Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 80 of 276
Found at i:24561547 original size:116 final size:116
Alignment explanation
Indices: 24561343--24561589 Score: 494
Period size: 116 Copynumber: 2.1 Consensus size: 116
24561333 CTTTGAAAAA
24561343 TTGTGTCCTAACTTATTGAGTTTCAATTTTCCTCGTTGAACCTAAGTAACCGAGTACCCTTTTCA
1 TTGTGTCCTAACTTATTGAGTTTCAATTTTCCTCGTTGAACCTAAGTAACCGAGTACCCTTTTCA
24561408 ATCAAAACGTATAAGTTTCAAATAAAAGCTTATTCTCAGAAATTCGAGGTG
66 ATCAAAACGTATAAGTTTCAAATAAAAGCTTATTCTCAGAAATTCGAGGTG
24561459 TTGTGTCCTAACTTATTGAGTTTCAATTTTCCTCGTTGAACCTAAGTAACCGAGTACCCTTTTCA
1 TTGTGTCCTAACTTATTGAGTTTCAATTTTCCTCGTTGAACCTAAGTAACCGAGTACCCTTTTCA
24561524 ATCAAAACGTATAAGTTTCAAATAAAAGCTTATTCTCAGAAATTCGAGGTG
66 ATCAAAACGTATAAGTTTCAAATAAAAGCTTATTCTCAGAAATTCGAGGTG
24561575 TTGTGTCCTAACTTA
1 TTGTGTCCTAACTTA
24561590 CTGGATATGA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 131 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (116 bp):
TTGTGTCCTAACTTATTGAGTTTCAATTTTCCTCGTTGAACCTAAGTAACCGAGTACCCTTTTCA
ATCAAAACGTATAAGTTTCAAATAAAAGCTTATTCTCAGAAATTCGAGGTG
Found at i:24566304 original size:20 final size:20
Alignment explanation
Indices: 24566279--24566316 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24566269 TTTTGTGATT
*
24566279 ATTTTAAAGATTATTTTGTA
1 ATTTTAAAAATTATTTTGTA
24566299 ATTTTAAAAATTATTTTG
1 ATTTTAAAAATTATTTTG
24566317 ATTATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTTAAAAATTATTTTGTA
Found at i:24575575 original size:72 final size:72
Alignment explanation
Indices: 24575491--24575635 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
24575481 AAATAACACA
24575491 TAACGAGAAAAATCAATGCCTGTCATCAAGAAAACAGCAATGGAAAAAAAAATTGGCGGAAAAAG
1 TAACGAGAAAAATCAATGCCTGTCATCAAGAAAACAGCAATGGAAAAAAAAATTGGCGGAAAAAG
24575556 AGTACAT
66 AGTACAT
24575563 TAACGAGAAAAATCAATGCCTGTCATCAAGAAAACAGCAATGGAAAAAAAAATTGGCGGAAAAAG
1 TAACGAGAAAAATCAATGCCTGTCATCAAGAAAACAGCAATGGAAAAAAAAATTGGCGGAAAAAG
24575628 AGTACAT
66 AGTACAT
24575635 T
1 T
24575636 TAAACGCTGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (72 bp):
TAACGAGAAAAATCAATGCCTGTCATCAAGAAAACAGCAATGGAAAAAAAAATTGGCGGAAAAAG
AGTACAT
Found at i:24582052 original size:32 final size:32
Alignment explanation
Indices: 24581989--24582048 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
24581979 TTATTCAATG
24581989 TTAGATGAGAAAAGAAAAGTAAATAAGAATTT
1 TTAGATGAGAAAAGAAAAGTAAATAAGAATTT
24582021 TTAGATGAGAAAA-AAAAGTAAATAAGAA
1 TTAGATGAGAAAAGAAAAGTAAATAAGAA
24582049 ATTTCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.18, T:0.22
Consensus pattern (32 bp):
TTAGATGAGAAAAGAAAAGTAAATAAGAATTT
Found at i:24582281 original size:13 final size:13
Alignment explanation
Indices: 24582259--24582333 Score: 69
Period size: 13 Copynumber: 5.8 Consensus size: 13
24582249 TTCTTCATTG
*
24582259 CTTTTAAAAAGTA
1 CTTTTGAAAAGTA
*
24582272 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* * *
24582285 CTGTGGAAAAGTG
1 CTTTTGAAAAGTA
* *
24582298 CTTTTGAGAATTA
1 CTTTTGAAAAGTA
*
24582311 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
*
24582324 CTTTGGAAAA
1 CTTTTGAAAA
24582334 ATTTAAGTGC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:24582618 original size:21 final size:19
Alignment explanation
Indices: 24582562--24582622 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
24582552 TAATTATTTA
24582562 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
24582581 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
24582600 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
24582621 TT
1 TT
24582623 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:24585617 original size:16 final size:17
Alignment explanation
Indices: 24585578--24585610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24585568 ATATTATTTT
24585578 TAAAT-TATTTGAAATA
1 TAAATATATTTGAAATA
*
24585594 TAAATATATTTAAAATA
1 TAAATATATTTGAAATA
24585611 ATATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATATATTTGAAATA
Found at i:24591065 original size:34 final size:34
Alignment explanation
Indices: 24591022--24591089 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24591012 CGTACACAAT
24591022 AGTTCATCCCATGCAACACTTTTTTGACTTTAGC
1 AGTTCATCCCATGCAACACTTTTTTGACTTTAGC
24591056 AGTTCATCCCATGCAACACTTTTTTGACTTTAGC
1 AGTTCATCCCATGCAACACTTTTTTGACTTTAGC
24591090 CAAAAGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (34 bp):
AGTTCATCCCATGCAACACTTTTTTGACTTTAGC
Found at i:24597659 original size:16 final size:15
Alignment explanation
Indices: 24597626--24597655 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24597616 AATCATTTAA
24597626 AAATTATAAAAATAT
1 AAATTATAAAAATAT
*
24597641 AAATTATTAAAATAT
1 AAATTATAAAAATAT
24597656 TAAAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:24601048 original size:5 final size:5
Alignment explanation
Indices: 24601038--24601062 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24601028 GCTACCTGAC
24601038 ACAAA ACAAA ACAAA ACAAA ACAAA
1 ACAAA ACAAA ACAAA ACAAA ACAAA
24601063 GAGCCATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:24602600 original size:4 final size:4
Alignment explanation
Indices: 24602591--24602617 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24602581 GTCAATTATT
24602591 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
24602618 TATGGGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:24604912 original size:417 final size:413
Alignment explanation
Indices: 24603571--24606256 Score: 3032
Period size: 417 Copynumber: 6.5 Consensus size: 413
24603561 AATATGTTTT
* ** *
24603571 ATTATAGAGAGGGTTTACTCGTTTGTATATGTAACCACTAAAAAGTT--ATCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAACC-CTAAAAGGTTACATCACTTTGTTTGTCT
* *
24603634 TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATACT-GAATTTA
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAAT-CTCAAATTTA
* * *
24603698 TTGATTTCGGTTTCACTTGGATAATAGTTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATATAAA
129 TTGATTTCGGTTTCACTTGGATTATAG-TTTTTTTCTTTAGAAAAAAAACAGGTTCGAATGTAAA
* *
24603763 GATAAGTGAATTTTTTATTATAATAG-C-A--------AGGGCCTCGGCTCCCCTAAAATAAAAA
193 GATAAGTGAATTTTTTATTATAGTAGCCAAGGGTTGGCAGGGCCCCGGCTCCCCTAAAAT-AAAA
*** * * * *
24603818 AAAATCTATTTAGGTCCTTT-ATTGTTTAAAAAATTTTAAATTAGTAAATG-TTAAATTGCACTT
257 ATTTTCTATTTAGGCCCTTTAATT-TTT-TAAAATTTTAAATTAGTAAA-GATAAAATTACACTT
* * * * *
24603881 TAGCCACTTAAAAATGATAAAAATTTGATTTAATCATTT-AAATTTTTTTCTAACTTTACGCCAA
319 TGGCC-CCTAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAA
* *
24603945 TATGTATATA-ATATATATATTCACAATAACC
383 TATATATATATATATAT-TTTTCACAATAACC
* * * *
24603976 ATTGCAGAGATGATCCACTCGTTTGTATATGTAACCTCTAAAAGGTTACATAACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAACC-CTAAAAGGTTACATCACTTTGTTTGTCT
* * * *
24604041 TTTAAACATCGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAAATAATC-CTAATTTTA
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTC-AAATTTA
* * * *
24604105 TTGATTTCGGTTTCACTTGAATTATAATTTTTTTCTTTAGAAAAAAAATCAAGTTTGAATGTAAA
129 TTGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAAA-CAGGTTCGAATGTAAA
* * *
24604170 AATAAGTGAATTTTTTTTATTATAGTAGCCAAGGGTTGGAAGGGCCCTGGCTCCCCTAAAATGAA
193 GATAAGTGAA--TTTTTTATTATAGTAGCCAAGGGTTGGCAGGGCCCCGGCTCCCCTAAAAT-AA
** * * *
24604235 AAA----AAAATTAGGCCCTTTAATTTTTTAAAAAATTTAAATTAGTAAAGGTAAAATTACACTT
255 AAATTTTCTATTTAGGCCCTTTAATTTTTT-AAAATTTTAAATTAGTAAAGATAAAATTACACTT
* * * ** *
24604296 TGATCCCCTTAAAAATTATAAAAATTCGATTTAATCCTTTAATTTTTTTTCTCTAACTTTACCCC
319 TG-GCCCC-TAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTT-TCTAACTTTACCCC
*
24604361 AATATAGATA-ATATAT-TTTTTCACAATAACC
381 AATATATATATATATATATTTTTCACAATAACC
* * * * * * *
24604392 ATTACAAAGAGGGT-CTCTCGTTTGTATATATAATCCTTAAAAGATTACATCACTTTATTTGTAT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAA-CCCTAAAAGGTTACATCACTTTGTTTGTCT
* ** * *
24604456 TTTAAATATTGAAATCTAAACTTAAATTTTACCAAATGATTCGGGACAGATAATCTTAATTTTAT
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTAT
* * * * *
24604521 TGATTCCGATTTCACCTGGATTATAATTTTTTTACATTAGAAAAAAAACTAGGTTCGAATGTAAA
130 TGATTTCGGTTTCACTTGGATTATAGTTTTTTT-CTTTAGAAAAAAAAC-AGGTTCGAATGTAAA
* * *
24604586 GATAAGTGAGTTTTTTTATTATAGTAGCCAAAGGTTGGCAGGGCCCCGGCTCCCCTAAAATGGAA
193 GATAAGTGA-ATTTTTTATTATAGTAGCCAAGGGTTGGCAGGGCCCCGGCTCCCCTAAAAT-AAA
* * * *
24604651 ATTTTTTTATTTAGGCCCTTTAATTTTTTTAAATTTTAAATTTGTAAAGATAAAATTACACTTTG
256 AATTTTCTATTTAGGCCCTTTAATTTTTTAAAATTTTAAATTAGTAAAGATAAAATTACACTTTG
* * *
24604716 GCACCCTAAAAATGATAAAAATTTAATTTAATCCTTTAAAATTCTTTTCTAACTTTACCTCGATA
321 GC-CCCTAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAATA
*
24604781 TATATATA-ATAT-TTTTTCCCAATAACC
385 TATATATATATATATTTTTCACAATAACC
** * * *
24604808 ATTGTAGAGAGGGTGCACTTGTTTGGATATGTAATCCCTAAAAGGTTACATCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAA-CCCTAAAAGGTTACATCACTTTGTTTGTCT
* *
24604873 TTTAAATATTAAAATTTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTAT
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTAT
* * * *
24604938 TGA-TTCTGGTTTCACTTGGATTTTAATTTATTTTTCTTTAGAAAAAAATCAAGTTCGAATGTAA
130 TGATTTC-GGTTTCACTTGGATTAT-AGTT-TTTTTCTTTAGAAAAAAAACAGGTTCGAATGTAA
** * *
24605002 AGATAAGT-AA------ATT-T--T--------GTT---ATTGCCCCAGCTCTCCTAAAATTAAA
192 AGATAAGTGAATTTTTTATTATAGTAGCCAAGGGTTGGCAGGGCCCCGGCTCCCCTAAAA-TAAA
*
24605046 AATTTTCTATTTAGGCCATTTAATTTTTTTAAAATTTTAAATTAGTAAA-AGTAAAATTACACTT
256 AATTTTCTATTTAGGCCCTTTAA-TTTTTTAAAATTTTAAATTAGTAAAGA-TAAAATTACACTT
* * * * *
24605110 TAGCCCCCTAAAAATAATAAAAAATCGATTTAATCCTCTAAAATTCTTTTCTAACTTTACCCCAA
319 T-GGCCCCTAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAA
* *
24605175 TATATATA-ATATATACTTTTCACAATAAGC
383 TATATATATATATATATTTTTCACAATAACC
* * * *
24605205 ATTGCAGAGAGGGTCCACTTGTTTGTATATGTAACCCCTAAAAAGTTACATCACTTTATTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAA-CCCTAAAAGGTTACATCACTTTGTTTGTCT
* * *
24605270 TTTAAATATTAAAATCTAGACTTAAGTTTTACCAAATGATTCATGACAGATAATC-CAAAATTTA
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTC-AAATTTA
* * * **
24605334 TTGATTTCGGTTTCACTTGAATTATAGTTTTTTTCTTTATAAAAAAATCAGACTCGAATGTAAAG
129 TTGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAAACAGGTTCGAATGTAAAG
* * * *
24605399 ATAAGTGAATTTTTTATTATAGTAGCCTAGGGCTGGCATGGGTCCCGGCTCTCCTAAAATAAAAA
194 ATAAGTGAATTTTTTATTATAGTAGCCAAGGGTTGGCA-GGGCCCCGGCTCCCCTAAAAT-AAAA
* * * *
24605464 ATTTTCTATTTAAGCCATTTAATTTTTTAAAAATTTTAAATTAGTAAA-AGTAAAATTATACATT
257 ATTTTCTATTTAGGCCCTTTAATTTTTT-AAAATTTTAAATTAGTAAAGA-TAAAATTACACTTT
* * * ** *
