 445, Mismatches: 52, Indels: 29
0.85 0.10 0.06
Matches are distributed among these distances:
31 4 0.01
32 72 0.16
33 307 0.69
34 62 0.14
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:7486286 original size:98 final size:98
Alignment explanation
Indices: 7486113--7486655 Score: 725
Period size: 98 Copynumber: 5.5 Consensus size: 98
7486103 AAGAAAAAAC
* * * *
7486113 TTTAAGCCCAGTTTTTCTGGCCATTAATGAAGCTTTAAGCCTAGTTTATCTGGCCATC-AATGAT
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCC-TCAAATGAG
7486177 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
65 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
* * *
7486211 TTTAAGCCCAGTTTATCTGGCCATTAATGAAGCTTTAAGCCCAGTTTATCTAGCCATC-AATGAT
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCC-TCAAATGAG
* * *
7486275 ATTTAAACCCAGTTTATCTAGCC-TCAAATGAAGA
65 ATTTAAGCCCAGTTTATCTGGCCAT-TAATGAAGA
* * *
7486309 TTTAAGCCCAGTTTATCTGGCCATCAATGATGCTTTAATCCCAGTTTATCTAGCCTCAAATGAAG
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCTCAAATG-AG
*
7486374 ATTTAAGTCCAGTTTATCTGGCCATTAATGAAGA
65 ATTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
* * *
7486408 TTTAAGCTCAGTTTATCTGGCCATCAATGAAGCTTTTAGCCCAGTTTATCTGGCCTTCAAATAAA
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCC-TCAAAT-GA
* *
7486473 GATTTAAGCCCAGTTTATCTGACCATTAATGAAGC
64 GATTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
* *
7486508 TTTAAGCCCAGTTTATCTGGCCATCAATTGATGCTTTACGCCCAGTTTATCTGGCCTCAAATGAA
1 TTTAAGCCCAGTTTATCTGGCCATCAA-TGAAGCTTTAAGCCCAGTTTATCTGGCCTCAAATG-A
* *
7486573 GATTTAAGCCCAGTTTATCTGGCCATCAATGAAGT
64 GATTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
* * * * **
7486608 TTTAAGCCCAATTTAGCTGGCCTTTAAT-AAAATTTAAGCCCAGTTTAT
1 TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTAT
7486656 TTGACCCTAA
Statistics
Matches: 398, Mismatches: 39, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
97 3 0.01
98 162 0.41
99 80 0.20
100 128 0.32
101 25 0.06
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (98 bp):
TTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCTCAAATGAGA
TTTAAGCCCAGTTTATCTGGCCATTAATGAAGA
Found at i:7486864 original size:41 final size:41
Alignment explanation
Indices: 7486810--7486892 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
7486800 TTGCATTGCT
* *
7486810 CATCTGTGCATCAT-GAAAGGGATATTTGCATTTGCATCACTTA
1 CATCTGT-CATCATAGAAA--GACATTCGCATTTGCATCACTTA
7486853 CATCTGT-ATCATAAGAAAGACATTCGCATTTGCATCACTT
1 CATCTGTCATCAT-AGAAAGACATTCGCATTTGCATCACTT
7486893 GCATTTGCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
41 25 0.69
43 11 0.31
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (41 bp):
CATCTGTCATCATAGAAAGACATTCGCATTTGCATCACTTA
Found at i:7487448 original size:36 final size:36
Alignment explanation
Indices: 7487397--7487468 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
7487387 ACCTCCGGGC
*
7487397 ATAAATTTGATTCGTGATGTTATCCC-GATCAATTCT
1 ATAAATTTGACTCGTGATGTTATCCCAG-TCAATTCT
* *
7487433 ATAATTTTGACTCGTGGTGTTATCCCAGTCAATTCT
1 ATAAATTTGACTCGTGATGTTATCCCAGTCAATTCT
7487469 GTAAGACCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (36 bp):
ATAAATTTGACTCGTGATGTTATCCCAGTCAATTCT
Found at i:7487561 original size:109 final size:109
Alignment explanation
Indices: 7487359--7487720 Score: 422
Period size: 109 Copynumber: 3.3 Consensus size: 109
7487349 TTTGAGATTT
* * * * *
7487359 TGTAAGACTTTCGAGCATGATTTCTAAGACCTCCGGGCATAAATTTGATTCGTGATGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTTGATTCGCGATGTTATCCCG
* *
7487424 ATCAATTCTATAATTTTGACTCGTGGTGTTATCCCAGTCAATTC
66 ATCAATTCTATAATTTTGACTTGCGGTGTTATCCCAGTCAATTC
*
7487468 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTTGATTCACGATGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTTGATTCGCGATGTTATCCCG
* * * * *
7487533 ATCAATTCTATAATTTTAACTTACGGTGTTATCCTAATTAATTC
66 ATCAATTCTATAATTTTGACTTGCGGTGTTATCCCAGTCAATTC
* * * *
7487577 TGTAAGACCTCCGGGCATGATTTGTAAGACCT-TCGGGCATAAATTCGATTTGCTG-TGTCATCC
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCT-GGGCATAAATTTGATTCGC-GATGTTATCC
* * * * * *
7487640 CGATCAATTTTTTTTATCTTTTGACTTGCGATGGTATCCCAGTCAATTT
64 CGATCAA--TTCTATA-ATTTTGACTTGCGGTGTTATCCCAGTCAATTC
