Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 49 of 74
Found at i:9977186 original size:12 final size:12
Alignment explanation
Indices: 9977169--9977289 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 12
9977159 AAACCAACCC
9977169 CCAAACCCTAAA
1 CCAAACCCTAAA
* *
9977181 CTAAACCATAAA
1 CCAAACCCTAAA
9977193 CCAAACCCTAAA
1 CCAAACCCTAAA
*
9977205 TCC-CA-CC-AAA
1 -CCAAACCCTAAA
* * *
9977215 CTCTAAAACTTAAC
1 C-C-AAACCCTAAA
9977229 CCAAACCCTAAA
1 CCAAACCCTAAA
**
9977241 CCAAACTATAAA
1 CCAAACCCTAAA
*
9977253 CCTAAA--TTGAAA
1 CC-AAACCCT-AAA
9977265 GCCAAACCCTAAA
1 -CCAAACCCTAAA
*
9977278 CCAAACCATAAA
1 CCAAACCCTAAA
9977290 ACCGAACCGA
Statistics
Matches: 82, Mismatches: 16, Indels: 22
0.68 0.13 0.18
Matches are distributed among these distances:
9 1 0.01
10 4 0.05
11 3 0.04
12 58 0.71
13 12 0.15
14 4 0.05
ACGTcount: A:0.50, C:0.34, G:0.02, T:0.14
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:9977193 original size:19 final size:19
Alignment explanation
Indices: 9977171--9977289 Score: 52
Period size: 19 Copynumber: 6.2 Consensus size: 19
9977161 ACCAACCCCC
9977171 AAACCCTAAACTAAACCAT
1 AAACCCTAAACTAAACCAT
*
9977190 AAA-CC-AAACCCTAAATCCCACC
1 AAACCCTAAA--CTAAA--CCA-T
* * *
9977212 AAACTCTAAAACTTAACC-C
1 AAACCCT-AAACTAAACCAT
* *
9977231 AAACCCTAAACCAAACTAT
1 AAACCCTAAACTAAACCAT
*
9977250 AAA-CCTAAATTGAAAGCC--
1 AAACCCTAAACT-AAA-CCAT
*
9977268 AAACCCTAAACCAAACCAT
1 AAACCCTAAACTAAACCAT
9977287 AAA
1 AAA
9977290 ACCGAACCGA
Statistics
Matches: 73, Mismatches: 13, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
17 5 0.07
18 21 0.29
19 30 0.41
20 1 0.01
21 5 0.07
22 3 0.04
23 5 0.07
25 3 0.04
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.14
Consensus pattern (19 bp):
AAACCCTAAACTAAACCAT
Found at i:9980607 original size:11 final size:11
Alignment explanation
Indices: 9980591--9980637 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
9980581 CGAGTCTCTA
9980591 TATATATATAT
1 TATATATATAT
9980602 TATATATATTATT
1 TATATATA-TA-T
* *
9980615 TATATAAATGT
1 TATATATATAT
9980626 TATATAT-TAT
1 TATATATATAT
9980636 TA
1 TA
9980638 ATGAATCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 4 0.13
11 15 0.50
12 3 0.10
13 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TATATATATAT
Found at i:9980607 original size:13 final size:13
Alignment explanation
Indices: 9980589--9980632 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9980579 AACGAGTCTC
9980589 TATATATATATAT
1 TATATATATATAT
9980602 TATATATAT-TAT
1 TATATATATATAT
* *
9980614 T-TATATAAATGT
1 TATATATATATAT
9980626 TATATAT
1 TATATAT
9980633 TATTAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 7 0.26
13 14 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TATATATATATAT
Found at i:9982615 original size:15 final size:16
Alignment explanation
Indices: 9982595--9982624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9982585 TGATATTTTA
9982595 TAGTAA-ATCAAGAAT
1 TAGTAATATCAAGAAT
9982610 TAGTAATATCAAGAA
1 TAGTAATATCAAGAA
9982625 CATGCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (16 bp):
TAGTAATATCAAGAAT
Found at i:9983627 original size:14 final size:15
Alignment explanation
Indices: 9983601--9983629 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9983591 TGTTTATTTA
9983601 AATTTATTTTATTAT
1 AATTTATTTTATTAT
9983616 AATTTA-TTTATTAT
1 AATTTATTTTATTAT
9983630 TCATGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTATTTTATTAT
Found at i:9983862 original size:15 final size:14
Alignment explanation
Indices: 9983835--9983867 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
9983825 ATTACAAACA
9983835 TATATTCATTCATT
1 TATATTCATTCATT
9983849 TATATTCTATTCATT
1 TATATTC-ATTCATT
9983864 TATA
1 TATA
9983868 GCTTTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTCATTCATT
Found at i:9984792 original size:4 final size:4
Alignment explanation
Indices: 9984783--9984812 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
9984773 TGTTCTAAAT
9984783 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
9984813 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:9984816 original size:3 final size:3
Alignment explanation
Indices: 9984808--9984835 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9984798 ATTTATTTAT
9984808 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9984836 GTAAAGTGTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9985559 original size:28 final size:28
Alignment explanation
Indices: 9985507--9985560 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
9985497 AATTTAATAA
* *
9985507 ATTTAGCATATTAATAATATAAAAAAGT
1 ATTTAGCATATTAAAAAAATAAAAAAGT
9985535 ATTTA-CATATTAAAAAAATACAAAAA
1 ATTTAGCATATTAAAAAAATA-AAAAA
9985561 ATTTAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (28 bp):
ATTTAGCATATTAAAAAAATAAAAAAGT
Found at i:9988933 original size:15 final size:15
Alignment explanation
Indices: 9988902--9988946 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9988892 ACAACAAAAT
*
9988902 AAAT-AAAACTCAAA
1 AAATCAAAACCCAAA
*
9988916 AAATCAAAACCCATA
1 AAATCAAAACCCAAA
9988931 AAATC--AACCCAAA
1 AAATCAAAACCCAAA
9988944 AAA
1 AAA
9988947 AAATCTTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 10 0.37
14 4 0.15
15 13 0.48
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (15 bp):
AAATCAAAACCCAAA
Found at i:9991369 original size:14 final size:14
Alignment explanation
Indices: 9991343--9991377 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9991333 TATAAACTAT
9991343 AATCAAAATAAAGA
1 AATCAAAATAAAGA
9991357 AA-CAAAGATAAAGA
1 AATCAAA-ATAAAGA
9991371 AATCAAA
1 AATCAAA
9991378 CACAAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (14 bp):
AATCAAAATAAAGA
Found at i:9993525 original size:164 final size:164
Alignment explanation
Indices: 9993346--9993676 Score: 653
Period size: 164 Copynumber: 2.0 Consensus size: 164
9993336 TTTCTCAGAG
9993346 AATAAGTAAAAAAAAATACAACTATAGACACCATATTTTTGTTTAAGGACTTAATTTTGAAGTAC
1 AATAAGTAAAAAAAAATACAACTATAGACACCATATTTTTGTTTAAGGACTTAATTTTGAAGTAC
9993411 TTTTCACTACAAAAAAAAGTTTTATTGAAAGAATTTTTTTTGTCGATAATAGCTTAAACTACATC
66 TTTTCACTACAAAAAAAAGTTTTATTGAAAGAATTTTTTTTGTCGATAATAGCTTAAACTACATC
*
9993476 AATAAATATTTTATCGATGAAAAATTTCGTTGGT
131 AATAAATATTTTATCGATGAAAAATTTCATTGGT
9993510 AATAAGTAAAAAAAAATACAACTATAGACACCATATTTTTGTTTAAGGACTTAATTTTGAAGTAC
1 AATAAGTAAAAAAAAATACAACTATAGACACCATATTTTTGTTTAAGGACTTAATTTTGAAGTAC
9993575 TTTTCACTACAAAAAAAAGTTTTATTGAAAGAATTTTTTTTGTCGATAATAGCTTAAACTACATC
66 TTTTCACTACAAAAAAAAGTTTTATTGAAAGAATTTTTTTTGTCGATAATAGCTTAAACTACATC
9993640 AATAAATATTTTATCGATGAAAAATTTCATTGGT
131 AATAAATATTTTATCGATGAAAAATTTCATTGGT
9993674 AAT
1 AAT
9993677 TACCAACGAA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 166 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (164 bp):
AATAAGTAAAAAAAAATACAACTATAGACACCATATTTTTGTTTAAGGACTTAATTTTGAAGTAC
TTTTCACTACAAAAAAAAGTTTTATTGAAAGAATTTTTTTTGTCGATAATAGCTTAAACTACATC
AATAAATATTTTATCGATGAAAAATTTCATTGGT
Found at i:10004595 original size:930 final size:925
Alignment explanation
Indices: 10002611--10005048 Score: 2954
Period size: 930 Copynumber: 2.6 Consensus size: 925
10002601 AATTGTTGAA
* *
10002611 AATAGTGACTCAAATCCCATAAGAGATTTATTTAGGATTGGTTAGATATCGCTTT-ATGGATAAA
1 AATAGTGACTCAAATCCCATAAGAGATTTATTTAGGATTGGTTAGATATTG-TTTGATGGA-CAA
* *
10002675 AAAACTTGTAAAAGAAGAATTCTAAAAG-AAAAGAGATTCTTAATAGGCAAGTTTGTGTGGTTAT
64 AAAACTTGTAAAAGAAGAATTCTAAGAGAAAAAGA-ATTCTTAATAGGCAAGTTTGTATGGTTAT
* * * * *
10002739 AAATAGGTAGAGTCTTTGCGGAGTTAGGTATGAAAAAAAATCTAAGAGAGTTTAGGGTTTTATGG
128 AAATAGGTAAAGTCTCTGAGG-GTTAGGTATGAAAAAAAATGTAAGAGAGTTTAAGGTTTTATGG
* * *
10002804 GATAGACACCTCATAAGACTACTAAAAATTTACATCTTATGGGTGTGTATGTTTATATGTTTGTG
192 GATAGACACCTCATAAGACTACTAGAGATTTACATCTTATGGGTATGTATGTTTATATGTTTGTG
* * * * *
10002869 AGTGAACTAGAAA-AGACTAAAAGGGTCCACATAATTATGGTGCAAGTGAGTGGATTAG-AGAAG
257 AGTGGACTA-AAAGAGACTGAGAGGGTCCACATAAGTATGGTGCATGTGAGTGGATTAGAAG-AG
* * * *
10002932 ATTGAAATAATCCACACAGGCATAATGTATAGGTGTATATGGGTATGTGTTTGTTTGTATTAAAA
320 ATTGAAATGATCCACATAGGTATAATGTAT-GGTGTATATGGGTATGTGTTTGTTTGTGTTAAAA
* * * *
10002997 TGGTACACA-AGGGTATGTGTTTTTTTGGGTTGAGAATACTCCATAGGATTAGAGGAGATTGAGA
384 TGGTGCACATA-GGTATGTGTTTGTTTGGGTTGAGAATACTCCATAGGACTAGAGAAGATTGAGA
* * *
10003061 GGGTCTATGGGTATTAGTTATGAATGTTTGATTTGATTTGTATGTTTATAATTCTCTAAAACTAG
448 GGGTCTATGGGTATTAGTTATGAGTGTTTGATTTGATTTGTATGTTTGTAATTCTCTACAACTAG
* * * * * *
10003126 TGGATCTTTTTTCTCATCAATGAATATAGGTCAGTTGGA-TCGAATCATATTAAATTATTATCTC
513 TGGATTTTTTTTCTCATTAGTGAATGTAGGTCAGTTAGACT-GAACCATATTAAATTATTATCTC
* * * * * *
10003190 TCGTGTGATTATTTAATTATTTAATTTTACTTCTGCTGGTGTGATTAAATTGGAGGCTTTTTTCC
577 TTGTATGATTATTTAATTATTTAATTTCACTTCTGCTAGTGTCATTAAATTGGAGGCTTTTTGCC
* * * * * * * *
10003255 TTACAAGTATTTCAGAGATGTGGTGATCCCCAACAAGTGATATCAAAGTTGAAGGTTCAAGATGT
642 TAACAAATATATCAAAGATATGGTAATCCCCAACAAGTGATATCAAAGTTAAAGGTTCAAAATGT
* * * * * * * * * *
10003320 GGGAAGAGTTGAAGGTTCGAGCCATGAGAAAAGGCAAGTCCAGAGGAGCTCGACTTAAAGAAGAA
707 GGAAAAAGTTGAAGGTTCAAGCCATAAGAAAAGACAAATCCAAAGGAGCTCAACTCAAAGAAAAA
* * * *
10003385 GTTCGAGTTCATGTTTTAAAGATCGATTTGCATGAAGCGTGAAGGCACACAAGAGAAGATGATTG
772 GTTCGAGTTCATATTTTAAAGATCGATTTGCATGAAGCATGAAGACACACAAGAGAAAATGATTG
* * ** * * *
10003450 TGAGACTTTCATTGTAGGTGGAGCAAAGCATGTCTAGTATGAAGATAGATGATTTGATAAAATTT
837 TGAGACTTTCACTATAGGTAAAGCAAAGCATGTCTAGCATGAAAACAGATGATTTGATAAAATTT
*
10003515 GAGTCAAAATGGAGATTATTAGGG
902 GAGTCAAAATAGAGATTATTAGGG
* * * * *
10003539 -ATAGTGACTCAAATCCCATAAAAGATTTATTTGGGATCGGTTAGATATTGCTTGATGGTCAAAA
1 AATAGTGACTCAAATCCCATAAGAGATTTATTTAGGATTGGTTAGATATTGTTTGATGGACAAAA
*
10003603 ATACTTGCAAAAGAAGAATTCTAAGAGAAAATAG-ATTCTTAAT-GGCAAGTTTGTATGGTTATA
66 A-ACTTGTAAAAGAAGAATTCTAAGAGAAAA-AGAATTCTTAATAGGCAAGTTTGTATGGTTATA
* *
10003666 AATAGGTAAAGTCTCTGTAGGGTTAGGTATGAGAAAAATATGTAAAAGAGTTGTAAGGTTTTATG
129 AATAGGTAAAGTCTCTG-AGGGTTAGGTATGA-AAAAAAATGTAAGAGAGTT-TAAGGTTTTATG
* ** *
10003731 GGATAGACACCTCATAAGACTACTAGAGATTTACTTCTTATGGGTATGTAAATTTATATGTTTAT
191 GGATAGACACCTCATAAGACTACTAGAGATTTACATCTTATGGGTATGTATGTTTATATGTTTGT
* ** *
10003796 GAGTGGACTAAAAGAGAGTGAGAGGGTCCACATAAGTATGGTGCATGTGAGTAAACTAGAAGAGA
256 GAGTGGACTAAAAGAGACTGAGAGGGTCCACATAAGTATGGTGCATGTGAGTGGATTAGAAGAGA
* * * * * * *
10003861 TTGAGATGGTCCACATTGGTATGATGTATGGATATATATGGGTATATGTTTGTTTGTGTTAAAAG
321 TTGAAATGATCCACATAGGTATAATGTATGG-TGTATATGGGTATGTGTTTGTTTGTGTTAAAAT
* * * * * *
10003926 GGTGTACATAGGTATGTGTTTGTTTGGATTGAGAATATTTCATAGGACTACAGAAGATTGAGAGA
385 GGTGCACATAGGTATGTGTTTGTTTGGGTTGAGAATACTCCATAGGACTAGAGAAGATTGAGAGG
*
10003991 GTCTATGGGTATTAGTTATGAGTGTTTTGATTTGATTTGTATGTTTGTAATTCTCTACATCTAGT
450 GTCTATGGGTATTAGTTATGAGTG-TTTGATTTGATTTGTATGTTTGTAATTCTCTACAACTAGT
* * * *
10004056 GGATTTTTTTTCTCATTTGTGGATGTAGGTCAATTAGACTGAAGCATATTAAATTATTATCTCTT
514 GGATTTTTTTTCTCATTAGTGAATGTAGGTCAGTTAGACTGAACCATATTAAATTATTATCTCTT
* * * ***
10004121 GTATGATTATTTAATTGTTTGATTTCA-TTTTCGCTAGTGTCATTGGTTTGGAGGCTTTTTGCCT
579 GTATGATTATTTAATTATTTAATTTCACTTCT-GCTAGTGTCATTAAATTGGAGGCTTTTTGCCT
* * * * * *
10004185 AACAAATGGTATCAAAGCTATGGTAATCCTCAACAAGTGGTTTCAGAGTTAAAGGTTCAAAATGT
643 AACAAAT-ATATCAAAGATATGGTAATCCCCAACAAGTGATATCAAAGTTAAAGGTTCAAAATGT
* * * *
10004250 GGAAAAAGCTT-AAGGTTTAAGCCATAAGAAGAGATAAATCCAAAGGAGCTTAACTC-AAGAAAA
707 GGAAAAAG-TTGAAGGTTCAAGCCATAAGAAAAGACAAATCCAAAGGAGCTCAACTCAAAG-AAA
* * * * *
10004313 AAGTTCGGGTTCATATTTTGAAGATCGATTTGCATTAAGCATGCAGACACATAAGAGAAAATGAT
770 AAGTTCGAGTTCATATTTTAAAGATCGATTTGCATGAAGCATGAAGACACACAAGAGAAAATGAT
*
10004378 TGTGAGACTTTCACTATAGGTAAAGCAAAGCATGTCTAGCATGAAAACAGATGATTTGATGAAAT
835 TGTGAGACTTTCACTATAGGTAAAGCAAAGCATGTCTAGCATGAAAACAGATGATTTGATAAAAT
10004443 TTGAGT-AAAGATAGAGATTATT-GGG
