Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 43 of 310
Found at i:12554340 original size:60 final size:59
Alignment explanation
Indices: 12554261--12554384 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
12554251 GGCAAAATTG
* * * *
12554261 AATAGTTGGATGACTATTTTATGACTTTTCATAGTTGGGTGATCAA-AGAAGAAATTTACT
1 AATAGTTGGATGACTATTTTATAAC-TTTCATAATAGGATGATCAAGA-AAGAAATTTACT
* *
12554321 AATAGTTGGGTGA-TCATTTTGTAACTTTCATAATAGGATGATCAAGAAAGAAATTTACT
1 AATAGTTGGATGACT-ATTTTATAACTTTCATAATAGGATGATCAAGAAAGAAATTTACT
12554380 AATAG
1 AATAG
12554385 AAGACTGACT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 35 0.62
60 21 0.38
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (59 bp):
AATAGTTGGATGACTATTTTATAACTTTCATAATAGGATGATCAAGAAAGAAATTTACT
Found at i:12556584 original size:22 final size:23
Alignment explanation
Indices: 12556536--12556584 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
12556526 GATTATTTGA
*
12556536 AATTTAATTATATTTTATATTTT
1 AATTTAATTATATATTATATTTT
12556559 -ATTTAA-TATATAATTA-ATTTT
1 AATTTAATTATAT-ATTATATTTT
12556580 AATTT
1 AATTT
12556585 TTATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTTAATTATATATTATATTTT
Found at i:12556602 original size:26 final size:28
Alignment explanation
Indices: 12556547--12556602 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
12556537 ATTTAATTAT
* * *
12556547 ATTTTATATTTTATTTAATATATAATTA
1 ATTTTATATTTTATATAATATAAAAATA
12556575 ATTTTA-ATTTT-TATAATATAAAAATA
1 ATTTTATATTTTATATAATATAAAAATA
12556601 AT
1 AT
12556603 CAAATTATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 5 0.20
28 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTTATATTTTATATAATATAAAAATA
Found at i:12559115 original size:29 final size:29
Alignment explanation
Indices: 12559076--12559132 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
12559066 AGTTTCCAGG
*
12559076 TTTATAGTTGCATGGTTCACACCAAGGGT
1 TTTATAGTTGCATGGCTCACACCAAGGGT
12559105 TTTATAGTTGCATGGCTCACACCAAGGG
1 TTTATAGTTGCATGGCTCACACCAAGGG
12559133 CCAAAAGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTATAGTTGCATGGCTCACACCAAGGGT
Found at i:12564479 original size:50 final size:51
Alignment explanation
Indices: 12564412--12564540 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
12564402 GACCATGGAA
12564412 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
12564463 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
12564513 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
12564541 CTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:12564556 original size:31 final size:31
Alignment explanation
Indices: 12564516--12564664 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
12564506 ACAAATGACA
* *
12564516 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
12564547 AATGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
12564578 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
12564609 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
12564640 AGTGAATAA-TGGTAGCTTCGGCTAC
1 AGTGAA-AAGTGGTAGCTCCGGCTAC
12564665 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
31 107 0.98
32 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:12567614 original size:39 final size:39
Alignment explanation
Indices: 12567556--12567757 Score: 368
Period size: 39 Copynumber: 5.2 Consensus size: 39
12567546 CGATATAATG
12567556 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
12567595 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
12567634 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
12567673 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
* * *
12567712 GCTTCAGTTAGCCTTCGGGCTGCAGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
12567751 GCTTCAG
1 GCTTCAG
12567758 CTAGATTTCG
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 158 1.00
ACGTcount: A:0.13, C:0.27, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:12568567 original size:30 final size:30
Alignment explanation
Indices: 12568531--12568591 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
12568521 GTCATTTTAA
12568531 AAAACAAATTAAGTTTGTTATTATAAATTT
1 AAAACAAATTAAGTTTGTTATTATAAATTT
12568561 AAAACAAATTAAGTTTGTTATTATAAATTT
1 AAAACAAATTAAGTTTGTTATTATAAATTT
12568591 A
1 A
12568592 CATTTTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAACAAATTAAGTTTGTTATTATAAATTT
Found at i:12571815 original size:93 final size:93
Alignment explanation
Indices: 12571656--12571885 Score: 352
Period size: 93 Copynumber: 2.5 Consensus size: 93
12571646 CGGATATTTG
* * * * *
12571656 GGCATCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGACGCGGACGTCTGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
*
12571721 TTAAGTCCGAGTTCGTGAGATGTTACTA
66 TTAAGTCCGAGTTCGTGAGATGTAACTA
* * *
12571749 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGCTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
** *
12571814 TTGGGTCTGAGTTCGTGAGATGTAACTA
66 TTAAGTCCGAGTTCGTGAGATGTAACTA
12571842 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
12571886 NTTGAGTTGA
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 123 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
TTAAGTCCGAGTTCGTGAGATGTAACTA
Found at i:12571862 original size:47 final size:47
Alignment explanation
Indices: 12571716--12571874 Score: 157
Period size: 47 Copynumber: 3.4 Consensus size: 47
12571706 TCTGAACTCA
* * *
12571716 TTGAGTTAAGTCCGAGTTCGTGAGATGTTACTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCG
* * * * *
12571763 TTGAGTTGAGTCTGAGCTCACTTATGGATGCGAAC---G--TCCGAACTCG
1 TTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTCG
*
12571809 TTGAGTTGGGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCG
*
12571856 TTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCTGAGTTC
12571875 ACTTATGGAT
Statistics
Matches: 87, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.05
45 3 0.03
46 26 0.30
47 42 0.48
48 3 0.03
50 4 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (47 bp):
TTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCG
Found at i:12580048 original size:34 final size:34
Alignment explanation
Indices: 12580005--12580073 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
12579995 AAATAGAAAC
*
12580005 TAAAAATACATGGTGGTTCACTATTTCACCTAAT
1 TAAAAATACATGGTGATTCACTATTTCACCTAAT
*
12580039 TAAAAATACATGGTGATTCACTATTTCACTTAAT
1 TAAAAATACATGGTGATTCACTATTTCACCTAAT
12580073 T
1 T
12580074 GATGATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (34 bp):
TAAAAATACATGGTGATTCACTATTTCACCTAAT
Found at i:12581432 original size:23 final size:23
Alignment explanation
Indices: 12581399--12581448 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12581389 AAATTATGGA
*
12581399 TTTAGTACTTGTA-TTTTATCAAT
1 TTTAGTACTTGTACTTTTA-AAAT
*
12581422 TTTAGTTCTTGTACTTTTAAAAT
1 TTTAGTACTTGTACTTTTAAAAT
12581445 TTTA
1 TTTA
12581449 ATTTTGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTAGTACTTGTACTTTTAAAAT
Found at i:12582349 original size:17 final size:18
Alignment explanation
Indices: 12582327--12582364 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12582317 ACATAATAAT
*
12582327 TATTT-AAATTCCAAAAA
1 TATTTAAAATTACAAAAA
12582344 TATTTAAAATTACAAAAA
1 TATTTAAAATTACAAAAA
12582362 TAT
1 TAT
12582365 CTTTTGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TATTTAAAATTACAAAAA
Found at i:12582440 original size:27 final size:27
Alignment explanation
Indices: 12582378--12582442 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
12582368 TTGAATTTTC
* *
12582378 TAAATTTTTAATAATTTTTCATTATTT
1 TAAATTTTTTAGAATTTTTCATTATTT
*
12582405 T-CATATTTTTAGAATTTTAT-ATTATTT
1 TAAAT-TTTTTAGAATTTT-TCATTATTT
12582432 TAAATTTTTTA
1 TAAATTTTTTA
12582443 ATTAGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 2 0.06
27 26 0.84
28 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (27 bp):
TAAATTTTTTAGAATTTTTCATTATTT
Found at i:12583885 original size:60 final size:57
Alignment explanation
Indices: 12583798--12583917 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 57
12583788 AAAAATCTAA
* * *
12583798 ATAACATGGTATGCTCTTTCTTTTGGTGTAATCTTAGCATAATAGATAATATTAATCTCC
1 ATAACATGGCATGCTCTTTCTTGTGGTGTAATCTTAGCAT--TAGATAA-AGTAATCTCC
* *
12583858 ATAACATGGCATGTTCTTTCTTGTGGTGTAATCTTAGCATTATATAAAGTAATCTCC
1 ATAACATGGCATGCTCTTTCTTGTGGTGTAATCTTAGCATTAGATAAAGTAATCTCC
12583915 ATA
1 ATA
12583918 GAAATATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
57 12 0.22
58 6 0.11
60 37 0.67
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (57 bp):
ATAACATGGCATGCTCTTTCTTGTGGTGTAATCTTAGCATTAGATAAAGTAATCTCC
Found at i:12589908 original size:22 final size:22
Alignment explanation
Indices: 12589883--12589928 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
12589873 TGAATATTTT
12589883 AATAACTTAAATAA-AAATTATA
1 AATAA-TTAAATAACAAATTATA
*
12589905 AATAATTTAATAATCAAATTATA
1 AATAATTAAATAA-CAAATTATA
12589928 A
1 A
12589929 TTCTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAATTAAATAACAAATTATA
Found at i:12593366 original size:16 final size:17
Alignment explanation
Indices: 12593342--12593374 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12593332 TTAGAATTAG
*
12593342 ATTGGAAAATT-ATTTA
1 ATTGAAAAATTAATTTA
12593358 ATTGAAAAATTAATTTA
1 ATTGAAAAATTAATTTA
12593375 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
ATTGAAAAATTAATTTA
Found at i:12596684 original size:12 final size:12
Alignment explanation
Indices: 12596667--12596691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12596657 CCCAACAACC
12596667 TTTTTTTTCTTT
1 TTTTTTTTCTTT
12596679 TTTTTTTTCTTT
1 TTTTTTTTCTTT
12596691 T
1 T
12596692 GTACCAGCAC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:12606926 original size:22 final size:22
Alignment explanation
Indices: 12606898--12606952 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
12606888 ATAAGCTCCT
12606898 TTACATTCAATTAGTAAATGTA
1 TTACATTCAATTAGTAAATGTA
12606920 TTACATTCAATTAGTAAATGTA
1 TTACATTCAATTAGTAAATGTA
12606942 TTACATTCAAT
1 TTACATTCAAT
12606953 AAATTAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (22 bp):
TTACATTCAATTAGTAAATGTA
Found at i:12607222 original size:18 final size:17
Alignment explanation
Indices: 12607195--12607233 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12607185 ATTAGTTAAA
*
