Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 14 of 31
Found at i:7135295 original size:501 final size:500
Alignment explanation
Indices: 7134296--7135670 Score: 1459
Period size: 501 Copynumber: 2.7 Consensus size: 500
7134286 AACAATTTAA
* * *
7134296 AATT-TATCAAATAAATATAATTTTTTGAAAAATGAAACATTTAAATTATTATTCTTGAGTTTAA
1 AATTATATCAAATAAATAT-ATTTTTTAAAAAATTAAATATTTAAATTATTATTCTTGAGTTTAA
* * * * * *
7134360 AGTATTTGACAGTTTAC-AATTTTTGATTTATGCAAGAATAATAGTAAGGATATAAAGAATTATA
65 AGTATTTAACGGTTTACTAA-TTTTAATCTATGCATGAATAATAGTAAGGATAAAAAGAATTA-A
* * * ** * * *
7134424 -TTAAAATTTAGTCA-TTGAAAA-TTTTAACGTAAAA-TAGTAAAAATTAACGTAAAACATTATA
128 GTGAAAA-TTAAT-ATTTAAAAAGCCTTAATGTAAAACGA-TAAGAATTAACGTAAAACATTATA
* * * * * *
7134485 AATGTGGAATAAGCATTGTTAAAATATTGACGTAAATGTATAAGATTTAATGTAA-AATATCAAT
190 AAAGTGGAACAAGCATTTTTAAAATATTGACGTAAATGTGTAAGATTTAATATAACAAGAT-AAT
* * * * * * * * *
7134549 TATATGAAAGAAGCATAATTTTCAGAAAAATTAAATATTTAAATTTTTATTTTTGAATTTAAAGT
254 TATGTCAAATAAACATAATTTTTAAAAAAATTAAACA-TTAAATTTTTATTCTTGAGTTTAAAGT
* * *
7134614 GTTTTATCG-TTGAAAAATTTTAATGTATGCGTGAATAATAGTAAAGATAAAAAGAATTATGATT
318 GTTTTA-CGCTT-AAAAATTTTAATCTATGCGTGAATAATAGTAAAGATAAAAAGAATTAAGATG
* * * *
7134678 AAAATGATTAGTTGAAAAGTCATGACATAAAACTATAAGAATTAACGTAAAATATTATAAAGATG
381 AAAATGAATAGTTAAAAAGCCATGACATAAAACTATAAGAACTAACGTAAAATATTATAAAGATG
* * * * * * *
7134743 CAACAATGATTGTTAAAGTATTGATGTAAATATGTGAGATTTAATATAACAAGTT
446 AAACAATGATTGTTAAAATATTGACGTAAATATGTAAAATTTAACATAACAAGTC
* * *
7134798 AATTATGTCAAATAAATAT-TATTTTAAAAAATTAAATATTTAAATTGTTATTC-TGAAGTTTAA
1 AATTATATCAAATAAATATATTTTTTAAAAAATTAAATATTTAAATTATTATTCTTG-AGTTTAA
*
7134861 AGT-TTTTACGGTTTACTAATTTTAATCTATGCATGAATAATAGTAAGGATAAAAAGAATTACAG
65 AGTATTTAACGGTTTACTAATTTTAATCTATGCATGAATAATAGTAAGGATAAAAAGAATTA-AG
* *
7134925 TGAAAAATAATATTTAAAAAGCCTTAATGTAAAACGATTAGAATTAACGTAAAACATTATAAAAG
129 TGAAAATTAATATTTAAAAAGCCTTAATGTAAAACGATAAGAATTAACGTAAAACATTATAAAAG
* * *
7134990 TGGAACAAGCATTTTTAAAATATTGATGTAAATGTGTAATATTTAATATAACAAGGTAATTATGT
194 TGGAACAAGCATTTTTAAAATATTGACGTAAATGTGTAAGATTTAATATAACAAGATAATTATGT
** * *
7135055 TTAATAAACATAATTTTTGAAAAAATTAAACATTCAAATTGTTATTCTTGAGTTTAAAGTGTTTT
259 CAAATAAACATAATTTTTAAAAAAATTAAACATT-AAATTTTTATTCTTGAGTTTAAAGTGTTTT
* * *
7135120 ACGGCTTACAAATTTTAATCTATGCGTGAATAATTGTAAGGATAAAAAGAATTACAG-TGAAAAC
323 AC-GCTTAAAAATTTTAATCTATGCGTGAATAATAGTAAAGATAAAAAGAATTA-AGATGAAAA-
* * * ** * * *
7135184 T-AATATTTAAAAAGCCTTGATATAAAGTTATAAGAACTAATGTAAAATATTATAAAGGTGAAAT
385 TGAATAGTTAAAAAGCCATGACATAAAACTATAAGAACTAACGTAAAATATTATAAAGATGAAAC
* *
7135248 AA-GTATT-TTCAAAATATTTACGTAAATGTGTAAAATTTAACATAACAAGTC
450 AATG-ATTGTT-AAAATATTGACGTAAATATGTAAAATTTAACATAACAAGTC
* ** * *
7135299 AATTATATCTAATAAATATAATTTTTTTTAAAATTAAATATTTATATTATTATTCTTGAGTTTGA