900 TTGAGTCAAA-ATAGAGATTATTAGGG
* *
10004468 AATAGTGACTTAAATCCCATAAGAGATTTTTTTAGGATTGGTTAGATATTGTTTGATGGACAAAA
1 AATAGTGACTCAAATCCCATAAGAGATTTATTTAGGATTGGTTAGATATTGTTTGATGGACAAAA
* * *
10004533 AACTTGTAGAAA-AAGAATTTTAAGAGAAAAAGAATTCTTAGTAGGCAAGTTTGTAAGGTTATAA
66 AACTTGTA-AAAGAAGAATTCTAAGAGAAAAAGAATTCTTAATAGGCAAGTTTGTATGGTTATAA
** * * * ** *
10004597 ATAAATGAAGTCTCTACAGGATTAAATATGAAAAAAAGATGTTAGAGAG-TTATAGAGTTTTATG
130 ATAGGTAAAGTCTCT-GAGGGTTAGGTATGAAAAAAA-ATGTAAGAGAGTTTA-AG-GTTTTATG
* * * * *
10004661 GGATAGATA-TTCTATAAGATTACTGGAGATTTACATCTTATGGGTATGTATGTTTGTATGTTTG
191 GGATAGACACCTC-ATAAGACTACTAGAGATTTACATCTTATGGGTATGTATGTTTATATGTTTG
* * * * *
10004725 TGAGTGGACT-AGAGAAGACTGAGAGGGACCACGTATGTATGGTGCATCTGAGTGGATTAGAAGA
255 TGAGTGGACTAAAAG-AGACTGAGAGGGTCCACATAAGTATGGTGCATGTGAGTGGATTAGAAGA
* * * * * * * *
10004789 GACTAAAATGATCCACATAAGTATAATGCATGGGTGCACAT-GGTATGTGTTTGTTTGAGTTGAA
319 GATTGAAATGATCCACATAGGTATAATGTAT-GGTGTATATGGGTATGTGTTTGTTTGTGTTAAA
*
10004853 ATGGTGCACATAGGTATATGTTTGTTTGGGTTGAGAATACTCCATAGGACTAGAGAAGATTGAGA
383 ATGGTGCACATAGGTATGTGTTTGTTTGGGTTGAGAATACTCCATAGGACTAGAGAAGATTGAGA
* *
10004918 GGGTCTATGGGTATTAGTTATGAGTGTTTGATTTTATTTGTATATTTGTAATTCTCTACAACTAG
448 GGGTCTATGGGTATTAGTTATGAGTGTTTGATTTGATTTGTATGTTTGTAATTCTCTACAACTAG
** * * * ** *
10004983 TATATCTTTTTTT-TCATTAGTAAATGTAAGTCGGTTAGACTGAACCACGTTAAATTATTATATC
513 TGGAT-TTTTTTTCTCATTAGTGAATGTAGGTCAGTTAGACTGAACCATATTAAATTATTATCTC
10005047 TT
577 TT
10005049 ATGCATTTGA
Statistics
Matches: 1279, Mismatches: 201, Indels: 60
0.83 0.13 0.04
Matches are distributed among these distances:
926 52 0.04
927 105 0.08
928 337 0.26
929 312 0.24
930 469 0.37
931 4 0.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.34
Consensus pattern (925 bp):
AATAGTGACTCAAATCCCATAAGAGATTTATTTAGGATTGGTTAGATATTGTTTGATGGACAAAA
AACTTGTAAAAGAAGAATTCTAAGAGAAAAAGAATTCTTAATAGGCAAGTTTGTATGGTTATAAA
TAGGTAAAGTCTCTGAGGGTTAGGTATGAAAAAAAATGTAAGAGAGTTTAAGGTTTTATGGGATA
GACACCTCATAAGACTACTAGAGATTTACATCTTATGGGTATGTATGTTTATATGTTTGTGAGTG
GACTAAAAGAGACTGAGAGGGTCCACATAAGTATGGTGCATGTGAGTGGATTAGAAGAGATTGAA
ATGATCCACATAGGTATAATGTATGGTGTATATGGGTATGTGTTTGTTTGTGTTAAAATGGTGCA
CATAGGTATGTGTTTGTTTGGGTTGAGAATACTCCATAGGACTAGAGAAGATTGAGAGGGTCTAT
GGGTATTAGTTATGAGTGTTTGATTTGATTTGTATGTTTGTAATTCTCTACAACTAGTGGATTTT
TTTTCTCATTAGTGAATGTAGGTCAGTTAGACTGAACCATATTAAATTATTATCTCTTGTATGAT
TATTTAATTATTTAATTTCACTTCTGCTAGTGTCATTAAATTGGAGGCTTTTTGCCTAACAAATA
TATCAAAGATATGGTAATCCCCAACAAGTGATATCAAAGTTAAAGGTTCAAAATGTGGAAAAAGT
TGAAGGTTCAAGCCATAAGAAAAGACAAATCCAAAGGAGCTCAACTCAAAGAAAAAGTTCGAGTT
CATATTTTAAAGATCGATTTGCATGAAGCATGAAGACACACAAGAGAAAATGATTGTGAGACTTT
CACTATAGGTAAAGCAAAGCATGTCTAGCATGAAAACAGATGATTTGATAAAATTTGAGTCAAAA
TAGAGATTATTAGGG
Found at i:10004875 original size:35 final size:34
Alignment explanation
Indices: 10004821--10004886 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
10004811 ATAATGCATG
*
10004821 GGTGCACATGGTATGTGTTTGTTTGAGTTGAAAT
1 GGTGCACATGGTATATGTTTGTTTGAGTTGAAAT
*
10004855 GGTGCACATAGGTATATGTTTGTTTGGGTTGA
1 GGTGCACAT-GGTATATGTTTGTTTGAGTTGA
10004887 GAATACTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.20, C:0.06, G:0.33, T:0.41
Consensus pattern (34 bp):
GGTGCACATGGTATATGTTTGTTTGAGTTGAAAT
Found at i:10007102 original size:4 final size:4
Alignment explanation
Indices: 10007093--10007120 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10007083 AATCTTTTAA
10007093 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
10007121 CAGAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:10010953 original size:22 final size:23
Alignment explanation
Indices: 10010910--10010953 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10010900 TTTTTGTTAT
* *
10010910 TTTATATTTATGTATGATAAATG
1 TTTAAATTTATGTAGGATAAATG
10010933 TTTAAATTTAT-TAGGATAAAT
1 TTTAAATTTATGTAGGATAAAT
10010954 ATCTAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTAAATTTATGTAGGATAAATG
Found at i:10020537 original size:27 final size:28
Alignment explanation
Indices: 10020503--10020560 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
10020493 TGCATCAGTT
*
10020503 ATGCCAGAAAATGTCATAAATGCCA-AA
1 ATGCCAGAAAATGCCATAAATGCCATAA
10020530 ATGCCAGAAAATGCCATAAATGCCATAA
1 ATGCCAGAAAATGCCATAAATGCCATAA
10020558 ATG
1 ATG
10020561 TAAACAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (28 bp):
ATGCCAGAAAATGCCATAAATGCCATAA
Found at i:10020542 original size:10 final size:9
Alignment explanation
Indices: 10020503--10020560 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
10020493 TGCATCAGTT
10020503 ATGCCAGAAA
1 ATGCCA-AAA
* *
10020513 ATGTCATAA
1 ATGCCAAAA
10020522 ATGCC-AAA
1 ATGCCAAAA
10020530 ATGCCAGAAA
1 ATGCCA-AAA
*
10020540 ATGCCATAA
1 ATGCCAAAA
*
10020549 ATGCCATAA
1 ATGCCAAAA
10020558 ATG
1 ATG
10020561 TAAACAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 7 0.17
9 20 0.49
10 14 0.34
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (9 bp):
ATGCCAAAA
Found at i:10020552 original size:9 final size:9
Alignment explanation
Indices: 10020511--10020560 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
10020501 TTATGCCAGA
*
10020511 AAATGTCAT
1 AAATGCCAT
10020520 AAATGCCA-
1 AAATGCCAT
*
10020528 AAATGCCAGA
1 AAATGCCA-T
10020538 AAATGCCAT
1 AAATGCCAT
10020547 AAATGCCAT
1 AAATGCCAT
10020556 AAATG
1 AAATG
10020561 TAAACAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 8 0.22
9 21 0.57
10 8 0.22
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (9 bp):
AAATGCCAT
Found at i:10021491 original size:9 final size:9
Alignment explanation
Indices: 10021487--10021539 Score: 81
Period size: 9 Copynumber: 5.9 Consensus size: 9
10021477 AAAAAAAAGA
10021487 AAAAAT-AT
1 AAAAATAAT
*
10021495 AAAAAAAATT
1 AAAAATAA-T
10021505 AAAAATAAT
1 AAAAATAAT
10021514 AAAAATAAT
1 AAAAATAAT
10021523 AAAAATAAT
1 AAAAATAAT
10021532 AAAAATAA
1 AAAAATAA
10021540 GAAAGAAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
8 5 0.12
9 28 0.68
10 8 0.20
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:10021497 original size:18 final size:19
Alignment explanation
Indices: 10021476--10021543 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 19
10021466 TATTTTGCTT
10021476 TAAAAAAAAGAAAAAAT-A
1 TAAAAAAAAGAAAAAATAA
**
10021494 TAAAAAAAATTAAAAATAA
1 TAAAAAAAAGAAAAAATAA
* *
10021513 TAAAAATAA-TAAAAATAA
1 TAAAAAAAAGAAAAAATAA
*
10021531 TAAAAATAAGAAA
1 TAAAAAAAAGAAA
10021544 GAAAGTGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
18 33 0.75
19 11 0.25
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
TAAAAAAAAGAAAAAATAA
Found at i:10021517 original size:28 final size:28
Alignment explanation
Indices: 10021475--10021543 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
10021465 ATATTTTGCT
*
10021475 TTAAAAAAAAGAAAAA-ATATAAAAAAAA
1 TTAAAAATAAGAAAAATA-ATAAAAAAAA
* *
10021503 TTAAAAATAATAAAAATAATAAAAATAA
1 TTAAAAATAAGAAAAATAATAAAAAAAA
10021531 -TAAAAATAAGAAA
1 TTAAAAATAAGAAA
10021544 GAAAGTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 12 0.33
28 23 0.64
29 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (28 bp):
TTAAAAATAAGAAAAATAATAAAAAAAA
Found at i:10022805 original size:73 final size:73
Alignment explanation
Indices: 10022578--10023923 Score: 1352
Period size: 73 Copynumber: 18.6 Consensus size: 73
10022568 CTTGTATAAT
* * * * * * * *
10022578 TTCTC-GACTTACAGTTCAGTCCCAATCATCTTTAACCTTCGACTCGCGGTTTAATCCTGGTCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10022642 TTCATTAA
66 TTCATTAA
* * * * * * ** *
10022650 TTAC-CCGACTTACAGTTCAGTCTCAATCATCTTTAAT-TTTAACTCACGGTTTAATCTCGATCA
1 TT-CTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
*
10022713 TTGCATTAA
65 TTTCATTAA
** * * * * ** *
10022722 TTCT-TCGACTTGTAGTTCAGTCCTAGTCATCTTTAATATTTGGCTTGCAGTTTAATCCCGGTCA
1 TTCTCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
10022786 TTTCATTAA
65 TTTCATTAA
* * * * * *
10022795 TTCTCTGACTTGTGATTCAATCCCAGTCGTCTTTAATCTTTGACTTGTGATTTAATCCCGATCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10022860 TTCA-T--
66 TTCATTAA
* * * * * * * *
10022865 TT-TCTGGCTTGCGATTCAATCCCAATCATCTTTAATCTTTAACACGTGGTTTAATCCTGGTCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10022929 TTCATTAA
66 TTCATTAA
* * * * * * * * *
10022937 TTCTCTTACTTACTGTTCAATCTCAGTCATCTTTAATCTCTGACTCGCGGTTTAATCCTGGTCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10023002 TTCATTAA
66 TTCATTAA
* * * *
10023010 TTCTCTGACTTACGGTTCAATCCTAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10023075 TTC----A
66 TTCATTAA
* * * * *
10023079 TTCTCTGGCTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10023144 TTCATTAA
66 TTCATTAA
* * * * * * *
10023152 TTCT-TCAACTTACGGTTTAGTCTCAGTCATCTTTAATCTCTGACTCATGGTTTAATCCTGATCA
1 TTCTCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
10023216 TTTCATT--
65 TTTCATTAA
* * * *
10023223 TT-T-TGACTTGCGGTTCAGTTCCAATCATCTTT-ATCCTTTAACTCGTGGTTTAATCTC-AGTC
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGA-TC
10023284 ATTTCATTAA
64 ATTTCATTAA
* * * * *
10023294 TTCT-TCGACTTACGATTCAGTCCCAATCATCTTTAATCTCTGACTCGTGGTTTAATCCCGGTCA
1 TTCTCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
10023358 TTTC----A
65 TTTCATTAA
*
10023363 TTCTCTGACTTACGGTTCAGTCCCAGTCATCTTT-ATCCTTTGACTCGTGGTTTAATCCCGATCA
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGATCA
10023427 TTTCATTAA
65 TTTCATTAA
* * * *
10023436 TTGC-CCGACTTGCGGTTCAGTCCCAGTCGTCTTTAATCTTTGACTCGTTGTTTAATCCTGATCA
1 TT-CTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
10023500 TTTCATTAA
65 TTTCATTAA
* * *
10023509 TTCTCTAACTTGTGGTTCAGTCCCAGTCATCTTT-ATCTTTTGGCTCGTGGTTTAATCCC-AGTC
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGA-TC
10023572 ATTTCATTAA
64 ATTTCATTAA
* * * * * *
10023582 TTCCCTGACTTACGATTTAGTTCCAGTCATCTTT-ATCCTTTGGCTCGTGGTTTAATCCC-AGTC
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGA-TC
10023645 ATTTCATTAA
64 ATTTCATTAA
* * ** * *
10023655 TTCTCTGACTTGCAGTTTAGTCCTGGTCATTTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
1 TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
10023720 TTCATTAA
66 TTCATTAA
* ** *
10023728 TT-TCGTCGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGGTC
1 TTCTC-T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
10023792 ATTTCATTAA
64 ATTTCATTAA
* * * * *
10023802 TTCCCTTGACTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCA
1 TTCTC-TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCA
10023867 TTTCATTAA
65 TTTCATTAA
* * *
10023876 -TCTTCTCGACTTGCGATTCAGTCCCAATCATCTTTAATCCTTGACTCG
1 TTC-TCT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG
10023924 CGGTATCGTC
Statistics
Matches: 1082, Mismatches: 150, Indels: 82
0.82 0.11 0.06
Matches are distributed among these distances:
68 5 0.00
69 229 0.21
70 6 0.01
71 5 0.00
72 72 0.07
73 596 0.55
74 167 0.15
75 2 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (73 bp):
TTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
TTCATTAA
Found at i:10022840 original size:35 final size:34
Alignment explanation
Indices: 10022791--10022904 Score: 97
Period size: 35 Copynumber: 3.3 Consensus size: 34
10022781 GGTCATTTCA
*
10022791 TTAATTCTCTGACTTGTGATTCAATCCCAGTCGTCT
1 TTAA-TCTTTGACTTGTGATTCAATCCCAGTC-TCT
* *
10022827 TTAATCTTTGACTTGTGATTTAATCCC-GATC-AT
1 TTAATCTTTGACTTGTGATTCAATCCCAG-TCTCT
* * * * *
10022860 TTCATTTTCTGGCTTGCGATTCAATCCCAATCATCT
1 TTAATCTT-TGACTTGTGATTCAATCCCAGTC-TCT
10022896 TTAATCTTT
1 TTAATCTTT
10022905 AACACGTGGT
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
33 7 0.11
34 19 0.31
35 24 0.39
36 11 0.18
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (34 bp):
TTAATCTTTGACTTGTGATTCAATCCCAGTCTCT