24605528 GGCCCCCAAAAATGATAAAAATTTAATTAAATCAATTAAAATTCTTTTCTAACTTTACCCCAATG
320 GGCCCCTAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAATA
24605593 TATATA-ATATATATTTTTTCACAATAACC
385 TATATATATATATA-TTTTTCACAATAACC
* * * * * * *
24605622 ATCACACAGAGAGTCTACTTGTTTGTATATATAACCCCTAAAAGGTTACTTCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAA-CCCTAAAAGGTTACATCACTTTGTTTGTCT
* * * *
24605687 TTTAAATATTGAAATCTAAACTTAAATTTTACCAAATGATTCTTGACAGATAATCCCAAATTAAT
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTAT
** * *
24605752 TGATTTATGTTTCATTTGGATTATAGTTTTTTTTCTTTAGAAAAAAAATCAGGTTCAAATGTAAA
130 TGATTTCGGTTTCACTTGGATTATAG-TTTTTTTCTTTAGAAAAAAAA-CAGGTTCGAATGTAAA
* * * * * * * *
24605817 GATAAGTGAATTTTTTGTTATAGTAGTCAGGGGCTGGCAGGGGCCCTGACTCTCTTAAAATGAAA
193 GATAAGTGAATTTTTTATTATAGTAGCCAAGGGTTGGCA-GGGCCCCGGCTCCCCTAAAAT-AAA
** * * * *
24605882 TGTTTTCTATTTAGGTCTTTTAATTTTTTTAAATTTTAAATTAGTAAAGGTAAAATTACACTTTG
256 AATTTTCTATTTAGGCCCTTTAATTTTTTAAAATTTTAAATTAGTAAAGATAAAATTACACTTTG
* *
24605947 AACCCCTAAAAATAATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAATA
321 -GCCCCTAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAATA
24606012 TATATATCATATATATTTTTCACAATAACC
385 TATATAT-ATATATATTTTTCACAATAACC
* *
24606042 ATTATAGAGAGGGTCCACTCGTTTGTATATATAACCCTTAAAAGGTTACATCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATGTAACCC-TAAAAGGTTACATCACTTTGTTTGTCT
* * *
24606107 TTTAAACATTGAAATCTAGACTTAAATTTTACCAAATAATTCCTGACAGATAATCTCAAATTGAT
65 TTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTAT
* * * *
24606172 TGATTTCGGTTTCACTTAGATTATAGTTTTTTTCTTTAGAAAAAAAGCATGTTTGAATGTAAAGA
130 TGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAAACAGGTTCGAATGTAAAGA
*
24606237 TAAGTGATTTTTTTATTATA
195 TAAGTGAATTTTTTATTATA
24606257 AGTTTCAACA
Statistics
Matches: 1945, Mismatches: 255, Indels: 149
0.83 0.11 0.06
Matches are distributed among these distances:
395 79 0.04
396 109 0.06
397 151 0.08
398 6 0.00
402 3 0.00
403 1 0.00
405 40 0.02
406 22 0.01
407 116 0.06
408 1 0.00
409 18 0.01
410 1 0.00
411 1 0.00
413 2 0.00
414 1 0.00
415 223 0.11
416 220 0.11
417 407 0.21
418 160 0.08
419 227 0.12
420 150 0.08
421 7 0.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (413 bp):
ATTACAGAGAGGGTCCACTCGTTTGTATATGTAACCCTAAAAGGTTACATCACTTTGTTTGTCTT
TTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTCAAATTTATT
GATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAAACAGGTTCGAATGTAAAGAT
AAGTGAATTTTTTATTATAGTAGCCAAGGGTTGGCAGGGCCCCGGCTCCCCTAAAATAAAAATTT
TCTATTTAGGCCCTTTAATTTTTTAAAATTTTAAATTAGTAAAGATAAAATTACACTTTGGCCCC
TAAAAATGATAAAAATTTGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAATATATATA
TATATATATTTTTCACAATAACC
Found at i:24605308 original size:814 final size:810
Alignment explanation
Indices: 24603571--24606256 Score: 3143
Period size: 814 Copynumber: 3.3 Consensus size: 810
24603561 AATATGTTTT
* ** * * *
24603571 ATTATAGAGAGGGTTTACTCGTTTGTATATGTAACCACTAAAAAGTT--ATCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATATAACCCCTAAAAAGTTACATCACTTTATTTGTCT
*
24603634 TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATACT-GAATTTA
66 TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAAT-CTAAAATTTA
* *
24603698 TTGATTTCGGTTTCACTTGGATAATAGTTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATATAAA
130 TTGATTTCGGTTTCACTTGGATTATAG-TTTTTTTCTTTAGAAAAAAATCAGGTTCGAATGTAAA
* * *
24603763 GATAAGTGAATTTTTTATTATAATAG-C-A------AGGGCCTCGGCTCCCCTAAAATAAAAAAA
194 GATAAGTGAATTTTTTATTATAGTAGCCAAGGTGGCAGGGCCCCGGCTCCCCTAAAATAAAAAAT
** * * * * *
24603820 AATCTATTTAGGTCCTTT-ATTGTTTAAAAAATTTTAAATTAGTAAATG-TTAAATTGCACTTTA
259 TTTCTATTTAGGCCCTTTAATT-TTT-TAAAATTTTAAATTAGTAAA-GATAAAATTACACTTTG
* * *
24603883 GCCACTTAAAAATGATAAAAATTTGATTTAATCATTT-AAATTTTTTTCTAACTTTACGCCAATA
321 GCC-CCTAAAAATGATAAAAATTTAATTTAATCATTTAAAATTCTTTTCTAACTTTAC-CCAATA
* * * * *
24603947 TGTATATAATATATATATTCACAATAACCATTGCAGAGATGATCCACTCGTTTGTATATGTAACC
384 TATATATAATAT-T-TTTTCACAATAACCATTGCAGAGAGGGT-CACTTGTTTGTATATGTAACC
* * *
24604012 TCTAAAAGGTTACATAACTTTGTTTGTCTTTTAAACATCGAAATCTAGACTTAAATTTTACCAAA
446 -CTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAA
* * * *
24604077 TGATTCCTGACAAATAATCCTAATTTTATTGATTTCGGTTTCACTTGAATTATAA-TTTTTTTCT
510 TGATTCCTGACAGATAATCC-AAATTTATTGATTTAGGTTTCACTTGGATTATAATTTTTTTTCT
* * *
24604141 TTAGAAAAAAAATCAAGTTTGAATGTAAAAATAAGTGAATTTTTTTTATTATAGTAGCCAAGGGT
574 TTAGAAAAAAAATCAAGTTCGAATGTAAAGATAAGTGAA--TTTTTTGTTATA-TAGCC------
* * ** * * * *
24604206 TGGAAGGGCCCTGGCTCCCCTAAAATGAAAAA----AAAATTAGGCCCTTTAATTTTTTAAAAAA
630 -------GCCC-AGCTCTCCTAAAATGAAAAATTTTCTATTTAGGCCATTTAATTTTTTTAAAAT
* * *
24604267 TTTAAATTAGTAAAGGTAAAATTACACTTTGATCCCCTTAAAAATTATAAAAATTCGATTTAATC
687 TTTAAATTAGTAAAGGTAAAATTACACTTT-AGCCCCCTAAAAATAATAAAAATTCGATTTAATC
** * *
24604332 CTTTAATTTTTTTTCTCTAACTTTACCCCAATATAGATAATATAT-TTTTTCACAATAACC
751 CTTTAAAATTCTTT-TCTAACTTTACCCCAATATATATAATATATATTTTTCACAATAACC
* * * * *
24604392 ATTACAAAGAGGGT-CTCTCGTTTGTATATATAA-TCCTTAAAAGATTACATCACTTTATTTGTA
1 ATTACAGAGAGGGTCCACTCGTTTGTATATATAACCCCTAAAAAG-TTACATCACTTTATTTGTC
* * ** * *
24604455 TTTTAAATATTGAAATCTAAACTTAAATTTTACCAAATGATTCGGGACAGATAATCTTAATTTTA
65 TTTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTAAAATTTA
* * * * * *
24604520 TTGATTCCGATTTCACCTGGATTATAATTTTTTTACATTAGAAAAAAAACTAGGTTCGAATGTAA
130 TTGATTTCGGTTTCACTTGGATTATAGTTTTTTT-CTTTAGAAAAAAATC-AGGTTCGAATGTAA
* **
24604585 AGATAAGTGAGTTTTTTTATTATAGTAGCCAAAGGTTGGCAGGGCCCCGGCTCCCCTAAAATGGA
193 AGATAAGTGA-ATTTTTTATTATAGTAGCC-AAGG-TGGCAGGGCCCCGGCTCCCCTAAAATAAA
* * * *
24604650 AATTTTTTTATTTAGGCCCTTTAATTTTTTTAAATTTTAAATTTGTAAAGATAAAATTACACTTT
255 AAATTTTCTATTTAGGCCCTTTAATTTTTTAAAATTTTAAATTAGTAAAGATAAAATTACACTTT
* *
24604715 GGCACCCTAAAAATGATAAAAATTTAATTTAATCCTTTAAAATTCTTTTCTAACTTTACCTCGAT
320 GGC-CCCTAAAAATGATAAAAATTTAATTTAATCATTTAAAATTCTTTTCTAACTTTACC-CAAT
* * *
24604780 ATATATATAATATTTTTTCCCAATAACCATTGTAGAGAGGGTGCACTTGTTTGGATATGTAATCC
383 ATATATATAATATTTTTTCACAATAACCATTGCAGAGAGGGT-CACTTGTTTGTATATGTAA-CC
* *
24604845 CTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTAAAATTTAGACTTAAATTTTACCAAAT
446 CTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAAT
*
24604910 GATTCCTGACAGATAATCTCAAATTTATTGATTCT-GGTTTCACTTGGATTTTAATTTATTTTTC
511 GATTCCTGACAGATAATC-CAAATTTATTGATT-TAGGTTTCACTTGGATTATAATTT-TTTTTC
*
24604974 TTTAG-AAAAAAATCAAGTTCGAATGTAAAGATAAGT-AA-ATTTTGTTAT-T-G-C-CCCAGCT
573 TTTAGAAAAAAAATCAAGTTCGAATGTAAAGATAAGTGAATTTTTTGTTATATAGCCGCCCAGCT
* *
24605032 CTCCTAAAATTAAAAATTTTCTATTTAGGCCATTTAATTTTTTTAAAATTTTAAATTAGTAAAAG
638 CTCCTAAAATGAAAAATTTTCTATTTAGGCCATTTAATTTTTTTAAAATTTTAAATTAGTAAAGG
* *
24605097 TAAAATTACACTTTAGCCCCCTAAAAATAATAAAAAATCGATTTAATCCTCTAAAATTCTTTTCT
703 TAAAATTACACTTTAGCCCCCTAAAAATAATAAAAATTCGATTTAATCCTTTAAAATTCTTTTCT
* *
24605162 AACTTTACCCCAATATATATAATATATACTTTTCACAATAAGC
768 AACTTTACCCCAATATATATAATATATATTTTTCACAATAACC
* * *
24605205 ATTGCAGAGAGGGTCCACTTGTTTGTATATGTAACCCCTAAAAAGTTACATCACTTTATTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATATAACCCCTAAAAAGTTACATCACTTTATTTGTCT
* * *
24605270 TTTAAATATTAAAATCTAGACTTAAGTTTTACCAAATGATTCATGACAGATAATCCAAAATTTAT
66 TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTAAAATTTAT
* * **
24605335 TGATTTCGGTTTCACTTGAATTATAGTTTTTTTCTTTATAAAAAAATCAGACTCGAATGTAAAGA
131 TGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATGTAAAGA
* * *
24605400 TAAGTGAATTTTTTATTATAGTAGCCTAGGGCTGGCATGGGTCCCGGCTCTCCTAAAATAAAAAA
196 TAAGTGAATTTTTTATTATAGTAGCC-AAGG-TGGCA-GGGCCCCGGCTCCCCTAAAATAAAAAA
* * * *
24605465 TTTTCTATTTAAGCCATTTAATTTTTTAAAAATTTTAAATTAGTAAA-AGTAAAATTATACATTG
258 TTTTCTATTTAGGCCCTTTAATTTTTT-AAAATTTTAAATTAGTAAAGA-TAAAATTACACTTTG
* * * *
24605529 GCCCCCAAAAATGATAAAAATTTAATTAAATCAATTAAAATTCTTTTCTAACTTTACCCCAATGT
321 GCCCCTAAAAATGATAAAAATTTAATTTAATCATTTAAAATTCTTTTCTAACTTTA-CCCAATAT
** * * *
24605594 ATATAATATATATTTTTTCACAATAACCATCACACAGAGAGTCTACTTGTTTGTATATATAACCC
385 ATAT-ATA-ATATTTTTTCACAATAACCATTGCAGAGAGGGTC-ACTTGTTTGTATATGTAA-CC
* *
24605659 CTAAAAGGTTACTTCACTTTGTTTGTCTTTTAAATATTGAAATCTAAACTTAAATTTTACCAAAT
446 CTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAAT
* * * * *
24605724 GATTCTTGACAGATAATCCCAAATTAATTGATTTATGTTTCATTTGGATTATAGTTTTTTTTCTT
511 GATTCCTGACAGATAAT-CCAAATTTATTGATTTAGGTTTCACTTGGATTATAATTTTTTTTCTT
* *
24605789 TAGAAAAAAAATCAGGTTCAAATGTAAAGATAAGTGAATTTTTTGTTATAGTAGTCAGGGGCTGG
575 TAGAAAAAAAATCAAGTTCGAATGTAAAGATAAGTGAATTTTTTG-T-TA-TA-T-A---GC---
* * ** * *
24605854 CAGGGGCCCTGACTCTCTTAAAATGAAATGTTTTCTATTTAGGTCTTTTAATTTTTTT-AAATTT
629 C----GCCCAG-CTCTCCTAAAATGAAAAATTTTCTATTTAGGCCATTTAATTTTTTTAAAATTT
* *
24605918 TAAATTAGTAAAGGTAAAATTACACTTT-GAACCCCTAAAAATAATAAAAATTTGATTTAATCCT
689 TAAATTAGTAAAGGTAAAATTACACTTTAG-CCCCCTAAAAATAATAAAAATTCGATTTAATCCT
24605982 TTAAAATTCTTTTCTAACTTTACCCCAATATATATATCATATATATTTTTCACAATAACC
753 TTAAAATTCTTTTCTAACTTTACCCCAATATATATA--ATATATATTTTTCACAATAACC
* * * *
24606042 ATTATAGAGAGGGTCCACTCGTTTGTATATATAACCCTTAAAAGGTTACATCACTTTGTTTGTCT
1 ATTACAGAGAGGGTCCACTCGTTTGTATATATAACCCCTAAAAAGTTACATCACTTTATTTGTCT
* * * * *
24606107 TTTAAACATTGAAATCTAGACTTAAATTTTACCAAATAATTCCTGACAGATAATCTCAAATTGAT
66 TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTAAAATTTAT
* * * *
24606172 TGATTTCGGTTTCACTTAGATTATAGTTTTTTTCTTTAGAAAAAAAGCATGTTTGAATGTAAAGA
131 TGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATGTAAAGA
*
24606237 TAAGTGATTTTTTTATTATA
196 TAAGTGAATTTTTTATTATA
24606257 AGTTTCAACA
Statistics
Matches: 1599, Mismatches: 197, Indels: 122
0.83 0.10 0.06
Matches are distributed among these distances:
810 17 0.01
811 29 0.02
812 156 0.10
813 127 0.08
814 354 0.22
815 11 0.01
816 5 0.00
817 1 0.00
818 2 0.00
819 8 0.01
820 18 0.01
821 22 0.01
822 104 0.07
823 23 0.01
824 15 0.01
825 2 0.00
826 2 0.00
827 2 0.00
829 8 0.01
830 1 0.00
832 149 0.09
833 98 0.06
834 88 0.06
835 106 0.07
836 40 0.03
837 211 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (810 bp):
ATTACAGAGAGGGTCCACTCGTTTGTATATATAACCCCTAAAAAGTTACATCACTTTATTTGTCT
TTTAAATATTAAAATCTAGACTTAAATTTTACCAAATGATTCCTGACAGATAATCTAAAATTTAT
TGATTTCGGTTTCACTTGGATTATAGTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATGTAAAGA
TAAGTGAATTTTTTATTATAGTAGCCAAGGTGGCAGGGCCCCGGCTCCCCTAAAATAAAAAATTT
TCTATTTAGGCCCTTTAATTTTTTAAAATTTTAAATTAGTAAAGATAAAATTACACTTTGGCCCC
TAAAAATGATAAAAATTTAATTTAATCATTTAAAATTCTTTTCTAACTTTACCCAATATATATAT
AATATTTTTTCACAATAACCATTGCAGAGAGGGTCACTTGTTTGTATATGTAACCCTAAAAGGTT
ACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTGAC
AGATAATCCAAATTTATTGATTTAGGTTTCACTTGGATTATAATTTTTTTTCTTTAGAAAAAAAA