12607195 TTTT-TAATTTTTTACAT
1 TTTTATAATTTTATAC-T
12607212 TTTTATAATTTTATACT
1 TTTTATAATTTTATACT
12607229 TTTTA
1 TTTTA
12607234 AATAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATAATTTTATACT
Found at i:12608458 original size:291 final size:292
Alignment explanation
Indices: 12607897--12608458 Score: 635
Period size: 295 Copynumber: 1.9 Consensus size: 292
12607887 TTATAATTTG
* *
12607897 GGTTCAAATCCCATCATATACATTTTTTATTGTTTTTTAAATAGAAAGAATAAACTACCCTTGAA
1 GGTTCAAATCCCATCATATACATTTTTTATTGGTTTTTAAATAGAAAGAATAAACTACCCTAGAA
* * * *
12607962 TAATCTAAAATTTTTAAATTATGGAAAGGCATTTATATAATTTTCCTAATTGAGTTTATAATCCG
66 TAATATAAAATTTTTAAATTACGGAAAGGCATTTATATAATTTGCCTAACTGAGTTTATAATCCG
* * * * * *
12608027 GTTGAGGGTAAGACCGACTCAGTAAAACACTTAATAAATAGTAAGTATATATATGATTGATGAAG
131 ATTGAGGGTAACACCAACTCAATAAAACACTT-ACAAATAGTAAGTATATACATGATT-ATGAAG
* *
12608092 ATAATAAAGTGTGCATAACAAAAATTGAAATGTTTAAAAATATTAAAATAAAACCTTAGTTGAGT
194 ATAATAAAGTGTGCATAACAAAAA-T-AAATATGTAAAAATATTAAAATAAAACCTTAGTTGAGT
12608157 GGTAAATTAAAAAAAATTTCTAACCCGATTAGCAAA
257 GGTAAATTAAAAAAAATTTCTAACCCGATTAGCAAA
* * *
12608193 GGTTCAAATCCCATCGTATACA-TTTTTATTGGTTTTTAAATA-AAAGACTAAATTACCCTAGAA
1 GGTTCAAATCCCATCATATACATTTTTTATTGGTTTTTAAATAGAAAGAATAAACTACCCTAGAA
* * *
12608256 TAATAT-AAATTAATTTTAATTACGG-AAGGTCATTTTTATAATTTGCCTAACTGAG-TTAGTGA
66 TAATATAAAATT--TTTAAATTACGGAAAGG-CATTTATATAATTTGCCTAACTGAGTTTA-TAA
* * *
12608318 -CTTGATTGAGGGTGACATCAACTCAATAAAACACTT-CAAATAGTATAGT-TATACA-GCTATT
127 TC-CGATTGAGGGTAACACCAACTCAATAAAACACTTACAAATAGTA-AGTATATACATG--ATT
* * * * * * *
12608379 -TG-AGATAATAAATTGTGCATATTCAAATAA-AAATATGTAAAATTTATTAAAATGAATCTTTG
188 ATGAAGATAATAAAGTGTGCATA-ACAAA-AATAAATATGTAAAA-ATATTAAAATAAAACCTTA
12608441 GTTGAGTGGTAAATTAAA
250 GTTGAGTGGTAAATTAAA
12608459 TGTTTTATTA
Statistics
Matches: 225, Mismatches: 30, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
290 10 0.04
291 50 0.22
292 7 0.03
293 20 0.09
294 37 0.16
295 80 0.36
296 21 0.09
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (292 bp):
GGTTCAAATCCCATCATATACATTTTTTATTGGTTTTTAAATAGAAAGAATAAACTACCCTAGAA
TAATATAAAATTTTTAAATTACGGAAAGGCATTTATATAATTTGCCTAACTGAGTTTATAATCCG
ATTGAGGGTAACACCAACTCAATAAAACACTTACAAATAGTAAGTATATACATGATTATGAAGAT
AATAAAGTGTGCATAACAAAAATAAATATGTAAAAATATTAAAATAAAACCTTAGTTGAGTGGTA
AATTAAAAAAAATTTCTAACCCGATTAGCAAA
Found at i:12608695 original size:294 final size:293
Alignment explanation
Indices: 12608293--12608979 Score: 680
Period size: 293 Copynumber: 2.3 Consensus size: 293
12608283 GGTCATTTTT
* * * * * * * *
12608293 ATAATTTGCCTAACTGAGTT-AGTGACTTGATTGAGGGTGACATCAACTCAATAAAACACTT--C
1 ATAATTTTCCTAAATGAATTGA-TGACTCGATTGAGGGTGACACCTACTCAATAAAACAATTAAT
** * * **
12608355 AAATAGTATAGTTATACAGCT-ATTTGAGATAATAAATTGTGCATATTCAAATAAAAATATGTAA
65 AAATAGTATAG--ATACAATTGA-TGGA-ATAATAAATTGTGCATATTAAAATAAAAAT-TACAA
* ** * * * * * * ** *
12608419 AATTTATTAAAATGAATCTTTGGTTGAGTGGTAAATTAAATG-TTTTATTACTTCAATTGGTGTT
125 AATTAATTAAAATGAAGATCTCGTTGAGTGGTAAATTAAA-GAATTTACTAATCCAATCAGTG-C
* *
12608483 GGTTTCAAATC-CTACCAAATGTATATTTTTATT-ATTT-T-TTTAAATGAAAAA-ACTAAAATA
188 GGTTTCAAATCTC-AACAAATGTATATTTTTATTGATTTGTGTTAAAAT-AAAAATACTAAAATA
* * * * *
12608543 TCCTCGATTAGTATAATTTAATTTAATTATGAAAATA-TTTCC
251 ACCTCAAATAGTATAACTTAATTTAATTATAAAAATAGTTTCC
* * * * * *
12608585 ATAATTTTCCTAACTCGAGTTGATGAC-CAGGTTGAGGGTGATA-CTAACTCAGTAAAACACTTA
1 ATAATTTTCCTAAAT-GAATTGATGACTC-GATTGAGGGTGACACCT-ACTCAATAAAACAATTA
*
12608648 ATAAATAGTACATATATACAATTGATGGAATAATAAATTGTGCATATTAAAATAAAAATTACAAA
63 ATAAATAGT--ATAGATACAATTGATGGAATAATAAATTGTGCATATTAAAATAAAAATTACAAA
* * *
12608713 ATTAATTAGAATGAAGATCTCGTTGAGTGGTAAATTTAAGAATTTACTAATCCAATCATTGCGGT
126 ATTAATTAAAATGAAGATCTCGTTGAGTGGTAAATTAAAGAATTTACTAATCCAATCAGTGCGGT
*
12608778 TTCAAATCTCAACAAATGTATATTTTTATTGGTTTGTGTTAAAATAAAAATACTAAAATAACCTC
191 TTCAAATCTCAACAAATGTATATTTTTATTGATTTGTGTTAAAATAAAAATACTAAAATAACCTC
*
12608843 AAATAGTATAACTTACTTTAATTATAAAAATATGTTTCC
256 AAATAGTATAACTTAATTTAATTATAAAAATA-GTTTCC
* *
12608882 ATAATTTTTCTAAATGAATTGGTGACTCGATTGAGGGTGACACCTACTCAATAAAACAATTAATA
1 ATAATTTTCCTAAATGAATTGATGACTCGATTGAGGGTGACACCTACTCAATAAAACAATTAATA
* * *
12608947 TATAGTATAGGTATAATTGATGGAAGTAATAAA
66 AATAGTATAGATACAATTGATGGAA-TAATAAA
12608980 ACTTGCATAA
Statistics
Matches: 325, Mismatches: 50, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
292 46 0.14
293 89 0.27
294 52 0.16
295 69 0.21
296 45 0.14
297 24 0.07
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (293 bp):
ATAATTTTCCTAAATGAATTGATGACTCGATTGAGGGTGACACCTACTCAATAAAACAATTAATA
AATAGTATAGATACAATTGATGGAATAATAAATTGTGCATATTAAAATAAAAATTACAAAATTAA
TTAAAATGAAGATCTCGTTGAGTGGTAAATTAAAGAATTTACTAATCCAATCAGTGCGGTTTCAA
ATCTCAACAAATGTATATTTTTATTGATTTGTGTTAAAATAAAAATACTAAAATAACCTCAAATA
GTATAACTTAATTTAATTATAAAAATAGTTTCC
Found at i:12613629 original size:15 final size:15
Alignment explanation
Indices: 12613599--12613627 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12613589 ACTATTAGTA
12613599 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
12613614 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
12613628 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:12615314 original size:38 final size:38
Alignment explanation
Indices: 12615272--12615362 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 38
12615262 GTCCAACTCA
* *
12615272 ACACACCATGTGGGGATAAAATCAACCCACCCAGCCCT
1 ACACACCAAGTGGGGATAAAATCAACCCACCCAACCCT
* **
12615310 ACACACCAAGAATGGGGATGAAATCAACCCTTCCAACCCT
1 ACACACCAAG--TGGGGATAAAATCAACCCACCCAACCCT
12615350 ACACACCAAGTGG
1 ACACACCAAGTGG
12615363 TACCGTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 12 0.26
40 34 0.74
ACGTcount: A:0.36, C:0.34, G:0.16, T:0.13
Consensus pattern (38 bp):
ACACACCAAGTGGGGATAAAATCAACCCACCCAACCCT
Found at i:12615334 original size:40 final size:40
Alignment explanation
Indices: 12615282--12615359 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
12615272 ACACACCATG
*
12615282 TGGGGATAAAATCAACCCACCCAGCCCTACACACCAAGAA
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGAA
* **
12615322 TGGGGATGAAATCAACCCTTCCAACCCTACACACCAAG
1 TGGGGATAAAATCAACCCACCCAACCCTACACACCAAG
12615360 TGGTACCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.35, G:0.15, T:0.13
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCCTACACACCAAGAA
Found at i:12615811 original size:17 final size:18
Alignment explanation
Indices: 12615775--12615814 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
12615765 CCCAGATTCT
*
12615775 CACACGCCCGTGTGGGCC
1 CACACGCCCGTGTAGGCC
*
12615793 CACACGCTCGTG-AGGCC
1 CACACGCCCGTGTAGGCC
12615810 CACAC
1 CACAC
12615815 TGGCCATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.45, G:0.28, T:0.10
Consensus pattern (18 bp):
CACACGCCCGTGTAGGCC
Found at i:12622527 original size:40 final size:40
Alignment explanation
Indices: 12622481--12622559 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
12622471 GCACACCATG
*
12622481 TGGGGATAAAATCAACCCAC-CCAGCCCTACACACCAAGTT
1 TGGGGATAAAATCAACCC-CTCCAACCCTACACACCAAGTT
*
12622521 TGGGGATGAAATCAACCCCTCCAACCCTACACACCAAGT
1 TGGGGATAAAATCAACCCCTCCAACCCTACACACCAAGT
12622560 GCTATCGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.34, C:0.35, G:0.15, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCCTCCAACCCTACACACCAAGTT
Found at i:12623073 original size:21 final size:21
Alignment explanation
Indices: 12623044--12623087 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
12623034 ACGCATACGA
*
12623044 CCTGGCTTGTTGATCACACGG
1 CCTGACTTGTTGATCACACGG
12623065 CCTGACTTGTTGATCACACGG
1 CCTGACTTGTTGATCACACGG
12623086 CC
1 CC
12623088 ATTTTTCGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.27
Consensus pattern (21 bp):
CCTGACTTGTTGATCACACGG
Found at i:12625683 original size:12 final size:12
Alignment explanation
Indices: 12625666--12625691 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12625656 AATTAGCAAT
12625666 ATATATATATAG
1 ATATATATATAG
12625678 ATATATATATAG
1 ATATATATATAG
12625690 AT
1 AT
12625692 TTGAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATATATATAG
Found at i:12632787 original size:20 final size:20
Alignment explanation
Indices: 12632746--12632794 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
12632736 ACATGTATTT
12632746 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTGATAGATTA
*
12632766 TGAATGTTTGTTGATAGA-TA
1 TGAA-GTTTCTTGATAGATTA
12632786 TGCAAGTTT
1 TG-AAGTTT
12632795 TGTTAAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:12633422 original size:48 final size:48
Alignment explanation
Indices: 12633344--12633533 Score: 213
Period size: 48 Copynumber: 4.0 Consensus size: 48
12633334 GAATACATTT
* *
12633344 ATTTGGCTACGAGCCATGATATTAGAACTTCGGGTGTGAG-TTACTTTG
1 ATTTGGCTACGAGCCATGATATTAGCACTTCGGGTGCGAGATT-CTTTG
* * * * * *
12633392 ATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAGCTTCATTG
1 ATTTGGCTACGAGCCATGATATTAGCACTTCGGGTGCGAGATTCTTTG
*
12633440 ATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGATT-TATTG
1 ATTTGGCTACGAGCCATGATATTAGCACTTCGGGTGCGAGATTCT-TTG
* * * * * *
12633488 AATTGGCTTCGAGCCATGATATTGGCACTTAGTGTGCGAGACTCTT
1 ATTTGGCTACGAGCCATGATATTAGCACTTCGGGTGCGAGATTCTT
12633534 AAGTATCCGA
Statistics
Matches: 120, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
48 117 0.98
49 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.34
Consensus pattern (48 bp):
ATTTGGCTACGAGCCATGATATTAGCACTTCGGGTGCGAGATTCTTTG
Found at i:12633508 original size:96 final size:95
Alignment explanation
Indices: 12633339--12633527 Score: 274
Period size: 96 Copynumber: 2.0 Consensus size: 95
12633329 TTAGGGAATA
* * * *
12633339 CATTTATTTGGCTACGAGCCATGATATTAGAACTTCGGGTGTGAGTTACTTTGATTTGGCTTCGG
1 CATTGATTTGGCTACGAGCCATGATATTAGAACTTCGGGTGCGAGTTAC-TTGAATTGGCTTCGA
12633404 GCCATGATATTGGCACTTCAG-GTGCGAGCTT
65 GCCATGATATTGGCACTT-AGTGTGCGAGCTT
* *
12633435 CATTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGATTTA-TTGAATTGGCTTCG
1 CATTGATTTGGCTACGAGCCATGATATTAGAACTTCGGGTGCGAG--TTACTTGAATTGGCTTCG
12633499 AGCCATGATATTGGCACTTAGTGTGCGAG
64 AGCCATGATATTGGCACTTAGTGTGCGAG
12633528 ACTCTTAAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.02
96 79 0.94
98 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (95 bp):
CATTGATTTGGCTACGAGCCATGATATTAGAACTTCGGGTGCGAGTTACTTGAATTGGCTTCGAG