Found at i:10022931 original size:142 final size:144
Alignment explanation
Indices: 10022578--10023923 Score: 1329
Period size: 142 Copynumber: 9.3 Consensus size: 144
10022568 CTTGTATAAT
* * * * *
10022578 TTCTCGACTTAC-AGTTCAGTCCCAATCATCTTTAACCTTCGACTCGCGGTTTAATCCTGGTCAT
1 TTCTCGACTTACGA-TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCAT
* * * * * * * **
10022642 TTCATTAATTAC-CCGACTTACAGTTCAGTCTCAATCATCTTTAAT-TTTAACTCACGGTTTAAT
65 TTCATTAATT-CTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
* *
10022705 CTCGATCATTGCATTAA
129 CCCGATCATTTCATT-A
* * * * **
10022722 TTCTTCGACTT--GTAGTTCAGTCCTAGTCATCTTTAATATTTGGCTTGCAGTTTAATCCCGGTC
1 TTC-TCGACTTACG-A-TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTC
* * * * *
10022785 ATTTCATTAATTCTCTGACTTGTGATTCAATCCCAGTCGTCTTTAATCTTTGACTTGTGATTTAA
63 ATTTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
10022850 TCCCGATCATTTCATT-
128 TCCCGATCATTTCATTA
* * * * * * *
10022866 TTCT-GGCTTGCGATTCAATCCCAATCATCTTTAATCTTTAACACGTGGTTTAATCCTGGTCATT
1 TTCTCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATT
* * * * * *
10022930 TCATTAATTCTCTTACTTACTGTTCAATCTCAGTCATCTTTAATCTCTGACTCGCGGTTTAATCC
66 TCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCC
* *
10022995 TGGTCATTTCATTAA
131 CGATCATTTCATT-A
* * * * *
10023010 TTCTCTGACTTACGGTTCAATCCTAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGATCAT
1 TTCTC-GACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCAT
* * * *
10023075 TTC----ATTCTCTGGCTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGATTTAATC
65 TTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATC
10023136 CCGATCATTTCATTAA
130 CCGATCATTTCATT-A
* * * * * * * *
10023152 TTCTTCAACTTACGGTTTAGTCTCAGTCATCTTTAATCTCTGACTCATGGTTTAATCCTGATCAT
1 TTC-TCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCAT
* * * *
10023217 TTCATT--TT-T-TGACTTGCGGTTCAGTTCCAATCATCTTT-ATCCTTTAACTCGTGGTTTAAT
65 TTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAAT
*
10023277 CTC-AGTCATTTCATTAA
129 CCCGA-TCATTTCATT-A
* *
10023294 TTCTTCGACTTACGATTCAGTCCCAATCATCTTTAATCTCTGACTCGTGGTTTAATCCCGGTCAT
1 TTC-TCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCAT
* *
10023359 TTC----ATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTT-ATCCTTTGACTCGTGGTTTAAT
65 TTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAAT
10023419 CCCGATCATTTCATTAA
129 CCCGATCATTTCATT-A
* * * * * * *
10023436 TTGCCCGACTTGCGGTTCAGTCCCAGTCGTCTTTAATCTTTGACTCGTTGTTTAATCCTGATCAT
1 TT-CTCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCAT
* * * *
10023501 TTCATTAATTCTCTAACTTGTGGTTCAGTCCCAGTCATCTTT-ATCTTTTGGCTCGTGGTTTAAT
65 TTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAAT
10023565 CCC-AGTCATTTCATTAA
129 CCCGA-TCATTTCATT-A
* * * * *
10023582 TTCCCTGACTTACGATTTAGTTCCAGTCATCTTT-ATCCTTTGGCTCGTGGTTTAATCCCAGTCA
1 TTCTC-GACTTACGATTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGGTCA
* * * ** * *
10023646 TTTCATTAATTCTCTGACTTGCAGTTTAGTCCTGGTCATTTTTAATCTTTGGCTCGTGGTTTAAT
64 TTTCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT
10023711 CCCGATCATTTCATTAA
129 CCCGATCATTTCATT-A
* * * **
10023728 TTTCGTCGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGGTCA
1 -TTC-TCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCA
* * * *
10023793 TTTCATTAATTCCCTTGACTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCATGGTTTAA
64 TTTCATTAATTCTC-TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA
10023858 TCCCGATCATTTCATTAA
128 TCCCGATCATTTCATT-A
* * *
10023876 TCTTCTCGACTTGCGATTCAGTCCCAATCATCTTTAATCCTTGACTCG
1 --TTCTCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCG
10023924 CGGTATCGTC
Statistics
Matches: 1009, Mismatches: 156, Indels: 70
0.82 0.13 0.06
Matches are distributed among these distances:
140 2 0.00
141 4 0.00
142 463 0.46
143 7 0.01
144 14 0.01
145 91 0.09
146 260 0.26
147 66 0.07
148 99 0.10
149 3 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (144 bp):
TTCTCGACTTACGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATT
TCATTAATTCTCTGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCC
CGATCATTTCATTA
Found at i:10022992 original size:215 final size:215
Alignment explanation
Indices: 10022592--10023923 Score: 1340
Period size: 215 Copynumber: 6.1 Consensus size: 215
10022582 CGACTTACAG
* * * * * * *
10022592 TTCAGTCCCAATCATCTTTAACCTTCGACTCGCGGTTTAATCCTGGTCATTTCATTAATTACCCG
1 TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT--TT--CTG
* * * * * ** * * *
10022657 ACTTACAGTTCAGTCTCAATCATCTTTAAT-TTTAACTCACGGTTTAATCTCGATCATTGCATTA
62 ACTTGCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTA
*** * * * ** *
10022721 ATTCT-TCGACTTGTAGTTCAGTC-CTAGTCATCTTTAATATTTGGCTTGCAGTTTAATCCCGGT
127 ATTCTCT-GACTTACGGTTCAGTCTC-AGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
*
10022784 CATTTCATTAATTCTCTGACTTGTGA
190 CATTTCATTAATTCTCTGACTTGCGA
* * * * *
10022810 TTCAATCCCAGTCGTCTTTAATCTTTGACTTGTGATTTAATCCCGATCATTTCATTTTCTGGCTT
1 TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTTTCTGACTT
* * * *
10022875 GCGATTCAATCCCAATCATCTTTAATCTTTAACACGTGGTTTAATCCTGGTCATTTCATTAATTC
66 GCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTC
* * * * * * *
10022940 TCTTACTTACTGTTCAATCTCAGTCATCTTTAATCTCTGACTCGCGGTTTAATCCTGGTCATTTC
131 TCTGACTTACGGTTCAGTCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
* *
10023005 ATTAATTCTCTGACTTACGG
196 ATTAATTCTCTGACTTGCGA
* * * * *
10023025 TTCAATCCTAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTCTCTGGCTT
1 TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTTTCTGACTT
* * * * *
10023090 ACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCATTAATTC
66 GCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTC
* * * * *
10023155 T-TCAACTTACGGTTTAGTCTCAGTCATCTTTAATCTCTGACTCATGGTTTAATCCTGATCATTT
131 TCT-GACTTACGGTTCAGTCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTT
*
10023219 CATT--TT-T-TGACTTGCGG
195 CATTAATTCTCTGACTTGCGA
* * * *
10023236 TTCAGTTCCAATCATCTTT-ATCCTTTAACTCGTGGTTTAATCTC-AGTCATTTCATTAATTCTT
1 TTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGA-TCATTTCATT--TTC-T
* * * *
10023299 CGACTTACGATTCAGTCCCAATCATCTTTAATCTCTGACTCGTGGTTTAATCCCGGTCATTTC--
61 -GACTTGCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCAT
*
10023362 --ATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTT-ATCCTTTGACTCGTGGTTTAATCCCGA
125 TAATTCTCTGACTTACGGTTCAGTCTCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGA
* *
10023424 TCATTTCATTAATTGC-CCGACTTGCGG
189 TCATTTCATTAATT-CTCTGACTTGCGA
* * * *
10023451 TTCAGTCCCAGTCGTCTTTAATCTTTGACTCGTTGTTTAATCCTGATCATTTCATTAATTCTCTA
1 TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA-T--TT-TCTG
* * * * *
10023516 ACTTGTGGTTCAGTCCCAGTCATCTTT-ATCTTTTGGCTCGTGGTTTAATCCCAGTCATTTCATT
62 ACTTGCGGTTCAATCCCAATCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGGTCATTTCATT
* * * *
10023580 AATTCCCTGACTTACGATTTAGT-TCCAGTCATCTTT-ATCCTTTGGCTCGTGGTTTAATCCC-A
126 AATTCTCTGACTTACGGTTCAGTCT-CAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGA
10023642 GTCATTTCATTAATTCTCTGACTTGC-A
189 -TCATTTCATTAATTCTCTGACTTGCGA
* ** * *
10023669 GTTTAGTCCTGGTCATTTTTAATCTTTGGCTCGTGGTTTAATCCCGATCATTTCATTAATTTCGT
1 -TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA-T--TTTC-T
* **
10023734 CGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGGTCATTTCAT
61 -GACTTGCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCAT
* * *
10023799 TAATTCCCTTGACTTACGGTTCAATCTCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGA
125 TAATTCTC-TGACTTACGGTTCAGTCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
10023864 TCATTTCATTAA-TCTTCTCGACTTGCGA
189 TCATTTCATTAATTC-TCT-GACTTGCGA
* *
10023892 TTCAGTCCCAATCATCTTTAATCCTTGACTCG
1 TTCAGTCCCAGTCATCTTTAATCTTTGACTCG
10023924 CGGTATCGTC
Statistics
Matches: 941, Mismatches: 131, Indels: 80
0.82 0.11 0.07
Matches are distributed among these distances:
210 5 0.01
211 114 0.12
212 2 0.00
213 6 0.01
214 31 0.03
215 429 0.46
216 10 0.01
217 2 0.00
218 51 0.05
219 129 0.14
220 63 0.07
221 62 0.07
222 36 0.04
223 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (215 bp):
TTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTTTCTGACTT
GCGGTTCAATCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTCATTAATTC
TCTGACTTACGGTTCAGTCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
ATTAATTCTCTGACTTGCGA
Found at i:10023392 original size:34 final size:35
Alignment explanation
Indices: 10023300--10023395 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 35
10023290 TTAATTCTTC
* * *
10023300 GACTTACGATTCAGTCCCAATCATCTTTAATCTCT
1 GACTTACGGTTCAGTCCCAGTCATCTTCAATCTCT
*** * * * *
10023335 GACTCGTGGTTTAATCCCGGTCAT-TTCATTCTCT
1 GACTTACGGTTCAGTCCCAGTCATCTTCAATCTCT
10023369 GACTTACGGTTCAGTCCCAGTCATCTT
1 GACTTACGGTTCAGTCCCAGTCATCTT
10023396 TATCCTTTGA
Statistics
Matches: 44, Mismatches: 16, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
34 26 0.59
35 18 0.41
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (35 bp):
GACTTACGGTTCAGTCCCAGTCATCTTCAATCTCT
Found at i:10023720 original size:35 final size:36
Alignment explanation
Indices: 10022827--10023927 Score: 208
Period size: 35 Copynumber: 30.5 Consensus size: 36
10022817 CCAGTCGTCT
* * *
10022827 TTAATCTTTGACTTGTGATTTAATCCCGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * * * * * *
10022864 TT--T-TCTGGCTTGCGATTCAATCCCAATCATCT-
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTTA
* * * * *
10022896 TTAATCTTTAACACGTGGTTTAATCCTGGTCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
** * * * *
10022933 TTAATTCTCTT-ACTTACTGTTCAATCTC-AGTCATCT-
1 TTAA-TCT-TTGACTCGCGGTTTAATCCCGA-TCATTTA
* * *
10022969 TTAATCTCTGACTCGCGGTTTAATCCTGGTCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* ** * * * *
10023006 TTAATTCTCTGACTTACGGTTCAAT-CCTAGTCGTCT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
*
10023042 TTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * ** * * *
10023079 -T--TCTCTGGCTTACGGTTCAATCTC-AGTCATCT-
1 TTAATCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
* *
10023111 TTAATCTTTGACTCGTGATTTAATCCCGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
** ** * * *
10023148 TTAATTCTTCAACTTACGGTTTAGTCTC-AGTCATCT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
* ** *
10023184 TTAATCTCTGACTCATGGTTTAATCCTGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * * * * *
10023221 TT--T-TTTGACTTGCGGTTCAGTTCCAATCATCT-
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTTA
* * *
10023253 TT-ATCCTTTAACTCGTGGTTTAATCTC-AGTCATTTCA
1 TTAAT-CTTTGACTCGCGGTTTAATCCCGA-TCATTT-A
* ** * * * * *
10023290 TTAATTCTTCGACTTACGATTCAGTCCCAATCATCT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGATCATTTA
* * *
10023326 TTAATCTCTGACTCGTGGTTTAATCCCGGTCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* ** * * *
10023363 -T--TCTCTGACTTACGGTTCAGTCCC-AGTCATCT-
1 TTAATCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
*
10023395 TT-ATCCTTTGACTCGTGGTTTAATCCCGATCATTTCA
1 TTAAT-CTTTGACTCGCGGTTTAATCCCGATCATTT-A
** * * * * *
10023432 TTAAT-TGCCCGACTTGCGGTTCAGTCCC-AGTCGTCT-
1 TTAATCT--TTGACTCGCGGTTTAATCCCGA-TCATTTA
** *
10023468 TTAATCTTTGACTCGTTGTTTAATCCTGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * * * * * *
10023505 TTAATTCTCTAACTTGTGGTTCAGTCCC-AGTCATCT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
* *
10023541 TT-ATCTTTTGGCTCGTGGTTTAATCCC-AGTCATTTCA
1 TTAATC-TTTGACTCGCGGTTTAATCCCGA-TCATTT-A
** ** * * * *
10023578 TTAATTCCCTGACTTACGATTTAGTTCC-AGTCATCT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGA-TCATTTA
* *