1 AATTATATCAAATAAATAT-ATTTTTTAAAAAATTAAATATTTAAATTATTATTCTTGAGTTTAA
** * * *
7135364 AGTATTTAACGACTTA-TAAATTTTAATCTATGCTTGAATAATAGTGAGAATAAAAAGAATTAAG
65 AGTATTTAACGGTTTACT-AATTTTAATCTATGCATGAATAATAGTAAGGATAAAAAGAATTAA-
* ** * ** *
7135428 GTGAAAATTCATATTTAAAAAGCCTTGGTGTAAAGCGATAAGAATTAACAAAAAACATTATAAAG
128 GTGAAAATTAATATTTAAAAAGCCTTAATGTAAAACGATAAGAATTAACGTAAAACATTATAAAA
* * * * * * * * *
7135493 GTGAAACAAACATTTTCAAAATATTGACGTAAGTGTGTGAGATTTAACAAAACAAGTTAATTAAG
193 GTGGAACAAGCATTTTTAAAATATTGACGTAAATGTGTAAGATTTAATATAACAAGATAATTATG
* * *
7135558 TCAAATAAATATAATTTTTAAAAAAATTATACAATTAAATTTTTATTCTTAAGTTTAAAGTGATT
258 TCAAATAAACATAATTTTTAAAAAAATTAAAC-ATTAAATTTTTATTCTTGAGTTTAAAGTG-TT
* * * * * * *
7135623 TAAAGCTTATAAATTTTAATTTATACGTAAATAACAGTAAAGATAAAA
321 TTACGCTTAAAAATTTTAATCTATGCGTGAATAATAGTAAAGATAAAA
7135671 TGATATGGTA
Statistics
Matches: 729, Mismatches: 121, Indels: 44
0.82 0.14 0.05
Matches are distributed among these distances:
499 1 0.00
500 67 0.09
501 339 0.47
502 12 0.02
503 53 0.07
504 250 0.34
505 7 0.01
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (500 bp):
AATTATATCAAATAAATATATTTTTTAAAAAATTAAATATTTAAATTATTATTCTTGAGTTTAAA
GTATTTAACGGTTTACTAATTTTAATCTATGCATGAATAATAGTAAGGATAAAAAGAATTAAGTG
AAAATTAATATTTAAAAAGCCTTAATGTAAAACGATAAGAATTAACGTAAAACATTATAAAAGTG
GAACAAGCATTTTTAAAATATTGACGTAAATGTGTAAGATTTAATATAACAAGATAATTATGTCA
AATAAACATAATTTTTAAAAAAATTAAACATTAAATTTTTATTCTTGAGTTTAAAGTGTTTTACG
CTTAAAAATTTTAATCTATGCGTGAATAATAGTAAAGATAAAAAGAATTAAGATGAAAATGAATA
GTTAAAAAGCCATGACATAAAACTATAAGAACTAACGTAAAATATTATAAAGATGAAACAATGAT
TGTTAAAATATTGACGTAAATATGTAAAATTTAACATAACAAGTC
Found at i:7137684 original size:19 final size:20
Alignment explanation
Indices: 7137654--7137693 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7137644 AATACTCTTT
7137654 ATTTATTTATTA-ATTTTAAA
1 ATTTATTTATTATA-TTTAAA
7137674 ATTTA-TTATTATATTTAAA
1 ATTTATTTATTATATTTAAA
7137693 A
1 A
7137694 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATTTATTATATTTAAA
Found at i:7137694 original size:20 final size:20
Alignment explanation
Indices: 7137654--7137694 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7137644 AATACTCTTT
*
7137654 ATTTATTTATTAATTTTAAA
1 ATTTATTTATTAATTTAAAA
7137674 ATTTA-TTATTATATTTAAAA
1 ATTTATTTATTA-ATTTAAAA
7137694 A
1 A
7137695 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTATTTATTAATTTAAAA
Found at i:7139059 original size:3 final size:3
Alignment explanation
Indices: 7139051--7139077 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7139041 ACCTAAACCT
7139051 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7139078 CTAAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7147081 original size:87 final size:87
Alignment explanation
Indices: 7146935--7147109 Score: 280
Period size: 87 Copynumber: 2.0 Consensus size: 87