TCAAGTTCGAATGTAAAGATAAGTGAATTTTTTGTTATATAGCCGCCCAGCTCTCCTAAAATGAA
AAATTTTCTATTTAGGCCATTTAATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTT
TAGCCCCCTAAAAATAATAAAAATTCGATTTAATCCTTTAAAATTCTTTTCTAACTTTACCCCAA
TATATATAATATATATTTTTCACAATAACC
Found at i:24608468 original size:419 final size:417
Alignment explanation
Indices: 24607600--24609528 Score: 2289
Period size: 419 Copynumber: 4.6 Consensus size: 417
24607590 AAATTATGAT
* * * ** * *
24607600 TTTA-CCCAAACATATATAATATAT-TTTTTCACAATAAACATTTTAGAGAGTTTCTACTCGTTT
1 TTTACCCCAAATATATATAAAATATATTTTTCACAATAACCATTAAAGAGAG-GTCCACTCGTTT
* * * *
24607663 ATATATGTAACCCCTAAAAGGTTACATCATTTTGTTTATCTTTTAAATATTGAAATTTAGACTTA
65 GTATATGTAACCCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTA
* * *
24607728 AATTTTACCAAATGATTCATGACAGATAATCA-CAAATTTATTGA-TTCAGGTTTCTCCTGGATT
130 AATTTTACCAAATGATTCATGAGAGATAAT-ATCAAATTTATTGATTTC-GGTTTCACTTGGATT
* * *
24607791 ATAGTTTTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATATAAAGATAAGTGGATTTTTTATTAT
193 ATAG--TTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGT-GAATTTTTATTAT
** * * * * * * *
24607856 AGTAGTTAAGGGTTGGTAGGGG-CCCGTCTCCCTTGAAATGAAAAATTTTCTATTTTGGTCCTTT
255 AGTAGCCAAGGGCTGATAGGGGCCCCGGCTCCCCTAAAATGAAAAATTTTCTATTTAGGCCCTTT
* *
24607920 AATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTGCACTTTGGCCCCCTAAAAATGAAAAAA
320 AATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCCCCCTAAAAATGATAAAA
* *
24607985 AGTCGATTTAATCTTTTAAAATT-TGTTTCTAAC
385 ATTCGATTTAATCCTTTAAAATTCT-TTTCTAAC
* ** *
24608018 TTTACCCC-AATGTATATTTAATATGTTTTTCACAATAACCATTAAAGAGATGGTCCACTCGTTT
1 TTTACCCCAAATATATATAAAATATATTTTTCACAATAACCATTAAAGAGA-GGTCCACTCGTTT
* *
24608082 GTATATGTAACCCCTAAAAAGTTACATCACTTCGTTTGTCTTTTAAATATTGAAATCTAGACTTA
65 GTATATGTAACCCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTA
* * ** * *
24608147 AATTTTACCAAATGATTCCTTACCGATAATATCAAATTTATTGATTCCGGTTTCACTTGAATTAT
130 AATTTTACCAAATGATTCATGAGAGATAATATCAAATTTATTGATTTCGGTTTCACTTGGATTAT
* * * * * *
24608212 AGTTTTTTCTTCTTTAGAATAAAATCAGGCTCGAATGTAAAAATAAGTGTATTTTTGTTATAGTA
195 AGTTTTTT-TTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTATTATAGTA
** *
24608277 GTTAGGGGCTGATAGGGGCCCCGGCTCCCCTAAAAT-AGAAAATTTTCTATTTAGGCCCTTTTAA
259 GCCAAGGGCTGATAGGGGCCCCGGCTCCCCTAAAATGA-AAAATTTTCTATTTAGGCCC-TTTAA
* *
24608341 TTTTTTT-AAATTTTAAATTAGTAAAGGTAAAATTTCACTTTAGCCCCCT-AAAATGATAAAAAT
322 TTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCCCCCTAAAAATGATAAAAAT
* *
24608404 TCGATTTAATCTTTTAAAATTCTTTTCTAAT
387 TCGATTTAATCCTTTAAAATTCTTTTCTAAC
* * *
24608435 TTTACCCCAATATATATATAAAATATATTTTTCACAATAACCATTACAGAGGTGGTCCACTCATT
1 TTTACCCCAA-ATATATATAAAATATATTTTTCACAATAACCATTAAAGA-GAGGTCCACTCGTT
* * *
24608500 TGTATATGTAACCCCTAAAAGGTT--A-CACTTTGTTTCTCTTTTAAATATTGAAATCCAAACTT
64 TGTATATGTAACCCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTT
* * *
24608562 AAATTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTTGGTTTCACTTGGATTT
129 AAATTTTACCAAATGATTCATGAGAGATAATATCAAATTTATTGATTTCGGTTTCACTTGGATTA
*
24608627 TAG-TTTTTTTATTTAGAAAAAAAATCAGGTTTGAATGTTAAA-ATAAGTGAATTTTTTTATTAT
194 TAGTTTTTTTTCTTTAG-AAAAAAATCAGGTTTGAATG-TAAAGATAAGTGAA--TTTTTATTAT
* * ** * * * *
24608690 AGTAGCCAGGGGTTG-GCGGGGTCCCAGCTCACTTAAAATGGAAAAA-TTTCTATTTAGGCCCTT
255 AGTAGCCAAGGGCTGATAGGGGCCCCGGCTCCCCTAAAAT-GAAAAATTTTCTATTTAGGCCCTT
* *
24608753 TAATTTTTTTAAAATTTTAAATTAATAAAGGTAAAATTACACTTT-GCCCCCTTAAAATTGATAA
319 TAATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCCCCC-TAAAAATGATAA
** *
24608817 AAATTC-AGTTTAATCCTTTAATTTTTTTTTCTAAC
383 AAATTCGA-TTTAATCCTTTAAAATTCTTTTCTAAC
* * * * * *
24608852 TTTATCCC-AATGTATATAATATATAATTTTCACAATAACCGTTACAGAGAGGATCCACTCGTTT
1 TTTACCCCAAATATATATAAAATATATTTTTCACAATAACCATTAAAGAGAGG-TCCACTCGTTT
*
24608916 GTATATGTAACCCCTAAAAGGTTACATCCCTAAAAGGTTACATCACTTTGATTGTCTTTTAAATA
65 GTATATG-------T---A----AC--CCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATA
* * *
24608981 TTGAAATCTAGACTTAAATTTTACCAAATGATTCATGAGAGATAATATCAATTTTATTAATTTTG
114 TTGAAATCTAGACTTAAATTTTACCAAATGATTCATGAGAGATAATATCAAATTTATTGATTTCG
* *
24609046 GTTTCACTTGGATTATAGTTTTTTTTCTTTAGAAAAAAATTAGGTTTGAATGTAAAGATAAATGA
179 GTTTCACTTGGATTATAGTTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGA
* * * * **
24609111 ATTTTTTGTTATAGTAGCCAAGGGCTGACAGGGGCCCTGACTCTTCTAAAATGAAAAATTTTCTA
244 A-TTTTTATTATAGTAGCCAAGGGCTGATAGGGGCCCCGGCTCCCCTAAAATGAAAAATTTTCTA
* *
24609176 TTTAGGCCCTTTAATTTTTTT-AAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCTCTCTA
308 TTTAGGCCCTTTAATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCCCCCTA
* * * *
24609240 AAAATGATAAAAATTCAAATTAATCCTTCAAAATTCTCTTCTAAC
373 AAAATGATAAAAATTCGATTTAATCCTTTAAAATTCTTTTCTAAC
24609285 TTTACCCC----A-ATAT---ATATATTTTTCACAATAACCA-TAATAGAGAGGGTCCACTCGTT
1 TTTACCCCAAATATATATAAAATATATTTTTCACAATAACCATTAA-AGAGA-GGTCCACTCGTT
* *
24609341 TGTATATGTAACCCCTAAAAGGTTACATAACTTTGTTTGTCTTTTAAATATTAAAATCTAGACTT
64 TGTATATGTAACCCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTT
* * * *
24609406 AGATTATACCAAATGATTCTTGAGAGATAATCTCAAATTTATTGATTTCGGTTTCACTTGGATTA
129 AAATTTTACCAAATGATTCATGAGAGATAATATCAAATTTATTGATTTCGGTTTCACTTGGATTA
*
24609471 TAGTTTTTTTTTTCTTTAGAAAGAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTT
194 TAG--TTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTT
24609529 TATTTTAAGT
Statistics
Matches: 1313, Mismatches: 145, Indels: 113
0.84 0.09 0.07
Matches are distributed among these distances:
410 111 0.08
411 5 0.00
412 47 0.04
414 10 0.01
415 100 0.08
416 165 0.13
417 154 0.12
418 126 0.10
419 230 0.18
420 4 0.00
422 1 0.00
425 3 0.00
426 42 0.03
427 2 0.00
429 6 0.00
431 12 0.01
433 112 0.09
434 171 0.13
435 12 0.01
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (417 bp):
TTTACCCCAAATATATATAAAATATATTTTTCACAATAACCATTAAAGAGAGGTCCACTCGTTTG
TATATGTAACCCCTAAAAGGTTACATCACTTTGTTTGTCTTTTAAATATTGAAATCTAGACTTAA
ATTTTACCAAATGATTCATGAGAGATAATATCAAATTTATTGATTTCGGTTTCACTTGGATTATA
GTTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTATTATAGTAGC
CAAGGGCTGATAGGGGCCCCGGCTCCCCTAAAATGAAAAATTTTCTATTTAGGCCCTTTAATTTT
TTTAAAATTTTAAATTAGTAAAGGTAAAATTACACTTTGGCCCCCTAAAAATGATAAAAATTCGA
TTTAATCCTTTAAAATTCTTTTCTAAC
Found at i:24608948 original size:16 final size:16
Alignment explanation
Indices: 24608927--24608959 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24608917 TATATGTAAC
24608927 CCCTAAAAGGTTACAT
1 CCCTAAAAGGTTACAT
24608943 CCCTAAAAGGTTACAT
1 CCCTAAAAGGTTACAT
24608959 C
1 C
24608960 ACTTTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.24
Consensus pattern (16 bp):
CCCTAAAAGGTTACAT
Found at i:24609246 original size:850 final size:831
Alignment explanation
Indices: 24607598--24609529 Score: 2508
Period size: 850 Copynumber: 2.3 Consensus size: 831
24607588 AAAAATTATG
* * * *
24607598 ATTTTA-CCCAAACATATAT-AATATATTTTTTCACAATAAACATTTTAGAGAGT-TTCTACTCG
1 ATTTTACCCCAAA-ATATATAAATATA-TTTTTCACAATAACCATTATAGAGAGTGGTCCACTCG
* *
24607660 TTTATATATGTAACCCCTAAAAGGTTACATCATTTTGTTTATCTTTTAAATATTGAAATTTAGAC
64 TTTGTATATGTAACCCCTAAAAGGTTACA-C--TTTGTTTATCTTTTAAATATTGAAATCTAGAC
* * * * *
24607725 TTAAATTTTACCAAATGATTCATGACAGATAATCACAAATTTATTGATTCAGGTTTCTCCTGGAT
126 TTAAATTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTAGGTTTCACTTGGAT
* * *
24607790 TATAGTTTTTTTTTTCTTTAGAAAAAAATCAGGTTCGAATATAAAGATAAGTGGA-TTTTTTATT
191 TATAG--TTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTTTATT
** * * * *
24607854 ATAGTAGTTAAGGGTTGGTAGGGGCCCGTCTCCCTTGAAATGAAAAATTTTCTATTTTGGTCCTT
254 ATAGTAGCCAAGGGTTGGTAGGGGCCCGTCTCACTTAAAATGAAAAATTTTCTATTTAGGCCCTT
* *
24607919 TAATTTTTTTAAAATTTTAAATTAGTAAAGGTAAAATTGCACTTTGGCCCCCTAAAAATGAAAAA
319 TAATTTTTTTAAAATTTTAAATTAATAAAGGTAAAATTACACTTTGGCCCCCTAAAAATGAAAAA
* *
24607984 AAGTCGATTTAATCTTTTAAAATTTGTTTCTAACTTTACCCCAATGTATATTTAATATGTTTTTC
384 AAGTCGATTTAATCCTTTAAAATTTGTTTCTAACTTTACCCCAATGTATA-TTAATATATTTTTC
24608049 ACAATAACCATTAAAGAGATGGTCCACTCGTTTGTATATGTAACCCCTAAAAAGTTACATCACTT
448 ACAATAACCATTAAAGAGATGGTCCACTCGTTTGTATATGTAACCCCTAAAAAGTTACATCACTT
* * * *
24608114 CGTTTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCCTTACCGATAATAT
513 CGATTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCATGACAGATAATAT
* *
24608179 CAAATTTATTGATTCCGGTTTCACTTGAATTATAGTTTTTTCTTCTTTAGAATAAAATCAGGCTC
578 CAAATTTATTAATTCCGGTTTCACTTGAATTATAGTTTTTTCTTCTTTAGAAAAAAATCAGGCTC
* * ** * * *
24608244 GAATGTAAAAATAAGTGTATTTTTGTTATAGTAGTTAGGGGCTGATAGGGGCCCCGGCTCCCCTA
643 GAATGTAAAAATAAATGAATTTTTGTTATAGTAGCCAAGGGCTGACAGGGGCCCCGACTCCCCTA
24608309 AAATAGAAAATTTTCTATTTAGGCCCTTTTAATTTTTTTAAATTTTAAATTAGTAAAGGTAAAAT
708 AAATAGAAAATTTTCTATTTAGGCCCTTTTAATTTTTTTAAATTTTAAATTAGTAAAGGTAAAAT
* * * * * *
24608374 TTCACTTTAGCCCCCTAAAATGATAAAAATTCGATTTAATCTTTTAAAATTCTTTTCTA
773 TACACTTTAGCCCCCTAAAATGATAAAAATTCAAATTAATCCTTCAAAATTCTCTTCTA
*
24608433 ATTTTACCCCAATATATATATAAAATATATTTTTCACAATAACCATTACAGAG-GTGGTCCACTC
1 ATTTTACCCCAA-A-ATATAT-AAATATATTTTTCACAATAACCATTATAGAGAGTGGTCCACTC
* * * *
24608497 ATTTGTATATGTAACCCCTAAAAGGTTACACTTTGTTTCTCTTTTAAATATTGAAATCCAAACTT
63 GTTTGTATATGTAACCCCTAAAAGGTTACACTTTGTTTATCTTTTAAATATTGAAATCTAGACTT
* *
24608562 AAATTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTTGGTTTCACTTGGATTT
128 AAATTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTAGGTTTCACTTGGATTA
*
24608627 TAG-TTTTTTTATTTAGAAAAAAAATCAGGTTTGAATGTTAAA-ATAAGTGAATTTTTTTATTAT
193 TAGTTTTTTTTCTTTAG-AAAAAAATCAGGTTTGAATG-TAAAGATAAGTGAATTTTTTTATTAT
* *
24608690 AGTAGCCAGGGGTTGG-CGGGGTCCCAG-CTCACTTAAAATGGAAAAA-TTTCTATTTAGGCCCT
256 AGTAGCCAAGGGTTGGTAGGGG-CCC-GTCTCACTTAAAAT-GAAAAATTTTCTATTTAGGCCCT
* *
24608752 TTAATTTTTTTAAAATTTTAAATTAATAAAGGTAAAATTACACTTT-GCCCCCTTAAAATTGATA
318 TTAATTTTTTTAAAATTTTAAATTAATAAAGGTAAAATTACACTTTGGCCCCC-TAAAAATGAAA
* ** * *
24608816 AAAATTC-AGTTTAATCCTTTAATTTTTTTTTCTAACTTTATCCCAATGTATA-TAATATATAAT
382 AAAAGTCGA-TTTAATCCTTTAAAATTTGTTTCTAACTTTACCCCAATGTATATTAATATAT--T
* *
24608879 TTTCACAATAACCGTTACAGAGA-GGATCCACTCGTTTGTATATGTAACCCCTAAAAGGTTACAT
444 TTTCACAATAACCATTAAAGAGATGG-TCCACTCGTTTGTATATGTAACCCC--------T--A-
*
24608943 CCCTAAAAGGTTACATCACTTTGATTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAA
497 ----AAAA-GTTACATCACTTCGATTGTCTTTTAAATATTGAAATCTAGACTTAAATTTTACCAA
* * ** *
24609008 ATGATTCATGAGAGATAATATCAATTTTATTAATTTTGGTTTCACTTGGATTATAGTTTTTT-TT
557 ATGATTCATGACAGATAATATCAAATTTATTAATTCCGGTTTCACTTGAATTATAGTTTTTTCTT
* * * *
24609072 CTTTAGAAAAAAATTAGGTTTGAATGTAAAGATAAATGAATTTTTTGTTATAGTAGCCAAGGGCT
622 CTTTAGAAAAAAATCAGGCTCGAATGTAAAAATAAATGAA-TTTTTGTTATAGTAGCCAAGGGCT
