Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 138 of 410
Found at i:41755434 original size:54 final size:54
Alignment explanation
Indices: 41755168--41755418 Score: 403
Period size: 54 Copynumber: 4.6 Consensus size: 54
41755158 CGACTTGTAA
* *
41755168 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
* *
41755222 AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
* *
41755276 AATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
*
41755330 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
** * *
41755384 AATTACCGTTTTACCTTCAATTTATAGAATTACCA
1 AATTACTATTTTACCCTCGATTTATAGAATTACCA
41755419 AAATACCCTT
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 181 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:41755561 original size:27 final size:27
Alignment explanation
Indices: 41755404--41755564 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
41755394 TTACCTTCAA
*
41755404 TTTATAGAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
41755431 TTTATAAAATCACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
41755458 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
41755485 TTTACAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
41755512 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCCTTGG
*
41755539 TTTATAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
41755565 TAGGGTAGAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:41755578 original size:54 final size:54
Alignment explanation
Indices: 41755411--41755561 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
41755401 CAATTTATAG
* *
41755411 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
41755465 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
41755519 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
41755562 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:41756230 original size:28 final size:28
Alignment explanation
Indices: 41756198--41756266 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
41756188 GCGTAGATCA
41756198 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
41756226 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
41756254 CGATA-TACCCCTA
1 CGAAATTACCCCTA
41756267 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:41759266 original size:27 final size:27
Alignment explanation
Indices: 41759250--41759500 Score: 330
Period size: 27 Copynumber: 9.3 Consensus size: 27
41759240 CGACTTGTAA
41759250 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
41759277 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
41759304 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
41759331 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
41759358 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
41759385 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
41759412 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
41759439 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * * *
41759466 AATTACCGTTTTACCTTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
41759493 AATTACCA
1 AATTACCA
41759501 AAATACCCTT
Statistics
Matches: 200, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 192 0.96
28 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:41759516 original size:54 final size:54
Alignment explanation
Indices: 41759250--41759500 Score: 403
Period size: 54 Copynumber: 4.6 Consensus size: 54
41759240 CGACTTGTAA
*
41759250 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* *
41759304 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
*
41759358 AATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* *
41759412 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
** * * *
41759466 AATTACCGTTTTACCTTCAATTTATAGAATTACCA
1 AATTACTATTTTACCCTCGATTTACAGAATTACCA
41759501 AAATACCCTT
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 183 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:41759643 original size:27 final size:27
Alignment explanation
Indices: 41759486--41759646 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
41759476 TTACCTTCAA
*
41759486 TTTATAGAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
41759513 TTTATAAAATCACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
41759540 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
41759567 TTTACAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
41759594 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCCTTGG
*
41759621 TTTATAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
41759647 TAGGGTAGAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:41759660 original size:54 final size:54
Alignment explanation
Indices: 41759493--41759643 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
41759483 CAATTTATAG
* *
41759493 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
41759547 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
41759601 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
41759644 TTGTAGGGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:41760312 original size:28 final size:28
Alignment explanation
Indices: 41760280--41760348 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
41760270 GCGTAGATCA
*
41760280 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAAGCAAAATTAC
41760308 CGAAATTACCCCTAAAAAGCAAAATTAC
1 CGAAATTACCCCTAAAAAGCAAAATTAC
*
41760336 CGATA-TACCCCTA
1 CGAAATTACCCCTA
41760349 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAAAGCAAAATTAC
Found at i:41761545 original size:27 final size:26
Alignment explanation
Indices: 41761514--41761599 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
41761504 ATCACATAGG
41761514 GGCAAAACAGTTATCCTACCACATAA
1 GGCAAAACAGTTATCCTACCACATAA
* ** *
41761540 GAGCAAAATAGTTATTTTACCTCATAA
1 G-GCAAAACAGTTATCCTACCACATAA
* **
41761567 GGCAAAATC-GTCATTTTACCACATAA
1 GGCAAAA-CAGTTATCCTACCACATAA
*
41761593 GGGAAAA
1 GGCAAAA
41761600 ATTATCATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 28 0.56
27 22 0.44
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (26 bp):
GGCAAAACAGTTATCCTACCACATAA
Found at i:41761608 original size:27 final size:27
Alignment explanation
Indices: 41761530--41761721 Score: 185
Period size: 27 Copynumber: 7.1 Consensus size: 27
41761520 ACAGTTATCC
* *
41761530 TACCACATAAGAGCAAAAT-AGTTATTT
1 TACCACATAAGGGCAAAATCA-TCATTT
* *
41761557 TACCTCATAA-GGCAAAATCGTCATTT
1 TACCACATAAGGGCAAAATCATCATTT
* *
41761583 TACCACATAAGGGAAAAATTATCATTT
1 TACCACATAAGGGCAAAATCATCATTT
*
41761610 TAACACATAAGGGCAAAAT-AGTCATTT
1 TACCACATAAGGGCAAAATCA-TCATTT
* * * * *
41761637 TGCCATATAAGGGCAAAACCGTTATTT
1 TACCACATAAGGGCAAAATCATCATTT
* *
41761664 TATCACATAAGGGCAAAGTCATCATTT
1 TACCACATAAGGGCAAAATCATCATTT
* *
41761691 TAACACATAAAGGCAAAA-CAGTCATTT
1 TACCACATAAGGGCAAAATCA-TCATTT
41761718 TACC
1 TACC
41761722 TTACAAGGGT
Statistics
Matches: 133, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 24 0.18
27 109 0.82
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATCATCATTT
Found at i:41761730 original size:81 final size:81
Alignment explanation
Indices: 41761533--41761748 Score: 256
Period size: 81 Copynumber: 2.7 Consensus size: 81
41761523 GTTATCCTAC
* * *
41761533 CACAT-AAGAGCAAAATAGTTATTTTACCTCATAA-GGCAAAATCGTCATTTTACCACATAAGGG
1 CACATAAAG-GCAAAATAGTCATTTTACCTTATAAGGGCAAAACCGTCATTTTACCACATAAGGG
*
41761596 AAAAATTATCATTTTAA
65 AAAAATCATCATTTTAA
* * * * * *
41761613 CACATAAGGGCAAAATAGTCATTTTGCCATATAAGGGCAAAACCGTTATTTTATCACATAAGGGC
1 CACATAAAGGCAAAATAGTCATTTTACCTTATAAGGGCAAAACCGTCATTTTACCACATAAGGGA
*
41761678 AAAGTCATCATTTTAA
66 AAAATCATCATTTTAA
* * * ** *
41761694 CACATAAAGGCAAAACAGTCATTTTACCTTACAAGGGTATTACAGTCATTTTACC
1 CACATAAAGGCAAAATAGTCATTTTACCTTATAAGGGCAAAACCGTCATTTTACC
41761749 CTATGGAGGT
Statistics
Matches: 112, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 26 0.23
81 86 0.77
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (81 bp):
CACATAAAGGCAAAATAGTCATTTTACCTTATAAGGGCAAAACCGTCATTTTACCACATAAGGGA
AAAATCATCATTTTAA
Found at i:41764290 original size:22 final size:22
Alignment explanation
Indices: 41764264--41764307 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
41764254 GAAAATGAAC
41764264 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
41764286 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
41764308 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:41764306 original size:10 final size:10
Alignment explanation
Indices: 41764264--41764306 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
41764254 GAAAATGAAC
*
41764264 AAAATTAATC
1 AAAATTAATT
41764274 AAAATTAATTAT
1 AAAATTAA-T-T
41764286 AAAATTAATT
1 AAAATTAATT
*
41764296 AAAATTCATT
1 AAAATTAATT
41764306 A
1 A
41764307 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:41768754 original size:25 final size:25
Alignment explanation
Indices: 41768679--41768754 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41768669 GTGTATATAT
41768679 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41768704 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41768726 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41768751 GTGA
1 GTGA
41768755 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41768892 original size:47 final size:47
Alignment explanation
Indices: 41768652--41768884 Score: 376
Period size: 47 Copynumber: 5.0 Consensus size: 47
41768642 TTAGGATTTT
** *
41768652 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41768699 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
41768746 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41768793 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41768840 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