7146925 AACGTTTAGA
* *
7146935 ATGCACAGAGTTATGAAATAAATATAATACTGGATCTTTACATGGCATTATCAGGGTGGCAGTAA
1 ATGCACAGAGTTACGAAATAAATATAATACTGAATCTTTACATGGCATTATCAGGGTGGCAGTAA
*
7147000 AATCGTATTTCCTGCCCTTTAC
66 AATCGTATTTCATGCCCTTTAC
* *
7147022 ATGCACATAGTTACGAAAT-AATGATAATACTGAATCTTTACATGGCATTATCAGGGTGGCCGTA
1 ATGCACAGAGTTACGAAATAAAT-ATAATACTGAATCTTTACATGGCATTATCAGGGTGGCAGTA
*
7147086 AAATTGTATTTCATGCCCTTTAC
65 AAATCGTATTTCATGCCCTTTAC
7147109 A
1 A
7147110 AAAGACTATT
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 3 0.04
87 78 0.96
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (87 bp):
ATGCACAGAGTTACGAAATAAATATAATACTGAATCTTTACATGGCATTATCAGGGTGGCAGTAA
AATCGTATTTCATGCCCTTTAC
Found at i:7149738 original size:28 final size:27
Alignment explanation
Indices: 7149706--7149761 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
7149696 ATGTTAAATC
*
7149706 AAAATCTTATATTTTTATTTTGAATCAA
1 AAAATCTTACA-TTTTATTTTGAATCAA
* *
7149734 AAAATTTTACATTTTATTTTGAGTCAA
1 AAAATCTTACATTTTATTTTGAATCAA
7149761 A
1 A
7149762 TGAGTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (27 bp):
AAAATCTTACATTTTATTTTGAATCAA
Found at i:7154072 original size:23 final size:25
Alignment explanation
Indices: 7154032--7154087 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
7154022 TTATAAAAAA
* * *
7154032 TTAAAATATATTTCTTAT-TCTT-T
1 TTAAAAAATAATTATTATATCTTCT
*
7154055 TTAAAAAATAATTATTATATTTTCT
1 TTAAAAAATAATTATTATATCTTCT
7154080 TTAAAAAA
1 TTAAAAAA
7154088 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 15 0.56
24 3 0.11
25 9 0.33
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAAAAAATAATTATTATATCTTCT
Found at i:7154361 original size:20 final size:21
Alignment explanation
Indices: 7154325--7154380 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
7154315 TATTTAATGA
7154325 AAAATATTT-TTTT-AAAA-T
1 AAAATATTTATTTTAAAAATT
7154343 AAAATATTTATTTTAAAAATT
1 AAAATATTTATTTTAAAAATT
7154364 AATAA-ATTTA-TTTAAAA
1 AA-AATATTTATTTTAAAA
7154381 TTTCAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.26
19 4 0.12
20 11 0.32
21 8 0.24
22 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAATATTTATTTTAAAAATT
Found at i:7154382 original size:19 final size:19
Alignment explanation
Indices: 7154325--7154382 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 19
7154315 TATTTAATGA
*
7154325 AAAATATTTTTTTAAAA-T
1 AAAATATTTATTTAAAATT
7154343 AAAATATTTATTTTAAAAATT
1 AAAATATTTA-TTT-AAAATT
7154364 AATAA-ATTTATTTAAAATT
1 AA-AATATTTATTTAAAATT
7154383 TCAATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 7 0.20
21 8 0.23
22 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATATTTATTTAAAATT
Found at i:7159712 original size:231 final size:231
Alignment explanation
Indices: 7159309--7159774 Score: 914
Period size: 231 Copynumber: 2.0 Consensus size: 231