CCATGATATTGGCACTTAGTGTGCGAGCTT
Found at i:12639451 original size:6 final size:6
Alignment explanation
Indices: 12639436--12639494 Score: 109
Period size: 6 Copynumber: 9.7 Consensus size: 6
12639426 AAAGTATTCC
12639436 AAAATAA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
12639485 AAAATA AAAA
1 AAAATA AAAA
12639495 CAGAATAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 47 0.90
7 5 0.10
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:12642571 original size:282 final size:282
Alignment explanation
Indices: 12642067--12642629 Score: 1018
Period size: 282 Copynumber: 2.0 Consensus size: 282
12642057 GACTTCTACC
* * *
12642067 CACTTGGTGAAGTAATCGATGATCAGAAAGATGAATTGATGCCCATTGGAAGCTTTTGGCAATAT
1 CACTTGGTGAAGTAATCGATGACCAGAAAGATGAATCGATGCCCATTGGAAGCTTTTGGAAATAT
* *
12642132 TGGCCCAATCACGTCCATGCCCTACATAGAGAAAGGCCATGGAGAAGTCATAACGTGAAGAGGTA
66 TGGCCCAATCACGTCCATGCCCCACATAGAGAAAGGCCATGGAGAAGTCATAACATGAAGAGGTA
*
12642197 AATGAGACACATGAATTTTGTCTCCATAAATTTGGCACTTATGACATCTCTTGGCATAATTTGTA
131 AATGAGACACATGAATTTTGTCTCCATAAATTTGGCACTTATGACATCTCTTGGCATAATCTGTA
12642262 CAATCCCCTTCCATGGTGGACCAATAATACCTAAATCTCATAATTTTCCTGGCCATTGTAAAACT
196 CAATCCCCTTCCATGGTGGACCAATAATACCTAAATCTCATAATTTTCCTGGCCATTGTAAAACT
**
12642327 ATTAGTATGTGTTCAACAAACG
261 ATTACCATGTGTTCAACAAACG
* *
12642349 CACTTGGTGAAGTAATTGATGACCAGAAAGATGAATCGATGCCCATTGGAATCTTTTGGAAATAT
1 CACTTGGTGAAGTAATCGATGACCAGAAAGATGAATCGATGCCCATTGGAAGCTTTTGGAAATAT
* *
12642414 TGGTCCAATCACGTCTATGCCCCACATAGAGAAAGGCCATGGAGAAGTCATAACATGAAGAGGTA
66 TGGCCCAATCACGTCCATGCCCCACATAGAGAAAGGCCATGGAGAAGTCATAACATGAAGAGGTA
12642479 AATGAGACACATGAATTTTGTCTCCATAAATTTGGCACTTATGACATCTCTTGGCATAATCTGTA
131 AATGAGACACATGAATTTTGTCTCCATAAATTTGGCACTTATGACATCTCTTGGCATAATCTGTA
12642544 CAATCCCCTTCCATGGTGGACCAATAATACCTAAATCTCATAATTTTCCTGGCCATTGTAAAACT
196 CAATCCCCTTCCATGGTGGACCAATAATACCTAAATCTCATAATTTTCCTGGCCATTGTAAAACT
12642609 ATTACCATGTGTTCAACAAAC
261 ATTACCATGTGTTCAACAAAC
12642630 ATCCTTATGG
Statistics
Matches: 269, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
282 269 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (282 bp):
CACTTGGTGAAGTAATCGATGACCAGAAAGATGAATCGATGCCCATTGGAAGCTTTTGGAAATAT
TGGCCCAATCACGTCCATGCCCCACATAGAGAAAGGCCATGGAGAAGTCATAACATGAAGAGGTA
AATGAGACACATGAATTTTGTCTCCATAAATTTGGCACTTATGACATCTCTTGGCATAATCTGTA
CAATCCCCTTCCATGGTGGACCAATAATACCTAAATCTCATAATTTTCCTGGCCATTGTAAAACT
ATTACCATGTGTTCAACAAACG
Found at i:12647848 original size:6 final size:6
Alignment explanation
Indices: 12647837--12647879 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
12647827 TCGTCCTATC
* *
12647837 TTTTTA TTTTTA TTTTTA TTTATA TTTTTA -TTTCA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
12647880 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:12649387 original size:15 final size:15
Alignment explanation
Indices: 12649367--12649400 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
12649357 GAGGAAGAAG
12649367 ATTACCTATGATTTT
1 ATTACCTATGATTTT
12649382 ATTACCTATGATTTT
1 ATTACCTATGATTTT
12649397 ATTA
1 ATTA
12649401 TCAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTACCTATGATTTT
Found at i:12663266 original size:26 final size:25
Alignment explanation
Indices: 12663198--12663464 Score: 166
Period size: 26 Copynumber: 10.3 Consensus size: 25
12663188 AAAAACTAAC
* * * *
12663198 ATAAATAAAATACAAAACAGTTTGAA
1 ATAAATAATATA-TAAACAATTTAAA
*
12663224 ATAAA-AA-ATCTAAAGCAATTTAAA
1 ATAAATAATATATAAA-CAATTTAAA
* *
12663248 ATAAATAATATATAAAGCATTTTTTTAA
1 ATAAATAATATATAAA-CA--ATTTAAA
* * **
12663276 AGAAATAATATGTAAA-AAAATAAA
1 ATAAATAATATATAAACAATTTAAA
* *
12663300 ATAAAAAATATTTATGAAACAGTTTTAAA
1 ATAAATAATA--TAT-AAACA-ATTTAAA
* * * **
12663329 ATAAAATAATGTATAAAGTACTCCAAA
1 AT-AAATAATATATAAA-CAATTTAAA
12663356 ATAAATAATATATGAAACAATTTAAA
1 ATAAATAATATAT-AAACAATTTAAA
* *
12663382 ATAAATAATATCTAAAAAAATTTAAA
1 ATAAATAATATAT-AAACAATTTAAA
* * *
12663408 ATAAATAATATA-AAATAGTTTAAT
1 ATAAATAATATATAAACAATTTAAA
12663432 ATAAATAATATATAAA-AACTTTAAA
1 ATAAATAATATATAAACAA-TTTAAA
12663457 ATAAATAA
1 ATAAATAA
12663465 AATAGTTTAA
Statistics
Matches: 187, Mismatches: 39, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.02
24 47 0.25
25 20 0.11
26 66 0.35
27 15 0.08
28 24 0.13
29 6 0.03
30 6 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAAATAATATATAAACAATTTAAA
Found at i:12663419 original size:52 final size:51
Alignment explanation
Indices: 12663198--12663508 Score: 225
Period size: 52 Copynumber: 6.2 Consensus size: 51
12663188 AAAAACTAAC
* * * * **
12663198 ATAAATAAAATACAAAACAGTTTGAAATAAA-AA-ATCTAAAGCAATTTAAA
1 ATAAATAATATA-TAAACAGTTTAAAATAAATAATATATAAAAAAATTTAAA
* * * *
12663248 ATAAATAATATATAAAGCATTTTTTTAAAGAAATAATATGTAAAAAAA--TAAA
1 ATAAATAATATATAAA-CA--GTTTAAAATAAATAATATATAAAAAAATTTAAA
* * ** * **
12663300 ATAAAAAATATTTATGAAACAGTTTTAAAATAAAATAATGTATAAAGTACTCCAAA
1 ATAAATAATA--TAT-AAACAG-TTTAAAAT-AAATAATATATAAAAAAATTTAAA
* *
12663356 ATAAATAATATATGAAACAATTTAAAATAAATAATATCTAAAAAAATTTAAA
1 ATAAATAATATAT-AAACAGTTTAAAATAAATAATATATAAAAAAATTTAAA
* * *
12663408 ATAAATAATATA-AAATAGTTTAATATAAATAATATAT-AAAAACTTTAAA
1 ATAAATAATATATAAACAGTTTAAAATAAATAATATATAAAAAAATTTAAA
* *
12663457 ATAAATAA-A-AT----AGTTTAAAATGAATAATATAT-AAAAACTTTAAA
1 ATAAATAATATATAAACAGTTTAAAATAAATAATATATAAAAAAATTTAAA
12663501 ATAAATAA
1 ATAAATAA
12663509 AATAGTTTAA
Statistics
Matches: 214, Mismatches: 34, Indels: 32
0.76 0.12 0.11
Matches are distributed among these distances:
44 39 0.18
47 1 0.00
48 1 0.00
49 22 0.10
50 34 0.16
52 51 0.24
53 16 0.07
54 35 0.16
55 3 0.01
56 12 0.06
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (51 bp):
ATAAATAATATATAAACAGTTTAAAATAAATAATATATAAAAAAATTTAAA
Found at i:12663470 original size:44 final size:44
Alignment explanation
Indices: 12663410--12663535 Score: 211
Period size: 44 Copynumber: 2.9 Consensus size: 44
12663400 AATTTAAAAT
* *
12663410 AAATAATATAAAATAGTTTAATATAAATAATATATAAAAACTTTA
1 AAATAA-ATAAAATAGTTTAAAATGAATAATATATAAAAACTTTA
12663455 AAATAAATAAAATAGTTTAAAATGAATAATATATAAAAACTTTA
1 AAATAAATAAAATAGTTTAAAATGAATAATATATAAAAACTTTA
12663499 AAATAAATAAAATAGTTTAAAATGAATAAT-TA-AAAAA
1 AAATAAATAAAATAGTTTAAAATGAATAATATATAAAAA
12663536 GGGTTAAAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
42 5 0.06
43 2 0.03
44 66 0.84
45 6 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (44 bp):
AAATAAATAAAATAGTTTAAAATGAATAATATATAAAAACTTTA
Found at i:12663475 original size:19 final size:20
Alignment explanation
Indices: 12663410--12663526 Score: 85
Period size: 19 Copynumber: 5.4 Consensus size: 20
12663400 AATTTAAAAT
12663410 AAATAATATAAAATAGTTTAATA
1 AAATAATATAAAATAG-TT--TA
* *
12663433 TAAATAATATATAAAAACTTTA
1 -AAATAATATA-AAATAGTTTA
12663455 AAATAA-ATAAAATAGTTTAAA
1 AAATAATATAAAATAGTTT--A
* *
12663476 ATGAATAATATATAAAAACTTTA
1 A--AATAATATA-AAATAGTTTA
12663499 AAATAA-ATAAAATAGTTTA
1 AAATAATATAAAATAGTTTA
12663518 AAATGAATA
1 AAAT-AATA
12663527 ATTAAAAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
19 19 0.25
20 8 0.11
21 14 0.18
22 2 0.03
23 7 0.09
24 15 0.20
25 11 0.14
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
AAATAATATAAAATAGTTTA
Found at i:12663507 original size:25 final size:26
Alignment explanation
Indices: 12663456--12663508 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
12663446 AAAACTTTAA
* *
12663456 AATAAATAAAATAGTTTAAAATGAAT
1 AATAAATAAAATACTTTAAAATAAAT
*
12663482 AATATATAAAA-ACTTTAAAATAAAT
1 AATAAATAAAATACTTTAAAATAAAT
12663507 AA
1 AA
12663509 AATAGTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
AATAAATAAAATACTTTAAAATAAAT
Found at i:12667746 original size:36 final size:30
Alignment explanation
Indices: 12667677--12667734 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
12667667 ATAAAAGTTT
12667677 GATGATTTGGTCTTGGTTTTTCTCCTTTAA
1 GATGATTTGGTCTTGGTTTTTCTCCTTTAA
12667707 GATGATTTGGTCTTGGTTTTTCTCCTTT
1 GATGATTTGGTCTTGGTTTTTCTCCTTT
12667735 GATTTCTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.10, C:0.14, G:0.21, T:0.55
Consensus pattern (30 bp):
GATGATTTGGTCTTGGTTTTTCTCCTTTAA
Found at i:12671470 original size:29 final size:29
Alignment explanation
Indices: 12671403--12671527 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
12671393 AATTCTACAA
* * *
12671403 ACATGCATATAGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
12671431 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
12671460 ACATTCGTATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
12671489 ACATTCATATGGCCCATTAGGCCCAAATT
1 ACATTCATATGGCCCATTAGGCCCAAATC
12671518 ACATTCATAT
1 ACATTCATAT
12671528 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 20 0.23
29 66 0.77
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:12688751 original size:23 final size:22
Alignment explanation
Indices: 12688727--12688770 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
12688717 TGATATTATG
12688727 TTTTGATATAAAAAATTAAAGTGT
1 TTTTGA-AT-AAAAATTAAAGTGT
*
12688751 TTTTGAATAAAAGTTAAAGT
1 TTTTGAATAAAAATTAAAGT
12688771 TCAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTGAATAAAAATTAAAGTGT
Found at i:12695140 original size:77 final size:77
Alignment explanation
Indices: 12695056--12695213 Score: 289
Period size: 77 Copynumber: 2.1 Consensus size: 77
12695046 TCTAAAGAAA
*
12695056 ACAAACAACAGTAAACACAGTGCACAGTAAAAAATAGTCTTGGGCCTAAGCCCCTTTCAGTATCA
1 ACAAACAACAGTAAACACAGTGCACAGTAAAAAACAGTCTTGGGCCTAAGCCCCTTTCAGTATCA
12695121 GTATCAGTATGC
66 GTATCAGTATGC
* *
12695133 ACAAACAACAGTAAACATAGTGCACAGTCAAAAACAGTCTTGGGCCTAAGCCCCTTTCAGTATCA
1 ACAAACAACAGTAAACACAGTGCACAGTAAAAAACAGTCTTGGGCCTAAGCCCCTTTCAGTATCA
12695198 GTATCAGTATGC
66 GTATCAGTATGC
12695210 ACAA
1 ACAA
12695214 GGGCCTTAGC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (77 bp):
ACAAACAACAGTAAACACAGTGCACAGTAAAAAACAGTCTTGGGCCTAAGCCCCTTTCAGTATCA
GTATCAGTATGC
Found at i:12700563 original size:22 final size:20
Alignment explanation
Indices: 12700528--12700569 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
12700518 CCATTATTGA
*
12700528 GAAATTGAAGAATTATGCTT
1 GAAATTGAAGAATTAAGCTT
12700548 GAAATTGATAGAAATTAAGCTT
1 GAAATTGA-AG-AATTAAGCTT
12700570 AGATTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (20 bp):
GAAATTGAAGAATTAAGCTT
Found at i:12701384 original size:30 final size:31