* * * *
7487689 TGTAAGATCTCTGGACATGATTTTTAAGACCT
1 TGTAAGACCTCCGGGCATGATTTCTAAGACCT
7487721 TCGCGCAATT
Statistics
Matches: 215, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
108 1 0.00
109 157 0.73
110 1 0.00
111 5 0.02
112 51 0.24
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (109 bp):
TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATTTGATTCGCGATGTTATCCCG
ATCAATTCTATAATTTTGACTTGCGGTGTTATCCCAGTCAATTC
Found at i:7487928 original size:88 final size:89
Alignment explanation
Indices: 7487756--7487947 Score: 226
Period size: 89 Copynumber: 2.2 Consensus size: 89
7487746 GCATGATTTC
* * * *
7487756 TAAAACCTTCGGGCATAATTTCGATTCACGGTGTTGTCCAAATCGATTTTTTTTATTTCTAACTT
1 TAAAACCTTCGGGCATAATTTCGATTCACGGGGTTATCCAAATCAATTTTTTATATTTCTAACTT
* * * *
7487821 GTGGTGTTATCCCAGTCAATTTTG
66 GCGGTGTTATCCCAATCAATTCTA
* * ** * *
7487845 TAAGACCTTCGGGCATAAATTT-GATTCGCGGGGTTATCCCGATCAATTTTTTATCTTT-TGACT
1 TAAAACCTTCGGGCAT-AATTTCGATTCACGGGGTTATCCAAATCAATTTTTTATATTTCTAACT
7487908 TGCGGTGTTATCCCAATCAATTCTA
65 TGCGGTGTTATCCCAATCAATTCTA
*
7487933 TAAAACTTTCGGGCA
1 TAAAACCTTCGGGCA
7487948 ATTCTGTAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 38 0.44
89 43 0.50
90 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (89 bp):
TAAAACCTTCGGGCATAATTTCGATTCACGGGGTTATCCAAATCAATTTTTTATATTTCTAACTT
GCGGTGTTATCCCAATCAATTCTA
Found at i:7487979 original size:22 final size:22
Alignment explanation
Indices: 7487954--7488057 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
7487944 GGCAATTCTG
7487954 TAAGACCTCCGGACATAATTTC
1 TAAGACCTCCGGACATAATTTC
* * *
7487976 TAAGACCTTCGGACA-ATTTTG
1 TAAGACCTCCGGACATAATTTC
* * * *
7487997 TAAGACTTTCGGGC--AATTCTG
1 TAAGACCTCCGGACATAATT-TC
* *
7488018 TAAGACCTCCGGCCATGATTTC
1 TAAGACCTCCGGACATAATTTC
*
7488040 TAAGACCTCCGGGCATAA
1 TAAGACCTCCGGACATAA
7488058 ATTTGATTCG
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.05
21 29 0.44
22 31 0.47
23 3 0.05
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCGGACATAATTTC
Found at i:7488002 original size:21 final size:21
Alignment explanation
Indices: 7487925--7488025 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 21
7487915 TTATCCCAAT
* * * *
7487925 CAATTCTATAAAACTTTCGGG
1 CAATTCTGTAAGACCTTCGGA
*
7487946 CAATTCTGTAAGACCTCCGGA
1 CAATTCTGTAAGACCTTCGGA
*
7487967 CATAATT-TCTAAGACCTTCGGA
1 C--AATTCTGTAAGACCTTCGGA
* * *
7487989 CAATTTTGTAAGACTTTCGGG
1 CAATTCTGTAAGACCTTCGGA
7488010 CAATTCTGTAAGACCT
1 CAATTCTGTAAGACCT
7488026 CCGGCCATGA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
20 4 0.06
21 43 0.66
22 14 0.22
23 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (21 bp):
CAATTCTGTAAGACCTTCGGA
Found at i:7488280 original size:34 final size:34
Alignment explanation
Indices: 7488240--7488724 Score: 202
Period size: 34 Copynumber: 13.9 Consensus size: 34
7488230 ATTGTTATCT
* *
7488240 TCTGATTCGCGATTTAATCCCGATCTTTTTATTC
1 TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
* *
7488274 TCTGATTCGCGGTTCAATCTCGATCTCTTTAATT-
1 TCTGATTCGCGGTTTAATCTCGATCT-TTTTATTC
** * ** *
7488308 T-AAAATCGTAGTTTAATCTCGAT-TGTTATTGTTATC
1 TCTGATTCGCGGTTTAATCTCGATCT-TT-TT-AT-TC
* * *
7488344 TTCTGATTCACGGTTTAATCCCAATCTTTTTATTC
1 -TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
* * * * *
7488379 TCTGATTCGCAGTTCAATCCCGATCTCTTTAAT-
1 TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
** * ** * *
7488412 TCAAAATCGTAGTTTAATCTTGAT-TGTTGTTGTTATC
1 TCTGATTCGCGGTTTAATCTCGATCT-TT-TT-AT-TC
* *
7488449 TTCTGATTCGCGGTTCAATCTCGATCTTTTTATTT
1 -TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
* * * * *
7488484 TTTGATTCGTGGTTCAATCTCGATCTCTTTAAT-
1 TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
** * *
7488517 TCAAAGTCGCAGTTTAATCTCGAT-TATTATTATTATC
1 TCTGATTCGCGGTTTAATCTCGATCT-TT-TTA-T-TC
*
7488554 TTCTGATTCACGGTTTAATC-CTGATCTTTTTATTC
1 -TCTGATTCGCGGTTTAATCTC-GATCTTTTTATTC
* * *
7488589 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTC
1 TCTGATTCGCGGTTTAATCTCGATCT-TTTTATTC
*** *** * *
7488624 -AAAATT-ATAGTTTAATCTTGAT-TGTTGTTGTTATC
1 TCTGATTCGCGGTTTAATCTCGATCT-TT-TT-AT-TC
* *
7488659 TTCTGATTCGCAGTTCAATC-CTGATCTTTTTATTC