7159299 TACTAGGAAA
7159309 ATTTTCTGCATGCTTATTCAGGCTGTAACCTTTTCTAGTTTTATTTATCATATGGTAAAACTTGA
1 ATTTTCTGCATGCTTATTCAGGCTGTAACCTTTTCTAGTTTTATTTATCATATGGTAAAACTTGA
7159374 AATACTTGGTATCCACTAAATGAGGTAAGGAAACCTGATACTGTAATCATTTTGCAGAATTTTTT
66 AATACTTGGTATCCACTAAATGAGGTAAGGAAACCTGATACTGTAATCATTTTGCAGAATTTTTT
*
7159439 GGAAGCCTCGTATGAGACGGTATGTTATGGTTGGAACCAGAAAAAGCATGAAGTATAATGATGAT
131 GGAAGCCTCGTATGAGACGGTATGTTATGGTTGGAACCAGAAAAAGCATGAAGTACAATGATGAT
7159504 TGAAATGTTGCTTGCATGTTTCATGACTCCATCCTG
196 TGAAATGTTGCTTGCATGTTTCATGACTCCATCCTG
7159540 ATTTTCTGCATGCTTATTCAGGCTGTAACCTTTTCTAGTTTTATTTATCATATGGTAAAACTTGA
1 ATTTTCTGCATGCTTATTCAGGCTGTAACCTTTTCTAGTTTTATTTATCATATGGTAAAACTTGA
7159605 AATACTTGGTATCCACTAAATGAGGTAAGGAAACCTGATACTGTAATCATTTTGCAGAATTTTTT
66 AATACTTGGTATCCACTAAATGAGGTAAGGAAACCTGATACTGTAATCATTTTGCAGAATTTTTT
*
7159670 GGAAGCCTCGTATGAGATGGTATGTTATGGTTGGAACCAGAAAAAGCATGAAGTACAATGATGAT
131 GGAAGCCTCGTATGAGACGGTATGTTATGGTTGGAACCAGAAAAAGCATGAAGTACAATGATGAT
7159735 TGAAATGTTGCTTGCATGTTTCATGACTCCATCCTG
196 TGAAATGTTGCTTGCATGTTTCATGACTCCATCCTG
7159771 ATTT
1 ATTT
7159775 CTTGATGTTT
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 233 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (231 bp):
ATTTTCTGCATGCTTATTCAGGCTGTAACCTTTTCTAGTTTTATTTATCATATGGTAAAACTTGA
AATACTTGGTATCCACTAAATGAGGTAAGGAAACCTGATACTGTAATCATTTTGCAGAATTTTTT
GGAAGCCTCGTATGAGACGGTATGTTATGGTTGGAACCAGAAAAAGCATGAAGTACAATGATGAT
TGAAATGTTGCTTGCATGTTTCATGACTCCATCCTG
Found at i:7163850 original size:19 final size:17
Alignment explanation
Indices: 7163804--7163853 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
7163794 CATCAAACAT
7163804 TATAATCATAAAAAAAAA
1 TATAAT-ATAAAAAAAAA
* *
7163822 TAAAAAATAAAAAAGCAAA
1 TATAATATAAAAAA--AAA
7163841 TATAATATAAAAA
1 TATAATATAAAAA
7163854 TTAGTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 4 0.15
19 14 0.54
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (17 bp):
TATAATATAAAAAAAAA
Found at i:7165659 original size:20 final size:21
Alignment explanation
Indices: 7165620--7165659 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7165610 CGACTTATAT
*
7165620 TTTACAATTATATTTTTGATA
1 TTTACAATTATATTTATGATA
*
7165641 TTTATAATT-TATTTATGAT
1 TTTACAATTATATTTATGAT
7165660 TTATCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTACAATTATATTTATGATA
Found at i:7168062 original size:2 final size:2
Alignment explanation
Indices: 7168055--7168088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7168045 GGTGAAGCAA
7168055 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7168089 CTAAGATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7175007 original size:2 final size:2
Alignment explanation
Indices: 7174995--7175035 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
7174985 TTTTTAAGTG