Alignment explanation
Indices: 12701339--12701406 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
12701329 GGTAAATGTA
12701339 AATGATTACAGGGTATGAATATGCAAATAAG
1 AATGATTACAGGGTATGAATATGCAAATAAG
* * * *
12701370 AATGATTATA-GGTATGCATATGTAAATATG
1 AATGATTACAGGGTATGAATATGCAAATAAG
12701400 AAT-ATTA
1 AATGATTA
12701407 ATGCCCATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.12
30 20 0.61
31 9 0.27
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.32
Consensus pattern (31 bp):
AATGATTACAGGGTATGAATATGCAAATAAG
Found at i:12711067 original size:39 final size:39
Alignment explanation
Indices: 12711013--12711091 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
12711003 TTTGTTATGT
12711013 TAGCAAGTAAAAGCTAAACATCAGTTGCCTTCTGGACTA
1 TAGCAAGTAAAAGCTAAACATCAGTTGCCTTCTGGACTA
12711052 TAGCAAGTAAAAGCTAAACATCAGTTGCCTTCTGGACTA
1 TAGCAAGTAAAAGCTAAACATCAGTTGCCTTCTGGACTA
12711091 T
1 T
12711092 TACAGCCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (39 bp):
TAGCAAGTAAAAGCTAAACATCAGTTGCCTTCTGGACTA
Found at i:12714889 original size:45 final size:47
Alignment explanation
Indices: 12714826--12714954 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 47
12714816 GGGTTATTTG
*
12714826 TGTGCCAGTTAAGA-CATGTCTGGGACATGCATCGG-CT-AAGA-GT
1 TGTGCCAGTTAAGACCATGTCTGGGACATGCATCGGCCTCAAGACGA
*
12714869 TGTGCTAGTATAAGACCATGTCTGGGACATGCCATCGGCCTCGAAGACGA
1 TGTGCCAGT-TAAGACCATGTCTGGGACATG-CATCGGCCTC-AAGACGA
*
12714919 T-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TGTGCCAGT-TAAGACCATGTCTGGGACAT-GCATCG
12714955 ACAACTTATC
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
43 8 0.11
44 5 0.07
45 15 0.21
46 6 0.08
47 2 0.03
49 34 0.47
50 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (47 bp):
TGTGCCAGTTAAGACCATGTCTGGGACATGCATCGGCCTCAAGACGA
Found at i:12726984 original size:47 final size:48
Alignment explanation
Indices: 12726880--12727194 Score: 143
Period size: 47 Copynumber: 6.6 Consensus size: 48
12726870 GTGTGTCAGC
*
12726880 GTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATGA-G--AGCCAGT
1 GTAAGACATGTCTGGGACATGGCATCGG---CATTGATGACGATAGCCAAT
* * * *
12726926 ATAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGAGT-GCTAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCATTGATGACGA-TAGCCAAT
* * * *
12726974 GTAAGACATGTCTAGGACAT-GTATCGGCCTTGATGATGATAGCCAAT
1 GTAAGACATGTCTGGGACATGGCATCGGCATTGATGACGATAGCCAAT
* * * * * *
12727021 GTAAGACATGTCTGGGACAT-GCATTGG-A-T-AAGA-GTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCATTGATGACGAT-AGCCAAT
* * * * * * * * * *
12727065 ATAAGGCCATGTCTGAGACATGGCATCAGTATGTATATATACGAGAGCTAGT
1 GTAA-GACATGTCTGGGACATGGCATCGGCAT-T-GAT-GACGATAGCCAAT
* * * * ** *
12727117 GTAAGACCATGTCTAGGATATGGCATCAGCCTCAATGACGATAGCCAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCATTGATGACGATAGCCAAT
12727166 GTAAGACCATGTCTGGGACATGGCATCGG
1 GTAAGA-CATGTCTGGGACATGGCATCGG
12727195 TAACTTATCC
Statistics
Matches: 204, Mismatches: 45, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 21 0.10
46 24 0.12
47 58 0.28
48 17 0.08
49 37 0.18
50 2 0.01
51 2 0.01
52 30 0.15
53 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
GTAAGACATGTCTGGGACATGGCATCGGCATTGATGACGATAGCCAAT
Found at i:12742033 original size:5 final size:5
Alignment explanation
Indices: 12742023--12742050 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
12742013 AAGATTGTGA
12742023 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
12742051 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12750240 original size:4 final size:4
Alignment explanation
Indices: 12750231--12750783 Score: 719
Period size: 4 Copynumber: 138.2 Consensus size: 4
12750221 TTACTACCAA
* *
12750231 TATG TATG TATG TATG TATG TATG TATG TATG TATG TACG TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
12750279 TATG TATG TATG TATG TATA TATG TATG TATG TATG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
12750327 TATG TATG TATG TATG TACG TATG TACG TACG TATG TATG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
12750375 TATG TACG TATG TATG TATG TATG TATG TACG TATG TACG TACG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* **
12750423 TATG TATG TATG TATG TATG TATG TACG TATG TATG TATG TACA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
12750471 TATG TATG TATG TATG TACG TATG TATG TACG TATG TACG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
12750519 TATG TATG TACG TATG TATG TACG TATA TACG TACG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
12750567 TACG TATG TATG TACG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
12750615 TATG TATG TATG TGTG TATG TATG TATG TATG TACG TACG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
** * * * *
12750663 TACA TATG TACG TATA TATG TACG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
12750711 TATA TACG TATG TACG TATG TAGG TATG TACG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12750759 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
12750784 GTTTTTAAGA
Statistics
Matches: 481, Mismatches: 68, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 481 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:12753158 original size:14 final size:15
Alignment explanation
Indices: 12753131--12753162 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
12753121 CGAATATTAA
12753131 AAAAGTGCAAAAATC
1 AAAAGTGCAAAAATC
12753146 AAAAGTG-AAAAATC
1 AAAAGTGCAAAAATC
12753160 AAA
1 AAA
12753163 TGACAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAGTGCAAAAATC
Found at i:12753452 original size:18 final size:17
Alignment explanation
Indices: 12753420--12753454 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12753410 AAAGAAAATA
*
12753420 AACAAAAATAAATAAAG
1 AACAAAAAGAAATAAAG
12753437 AACAAAATAGAAATAAAG
1 AACAAAA-AGAAATAAAG
12753455 TGAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (17 bp):
AACAAAAAGAAATAAAG
Found at i:12758337 original size:30 final size:30
Alignment explanation
Indices: 12758296--12758379 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
12758286 GCCATGACAT
*
12758296 ATGGGCGTGTGGTCTGCCCGTGTGCCTT-AC
1 ATGGGCGTGTGGTCTACCCGTGTG-CTTCAC
* *
12758326 ATGGGCATGTGGTCTACTCGTGTGCTTCAC
1 ATGGGCGTGTGGTCTACCCGTGTGCTTCAC
* *
12758356 ACGGGCGTGTGGTTTACCCGTGTG
1 ATGGGCGTGTGGTCTACCCGTGTG
12758380 GATGTGCCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
29 3 0.07
30 43 0.93
ACGTcount: A:0.10, C:0.24, G:0.36, T:0.31
Consensus pattern (30 bp):
ATGGGCGTGTGGTCTACCCGTGTGCTTCAC
Found at i:12760237 original size:47 final size:49
Alignment explanation
Indices: 12760147--12760367 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 49
12760137 TAGGTAAAGT
* * * * *
12760147 GTCGATGCCATATCCCAGACATGGCCTTATACTG-GTTCACATCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACACATCTCGAA
* **
12760194 GTCGATGCCATGTCTCAGACATGGTCTTACACTGACTAC-CATCTCTTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACACATCTCGAA
** * * * *
12760242 CCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACACATCTCGAA
* * * *
12760288 GCCGATG-CATATCCCAGACAT-GTCTTACACT-AGCT-CTCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTACACATCTCGAA
*
12760333 TGTCGACGCCATGTCCCAGACATGGTCTTACACTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTG
12760368 GCTCTCATAA
Statistics
Matches: 139, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.42
47 61 0.44
48 18 0.13
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTACACATCTCGAA
Found at i:12760284 original size:46 final size:46
Alignment explanation
Indices: 12760196--12760318 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 46
12760186 CATCTCAAGT
*
12760196 CGATGCCATGT-CTCAGACATGGTCTTACACTGACTACCATCTCTTA-CC
1 CGATG-CATGTCCT-AGACAT-GTCTTACACTGACTACCATCTC-GAGCC
* *
12760244 CGATGCATGTCCTAGACATGTCTTACACTGGCTTA-CATCTCGAGGC
1 CGATGCATGTCCTAGACATGTCTTACACTGAC-TACCATCTCGAGCC
* *
12760290 CGATGCATATCCCAGACATGTCTTACACT
1 CGATGCATGTCCTAGACATGTCTTACACT
12760319 AGCTCTCGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
45 1 0.01
46 46 0.69
47 13 0.19
48 7 0.10
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGTCTTACACTGACTACCATCTCGAGCC
Found at i:12760407 original size:140 final size:141
Alignment explanation
Indices: 12760149--12760412 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 141
12760139 GGTAAAGTGT
* * * * *
12760149 CGATGCCATATCCCAGACATGGCCTTATACTGGTTCACATCTCAAGTCGATGCCATGTCTCAGAC
1 CGATGCCATATCCCAGACATGGCCTTACACTAGCTCACATCTCAAGTCGACGCCATGTCCCAGAC
* * *
12760214 ATGGTCTTACACTGACTACCATCTCTTACCCGATGCATGTCCTAGACATGTCTTACACTGGCTTA
66 ATGGTCTTACACTGACTACCATATCGTACCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
12760279 CATCTCGAGGC
131 CATCTCGAGGC
* * *
12760290 CGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGACGCCATGTCCCAGA
1 CGATGCCATATCCCAGACATGGCCTTACACTAGCTCACATCTCAA-GTCGACGCCATGTCCCAGA
* ** *
12760353 CATGGTCTTACACTGGCT-CTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
65 CATGGTCTTACACTGACTAC-CAT-ATCGTACCCGATGCATGTCCCAGACATGTCTTACACT
12760413 AGCCAAATAA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
139 19 0.18
140 80 0.76
141 6 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
CGATGCCATATCCCAGACATGGCCTTACACTAGCTCACATCTCAAGTCGACGCCATGTCCCAGAC
ATGGTCTTACACTGACTACCATATCGTACCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
CATCTCGAGGC
Found at i:12766303 original size:12 final size:13
Alignment explanation
Indices: 12766267--12766304 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
12766257 AAATATTTGA
12766267 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
12766280 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
12766294 CTTG-TCTTAAT
1 CTTGTTCTTAAT
12766305 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:12776631 original size:12 final size:13
Alignment explanation
Indices: 12776595--12776632 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
12776585 AAATATTTGA
12776595 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
12776608 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
12776622 CTTG-TCTTAAT
1 CTTGTTCTTAAT
12776633 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:12779606 original size:93 final size:94
Alignment explanation
Indices: 12779445--12779669 Score: 235
Period size: 93 Copynumber: 2.4 Consensus size: 94