10023614 TT-ATCCTTTGGCTCGTGGTTTAATCCC-AGTCATTTCA
1 TTAAT-CTTTGACTCGCGGTTTAATCCCGA-TCATTT-A
* * * * * *
10023651 TTAATTCTCTGACTTGCAGTTTAGTCCTGGTCATTT-
1 TTAA-TCTTTGACTCGCGGTTTAATCCCGATCATTTA
* *
10023687 TTAATCTTTGGCTCGTGGTTTAATCCCGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * *
10023724 TTAAT-TTCGTCGACTTGCGGTTCAATCCC-AGTCATCT-
1 TTAATCTT--T-GACTCGCGGTTTAATCCCGA-TCATTTA
* *
10023761 TTAATCTTTGACTCACGGTTTAATCCCGGTCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* ** * * *
10023798 TTAATTCCCTTGACTTACGGTTCAATCTC-AGTCATCT-
1 TTAA-T-CTTTGACTCGCGGTTTAATCCCGA-TCATTTA
**
10023835 TTAATCTTTGACTCATGGTTTAATCCCGATCATTTCA
1 TTAATCTTTGACTCGCGGTTTAATCCCGATCATTT-A
* * * * * *
10023872 TTAATCTTCTCGACTTGCGATTCAGTCCCAATCATCT-
1 TTAATCTT-T-GACTCGCGGTTTAATCCCGATCATTTA
*
10023909 TTAATCCTTGACTCGCGGT
1 TTAATCTTTGACTCGCGGT
10023928 ATCGTCTCGA
Statistics
Matches: 735, Mismatches: 243, Indels: 174
0.64 0.21 0.15
Matches are distributed among these distances:
32 4 0.01
33 4 0.01
34 93 0.13
35 290 0.39
36 45 0.06
37 66 0.09
38 166 0.23
39 67 0.09
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.42
Consensus pattern (36 bp):
TTAATCTTTGACTCGCGGTTTAATCCCGATCATTTA
Found at i:10023752 original size:39 final size:38
Alignment explanation
Indices: 10023703--10023906 Score: 131
Period size: 39 Copynumber: 5.4 Consensus size: 38
10023693 TTTGGCTCGT
* *
10023703 GGTTTAATCCCGATCATTTCATTAAT-TTCGTCGACTTGC
1 GGTTCAATCCCGATCATTTCATTAATCTTC-T-GACTTAC
* *
10023742 GGTTCAATCCC-AGTCA--TCTTTAATCTT-TGACTCAC
1 GGTTCAATCCCGA-TCATTTCATTAATCTTCTGACTTAC
* * *
10023777 GGTTTAATCCCGGTCATTTCATTAAT-TCCCTTGACTTAC
1 GGTTCAATCCCGATCATTTCATTAATCT-TC-TGACTTAC
* * * *
10023816 GGTTCAATCTC-AGTCA--TCTTTAATCTT-TGACTCAT
1 GGTTCAATCCCGA-TCATTTCATTAATCTTCTGACTTAC
* *
10023851 GGTTTAATCCCGATCATTTCATTAATCTTCTCGACTTGC
1 GGTTCAATCCCGATCATTTCATTAATCTTCT-GACTTAC
* * *
10023890 GATTCAGTCCCAATCAT
1 GGTTCAATCCCGATCAT
10023907 CTTTAATCCT
Statistics
Matches: 124, Mismatches: 26, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
35 36 0.29
36 3 0.02
37 31 0.25
38 5 0.04
39 49 0.40
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (38 bp):
GGTTCAATCCCGATCATTTCATTAATCTTCTGACTTAC
Found at i:10024178 original size:12 final size:12
Alignment explanation
Indices: 10024161--10024199 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
10024151 CATTTTAAAT
*
10024161 ATATTAATACTA
1 ATATTAATAATA
10024173 ATATTAATAATA
1 ATATTAATAATA
*
10024185 ATAATAATAATA
1 ATATTAATAATA
10024197 ATA
1 ATA
10024200 AATATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATTAATAATA
Found at i:10024183 original size:9 final size:9
Alignment explanation
Indices: 10024171--10024221 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
10024161 ATATTAATAC
10024171 TAATATTAA
1 TAATATTAA
*
10024180 TAATAATAA
1 TAATATTAA
*
10024189 TAATAATAA
1 TAATATTAA
10024198 TAAATATTTAA
1 T-AATA-TTAA
10024209 -AATATATAA
1 TAATAT-TAA
10024218 TAAT
1 TAAT
10024222 TATAAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 1 0.03
9 25 0.69
10 7 0.19
11 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TAATATTAA
Found at i:10024185 original size:3 final size:3
Alignment explanation
Indices: 10024165--10024200 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
10024155 TTAAATATAT
* *
10024165 TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10024201 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10024629 original size:24 final size:24
Alignment explanation
Indices: 10024600--10024651 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
10024590 ATACCCCCCA
10024600 AAATAT-CCAAACCGAAAACA-AAAC
1 AAATATACCAAA--GAAAACATAAAC
10024624 AAATATAGCCAAAGAAAACATAAAC
1 AAATATA-CCAAAGAAAACATAAAC
10024649 AAA
1 AAA
10024652 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 13 0.52
25 7 0.28
26 5 0.20
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (24 bp):
AAATATACCAAAGAAAACATAAAC
Found at i:10030466 original size:18 final size:17
Alignment explanation
Indices: 10030443--10030476 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10030433 TTTAAATCTT
10030443 TAAAATTCATAATATATA
1 TAAAATTCAT-ATATATA
*
10030461 TAAAATTTATATATAT
1 TAAAATTCATATATAT
10030477 TGACTTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTCATATATATA
Found at i:10031557 original size:2 final size:2
Alignment explanation
Indices: 10031546--10031580 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10031536 TGTATGTTGT
10031546 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10031581 TAGTTCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10033856 original size:79 final size:77
Alignment explanation
Indices: 10033720--10033866 Score: 177
Period size: 79 Copynumber: 1.9 Consensus size: 77
10033710 TAAAATGCAA
* * * **
10033720 TTTTTGTTGAAATTATGAAAAAATATATTTTTTAGAATTCAACAAAGACAATGTTTCTAAGAAAA
1 TTTTTATTGAAAATATGAAAAAATATATTTTTTAAAATTCAACAAAGACAACATTTCTAAGAAAA
10033785 AAAAATCATAGT
66 AAAAATCATAGT
* * ** * *
10033797 TTTTTATTGAAAATATGAAAAAAGTTATATTTTTTAAAATTTAATAAAGATGACATTTCTAGGAT
1 TTTTTATTGAAAATATGAAAAAA--TATATTTTTTAAAATTCAACAAAGACAACATTTCTAAGAA
10033862 AAAAA
64 AAAAA
10033867 CATAATTTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
77 21 0.37
79 36 0.63
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (77 bp):
TTTTTATTGAAAATATGAAAAAATATATTTTTTAAAATTCAACAAAGACAACATTTCTAAGAAAA
AAAAATCATAGT
Found at i:10034080 original size:30 final size:32
Alignment explanation
Indices: 10034046--10034118 Score: 78
Period size: 37 Copynumber: 2.2 Consensus size: 32
10034036 AAAATGAAAT
10034046 TAAAATAT-T-TTTATTTAATATTATTACATA
1 TAAAATATATATTTATTTAATATTATTACATA
*
10034076 TAAAATCTATAATACATTTATTTAATATTATTATATA
1 TAAAA--TAT-AT--ATTTATTTAATATTATTACATA
10034113 TAAAAT
1 TAAAAT
10034119 TTATTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
30 5 0.14
32 3 0.09
34 1 0.03
35 1 0.03
37 25 0.71
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (32 bp):
TAAAATATATATTTATTTAATATTATTACATA
Found at i:10035742 original size:11 final size:11
Alignment explanation
Indices: 10035710--10035742 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
10035700 TGACTTGTGG
10035710 TTTTATGGAATT
1 TTTTAT-GAATT
10035722 TTTTAT-AATT
1 TTTTATGAATT
10035732 TTTTATGAATT
1 TTTTATGAATT
10035743 GAATTGGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (11 bp):
TTTTATGAATT
Found at i:10036797 original size:5 final size:5
Alignment explanation
Indices: 10036783--10036816 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
10036773 ATCAAGAACA
10036783 AAAAC AAAAAC AAAAC -AAAC AAAAC AAAAC AAAA
1 AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
10036817 TGCTTGGCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:10036804 original size:9 final size:10
Alignment explanation
Indices: 10036783--10036816 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
10036773 ATCAAGAACA
10036783 AAAACAAAAAC
1 AAAAC-AAAAC
10036794 AAAAC-AAAC
1 AAAACAAAAC
10036803 AAAACAAAAC
1 AAAACAAAAC
10036813 AAAA
1 AAAA
10036817 TGCTTGGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAACAAAAC
Found at i:10036808 original size:14 final size:15
Alignment explanation
Indices: 10036784--10036815 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
10036774 TCAAGAACAA
10036784 AAACAAAAACAAAAC
1 AAACAAAAACAAAAC
10036799 AAAC-AAAACAAAAC
1 AAACAAAAACAAAAC
10036813 AAA
1 AAA
10036816 ATGCTTGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAAAACAAAAC
Found at i:10040237 original size:2 final size:2
Alignment explanation
Indices: 10040232--10040257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10040222 ACACACACAC
10040232 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
10040258 CTCCAGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10040874 original size:128 final size:128
Alignment explanation
Indices: 10040736--10041180 Score: 556
Period size: 129 Copynumber: 3.5 Consensus size: 128
10040726 TGATAGAAAG
* * * *
10040736 TTAACATGTGGTATTTTATTTGAAAATTACTATAATACTCTTATTAAATTACATATTAAATTTAT
1 TTAACATGTAGCATTTTATTTGAAAATTACTATAATACCCTTATTAAATTACATATTAAATTTAA
* *
10040801 CATAATATAAAATTAACCATATAATAAATTACTAAAATACCCTTACCATTGATTCATAAAAAT
66 CATAATATAAAATTAACTATATATTAAATTACTAAAATACCCTTACCATTGATTCATAAAAAT
* *
10040864 TTAACATGTGGCATTTTATTTCAAAATTACTATAATACCCTTATTAAATTACATATTAAATTTTA
1 TTAACATGTAGCATTTTATTTGAAAATTACTATAATACCCTTATTAAATTACATATTAAA-TTTA
* * * * *
10040929 ACATAATATAAAATGAATTACATATTAAATTACTAAAATACCCTAACCATTGCA-TCATAGAAAT
65 ACATAATATAAAATTAACTATATATTAAATTACTAAAATACCCTTACCATTG-ATTCATAAAAAT
* * * *
10040993 TTGACATATAGCATTTTATTTGAAATTTATTATAATACTCC-TATTAAATTACATATTAAATGTT
1 TTAACATGTAGCATTTTATTTGAAAATTACTATAATAC-CCTTATTAAATTACATATTAAAT-TT
* * * * * * *
10041057 AACATGATATAAAATTAACTATATATTAAATTACTAAAATATCTTTATCATTGCTTTATCAAAAT
64 AACATAATATAAAATTAACTATATATTAAATTACTAAAATACCCTTACCATTGATTCATAAAAAT
* * * * * *
10041122 TTGAGATTTAGCATTTTA--TGAAAATTAATAGAATACCCTTATTAAATTACATAGTAAAT
1 TTAACATGTAGCATTTTATTTGAAAATTACTATAATACCCTTATTAAATTACATATTAAAT
10041181 CGTTATGTAT
Statistics
Matches: 276, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
126 2 0.01
127 34 0.12
128 58 0.21
129 179 0.65
130 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.40
Consensus pattern (128 bp):
TTAACATGTAGCATTTTATTTGAAAATTACTATAATACCCTTATTAAATTACATATTAAATTTAA
CATAATATAAAATTAACTATATATTAAATTACTAAAATACCCTTACCATTGATTCATAAAAAT
Found at i:10042123 original size:22 final size:22
Alignment explanation
Indices: 10042080--10042124 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10042070 ATGAAAGGTA
* *
10042080 TATCTGTTGTTTTCTTTGTTTT
1 TATCTGTTATTTTCTTTATTTT
10042102 TATCATGTTATTTT-TTTATTTT
1 TATC-TGTTATTTTCTTTATTTT
10042124 T
1 T
10042125 GATTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (22 bp):
TATCTGTTATTTTCTTTATTTT
Found at i:10046633 original size:64 final size:67
Alignment explanation
Indices: 10046511--10046633 Score: 164
Period size: 64 Copynumber: 1.9 Consensus size: 67
10046501 AATTAATTAT
* *
10046511 CACAATTAATAGATAAATATTATTTTTATAATCGAAGAAACAGAAAATGTAAAAAAAGCCAAAAA
1 CACAATTAATAGATAAATATTATTTTTAAAATCGAAGAAACAGAAAAGGTAAAAAAAGCCAAAAA
10046576 GA
66 GA
* * *
10046578 CACAATTAATAGAT-AA-GTT-TTTTTAAAATCGAAGAAA-ACGAAAAGGTGAAGAAAGC
1 CACAATTAATAGATAAATATTATTTTTAAAATCGAAGAAACA-GAAAAGGTAAAAAAAGC
10046634 TACAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
63 1 0.02
64 31 0.62
65 2 0.04
66 2 0.04
67 14 0.28
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.24
Consensus pattern (67 bp):
CACAATTAATAGATAAATATTATTTTTAAAATCGAAGAAACAGAAAAGGTAAAAAAAGCCAAAAA
GA
Found at i:10057849 original size:25 final size:25
Alignment explanation
Indices: 10057821--10057875 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
10057811 GAATTTTGTG
*
10057821 TTCATTAGATATTAAATTGCAAAAA
1 TTCATTAGATATCAAATTGCAAAAA
10057846 TTCATTAGATATCAAATTGCAAAAA
1 TTCATTAGATATCAAATTGCAAAAA
10057871 TTCAT
1 TTCAT
10057876 AATTAACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (25 bp):
TTCATTAGATATCAAATTGCAAAAA
Found at i:10058303 original size:16 final size:15
Alignment explanation
Indices: 10058263--10058300 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10058253 TTTTAATACT
*
10058263 TTTATTATATTTTTA
1 TTTATTTTATTTTTA
10058278 TTTATTTTATTGTTTA
1 TTTATTTTATT-TTTA
10058294 -TTATTTT
1 TTTATTTT
10058301 TATATCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:10058337 original size:26 final size:27
Alignment explanation
Indices: 10058308--10058365 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
10058298 TTTTATATCA
* *
10058308 AAATAATTA-TATATATTAAAAATAAT
1 AAATAATTAGTAAATAATAAAAATAAT
*