1 -TCTGATTCGCGGTTTAATCTC-GATCTTTTTATTC
**
7488694 TCTGATTCGTAGTTTAATCTCGATCTTTTTA
1 TCTGATTCGCGGTTTAATCTCGATCTTTTTA
7488725 ATTCAAAGTC
Statistics
Matches: 327, Mismatches: 90, Indels: 68
0.67 0.19 0.14
Matches are distributed among these distances:
32 8 0.02
33 64 0.20
34 139 0.43
35 25 0.08
36 6 0.02
37 14 0.04
38 67 0.20
39 4 0.01
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (34 bp):
TCTGATTCGCGGTTTAATCTCGATCTTTTTATTC
Found at i:7488351 original size:105 final size:105
Alignment explanation
Indices: 7488169--7488890 Score: 869
Period size: 105 Copynumber: 6.9 Consensus size: 105
7488159 CGGGCATAAA
* * * * * * *
7488169 TCTGATTCACGGTTCAATCCTGACCTTTTTAATTCAAAGTCACAGTTTAATCTCGATTATTATTG
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
*
7488234 TTATCTTCTGATTCGCGATTTAATCCCGATCTTTTTATTC
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
* * *
7488274 TCTGATTCGCGGTTCAATCTCGATCTCTTTAATTTAAAATCGTAGTTTAATCTCGATTGTTATTG
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* *
7488339 TTATCTTCTGATTCACGGTTTAATCCCAATCTTTTTATTC
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
* * * *
7488379 TCTGATTCGCAGTTCAATCCCGATCTCTTTAATTCAAAATCGTAGTTTAATCTTGATTGTTGTTG
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* * *
7488444 TTATCTTCTGATTCGCGGTTCAATCTCGATCTTTTTATTT
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
* * * * * *
7488484 TTTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCGCAGTTTAATCTCGATTATTATTA
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* *
7488549 TTATCTTCTGATTCACGGTTTAATCCTGATCTTTTTATTC
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
*** * *
7488589 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATTATAGTTTAATCTTGATTGTTGTTG
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* * *
7488654 TTATCTTCTGATTCGCAGTTCAATCCTGATCTTTTTATTC
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
** * * * * * *
7488694 TCTGATTCGTAGTTTAATCTCGATCTTTTTAATTCAAAGTCGCAGTTTAATCTCAATTGTTGTTG
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* ** * * * *
7488759 TTATTTTCAAAATCACCGTTTAATCCTGAT-TTTTT-TTC
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
* * * * *
7488797 TCTGATTTGCGGTTTAATCCCGATCTTTTTAATTTAAAATCGCAGTTTAATCTCAATTGTTA---
1 TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
* * * *
7488859 TTATCTTCTGACTCGTGGTCTAATCCCAATCT
66 TTATCTTCTGATTCGCGGTTTAATCCCGATCT
7488891 CTCTATTTTC
Statistics
Matches: 529, Mismatches: 87, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
100 20 0.04
101 1 0.00
103 58 0.11
104 5 0.01
105 445 0.84
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (105 bp):
TCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAATCGCAGTTTAATCTCGATTGTTATTG
TTATCTTCTGATTCGCGGTTTAATCCCGATCTTTTTATTC
Found at i:7489707 original size:15 final size:14
Alignment explanation
Indices: 7489689--7489736 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
7489679 GAAATGCAAA
7489689 AAAAAATAGAAACG
1 AAAAAATAGAAACG
* *
7489703 TAAAAAACAGATACG
1 -AAAAAATAGAAACG
*
7489718 CAAAAATAGAAAC-
1 AAAAAATAGAAACG
7489731 AAAAAA
1 AAAAAA
7489737 AGCTACAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 12 0.44
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.08
Consensus pattern (14 bp):
AAAAAATAGAAACG
Found at i:7490596 original size:3 final size:3
Alignment explanation
Indices: 7490590--7490630 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7490580 AAAAATATAT
7490590 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7490631 CTTGCCTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7490931 original size:16 final size:16
Alignment explanation
Indices: 7490858--7490929 Score: 82
Period size: 16 Copynumber: 4.8 Consensus size: 16
7490848 TTTAATTTTT
7490858 AAAAT-CCTAAAATCC
1 AAAATCCCTAAAATCC
*
7490873 -AAA-CCCCAAAAT-C
1 AAAATCCCTAAAATCC
*
7490886 AAAATCCCTTAAATCC
1 AAAATCCCTAAAATCC
7490902 AAAATCCCTAAAATCC
1 AAAATCCCTAAAATCC
*
7490918 AAAGT-CCTAAAA
1 AAAATCCCTAAAA
7490930 ATTCTAAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
13 1 0.02
14 13 0.27
15 14 0.29
16 20 0.42
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAATCCCTAAAATCC
Found at i:7492996 original size:22 final size:22
Alignment explanation
Indices: 7492970--7493013 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
7492960 TATATATTTA
*
7492970 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7492992 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
7493014 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:7494852 original size:2 final size:2
Alignment explanation
Indices: 7494845--7494872 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7494835 CATTAAGGAT
7494845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7494873 ATAGATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7496959 original size:23 final size:23
Alignment explanation
Indices: 7496924--7496978 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
7496914 AATCTTTATT
7496924 TAATTTT-ATATTTTGTA-TTTTAA
1 TAATTTTGA-ATTTTG-ACTTTTAA
* *
7496947 TCATTTTGAATTTTGACTTTTTA
1 TAATTTTGAATTTTGACTTTTAA
7496970 TAATTTTGA
1 TAATTTTGA
7496979 GTTGAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 25 0.93
24 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (23 bp):
TAATTTTGAATTTTGACTTTTAA
Found at i:7497238 original size:49 final size:49
Alignment explanation
Indices: 7497185--7497284 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
7497175 TTATAAATGC
7497185 AATTTCACTTTAGAAATACTCTTAAAATCAATTAACTAATTCAACTACA
1 AATTTCACTTTAGAAATACTCTTAAAATCAATTAACTAATTCAACTACA
* *
7497234 AATTTCACTTTAGAAATACTCTTAAAATTAATTAACTAATTCAACTGCA
1 AATTTCACTTTAGAAATACTCTTAAAATCAATTAACTAATTCAACTACA
7497283 AA
1 AA
7497285 GACAATAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (49 bp):
AATTTCACTTTAGAAATACTCTTAAAATCAATTAACTAATTCAACTACA
Found at i:7498140 original size:148 final size:146
Alignment explanation
Indices: 7497961--7498252 Score: 399
Period size: 148 Copynumber: 2.0 Consensus size: 146
7497951 CACTTACAAT
**
7497961 ATTCTTTACTCTTTACAAATAGGGAAGTTGA-TTGATATCAAAATATCAAAAAAGTTATTTTGAA
1 ATTCTTTACTCTTTACAAATAAAGAAGTTGATTTG-TATCAAAATATCAAAAAAGTTATTTTGAA
* * *
7498025 TAATGGTAATAAGAATAAAGTAATAATTAAAAATATACCATCTTTTCATTTAGTTGAAGAA-TTT
65 TAATGGTAAAAAGAATAAAGCAATAATTAAAAATATA-C-TCTTTTCATTTAGTCGAA-AATTTT
*
7498089 TTTTATGAAGAATGCGAACA
127 TTTTATAAAGAATGCGAACA
* * *
7498109 ATTCTTTACTTTTTTCAAATAAAGAAGTTGATTTGTGTCAAAATATCAAAAAAGTTATTTTGAAT
1 ATTCTTTACTCTTTACAAATAAAGAAGTTGATTTGTATCAAAATATCAAAAAAGTTATTTTGAAT
* ** * * *
7498174 GATGGTAAAAAGAATGCAGCAATGATTAAAAATATACTTTTTTTATTTAGTCGAAAATTTTTTTT
66 AATGGTAAAAAGAATAAAGCAATAATTAAAAATATACTCTTTTCATTTAGTCGAAAATTTTTTTT
7498239 ATAAAGAATGCGAA
131 ATAAAGAATGCGAA
7498253 GGTGATTATC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
145 2 0.02
146 35 0.28
147 1 0.01
148 86 0.68
149 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (146 bp):
ATTCTTTACTCTTTACAAATAAAGAAGTTGATTTGTATCAAAATATCAAAAAAGTTATTTTGAAT
AATGGTAAAAAGAATAAAGCAATAATTAAAAATATACTCTTTTCATTTAGTCGAAAATTTTTTTT
ATAAAGAATGCGAACA
Found at i:7498930 original size:22 final size:22
Alignment explanation
Indices: 7498864--7498930 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
7498854 ATATAAATAT
*
7498864 AATTAGT-ATAACTTAATAG-T
1 AATTAGTGATAACTTAATAGAA
* * * *
7498884 AATAATTGATAAC-TAAGAAATA
1 AATTAGTGATAACTTAATAGA-A
7498906 AATTAGTGATAACTTAATAGAA
1 AATTAGTGATAACTTAATAGAA
7498928 AAT
1 AAT
7498931 AAATAATAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 9 0.26
21 5 0.15
22 15 0.44
23 5 0.15
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.33
Consensus pattern (22 bp):
AATTAGTGATAACTTAATAGAA
Found at i:7498939 original size:22 final size:22
Alignment explanation
Indices: 7498914--7498963 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
7498904 TAAATTAGTG
7498914 ATAACTTAATAGAAAATAAATA
1 ATAACTTAATAGAAAATAAATA
* * * *
7498936 ATAATTTAGTAGTAAATAATTA
1 ATAACTTAATAGAAAATAAATA
7498958 ATAACT
1 ATAACT
7498964 CTTTTACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAGAAAATAAATA
Found at i:7504710 original size:22 final size:22
Alignment explanation
Indices: 7504669--7504711 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7504659 TTTTTTGTCT
*
7504669 TTAATTCTAAGAATATAAATAC
1 TTAATTCTAAGAATACAAATAC