12779435 TGGGTAAAGT
*
12779445 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATTTCAAGCCGATGTCATGGCCCAG
1 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATCTCAAGCCGATGTCATGGCCCAG
*
12779510 ACATGGTCTTACACTGACTATCATTTGGTA
66 ACAT-GCCTTACACTGACTATCATTTGGTA
* * * * * *
12779540 GCCGATG-CATGTCCCAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCCCA
1 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATCTC-AAGCCGATGTCATGGCCCA
* * * **
12779602 GACATGCCTTACACT-AGCTCTCGTCT-CAA
65 GACATGCCTTACACTGA-CTATCATTTGGTA
** *
12779631 TGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTC
1 -GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTC
12779670 TCATAACGTG
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.02
92 21 0.19
93 44 0.40
94 35 0.32
95 7 0.06
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (94 bp):
GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATCTCAAGCCGATGTCATGGCCCAG
ACATGCCTTACACTGACTATCATTTGGTA
Found at i:12779667 original size:94 final size:92
Alignment explanation
Indices: 12779444--12779713 Score: 251
Period size: 94 Copynumber: 2.9 Consensus size: 92
12779434 GTGGGTAAAG
* * * * * *
12779444 TGCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATTTC-AAGCCGATGTCATGGCCC
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCCGATG-CATGTCCC
***
12779508 AGACATGGTCTTACACT-GACTATCATTTGG
64 AGACAT-GTCTTACACTAG-CTATCATTCAA
* * * *
12779538 TAGCCGATGCATGTCCCAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCA
1 T-GCCGATCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCA
* * *
12779602 GACATGCCTTACACTAGCTCTCGTCTCAA
65 GACATGTCTTACACTAGCTATCAT-TCAA
* * * **
12779631 TGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAACGTGGCTGATGCATGTCTT
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACACTGGCT-TACATATCGAGGCCGATGCATGTCCC
12779695 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
12779714 CAAATAATAA
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
92 20 0.14
93 47 0.32
94 71 0.49
95 7 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
TGCCGATCCATGTCCCAGACATGGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCTATCATTCAA
Found at i:12779691 original size:47 final size:46
Alignment explanation
Indices: 12779445--12779710 Score: 225
Period size: 47 Copynumber: 5.7 Consensus size: 46
12779435 TGGGTAAAGT
* * * *
12779445 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATTTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTA
* * * * *
12779492 GCCGATGTCATGGCCCAGACATGGTCTTACACTGACTATCATTTGGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTA
* *
12779540 GCCGATGCATGTCCCAGGCATGTCTTACACTGGCT-TACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGTA
* * * *
12779585 GGCCGATGCATGTCCCAGACATGCCTTACACTAGCTCTCGTCTC-AA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTA
* ** *
12779631 TGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTG
1 -GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGTA
* **
12779680 GCTGATGCATGTCTTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
12779711 AGCCAAATAA
Statistics
Matches: 182, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 72 0.40
47 78 0.43
48 30 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGTA
Found at i:12779705 original size:140 final size:141
Alignment explanation
Indices: 12779445--12779710 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 141
12779435 TGGGTAAAGT
* * **
12779445 GCCGATGTCATGTCCCAGACATGGCCTTACACTGGCTCACATTTCAAGCCGATGTCATGGCCCAG
1 GCCGATGTCATGTCCCAGACATGGCCTTACACTAGCTCACATCTCAAGCCGATACCATGGCCCAG
*** *
12779510 ACATGGTCTTACACTGACTATCATTTGGTAGCCGATGCATGTCCCAGGCATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
12779575 TACGTCTCGAG
131 TACGTCTCGAG
* * *
12779586 GCCGATG-CATGTCCCAGACAT-GCCTTACACTAGCTCTCGTCTCAATGCCGATACCATGTCCCA
1 GCCGATGTCATGTCCCAGACATGGCCTTACACTAGCTCACATCTCAA-GCCGATACCATGGCCCA
* * * * **
12779649 GACATGGTCTTACACTGGCTCTCATAACGTGGCTGATGCATGTCTTAGACATGTCTTACACT
65 GACATGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACT
12779711 AGCCAAATAA
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
139 20 0.19
140 80 0.75
141 7 0.07
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (141 bp):
GCCGATGTCATGTCCCAGACATGGCCTTACACTAGCTCACATCTCAAGCCGATACCATGGCCCAG
ACATGGTCTTACACTGACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
TACGTCTCGAG
Found at i:12783184 original size:84 final size:84
Alignment explanation
Indices: 12783085--12783299 Score: 272
Period size: 84 Copynumber: 2.6 Consensus size: 84
12783075 ACGTGCAGGC
* * * * *
12783085 GACACACGGCCGAACTACACACCAATGGGGTAGACCGTGTGTGACACAACG-CCAAACTACAAGC
1 GACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTCACACAACGACCAAACTACAAGC
*
12783149 CCATGAGGCAGATTATGTGT
66 CCATGAGGCAGA-CATGTGT
* * * *
12783169 GACACACGGCTGAACTACACGCCCATGGGGCAAACCGTGTATCACAC-ACGATCAAACTACACGC
1 GACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTCACACAACGACCAAACTACAAGC
* *
12783233 CCATGGGGCAGACGTGTGT
66 CCATGAGGCAGACATGTGT
* * *
12783252 CACACACGGGTGAACTACATGCCCATGGGGCAGACCGTGTGTCACACA
1 GACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTCACACA
12783300 CGGCATAGAC
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
83 50 0.45
84 62 0.55
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (84 bp):
GACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTCACACAACGACCAAACTACAAGC
CCATGAGGCAGACATGTGT
Found at i:12783216 original size:42 final size:42
Alignment explanation
Indices: 12783086--12783303 Score: 226
Period size: 42 Copynumber: 5.2 Consensus size: 42
12783076 CGTGCAGGCG
* * * * *
12783086 ACACACGGCCGAACTACACACCAATGGGGTAGACCGTGTGTG
1 ACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTC
** * * *** *
12783128 ACACAAC-GCCAAACTACAAGCCCATGAGGCAGATTATGTGTG
1 ACAC-ACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTC
* *
12783170 ACACACGGCTGAACTACACGCCCATGGGGCAAACCGTGTATC
1 ACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTC
* *
12783212 ACACAC-GATCAAACTACACGCCCATGGGGCAGA-CGTGTGTC
1 ACACACGGCT-GAACTACACGCCCATGGGGCAGACCGTGTGTC
* *
12783253 ACACACGGGTGAACTACATGCCCATGGGGCAGACCGTGTGTC
1 ACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTC
12783295 ACACACGGC
1 ACACACGGC
12783304 ATAGACACAC
Statistics
Matches: 144, Mismatches: 27, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
41 38 0.26
42 104 0.72
43 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (42 bp):
ACACACGGCTGAACTACACGCCCATGGGGCAGACCGTGTGTC
Found at i:12784099 original size:47 final size:45
Alignment explanation
Indices: 12784025--12784292 Score: 243
Period size: 47 Copynumber: 5.7 Consensus size: 45
12784015 TATGGTGCCA
*
12784025 ATGCTATGTCCTAGACACTGTCTTACACTGGCTCACATCTCAAGTC-
1 ATGC-ATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGTCG
*
12784071 AGTGTCATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGTCG
1 A-TG-CATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGTCG
* * * * *
12784119 ATGCCATGTCCCAAACATTGCCTTACACTGACT-ATCATTTCATAGCCG
1 ATG-CATGTCCCAGACA-TGTCTTACACTGGCTCA-CATCTCA-AGTCG
* * * * * *
12784167 ATGCATCTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCACATC-TCAAGTCG
* **
12784213 ATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAATGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GTCG
* *
12784259 ATGCCATGTCCCAGGCATGGTCTTATACTGGCTC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTC
12784293 TTATAATGTG
Statistics
Matches: 184, Mismatches: 26, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 61 0.33
47 99 0.54
48 22 0.12
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGTCG
Found at i:12784307 original size:140 final size:140
Alignment explanation
Indices: 12784076--12784333 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
12784066 AAGTCAGTGT
*
12784076 CATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGTCGATGCCATGTCCCAAACATTGCC
1 CATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGTCGATGCCATGTCCCAAACATGGCC
*
12784141 TTACACTGACTATCATTTCATAGCCGATGCATCTCCCAGACATGTCTTACACTGGCTTACGTCTT
66 TTACACTGACTATCATATCATAGCCGATGCATCTCCCAGACATGTCTTACACTGGCTTACGTCTT
12784206 GAGGCCGATG
131 GAGGCCGATG
** **
12784216 CATGTCCCAGACAT-GTCTTACACT-AGCTTTCATCTCAATGTCGATGCCATGTCCCAGGCATGG
1 CATGTCCCAGACATGGTCTTACACTGA-CTCACATCTCAA-GTCGATGCCATGTCCCAAACATGG
* * * * * * * * **
12784279 TCTTATACTGGCTCTTATAAT-GTGGCCGATGCATGTCCTGGACATGTCTTACACT
64 CCTTACACTGACTATCAT-ATCATAGCCGATGCATCTCCCAGACATGTCTTACACT
12784334 AGCTCACACA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.20
140 77 0.78
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGTCGATGCCATGTCCCAAACATGGCC
TTACACTGACTATCATATCATAGCCGATGCATCTCCCAGACATGTCTTACACTGGCTTACGTCTT
GAGGCCGATG
Found at i:12784314 original size:47 final size:48
Alignment explanation
Indices: 12784163--12784337 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 48
12784153 TCATTTCATA
* * * *
12784163 GCCGATGCATCTCCCAGACATGTCTTACACTGGC-TT-ACGTC-TTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCAC-TCAATGTG
12784209 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCATCTCAATGT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCA-CTCAATGTG
* * *
12784257 --CGATGCCATGTCCCAGGCATGGTCTTATACTGGCTCTT-A-T-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TTCACTCAATGTG
**
12784303 GCCGATGCATGTCCTGGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
12784338 CACACAAGTG
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
45 5 0.05
46 50 0.47
47 26 0.24
48 21 0.20
49 5 0.05
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCACTCAATGTG
Found at i:12786633 original size:40 final size:39
Alignment explanation
Indices: 12786589--12786811 Score: 238
Period size: 39 Copynumber: 5.6 Consensus size: 39
12786579 GCTCCTCGTT
*
12786589 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
12786629 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
12786669 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* *
12786708 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * * *
12786747 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGTATAGTAAC-TCGCA
12786788 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
12786812 ACATCATTCA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.45
40 70 0.44