* **
24609137 GACAGGGGCCCTGACTCTTCTAAAAT-GAAAAATTTTCTATTTAGGCCC-TTTAATTTTTTTAAA
686 GACAGGGGCCCCGACTCCCCTAAAATAG-AAAATTTTCTATTTAGGCCCTTTTAATTTTTTTAAA
* * *
24609200 TTTTAAATTAGTAAAGGTAAAATTACACTTTGGCTCTCTAAAAATGATAAAAATTCAAATTAATC
750 TTTTAAATTAGTAAAGGTAAAATTACACTTTAGCCCCCT-AAAATGATAAAAATTCAAATTAATC
24609265 CTTCAAAATTCTCTTCTA
814 CTTCAAAATTCTCTTCTA
* *
24609283 ACTTTACCCC---A-ATAT--ATATATTTTTCACAATAACCATAATAGAGAG-GGTCCACTCGTT
1 ATTTTACCCCAAAATATATAAATATATTTTTCACAATAACCATTATAGAGAGTGGTCCACTCGTT
* *
24609341 TGTATATGTAACCCCTAAAAGGTTACATAACTTTGTTTGTCTTTTAAATATTAAAATCTAGACTT
66 TGTATATGTAACCCCTAAAAGGTTAC---ACTTTGTTTATCTTTTAAATATTGAAATCTAGACTT
* * * *
24609406 AGATTATACCAAATGATTCTTGAGAGATAATCTCAAATTTATTGATTTCGGTTTCACTTGGATTA
128 AAATTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTAGGTTTCACTTGGATTA
*
24609471 TAGTTTTTTTTTTCTTTAGAAAGAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTT
193 TAG--TTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTT
24609530 ATTTTAAGTT
Statistics
Matches: 960, Mismatches: 94, Indels: 75
0.85 0.08 0.07
Matches are distributed among these distances:
832 19 0.02
833 39 0.04
834 199 0.21
835 104 0.11
836 5 0.01
837 10 0.01
838 55 0.06
839 6 0.01
841 64 0.07
842 2 0.00
844 100 0.10
845 5 0.01
846 34 0.04
847 12 0.01
849 90 0.09
850 216 0.22
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (831 bp):
ATTTTACCCCAAAATATATAAATATATTTTTCACAATAACCATTATAGAGAGTGGTCCACTCGTT
TGTATATGTAACCCCTAAAAGGTTACACTTTGTTTATCTTTTAAATATTGAAATCTAGACTTAAA
TTTTACCAAATGATTCATGAGAGATAATCTCAAATTTATTGATTTAGGTTTCACTTGGATTATAG
TTTTTTTTCTTTAGAAAAAAATCAGGTTTGAATGTAAAGATAAGTGAATTTTTTTATTATAGTAG
CCAAGGGTTGGTAGGGGCCCGTCTCACTTAAAATGAAAAATTTTCTATTTAGGCCCTTTAATTTT
TTTAAAATTTTAAATTAATAAAGGTAAAATTACACTTTGGCCCCCTAAAAATGAAAAAAAGTCGA
TTTAATCCTTTAAAATTTGTTTCTAACTTTACCCCAATGTATATTAATATATTTTTCACAATAAC
CATTAAAGAGATGGTCCACTCGTTTGTATATGTAACCCCTAAAAAGTTACATCACTTCGATTGTC
TTTTAAATATTGAAATCTAGACTTAAATTTTACCAAATGATTCATGACAGATAATATCAAATTTA
TTAATTCCGGTTTCACTTGAATTATAGTTTTTTCTTCTTTAGAAAAAAATCAGGCTCGAATGTAA
AAATAAATGAATTTTTGTTATAGTAGCCAAGGGCTGACAGGGGCCCCGACTCCCCTAAAATAGAA
AATTTTCTATTTAGGCCCTTTTAATTTTTTTAAATTTTAAATTAGTAAAGGTAAAATTACACTTT
AGCCCCCTAAAATGATAAAAATTCAAATTAATCCTTCAAAATTCTCTTCTA
Found at i:24612292 original size:2 final size:2
Alignment explanation
Indices: 24612275--24612310 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
24612265 TATACACGCA
* *
24612275 TG TG TA TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
24612311 ACTGACTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.50
Consensus pattern (2 bp):
TG
Found at i:24615862 original size:12 final size:12
Alignment explanation
Indices: 24615845--24615878 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
24615835 TTTAAATTTA
24615845 TTATTATTATTG
1 TTATTATTATTG
24615857 TTATTATTATTG
1 TTATTATTATTG
*
24615869 TTATCATTAT
1 TTATTATTAT
24615879 CATTTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:24629675 original size:2 final size:2
Alignment explanation
Indices: 24629668--24629692 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24629658 TCCTTGACAT
24629668 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24629693 TAATGGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24632416 original size:33 final size:30
Alignment explanation
Indices: 24632379--24632449 Score: 72
Period size: 33 Copynumber: 2.3 Consensus size: 30
24632369 ATTTTAGAAG
*
24632379 TATTTACTTAT-TAAATTATATTTATTTTAATAT
1 TATTTACTTATATAAACT-T-TTT-TTTTAAT-T
**
24632412 TATTTAAGTATATAAACTTTTTTTTTAATT
1 TATTTACTTATATAAACTTTTTTTTTAATT
24632442 TATTTACT
1 TATTTACT
24632450 AAACAAGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 7 0.22
31 7 0.22
32 3 0.09
33 10 0.31
34 5 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TATTTACTTATATAAACTTTTTTTTTAATT
Found at i:24635507 original size:12 final size:12
Alignment explanation
Indices: 24635487--24635519 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
24635477 AGGGTATTGA
24635487 AGAACCAGAAGC
1 AGAACCAGAAGC
*
24635499 AGAAGCAGAAGC
1 AGAACCAGAAGC
24635511 AGAACCAGA
1 AGAACCAGA
24635520 GACAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.21, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAACCAGAAGC
Found at i:24642299 original size:31 final size:31
Alignment explanation
Indices: 24642259--24642322 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
24642249 CTTAACAATC
*
24642259 CAGTGACTTAAAT-AAAGACTTTTGAATAGTT
1 CAGTAACTTAAATGAAA-ACTTTTGAATAGTT
*
24642290 CAGTAACTTAAATGGAAACTTTTGAATAGTT
1 CAGTAACTTAAATGAAAACTTTTGAATAGTT
24642321 CA
1 CA
24642323 ATGACCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (31 bp):
CAGTAACTTAAATGAAAACTTTTGAATAGTT
Found at i:24642541 original size:21 final size:21
Alignment explanation
Indices: 24642515--24642554 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24642505 ATCATCACCT
24642515 AAAAAATTATAATTTTTTATA
1 AAAAAATTATAATTTTTTATA
24642536 AAAAAATTATAATTTTTTA
1 AAAAAATTATAATTTTTTA
24642555 GGTGATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAAAATTATAATTTTTTATA
Found at i:24643652 original size:21 final size:22
Alignment explanation
Indices: 24643613--24643657 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24643603 TAAAAATTGG
24643613 TTGCATAAATATAAAAAAAATA
1 TTGCATAAATATAAAAAAAATA
24643635 TTGCATAAATAT-AAAAAAATA
1 TTGCATAAATATAAAAAAAATA
24643656 TT
1 TT
24643658 AACTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
TTGCATAAATATAAAAAAAATA
Found at i:24654784 original size:17 final size:15
Alignment explanation
Indices: 24654764--24654797 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
24654754 TTTTTATAGT
24654764 TTTTAATAATTTAATAA
1 TTTTAAT-ATTTAA-AA
24654781 TTTTAATATTTAAAA
1 TTTTAATATTTAAAA
24654796 TT
1 TT
24654798 AAAAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTAATATTTAAAA
Found at i:24661040 original size:30 final size:30
Alignment explanation
Indices: 24661014--24661444 Score: 362
Period size: 30 Copynumber: 14.1 Consensus size: 30
24661004 AAACATGATT
* *
24661014 TGCAGTCACACAAGCTGCATTTACATGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
**
24661044 TGCAGTCGCATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCA-CGA--GCTGCATTTACATGAAC
* * *
24661077 TGCAGTTGCATGAGCTGCATTTACAAGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
**
24661107 TGCAGTCGCATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCA-CGA--GCTGCATTTACATGAAC
* * * *
24661140 TACAGTTGCATGAGCTGCAATTACATGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* **
24661170 TGCAGTCACATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCA-CGA--GCTGCATTTACATGAAC
* * * * *
24661203 TACAGTCACACGGGCTGCATTTACATGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* * * *
24661233 TGCAGTCGCATGAGCTGCATTTACACGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* * * *
24661263 TGCAGTTGCACGAGCTGCATTTACACGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* * *
24661293 TGCAGTCGCACGAGCTGCATTTACACGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* *
24661323 TGCAGTCGCACGAGCTGCATTTACACGGA-
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* * *
24661352 TCGCAGTTGCATGAGCTGCATTTACATGAAG
1 T-GCAGTCGCACGAGCTGCATTTACATGAAC
*
24661383 TGCAATCGCACGAGCTGCATTTACATGAA-
1 TGCAGTCGCACGAGCTGCATTTACATGAAC
* * * * *
24661412 GGCAGGTCACATGAGCTGCATTTGCACGAAC
1 TGCA-GTCGCACGAGCTGCATTTACATGAAC
24661443 TG
1 TG
24661445 TGTTCCGATG
Statistics
Matches: 339, Mismatches: 49, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.01
30 252 0.74
31 6 0.02
32 2 0.01
33 75 0.22
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (30 bp):
TGCAGTCGCACGAGCTGCATTTACATGAAC
Found at i:24661046 original size:15 final size:15
Alignment explanation
Indices: 24661028--24661187 Score: 95
Period size: 15 Copynumber: 10.3 Consensus size: 15
24661018 GTCACACAAG
*
24661028 CTGCATTTACATGAA
1 CTGCAGTTACATGAA
** *
24661043 CTGCAGTCGCATAAA
1 CTGCAGTTACATGAA
*
24661058 CTGCTGCATTTACATGAA
1 ---CTGCAGTTACATGAA
* *
24661076 CTGCAGTTGCATGAG
1 CTGCAGTTACATGAA
* *
24661091 CTGCATTTACAAGAA
1 CTGCAGTTACATGAA
** *
24661106 CTGCAGTCGCATAAA
1 CTGCAGTTACATGAA
*
24661121 CTGCTGCATTTACATGAA
1 ---CTGCAGTTACATGAA
* * *
24661139 CTACAGTTGCATGAG
1 CTGCAGTTACATGAA
*
24661154 CTGCAATTACATGAA
1 CTGCAGTTACATGAA
* *
24661169 CTGCAGTCACATAAA
1 CTGCAGTTACATGAA
24661184 CTGC
1 CTGC
24661188 TGCATTTACA
Statistics
Matches: 104, Mismatches: 35, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
15 82 0.79
18 22 0.21
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (15 bp):
CTGCAGTTACATGAA
Found at i:24661081 original size:63 final size:61
Alignment explanation
Indices: 24661014--24661411 Score: 399
Period size: 63 Copynumber: 6.5 Consensus size: 61
24661004 AAACATGATT
* *
24661014 TGCAGTCACACAAGCTGCATTTACATGAACTGCAGTCGCATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAA--GCTGCATTTACATGAAC
* * *
24661077 TGCAGTTGCATGAGCTGCATTTACAAGAACTGCAGTCGCATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAA--GCTGCATTTACATGAAC
* * * * *
24661140 TACAGTTGCATGAGCTGCAATTACATGAACTGCAGTCACATAAACTGCTGCATTTACATGAAC
1 TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAA--GCTGCATTTACATGAAC
* * * * * * * * *
24661203 TACAGTCACACGGGCTGCATTTACATGGATTGCAGTCGCAT-GAGCTGCATTTACACGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAAGCTGCATTTACATGAAC
* * * * ** * * *
24661263 TGCAGTTGCACGAGCTGCATTTACACGGATTGCAGTCGCA-CGAGCTGCATTTACACGGAT
1 TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAAGCTGCATTTACATGAAC
* * * * *
24661323 TGCAGTCGCACGAGCTGCATTTACACGGA-TCGCAGTTGCAT-GAGCTGCATTTACATGAAG
1 TGCAGTCGCACGAGCTGCATTTACATGAACT-GCAGTCGCATAAAGCTGCATTTACATGAAC
*
24661383 TGCAATCGCACGAGCTGCATTTACATGAA
1 TGCAGTCGCACGAGCTGCATTTACATGAA
24661412 GGCAGGTCAC
Statistics
Matches: 298, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
59 1 0.00
60 146 0.49
62 1 0.00
63 150 0.50
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (61 bp):
TGCAGTCGCACGAGCTGCATTTACATGAACTGCAGTCGCATAAAGCTGCATTTACATGAAC
Found at i:24661212 original size:33 final size:33
Alignment explanation
Indices: 24661027--24661209 Score: 243
Period size: 33 Copynumber: 5.7 Consensus size: 33
24661017 AGTCACACAA
24661027 GCTGCATTTACATGAACTGCAGTCGCATAAACT
1 GCTGCATTTACATGAACTGCAGTCGCATAAACT
* *
24661060 GCTGCATTTACATGAACTGCAGTTGCAT-GA--
1 GCTGCATTTACATGAACTGCAGTCGCATAAACT
*
24661090 GCTGCATTTACAAGAACTGCAGTCGCATAAACT
1 GCTGCATTTACATGAACTGCAGTCGCATAAACT
* * *
24661123 GCTGCATTTACATGAACTACAGTTGCAT-GA--