7504691 TTAATTCT-AGAGATACAAATA
1 TTAATTCTAAGA-ATACAAATA
7504712 TAAATGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (22 bp):
TTAATTCTAAGAATACAAATAC
Found at i:7508477 original size:6 final size:6
Alignment explanation
Indices: 7508462--7508565 Score: 76
Period size: 6 Copynumber: 17.7 Consensus size: 6
7508452 TTTTTCTTCA
*
7508462 TTTTATT TTTTAT TTTTA- -TTT-T TTTTAT TTTGTAT TTTACAT TTTTA-
1 TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
* * * * *
7508509 TTTTAT TTTTAT TTTTAT TATTAT TATTGT TTTTAT ATATT-T TTTT-C
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
7508556 TTTTAT TTTT
1 TTTTAT TTTT
7508566 TTTATCTTAG
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
4 3 0.04
5 15 0.19
6 42 0.53
7 19 0.24
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:7508477 original size:22 final size:22
Alignment explanation
Indices: 7508452--7508536 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 22
7508442 CTATGTTCTT
* *
7508452 TTTTTCTTCATTTTATTTTTTA
1 TTTTTATTCATTTTATTTTGTA
**
7508474 TTTTTATTTTTTTTATTTTGTA
1 TTTTTATTCATTTTATTTTGTA
* *
7508496 TTTTACATTTTTATTTTATTTT-TA
1 TTTT---TATTCATTTTATTTTGTA
7508520 TTTTTATT-ATTATTATT
1 TTTTTATTCATT-TTATT
7508537 GTTTTTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
20 3 0.06
21 8 0.15
22 22 0.42
24 6 0.12
25 13 0.25
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTTTATTCATTTTATTTTGTA
Found at i:7508480 original size:13 final size:13
Alignment explanation
Indices: 7508462--7508566 Score: 76
Period size: 15 Copynumber: 7.8 Consensus size: 13
7508452 TTTTTCTTCA
7508462 TTTTATTTTTTAT
1 TTTTATTTTTTAT
7508475 TTTTATTTTTTTTAT
1 TTTTA--TTTTTTAT
**
7508490 TTTGTATTTTACAT
1 TTT-TATTTTTTAT
7508504 TTTTA--TTTTAT
1 TTTTATTTTTTAT
7508515 TTTTA-TTTTTAT
1 TTTTATTTTTTAT
*
7508527 TATTATTATTGTT-T
1 TTTTATT-TT-TTAT
7508541 TTATATATTTTTT-T
1 TT-T-TATTTTTTAT
7508555 CTTTTATTTTTT
1 -TTTTATTTTTT
7508567 TTATCTTAGG
Statistics
Matches: 76, Mismatches: 6, Indels: 20
0.75 0.06 0.20
Matches are distributed among these distances:
11 9 0.12
12 10 0.13
13 16 0.21
14 17 0.22
15 18 0.24
16 6 0.08
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:7508567 original size:13 final size:12
Alignment explanation
Indices: 7508462--7508568 Score: 65
Period size: 13 Copynumber: 8.1 Consensus size: 12
7508452 TTTTTCTTCA
7508462 TTTTATTTTTTAT
1 TTTTATTTTTT-T
7508475 TTTTATTTTTTT
1 TTTTATTTTTTT
7508487 TATTT-TGTATTTTACAT
1 T-TTTAT-T-TTTT---T
*
7508504 TTTTA-TTTTAT
1 TTTTATTTTTTT
7508515 TTTTATTTTTATT
1 TTTTATTTTT-TT
7508528 ATTATTATTGTTTTT
1 -TT-TTATT-TTTTT
* *
7508543 ATATATTTTTTT
1 TTTTATTTTTTT
7508555 CTTTTATTTTTTT
1 -TTTTATTTTTTT
7508568 T
1 T
7508569 ATCTTAGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
11 6 0.08
12 13 0.17
13 30 0.40
14 10 0.13
15 8 0.11
16 6 0.08
17 2 0.03
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTT
Found at i:7508698 original size:21 final size:22
Alignment explanation
Indices: 7508672--7508715 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
7508662 TGTTATTTAA
7508672 TTTTAATTTATC-TATTAATTT
1 TTTTAATTTATCTTATTAATTT
*
7508693 TTTTAATTTATCTTATTTATTT
1 TTTTAATTTATCTTATTAATTT
7508715 T
1 T
7508716 CGTTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTAATTTATCTTATTAATTT
Found at i:7509619 original size:5 final size:5
Alignment explanation
Indices: 7509571--7509675 Score: 52
Period size: 5 Copynumber: 19.6 Consensus size: 5
7509561 TTTTTAAAAA
* * * *
7509571 TTTA- TTTA- TTTAT TATTAT TATTAG ATTAT GTTTAT TTAAT TTTCT
1 TTTAT TTTAT TTTAT T-TTAT T-TTAT TTTAT -TTTAT TTTAT TTTAT
* * *
7509617 TTTCT CTTTAT TTTATT TTTATT TTTGT TTTACT TTTTT TTTAT TTTCACT
1 TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTAT TTTAT TTT-A-T
7509668 TTTAT TTT
1 TTTAT TTT
7509676 GTTATTTTCT
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
4 8 0.10
5 36 0.44
6 33 0.41
7 4 0.05
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:7509636 original size:22 final size:22
Alignment explanation
Indices: 7509602--7509675 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
7509592 TTAGATTATG
* *
7509602 TTTA-TTTAATTTTCTTTTCTC
1 TTTATTTTATTTTTATTTTCTC
*
7509623 TTTATTTTATTTTTATTTT-TGT