7174995 GA GA GA G- GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7175035 G
1 G
7175036 CCTCCAGCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7181464 original size:105 final size:105
Alignment explanation
Indices: 7181260--7181465 Score: 229
Period size: 105 Copynumber: 2.0 Consensus size: 105
7181250 TTGGATCTAT
* * * *
7181260 AAAATTTGGAGTCAAATAAGCATATAATCAACTTATACCTAATTCAAGATTCATCGTATTACAAA
1 AAAATTTGGAGGCAAATAA-CATATAATCAACTTATACCTAAATCAAGATTCATCGCAATACAAA
* **
7181325 TTTAAAATAAAAATACATACTTAATTTTTGATACATTATAA
65 TTTAAAATAAAAATACATACTTAATTCTCCATACATTATAA
* * * *
7181366 AAAATTTTGGAGGCAAATAA-ATATAATCAATTTATACTTAAATCAAGATTCATTGCAATAGAAA
1 AAAA-TTTGGAGGCAAATAACATATAATCAACTTATACCTAAATCAAGATTCATCGCAATACAAA
* * *
7181430 TTTAGAGTATGAAA-ACATAAC-TAATTCTCCATACAT
65 TTTAAAATA-AAAATACAT-ACTTAATTCTCCATACAT
7181466 GATTTCATGA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
105 60 0.72
106 9 0.11
107 14 0.17
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (105 bp):
AAAATTTGGAGGCAAATAACATATAATCAACTTATACCTAAATCAAGATTCATCGCAATACAAAT
TTAAAATAAAAATACATACTTAATTCTCCATACATTATAA
Found at i:7192387 original size:16 final size:17
Alignment explanation
Indices: 7192363--7192406 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
7192353 AAATAAAAAA
*
7192363 TAAATATATTTATAT-T
1 TAAAAATATTTATATAT
*
7192379 TAAAAATATATATATAT
1 TAAAAATATTTATATAT
7192396 TAAAAATATTT
1 TAAAAATATTT
7192407 TAGTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAAATATTTATATAT
Found at i:7192387 original size:18 final size:17
Alignment explanation
Indices: 7192364--7192408 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
7192354 AATAAAAAAT
7192364 AAATATATTTATATTTAA
1 AAATATATTTATA-TTAA
*
7192382 AAATATATATATATTAA
1 AAATATATTTATATTAA
7192399 AAATAT-TTTA
1 AAATATATTTA
7192409 GTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 10 0.40
18 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATATTTATATTAA
Found at i:7195060 original size:23 final size:23
Alignment explanation
Indices: 7195023--7195076 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
7195013 AGCATGACTA
* *
7195023 CTTGATAAGGTATTACGTGATTG
1 CTTGATAGGGCATTACGTGATTG
7195046 CTTGATAGGGCATTACGTGATTG
1 CTTGATAGGGCATTACGTGATTG
7195069 CTTGATAG
1 CTTGATAG
7195077 ACATTGCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (23 bp):
CTTGATAGGGCATTACGTGATTG
Found at i:7195086 original size:22 final size:23
Alignment explanation
Indices: 7195034--7195110 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
7195024 TTGATAAGGT
*
7195034 ATTACGTGATTGCTTGATAGGGC
1 ATTACGTGATTGCTTGATAGGAC
7195057 ATTACGTGATTGCTTGATA-GAC
1 ATTACGTGATTGCTTGATAGGAC
* * * **
7195079 ATTGCGTGACTGATTGATACAAC
1 ATTACGTGATTGCTTGATAGGAC
7195102 ATTACGTGA
1 ATTACGTGA