41768885 TAGTGTGAAA
Statistics
Matches: 171, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 171 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41769192 original size:37 final size:37
Alignment explanation
Indices: 41769047--41769191 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
41769037 GGAAATATAT
*
41769047 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41769084 TCCGGGTAAGACTCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41769121 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41769158 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
41769192 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41772209 original size:26 final size:27
Alignment explanation
Indices: 41772152--41772269 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
41772142 GGGATAAGTT
**
41772152 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
41772179 GTAGAATTACCGAAATA-CCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
41772205 ATAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
41772232 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
41772259 GTAAAATTACC
1 GTAGAATTACC
41772270 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.30
27 56 0.70
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:41772226 original size:53 final size:54
Alignment explanation
Indices: 41772164--41772270 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 54
41772154 AGAATTATTG
*
41772164 AAATACCCCTGTAGGGTAGAATTACCGAAATACCC-TGTAGGATAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGATAAAATTACCA
* * *
41772217 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGATAAAATTACCA
41772271 TTTTGCCCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 34 0.69
54 15 0.31
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGATAAAATTACCA
Found at i:41772806 original size:33 final size:33
Alignment explanation
Indices: 41772764--41772831 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
41772754 AACTACTTGG
*
41772764 AATTCCAATACG-CAACCTCGAAACTTGTGTTCC
1 AATTCCAATA-GACAACATCGAAACTTGTGTTCC
* *
41772797 AATTCCAATAGACAACATCGGAGCTTGTGTTCC
1 AATTCCAATAGACAACATCGAAACTTGTGTTCC
41772830 AA
1 AA
41772832 GATTTGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (33 bp):
AATTCCAATAGACAACATCGAAACTTGTGTTCC
Found at i:41775265 original size:27 final size:27
Alignment explanation
Indices: 41775224--41775395 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
41775214 TGGATAAGTT
41775224 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
41775251 GTAGAATTATTGAAATA-CCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
41775277 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
41775304 ATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
41775331 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
41775358 GTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
41775385 GTAAAATTACC
1 GTAGAATTACC
41775396 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
26 22 0.18
27 98 0.82
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:41775309 original size:53 final size:54
Alignment explanation
Indices: 41775224--41775396 Score: 249
Period size: 54 Copynumber: 3.2 Consensus size: 54
41775214 TGGATAAGTT
* *
41775224 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCC-TATAGG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGG
* *
41775277 GTAGAATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGG
* * * * *
41775331 GTAGAAATACCAAAATACCCCTGTAGGGTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGG
*
41775385 GTAAAATTACCA
1 GTAGAATTACCA
41775397 TTTTGCCCCT
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 43 0.41
54 63 0.59
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTATAGG
Found at i:41777908 original size:40 final size:39
Alignment explanation
Indices: 41777823--41778006 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
41777813 AAATTGAATG
* * * * *
41777823 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
41777863 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
41777903 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
41777943 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
41777982 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
41778007 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:41779485 original size:27 final size:27
Alignment explanation
Indices: 41779455--41779506 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
41779445 GTGTTACAGT
*
41779455 TCTGGTGGCCTAGCCACAATATCTGTA
1 TCTGGTGACCTAGCCACAATATCTGTA
* * *
41779482 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
41779507 GCAGTCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGTA
Found at i:41785467 original size:17 final size:17
Alignment explanation
Indices: 41785447--41785479 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
41785437 TAGGCTGAAA
41785447 TACAAAAATGTAAATGT
1 TACAAAAATGTAAATGT
41785464 TACAAAAATGTAAATG
1 TACAAAAATGTAAATG
41785480 AAGTTAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAAAAATGTAAATGT
Found at i:41794941 original size:47 final size:47
Alignment explanation
Indices: 41794872--41794997 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 47
41794862 TTTTGTGTGT
* * * *
41794872 ATATATGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 ATATATGCGATAACGCCGAATGGCCAATGTGATGAATATGAACATGC
* *
41794919 ATATGTGCGATAACTCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGCGATAACGCCGAATGGCCAATGTGATGAATATGAACATGC
* * *
41794966 ATATATGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGCGATAACGCCGAATGGCCAATGTGA
41794998 AATATGTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (47 bp):
ATATATGCGATAACGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:41795252 original size:37 final size:37
Alignment explanation
Indices: 41795200--41795308 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
41795190 GGAAATATAT
*
41795200 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
41795237 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * ** *
41795274 TCCGGGAAACACCCGAAAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41795309 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:41798809 original size:29 final size:29
Alignment explanation
Indices: 41798777--41798849 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
41798767 TGAAAAGTAT
* * *
41798777 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
41798806 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
41798835 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
41798850 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:41803633 original size:96 final size:96
Alignment explanation
Indices: 41803463--41803646 Score: 246
Period size: 96 Copynumber: 1.9 Consensus size: 96
41803453 ATGATATTTT
* * * * *
41803463 GTGTAAGACCATGTGTGGGACATGGCATCGGTAATGATATATATTCCTGTGTAAGACCATGTCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATATGCCAGTGTAAGACAATGTCTA
41803528 GGACATGGCATCAGCGATGATATATGTGACA
66 GGACATGGCATCAGCGATGATATATGTGACA
* * * *
41803559 GTGTACGACCATGTCTGGGACATGGCATCGGCGATGCA-ATGTGTGCCAGTGTAAGACAATGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAATG-ATATATATGCCAGTGTAAGACAATGTCT
*
41803623 -GGAACTTGGCATCAGCGATGATAT
65 AGG-ACATGGCATCAGCGATGATAT
41803647 GTGAATTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
95 2 0.03
96 73 0.96
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATATATGCCAGTGTAAGACAATGTCTA
GGACATGGCATCAGCGATGATATATGTGACA
Found at i:41803649 original size:48 final size:47
Alignment explanation
Indices: 41803463--41803649 Score: 187
Period size: 48 Copynumber: 3.9 Consensus size: 47
41803453 ATGATATTTT
* * ** * * ** *
41803463 GTGTAAGACCATGTGTGGGACATGGCATCGGTAATGATATATATTCCT
1 GTGTAAGACCATGTCT-GGACATGGCATCAGCGATGATATGTGTGACA
*
41803511 GTGTAAGACCATGTCTAGGACATGGCATCAGCGATGATATATGTGACA
1 GTGTAAGACCATGTCT-GGACATGGCATCAGCGATGATATGTGTGACA
* * *
41803559 GTGTACGACCATGTCTGGGACATGGCATCGGCGATGCA-ATGTGTGCCA
1 GTGTAAGACCATGTCT-GGACATGGCATCAGCGATG-ATATGTGTGACA
* *
41803607 GTGTAAGACAATGTCTGGAACTTGGCATCAGCGATGATATGTG
1 GTGTAAGACCATGTCTGG-ACATGGCATCAGCGATGATATGTG
41803650 AATTCATGTG
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.03
48 114 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGACATGGCATCAGCGATGATATGTGTGACA
Found at i:41803665 original size:96 final size:94
Alignment explanation
Indices: 41803463--41803682 Score: 234
Period size: 96 Copynumber: 2.3 Consensus size: 94
41803453 ATGATATTTT
* * * * *
41803463 GTGTAAGACCATGTGTGGGACATGGCATCGGTAATGATATATATTCCTGTGTAAGACCATGTCTA
1 GTGT-AGACCATGTCTGGGACATGGCATCGGCAATGATATATATGCCAGTGTAAGACAATGTCTA
41803528 GGACATGGCATCAGCGATGATATATGTGACA
65 GGACATGGCATCAGCGATGA-ATATGTGACA
* * *
41803559 GTGTACGACCATGTCTGGGACATGGCATCGGCGATGCA-ATGTGTGCCAGTGTAAGACAATGTCT
1 GTGTA-GACCATGTCTGGGACATGGCATCGGCAATG-ATATATATGCCAGTGTAAGACAATGTCT
*
41803623 -GGAACTTGGCATCAGCGATG-ATATGTGAATTCA
64 AGG-ACATGGCATCAGCGATGAATATGTG-A--CA
41803656 -TGTGAGACCATGTC-GGGAACATGGCAT
1 GTGT-AGACCATGTCTGGG-ACATGGCAT
41803683 TGGTACTTTA
Statistics
Matches: 107, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
94 7 0.07
95 7 0.07
96 89 0.83
97 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
GTGTAGACCATGTCTGGGACATGGCATCGGCAATGATATATATGCCAGTGTAAGACAATGTCTAG
GACATGGCATCAGCGATGAATATGTGACA
Found at i:41803669 original size:48 final size:47
Alignment explanation
Indices: 41803516--41803682 Score: 155
Period size: 48 Copynumber: 3.5 Consensus size: 47
41803506 TTCCTGTGTA
41803516 AGACCATGTCTAGG-ACATGGCATCAGCGATGATATATGTGA-CA-GTG