1 TTTATTTTATTTTTATTTTCT-C
*
7509645 TTTACTTTT-TTTTTATTTTCAC
1 TTTA-TTTTATTTTTATTTTCTC
7509667 TTTTATTTT
1 -TTTATTTT
7509676 GTTATTTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.12
22 30 0.70
23 8 0.19
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTATTTTATTTTTATTTTCTC
Found at i:7509637 original size:11 final size:10
Alignment explanation
Indices: 7509623--7509663 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
7509613 TTCTTTTCTC
7509623 TTTATTTTATT
1 TTTATTTT-TT
7509634 TTTATTTTTGT
1 TTTATTTTT-T
7509645 TTTACTTTTTT
1 TTTA-TTTTTT
7509656 TTTATTTT
1 TTTATTTT
7509664 CACTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:7509668 original size:17 final size:17
Alignment explanation
Indices: 7509610--7509675 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
7509600 TGTTTATTTA
* *
7509610 ATTTT-CTTTTCTCTTT
1 ATTTTACTTTTATTTTT
*
7509626 ATTTTATTTTTATTTTT
1 ATTTTACTTTTATTTTT
*
7509643 GTTTTACTTTT-TTTTT
1 ATTTTACTTTTATTTTT
7509659 ATTTTCACTTTTATTTT
1 ATTTT-ACTTTTATTTT
7509676 GTTATTTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.34
17 23 0.56
18 4 0.10
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (17 bp):
ATTTTACTTTTATTTTT
Found at i:7509779 original size:61 final size:60
Alignment explanation
Indices: 7509698--7509919 Score: 306
Period size: 61 Copynumber: 3.7 Consensus size: 60
7509688 AAATAAAATC
*
7509698 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
* *
7509758 AAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCGAA
1 AAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC-AA
** * *
7509820 AAAAAGAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC--
1 AAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
* * *
7509878 AAAAGAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
7509920 CTACACAAAA
Statistics
Matches: 146, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
57 2 0.01
58 36 0.25
60 7 0.05
61 92 0.63
62 7 0.05
63 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.36
Consensus pattern (60 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAA
Found at i:7517480 original size:20 final size:19
Alignment explanation
Indices: 7517457--7517501 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
7517447 TTCCTTTAGA
*
7517457 TCTTCTTCTTTTTTTCTTTT
1 TCTTCTTC-TATTTTCTTTT
7517477 TCTTCTTCTATTTTCTTTT
1 TCTTCTTCTATTTTCTTTT
*
7517496 TTTTCT
1 TCTTCT
7517502 AAAACTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTCTTCTATTTTCTTTT
Found at i:7522728 original size:31 final size:31
Alignment explanation
Indices: 7522690--7522753 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
7522680 GCCATCCAAT
7522690 AATTGATGAGAGAATCTGAATGCTGCAAATC
1 AATTGATGAGAGAATCTGAATGCTGCAAATC
*
7522721 AATTGATGAGTGAATCTGAATGCTGCAAATC
1 AATTGATGAGAGAATCTGAATGCTGCAAATC
7522752 AA
1 AA
7522754 GTACAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTGATGAGAGAATCTGAATGCTGCAAATC
Found at i:7527303 original size:9 final size:9
Alignment explanation
Indices: 7527286--7527318 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7527276 TTAAATTAAT
7527286 TTAATAAAAA
1 TTAA-AAAAA
7527296 TTAAAAAAA
1 TTAAAAAAA
7527305 TTAAAAAAA
1 TTAAAAAAA
7527314 -TAAAA
1 TTAAAA
7527319 GTGAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 14 0.61
10 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:7528718 original size:24 final size:23
Alignment explanation
Indices: 7528683--7528731 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
7528673 TCATTAATGC
7528683 AAAATTGTAAAAAGATA-ATTTAAA
1 AAAATTGTAAAAA-ATAGA-TTAAA
7528707 AAAATTAG-AAAAAATAGATTAAA
1 AAAATT-GTAAAAAATAGATTAAA
7528730 AA
1 AA
7528732 TTAAAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 10 0.43
24 12 0.52
25 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAATTGTAAAAAATAGATTAAA
Found at i:7529450 original size:33 final size:34
Alignment explanation
Indices: 7529432--7529500 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
7529422 ACTGAAATTT
7529432 TTATAAACTTTGGTTTGAAAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTTGAAAAAAATAAAATAT--AA
* *
7529468 TTATAAACTTTGGTTAG-AAAAAATAAAGTATAA