1 GCTGCATTTACATGAACTGCAGTCGCATAAACT
* *
24661153 GCTGCAATTACATGAACTGCAGTCACATAAACT
1 GCTGCATTTACATGAACTGCAGTCGCATAAACT
*
24661186 GCTGCATTTACATGAACTACAGTC
1 GCTGCATTTACATGAACTGCAGTC
24661210 ACACGGGCTG
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
30 50 0.39
31 2 0.02
32 2 0.02
33 74 0.58
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (33 bp):
GCTGCATTTACATGAACTGCAGTCGCATAAACT
Found at i:24661266 original size:15 final size:15
Alignment explanation
Indices: 24661248--24661326 Score: 63
Period size: 15 Copynumber: 5.3 Consensus size: 15
24661238 TCGCATGAGC
24661248 TGCATTTACACGGAT
1 TGCATTTACACGGAT
* * *
24661263 TGCAGTTGCAC-GAGC
1 TGCATTTACACGGA-T
24661278 TGCATTTACACGGAT
1 TGCATTTACACGGAT
* ** *
24661293 TGCAGTCGCAC-GAGC
1 TGCATTTACACGGA-T
24661308 TGCATTTACACGGAT
1 TGCATTTACACGGAT
24661323 TGCA
1 TGCA
24661327 GTCGCACGAG
Statistics
Matches: 46, Mismatches: 14, Indels: 8
0.68 0.21 0.12
Matches are distributed among these distances:
14 4 0.09
15 38 0.83
16 4 0.09
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (15 bp):
TGCATTTACACGGAT
Found at i:24669447 original size:16 final size:16
Alignment explanation
Indices: 24669425--24669493 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
24669415 TTTGGTTCGC
24669425 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
24669441 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24669457 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
24669474 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24669490 TGTA
1 TGTA
24669494 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24669471 original size:33 final size:32
Alignment explanation
Indices: 24669425--24669493 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
24669415 TTTGGTTCGC
24669425 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
24669457 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
24669490 TGTA
1 TGTA
24669494 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:24669558 original size:44 final size:45
Alignment explanation
Indices: 24669474--24669564 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
24669464 GGATTAGAGG
* * *
24669474 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
24669519 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
24669563 TG
1 TG
24669565 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:24669750 original size:18 final size:17
Alignment explanation
Indices: 24669729--24669763 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24669719 TTATTATTAA
*
24669729 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24669747 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24669764 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24669870 original size:18 final size:17
Alignment explanation
Indices: 24669849--24669883 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24669839 TTATTATTAA
*
24669849 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24669867 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24669884 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24670008 original size:120 final size:120
Alignment explanation
Indices: 24669712--24669975 Score: 519
Period size: 120 Copynumber: 2.2 Consensus size: 120
24669702 ATCATATTTA
24669712 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24669777 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
24669832 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
24669897 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
24669952 AACATAATTATTATTAAATATATT
1 AACATAATTATTATTAAATATATT
24669976 AAATATAATT
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 143 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:24672696 original size:11 final size:11
Alignment explanation
Indices: 24672680--24672707 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24672670 AATCGGGAGG
24672680 CGAAGGTAGAA
1 CGAAGGTAGAA
24672691 CGAAGGTAGAA
1 CGAAGGTAGAA
24672702 CGAAGG
1 CGAAGG
24672708 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:24673781 original size:21 final size:22
Alignment explanation
Indices: 24673741--24673781 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24673731 ATAGAAACAC
* *
24673741 TAAATAATAAAGAGAAATATGT
1 TAAAAAATAAAGAAAAATATGT
24673763 TAAAAAATAAA-AAAAATAT
1 TAAAAAATAAAGAAAAATAT
24673782 ATTTATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
TAAAAAATAAAGAAAAATATGT
Found at i:24674801 original size:40 final size:40
Alignment explanation
Indices: 24674746--24674826 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
24674736 TCAACGATCG
*
24674746 ATACATTGGATTAATACCCTATCGATGAATAAAAGAACAT
1 ATACAATGGATTAATACCCTATCGATGAATAAAAGAACAT
24674786 ATACAATGGATTAATACCCTATCGATGAATAAAAGAACAT
1 ATACAATGGATTAATACCCTATCGATGAATAAAAGAACAT
24674826 A
1 A
24674827 CATTAGATCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (40 bp):
ATACAATGGATTAATACCCTATCGATGAATAAAAGAACAT
Found at i:24677758 original size:16 final size:16
Alignment explanation
Indices: 24677737--24677788 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
24677727 TTTGGTTCGC
24677737 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24677753 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
24677769 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
24677785 TGTA
1 TGTA
24677789 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24677835 original size:45 final size:44
Alignment explanation
Indices: 24677769--24677863 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
24677759 GGATTAGAGG
* *
24677769 TGTAATGGAATAGAGGTGTAATAGC-AAATCAACTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAGCAAAAT--ACTGTTTGGTTGAA
* **
24677814 TGTAATGAAATAGAGGCGTAATAGTAAAATTGTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAGCAAAATACTGTTTGGTTGAA
24677858 TGTAAT
1 TGTAAT
24677864 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
44 18 0.41
45 22 0.50
46 4 0.09
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGAAATAGAGGCGTAATAGCAAAATACTGTTTGGTTGAA
Found at i:24678033 original size:25 final size:25
Alignment explanation
Indices: 24678001--24678055 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
24677991 TAATTTAATC
*
24678001 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
24678025 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
24678050 ATATAT
1 ATATAT
24678056 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:24685354 original size:21 final size:22
Alignment explanation
Indices: 24685328--24685374 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24685318 CTCTGCTCAA
*
24685328 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
24685349 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
24685371 ACTC
1 ACTC
24685375 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:24688795 original size:29 final size:28
Alignment explanation
Indices: 24688756--24688840 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
24688746 TAAACACTTT
24688756 TAAAATT-TAAAAATTATTTAAAAAATCA
1 TAAAATTATAAAAATTATTTAAAAAAT-A
*
24688784 TAAAATTATAAATAA-AATTTATAAAAA-A
1 TAAAATTATAAA-AATTATTTA-AAAAATA
* * *
24688812 TTAAATTATAAAATTTTTATTAAAAAATA
1 TAAAATTATAAAAATTAT-TTAAAAAATA
24688841 ATAATGTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 1 0.02
28 25 0.54
29 13 0.28
30 7 0.15
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAAATTATAAAAATTATTTAAAAAATA
Found at i:24698592 original size:15 final size:16
Alignment explanation
Indices: 24698572--24698611 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
24698562 CAATTAATTA
24698572 TAATTAAAAAA-TATT
1 TAATTAAAAAATTATT
24698587 TAATTATAAAAAATTATT
1 TAA-T-TAAAAAATTATT
24698605 TAATTAA
1 TAATTAA
24698612 TGTTGTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 4 0.18
17 8 0.36
18 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAAAATTATT
Found at i:24698598 original size:17 final size:18
Alignment explanation
Indices: 24698576--24698610 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24698566 TAATTATAAT
24698576 TAAAAAA-TATTTAATTA
1 TAAAAAATTATTTAATTA
24698593 TAAAAAATTATTTAATTA
1 TAAAAAATTATTTAATTA
24698611 ATGTTGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAAAATTATTTAATTA
Found at i:24699779 original size:15 final size:16
Alignment explanation
Indices: 24699753--24699784 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24699743 GGAAAAAGGG
24699753 AGAAAGAGAAAGAGAA
1 AGAAAGAGAAAGAGAA
24699769 AGAAA-AGAAAGAGAA
1 AGAAAGAGAAAGAGAA
24699784 A
1 A
24699785 AATTAGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (16 bp):
AGAAAGAGAAAGAGAA
Found at i:24701970 original size:38 final size:39
Alignment explanation
Indices: 24701886--24702020 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
24701876 ACCAATATGG
*
24701886 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
24701925 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
24701963 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
24702004 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
24702021 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:24704151 original size:26 final size:27
Alignment explanation
Indices: 24704104--24704160 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
24704094 TGTACATTTT
* * *
24704104 TTTTTCTTTGCTCTTTTCATTTTCACA
1 TTTTTCTTTACTCCTTTCATTTACACA
* *
24704131 TTTTTCTTTATTCCTTT-ATTTACATA
1 TTTTTCTTTACTCCTTTCATTTACACA
24704157 TTTT
1 TTTT
24704161 ATTATTACTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTTCTTTACTCCTTTCATTTACACA
Found at i:24704177 original size:15 final size:15
Alignment explanation
Indices: 24704150--24704195 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24704140 ATTCCTTTAT
24704150 TTACATATT-TTATTA
1 TTAC-TATTATTATTA
*
24704165 TTACTATTATTATTG
1 TTACTATTATTATTA
*
24704180 TTACTATTATTGTTA
1 TTACTATTATTATTA
24704195 T
1 T
24704196 ATTTTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (15 bp):
TTACTATTATTATTA
Found at i:24707113 original size:21 final size:21
Alignment explanation
Indices: 24707089--24707128 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
24707079 GGCACGGGCA
*
24707089 TGTCTAATGGCCACACGGGTG
1 TGTCCAATGGCCACACGGGTG
**
24707110 TGTCCCTTGGCCACACGGG
1 TGTCCAATGGCCACACGGG
24707129 CGCGTGTACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (21 bp):
TGTCCAATGGCCACACGGGTG
Found at i:24718234 original size:79 final size:77
Alignment explanation
Indices: 24718096--24718251 Score: 285
Period size: 79 Copynumber: 2.0 Consensus size: 77
24718086 AACTTTACAA