1 AGACCATGTCT-GGAACATGGCATCAGCGATGA-ATATGTGATCATGTG
* * * * *
41803562 TACGACCATGTCTGGGACATGGCATCGGCGATGCAATGTGTG-CCAGTGTA
1 -A-GACCATGTCTGGAACATGGCATCAGCGATG-AATATGTGATCA-TGTG
* *
41803612 AGACAATGTCTGGAACTTGGCATCAGCGATG-ATATGTGAATTCATGTG
1 AGACCATGTCTGGAACATGGCATCAGCGATGAATATGTG-A-TCATGTG
*
41803660 AGACCATGTCGGGAACATGGCAT
1 AGACCATGTCTGGAACATGGCAT
41803683 TGGTACTTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
46 6 0.06
47 3 0.03
48 83 0.85
49 4 0.04
50 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
AGACCATGTCTGGAACATGGCATCAGCGATGAATATGTGATCATGTG
Found at i:41817886 original size:28 final size:28
Alignment explanation
Indices: 41817846--41817910 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
41817836 ATGTACTAGA
*
41817846 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
41817874 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41817902 ATACCCCTA
1 ATACCCCTA
41817911 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41818074 original size:27 final size:28
Alignment explanation
Indices: 41818028--41818105 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
41818018 GGTGGCTATG
*
41818028 CCACAAATTATCTGTTCTGGTGGC-CGTA
1 CCACAAAATATCTGTTCTGGTGGCAC-TA
* *
41818056 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGGCACTA
41818083 CCACAAAATATCTGTATCTGGTG
1 CCACAAAATATCTGT-TCTGGTG
41818106 ACTCTATCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 22 0.51
28 14 0.33
29 7 0.16
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGGCACTA
Found at i:41818124 original size:55 final size:56
Alignment explanation
Indices: 41818016--41818130 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
41818006 AGGAAGTGTC
* *
41818016 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCGTACCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCGTACCACATATATCTGTAT
* *
41818071 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTC-TATCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGAC-CGTACCACATATATCTGTAT
41818127 CTGG
1 CTGG
41818131 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 20 0.38
57 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCGTACCACATATATCTGTAT
Found at i:41822497 original size:6 final size:6
Alignment explanation
Indices: 41822479--41822534 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
41822469 AGCAAATGAA
* *
41822479 TCATTT CTCATTT TCATTT TCATTT TCATTT TCATTT CCATTT CCATTT
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
*
41822528 CCATTT T
1 TCATTT T
41822535 GAGAAAACCA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 41 0.87
7 6 0.13
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (6 bp):
TCATTT
Found at i:41838278 original size:6 final size:6
Alignment explanation
Indices: 41838267--41838324 Score: 116
Period size: 6 Copynumber: 9.7 Consensus size: 6
41838257 AGCATGTAAT
41838267 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA GGAGAA
41838315 GGAGAA GGAG
1 GGAGAA GGAG
41838325 GAGAAGAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:41846502 original size:40 final size:39
Alignment explanation
Indices: 41846334--41846513 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
41846324 AGAAATTGAA
* *
41846334 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
41846374 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
41846414 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
41846454 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
41846494 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
41846514 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:41850896 original size:28 final size:29
Alignment explanation
Indices: 41850856--41850967 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
41850846 ACCCCTGCAT
* * *
41850856 ACATGCATGTGGCCCACTAGGCTCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
41850884 CCATTTATATGGCCCATCT--GCCCAATTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
*
41850912 ACGTTCATATGGCCCA-TCAGGCCCAATTC
1 ACATTCATATGGCCCACT-AGGCCCAATTC
* *
41850941 ACATTCATATGACCCATTAGGCCCAAT
1 ACATTCATATGGCCCACTAGGCCCAAT
41850968 CTCATTTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
26 1 0.01
27 5 0.07
28 27 0.40
29 34 0.50
30 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:41850947 original size:29 final size:29
Alignment explanation
Indices: 41850885--41850967 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
41850875 GGCTCAATCC
* *
41850885 CATTTATATGGCCCATC-TGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
41850913 CGTTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
41850942 CATTCATATGACCCATTAGGCCCAAT
1 CATTCATATGGCCCATCAGGCCCAAT
41850968 CTCATTTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 15 0.31
29 33 0.69
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:41855607 original size:28 final size:28
Alignment explanation
Indices: 41855551--41855631 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
41855541 CTGCTAGAAT
* * * *
41855551 AGAT-ATTGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCATAGCCACCAGAAAC
* *
41855578 AGATATTTGTGGCATAGCCACTAGAAAC
1 AGATAATTGTGGCATAGCCACCAGAAAC
41855606 AGATAATTGTGGCATAGCCACCAGAA
1 AGATAATTGTGGCATAGCCACCAGAA
41855632 CGCTTCCTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 4 0.09
28 41 0.91
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (28 bp):
AGATAATTGTGGCATAGCCACCAGAAAC
Found at i:41855766 original size:26 final size:26
Alignment explanation
Indices: 41855736--41855794 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
41855726 AAATTAACCC
* *
41855736 TAGGGGTATAACGGTCATTT-TCACT
1 TAGGGGTATAACGGTAATTTCACACT
* *
41855761 TAAGGGTATAATGGTAATTTCACACT
1 TAGGGGTATAACGGTAATTTCACACT
41855787 TAGGGGTA
1 TAGGGGTA
41855795 GTTTAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACGGTAATTTCACACT
Found at i:41861449 original size:20 final size:21
Alignment explanation
Indices: 41861424--41861463 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
41861414 TAATTGGATC
*
41861424 TCTTTCACTAGTC-TTCTCAT
1 TCTTTCACTACTCATTCTCAT
*
41861444 TCTTTCTCTACTCATTCTCA
1 TCTTTCACTACTCATTCTCA
41861464 ACACCTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.33, G:0.03, T:0.50
Consensus pattern (21 bp):
TCTTTCACTACTCATTCTCAT
Found at i:41862050 original size:55 final size:53
Alignment explanation
Indices: 41861961--41862068 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 53
41861951 AAATGGTGAT
* *
41861961 CGAAATACCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGAC
* * *
41862014 CGAAATACCCCCATAAGGTAAAAATGTCTAAAATACCCCTATAAGGTAAAATGAC
1 CGAAATA-CCCCATAAGGT-AAAATGACCAAAATACCCCCATAAGGTAAAATGAC
41862069 TGTACTACCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 7 0.15
54 10 0.21
55 31 0.65
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (53 bp):
CGAAATACCCCATAAGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGAC
Found at i:41862077 original size:27 final size:27
Alignment explanation
Indices: 41861963--41862148 Score: 176
Period size: 27 Copynumber: 6.9 Consensus size: 27
41861953 ATGGTGATCG
*
41861963 AAATACCCC-ATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACTA
* **
41861989 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACTA
* * *
41862016 AAATACCCCCATAAGGTAAAAATGTCTA
1 AAATACCCCTATAGGGT-AAAATGACTA
* *
41862044 AAATACCCCTATAAGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTA
* * * * *
41862071 TACTACCCTTGTAGGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTA
* * *
41862098 TAATACCCTTGTAGGGTAAAATGACTA
1 AAATACCCCTATAGGGTAAAATGACTA
* * *
41862125 TAATACCCCTGTAAGGTAAAATGA
1 AAATACCCCTATAGGGTAAAATGA
41862149 TTGATTTGCC
Statistics
Matches: 141, Mismatches: 17, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
26 9 0.06
27 109 0.77
28 23 0.16
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACTA
Found at i:41864197 original size:30 final size:30
Alignment explanation
Indices: 41864140--41864198 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
41864130 CGAAAATCAT
*
41864140 ACTTTTACAAATTTGCATTTTTACCCCTAA
1 ACTTTTACAAATTTGCATATTTACCCCTAA
*
41864170 ACTTTTACAAATTTGTA-ATTTAGCCCCTA
1 ACTTTTACAAATTTGCATATTTA-CCCCTA
41864199 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (30 bp):
ACTTTTACAAATTTGCATATTTACCCCTAA
Found at i:41866732 original size:15 final size:15
Alignment explanation
Indices: 41866683--41866755 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
41866673 GAGATGACAT
*
41866683 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
41866698 GAAGTCCAGGACGAAA
1 GAAATCCAAGA-TAAA
41866714 -AAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
41866728 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
41866743 GAAATCCAAGATA
1 GAAATCCAAGATA
41866756 CAATATCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:41866748 original size:30 final size:30
Alignment explanation
Indices: 41866674--41866755 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
41866664 TATGGAATAG
* *
41866674 AGATGACATGAAAACCAAGATAAAGAAGTCCA
1 AGAT-ACA-GAAATCCAAGATAAAGAAATCCA
* * *
41866706 GGACGA-AAAAATCCAAGATAAAGAAATCCA
1 AGA-TACAGAAATCCAAGATAAAGAAATCCA
41866736 AGATACAGAAATCCAAGATA
1 AGATACAGAAATCCAAGATA
41866756 CAATATCATA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
29 1 0.03
30 35 0.88
31 1 0.03
32 3 0.08
ACGTcount: A:0.55, C:0.16, G:0.17, T:0.12
Consensus pattern (30 bp):
AGATACAGAAATCCAAGATAAAGAAATCCA
Found at i:41868340 original size:27 final size:27
Alignment explanation
Indices: 41868310--41868610 Score: 340
Period size: 27 Copynumber: 11.2 Consensus size: 27
41868300 AAAGTACTCC
* *