1 TTATAAACTTTGGTTTGAAAAAAATAAAATATAA
7529501 AAAAAGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 2 0.06
35 13 0.42
36 16 0.52
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (34 bp):
TTATAAACTTTGGTTTGAAAAAAATAAAATATAA
Found at i:7529489 original size:35 final size:36
Alignment explanation
Indices: 7529432--7529502 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
7529422 ACTGAAATTT
*
7529432 TTATAAACTTTGGTTTGAAAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTAGAAAAAAATAAAATATAAAA
*
7529468 TTATAAACTTTGGTTAG-AAAAAATAAAGTATAAAA
1 TTATAAACTTTGGTTAGAAAAAAATAAAATATAAAA
7529503 AAAGTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (36 bp):
TTATAAACTTTGGTTAGAAAAAAATAAAATATAAAA
Found at i:7531138 original size:353 final size:353
Alignment explanation
Indices: 7530491--7531197 Score: 1283
Period size: 353 Copynumber: 2.0 Consensus size: 353
7530481 CTGTTATGAT
*
7530491 AGGTTGACGACTCCCTTGGAGAAAATTTTTGACAGTCAGGCCAATATTGATTATATTTTACCCTA
1 AGGTTGACGACTCCCTTGGAGAAAATTTTTGACAGTCAGGCCAATATTGATTATATTTTACCATA
7530556 AATTTTGATTTAATAGTCTTAATTAATATTTAACATTGATTTCTTTAATTTTGATTTTCTTAACA
66 AATTTTGATTTAATAGTCTTAATTAATATTTAACATTGATTTCTTTAATTTTGATTTTCTTAACA
7530621 AATGTTCTACATTGTATTCGTATTTTGGTTGTGTCATTTATTTTATGCCTTTTATTATGTTTTAC
131 AATGTTCTACATTGTATTCGTATTTTGGTTGTGTCATTTATTTTATGCCTTTTATTATGTTTTAC
* *
7530686 ATGTTATCTTAATAAAATGATGGAATATGTGTAGACACCTAATTTTGTTCAGGATAATTTATTAC
196 ATGTTATCTTAATAAAATGATGGAATATGTGTAAACACCTAATTTTGTTCAAGATAATTTATTAC
* * *
7530751 TTTAACTTATACTCGATTTACAATTGAGTTTTGATCATAATATTTTGGGCCCATTACATAGTCTA
261 TTTAACTTATACTCGATTTACAATTGAATTTTGATCATAATATTTTAGGCCCATTACACAGTCTA
7530816 ATTTTAAAATACTCAATGATGAGGACCA
326 ATTTTAAAATACTCAATGATGAGGACCA
*
7530844 AGGTTGATGACTCCCTTGGAGAAAATTTTTGACAGTCAGGCCAATATTGATTATATTTTACCATA
1 AGGTTGACGACTCCCTTGGAGAAAATTTTTGACAGTCAGGCCAATATTGATTATATTTTACCATA
* *
7530909 AGTTTTGATTTAATAGTCTTAATTAATATTTAACATTGATTTCTTTAATTTTGATTTTTTTTAA-
66 AATTTTGATTTAATAGTCTTAATTAATATTTAACATTGATTTCTTTAATTTTGA-TTTTCTTAAC
7530973 AAATGTTCTACATTGTATTCGTATTTTGGTTGTGTCATTTATTTTATGCCTTTTATTATGTTTTA
130 AAATGTTCTACATTGTATTCGTATTTTGGTTGTGTCATTTATTTTATGCCTTTTATTATGTTTTA
7531038 CATGTTATCTTAATAAAATGATGGAATATGTGTAAACACCTAATTTTGTTCAAGATAATTTATTA
195 CATGTTATCTTAATAAAATGATGGAATATGTGTAAACACCTAATTTTGTTCAAGATAATTTATTA
* *
7531103 CTTTAACTTATACTCGATTTGCAATT-ACATTTTGATCATAATATTTTAGGCCCATTACACGGTC
260 CTTTAACTTATACTCGATTTACAATTGA-ATTTTGATCATAATATTTTAGGCCCATTACACAGTC
7531167 TAATTTTAAAATACTCAATGATGAGGACCA
324 TAATTTTAAAATACTCAATGATGAGGACCA
7531197 A
1 A
7531198 TGTGTGCTAC
Statistics
Matches: 341, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
352 1 0.00
353 332 0.97
354 8 0.02
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.44
Consensus pattern (353 bp):
AGGTTGACGACTCCCTTGGAGAAAATTTTTGACAGTCAGGCCAATATTGATTATATTTTACCATA
AATTTTGATTTAATAGTCTTAATTAATATTTAACATTGATTTCTTTAATTTTGATTTTCTTAACA
AATGTTCTACATTGTATTCGTATTTTGGTTGTGTCATTTATTTTATGCCTTTTATTATGTTTTAC
ATGTTATCTTAATAAAATGATGGAATATGTGTAAACACCTAATTTTGTTCAAGATAATTTATTAC
TTTAACTTATACTCGATTTACAATTGAATTTTGATCATAATATTTTAGGCCCATTACACAGTCTA
ATTTTAAAATACTCAATGATGAGGACCA
Found at i:7531381 original size:11 final size:12
Alignment explanation
Indices: 7531361--7531439 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 12
7531351 AATATCAAAT
7531361 ATAA-AAATATA
1 ATAATAAATATA
7531372 A-AATAAATATA
1 ATAATAAATATA
7531383 ATAAT-AATATA
1 ATAATAAATATA
7531394 AGTAATAAA-A-A
1 A-TAATAAATATA
7531405 ATAATAAATA-A
1 ATAATAAATATA
* *
7531416 TTAAAAAATAATAA
1 ATAATAAAT-AT-A
7531430 ATAATAAATA
1 ATAATAAATA
7531440 AATGTAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.16
11 27 0.48
12 9 0.16
13 3 0.05
14 8 0.14
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (12 bp):
ATAATAAATATA
Found at i:7531399 original size:9 final size:8
Alignment explanation
Indices: 7531358--7531440 Score: 51
Period size: 7 Copynumber: 11.2 Consensus size: 8
7531348 CCAAATATCA
*
7531358 AATATAAA
1 AATATAAT
7531366 AATATAA-
1 AATATAAT
7531373 AATA-AAT
1 AATATAAT
7531380 -ATAATAAT
1 AAT-ATAAT
7531388 AATATAAGT
1 AATATAA-T
7531397 AATA-AA-
1 AATATAAT
7531403 AA-ATAAT
1 AATATAAT