10058334 AAATAA-TAGTAAATAATAATAATAAT
1 AAATAATTAGTAAATAATAAAAATAAT
10058360 -AATAAT
1 AAATAAT
10058366 AATAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
AAATAATTAGTAAATAATAAAAATAAT
Found at i:10058341 original size:3 final size:3
Alignment explanation
Indices: 10058309--10058377 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
10058299 TTTATATCAA
* * * *
10058309 AAT AAT TAT ATAT ATT AAA AAT AAT AAAT AAT AGT AAAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT
10058357 AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
10058378 GATGATGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
3 47 0.85
4 8 0.15
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10058403 original size:9 final size:9
Alignment explanation
Indices: 10058349--10058410 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
10058339 ATAGTAAATA
*
10058349 ATAATAATA
1 ATAATAATG
*
10058358 ATAATAATA
1 ATAATAATG
*
10058367 ATAATAATA
1 ATAATAATG
* *
10058376 ATGATGATG
1 ATAATAATG
* *
10058385 ATGATGATG
1 ATAATAATG
*
10058394 ATCATAATG
1 ATAATAATG
10058403 ATAATAAT
1 ATAATAAT
10058411 AATTTTTGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (9 bp):
ATAATAATG
Found at i:10058659 original size:29 final size:29
Alignment explanation
Indices: 10058614--10058673 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10058604 AATTTTTGTA
10058614 TTTACCATTATTGTTATTTTATAT-TTTAT
1 TTTACCATTATTGTTATTTT-TATCTTTAT
*
10058643 TTTATCATTAGTT-TTATTTTTATCTTTAT
1 TTTACCATTA-TTGTTATTTTTATCTTTAT
10058672 TT
1 TT
10058674 AATTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.11
29 23 0.82
30 2 0.07
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTACCATTATTGTTATTTTTATCTTTAT
Found at i:10058702 original size:21 final size:20
Alignment explanation
Indices: 10058660--10058718 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
10058650 TTAGTTTTAT
* * *
10058660 TTTTATCTTTATTTAATTTA
1 TTTTATCTTTTTTTTATCTA
10058680 TTTTATCTTTCTTTTTATCTA
1 TTTTATCTTT-TTTTTATCTA
10058701 TTCTT-TCTTTTATTTTAT
1 TT-TTATCTTTT-TTTTAT
10058719 TTTCATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 11 0.33
21 20 0.61
22 2 0.06
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATCTTTTTTTTATCTA
Found at i:10058717 original size:33 final size:31
Alignment explanation
Indices: 10058654--10058764 Score: 91
Period size: 33 Copynumber: 3.5 Consensus size: 31
10058644 TTATCATTAG
*
10058654 TTTTATTTTTATCTTTATTTAATTTATTTTA
1 TTTTCTTTTTATCTTTATTTAATTTATTTTA
* **
10058685 TCTTTCTTTTTATCTATTCTTTCTTTTATTTTA
1 T-TTTCTTTTTATCT-TTATTTAATTTATTTTA
* * * *
10058718 TTTTCATTTAATTACCCTTA-TTATTTTATTTTC
1 TTTTC-TTT--TTATCTTTATTTAATTTATTTTA
10058751 TTTTC-TTTTATCTT
1 TTTTCTTTTTATCTT
10058765 ATCTAAAATA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
29 5 0.08
31 3 0.05
32 16 0.25
33 34 0.53
34 2 0.03
35 4 0.06
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (31 bp):
TTTTCTTTTTATCTTTATTTAATTTATTTTA
Found at i:10058718 original size:38 final size:38
Alignment explanation
Indices: 10058635--10058721 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
10058625 TGTTATTTTA
* *
10058635 TATTTTATTTTATCATTAGTTTTATTTTTATCTTTATT
1 TATTTTATTTTATCATTAGTTTTATCTATATCTTTATT
* * ** *
10058673 TAATTTATTTTATCTTTCTTTTTATCTAT-TCTTTCTTT
1 TATTTTATTTTATCATTAGTTTTATCTATATCTTT-ATT
10058711 TATTTTATTTT
1 TATTTTATTTT
10058722 CATTTAATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 5 0.12
38 35 0.88
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.72
Consensus pattern (38 bp):
TATTTTATTTTATCATTAGTTTTATCTATATCTTTATT
Found at i:10059849 original size:109 final size:109
Alignment explanation
Indices: 10059696--10059976 Score: 349
Period size: 109 Copynumber: 2.6 Consensus size: 109
10059686 TTAAAAAATA
** * * *
10059696 AAAT-AAAAATAATTTCAAAACTCCTAAGAAAATGTTGAAATATCAAATTTTCCTTAAATAAAAA
1 AAATAAAAAATAATTTCAAAA--AATAAGAAAAAGTTAAAATATCAATTTTTCCTTAAATAAAAA
* *
10059760 ATTAATTT-AAAAAACT-AATAACAAAGTTGAAATATCAAAT-ATT-CTT
64 A-TAATTTCAAAAAA-TGAAGAA-AAAGTTGAAATATC-AATCATTCCAT
* *
10059806 TAATAAAAAATAATTTCAAAAAATAAGAAAAAGTTAAAATATCAATTTTTCCTT-AATCAAAAAT
1 AAATAAAAAATAATTTCAAAAAATAAGAAAAAGTTAAAATATCAATTTTTCCTTAAATAAAAAAT
* *
10059870 AATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATCTTTCCAT
66 AATTTCAAAAAATGAAGAAAAAGTTGAAATATCAATCATTCCAT
*
10059914 AAATAAAAAATAATTTCAAAAAATGATGAAAAAGTTAAAATATCAATTTTTCCTTAAATAAAA
1 AAATAAAAAATAATTTCAAAAAAT-AAGAAAAAGTTAAAATATCAATTTTTCCTTAAATAAAA
10059977 TTATTCCATA
Statistics
Matches: 150, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
106 3 0.02
107 23 0.15
108 42 0.28
109 57 0.38
110 9 0.06
111 16 0.11
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (109 bp):
AAATAAAAAATAATTTCAAAAAATAAGAAAAAGTTAAAATATCAATTTTTCCTTAAATAAAAAAT
AATTTCAAAAAATGAAGAAAAAGTTGAAATATCAATCATTCCAT
Found at i:10059868 original size:54 final size:53
Alignment explanation
Indices: 10059700--10059976 Score: 322
Period size: 55 Copynumber: 5.1 Consensus size: 53
10059690 AAAATAAAAT
** * *
10059700 AAAAATAATTTCAAAACTCCTAAGAAAATGTTGAAATATCAAATTTTCCTTAAATA
1 AAAAATAATTTCAAAA--AATAAGAAAAAGTTGAAATATCAATTTTTCCTT-AATA
* * * *
10059756 AAAAATTAATTT-AAAAAACTAATAACAAAGTTGAAATATCAAATATTCTTTAATA
1 AAAAA-TAATTTCAAAAAA-TAAGAA-AAAGTTGAAATATCAATTTTTCCTTAATA
* *
10059811 AAAAATAATTTCAAAAAATAAGAAAAAGTTAAAATATCAATTTTTCCTTAATC
1 AAAAATAATTTCAAAAAATAAGAAAAAGTTGAAATATCAATTTTTCCTTAATA
* * *
10059864 AAAAATAATTTCAAAAAATGAGGAAAAAGTTGAAATATCAATCTTTCCATAAATA
1 AAAAATAATTTCAAAAAAT-AAGAAAAAGTTGAAATATCAATTTTTCC-TTAATA
* *
10059919 AAAAATAATTTCAAAAAATGATGAAAAAGTTAAAATATCAATTTTTCCTTAAATA
1 AAAAATAATTTCAAAAAAT-AAGAAAAAGTTGAAATATCAATTTTTCCTT-AATA
10059974 AAA
1 AAA
10059977 TTATTCCATA
Statistics
Matches: 193, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
53 43 0.22
54 37 0.19
55 76 0.39
56 31 0.16
57 6 0.03
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (53 bp):
AAAAATAATTTCAAAAAATAAGAAAAAGTTGAAATATCAATTTTTCCTTAATA
Found at i:10063971 original size:19 final size:18
Alignment explanation
Indices: 10063938--10063977 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10063928 TTCTTTAACT
*
10063938 TCAAGATTTTCAAGAAAA
1 TCAAGATTATCAAGAAAA
*
10063956 TCAAGATTCATCAAGAACA
1 TCAAGATT-ATCAAGAAAA
10063975 TCA
1 TCA
10063978 TAAGATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (18 bp):
TCAAGATTATCAAGAAAA
Found at i:10072812 original size:17 final size:17
Alignment explanation
Indices: 10072780--10072811 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10072770 CTAATAACTA
10072780 AACTAAAGAAATAAAAG
1 AACTAAAGAAATAAAAG
10072797 AACTAAA-AAATAAAA
1 AACTAAAGAAATAAAA
10072812 ACAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AACTAAAGAAATAAAAG
Found at i:10083370 original size:27 final size:27
Alignment explanation
Indices: 10083327--10083385 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
10083317 AGGTTGGGTA
*
10083327 GGTTGAGAATCTCGTTTTGAAGGGGCT
1 GGTTGAGAATCTAGTTTTGAAGGGGCT
* *
10083354 GGTTGAGATTCTAGTTTTGAAGGGGTT
1 GGTTGAGAATCTAGTTTTGAAGGGGCT
10083381 GGTTG
1 GGTTG
10083386 GGAAATTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.39, T:0.37
Consensus pattern (27 bp):
GGTTGAGAATCTAGTTTTGAAGGGGCT
Found at i:10084302 original size:15 final size:15
Alignment explanation
Indices: 10084282--10084312 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10084272 AGCCTTTTTA
10084282 GGTATGAAATACTTG
1 GGTATGAAATACTTG
*
10084297 GGTATGAAATGCTTG
1 GGTATGAAATACTTG
10084312 G
1 G
10084313 ATGTCCTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (15 bp):
GGTATGAAATACTTG
Found at i:10085671 original size:20 final size:19
Alignment explanation
Indices: 10085646--10085684 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10085636 GAAGCTTTTG
*
10085646 TTTGACTTGTCAAATGTCTA
1 TTTGACCTGTCAAAT-TCTA
*
10085666 TTTGACCTGTGAAATTCTA
1 TTTGACCTGTCAAATTCTA
10085685 ATATGAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTTGACCTGTCAAATTCTA
Found at i:10087197 original size:34 final size:33
Alignment explanation
Indices: 10087154--10087219 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
10087144 ACCAAATGAA
*
10087154 ATTTTTAAAAAACAAAAATATAAAATAAAAACT
1 ATTTTTAAAAAACAAAAATAAAAAATAAAAACT
**
10087187 ATTTTCTAAAAAATGAAAATAAAAAATAAAAAC
1 ATTTT-TAAAAAACAAAAATAAAAAATAAAAAC
10087220 AAAAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (33 bp):
ATTTTTAAAAAACAAAAATAAAAAATAAAAACT
Found at i:10087209 original size:13 final size:13
Alignment explanation
Indices: 10087193--10087227 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10087183 AACTATTTTC
*
10087193 TAAAAAATGAAAA
1 TAAAAAATAAAAA
10087206 TAAAAAATAAAAA
1 TAAAAAATAAAAA
*
10087219 CAAAAAATA
1 TAAAAAATA
10087228 TTTTCTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:10089405 original size:17 final size:17
Alignment explanation
Indices: 10089367--10089407 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10089357 AATAATAATT
10089367 TATAT-TATTTAATAAA
1 TATATATATTTAATAAA
* *
10089383 -AAATATATTTACTAAA
1 TATATATATTTAATAAA
10089399 TATATATAT
1 TATATATAT
10089408 ATAGGGTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 3 0.15
16 10 0.50
17 7 0.35
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATATATTTAATAAA
Found at i:10090299 original size:25 final size:26
Alignment explanation
Indices: 10090271--10090326 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
10090261 TCTCTTGCTG
*
10090271 TAATTATAAAAATGATTC-TTTATTA
1 TAATTATAAAAATGATTCTTTTATCA
*
10090296 TAATTATGAAAATGATTCTTTTATCA
1 TAATTATAAAAATGATTCTTTTATCA
10090322 TAATT
1 TAATT
10090327 GATTAACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (26 bp):
TAATTATAAAAATGATTCTTTTATCA
Found at i:10090670 original size:34 final size:33
Alignment explanation
Indices: 10090632--10090737 Score: 83
Period size: 34 Copynumber: 3.2 Consensus size: 33
10090622 AAATTATATA
10090632 TTAAAATTTACTACAATATAAAATTAATTAAAAT
1 TTAAAATTTACTA-AATATAAAATTAATTAAAAT
*** *
10090666 TT-AAA-TTACTAAATACTCTTATTAAATT-ACAT
1 TTAAAATTTACTAAATA-TAAAATT-AATTAAAAT
* * *
10090698 ATTAAAATTTACCATAATATAAAATTAATTACATT
1 -TTAAAATTTACTA-AATATAAAATTAATTAAAAT
10090733 TTAAA
1 TTAAA
10090738 TTGCTAAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
31 4 0.07
32 13 0.24
33 9 0.17
34 14 0.26
35 10 0.19
36 4 0.07
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (33 bp):
TTAAAATTTACTAAATATAAAATTAATTAAAAT
Found at i:10090700 original size:67 final size:67
Alignment explanation
Indices: 10090617--10090747 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
10090607 TATACTATCT
* *
10090617 TTATTAAATTATATATTAAAATTTACTACAATATAAAATTAATTAAAATTTAAATTACTAAATAC
1 TTATTAAATTACATATTAAAATTTACCACAATATAAAATTAATTAAAATTTAAATTACTAAATAC
10090682 TC
66 TC
* * * *
10090684 TTATTAAATTACATATTAAAATTTACCATAATATAAAATTAATTACATTTTAAATTGCTAAATA
1 TTATTAAATTACATATTAAAATTTACCACAATATAAAATTAATTAAAATTTAAATTACTAAATA
10090748 TCCTTGTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.42
Consensus pattern (67 bp):
TTATTAAATTACATATTAAAATTTACCACAATATAAAATTAATTAAAATTTAAATTACTAAATAC
TC
Found at i:10091397 original size:24 final size:24
Alignment explanation
Indices: 10091369--10091429 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
10091359 GAAAATTATT
*
10091369 ATAAA-AATATATATCATTTTTAAC
1 ATAAATAATAAATAT-ATTTTTAAC
10091393 ATAAATAATAAATATATTTTTATA-
1 ATAAATAATAAATATATTTTTA-AC
10091417 A-AAATAATAAATA
1 ATAAATAATAAATA
10091430 AAATTTGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 12 0.35
24 13 0.38
25 9 0.26
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAATAATAAATATATTTTTAAC
Found at i:10091421 original size:23 final size:24