41868310 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
41868337 CGATTTTTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41868364 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41868391 C-AGTTTATAGAA-TACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
41868417 CAATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
41868444 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
41868471 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
41868498 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
41868525 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
41868552 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
41868579 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
41868606 TGATT
1 CGATT
41868611 GTGAAATTAC
Statistics
Matches: 234, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.11
27 207 0.88
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:41868532 original size:81 final size:81
Alignment explanation
Indices: 41868313--41868610 Score: 377
Period size: 81 Copynumber: 3.7 Consensus size: 81
41868303 GTACTCCCGA
* ** ** *
41868313 TTTACAAAATTACCATTTTACCCTCGATTTTTAAAATTACTATTTTACCCTCGATTTACAGAATT
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAATT
41868378 ACTGTTTTACCCTCAG
66 ACTGTTTTACCCTCAG
* * * * * *
41868394 TTTATAGAA-TACCGTTTTACCCTCAATTTACAGAATTATCGTTTTACCC-TCAGTTTACAGAAT
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGA-TTTACAGAAT
*
41868457 TACTATTTTACCCTC-G
65 TACTGTTTTACCCTCAG
* * **
41868473 ATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAAT
1 -TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAAT
*
41868538 TACTGGTTTACCCTCAG
65 TACTGTTTTACCCTCAG
* *
41868555 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATT
41868611 GTGAAATTAC
Statistics
Matches: 185, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 65 0.35
81 115 0.62
82 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAATT
ACTGTTTTACCCTCAG
Found at i:41868645 original size:27 final size:27
Alignment explanation
Indices: 41868615--41868809 Score: 207
Period size: 27 Copynumber: 7.2 Consensus size: 27
41868605 TTGATTGTGA
41868615 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
41868642 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
41868669 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
41868696 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
41868723 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
41868750 AAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
41868777 AATTAC-CAAGATACCCTTGTGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
41868804 AATTAC
1 AATTAC
41868810 CATTTTGCCC
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 136 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:41868683 original size:54 final size:54
Alignment explanation
Indices: 41868615--41868810 Score: 252
Period size: 54 Copynumber: 3.6 Consensus size: 54
41868605 TTGATTGTGA
* ** *
41868615 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
41868669 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
41868723 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
41868777 AATTAC-CAAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAA-ATACCCTTGTAGGGTAGAATTACC
41868811 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.02
54 120 0.98
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:41868717 original size:81 final size:81
Alignment explanation
Indices: 41868623--41868808 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 81
41868613 GAAATTACTG
* * * *
41868623 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
41868688 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * *
41868704 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
41868769 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * * *
41868785 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
41868809 CCATTTTGCC
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:41869052 original size:27 final size:26
Alignment explanation
Indices: 41869009--41869088 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
41868999 CGGAGGAAGC
* *
41869009 GTTCTGGTAGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
41869036 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
41869062 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
41869089 ATTGACCGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.19
27 38 0.81
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:41869213 original size:22 final size:22
Alignment explanation
Indices: 41869188--41869237 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
41869178 AATAGCTCTA
*
41869188 TGCCAACCTAAATATGGCTTTG
1 TGCCAACCTAAATATGGCTTCG
* * * *
41869210 TGCCATCTTGACTATGGCTTCG
1 TGCCAACCTAAATATGGCTTCG
41869232 TGCCAA
1 TGCCAA
41869238 ACGTATTTAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (22 bp):
TGCCAACCTAAATATGGCTTCG
Found at i:41869448 original size:27 final size:27
Alignment explanation
Indices: 41869396--41869474 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
41869386 TTCTGTTAGG
* *
41869396 TGGCTTTGCCACATTATCTG-ATTCTGA
1 TGGCTCTGCCACAATATCTGTA-TCTGA
*
41869423 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTCTGCCACAATATCTGTATCTGA
* * *
41869450 TGACTCTGTCACGATATCTGT-TCTG
1 TGGCTCTGCCACAATATCTGTATCTG
41869475 GCAGACATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.09
27 40 0.89
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (27 bp):
TGGCTCTGCCACAATATCTGTATCTGA
Found at i:41869602 original size:6 final size:6
Alignment explanation
Indices: 41869593--41869773 Score: 160
Period size: 6 Copynumber: 29.8 Consensus size: 6
41869583 TTGCATTCAC
* *
41869593 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
41869642 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
41869690 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTTTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
41869739 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
41869774 CATTTTGGTT
Statistics
Matches: 144, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
5 11 0.08
6 120 0.83
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:41869727 original size:79 final size:79
Alignment explanation
Indices: 41869624--41869773 Score: 282
Period size: 79 Copynumber: 1.9 Consensus size: 79
41869614 CGTAATTCTG
41869624 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
41869689 GATTCTGTCACCTA
66 GATTCTGTCACCTA
* *
41869703 ATTCTGATTCTGATTCTGTTACTAATATTGATTTTGATTCTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
41869768 GATTCT
66 GATTCT
41869774 CATTTTGGTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (79 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGATTCT
GATTCTGTCACCTA
Found at i:41869741 original size:85 final size:85
Alignment explanation
Indices: 41869593--41869773 Score: 251
Period size: 85 Copynumber: 2.1 Consensus size: 85
41869583 TTGCATTCAC
* **
41869593 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTAATACTAATACTGATTC
41869658 TGATTCTGATT-CTG-TTACTG
66 TGATTCTG-TTACTGATT-CTG
* * **
41869678 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTAATATTGATTTTGATT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT-CTAATACTAATACTGATT
41869742 CTGATTCTGTTACTGATTCTG
65 CTGATTCTGTTACTGATTCTG
41869763 ATTCTGATTCT
1 ATTCTGATTCT
41869774 CATTTTGGTT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
84 4 0.05
85 80 0.93
86 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTAATACTAATACTGATTC
TGATTCTGTTACTGATTCTG
Found at i:41871760 original size:46 final size:44
Alignment explanation
Indices: 41871699--41871908 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 44
41871689 GACTAGAGCT
*
41871699 AGTGTAAGACATGTCTAGGACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATC-GACTACGAGATGT--GCC
* *
41871745 AGTGTCAGACATGTCTAGGACATGCATCGACTACGAGATGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGATGTGCC
* * * **
41871789 AGTGTAAGACCATGTCTGGGACATGGCATCG-GTACGTATGGAGGTGTT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACTACG-A--GATGTGCC
* *
41871837 AGTGTAAGACCATGTCT-GTGACATGGCATCGACTTGA-TAGATGAGCC
1 AGTGTAAGA-CATGTCTAG-GACAT-GCATCGAC-T-ACGAGATGTGCC
*
41871884 AATGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
41871909 ACGTTGGCAC
Statistics
Matches: 138, Mismatches: 15, Indels: 22
0.79 0.09 0.13
Matches are distributed among these distances:
44 10 0.07
45 20 0.14
46 43 0.31
47 26 0.19
48 36 0.26
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGATGTGCC
Found at i:41871907 original size:47 final size:47
Alignment explanation
Indices: 41871646--41872061 Score: 214
Period size: 47 Copynumber: 8.8 Consensus size: 47
41871636 CACATTATAA
* * * *
41871646 GAGCCAATGTAAGGCCATGTCTAGGACATGGCATTGGCATTG--AGACT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TTGATAGA-T
* * *
41871693 AGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCG--AGAT
1 -GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGATAGAT
* *
41871738 GTAAGCCAGTGTCAGA-CATGTCTAGGACAT-GCATCGAC-T-ACGAGAT
1 G--AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGA-TAGAT
* * * * * *
41871784 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGT-ATGGAG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-G-ACTTGATAGAT
* **
41871832 GTGTTAGTGTAAGACCATGTCT-GTGACATGGCATCGACTTGATAGAT
1 GAGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGACTTGATAGAT
* * * * *
41871879 GAGCCAATGTAAGACCATGTCTAGGACATGACGTTGGCAC-GGATATG-T
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGC-ATCG-ACTTGATA-GAT
* * * * * * * ** *
41871927 GAGAGCTAGTGTAAGACCACGTTTGGGACATGGCGTTGGCCTCAATTTCGAT