7531410 AA-ATAATT
1 AATATAA-T
*
7531418 AA-AAAAT
1 AATATAAT
7531425 AATA-AAT
1 AATATAAT
7531432 AATA-AAT
1 AATATAAT
7531439 AA
1 AA
7531441 ATGTAAAAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 19
0.76 0.01 0.22
Matches are distributed among these distances:
5 1 0.02
6 8 0.12
7 26 0.40
8 23 0.35
9 7 0.11
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (8 bp):
AATATAAT
Found at i:7531440 original size:11 final size:11
Alignment explanation
Indices: 7531361--7531442 Score: 63
Period size: 10 Copynumber: 7.8 Consensus size: 11
7531351 AATATCAAAT
7531361 ATAA-AAATATA
1 ATAATAAATA-A
7531372 A-AATAAATATA
1 ATAATAAATA-A
7531383 ATAATAATATAA
1 ATAATAA-ATAA
*
7531395 GTAATAAA-AA
1 ATAATAAATAA
7531405 ATAATAAAT-A
1 ATAATAAATAA
7531415 AT--TAAA-AA
1 ATAATAAATAA
7531423 ATAATAAAT-A
1 ATAATAAATAA
7531433 ATAAATAAAT
1 AT-AATAAAT
7531443 GTAAAAAGAG
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
8 7 0.12
10 21 0.35
11 17 0.28
12 12 0.20
13 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:7531448 original size:25 final size:25
Alignment explanation
Indices: 7531365--7531448 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
7531355 TCAAATATAA
*
7531365 AAATATAAAATAA-ATATAAT-AAT
1 AAATATAAAATAATAAATAATAAAT
*
7531388 -AATATAAGTAATAAAAAATAATAAAT
1 AAATATAA--AATAATAAATAATAAAT
* *
7531414 AATTAAAAAATAATAAATAATAAAT
1 AAATATAAAATAATAAATAATAAAT
*
7531439 AAATGTAAAA
1 AAATATAAAA
7531449 AGAGGAAGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 7 0.14
24 5 0.10
25 29 0.59
26 3 0.06
27 5 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATATAAAATAATAAATAATAAAT
Found at i:7531564 original size:20 final size:20
Alignment explanation
Indices: 7531535--7531575 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
7531525 TTTACAACAT
7531535 AAAAAAAGCCC-AAATAAAA
1 AAAAAAAGCCCAAAATAAAA
7531554 AAAATAAAGCCCAAAATAAAA
1 AAAA-AAAGCCCAAAATAAAA
7531575 A
1 A
7531576 GCAAAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.73, C:0.15, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAAAAAGCCCAAAATAAAA
Found at i:7532394 original size:29 final size:30
Alignment explanation
Indices: 7532357--7532418 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
7532347 TAGAAAAGGT
7532357 GCAGTAAAAAGA-AAGAAAGAAAGAAAGGAA
1 GCAGTAAAAAGAGAAGAAAGAAA-AAAGGAA
* *
7532387 GCAG-AAAAAGAGAAGAACGGAAAAAGGAA
1 GCAGTAAAAAGAGAAGAAAGAAAAAAGGAA
7532416 GCA
1 GCA
7532419 ACGAAGGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.02
Consensus pattern (30 bp):
GCAGTAAAAAGAGAAGAAAGAAAAAAGGAA
Found at i:7532416 original size:15 final size:17
Alignment explanation
Indices: 7532390--7532421 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7532380 AAAGGAAGCA
7532390 GAAAAAGAGAAG-AACG
1 GAAAAAGAGAAGCAACG
7532406 GAAAAAG-GAAGCAACG
1 GAAAAAGAGAAGCAACG
7532422 AAGGTAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.59, C:0.09, G:0.31, T:0.00
Consensus pattern (17 bp):
GAAAAAGAGAAGCAACG
Found at i:7537966 original size:2 final size:2
Alignment explanation
Indices: 7537953--7537984 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7537943 GTGTTACATT
*
7537953 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7537985 ATGGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7542389 original size:20 final size:20
Alignment explanation
Indices: 7542364--7542414 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
7542354 TTAATCAATT
7542364 AAATATTTCACTATATTTGA
1 AAATATTTCACTATATTTGA
*
7542384 AAATATATCACTATATTTGA
1 AAATATTTCACTATATTTGA
7542404 AAATATTTCAC
1 AAATATTTCAC
7542415 CGAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (20 bp):
AAATATTTCACTATATTTGA
Found at i:7542906 original size:3 final size:3
Alignment explanation
Indices: 7542898--7542981 Score: 95
Period size: 3 Copynumber: 29.3 Consensus size: 3
7542888 TATAGTATAG
*
7542898 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
7542944 TAG TA- TAT TA- TGT TAG TAT TAT TAT TAT TAT TCT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7542982 TTTCTTTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 7 0.10
3 64 0.90
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Done.