Alignment explanation
Indices: 10091367--10091429 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
10091357 ATGAAAATTA
10091367 TTATAAAAAT-AT--ATATCATTT
1 TTATAAAAATAATAAATATCATTT
10091388 TTA-ACATAAATAATAAATAT-ATTT
1 TTATA-A-AAATAATAAATATCATTT
10091412 TTATAAAAATAATAAATA
1 TTATAAAAATAATAAATA
10091430 AAATTTGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 1 0.03
21 4 0.11
22 4 0.11
23 14 0.39
24 8 0.22
25 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
TTATAAAAATAATAAATATCATTT
Found at i:10091442 original size:23 final size:23
Alignment explanation
Indices: 10091395--10091442 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10091385 TTTTTAACAT
* * * *
10091395 AAATAATAAATATATTTTTATAA
1 AAATAATAAATAAAATTTGACAA
10091418 AAATAATAAATAAAATTTGACAA
1 AAATAATAAATAAAATTTGACAA
10091441 AA
1 AA
10091443 TTATCAGCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAATAAATAAAATTTGACAA
Found at i:10093044 original size:19 final size:20
Alignment explanation
Indices: 10093015--10093055 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10093005 AGGCACGTGC
10093015 GGAGAGATTGGATGGGGTGG
1 GGAGAGATTGGATGGGGTGG
* *
10093035 GGAG-GATTGGGTGTGGTGG
1 GGAGAGATTGGATGGGGTGG
10093054 GG
1 GG
10093056 TGTTGGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.63, T:0.22
Consensus pattern (20 bp):
GGAGAGATTGGATGGGGTGG
Found at i:10093611 original size:26 final size:26
Alignment explanation
Indices: 10093583--10093631 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10093573 TAAAAAATAA
*
10093583 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
10093608 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
10093632 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:10096804 original size:26 final size:26
Alignment explanation
Indices: 10096755--10096803 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10096745 TTTCAAAAAT
*
10096755 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
10096781 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
10096804 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:10097366 original size:39 final size:39
Alignment explanation
Indices: 10097323--10097412 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
10097313 CCTACCCCCA
* *
10097323 TCAATCCCTCTCCACCTTCCCCCCAACATCCCACCATAC
1 TCAATCCCTCTCCACCTTCCCCCCAACACCCCACCACAC
* *
10097362 TCAATCCCT-TCCCACCTTCCCTCCAACGCCCCACCACAC
1 TCAATCCCTCT-CCACCTTCCCCCCAACACCCCACCACAC
* *
10097401 CCAATCCTTCTC
1 TCAATCCCTCTC
10097413 ACCCCATCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 41 0.95
40 1 0.02
ACGTcount: A:0.21, C:0.57, G:0.01, T:0.21
Consensus pattern (39 bp):
TCAATCCCTCTCCACCTTCCCCCCAACACCCCACCACAC
Found at i:10097415 original size:19 final size:20
Alignment explanation
Indices: 10097393--10097430 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10097383 TCCAACGCCC
10097393 CACCACACCCAATC-CTTCT
1 CACCACACCCAATCTCTTCT
* *
10097412 CACCCCATCCAATCTCTTC
1 CACCACACCCAATCTCTTC
10097431 CCATGTGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.24, C:0.53, G:0.00, T:0.24
Consensus pattern (20 bp):
CACCACACCCAATCTCTTCT
Found at i:10101651 original size:4 final size:4
Alignment explanation
Indices: 10101631--10101713 Score: 50
Period size: 4 Copynumber: 20.5 Consensus size: 4
10101621 TATGTTTTTC
* *
10101631 ATTT -TTT ATTT ACTT ATTT ATTT ATTT A-TT ATTTT ATTT -TGATT GTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT AT--TT ATTT
*
10101679 ATCT -TTT ATTTT ATTTT ATTT -TTT ATTT GATTT AT
1 ATTT ATTT A-TTT A-TTT ATTT ATTT ATTT -ATTT AT
10101714 CCTCAAGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
3 12 0.19
4 33 0.52
5 18 0.28
6 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:10101687 original size:25 final size:24
Alignment explanation
Indices: 10101651--10101706 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
10101641 TACTTATTTA
10101651 TTTATTTATTATTTTATTTTGATTG
1 TTTATTTATTATTTTATTTT-ATTG
*
10101676 TTTATCTT-TTATTTTATTTTATTT
1 TTTAT-TTATTATTTTATTTTATTG
10101700 TTTATTT
1 TTTATTT
10101707 GATTTATCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 17 0.59
26 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTATTTATTATTTTATTTTATTG
Found at i:10101711 original size:12 final size:11
Alignment explanation
Indices: 10101619--10101711 Score: 55
Period size: 12 Copynumber: 7.6 Consensus size: 11
10101609 TCAGGTATAT
10101619 TTTATGTTTTTCA
1 TTTAT-TTTTT-A
10101632 TTT-TTTATTTA
1 TTTATTT-TTTA
*
10101643 CTTATTTATTTA
1 TTTATTT-TTTA
10101655 TTTATTATTTTA
1 TTTATT-TTTTA
*
10101667 TTTTGATTGTTTA
1 -TTT-ATTTTTTA
10101680 TCTT-TTATTTTA
1 T-TTATT-TTTTA
10101692 TTTTATTTTTTA
1 -TTTATTTTTTA
10101704 TTTGATTT
1 TTT-ATTT
10101712 ATCCTCAAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
11 10 0.15
12 37 0.56
13 16 0.24
14 3 0.05
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:10101712 original size:16 final size:15
Alignment explanation
Indices: 10101618--10101713 Score: 61
Period size: 16 Copynumber: 5.9 Consensus size: 15
10101608 TTCAGGTATA
10101618 TTTTATGTT-TTTCATT
1 TTTTAT-TTATTT-ATT
*
10101634 TTTTATTTACTTATT
1 TTTTATTTATTTATT
10101649 TATTTATTTA-TTATT
1 T-TTTATTTATTTATT
* * *
10101664 TTATTTTGATTGTTTATC
1 TT-TTAT--TTATTTATT
10101682 TTTTATTTTATTTTATT
1 TTTTA-TTTA-TTTATT
10101699 TTTTATTTGATTTAT
1 TTTTATTT-ATTTAT
10101714 CCTCAAGTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
14 1 0.02
15 15 0.23
16 26 0.41
17 15 0.23
18 7 0.11
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTATTTATTTATT
Found at i:10101759 original size:13 final size:12
Alignment explanation
Indices: 10101741--10101770 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
10101731 GATAATGGTG
10101741 ATAATAAAAAAT
1 ATAATAAAAAAT
10101753 AATAATAAAAAAT
1 -ATAATAAAAAAT
10101766 ATAAT
1 ATAAT
10101771 GGATAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:10102574 original size:12 final size:12
Alignment explanation
Indices: 10102557--10102586 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
10102547 TTTTTTTCAT
10102557 TTTATTTATATA
1 TTTATTTATATA
10102569 TTTATTTATATA
1 TTTATTTATATA
10102581 TTTATT
1 TTTATT
10102587 GTTGTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:10102606 original size:3 final size:3
Alignment explanation
Indices: 10102600--10102649 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10102590 GTTGTTGTTG
10102600 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10102648 TT
1 TT
10102650 TCTGTCTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10102807 original size:62 final size:61
Alignment explanation
Indices: 10102705--10102900 Score: 204
Period size: 62 Copynumber: 3.2 Consensus size: 61
10102695 TTTTCAATAA
* * *
10102705 TTTTCTTAAAAATAAAA-TTTCAAAAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTTCAAAAAAATATTTTTTTAAGGAAAAATTGAAAGTATCAAT
* * *
10102765 TTTTCTTGAAAATAAAATTTTCAAAAAAAGTGTTTTTTTAAGG-AAAAGTGAAAAATATCAAT
1 TTTTCTTGAAAATAAAATTTTCAAAAAAA-TATTTTTTTAAGGAAAAATTG-AAAGTATCAAT
* ** * *
10102827 TTTTCTTAAAAATAAAATTTT-AAGGAAAAA-ACATTGTTAAGGAAAAGTTGAAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTTCAA--AAAAATATTTTTTTAAGGAAAAATTG-AAAGTATCAAT
*
10102889 TTTCCTT-AAAAT
1 TTTTCTTGAAAAT
10102901 TATCAATTTT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
60 16 0.14
61 32 0.28
62 62 0.54
63 5 0.04
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (61 bp):
TTTTCTTGAAAATAAAATTTTCAAAAAAATATTTTTTTAAGGAAAAATTGAAAGTATCAAT
Found at i:10102855 original size:17 final size:17
Alignment explanation
Indices: 10102835--10102872 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
10102825 ATTTTTCTTA
10102835 AAAATAAAATT-TTAAGG
1 AAAA-AAAATTGTTAAGG
*
10102852 AAAAAACATTGTTAAGG
1 AAAAAAAATTGTTAAGG
10102869 AAAA
1 AAAA
10102873 GTTGAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.24
Consensus pattern (17 bp):
AAAAAAAATTGTTAAGG
Found at i:10102911 original size:81 final size:78
Alignment explanation
Indices: 10102813--10102978 Score: 226
Period size: 81 Copynumber: 2.1 Consensus size: 78
10102803 TAAGGAAAAG
* *
10102813 TGAAAAATATCAATTTTTCTTAAAAATAAAATTTTAAGGAAAAAACATTGTTAAGGAAAAGTTGA
1 TGAAAATTATCAATTTTTCTTAAAAATAAAATTTTAA--AAAAAACATT-TTAAGAAAAAGTTG-
10102878 AAAGTATCAATTTTCCT
62 AAAGTATCAATTTTCCT
* * * *
10102895 T-AAAATTATCAATTTTTCTTGAAAATAAAATTTTTAAAAAAATATTTTGAGAAAAAGTTGAAAG
1 TGAAAATTATCAATTTTTCTTAAAAATAAAATTTTAAAAAAAACATTTTAAGAAAAAGTTGAAAG
*
10102959 TATCAATTTTTCT
66 TATCAATTTTCCT
10102972 TGAAAAT
1 TGAAAAT
10102979 AAAAATTTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
77 17 0.22
78 17 0.22
79 9 0.12
81 32 0.42
82 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (78 bp):
TGAAAATTATCAATTTTTCTTAAAAATAAAATTTTAAAAAAAACATTTTAAGAAAAAGTTGAAAG
TATCAATTTTCCT
Found at i:10102919 original size:20 final size:20
Alignment explanation
Indices: 10102874--10102920 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
10102864 TAAGGAAAAG
*
10102874 TTGAAAAGTATCAATTTTCC
1 TTGAAAATTATCAATTTTCC
*
10102894 TT-AAAATTATCAATTTTTC
1 TTGAAAATTATCAATTTTCC
10102913 TTGAAAAT
1 TTGAAAAT
10102921 AAAATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (20 bp):
TTGAAAATTATCAATTTTCC
Found at i:10102970 original size:58 final size:60
Alignment explanation
Indices: 10102901--10103038 Score: 190
Period size: 63 Copynumber: 2.3 Consensus size: 60
10102891 TCCTTAAAAT
* * *
10102901 TATCAATTTTTCTTGAAAATAAAATTTTTAAAAAA-A-TATTTTGAGAAAAAGTTGAAAG
1 TATCAATTTTTCTTGAAAATAAAAATTTCAAAAAACATTATTTTAAGAAAAAGTTGAAAG
*
10102959 TATCAATTTTTCTTGAAAATAAAAATTTCAAAAAACGTATTTTTTTTAAGAAAAAGTTGAAAG
1 TATCAATTTTTCTTGAAAATAAAAATTTCAAAAAAC--A-TTATTTTAAGAAAAAGTTGAAAG
*
10103022 TATCAATTTTCCTTGAA
1 TATCAATTTTTCTTGAA
10103039 TAAAGGCATT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
58 33 0.47
61 1 0.01
63 36 0.51
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (60 bp):
TATCAATTTTTCTTGAAAATAAAAATTTCAAAAAACATTATTTTAAGAAAAAGTTGAAAG
Found at i:10102986 original size:77 final size:80
Alignment explanation
Indices: 10102824--10102986 Score: 208
Period size: 77 Copynumber: 2.1 Consensus size: 80
10102814 GAAAAATATC
*
10102824 AATTTTTCTTAAAAATAAAATTTTAAGGAAAAAACATTGTTAAGGAAAAGTTGAAAAGTATCAAT
1 AATTTTTCTTAAAAATAAAATTTTAA-GAAAAAACATTGTTAAGAAAAAGTTGAAAAGTATCAAT
**
10102889 TTTCCTTAAAATTATC
65 TTTCCTTAAAATTAAA
* * * *
10102905 AATTTTTCTTGAAAATAAAATTTTTA-AAAAAATATT-TTGAGAAAAAGTTG-AAAGTATCAATT
1 AATTTTTCTTAAAAATAAAATTTTAAGAAAAAACATTGTTAAGAAAAAGTTGAAAAGTATCAATT
*
10102967 TTTCTTGAAAA-TAAA
66 TTCCTT-AAAATTAAA
10102982 AATTT
1 AATTT
10102987 CAAAAAACGT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
77 24 0.33
78 16 0.22
79 9 0.12
81 24 0.33
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (80 bp):
AATTTTTCTTAAAAATAAAATTTTAAGAAAAAACATTGTTAAGAAAAAGTTGAAAAGTATCAATT
TTCCTTAAAATTAAA
Found at i:10103031 original size:30 final size:30
Alignment explanation
Indices: 10102939--10103031 Score: 71
Period size: 30 Copynumber: 3.0 Consensus size: 30
10102929 TAAAAAAATA
*
10102939 TTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 TTTTAAGAAAAAGTTGAAAGTATCAATTTT
* * * * * * *
10102969 TCTTGAAAATAAAAATTTCAAA-AAACGTATTTT
1 T-TT--TAAGAAAAAGTTGAAAGTATC-AATTTT
10103002 TTTTAAGAAAAAGTTGAAAGTATCAATTTT
1 TTTTAAGAAAAAGTTGAAAGTATCAATTTT
10103032 CCTTGAATAA
Statistics
Matches: 43, Mismatches: 15, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
30 18 0.42
31 4 0.09
32 4 0.09
33 17 0.40
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (30 bp):
TTTTAAGAAAAAGTTGAAAGTATCAATTTT
Found at i:10108167 original size:80 final size:79
Alignment explanation