41 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:12786711 original size:39 final size:40
Alignment explanation
Indices: 12786589--12786812 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
12786579 GCTCCTCGTT
* *
12786589 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
12786629 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
12786669 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
12786708 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
12786747 CAAATGCCTTC-GGATCTTAGTCCAG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
12786788 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
12786813 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 75 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:12786756 original size:78 final size:80
Alignment explanation
Indices: 12786589--12786812 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 80
12786579 GCTCCTCGTT
*
12786589 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
12786654 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
12786669 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGTACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
12786731 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
12786747 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
12786810 GGA
64 GGA
12786813 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.27
79 55 0.44
80 33 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:12786797 original size:118 final size:120
Alignment explanation
Indices: 12786583--12786812 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 120
12786573 GATATAGCTC
* *
12786583 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
* * *
12786648 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAT
66 ACCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAT
* *
12786702 CTCGTACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCT
1 CTCGTACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CT
** * *
12786764 TAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 TAACCCAGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
12786813 CATCATTCAA
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 4 0.04
118 54 0.56
119 38 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
ACCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAT
Found at i:12795072 original size:47 final size:46
Alignment explanation
Indices: 12795009--12795253 Score: 239
Period size: 47 Copynumber: 5.2 Consensus size: 46
12794999 CCTAGACACT
* *
12795009 GTCTTACACTGGCTCACATCTCAAGTCGGTGTCATGTCCCAGACATG
1 GTCTTACACTGACTCACATCTCAAGTCGATG-CATGTCCCAGACATG
12795056 GTCTTACACTGACTCACATCTCAAGTCGATGCCATGTCCCAGACATG
1 GTCTTACACTGACTCACATCTCAAGTCGATG-CATGTCCCAGACATG
* * * *
12795103 GTCTTACACTAACT-ATCAT-TCCGTAGCCAATGCATGTCCCAGACAT-
1 GTCTTACACTGACTCA-CATCT-C-AAGTCGATGCATGTCCCAGACATG
* * * *
12795149 GTCTTACACTGGCTTACGTCTCGAGGTCGATGCATGTCCCAGACAT-
1 GTCTTACACTGACTCACATCTC-AAGTCGATGCATGTCCCAGACATG
* * * *
12795195 GTCTTTCACT-AGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATG
1 GTCTTACACTGA-CTCACATCTCAA-GTCGATG-CATGTCCCAGACATG
*
12795243 GTCTTATACTG
1 GTCTTACACTG
12795254 GCTCTCGTAA
Statistics
Matches: 166, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 60 0.36
47 91 0.55
48 14 0.08
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTTACACTGACTCACATCTCAAGTCGATGCATGTCCCAGACATG
Found at i:12795276 original size:140 final size:140
Alignment explanation
Indices: 12794986--12795305 Score: 367
Period size: 140 Copynumber: 2.3 Consensus size: 140
12794976 TGGGTATGGT
* * *
12794986 GCCAATGCTATATCCTAGACACTGTCTTACACTGGCTCACATCTCAAGTCGGTGTCATGTCCCAG
1 GCCAATGC-ATGTCCCAGACA-TGTCTTACACTGGCTCACATCTCAAGTCGATGTCATGTCCCAG
*
12795051 ACATGGTCTTACACTGACTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTAAC
64 ACATGGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAAC
**
12795116 TATCATTCCGTA
129 TATCATAACGTA
* * *
12795128 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGTCGATG-CATGTCCCAGA
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTC-AAGTCGATGTCATGTCCCAGA
* * * * **
12795192 CAT-GTCTTTCACT-AGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTATACTGG
65 CATGGTCTTACACTGA-CTCACATCTCAA-GCCGATGCCATGTCCCAGACATGGTCTTACACTAA
* * * *
12795255 CTCTCGTAATGTG
128 CTATCATAACGTA
* * * *
12795268 GCCGATGCATGTCTCGGACATGTCTTACATTGGCTCAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTCAC
12795306 GCAAGTGACC
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
138 1 0.01
139 19 0.13
140 106 0.70
141 17 0.11
142 8 0.05
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (140 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGTCGATGTCATGTCCCAGAC
ATGGTCTTACACTGACTCACATCTCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTA
TCATAACGTA
Found at i:12802959 original size:3 final size:3
Alignment explanation
Indices: 12802951--12803049 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
12802941 NNNNNNNNNN
12802951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12802999 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12803047 ATA
1 ATA
12803050 GTGTTTGAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12805942 original size:40 final size:40
Alignment explanation
Indices: 12805895--12806098 Score: 309
Period size: 40 Copynumber: 5.1 Consensus size: 40
12805885 TAGCCGGATG
*
12805895 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* * * *
12805935 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCTGAAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
*
12805975 TAACAACCAGCACGAATGCCTTCGGGACTTACACCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTA-ACCCGGAAA
*
12806016 TAACAACCAGCACGAATGCCTTCGGGACATAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* * *
12806056 TAAAAACCAGCATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
12806096 TAA
1 TAA
12806099 TCCTCAATTG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 111 0.76
41 36 0.24
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:12806043 original size:81 final size:80
Alignment explanation
Indices: 12805895--12806098 Score: 309
Period size: 81 Copynumber: 2.5 Consensus size: 80
12805885 TAGCCGGATG
* * *
12805895 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCATGAATGCCTTCGG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGG
* *
12805960 GACTTAACCTGAAAA
66 GACATAACCCGAAAA
*
12805975 TAACAACCAGCACGAATGCCTTCGGGACTTACACCCGGGAATAACAACCAGCACGAATGCCTTCG
1 TAACAACCAGCACGAATGCCTTCGGGACTTA-ACCCGGAAATAACAACCAGCACGAATGCCTTCG
*
12806040 GGACATAACCCGGAAA
65 GGACATAACCCGAAAA
* * *
12806056 TAAAAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAA
12806099 TCCTCAATTG
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
80 40 0.36
81 72 0.64
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (80 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGG
GACATAACCCGAAAA
Found at i:12813970 original size:40 final size:40
Alignment explanation
Indices: 12813948--12814146 Score: 326
Period size: 40 Copynumber: 5.0 Consensus size: 40
12813938 TGCCCGGATG
*
12813948 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
12813988 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
12814028 TAACAACCAGCACGAATGCCTTCGGAACTTAAACCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGGGACTT-AACCCGGAAA
*
12814069 TAACAACCAGCACGAATGCCTTCGGGACATAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
*
12814109 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGA
12814147 TATAGTCCTC
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 109 0.75
41 37 0.25
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:12814102 original size:81 final size:80
Alignment explanation
Indices: 12813948--12814146 Score: 326
Period size: 81 Copynumber: 2.5 Consensus size: 80
12813938 TGCCCGGATG
* * *
12813948 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCATGAATGCCTTCGG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGG
*
12814013 GACTTAACCCGGAAA
66 GACATAACCCGGAAA
* *
12814028 TAACAACCAGCACGAATGCCTTCGGAACTTAAACCCGGGAATAACAACCAGCACGAATGCCTTCG
1 TAACAACCAGCACGAATGCCTTCGGGACTT-AACCCGGAAATAACAACCAGCACGAATGCCTTCG
12814093 GGACATAACCCGGAAA
65 GGACATAACCCGGAAA
*
12814109 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGA
12814147 TATAGTCCTC
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
80 35 0.32
81 74 0.68
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (80 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATGCCTTCGG
GACATAACCCGGAAA
Found at i:12822747 original size:41 final size:41
Alignment explanation
Indices: 12822690--12822773 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
12822680 AAAGTTAACC
12822690 TCCCTTAATGGCTATTTTGAGATTCTTTTAAGAATATCTTT
1 TCCCTTAATGGCTATTTTGAGATTCTTTTAAGAATATCTTT
12822731 TCCCTTAATGGCTATTTTGAGATTCTTTTAAGAATATCTTT
1 TCCCTTAATGGCTATTTTGAGATTCTTTTAAGAATATCTTT
12822772 TC
1 TC
12822774 ACTAGTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (41 bp):
TCCCTTAATGGCTATTTTGAGATTCTTTTAAGAATATCTTT
Found at i:12825553 original size:23 final size:23
Alignment explanation
Indices: 12825527--12825573 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12825517 CCAAGTGAAC
*
12825527 AAGAATTCTGACCTCATATTCTT
1 AAGAATTCTAACCTCATATTCTT
12825550 AAGAATTCTAACCTCATATTCTT
1 AAGAATTCTAACCTCATATTCTT
12825573 A
1 A
12825574 CTATGAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.38
Consensus pattern (23 bp):
AAGAATTCTAACCTCATATTCTT
Found at i:12826351 original size:25 final size:26
Alignment explanation
Indices: 12826322--12826371 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
12826312 TCAATTGTTT
*
12826322 TTATTATAATATAA-TTTTATAACAA
1 TTATTATAATATAACCTTTATAACAA
* *
12826347 TTATTATTATTTAACCTTTATAACA
1 TTATTATAATATAACCTTTATAACA
12826372 TATATATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (26 bp):
TTATTATAATATAACCTTTATAACAA
Found at i:12838287 original size:45 final size:45
Alignment explanation
Indices: 12838223--12838314 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
12838213 TCTTTCGAAG
*
12838223 AATATTATTGGGAAAAAGGGGATAGGGGATAAAATAGGTGGTTAC
1 AATATTATTAGGAAAAAGGGGATAGGGGATAAAATAGGTGGTTAC
12838268 AATATTATTAGGAAAAAGGGGATAGGGGATAAAATAGGTGGTTAC