*
24718096 CATTAATAGTTGATATGGTGAAAAAAGAGACTATTTGCATCCCAAGGATGAAATATCATTCTAGC
1 CATTAATAGTTGATATGGTGAAAAAAGAGACTATTTGCATCCCAAGGAGGAAATATCATTCTAGC
24718161 TCAGGTATATAT
66 TCAGGTATATAT
24718173 CATTAATAGTTGATATGGTGAAAAAAGAGAAACTATTTGCATCCCAAGGAGGAAATATCATTCTA
1 CATTAATAGTTGATATGGTGAAAAAAGAG--ACTATTTGCATCCCAAGGAGGAAATATCATTCTA
24718238 GCTCAGGTATATAT
64 GCTCAGGTATATAT
24718252 GATAAAATTT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 29 0.38
79 47 0.62
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (77 bp):
CATTAATAGTTGATATGGTGAAAAAAGAGACTATTTGCATCCCAAGGAGGAAATATCATTCTAGC
TCAGGTATATAT
Found at i:24718288 original size:15 final size:16
Alignment explanation
Indices: 24718259--24718291 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24718249 TATGATAAAA
24718259 TTTTATGTTTAATTAT
1 TTTTATGTTTAATTAT
*
24718275 TTTTAT-TTTTATTAT
1 TTTTATGTTTAATTAT
24718290 TT
1 TT
24718292 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTATGTTTAATTAT
Found at i:24718490 original size:20 final size:19
Alignment explanation
Indices: 24718465--24718502 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24718455 AAACCTATGG
24718465 TACTATATTTAATTTATTTT
1 TACTATA-TTAATTTATTTT
*
24718485 TACTATATTATTTTATTT
1 TACTATATTAATTTATTT
24718503 AGAGATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TACTATATTAATTTATTTT
Found at i:24719794 original size:25 final size:24
Alignment explanation
Indices: 24719750--24719796 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
24719740 TGACAAGGTG
*
24719750 AATTATTTAAATCACATTATATTC
1 AATTATTTAAATAACATTATATTC
24719774 AATTCATTTAATATAAC-TTATAT
1 AATT-ATTTAA-ATAACATTATAT
24719797 ATGTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTATTTAAATAACATTATATTC
Found at i:24731304 original size:20 final size:19
Alignment explanation
Indices: 24731259--24731316 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
24731249 ATATAGATAT
* *
24731259 TAAAATTTTATAAAAATGTA
1 TAAAAATTTATAAAACT-TA
*
24731279 TTAAAATTTATATAAACTTA
1 TAAAAATTTATA-AAACTTA
24731299 TAAAAA-TTATACAAACTT
1 TAAAAATTTATA-AAACTT
24731317 GAATTAGACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 11 0.34
20 17 0.53
21 4 0.12
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAAATTTATAAAACTTA
Found at i:24731308 original size:19 final size:19
Alignment explanation
Indices: 24731280--24731316 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24731270 AAAAATGTAT
* *
24731280 TAAAATTTATATAAACTTA
1 TAAAAATTATACAAACTTA
24731299 TAAAAATTATACAAACTT
1 TAAAAATTATACAAACTT
24731317 GAATTAGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATTATACAAACTTA
Found at i:24731784 original size:37 final size:39
Alignment explanation
Indices: 24731743--24731838 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 39
24731733 TTTAATGTTT
24731743 TTTAATATTATTTTATAATTTTTAAAT-TTATT-AATAA-
1 TTTAATATTATTTTATAATTTTTAAATGTT-TTGAATAAG
* *
24731780 TTTAAT-TCATTTTTTAA-TTTTAAATGTTTTGAATAAG
1 TTTAATATTATTTTATAATTTTTAAATGTTTTGAATAAG
24731817 TTT--TATTAATTTTATAATTTTT
1 TTTAATATT-ATTTTATAATTTTT
24731839 TTATATTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
35 11 0.22
36 17 0.35
37 17 0.35
38 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (39 bp):
TTTAATATTATTTTATAATTTTTAAATGTTTTGAATAAG
Found at i:24731831 original size:9 final size:9
Alignment explanation
Indices: 24731817--24731914 Score: 51
Period size: 9 Copynumber: 10.8 Consensus size: 9
24731807 TTTGAATAAG
24731817 TTTTATTAA
1 TTTTATTAA
24731826 TTTTA-TAA
1 TTTTATTAA
*
24731834 TTTTTTTATA
1 TTTTATTA-A
*
24731844 TTTT-GTAA
1 TTTTATTAA
*
24731852 TGTTTATAAA
1 T-TTTATTAA
24731862 TGTTTA-TAA
1 T-TTTATTAA
*
24731871 TTTTAGTAA
1 TTTTATTAA
*
24731880 GTTTACATTAA
1 -TTT-TATTAA
*
24731891 TTTTAAT-A
1 TTTTATTAA
* *
24731899 TTTTAATAT
1 TTTTATTAA
24731908 TTTTATT
1 TTTTATT
24731915 TTTATAATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
8 21 0.30
9 26 0.37
10 19 0.27
11 4 0.06
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTATTAA
Found at i:24731836 original size:8 final size:8
Alignment explanation
Indices: 24731812--24731925 Score: 54
Period size: 8 Copynumber: 13.0 Consensus size: 8
24731802 AATGTTTTGA
24731812 ATAAGTTTT
1 ATAA-TTTT
24731821 ATTAATTTT
1 A-TAATTTT
24731830 ATAATTTTT
1 ATAA-TTTT
*
24731839 TTATATTTT
1 ATA-ATTTT
*
24731848 GTAATGTTT
1 ATAAT-TTT
24731857 ATAAATGTTT
1 AT-AAT-TTT
24731867 ATAATTTT
1 ATAATTTT
*
24731875 AGTAAGTTTAC
1 A-TAA-TTT-T
24731886 ATTAATTTT
1 A-TAATTTT
24731895 A-ATATTTT
1 ATA-ATTTT
24731903 A-ATATTTT
1 ATA-ATTTT
*
24731911 -TATTTTT
1 ATAATTTT
24731918 ATAATTTT
1 ATAATTTT
24731926 TTGTTATTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 23
0.74 0.07 0.20
Matches are distributed among these distances:
7 5 0.06
8 29 0.34
9 29 0.34
10 19 0.22
11 4 0.05
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.61
Consensus pattern (8 bp):
ATAATTTT
Found at i:24731838 original size:18 final size:18
Alignment explanation
Indices: 24731812--24731874 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
24731802 AATGTTTTGA
*
24731812 ATAAGTTTTATTAATTTT
1 ATAATTTTTATTAATTTT
24731830 ATAATTTTT-TTATATTTT
1 ATAATTTTTATTA-ATTTT
* * *
24731848 GTAATGTTTATAAATGTTT
1 ATAATTTTTATTAAT-TTT
24731867 ATAATTTT
1 ATAATTTT
24731875 AGTAAGTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 3 0.08
18 22 0.61
19 11 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
ATAATTTTTATTAATTTT
Found at i:24734189 original size:31 final size:31
Alignment explanation
Indices: 24734154--24734219 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
24734144 ATTTTAAGCC
* * *
24734154 CATATGTCAGGACGGGTCAGATTTAAACAAA
1 CATATGTCAAGACGGGCCAAATTTAAACAAA
* *
24734185 CATATTTCAAGTCGGGCCAAATTTAAACAAA
1 CATATGTCAAGACGGGCCAAATTTAAACAAA
24734216 CATA
1 CATA
24734220 AAATATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (31 bp):
CATATGTCAAGACGGGCCAAATTTAAACAAA
Found at i:24736598 original size:9 final size:9
Alignment explanation
Indices: 24736557--24736608 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
24736547 GAATTAATGA
24736557 TTTTTTATT
1 TTTTTTATT
*
24736566 TTTTATACTT
1 TTTTTTA-TT
24736576 TATTATTATATT
1 T-TT-TT-TATT
24736588 TTTTTTATT
1 TTTTTTATT
*
24736597 TTTTATATT
1 TTTTTTATT
24736606 TTT
1 TTT
24736609 ATTTCTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 21 0.58
10 5 0.14
11 4 0.11
12 4 0.11
13 2 0.06
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTATT
Found at i:24736599 original size:30 final size:30
Alignment explanation
Indices: 24736557--24736631 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
24736547 GAATTAATGA
24736557 TTTTTTATTTTTTATACTTTATTA-TTATATT
1 TTTTTTATTTTTTATA-TTT-TTATTTATATT
*
24736588 TTTTTTATTTTTTATATTTTTATTTCTATT
1 TTTTTTATTTTTTATATTTTTATTTATATT
* *
24736618 TTTATAATTTTTTA
1 TTTTTTATTTTTTA
24736632 AATTAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.08
30 21 0.52
31 16 0.40
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTTTATTTTTTATATTTTTATTTATATT
Found at i:24736602 original size:21 final size:20
Alignment explanation
Indices: 24736562--24736630 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
24736552 AATGATTTTT
* *
24736562 TATTTTTTATACTTTATTATTA
1 TATTTTTTTTA-TTTTTTA-TA
24736584 TATTTTTTTTATTTTTTATA
1 TATTTTTTTTATTTTTTATA
24736604 T-TTTTATTTCTA-TTTTTATA
1 TATTTT-TTT-TATTTTTTATA
24736624 -ATTTTTT
1 TATTTTTT
24736631 AAATTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.14
20 18 0.43
21 8 0.19
22 10 0.24
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TATTTTTTTTATTTTTTATA
Found at i:24736604 original size:18 final size:19
Alignment explanation
Indices: 24736576--24736630 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
24736566 TTTTATACTT
*
24736576 TATTATTATATTTTTTTTA
1 TATTTTTATATTTTTTTTA
*
24736595 T-TTTTTATATTTTTATTTC
1 TATTTTTATATTTTT-TTTA
24736614 TATTTTTATAATTTTTT
1 TATTTTTAT-ATTTTTT
24736631 AAATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 12 0.39
19 5 0.16
20 8 0.26
21 6 0.19
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTATATTTTTTTTA
Found at i:24736611 original size:24 final size:23
Alignment explanation
Indices: 24736558--24736612 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
24736548 AATTAATGAT
24736558 TTTTTATTTTTTATACTTTATTA
1 TTTTTATTTTTTATACTTTATTA
**
24736581 TTATATT-TTTTTTATTTTTTA-TA
1 TT-T-TTATTTTTTATACTTTATTA
24736604 TTTTTATTT
1 TTTTTATTT
24736613 CTATTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.07
22 4 0.15
23 6 0.22
24 13 0.48
25 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTATTTTTTATACTTTATTA
Found at i:24736623 original size:38 final size:37
Alignment explanation
Indices: 24736556--24736630 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
24736546 GGAATTAATG
*
24736556 ATTTTTTATTTTTTATACTTTATTATTATATTTTTTTT
1 ATTTTTTATTTTTTATA-TTTATTATTATAATTTTTTT
*
24736594 ATTTTTTATATTTTTAT-TTCTATTTTTATAATTTTTT
1 ATTTTTTAT-TTTTTATATT-TATTATTATAATTTTTT
24736631 AAATTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 2 0.06
38 24 0.73
39 7 0.21
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (37 bp):
ATTTTTTATTTTTTATATTTATTATTATAATTTTTTT
Found at i:24737569 original size:11 final size:12
Alignment explanation
Indices: 24737545--24737569 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24737535 TTCTTAGAAA
24737545 TTTTTAAAATTT
1 TTTTTAAAATTT
24737557 TTTTTAAAATTT
1 TTTTTAAAATTT
24737569 T
1 T
24737570 AATATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAAAATTT
Found at i:24737594 original size:26 final size:27
Alignment explanation
Indices: 24737564--24737614 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
24737554 TTTTTTTTAA
*
24737564 AATTTTAATATATA-TATAAATTTTGG
1 AATTTTAATAAATATTATAAATTTTGG
* *
24737590 AATTTTTATAAATATTTTAAATTTT
1 AATTTTAATAAATATTATAAATTTT
24737615 AAAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
AATTTTAATAAATATTATAAATTTTGG
Found at i:24737633 original size:19 final size:18
Alignment explanation
Indices: 24737590--24737633 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
24737580 TAAATTTTGG
*
24737590 AATTTTTATAAATATTTT
1 AATTTTTAAAAATATTTT
*
24737608 AAATTTTAAAAATTATTTT
1 AATTTTTAAAAA-TATTTT
*
24737627 GATTTTT
1 AATTTTT
24737634 TTCTTTTGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AATTTTTAAAAATATTTT
Found at i:24739452 original size:16 final size:16
Alignment explanation
Indices: 24739421--24739457 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24739411 ATGTGAATAA