Indices: 10107998--10108160 Score: 211
Period size: 79 Copynumber: 2.1 Consensus size: 79
10107988 AGGATTTTTG
* * * * * * *
10107998 AACTTAAATGTGAATCTTTGAGTTTTAAATGAGAGTCTTTAAGGTGTGAAACCTAAAATTTGTCG
1 AACTCAAATGAGAATCTTTAAGTTTCAAATAAGAATCTTTAAGGTGTGAAACCTAAAATTCGTCG
10108063 AATGTGAATCTTCA
66 AATGTGAATCTTCA
* *
10108077 AACTCAAATGAGAATCTTTAAGTTTCAAATAAAGAAT-TTTGAGGTGTGAAACCCTAATATTCGT
1 AACTCAAATGAGAATCTTTAAGTTTCAAAT-AAGAATCTTTAAGGTGTGAAA-CCTAAAATTCGT
*
10108141 CGGATGTGAATCTTCA
64 CGAATGTGAATCTTCA
10108157 AACT
1 AACT
10108161 AGAATGAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
79 39 0.54
80 33 0.46
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (79 bp):
AACTCAAATGAGAATCTTTAAGTTTCAAATAAGAATCTTTAAGGTGTGAAACCTAAAATTCGTCG
AATGTGAATCTTCA
Found at i:10108297 original size:21 final size:23
Alignment explanation
Indices: 10108271--10108324 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
10108261 GAACTTTTGG
10108271 ATGAGAATCTCTAAA-ATT-CAA
1 ATGAGAATCTCTAAATATTGCAA
* *
10108292 ATGAGAATCTTTAAATGTTGCAA
1 ATGAGAATCTCTAAATATTGCAA
*
10108315 ATGCGAATCT
1 ATGAGAATCT
10108325 TGACATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (23 bp):
ATGAGAATCTCTAAATATTGCAA
Found at i:10108322 original size:23 final size:23
Alignment explanation
Indices: 10108289--10108339 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
10108279 CTCTAAAATT
*
10108289 CAAATGAGAATCTTTAAATGTTG
1 CAAATGAGAATCTTGAAATGTTG
* * *
10108312 CAAATGCGAATCTTGACATTTTG
1 CAAATGAGAATCTTGAAATGTTG
10108335 CAAAT
1 CAAAT
10108340 TTGAATTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (23 bp):
CAAATGAGAATCTTGAAATGTTG
Found at i:10108683 original size:89 final size:89
Alignment explanation
Indices: 10108521--10108827 Score: 465
Period size: 89 Copynumber: 3.5 Consensus size: 89
10108511 CGAGGAGCAT
* * * * *
10108521 TTTATTTT-TTAAAGTTGTGGTGCCTCGGTTTAGAGAAGCTTAATTCACTTTTCAAAAAGTCGTT
1 TTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
* * * * *
10108585 GAGCGTCTGCTTAAAGAAGTCGTA
66 AAACCTCTGCTTAAAGGAGCCGTA
*
10108609 TTTATTTTGTCAAAGTTATGGTGCCTTTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
1 TTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
10108674 AAACCTCTGCTTAAAGGAGCCGTA
66 AAACCTCTGCTTAAAGGAGCCGTA
*
10108698 TTTATTTTGTCAAAGTTATGGTGCCTTTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
1 TTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
10108763 AAACCTCTGCTTAAAGGAGCCGTA
66 AAACCTCTGCTTAAAGGAGCCGTA
* * *
10108787 TTTATTTTGTCAAAGTTGT-GAGCCTCTGTTTAGGGGAGTTT
1 TTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAGTTT
10108828 TATGTCATTC
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 27 0.13
89 176 0.87
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (89 bp):
TTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAGTTTAATTCACTTTTCAAAAAGTCGTT
AAACCTCTGCTTAAAGGAGCCGTA
Found at i:10108692 original size:45 final size:45
Alignment explanation
Indices: 10108643--10108781 Score: 122
Period size: 45 Copynumber: 3.1 Consensus size: 45
10108633 CTTTGTTTAG
10108643 AGGAGTTTAATTCACTTTTCAAAAAGTCGTTAAACCTCTGCTTAA
1 AGGAGTTTAATTCACTTTTCAAAAAGTCGTTAAACCTCTGCTTAA
** * * ** **** * * *
10108688 AGGAGCCGT-ATTTATTTTGTC--AAAGTTATGGTGCCTTTGTTTAG
1 AGGAG-TTTAATTCACTTT-TCAAAAAGTCGTTAAACCTCTGCTTAA
10108732 AGGAGTTTAATTCACTTTTCAAAAAGTCGTTAAACCTCTGCTTAA
1 AGGAGTTTAATTCACTTTTCAAAAAGTCGTTAAACCTCTGCTTAA
10108777 AGGAG
1 AGGAG
10108782 CCGTATTTAT
Statistics
Matches: 63, Mismatches: 26, Indels: 10
0.64 0.26 0.10
Matches are distributed among these distances:
43 3 0.05
44 26 0.41
45 31 0.49
46 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (45 bp):
AGGAGTTTAATTCACTTTTCAAAAAGTCGTTAAACCTCTGCTTAA
Found at i:10109157 original size:20 final size:19
Alignment explanation
Indices: 10109132--10109169 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10109122 TTATTTATTA
10109132 TTTTATTTTGATTGTTTATC
1 TTTTATTTT-ATTGTTTATC
*
10109152 TTTTATTTTATTTTTTAT
1 TTTTATTTTATTGTTTAT
10109170 TTATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTATTTTATTGTTTATC
Found at i:10109181 original size:25 final size:24
Alignment explanation
Indices: 10109116--10109182 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
10109106 TTTTTTTGAG
10109116 TTTTATTTATTTA-TTATTTTATT
1 TTTTATTTATTTATTTATTTTATT
* *
10109139 TTGATTGTTTATCT-TTTATTTTATT
1 TT--TTATTTATTTATTTATTTTATT
10109164 TTTTATTTATTTGATTTAT
1 TTTTATTTATTT-ATTTAT
10109183 CCTCAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 10 0.29
25 25 0.71
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTATTTATTTATTTATTTTATT
Found at i:10110039 original size:3 final size:3
Alignment explanation
Indices: 10110031--10110092 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
10110021 ATTTATATAT
* * *
10110031 TTA TTA TTA TTA -TA TTTA TTG TTA TTA TTA TTA TTC TTA TTA TTC
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10110076 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
10110093 TCTGTCTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10110221 original size:58 final size:59
Alignment explanation
Indices: 10110156--10110457 Score: 292
Period size: 58 Copynumber: 5.0 Consensus size: 59
10110146 AATTTTCTCA
10110156 AAAATAAAA-TTTCAAAAAAAATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTG
1 AAAATAAAATTTTCAAAAAAAATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTG
*** * * * *
10110214 AAAATAAAATTTTCAAAAAGTGTTTTTTTAATGAAAAA-TTGAAAATATCAATTTACCTTA
1 AAAATAAAATTTTCAAAAA-AAATTTTTTAA-GAAAAAGTTGAAAGTATCAATTTTCTTTG
* * * * *
10110274 AAAATAAAAATTT-AAGGAAAAAACATTGTTAAGGAAAAGTTAAAAGTATCAATTTT-TCTTG
1 AAAATAAAATTTTCAA--AAAAAA-TTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCT-TTG
** * * * *
10110335 AAAATAAAATTTTCAAAAATTA-TTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTTG
1 AAAATAAAATTTTCAAAAAAAATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTG
*
10110393 AAAATAAAATTTTCAAAAAAAACATTTTTTTTAAGGAAAAA-TTGAAAGTATCAATTTTCCTTG
1 AAAATAAAATTTTC-AAAAAAA-A--TTTTTTAA-GAAAAAGTTGAAAGTATCAATTTTCTTTG
10110456 AA
1 AA
10110458 TAAAGGCATT
Statistics
Matches: 195, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
58 53 0.27
59 17 0.09
60 48 0.25
61 43 0.22
62 2 0.01
63 27 0.14
64 5 0.03
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAAATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTG
Found at i:10110312 original size:121 final size:119
Alignment explanation
Indices: 10110155--10110457 Score: 366
Period size: 121 Copynumber: 2.5 Consensus size: 119
10110145 TAATTTTCTC
* *
10110155 AAAAAT-AAAATTTC-AAAAAAA-ATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAA
1 AAAAATAAAAATTTCAAAAAAAACATTTGTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAA
* *
10110217 ATAAAATTTTCAAAAAGTGTTTTTTTAATGAAAAATTGAAAATATCAATTTACCTT
66 ATAAAATTTTCAAAAA-T-TATTTTTAAGGAAAAATTGAAAATATCAATTTACCTT
*
10110273 AAAAATAAAAATTT-AAGGAAAAAACA-TTGTTAAGGAAAAGTTAAAAGTATCAATTTT-TCTTG
1 AAAAATAAAAATTTCAA--AAAAAACATTTGTTAAGGAAAAGTTGAAAGTATCAATTTTCT-TTG
* * ***
10110335 AAAATAAAATTTTCAAAAATTATTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTT
63 AAAATAAAATTTTCAAAAATTATTTTTAAGGAAAAATTGAAAATATCAATTTACCTT
* * * * *
10110392 GAAAATAAAATTTTCAAAAAAAACATTTTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGA
1 AAAAATAAAAATTTCAAAAAAAACA--TTTGTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGA
10110457 A
64 A
10110458 TAAAGGCATT
Statistics
Matches: 158, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
118 14 0.09
119 50 0.32
120 4 0.03
121 89 0.56
122 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (119 bp):
AAAAATAAAAATTTCAAAAAAAACATTTGTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAA
ATAAAATTTTCAAAAATTATTTTTAAGGAAAAATTGAAAATATCAATTTACCTT
Found at i:10110325 original size:61 final size:59
Alignment explanation
Indices: 10110156--10110457 Score: 254
Period size: 60 Copynumber: 5.0 Consensus size: 59
10110146 AATTTTCTCA
* * *
10110156 AAAAT-AAAATTTCAAAAAAAA-TTTTTTAA-GAAAAAGTTGAAAGTATCAATTTTCTTTG
1 AAAATAAAAATTT-AAAAAAAACATTTTTAAGGAAAAA-TTGAAAATATCAATTTTCCTTG
* ***** * * *
10110214 AAAATAAAATTTTCAAAAAGTGTTTTTTTAATGAAAAATTGAAAATATCAATTTACCTTA
1 AAAATAAAAATTT-AAAAAAAACATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
* * *
10110274 AAAATAAAAATTTAAGGAAAAAACATTGTTAAGGAAAAGTT-AAAAGTATCAATTTTTCTTG
1 AAAATAAAAATTTAA--AAAAAACATTTTTAAGGAAAAATTGAAAA-TATCAATTTTCCTTG
** ** * * **
10110335 AAAAT-AAAATTTTCAAAAATTATTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTTG
1 AAAATAAAAATTTAAAAAAAACATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
* *
10110393 AAAATAAAATTTTCAAAAAAAACATTTTTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTT-AAAAAAAACA---TTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
10110456 AA
1 AA
10110458 TAAAGGCATT
Statistics
Matches: 195, Mismatches: 37, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
58 44 0.23
59 24 0.12
60 55 0.28
61 39 0.20
63 33 0.17
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (59 bp):
AAAATAAAAATTTAAAAAAAACATTTTTAAGGAAAAATTGAAAATATCAATTTTCCTTG
Found at i:10113403 original size:17 final size:15
Alignment explanation
Indices: 10113365--10113399 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10113355 TTTATATAAG
*
10113365 TTCTTGACTTTTATT
1 TTCTTCACTTTTATT
*
10113380 TTCTTCACTTTTATA
1 TTCTTCACTTTTATT
10113395 TTCTT
1 TTCTT
10113400 TTCAATTATT
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:0.14, C:0.17, G:0.03, T:0.66
Consensus pattern (15 bp):
TTCTTCACTTTTATT
Found at i:10125936 original size:10 final size:10
Alignment explanation
Indices: 10125921--10125978 Score: 62
Period size: 10 Copynumber: 5.8 Consensus size: 10
10125911 AAAGTCAAAT
10125921 TAGTCAAACC
1 TAGTCAAACC
10125931 TAGTCAAACC
1 TAGTCAAACC
*
10125941 TAGTCAAACA
1 TAGTCAAACC
* *
10125951 TAGTAAAACT
1 TAGTCAAACC
* **
10125961 TGGTCAAAAT
1 TAGTCAAACC
10125971 TAGTCAAA
1 TAGTCAAA
10125979 ATCTATGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 41 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (10 bp):
TAGTCAAACC
Found at i:10125979 original size:10 final size:10
Alignment explanation
Indices: 10125913--10125980 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
10125903 TACTCCCCAA
10125913 AGTC-AAATT
1 AGTCAAAATT
**
10125922 AGTCAAACCT
1 AGTCAAAATT
**
10125932 AGTCAAACCT
1 AGTCAAAATT
10125942 AGTCAAACA-T
1 AGTCAAA-ATT
10125952 AGT-AAAACTT
1 AGTCAAAA-TT
*
10125962 GGTCAAAATT
1 AGTCAAAATT
10125972 AGTCAAAAT
1 AGTCAAAAT
10125981 CTATGAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 37 0.76
11 4 0.08
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.25
Consensus pattern (10 bp):
AGTCAAAATT
Found at i:10128017 original size:50 final size:49
Alignment explanation
Indices: 10127963--10128115 Score: 173
Period size: 50 Copynumber: 3.1 Consensus size: 49
10127953 ATTCCCCATG
* *
10127963 CATCAAAGTTTACATTTATATCAAT-AGCATTTTGATAATTTTGTTACATA
1 CATCAAAGTTTGCATTT-TATCAATGA-CATTTTAATAATTTTGTTACATA
* * * *
10128013 CATCAAAGTTTGCAATTTTGTCAACGACATTTTAATAATTTTGTTACGTG
1 CATCAAAGTTTGC-ATTTTATCAATGACATTTTAATAATTTTGTTACATA
* * * *
10128063 CATCAAAATTTGCATTTTTATCAATGAAATTTCAATAATTTTGTTATATA
1 CATCAAAGTTTGCA-TTTTATCAATGACATTTTAATAATTTTGTTACATA
10128113 CAT
1 CAT
10128116 TTCCCATGCA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 80 0.93
51 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (49 bp):
CATCAAAGTTTGCATTTTATCAATGACATTTTAATAATTTTGTTACATA
Found at i:10131630 original size:77 final size:77
Alignment explanation
Indices: 10131545--10131697 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
10131535 ATAACATATT