1 AATATTATTAGGAAAAAGGGGATAGGGGATAAAATAGGTGGTTAC
12838313 AA
1 AA
12838315 ACTATTGGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.24
Consensus pattern (45 bp):
AATATTATTAGGAAAAAGGGGATAGGGGATAAAATAGGTGGTTAC
Found at i:12849801 original size:20 final size:22
Alignment explanation
Indices: 12849764--12849807 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
12849754 AACATTTAAC
*
12849764 TTTTTAATATATTCTTTAAATT
1 TTTTTAATAAATTCTTTAAATT
*
12849786 TTTTTAA-AAATT-TTTAACTT
1 TTTTTAATAAATTCTTTAAATT
12849806 TT
1 TT
12849808 AATATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 4 0.20
22 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTAATAAATTCTTTAAATT
Found at i:12858443 original size:106 final size:106
Alignment explanation
Indices: 12858258--12858506 Score: 489
Period size: 106 Copynumber: 2.3 Consensus size: 106
12858248 CAAATTTGTA
12858258 TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTTTTAAAAAAAAACTAGTGCAGCCAAGTGG
1 TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTTTTAAAAAAAAACTAGTGCAGCCAAGTGG
12858323 CACCAGCCTGATGGAAGTGACTATTTGGTCACGAGTTCGTG
66 CACCAGCCTGATGGAAGTGACTATTTGGTCACGAGTTCGTG
12858364 TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTTTTAAAAAAAAACTAGTGCAGCCAAGTGG
1 TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTTTTAAAAAAAAACTAGTGCAGCCAAGTGG
12858429 CACCAGCCTGATGGAAGTGACTATTTGGTCACGAGTTCGTG
66 CACCAGCCTGATGGAAGTGACTATTTGGTCACGAGTTCGTG
*
12858470 TTTTTAATACTGAAAAAAATTAAAACACGAGTTTTTT
1 TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTT
12858507 CAGCTAAATA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 142 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (106 bp):
TTTTTAATACTGAAAAAAATTAAAACACAAGTTTTTTTTAAAAAAAAACTAGTGCAGCCAAGTGG
CACCAGCCTGATGGAAGTGACTATTTGGTCACGAGTTCGTG
Found at i:12874186 original size:20 final size:20
Alignment explanation
Indices: 12874142--12874186 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12874132 AATTTTAGCT
*
12874142 TTTATCTTCATTTATCTTTA
1 TTTATATTCATTTATCTTTA
*
12874162 ATTATATTCATTTAT-TTGTA
1 TTTATATTCATTTATCTT-TA
12874182 TTTAT
1 TTTAT
12874187 CTTTTAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATATTCATTTATCTTTA
Found at i:12874606 original size:47 final size:46
Alignment explanation
Indices: 12874543--12874642 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 46
12874533 GTCTTAAATA
*
12874543 TGTCTTAAGTCTATTAATGCATG-T-TAATTAGTACAACATTTTAATG
1 TGTCTTAAGTCTATTAAT--ATGTTATAATAAGTACAACATTTTAATG
* *
12874589 TGTCTTAAGTTTAATTAATATGTTATAATAAGTACAACTTTTTAATG
1 TGTCTTAAGTCT-ATTAATATGTTATAATAAGTACAACATTTTAATG
12874636 TGTCTTA
1 TGTCTTA
12874643 GATTAAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 3 0.06
46 12 0.25
47 33 0.69
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (46 bp):
TGTCTTAAGTCTATTAATATGTTATAATAAGTACAACATTTTAATG
Found at i:12878881 original size:12 final size:12
Alignment explanation
Indices: 12878864--12878895 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
12878854 TGAAATTTTC
12878864 ATTATTATGGTT
1 ATTATTATGGTT
12878876 ATTATTATGGTT
1 ATTATTATGGTT
12878888 ATTATTAT
1 ATTATTAT
12878896 TATTTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (12 bp):
ATTATTATGGTT
Found at i:12881383 original size:20 final size:20
Alignment explanation
Indices: 12881353--12881397 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12881343 CTGTTTTATT
12881353 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
12881372 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
12881392 ATGGGC
1 ATGGGC
12881398 AAGACCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:12881463 original size:27 final size:28
Alignment explanation
Indices: 12881428--12881520 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 28
12881418 TTGTAATAGA
12881428 GCTACGGCCCAGACTGATACTGATATGG
1 GCTACGGCCCAGACTGATACTGATATGG
*
12881456 GCTA-GGCCCAGTATGCTATGATATTG-TAGTAGG
1 GCTACGGCCCAG-A--C--TGATACTGATA-T-GG
* * *
12881489 GCTATGGCCCAGATTAATACTGATATGG
1 GCTACGGCCCAGACTGATACTGATATGG
12881517 GCTA
1 GCTA
12881521 AGACCCAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
27 7 0.13
28 11 0.21
29 7 0.13
30 3 0.06
31 2 0.04
32 8 0.15
33 7 0.13
34 7 0.13
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (28 bp):
GCTACGGCCCAGACTGATACTGATATGG
Found at i:12883560 original size:11 final size:12
Alignment explanation
Indices: 12883544--12883606 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
12883534 GTAACTCAAT
12883544 TTTTATT-TTTA
1 TTTTATTATTTA
12883555 TTTTATTATTTA
1 TTTTATTATTTA
12883567 -TTTATTACTTTA
1 TTTTATTA-TTTA
*
12883579 TTTTATTTTATTA
1 TTTTATTAT-TTA
12883592 -TTTATTACTTTA
1 TTTTATTA-TTTA
12883604 TTT
1 TTT
12883607 GGATATTAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
11 14 0.32
12 18 0.41
13 12 0.27
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:12883598 original size:25 final size:24
Alignment explanation
Indices: 12883551--12883606 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
12883541 AATTTTTATT
12883551 TTTATTTTATTATTTATTTATTAC
1 TTTATTTTATTATTTATTTATTAC
*
12883575 TTTATTTTATTTTATTATTTATTAC
1 TTTATTTTATTAT-TTATTTATTAC
12883600 TTTATTT
1 TTTATTT
12883607 GGATATTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATTTTATTATTTATTTATTAC
Found at i:12884956 original size:4 final size:4
Alignment explanation
Indices: 12884947--12884971 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12884937 CTTAAGCAAA
12884947 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
12884972 TGTATCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:12885689 original size:40 final size:40
Alignment explanation
Indices: 12885645--12885734 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
12885635 TAGGTTTTTC
12885645 GCGGCG-TTTGAATAAAAACGCCACTATAAATCGACCATTA
1 GCGGCGCTTT-AATAAAAACGCCACTATAAATCGACCATTA
** * * *
12885685 GCGGCGCTTTTCTAAAAACGCCGCTATAGATCGAGCATTA
1 GCGGCGCTTTAATAAAAACGCCACTATAAATCGACCATTA
*
12885725 GAGGCGCTTT
1 GCGGCGCTTT
12885735 TACCAAAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 40 0.93
41 3 0.07
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (40 bp):
GCGGCGCTTTAATAAAAACGCCACTATAAATCGACCATTA
Found at i:12885735 original size:40 final size:41
Alignment explanation
Indices: 12885657--12885775 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 41
12885647 GGCGTTTGAA
* * *
12885657 TAAAAACGCCACTATAAATCGACCATTAGCGGCGCTTTT-C
1 TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTAC
*
12885697 TAAAAACGCCGCTATAGATCGAGCATTAGAGGCGCTTTTAC
1 TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTAC
* * * *
12885738 -CAAAACGCTGCTATATG-TTGAGCATTAGCGGCGTTTTT
1 TAAAAACGCCGCTATA-GATCGAGCATTAGCGGCGCTTTT
12885776 GGAAAATGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 66 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
TAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTAC
Found at i:12885908 original size:39 final size:40
Alignment explanation
Indices: 12885859--12885951 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
12885849 CTAGTGGCGC
* * *
12885859 TTTTTT-AAAAACGCCACTATAGATTGAGCATTAGCGGCA
1 TTTTTTAAAAAACGCAACTATAGATCGAGCATTAGCAGCA
12885898 -TTTTTAAAAAACGCAACTATAGATCGAGCATTAGCAGCA
1 TTTTTTAAAAAACGCAACTATAGATCGAGCATTAGCAGCA
12885937 TTTTTTAAAAAACGC
1 TTTTTTAAAAAACGC
12885952 TACAAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
38 5 0.10
39 30 0.61
40 14 0.29
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (40 bp):
TTTTTTAAAAAACGCAACTATAGATCGAGCATTAGCAGCA
Found at i:12886306 original size:7 final size:7
Alignment explanation
Indices: 12886291--12886345 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
12886281 GAGTTAATAT
12886291 TTTAAGG
1 TTTAAGG
*
12886298 TTTAGGG
1 TTTAAGG
**
12886305 TTTTAAAA
1 -TTTAAGG
12886313 TTTAAGG
1 TTTAAGG
12886320 TTTTAAGG
1 -TTTAAGG
*
12886328 TTTATGG
1 TTTAAGG
12886335 TTTAAGG
1 TTTAAGG
12886342 TTTA
1 TTTA
12886346 TGGGTTAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 27 0.71
8 11 0.29
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:12886308 original size:15 final size:15
Alignment explanation
Indices: 12886290--12886351 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
12886280 TGAGTTAATA
12886290 TTTTAAGGTTTAGGG
1 TTTTAAGGTTTAGGG
** *
12886305 TTTTAAAATTTAAGG
1 TTTTAAGGTTTAGGG
*
12886320 TTTTAAGGTTTATGG
1 TTTTAAGGTTTAGGG
12886335 -TTTAAGGTTTATGGG
1 TTTTAAGGTTTA-GGG
12886350 TT
1 TT
12886352 AATGGTTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.29
15 26 0.68
16 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (15 bp):
TTTTAAGGTTTAGGG
Found at i:12886351 original size:22 final size:22
Alignment explanation
Indices: 12886291--12886358 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
12886281 GAGTTAATAT
***
12886291 TTTAAGGTTTA-GGGTTTTAAAA
1 TTTAAGGTTTATGGG-TTTATGG
*
12886313 TTTAAGGTTT-TAAGGTTTATGG
1 TTTAAGGTTTAT-GGGTTTATGG
*
12886335 TTTAAGGTTTATGGGTTAATGG
1 TTTAAGGTTTATGGGTTTATGG
12886357 TT
1 TT
12886359 AGTGGTTAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (22 bp):
TTTAAGGTTTATGGGTTTATGG
Found at i:12886382 original size:7 final size:7
Alignment explanation
Indices: 12886322--12886414 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
12886312 ATTTAAGGTT
*
12886322 TTAAGGT
1 TTAAGGG
* *
12886329 TTATGGT
1 TTAAGGG
*
12886336 TTAAGGT
1 TTAAGGG
*
12886343 TTATGGG
1 TTAAGGG
*
12886350 TTAATGG
1 TTAAGGG
12886357 TT-AGTGG
1 TTAAG-GG
*
12886364 TTAGGGG
1 TTAAGGG
12886371 TTAAGGG
1 TTAAGGG
12886378 TTAAGGG
1 TTAAGGG
* *
12886385 AATATGGG
1 -TTAAGGG
12886393 TTAAGGGG
1 TTAA-GGG
* *
12886401 ATATGGG
1 TTAAGGG
12886408 TTAAGGG
1 TTAAGGG
12886415 GACAGGGGTT
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
6 1 0.02
7 53 0.82
8 11 0.17
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:12886415 original size:15 final size:15
Alignment explanation
Indices: 12886362--12886429 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
12886352 AATGGTTAGT
* *
12886362 GGTT-AGGGGTTAAG
1 GGTTAAGGGGATATG
*
12886376 GGTTAAGGGAATATG
1 GGTTAAGGGGATATG
12886391 GGTTAAGGGGATATG
1 GGTTAAGGGGATATG
* *
12886406 GGTTAAGGGGACAGG
1 GGTTAAGGGGATATG
12886421 GGTT-AGGGG
1 GGTTAAGGGG
12886430 TTTATAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 9 0.19
15 38 0.81