1 --GAGCCAGTGTAAGACCATGTCTAGGACATGGC-ATCGACTTGA--TAGAT
* * * * *
41871979 -AGTCAGTATAAGACCATGTCTAGGACATGACATCAACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATAGAT
*
41872025 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA
41872062 TATTATACCC
Statistics
Matches: 286, Mismatches: 58, Indels: 49
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 56 0.20
47 79 0.28
48 59 0.21
49 30 0.10
50 32 0.11
51 1 0.00
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATAGAT
Found at i:41872006 original size:49 final size:50
Alignment explanation
Indices: 41871888--41872009 Score: 124
Period size: 49 Copynumber: 2.5 Consensus size: 50
41871878 TGAGCCAATG
* *
41871888 TAAGACCATGTCTAGGACATGACGTTGGCACGGATATGTGAGAGCTAGTG
1 TAAGACCATGTCTAGGACATGACGTTGGCACGCATATGTGAGAGCTAGTA
* * * * * * *
41871938 TAAGACCACGTTTGGGACATGGCGTTGGC-CTCA-ATTTCGATAG-TCAGTA
1 TAAGACCATGTCTAGGACATGACGTTGGCACGCATATGT-GAGAGCT-AGTA
41871987 TAAGACCATGTCTAGGACATGAC
1 TAAGACCATGTCTAGGACATGAC
41872010 ATCAACTTGA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
48 4 0.07
49 28 0.49
50 25 0.44
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTAGGACATGACGTTGGCACGCATATGTGAGAGCTAGTA
Found at i:41882086 original size:53 final size:54
Alignment explanation
Indices: 41881998--41882203 Score: 229
Period size: 55 Copynumber: 3.8 Consensus size: 54
41881988 ACACGGGTAC
* ** *
41881998 CTTACCATTGCCATGAATTGTCATGGTCTTACATGGTATCCTTTCCTTATG-AA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTATGAAA
* *
41882051 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTT-CCTTAT-GAAA
* * * * * *
41882106 CTTATCAATGTCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTATGAAA
* *
41882159 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGCATCCTT
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
41882204 AAACCATATT
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
52 5 0.04
53 42 0.33
54 8 0.06
55 67 0.53
56 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTATGAAA
Found at i:41885189 original size:30 final size:30
Alignment explanation
Indices: 41885155--41885215 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
41885145 TTCTCGAGCC
41885155 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
41885185 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
41885215 T
1 T
41885216 GTATTAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:41885687 original size:47 final size:47
Alignment explanation
Indices: 41885636--41885812 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 47
41885626 TGGTTGAACA
*
41885636 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCAAACG
* * * *
41885683 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCAA--A--CG
* *
41885730 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATG-CGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCAAACG
* * *
41885776 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41885813 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
43 2 0.02
44 4 0.04
45 1 0.01
46 36 0.34
47 57 0.53
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCAAACG
Found at i:41892216 original size:16 final size:16
Alignment explanation
Indices: 41892197--41892227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41892187 CTTCTTCACT
41892197 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
41892213 TACTTACTTACTTAA
1 TACTCACTTACTTAA
41892228 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:41892233 original size:20 final size:20
Alignment explanation
Indices: 41892194--41892233 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
41892184 AAACTTCTTC
* *
41892194 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
41892214 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
41892234 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:41892344 original size:23 final size:24
Alignment explanation
Indices: 41892306--41892350 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
41892296 TTTGCTCTTC
*
41892306 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
41892330 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
41892351 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:41892507 original size:49 final size:50
Alignment explanation
Indices: 41892419--41892673 Score: 165
Period size: 55 Copynumber: 4.9 Consensus size: 50
41892409 ACACGGGTAC
* * * ** *
41892419 CTTACCATTGCCACGTCTCGACATGGTCTTAGGTAGTATCCTT-TTGAAA
1 CTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTTCTTGAAA
* * *
41892468 CTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTAACGAA
1 CTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTT-CTTGA--AA
* * * * * *
41892521 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGAAA
1 CTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCC--TT-C-T-T-GAAA
* * * *
41892576 CTTATCAATGTCATGTCTTGACATGGTCTTACATGATATCTTTGCCTTAGAAA
1 CTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTT--CTT-GAAA
* *
41892629 CCTTACCAATT-TCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGT-CATGTCTTGACATGGTCTTACATGGTATCCTT
41892674 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
49 38 0.24
51 2 0.01
52 2 0.01
53 39 0.24
54 12 0.07
55 65 0.40
56 2 0.01
57 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (50 bp):
CTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTTCTTGAAA
Found at i:41892606 original size:55 final size:54
Alignment explanation
Indices: 41892464--41892673 Score: 212
Period size: 55 Copynumber: 3.9 Consensus size: 54
41892454 GTATCCTTTT
* * *
41892464 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTA-A
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTA-CCTTTGCCTATA
* * * * *
41892517 CG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
1 -GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTACCTTTGCC-TATA
* * * *
41892572 GAAACTTATCAATGTCATGTCTTGACATGGTCTTACATGATATCTTTGCCT-TA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTATA
* *
41892625 GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAATGT-CATGCCTTGACATGGTCTTACATGGTA-CCTT
41892674 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 14 0.11
55 64 0.51
56 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTACCTTTGCCTATA
Found at i:41892610 original size:108 final size:110
Alignment explanation
Indices: 41892464--41892666 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
41892454 GTATCCTTTT
* *
41892464 GAAACTTACCATTGTCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTAACG-AA-CTCACC
1 GAAACTTACCAATGTCATGTCTCGACATGGTCTTACATGATATCCTTGCCTAA-GAAACCTCACC
41892527 AA-TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
* * * * *
41892572 GAAACTTATCAATGTCATGTCTTGACATGGTCTTACATGATATCTTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGTCATGTCTCGACATGGTCTTACATGATATCCTTGCCTAAGAAACCTCACCA
*
41892637 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTGGCATGGTCTTACATGG
41892667 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
GAAACTTACCAATGTCATGTCTCGACATGGTCTTACATGATATCCTTGCCTAAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATA
Found at i:41909838 original size:42 final size:42
Alignment explanation
Indices: 41909791--41909897 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
41909781 TATTGGTCTC
41909791 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
41909833 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
41909875 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
41909898 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:41909962 original size:27 final size:28
Alignment explanation
Indices: 41909905--41909974 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
41909895 AAAATTGTAC
**
41909905 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
41909933 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
41909960 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41909975 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:41917069 original size:42 final size:42
Alignment explanation
Indices: 41917022--41917128 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
41917012 TATTGGTCTC
41917022 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
41917064 GGCACTAAGTGTGTGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
41917106 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
41917129 ATTGTACAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:41917193 original size:27 final size:28
Alignment explanation
Indices: 41917136--41917205 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
41917126 AAAATTGTAC
**
41917136 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
41917164 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
41917191 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41917206 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:41919457 original size:70 final size:70
Alignment explanation
Indices: 41919344--41919484 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
41919334 AAGGTTAATG
* *
41919344 CCCCCTCCCAATATTGACCGAATAATCAATTTAAATATCTCCCATGCTTGTCTCAATGTCTCAGT
1 CCCCCTCCCAATATTGACCGAATAATCAATTTAAAAATCTCCCATGCTTGTCCCAATGTCTCAGT
41919409 AACAT
66 AACAT
* * * *
41919414 CCCCCTCCCAATATTGACTGAATACTCAATTTAAAAATCTCCCATGCTTGTCCCAGTGTCTTAGT
1 CCCCCTCCCAATATTGACCGAATAATCAATTTAAAAATCTCCCATGCTTGTCCCAATGTCTCAGT
41919479 AACAT
66 AACAT
41919484 C
1 C
41919485 TTTCTTGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (70 bp):
CCCCCTCCCAATATTGACCGAATAATCAATTTAAAAATCTCCCATGCTTGTCCCAATGTCTCAGT
AACAT
Found at i:41922663 original size:30 final size:30
Alignment explanation