24739421 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
24739437 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
24739453 TATTA
1 TATTA
24739458 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:24739509 original size:22 final size:22
Alignment explanation
Indices: 24739469--24739524 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
24739459 AATAAAATTG
*
24739469 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
24739489 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
24739511 TATTAATAATTTAT
1 AAATAATAAATTAT
24739525 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:24745883 original size:14 final size:14
Alignment explanation
Indices: 24745864--24745890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24745854 TTGTGTGTTC
24745864 TTTATTTTATTTTA
1 TTTATTTTATTTTA
24745878 TTTATTTTATTTT
1 TTTATTTTATTTT
24745891 TCATAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:24745913 original size:5 final size:5
Alignment explanation
Indices: 24745903--24745950 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
24745893 ATAATAATAA
24745903 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
24745951 TATAATAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:24747285 original size:10 final size:10
Alignment explanation
Indices: 24747272--24747309 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
24747262 TTATTTTTGT
24747272 TTATCTTTAA
1 TTATCTTTAA
24747282 TTATCTTTAA
1 TTATCTTTAA
*
24747292 TTAT-TTGTAT
1 TTATCTT-TAA
24747302 TTATCTTT
1 TTATCTTT
24747310 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:24748077 original size:12 final size:12
Alignment explanation
Indices: 24748060--24748084 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24748050 TTAATTTCTC
24748060 AATTTCAATTCG
1 AATTTCAATTCG
24748072 AATTTCAATTCG
1 AATTTCAATTCG
24748084 A
1 A
24748085 TTTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
AATTTCAATTCG
Found at i:24755861 original size:10 final size:10
Alignment explanation
Indices: 24755848--24755886 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
24755838 AGGATTTGTT
24755848 TTTATTTATC
1 TTTATTTATC
*
24755858 TTTAATTATC
1 TTTATTTATC
24755868 TTTATTTAT-
1 TTTATTTATC
24755877 TTGTATTTAT
1 TT-TATTTAT
24755887 ATTTTAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 2 0.08
10 24 0.92
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATTTATC
Found at i:24756640 original size:17 final size:18
Alignment explanation
Indices: 24756609--24756642 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24756599 TATTCTCTAT
*
24756609 TTTAATTTTCGCAATTTA
1 TTTAATTTTCACAATTTA
24756627 TTTAA-TTTCACAATTT
1 TTTAATTTTCACAATTT
24756643 CAATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCACAATTTA
Found at i:24757114 original size:41 final size:40
Alignment explanation
Indices: 24757069--24757174 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 40
24757059 CGACCTCGAG
*
24757069 TCGATAAGACACTGGATGTCAATTATTTACTTCGGATTAAT
1 TCGATAAGGCACTGG-TGTCAATTATTTACTTCGGATTAAT
*
24757110 TCGATAAGGCACTAGGTGTCAATTATTTACTTTGGATTAAT
1 TCGATAAGGCACT-GGTGTCAATTATTTACTTCGGATTAAT
* *
24757151 TCGATGAGGCACTGGGTGCCAATT
1 TCGATAAGGCACT-GGTGTCAATT
24757175 TACTTCGGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 57 0.97
42 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (40 bp):
TCGATAAGGCACTGGTGTCAATTATTTACTTCGGATTAAT
Found at i:24765732 original size:18 final size:20
Alignment explanation
Indices: 24765704--24765746 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
24765694 AAGTATTATC
24765704 ATAATAGTATAA-CTTATTT
1 ATAATAGTATAATCTTATTT
*
24765723 ATAATA-TATAATTTTATTT
1 ATAATAGTATAATCTTATTT
24765742 -TAATA
1 ATAATA
24765747 ATTTCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
ATAATAGTATAATCTTATTT
Found at i:24766176 original size:21 final size:21
Alignment explanation
Indices: 24766145--24766204 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
24766135 TAAACAACTC
24766145 ATATCATTATTTTAAAATAAAA
1 ATAT-ATTATTTTAAAATAAAA
*
24766167 ATATATTATTTT--AATTAAA
1 ATATATTATTTTAAAATAAAA
*
24766186 ATTTA-TATTTTATAAATAA
1 ATATATTATTTTA-AAATAA
24766205 TTTTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 10 0.31
21 12 0.38
22 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATTATTTTAAAATAAAA
Found at i:24769097 original size:22 final size:23
Alignment explanation
Indices: 24769065--24769114 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
24769055 TTTTGTTTTG
*
24769065 ATTCTGTTGTCTCC-AGTACTGAC
1 ATTCTGTTGTC-CCTAATACTGAC
24769088 ATTCT-TTGTCCCTAATACTGAC
1 ATTCTGTTGTCCCTAATACTGAC
24769110 ATTCT
1 ATTCT
24769115 CTGTAAGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (23 bp):
ATTCTGTTGTCCCTAATACTGAC
Found at i:24771398 original size:46 final size:44
Alignment explanation
Indices: 24771294--24771401 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
24771284 TGTCTTTGAC
** * * *
24771294 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
24771338 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
24771384 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
24771402 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:24772862 original size:7 final size:6
Alignment explanation
Indices: 24772842--24772884 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
24772832 ATGATTATGA
* *
24772842 TTATTAT TTATTT TTACTT TTATTT TTAATTT TTAATT TTATT
1 TTATT-T TTATTT TTATTT TTATTT TT-ATTT TTATTT TTATT
24772885 CTTTTTCCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:24772864 original size:19 final size:19
Alignment explanation
Indices: 24772842--24772884 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24772832 ATGATTATGA
*
24772842 TTATTATTT-ATTTTTACTT
1 TTATT-TTTAATTTTTAATT
24772861 TTATTTTTAATTTTTAATT
1 TTATTTTTAATTTTTAATT
24772880 TTATT
1 TTATT
24772885 CTTTTTCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTTTAATTTTTAATT
Found at i:24776240 original size:27 final size:28
Alignment explanation
Indices: 24776210--24776276 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
24776200 ACAAAGTTGC
*
24776210 TAACTAACAAACTTCTGTAA-CTATCTT
1 TAACTAACTAACTTCTGTAACCTATCTT
* *
24776237 TAACT-ACTAACTTCTTTAACCTTTCTT
1 TAACTAACTAACTTCTGTAACCTATCTT
*
24776264 TAACAAACTAACT
1 TAACTAACTAACT
24776277 ACTCAACTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.35
27 15 0.44
28 7 0.21
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (28 bp):
TAACTAACTAACTTCTGTAACCTATCTT
Found at i:24778190 original size:19 final size:21
Alignment explanation
Indices: 24778166--24778204 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
24778156 TATTGAATAT
24778166 ATATAAAAAT-TA-TTAAAAA
1 ATATAAAAATCTAGTTAAAAA
24778185 ATATAAAAATCTAGTTAAAA
1 ATATAAAAATCTAGTTAAAA
24778205 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (21 bp):
ATATAAAAATCTAGTTAAAAA
Found at i:24781260 original size:15 final size:15
Alignment explanation
Indices: 24781240--24781272 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24781230 CTATATATTT
24781240 ATCGAGCATTTTCTA
1 ATCGAGCATTTTCTA
24781255 ATCGAGCATTTTCTA
1 ATCGAGCATTTTCTA
24781270 ATC
1 ATC
24781273 AAAGGAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (15 bp):
ATCGAGCATTTTCTA
Found at i:24789433 original size:13 final size:15
Alignment explanation
Indices: 24789405--24789437 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
24789395 TTTAGCCGAG
24789405 TTAATTTGAGTTGAA
1 TTAATTTGAGTTGAA
24789420 TTAATTT-A-TTGAA
1 TTAATTTGAGTTGAA
24789433 TTAAT
1 TTAAT
24789438 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
TTAATTTGAGTTGAA
Found at i:24797892 original size:18 final size:18
Alignment explanation
Indices: 24797869--24797961 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
24797859 CCCAACTACT
*
24797869 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
24797887 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
24797905 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
24797923 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
24797941 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
24797959 GTA
1 GTA
24797962 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:24797921 original size:36 final size:36
Alignment explanation
Indices: 24797869--24797961 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
24797859 CCCAACTACT
*
24797869 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
24797905 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
24797941 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
24797962 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:24817958 original size:31 final size:31
Alignment explanation
Indices: 24817912--24817971 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
24817902 GGCCATTAAA
* *
24817912 CTATTCGAAAGTTTTTATTTAAGTCATTGAG
1 CTATTCAAAAATTTTTATTTAAGTCATTGAG
24817943 CTATTCAAAAATTTTTATTTAAGTCATTG
1 CTATTCAAAAATTTTTATTTAAGTCATTG
24817972 GGTCGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (31 bp):
CTATTCAAAAATTTTTATTTAAGTCATTGAG
Found at i:24836266 original size:8 final size:8
Alignment explanation
Indices: 24836250--24836300 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
24836240 ACAATGTAAC
24836250 TTAAA-TT
1 TTAAATTT
24836257 TTAAATTT
1 TTAAATTT
24836265 TTAAATTT
1 TTAAATTT
24836273 TTAAATTT
1 TTAAATTT
*
24836281 TTAAA-TA
1 TTAAATTT
*
24836288 TTAAATTC
1 TTAAATTT
24836296 TTAAA
1 TTAAA
24836301 AATAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
7 11 0.28
8 29 0.73
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (8 bp):
TTAAATTT
Found at i:24836270 original size:15 final size:15
Alignment explanation
Indices: 24836250--24836300 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
24836240 ACAATGTAAC
24836250 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
24836265 TTAAATTTTTAAATTT
1 TTAAA-TTTTAAATTT
* *
24836281 TTAAATATTAAATTC
1 TTAAATTTTAAATTT
24836296 TTAAA
1 TTAAA
24836301 AATAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 18 0.55
16 15 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:24836277 original size:23 final size:23
Alignment explanation
Indices: 24836249--24836300 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
24836239 AACAATGTAA
*
24836249 CTTAAA-TTTTAAATTTTTAAATT
1 CTTAAATTTTTAAA-TATTAAATT
*
24836272 TTTAAATTTTTAAATATTAAATT
1 CTTAAATTTTTAAATATTAAATT
24836295 CTTAAA
1 CTTAAA
24836301 AATAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
CTTAAATTTTTAAATATTAAATT
Found at i:24838329 original size:20 final size:21