10131545 CTATTATGATTTTCTTTTAATTCAAGCACAGTACTATTTACATATCTAATAACACATCTGATTGT
1 CTATTATGATTTTCTTTTAATTCAAGCACAGTACTATTTACATATCTAATAACACATCTGATTGT
10131610 TAATAATATCCA
66 TAATAATATCCA
*
10131622 CTATTATGATTTTCTTTTAATTCAAGTACAGTACTATTTACATATCTAATAACACATCTGATTGT
1 CTATTATGATTTTCTTTTAATTCAAGCACAGTACTATTTACATATCTAATAACACATCTGATTGT
10131687 TAATAATATCC
66 TAATAATATCC
10131698 CCTCGTGAAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (77 bp):
CTATTATGATTTTCTTTTAATTCAAGCACAGTACTATTTACATATCTAATAACACATCTGATTGT
TAATAATATCCA
Found at i:10132171 original size:182 final size:183
Alignment explanation
Indices: 10131862--10132229 Score: 639
Period size: 182 Copynumber: 2.0 Consensus size: 183
10131852 CAAATAAAAG
10131862 TCATAGGGTCCACACAAATACCAATATGAAAAACATAGTACTGCCAATAACCCAACAATAAAAAC
1 TCATAGGGTCCACACAAATACCAATATGAAAAACATAGTACTGCCAATAACCCAACAATAAAAAC
*
10131927 CAAAAATAACCCTAAACCATACAAATATTAAGACAAAACAAACCTTTCAGTGGTTTTTGATAACC
66 CAAAAATAACCCTAAACCATACAAATATTAAGACAAAACAAACCTTTCAGTGGTTGTTGATAACC
* *
10131992 TCTAAACAAGTCTTGTTCTTTTACGATTCTGACTATCTTCTTTTGCTTCTTCT
131 TCTAAACAAGTCTTGTTCTTTCACGATTCTGACTATCTTCCTTTGCTTCTTCT
* * *
10132045 TCATAGGGTCCACACAAATACTAATATG-GAAACATAGTACTGCTAATAACCCAACAATAAAAAC
1 TCATAGGGTCCACACAAATACCAATATGAAAAACATAGTACTGCCAATAACCCAACAATAAAAAC
**
10132109 CAAAAATAACCCTAAACCATACAAATATTAAGACAAAATGAACCTTTCAGTGGTTGTTGATAACC
66 CAAAAATAACCCTAAACCATACAAATATTAAGACAAAACAAACCTTTCAGTGGTTGTTGATAACC
* *
10132174 TCTAGACAAGTCTTGTTCTTTCACGATTCTGATTATCTTCCTTTGCTTCTTCT
131 TCTAAACAAGTCTTGTTCTTTCACGATTCTGACTATCTTCCTTTGCTTCTTCT
10132227 TCA
1 TCA
10132230 ACGAATTATT
Statistics
Matches: 175, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
182 148 0.85
183 27 0.15
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (183 bp):
TCATAGGGTCCACACAAATACCAATATGAAAAACATAGTACTGCCAATAACCCAACAATAAAAAC
CAAAAATAACCCTAAACCATACAAATATTAAGACAAAACAAACCTTTCAGTGGTTGTTGATAACC
TCTAAACAAGTCTTGTTCTTTCACGATTCTGACTATCTTCCTTTGCTTCTTCT
Found at i:10139325 original size:30 final size:27
Alignment explanation
Indices: 10139289--10139360 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 27
10139279 TATAATGAAA
10139289 TTTTTAATATAATATTTAAAATTTAAAAAT
1 TTTTTAAT-TAATATTT-AAA-TTAAAAAT
* *
10139319 TTTTTAATTTAATATTTGAATTATAAAT
1 TTTTTAA-TTAATATTTAAATTAAAAAT
*
10139347 TTATTAATTAATAT
1 TTTTTAATTAATAT
10139361 AATATTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 7 0.18
28 13 0.34
29 2 0.05
30 15 0.39
31 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTTTAATTAATATTTAAATTAAAAAT
Found at i:10139445 original size:21 final size:21
Alignment explanation
Indices: 10139421--10139462 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10139411 AACAATCTTA
*
10139421 TAATATA-TGATAATTTCAAAT
1 TAATATATTCATAA-TTCAAAT
10139442 TAATATATTCATAATTCAAAT
1 TAATATATTCATAATTCAAAT
10139463 ATCATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATATATTCATAATTCAAAT
Found at i:10139476 original size:29 final size:29
Alignment explanation
Indices: 10139443--10139505 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
10139433 ATTTCAAATT
*
10139443 AATATATTCATAATTCAAATATCATATTA
1 AATATATTCAAAATTCAAATATCATATTA
* * * * *
10139472 AATATTTTTAAAATTTAGATATCATATTT
1 AATATATTCAAAATTCAAATATCATATTA
10139501 AATAT
1 AATAT
10139506 TTTATTATAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (29 bp):
AATATATTCAAAATTCAAATATCATATTA
Found at i:10142122 original size:83 final size:86
Alignment explanation
Indices: 10142006--10142217 Score: 243
Period size: 83 Copynumber: 2.5 Consensus size: 86
10141996 TACAAGCAAG
* * ** * *
10142006 TACTGCATTAATGTTGAAATTAAGGCAGTAATTGAGTGCGTTATAATAAATTATTTAAA-TTT-A
1 TACTACATTAATGTTAAAATTAAGGCAACAATTGAGTGAGTTATAATAAACTATTTAAATTTTGA
* *
10142069 AAAAA-AAAACATAAATCTAA
66 AAAAAGAAAACACAAATCCAA
* *
10142089 TATTACATTAATGTTTAAATTATA-GCAACAATTGAGTGAGTTATAATAAACTATTTAAATTTTG
1 TACTACATTAATGTTAAAATTA-AGGCAACAATTGAGTGAGTTATAATAAACTATTTAAATTTTG
**
10142153 AAAAAAGTCAACACAAATCCAA
65 AAAAAAGAAAACACAAATCCAA
* * * *
10142175 TACTACGTTAATGTAAAAATTAATGTAACAATTGAGTGAGTTA
1 TACTACATTAATGTTAAAATTAAGGCAACAATTGAGTGAGTTA
10142218 AAAAATAATG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
83 50 0.46
84 4 0.04
85 7 0.06
86 47 0.44
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (86 bp):
TACTACATTAATGTTAAAATTAAGGCAACAATTGAGTGAGTTATAATAAACTATTTAAATTTTGA
AAAAAGAAAACACAAATCCAA
Found at i:10142209 original size:86 final size:83
Alignment explanation
Indices: 10142035--10142217 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 83
10142025 TTAAGGCAGT
* * * * *
10142035 AATTGAGTGCGTTATAATAAATTATTTAAATTTAAAAAAAAAACATAAATCTAATATTACATTAA
1 AATTGAGTGAGTTATAATAAACTATTTAAATTTAAAAAAAAAACACAAATCCAATACTACATTAA
**
10142100 TGTTTAAATTATAGCAAC
66 TGTAAAAATTATAGCAAC
** *
10142118 AATTGAGTGAGTTATAATAAACTATTTAAATTTTGAAAAAAGTCAACACAAATCCAATACTACGT
1 AATTGAGTGAGTTATAATAAACTATTTAAA-TTT-AAAAAA-AAAACACAAATCCAATACTACAT
*
10142183 TAATGTAAAAATTA-ATGTAAC
63 TAATGTAAAAATTATA-GCAAC
10142204 AATTGAGTGAGTTA
1 AATTGAGTGAGTTA
10142218 AAAAATAATG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
83 28 0.33
84 3 0.04
85 7 0.08
86 47 0.55
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (83 bp):
AATTGAGTGAGTTATAATAAACTATTTAAATTTAAAAAAAAAACACAAATCCAATACTACATTAA
TGTAAAAATTATAGCAAC
Found at i:10143713 original size:23 final size:23
Alignment explanation
Indices: 10143683--10143731 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10143673 TTAAAGTAAA
10143683 TCTTCATATCTTATTAGTGAAAC
1 TCTTCATATCTTATTAGTGAAAC
*
10143706 TCTTCATATCTTTTTAGTGAAAC
1 TCTTCATATCTTATTAGTGAAAC
10143729 TCT
1 TCT
10143732 CTATTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (23 bp):
TCTTCATATCTTATTAGTGAAAC
Found at i:10150667 original size:49 final size:49
Alignment explanation
Indices: 10150614--10150855 Score: 220
Period size: 49 Copynumber: 4.9 Consensus size: 49
10150604 AAAAAATTCC
* * *
10150614 TCTAAGTAGAGGCTCTTTGACTTTAAAATTTTCATCTTGGAAAAGCTCA
1 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCTTGGAAAAGCTCA
* * * * * * *
10150663 TCTAAGTAGAGGTTCAACAACTTTAAAAATTTTATCCTAGAAAAGGCTCC
1 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCTTGGAAAA-GCTCA
* * *
10150713 T-TCAAATAGAGGCTC-AAAGACTTTAAAAATTTCATCTTGAAAAAAGCTCA
1 TCT-AAGTAGAGGCTCTATA-ACTTTAAAAATTTCATCTTG-GAAAAGCTCA
* ** * * * * *
10150763 TTTAAACAAAGACTCTATAACTTT-AAAACTTCATCTTGGAAAAACTCT
1 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCTTGGAAAAGCTCA
* *
10150811 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCCTGAAAAAG
1 TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCTTGGAAAAG
10150856 ATTCTTTTAA
Statistics
Matches: 151, Mismatches: 35, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
48 26 0.17
49 67 0.44
50 51 0.34
51 7 0.05
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (49 bp):
TCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCTTGGAAAAGCTCA
Found at i:10150757 original size:148 final size:149
Alignment explanation
Indices: 10150587--10150894 Score: 343
Period size: 148 Copynumber: 2.1 Consensus size: 149
10150577 ACTTTAAAAC
* * * ** * * * * *
10150587 TTAAAAATTTTATCTAAAAAAAA-TTCCTCTAAGTAGAGGCTCTTTGACTTTAAAATTTTCATCT
1 TTAAAAATTTCATCTAAAAAAAAGCTCATCTAAACAAAGACTCTATAACTTTAAAA-CTTCATCT
* * * * *
10150651 TGGAAAAGCTCATCTAAGTAGAGGTTCAACAACTTTAAAAATTTTATCCTAGAAAAGGCTCCTTC
65 TGGAAAAACTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCCT-GAAAAAGATCCTTC
10150716 AAAT-AGAGGCTCAA-AGACT
129 AAATCAGAGGCTCAATAGACT
** *
10150735 TTAAAAATTTCATCTTGAAAAAAGCTCATTTAAACAAAGACTCTATAACTTTAAAACTTCATCTT
1 TTAAAAATTTCATCTAAAAAAAAGCTCATCTAAACAAAGACTCTATAACTTTAAAACTTCATCTT
* * * * **
10150800 GGAAAAACTCTTCTAAGTAGAGGCTCTATAACTTTAAAAATTTCATCCTGAAAAAGATTCTTTTA
66 GGAAAAACTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCCTGAAAAAGATCCTTCAA
* *
10150865 ATCAGAGGCTTAATTGACT
131 ATCAGAGGCTCAATAGACT
10150884 TTAAAAATTTC
1 TTAAAAATTTC
10150895 TTTTTTCTCG
Statistics
Matches: 131, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
147 13 0.10
148 80 0.61
149 38 0.29
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (149 bp):
TTAAAAATTTCATCTAAAAAAAAGCTCATCTAAACAAAGACTCTATAACTTTAAAACTTCATCTT
GGAAAAACTCATCTAAGTAGAGGCTCAACAACTTTAAAAATTTCATCCTGAAAAAGATCCTTCAA
ATCAGAGGCTCAATAGACT
Found at i:10162225 original size:10 final size:10
Alignment explanation
Indices: 10162210--10162235 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10162200 TAATAAAATC
10162210 TTAAAATTTA
1 TTAAAATTTA
10162220 TTAAAATTTA
1 TTAAAATTTA
10162230 TTAAAA
1 TTAAAA
10162236 AGATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTTA
Found at i:10172832 original size:21 final size:21
Alignment explanation
Indices: 10172808--10172849 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10172798 ACAAAAGAGT
*
10172808 TTGCCACATAGGCAAAGTCAA
1 TTGCCACATAGGAAAAGTCAA
*
10172829 TTGCCACATTGGAAAAGTCAA
1 TTGCCACATAGGAAAAGTCAA
10172850 CTTTAACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (21 bp):
TTGCCACATAGGAAAAGTCAA
Found at i:10179227 original size:15 final size:15
Alignment explanation
Indices: 10179209--10179243 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10179199 AATAATTGAA
* *
10179209 AAGAATATAAAAGTG
1 AAGAAAATAAAAGTC
10179224 AAGAAAATAAAAGTC
1 AAGAAAATAAAAGTC
10179239 AAGAA
1 AAGAA
10179244 CTTATATAAA
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:0.66, C:0.03, G:0.17, T:0.14
Consensus pattern (15 bp):
AAGAAAATAAAAGTC
Found at i:10182305 original size:58 final size:58
Alignment explanation
Indices: 10182169--10182395 Score: 260
Period size: 58 Copynumber: 3.8 Consensus size: 58
10182159 AATGCCTTTA
* *
10182169 TTCAAGGAAAATTGATACTTTCAATTTTTCCTTAAAAAAAATATTTTTTTTGAAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTT---AAAAATA--TTTTTTGAAAATTTTATT
*
10182232 TTCAA-AGAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTGAAAATTTTATT
1 TTCAAGA-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAATTTTATT
* * * * *
10182290 TTCAAGAAAAATTGATACTTTTAACTTTTCCTTAACAATGTTTTTTCCTTAAATTTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ATTTTT--TGAAAATTTTATT
* * *
10182351 TTTAAGATAAATTGATATTTTCAACTTTTCCTTAAAAA-ATTTTTT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
10182396 TTTTGAAATT
Statistics
Matches: 144, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
57 1 0.01
58 52 0.36
59 10 0.07
60 7 0.05
61 44 0.31
63 30 0.21
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (58 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAATTTTATT
Found at i:10182396 original size:119 final size:119
Alignment explanation
Indices: 10182169--10182388 Score: 302
Period size: 119 Copynumber: 1.8 Consensus size: 119
10182159 AATGCCTTTA
* *
10182169 TTCAAGGAAAATTGATACTTTCAATTTTTCCTTAAAAAAAATATTTTTTTTGAAAATTTTATTTT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTT--AAAAAATATTTTTTTTGAAAATTTTATTTT
10182234 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTGAAAATTTTATT
64 CAAAGAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTGAAAATTTTATT
* * * *
10182290 TTCAAGAAAAATTGATACTTTTAACTTTTCCTT-AACAATGTTTTTTCCTT-AAATTTTTATTTT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTTTT--TTGAAAATTTTATTTT
* *
10182353 -TAAGATAAATTGATATTTTCAACTTTTCCTTAAAAA
64 CAAAGA-AAATTGATACTTTCAACTTTTCCTTAAAAA
10182389 ATTTTTTTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
118 15 0.17
119 41 0.47
120 2 0.02
121 30 0.34
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (119 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAATATTTTTTTTGAAAATTTTATTTTCA
AAGAAAATTGATACTTTCAACTTTTCCTTAAAAATAATTTTTGAAAATTTTATT
Done.