ACGTcount: A:0.25, C:0.01, G:0.50, T:0.24
Consensus pattern (15 bp):
GGTTAAGGGGATATG
Found at i:12886578 original size:7 final size:7
Alignment explanation
Indices: 12886566--12886627 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
12886556 TAGATTGTGT
12886566 GTTTAGG
1 GTTTAGG
*
12886573 GTTTAGA
1 GTTTAGG
12886580 GTTTAGG
1 GTTTAGG
*
12886587 ATTTAGG
1 GTTTAGG
*
12886594 ATTTAGG
1 GTTTAGG
12886601 AG--TAGG
1 -GTTTAGG
*
12886607 GGTTAGAG
1 GTTTAG-G
12886615 GTTTAGG
1 GTTTAGG
12886622 GTTTAG
1 GTTTAG
12886628 ATTAATTAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 1 0.02
6 4 0.09
7 35 0.76
8 6 0.13
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:12887107 original size:19 final size:18
Alignment explanation
Indices: 12887074--12887109 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
12887064 AATTCTCTAC
12887074 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
12887092 ATTTCCCCTAAATCCCTA
1 ATTTCCCCT-AATCCCTA
12887110 GGCATCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.28, C:0.39, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:12889516 original size:16 final size:16
Alignment explanation
Indices: 12889491--12889525 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12889481 AATTTCATTT
*
12889491 TATGTGTGAATGCCTA
1 TATGTATGAATGCCTA
*
12889507 TATGTATGAATGCGTA
1 TATGTATGAATGCCTA
12889523 TAT
1 TAT
12889526 CTATCTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (16 bp):
TATGTATGAATGCCTA
Found at i:12890684 original size:15 final size:15
Alignment explanation
Indices: 12890664--12890697 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12890654 TAATTTGATG
**
12890664 TTTGGATGTTTCATT
1 TTTGGATGTACCATT
12890679 TTTGGATGTACCATT
1 TTTGGATGTACCATT
12890694 TTTG
1 TTTG
12890698 TTTATCCGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.21, T:0.56
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:12895789 original size:66 final size:66
Alignment explanation
Indices: 12895678--12895806 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
12895668 AGTTGAACCA
* *
12895678 AAACCGCTAGAAGGAAACGCCATTGTGCTTGGTTTTGAAGCATTCTGAAAATCCTCAAATGCACT
1 AAACCGCTAGAAGGAAACGCCATTGTGCTCGGTTTTGAAGCATTCTGAAAATCCCCAAATGCACT
12895743 G
66 G
* *
12895744 AAACTGCTAGAAGGAAATG-CAGTTGTGCTCGGTTTTGAAGCATTCTGAAAATCCCCAAATGCA
1 AAACCGCTAGAAGGAAACGCCA-TTGTGCTCGGTTTTGAAGCATTCTGAAAATCCCCAAATGCA
12895807 TCGTGTGCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 2 0.03
66 56 0.97
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (66 bp):
AAACCGCTAGAAGGAAACGCCATTGTGCTCGGTTTTGAAGCATTCTGAAAATCCCCAAATGCACT
G
Found at i:12911151 original size:19 final size:19
Alignment explanation
Indices: 12911127--12911163 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12911117 GCACTCATCA
* *
12911127 TATATTTTAAATTTTTATC
1 TATATTATAAAATTTTATC
12911146 TATATTATAAAATTTTAT
1 TATATTATAAAATTTTAT
12911164 GTATCAGTTC
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTATAAAATTTTATC
Found at i:12915192 original size:22 final size:22
Alignment explanation
Indices: 12915130--12915193 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
12915120 TAAAATGATA
12915130 AAAATTATAAAAATATAGGCTATT
1 AAAATTATAAAAATATA--CTATT
* * *
12915154 AAAATAATAAAATTATACTTTT
1 AAAATTATAAAAATATACTATT
**
12915176 ACTATTATAAAAATATAC
1 AAAATTATAAAAATATAC
12915194 AATTTAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
22 18 0.55
24 15 0.45
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAATTATAAAAATATACTATT
Found at i:12919049 original size:20 final size:19
Alignment explanation
Indices: 12919026--12919077 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
12919016 AAATTTTAAT
12919026 ATATAATTATTATTAAAATA
1 ATATAATTATT-TTAAAATA
* **
12919046 ATATAAATATTTTTCAATA
1 ATATAATTATTTTAAAATA
12919065 ATAT-ATTATTTTA
1 ATATAATTATTTTA
12919078 GGTGTGCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 7 0.26
19 10 0.37
20 10 0.37
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATAATTATTTTAAAATA
Found at i:12919167 original size:20 final size:20
Alignment explanation
Indices: 12919136--12919174 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
12919126 TAACAATACA
12919136 TTAAAATATTA-TTTAAAAT
1 TTAAAATATTATTTTAAAAT
12919155 TTAAAATTATTATTTTAAAA
1 TTAAAA-TATTATTTTAAAA
12919175 AATAATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAATATTATTTTAAAAT
Found at i:12919204 original size:13 final size:12
Alignment explanation
Indices: 12919197--12919227 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
12919187 ATAAATAGTA
12919197 ATATTAAATAAT
1 ATATTAAATAAT
12919209 ATATTAAAATAAT
1 ATATT-AAATAAT
12919222 ATATTA
1 ATATTA
12919228 TAGTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTAAATAAT
Found at i:12919220 original size:30 final size:34
Alignment explanation
Indices: 12919184--12919246 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
12919174 AAATAATACA
12919184 AAAATAA-ATAGTA-A-TATTAAATA-ATATATT
1 AAAATAATATAGTATAGTATTAAATATATATATT
*
12919214 AAAATAATATATTATAGTATTAAATATATATAT
1 AAAATAATATAGTATAGTATTAAATATATATAT
12919247 AATAATTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.25
31 5 0.18
32 1 0.04
33 9 0.32
34 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (34 bp):
AAAATAATATAGTATAGTATTAAATATATATATT
Found at i:12926858 original size:47 final size:47
Alignment explanation
Indices: 12926792--12927209 Score: 542
Period size: 47 Copynumber: 9.0 Consensus size: 47
12926782 AGTGTATATG
* **
12926792 TGTGA-ATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* *
12926838 TATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACATGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * **
12926885 TGTGTGATAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
12926932 TATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
12926979 TGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
12927026 TGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A---ATA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * * *
12927069 TGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
12927116 TGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
* * *
12927163 TGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AAGTGTA
1 TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
12927209 T
1 T
12927210 AAATGTGATA
Statistics
Matches: 320, Mismatches: 47, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
43 36 0.11
44 1 0.00
46 12 0.04
47 271 0.85
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (47 bp):
TGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTA
Found at i:12927135 original size:137 final size:137
Alignment explanation
Indices: 12926787--12927203 Score: 636
Period size: 137 Copynumber: 3.0 Consensus size: 137
12926777 GGGAAAGTGT
* * * ** * *
12926787 ATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCC
1 ATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCC
* * * * * * *
12926852 GAATGGCCAATGTGATGAAAGTGAACATGTGTATGTGTGATAAGACCGAATGGCCAATGTGATGA
65 GAGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGA
12926917 ATGTGAACA
130 ATGTGAA-A
* *
12926926 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGG
1 ---ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGG
12926991 CCGAGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGAT
63 CCGAGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGAT
12927056 GAATGTGAAA
128 GAATGTGAAA
*
12927066 ATATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCG
12927131 AGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAA
66 AGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAA
12927196 TGTGAAA
131 TGTGAAA
12927203 A
1 A
12927204 GTGTATAAAT
Statistics
Matches: 256, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
137 135 0.53
140 1 0.00
141 113 0.44
142 7 0.03
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.25
Consensus pattern (137 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCG
AGTGGCCAATGTGATGAATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAA
Found at i:12927417 original size:37 final size:38
Alignment explanation
Indices: 12927340--12927420 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 38
12927330 CCGGGCTCTA
* * *
12927340 AAGACCCGATGACTGCGTGTGGGAAATTCTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGGAAATTATGTCCGGGT
* *
12927378 AAGACTCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGGAAATTATGTCCGGGT
12927415 AAGACT
1 AAGACT
12927421 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 21 0.55
38 17 0.45
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (38 bp):
AAGACTCGATAACTGCGTGTGGGAAATTATGTCCGGGT
Found at i:12931449 original size:15 final size:15
Alignment explanation
Indices: 12931407--12931449 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12931397 TTTTTACTAT
* *
12931407 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
12931422 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
12931436 AAAATAAATAACTT
1 AAAATAAATAACTT
12931450 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:12944577 original size:12 final size:12
Alignment explanation
Indices: 12944559--12944592 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12944549 CCTCACACGC
12944559 CCGTGTGCTGGG
1 CCGTGTGCTGGG
* *
12944571 TCGTGTGCTAGG
1 CCGTGTGCTGGG
12944583 CCGTGTGCTG
1 CCGTGTGCTG
12944593 TGCCATGTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.24, G:0.44, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTGGG
Found at i:12945423 original size:18 final size:18
Alignment explanation
Indices: 12945402--12945443 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
12945392 CACCATTAAC
*
12945402 AACACAAGTTAGTGATTA
1 AACACAAGTCAGTGATTA
12945420 AACACAAGTCAGTGATTA
1 AACACAAGTCAGTGATTA
12945438 AACACA
1 AACACA
12945444 TGAAACAGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (18 bp):
AACACAAGTCAGTGATTA
Found at i:12963471 original size:20 final size:20
Alignment explanation
Indices: 12963443--12963482 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12963433 AAAAAGACCC
*
12963443 ATAATTATTC-ATCTAATATT
1 ATAACTATTCAAT-TAATATT
12963463 ATAACTATTCAATTAATATT
1 ATAACTATTCAATTAATATT
12963483 GTTTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAACTATTCAATTAATATT
Done.