Alignment explanation
Indices: 24838304--24838346 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
24838294 AGACATAACT
24838304 TAAATTCACTTTTTTT-TATA
1 TAAATTCACTTTTTTTATATA
24838324 TAAATTCACTTTTTTTATATA
1 TAAATTCACTTTTTTTATATA
24838345 TA
1 TA
24838347 TTTTTTCGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (21 bp):
TAAATTCACTTTTTTTATATA
Found at i:24838758 original size:19 final size:19
Alignment explanation
Indices: 24838734--24838771 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24838724 AAAACTAATA
24838734 TCTTTACAA-TATTCATTTT
1 TCTTTA-AATTATTCATTTT
*
24838753 TCTTTAAATTTTTCATTTT
1 TCTTTAAATTATTCATTTT
24838772 AAGCTATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (19 bp):
TCTTTAAATTATTCATTTT
Found at i:24840758 original size:15 final size:14
Alignment explanation
Indices: 24840734--24840764 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
24840724 TAAGTTTAAT
24840734 TATTAAATATATTA
1 TATTAAATATATTA
24840748 TATTAAAATATATTA
1 TATT-AAATATATTA
24840763 TA
1 TA
24840765 AATCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAAATATATTA
Found at i:24841062 original size:17 final size:16
Alignment explanation
Indices: 24841040--24841073 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
24841030 TAATGAAATT
*
24841040 ATAAAAATATTAAATAA
1 ATAAAAAAATT-AATAA
24841057 ATAAAAAAATTAATAA
1 ATAAAAAAATTAATAA
24841073 A
1 A
24841074 ACTCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAAATTAATAA
Found at i:24842150 original size:29 final size:30
Alignment explanation
Indices: 24842118--24842183 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
24842108 TTTATCAATA
24842118 TGCAATATT-ATATATG-AATTTTAATTTTG
1 TGCAAT-TTCATATATGTAATTTTAATTTTG
* * *
24842147 TGCAATTTCATATGTGTAATTTTTATTTGG
1 TGCAATTTCATATATGTAATTTTAATTTTG
*
24842177 TTCAATT
1 TGCAATT
24842184 CTATTTACGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 12 0.39
30 17 0.55
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (30 bp):
TGCAATTTCATATATGTAATTTTAATTTTG
Found at i:24844051 original size:106 final size:106
Alignment explanation
Indices: 24843915--24844115 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
24843905 AAAATTTTTC
24843915 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
24843980 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
24844021 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
24844086 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
24844116 CTTAAAGCTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:24845678 original size:29 final size:29
Alignment explanation
Indices: 24845604--24845680 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
24845594 GGTGTTGCTA
24845604 TTATATTGTTACTATTTTATTGTTATTGT
1 TTATATTGTTACTATTTTATTGTTATTGT
*
24845633 TTGATATTG-TA-TAATTT-TTGTTATATTGT
1 TT-ATATTGTTACTATTTTATTG-T-TATTGT
*
24845662 TTATTTTGTTACTATTTTA
1 TTATATTGTTACTATTTTA
24845681 GAGCATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
29 14 0.36
30 11 0.28
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.65
Consensus pattern (29 bp):
TTATATTGTTACTATTTTATTGTTATTGT
Found at i:24847643 original size:6 final size:6
Alignment explanation
Indices: 24847632--24847683 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
24847622 AAGGTACGAA
* ** *
24847632 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAAT CTCAAT TTCTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT
24847681 TTT
1 TTT
24847684 CCTCCTTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 36 0.92
7 3 0.08
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:24854165 original size:18 final size:18
Alignment explanation
Indices: 24854142--24854176 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24854132 TTTGTGAAAT
24854142 GGTTGATATCCTCAAAGC
1 GGTTGATATCCTCAAAGC
*
24854160 GGTTGATATTCTCAAAG
1 GGTTGATATCCTCAAAG
24854177 TTGAAGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (18 bp):
GGTTGATATCCTCAAAGC
Found at i:24855370 original size:22 final size:22
Alignment explanation
Indices: 24855344--24855388 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
24855334 GAAATAAGTG
24855344 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
24855366 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
24855388 T
1 T
24855389 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:24859600 original size:22 final size:22
Alignment explanation
Indices: 24859572--24859616 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
24859562 AGGGGGAGTG
24859572 TAGGAATAT-TCTGTAAATATTT
1 TAGGAATATCT-TGTAAATATTT
*
24859594 TAGGAATATCTTGTAGATATTT
1 TAGGAATATCTTGTAAATATTT
24859616 T
1 T
24859617 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATCTTGTAAATATTT
Found at i:24871827 original size:5 final size:5
Alignment explanation
Indices: 24871812--24871876 Score: 68
Period size: 5 Copynumber: 13.4 Consensus size: 5
24871802 TTAATACAGA
24871812 AAAATG AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG -AAAG -AAAG -AAAG
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
24871859 AAAGAG AGAAA- AAAAG AA
1 AAA-AG A-AAAG AAAAG AA
24871877 CCAAAAGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
4 19 0.35
5 26 0.47
6 8 0.15
7 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:24871848 original size:4 final size:4
Alignment explanation
Indices: 24871819--24871876 Score: 62
Period size: 4 Copynumber: 13.5 Consensus size: 4
24871809 AGAAAAATGA
*
24871819 AAAG AAAAG AAAAG AAAAG AAAAG AAAG AAAG AAAG AAAG AAAG AGAG
1 AAAG -AAAG -AAAG -AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG
*
24871867 AAAA AAAG AA
1 AAAG AAAG AA
24871877 CCAAAAGAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
4 30 0.61
5 19 0.39
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24891033 original size:21 final size:21
Alignment explanation
Indices: 24891007--24891047 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24890997 AGACGAGCAA
* *
24891007 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
24891028 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
24891048 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:24893620 original size:18 final size:18
Alignment explanation
Indices: 24893597--24893631 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24893587 AGAAAAATAA
24893597 AGATTCGGATTTGAATTT
1 AGATTCGGATTTGAATTT
24893615 AGATTCGGATTTGAATT
1 AGATTCGGATTTGAATT
24893632 AACATAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (18 bp):
AGATTCGGATTTGAATTT
Found at i:24894701 original size:8 final size:9
Alignment explanation
Indices: 24894662--24894699 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
24894652 AATTTAATCA
24894662 AATAATTTT
1 AATAATTTT
*
24894671 AATAATGTT
1 AATAATTTT
24894680 AATGAATTTT
1 AAT-AATTTT
24894690 AA-AATTTT
1 AATAATTTT
24894698 AA
1 AA
24894700 AAATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 11 0.42
10 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (9 bp):
AATAATTTT
Found at i:24901192 original size:31 final size:32
Alignment explanation
Indices: 24901126--24901194 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
24901116 TTATCATATT
* **
24901126 TAAATTATTTATTTTTATTAATTTATTACATA
1 TAAATTATTAATTTTTAAAAATTTATTACATA
*
24901158 TAAATTATTAATTTTTAAAAATTTA-TCCATA
1 TAAATTATTAATTTTTAAAAATTTATTACATA
24901189 TAAATT
1 TAAATT
24901195 GTTGAACCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 11 0.33
32 22 0.67
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (32 bp):
TAAATTATTAATTTTTAAAAATTTATTACATA
Found at i:24901207 original size:32 final size:32
Alignment explanation
Indices: 24901145--24901207 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
24901135 TATTTTTATT
**
24901145 AATTTATTACATATAAATTATTAATTTTTAAA
1 AATTTATTACATATAAATTATTAACCTTTAAA
* *
24901177 AATTTA-TCCATATAAATTGTTGAACCTTTAA
1 AATTTATTACATATAAATTATT-AACCTTTAA
24901208 TTTTTATATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (32 bp):
AATTTATTACATATAAATTATTAACCTTTAAA
Found at i:24905392 original size:2 final size:2
Alignment explanation
Indices: 24905372--24905411 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
24905362 AATTTATTAA
24905372 AT AT -T AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24905411 A
1 A
24905412 AAGAGAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24910260 original size:23 final size:23
Alignment explanation
Indices: 24910230--24910273 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
24910220 ATTTGAAGTA
24910230 ACCCCAAATTTCAGGTTATATTT
1 ACCCCAAATTTCAGGTTATATTT
24910253 ACCCCAAATTTCAGGTTATAT
1 ACCCCAAATTTCAGGTTATAT
24910274 AAGTCGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (23 bp):
ACCCCAAATTTCAGGTTATATTT
Found at i:24914967 original size:17 final size:16
Alignment explanation
Indices: 24914945--24914980 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
24914935 ACTTCTCCTG
24914945 ATTAGGGTAGAATTAGA
1 ATTAGGGTAGAATTA-A
24914962 ATTAGGGTAGAATTAA
1 ATTAGGGTAGAATTAA
24914978 ATT
1 ATT
24914981 CTCCTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (16 bp):
ATTAGGGTAGAATTAA
Found at i:24917836 original size:9 final size:9
Alignment explanation
Indices: 24917822--24917882 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
24917812 TTTGCTTAAA
24917822 AATTACCCG
1 AATTACCCG
24917831 AATTACCCG
1 AATTACCCG
24917840 AATTACCCG
1 AATTACCCG
24917849 AATTACCCG
1 AATTACCCG
*
24917858 AATTAACCG
1 AATTACCCG
*
24917867 AATTAACCG
1 AATTACCCG
24917876 AATTACC
1 AATTACC
24917883 GAAAAATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:24923352 original size:47 final size:47
Alignment explanation
Indices: 24923281--24923370 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
24923271 ATAGTGATGG
*
24923281 TTCTTTTGTGTATCTACTTTTCTATGTTGATGACATATTGATAACGA
1 TTCTTTTGTGTATCTACTTCTCTATGTTGATGACATATTGATAACGA
24923328 TTCTTTTGTGTATCTACTTCTCTATGTTGATGACATATTGATA
1 TTCTTTTGTGTATCTACTTCTCTATGTTGATGACATATTGATA
24923371 GCAGCAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.50
Consensus pattern (47 bp):
TTCTTTTGTGTATCTACTTCTCTATGTTGATGACATATTGATAACGA
Found at i:24927264 original size:20 final size:20
Alignment explanation
Indices: 24927230--24927267 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24927220 TAACCACTTC
**
24927230 GTAACAAAATGATAACATAA
1 GTAACAAAAACATAACATAA
24927250 GTAACAAAAACATAACAT
1 GTAACAAAAACATAACAT
24927268 TTCAAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.08, T:0.18
Consensus pattern (20 bp):
GTAACAAAAACATAACATAA
Done.