Indices: 41922621--41922700 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
41922611 AGTCGAAGCT
* * **
41922621 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCATTTCATAATTCGATAATCGTCACC
* * *
41922651 ATTCCATTTCATAGTTCGATAATTGTCACC
1 ATCCCATTTCATAATTCGATAATCGTCACC
*
41922681 ATCCCTTTTCATAA-TCGATA
1 ATCCCATTTCATAATTCGATA
41922701 GCTGAAGCTA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 6 0.15
30 34 0.85
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (30 bp):
ATCCCATTTCATAATTCGATAATCGTCACC
Found at i:41923016 original size:22 final size:22
Alignment explanation
Indices: 41922991--41923035 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
41922981 AAATTTGAGA
41922991 AAAATTATAATTTGGCCCTTAT
1 AAAATTATAATTTGGCCCTTAT
41923013 AAAATTATAATTTGGCCCTTAT
1 AAAATTATAATTTGGCCCTTAT
41923035 A
1 A
41923036 CTTTTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAATTATAATTTGGCCCTTAT
Found at i:41928767 original size:12 final size:13
Alignment explanation
Indices: 41928742--41928772 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
41928732 TGCAAATAAA
41928742 TCATTTCTCATTT
1 TCATTTCTCATTT
41928755 TCATTTC-CATTT
1 TCATTTCTCATTT
41928767 TCATTT
1 TCATTT
41928773 TGAGAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.16, C:0.23, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:41928844 original size:45 final size:44
Alignment explanation
Indices: 41928759--41928856 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
41928749 TCATTTTCAT
* * *
41928759 TTCCATTT-TCATTTTGAGAAAACTATATTCATTTCCAAATG-A
1 TTCCATTTCTCATTTTGAGAAAACCATAATAATTTCCAAATGTA
* * *
41928801 TTCCATTTCTCCATTTTGGAGGAAACCATAATAATTTCTAAATGTT
1 TTCCATTTCT-CATTTT-GAGAAAACCATAATAATTTCCAAATGTA
41928847 TTCCATTTCT
1 TTCCATTTCT
41928857 GTATTTGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 8 0.17
43 1 0.02
44 6 0.13
45 21 0.46
46 10 0.22
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (44 bp):
TTCCATTTCTCATTTTGAGAAAACCATAATAATTTCCAAATGTA
Found at i:41929315 original size:103 final size:104
Alignment explanation
Indices: 41929135--41929323 Score: 292
Period size: 103 Copynumber: 1.8 Consensus size: 104
41929125 ACCTTGCAGA
* * *
41929135 AAAATCGATACCAAAATTCAATTCTATTTTCTTTGTAAAAAAAATGGTATCGATAATTAGTTGAT
1 AAAATCGATACAAAAATTCAATTCTATTTTCTTTGTAAAAAAAATGGTAACAATAATTAGTTGAT
41929200 GGTATCAATATTTTACAAAAAGGTATTGATAATCAATTG
66 GGTATCAATATTTTACAAAAAGGTATTGATAATCAATTG
* * *
41929239 AAAATTGATACAAAAATTCAACTT-TGTTTTCTTTGT-AAAACAATGGTAACAATAATTAGTTGA
1 AAAATCGATACAAAAATTCAA-TTCTATTTTCTTTGTAAAAAAAATGGTAACAATAATTAGTTGA
*
41929302 TGGTATCGATATTTTACAAAAA
65 TGGTATCAATATTTTACAAAAA
41929324 AATCAATACC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 45 0.58
104 30 0.39
105 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (104 bp):
AAAATCGATACAAAAATTCAATTCTATTTTCTTTGTAAAAAAAATGGTAACAATAATTAGTTGAT
GGTATCAATATTTTACAAAAAGGTATTGATAATCAATTG
Found at i:41931849 original size:10 final size:10
Alignment explanation
Indices: 41931822--41931851 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
41931812 AAACTTTAGT
*
41931822 TATTTTTATC
1 TATTTTTGTC
41931832 TATTTTTGTC
1 TATTTTTGTC
41931842 TATTTTTGTC
1 TATTTTTGTC
41931852 CATGAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.10, G:0.07, T:0.70
Consensus pattern (10 bp):
TATTTTTGTC
Found at i:41937027 original size:15 final size:15
Alignment explanation
Indices: 41937005--41937035 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
41936995 GTTCGGGGCA
41937005 TAAAAAAATTTAATTT
1 TAAAAAAA-TTAATTT
41937021 TAAAAAAATTAATTT
1 TAAAAAAATTAATTT
41937036 GCCCACATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAAAAATTAATTT
Found at i:41938421 original size:54 final size:54
Alignment explanation
Indices: 41938228--41938422 Score: 169
Period size: 54 Copynumber: 3.6 Consensus size: 54
41938218 TTACTATTTT
* * * * * * *
41938228 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCATTGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAAAACTTACCAATGC
* ** * * * ** *
41938281 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTACCTTATA-AAACTTACCAATGC
* * *
41938336 CATGTCTTGACATGGTCTTACAAT-ATTTCCTTACCTTGTAAAACTTACCAATGC
1 CATGCCTTGACATGGTCTTAC-ATGATATCCTTACCTTATAAAACTTACCAATGC
* *
41938390 CATGCCTTGGCATGGTCTTACTTGATATCCTTA
1 CATGCCTTGACATGGTCTTACATGATATCCTTA
41938423 AACCCTAATG
Statistics
Matches: 111, Mismatches: 27, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
53 35 0.32
54 37 0.33
55 37 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTACCTTATAAAACTTACCAATGC
Found at i:41942833 original size:39 final size:39
Alignment explanation
Indices: 41942715--41942897 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
41942705 TCGTTCAAAC
* * ** * **
41942715 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
41942755 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
41942795 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
41942834 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
41942873 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
41942898 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:41947652 original size:40 final size:39
Alignment explanation
Indices: 41947484--41947654 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
41947474 AGAAATTGAA
* *
41947484 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
41947524 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
41947564 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
41947604 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
41947644 TGATATCCGGG
1 TGATATCCGGG
41947655 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:41955324 original size:15 final size:16
Alignment explanation
Indices: 41955294--41955325 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
41955284 GATGTTCATG
41955294 TGAAATTGACATGATA
1 TGAAATTGACATGATA
41955310 TGAAATTGA-ATGATA
1 TGAAATTGACATGATA
41955325 T
1 T
41955326 CCGGGCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (16 bp):
TGAAATTGACATGATA
Found at i:41955381 original size:40 final size:40
Alignment explanation
Indices: 41955322--41955464 Score: 119
Period size: 40 Copynumber: 3.5 Consensus size: 40
41955312 AAATTGAATG
* *
41955322 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
41955362 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
41955402 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTATATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAG-AAACT
*
41955443 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
41955465 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 59 0.69
41 23 0.27
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:41955458 original size:41 final size:39
Alignment explanation
Indices: 41955361--41955490 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 39
41955351 TGCTGGAAAT
* * *
41955361 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
41955401 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTATAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGT-GAC
* *
41955442 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
41955482 TATATCCGG
1 TATATCCGG
41955491 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
39 3 0.04
40 42 0.54
41 31 0.40
42 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:41958856 original size:40 final size:40
Alignment explanation
Indices: 41958811--41958976 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
41958801 CGGAATATAA
41958811 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
41958851 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41958890 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
41958930 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
41958969 CCGGATAT
1 CCGGATAT
41958977 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 44 0.42
40 59 0.57
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41958875 original size:39 final size:40
Alignment explanation
Indices: 41958827--41958936 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
41958817 ATAATCACGT
* *
41958827 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
41958866 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
41958906 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
41958937 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:41966844 original size:40 final size:40
Alignment explanation
Indices: 41966799--41966966 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
41966789 CGGAATATAA
41966799 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
41966839 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41966879 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
41966919 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
41966959 CCGGATAT
1 CCGGATAT
41966967 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41966949 original size:80 final size:80
Alignment explanation
Indices: 41966815--41966964 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
41966805 ATAATCACGT
*
41966815 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
41966879 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
41966895 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
41966958 CCCGGAT
64 CCCGGAT
41966965 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:41970688 original size:43 final size:45
Alignment explanation
Indices: 41970618--41970737 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
41970608 AGACTTTTAT
* ** *
41970618 TCATTCACCGGCATT-TCGCCTGCTAGGCT-GGAGGCTCG-ATA-
1 TCATTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG
41970659 TCATGTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG
* *
41970705 T-ATCTCACCGGCATAATAGCCTGCCAGGCTCAA
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCTCAA
41970738 GGCTTGAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
41 4 0.06
42 11 0.16
43 13 0.19
44 6 0.09
45 32 0.48
46 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (45 bp):
TCATTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAG
Found at i:41970810 original size:38 final size:38
Alignment explanation
Indices: 41970745--41970913 Score: 250
Period size: 38 Copynumber: 4.4 Consensus size: 38
41970735 CAAGGCTTGA
* * * *
41970745 ATATAATACTAGTACTAGGCCTACGGGATTTAACCCGG
1 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGG
* *
41970783 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGT
1 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGG
*
41970821 ATATAATACTAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGG
41970859 ATA-AATTACTAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAA-TACTAGCACGAAGCCTGCGGGATTTAACCCGG
*
41970897 ATATATTACTAGCACGA
1 ATATAATACTAGCACGA
41970914 TGTAACACCC
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 2 0.02
38 115 0.97
39 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:41972390 original size:79 final size:81
Alignment explanation
Indices: 41972289--41972473 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
41972279 ACGACTCGCT
** * *
41972289 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
41972352 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
41972369 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
41972433 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
41972449 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41972474 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:41972473 original size:40 final size:39
Alignment explanation
Indices: 41972282--41972473 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
41972272 GGATATAACG
* ** * *
41972282 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
41972322 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
41972362 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
41972401 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
41972441 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
41972474 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:41974204 original size:38 final size:38
Alignment explanation
Indices: 41974153--41974297 Score: 218
Period size: 38 Copynumber: 3.8 Consensus size: 38
41974143 GGCTGTCACA
41974153 CACGAAGCCTGCGGGATTTAACCCGGATATAATACCAG
1 CACGAAGCCTGCGGGATTTAACCCGGATATAATACCAG
* * *
41974191 CACGAAGCTTGCGGGATTTAACTCGGATATATTACCAG
1 CACGAAGCCTGCGGGATTTAACCCGGATATAATACCAG
* *
41974229 CACGAAGCATGTGGGATTTAACCCGGATATAATACCAG
1 CACGAAGCCTGCGGGATTTAACCCGGATATAATACCAG
*
41974267 CACGAAGCCTGCGGGTCTTTAAGCCCGGATA
1 CACGAAGCCTGCGGG-ATTTAA-CCCGGATA
41974298 CACATCAAAT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 82 0.86
39 5 0.05
40 8 0.08
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (38 bp):
CACGAAGCCTGCGGGATTTAACCCGGATATAATACCAG
Found at i:41974632 original size:43 final size:44
Alignment explanation
Indices: 41974570--41974663 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 44
41974560 ATCACATAAC
* * *
41974570 ATATCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-
1 ATATCATTTCACCAGCATTATAGCCTGCAAGGCCCAAAGCCCGA
* * *
41974613 ATATCGTTTTACCAGCATTATAGCCTGCAAGGCCCGAAGCCCGA
1 ATATCATTTCACCAGCATTATAGCCTGCAAGGCCCAAAGCCCGA
41974657 ATATCAT
1 ATATCAT
41974664 ATTTTGATAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 37 0.86
44 6 0.14
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (44 bp):
ATATCATTTCACCAGCATTATAGCCTGCAAGGCCCAAAGCCCGA
Found at i:41983093 original size:38 final size:38
Alignment explanation
Indices: 41983008--41983118 Score: 116
Period size: 38 Copynumber: 2.9 Consensus size: 38
41982998 TTATTACACT
* * * *
41983008 AGCACCAAGCCTGAATAGCACTGGCACTAAGCCTGTTC
1 AGCACTAAGCCTGAATAACACCGGCACTAAGCCTGCTC
* *
41983046 AGCATTAAGCGTGAATAACACCGGCACTAAGCCTGCT-
1 AGCACTAAGCCTGAATAACACCGGCACTAAGCCTGCTC
* * **
41983083 AGAGACTAAGCCTAAATAACACCCTCACTAAGCCTG
1 AG-CACTAAGCCTGAATAACACCGGCACTAAGCCTG
41983119 AATAACAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 2 0.03
38 58 0.97
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (38 bp):
AGCACTAAGCCTGAATAACACCGGCACTAAGCCTGCTC
Found at i:41986530 original size:7 final size:7
Alignment explanation
Indices: 41986518--41986550 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
41986508 TTTTATTAGA
41986518 CCCAAAG
1 CCCAAAG
41986525 CCCAAAG
1 CCCAAAG
41986532 CCCAAAG
1 CCCAAAG
41986539 CCCAAAG
1 CCCAAAG
41986546 CCCAA
1 CCCAA
41986551 TTCATCTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.45, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:41990252 original size:42 final size:42
Alignment explanation
Indices: 41990186--41990360 Score: 172
Period size: 42 Copynumber: 4.2 Consensus size: 42
41990176 ATATGGCATC
* * *
41990186 GGCATCGATATGTG-TTATCATGTAAGACCATATCTGGGATAT
1 GGCATTGATATGAGATT-TCATGTAAGACCATATCTGGGACAT
* * **
41990228 GGCGTTGATATGAGATTTCTTGTAAGACCACGTCTGGGACAT
1 GGCATTGATATGAGATTTCATGTAAGACCATATCTGGGACAT
* * * * *
41990270 GGCATTGAAATGATATTTCATATAATACCATATCTGGGATAT
1 GGCATTGATATGAGATTTCATGTAAGACCATATCTGGGACAT
* * * * * *
41990312 GACATCGATGTGAGATCTCATGTAAGACCATGTTTGGGACAT
1 GGCATTGATATGAGATTTCATGTAAGACCATATCTGGGACAT
41990354 GGCATTG
1 GGCATTG
41990361 GTATCTTATT
Statistics
Matches: 103, Mismatches: 29, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
42 101 0.98
43 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (42 bp):
GGCATTGATATGAGATTTCATGTAAGACCATATCTGGGACAT
Found at i:41990336 original size:84 final size:84
Alignment explanation
Indices: 41990203--41990360 Score: 226
Period size: 84 Copynumber: 1.9 Consensus size: 84
41990193 ATATGTGTTA
* * * * * *
41990203 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGATTTCTTGTAAGACCACGTCTGGGAC
1 TCATATAAGACCATATCTGGGATATGACATCGATATGAGATCTCATGTAAGACCACGTCTGGGAC
41990268 ATGGCATTGAAATGATATT
66 ATGGCATTGAAATGATATT
* * * *
41990287 TCATATAATACCATATCTGGGATATGACATCGATGTGAGATCTCATGTAAGACCATGTTTGGGAC
1 TCATATAAGACCATATCTGGGATATGACATCGATATGAGATCTCATGTAAGACCACGTCTGGGAC
41990352 ATGGCATTG
66 ATGGCATTG
41990361 GTATCTTATT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (84 bp):
TCATATAAGACCATATCTGGGATATGACATCGATATGAGATCTCATGTAAGACCACGTCTGGGAC
ATGGCATTGAAATGATATT
Found at i:41996425 original size:25 final size:26
Alignment explanation
Indices: 41996373--41996468 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
41996363 GAGGAAGTGC
* *
41996373 AAAAGGGC-TATGCCCTAG-TTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
41996397 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* *
41996422 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTACCG
41996448 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
41996469 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
24 16 0.24
25 14 0.21
26 36 0.55
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:41996481 original size:25 final size:25
Alignment explanation
Indices: 41996372--41996481 Score: 111
Period size: 26 Copynumber: 4.4 Consensus size: 25
41996362 GGAGGAAGTG
* * *
41996372 CAAAAGGGC-TATGCCCTAG-TTAC
1 CAAAAGGGCTTTTGCCCCAGTTTAT
*
41996395 CGAAAAGGGC-TTTGCCCCAGTTTAC
1 C-AAAAGGGCTTTTGCCCCAGTTTAT
41996420 CGAAAAGGGCTTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTTGCCCCAGTTTAT
41996446 CAAAAAGGGCTTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTTGCCCCAGTTTAT
*
41996471 TAAAAGAGGCT
1 CAAAAG-GGCT
41996482 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
23 1 0.01
24 21 0.27
25 22 0.28
26 34 0.44
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTTTGCCCCAGTTTAT
Found at i:41996726 original size:31 final size:31
Alignment explanation
Indices: 41996688--41996766 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
41996678 CTGTTACAGT
41996688 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
41996719 AAAGGCTTCGGACCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
**
41996750 AAAGGCTTTAGCCCAGT
1 AAAGGCTTCGGCCCAGT
41996767 ATCTGCTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:42001925 original size:43 final size:42
Alignment explanation
Indices: 42001844--42001950 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 42
42001834 GTAAGACCAC
* * *
42001844 GTCTGGGACATTGGCATCGTATTTGATTTCGTGCAAGACTCT
1 GTCTGGGACAGTGGCATCGTATTTGATTACATGCAAGACTCT
* * * *
42001886 GTCTGGGATAGTGGCATTGATATTTGATTACATGTAAGAC-CAC
1 GTCTGGGACAGTGGCATCG-TATTTGATTACATGCAAGACTC-T
*
42001929 GTCTGGGAC-GTTGGCATTGTAT
1 GTCTGGGACAG-TGGCATCGTAT
42001951 GAGCTCTCCG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 21 0.39
43 33 0.61
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (42 bp):
GTCTGGGACAGTGGCATCGTATTTGATTACATGCAAGACTCT
Found at i:42009575 original size:40 final size:40
Alignment explanation
Indices: 42009492--42009644 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
42009482 TCGAATGATG
* *
42009492 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
42009532 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* * **
42009572 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
42009613 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
42009645 CGCTATATCC
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 79 0.86
41 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:42020487 original size:13 final size:13
Alignment explanation
Indices: 42020469--42020493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42020459 GCTCGACAGG
42020469 GACACGCCCGTGA
1 GACACGCCCGTGA
42020482 GACACGCCCGTG
1 GACACGCCCGTG
42020494 TGCGATTGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGCCCGTGA
Found at i:42022313 original size:42 final size:42
Alignment explanation
Indices: 42022211--42022459 Score: 241
Period size: 43 Copynumber: 5.9 Consensus size: 42
42022201 TATGTTTTTG
* * *
42022211 TCGTGTAAGACCACGTCTGGGACGTTGGCATTG-ACTTATGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATT
* * *
42022254 TACATGTAAGA-CATGTCTGGTACTTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
* *
42022296 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT
* * *
42022339 ACGTGTAAGACCATGTCTGGGACTTTGGCATCGTATTGGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
* * *
42022381 TTGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATT
* * * * * ** *
42022424 ACATGTAGGACAATGTTTGGGATGTTGGCATTGTAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
42022460 GAGCTTTTCG
Statistics
Matches: 169, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
41 8 0.05
42 63 0.37
43 89 0.53
44 9 0.05
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATT
Found at i:42022354 original size:85 final size:85
Alignment explanation
Indices: 42022211--42022459 Score: 326
Period size: 85 Copynumber: 2.9 Consensus size: 85
42022201 TATGTTTTTG
** * *
42022211 TCGTGTAAGACCACGTCTGGGAC-GTTGGCATTGACT-TATGATTTACATGTAAGA-CATGTCTG
1 TCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACATGTAAGACCATGTCTG
* *
42022273 GTACTTTGGCATCGTATTTGATT
63 GGACTTTGGCATCGTATTGGATT
*
42022296 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCATGTCTGGGA
42022361 CTTTGGCATCGTATTGGATT
66 CTTTGGCATCGTATTGGATT
* * * *
42022381 TTGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAGGACAATGTTTGGGA
1 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCATGTCTGGGA
*
42022446 -TGTTGGCATTGTAT
66 CT-TTGGCATCGTAT
42022460 GAGCTTTTCG
Statistics
Matches: 147, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
84 13 0.09
85 133 0.90
86 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (85 bp):
TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCATGTCTGGGA
CTTTGGCATCGTATTGGATT
Found at i:42022454 original size:128 final size:128
Alignment explanation
Indices: 42022212--42022445 Score: 276
Period size: 128 Copynumber: 1.8 Consensus size: 128
42022202 ATGTTTTTGT
* * *
42022212 CGTGTAAGACCACGTCTGGGACGTTGGCATTGACTTATGATTTACATGTAAGACATGTCTGGTAC
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTAGGATTTACATGTAAGACATGTCTGGGAC
** * * **
42022277 TTTGGCATCGTATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTA
66 AGTGGCATCGTATTTGATTACATGTAAGACAATGTCTGGGACAGTGGCATCGATATTTGATTA
* * ** *
42022340 CGTGTAAGACCATGTCTGGGACTTTGGCATCGTA-TT-GGATTT-TGTGTAAGACCTTGTCTGGG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTAGGATTTACATGTAAGA-CATGTCTGGG
* *
42022402 ACAGTGGCATCGATATTTGATTACATGTAGGACAATGTTTGGGA
64 ACAGTGGCATCG-TATTTGATTACATGTAAGACAATGTCTGGGA
42022446 TGTTGGCATT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
126 7 0.08
127 23 0.26
128 56 0.64
129 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (128 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTAGGATTTACATGTAAGACATGTCTGGGAC
AGTGGCATCGTATTTGATTACATGTAAGACAATGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:42024715 original size:339 final size:339
Alignment explanation
Indices: 42024090--42024772 Score: 1294
Period size: 339 Copynumber: 2.0 Consensus size: 339
42024080 CCAATAAGCT
*
42024090 TAATACCCCACATACTCATAACAACTTCTCTTCAGAATCGTACACTTTAGGAATCCTTTGCTGAG
1 TAATACCCCACATACTCATAACAACTTCTCTTCAGAATCATACACTTTAGGAATCCTTTGCTGAG
42024155 AATGCCAACGGTTTTCCCAAATTGGCGAATTCAAAATTTGGTAGCTAATTTCATGAGTTCAAACG
66 AATGCCAACGGTTTTCCCAAATTGGCGAATTCAAAATTTGGTAGCTAATTTCATGAGTTCAAACG
42024220 TTACATAGCTCACTCATTGACAGATGTCCAATTTAAATTAAAGAACCTGAATAGTTGCCATGAGT
131 TTACATAGCTCACTCATTGACAGATGTCCAATTTAAATTAAAGAACCTGAATAGTTGCCATGAGT
42024285 TAAACTTCTTGCATACGTTTGTTTTTCTATAAAATTGAAACGTAAATACCTCTTTCAAAACATTT
196 TAAACTTCTTGCATACGTTTGTTTTTCTATAAAATTGAAACGTAAATACCTCTTTCAAAACATTT
* *
42024350 TGTTGAATCAATCGAAACCTTAATTTCTTTCTTGTCCAAAAATTTTCTTCTTCGTCATTAGTCAT
261 TGTTGAATCAATCGAAACCATAATTTCTTTCTTGTCCAAAAATTTTATTCTTCGTCATTAGTCAT
42024415 TTTTTTCTCAAAGG
326 TTTTTTCTCAAAGG
* *
42024429 TAATACCTCATATACTCATAACAACTTCTCTTCAGAATCATACACTTTAGGAATCCTTTGCTGAG
1 TAATACCCCACATACTCATAACAACTTCTCTTCAGAATCATACACTTTAGGAATCCTTTGCTGAG
* *
42024494 AATGCCAACGGTTTTCCCAAATTGTCGAATTCAGAATTTGGTAGCTAATTTCATGAGTTCAAACG
66 AATGCCAACGGTTTTCCCAAATTGGCGAATTCAAAATTTGGTAGCTAATTTCATGAGTTCAAACG
42024559 TTACATAGCTCACTCATTGACAGATGTCCAATTTAAATTAAAGAACCTGAATAGTTGCCATGAGT
131 TTACATAGCTCACTCATTGACAGATGTCCAATTTAAATTAAAGAACCTGAATAGTTGCCATGAGT
*
42024624 TAAACTTCTTGCATACGTTTGTTTTTCTATAAAATTGAAACTTAAATACCTCTTTCAAAACATTT
196 TAAACTTCTTGCATACGTTTGTTTTTCTATAAAATTGAAACGTAAATACCTCTTTCAAAACATTT
42024689 TGTTGAATCAATCGAAACCATAATTTCTTTCTTGTCCAAAAATTTTATTCTTCGTCATTAGTCAT
261 TGTTGAATCAATCGAAACCATAATTTCTTTCTTGTCCAAAAATTTTATTCTTCGTCATTAGTCAT
42024754 TTTTTTCTCAAAGG
326 TTTTTTCTCAAAGG
42024768 TAATA
1 TAATA
42024773 TTTATTCTTC
Statistics
Matches: 336, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
339 336 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (339 bp):
TAATACCCCACATACTCATAACAACTTCTCTTCAGAATCATACACTTTAGGAATCCTTTGCTGAG
AATGCCAACGGTTTTCCCAAATTGGCGAATTCAAAATTTGGTAGCTAATTTCATGAGTTCAAACG
TTACATAGCTCACTCATTGACAGATGTCCAATTTAAATTAAAGAACCTGAATAGTTGCCATGAGT
TAAACTTCTTGCATACGTTTGTTTTTCTATAAAATTGAAACGTAAATACCTCTTTCAAAACATTT
TGTTGAATCAATCGAAACCATAATTTCTTTCTTGTCCAAAAATTTTATTCTTCGTCATTAGTCAT
TTTTTTCTCAAAGG
Found at i:42028809 original size:21 final size:20
Alignment explanation
Indices: 42028785--42028832 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
42028775 TTGTTTAGAT
42028785 GTTTTATGATAGATTATTAAA
1 GTTTTATGATAGATTA-TAAA
* * * *
42028806 GTTTGAAGCTAGATTATCAA
1 GTTTTATGATAGATTATAAA
42028826 GTTTTAT
1 GTTTTAT
42028833 AAGGTGATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
GTTTTATGATAGATTATAAA
Found at i:42034027 original size:40 final size:40
Alignment explanation
Indices: 42033824--42034005 Score: 262
Period size: 40 Copynumber: 4.5 Consensus size: 40
42033814 CTAAGTCCCT
* *
42033824 AAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCG
1 AAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCG
*
42033864 AAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
*
42033904 AAGGTATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
*
42033944 AAGGCATTTGTACGAGTTACTAAATCCGGGA-TAAG-TCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT-CCG
*
42033984 AAGGCATTTGTGCGAGCTACTA
1 AAGGCATTTGTGCGAGTTACTA
42034006 TAACCGGGCC
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
Found at i:42034033 original size:40 final size:40
Alignment explanation
Indices: 42033808--42034033 Score: 246
Period size: 40 Copynumber: 5.7 Consensus size: 40
42033798 TCGAATGATG
* * *
42033808 TCCGGGCTAAGTCCCTAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
42033848 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
42033888 TCCAGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42033928 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42033968 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
42034009 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42034034 AACGAGTGGC
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 154 0.93
41 10 0.06
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42036780 original size:27 final size:27
Alignment explanation
Indices: 42036750--42036889 Score: 190
Period size: 27 Copynumber: 5.2 Consensus size: 27
42036740 CGATTTACAA
42036750 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
* *
42036777 AATTATTGAAATACCCCTGTAGAGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
*
42036804 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
* **
42036831 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
* * * *
42036858 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTATTGAAATACCCTTGTAGGGTAG
42036885 AATTA
1 AATTA
42036890 CCATTTTGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTATTGAAATACCCTTGTAGGGTAG
Found at i:42037457 original size:22 final size:22
Alignment explanation
Indices: 42037406--42037467 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
42037396 CCAATAATTT
* *
42037406 TGATTATAGCTTTGCGCCAACC
1 TGATTATGGCTTTGTGCCAACC
*
42037428 T-ACATATGGCTTTGTGCCAACC
1 TGA-TTATGGCTTTGTGCCAACC
42037450 TGATTATGG-TTGTGTGCC
1 TGATTATGGCTT-TGTGCC
42037468 GTTATTGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 29 0.88
23 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (22 bp):
TGATTATGGCTTTGTGCCAACC
Found at i:42037714 original size:6 final size:6
Alignment explanation
Indices: 42037705--42037798 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
42037695 TTGCATTCAC
* * * * *
42037705 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
42037755 ATTCTG ATTCTG ATTCTG ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
42037799 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
5 4 0.06
6 54 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:42037737 original size:25 final size:25
Alignment explanation
Indices: 42037708--42037772 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
42037698 CATTCACATT
* * *
42037708 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
42037733 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
42037758 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
42037773 ATTCTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Done.