7195111 CTAGTTTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.38
23 29 0.62
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (23 bp):
ATTACGTGATTGCTTGATAGGAC
Found at i:7195109 original size:23 final size:22
Alignment explanation
Indices: 7195056--7195112 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
7195046 CTTGATAGGG
* * *
7195056 CATTACGTGATTGCTTGATAGA
1 CATTACGTGACTGATTGATAAA
*
7195078 CATTGCGTGACTGATTGATACAA
1 CATTACGTGACTGATTGATA-AA
7195101 CATTACGTGACT
1 CATTACGTGACT
7195113 AGTTTTTAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (22 bp):
CATTACGTGACTGATTGATAAA
Found at i:7195279 original size:2 final size:2
Alignment explanation
Indices: 7195272--7195314 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7195262 TGATTCATTT
7195272 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7195314 T
1 T
7195315 GCAAAGATAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7199428 original size:38 final size:38
Alignment explanation
Indices: 7199386--7199459 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
7199376 ATGCAATAAT
* * *
7199386 TAAGTCACACAATGTCTCAAAGCTAGTCTTACAATGCC
1 TAAGTCACACAATATCTAAAAACTAGTCTTACAATGCC
* * *
7199424 TAAGTCACGCAATATCTAAAAATTAGTCTTGCAATG
1 TAAGTCACACAATATCTAAAAACTAGTCTTACAATG
7199460 TAAAAAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (38 bp):
TAAGTCACACAATATCTAAAAACTAGTCTTACAATGCC
Found at i:7201809 original size:18 final size:18
Alignment explanation
Indices: 7201767--7201811 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7201757 AATTATCATT
*
7201767 AATTAAAATATCACATGA
1 AATTAACATATCACATGA
7201785 AATTAACATATCACATGA
1 AATTAACATATCACATGA
*
7201803 TATTAACAT
1 AATTAACAT
7201812 GACATTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (18 bp):
AATTAACATATCACATGA
Found at i:7201935 original size:33 final size:33
Alignment explanation
Indices: 7201865--7201935 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
7201855 CATATTATAT
* * *
7201865 TAATATGTCATATCATTATTTATTATTATATAT
1 TAATATGTCATATCAATATTTATTATTATAAAA
* *
7201898 TAATATGTCATGTTAATATTATATTA-TATAAAA
1 TAATATGTCATATCAATATT-TATTATTATAAAA
7201931 TAATA
1 TAATA
7201936 AACGATAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (33 bp):
TAATATGTCATATCAATATTTATTATTATAAAA
Found at i:7202752 original size:29 final size:30
Alignment explanation
Indices: 7202709--7202772 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
7202699 TTTATATCTT
* *
7202709 AATTATATCATATAAACATAAA-ATATTAAC
1 AATTATATCAAATAAACATAAATATAAT-AC
*
7202739 AATTATAT-AAATAAATATAAATATAATAC
1 AATTATATCAAATAAACATAAATATAATAC
7202768 AATTA
1 AATTA
7202773 ATTAATCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (30 bp):
AATTATATCAAATAAACATAAATATAATAC
Found at i:7203033 original size:37 final size:38
Alignment explanation
Indices: 7202969--7203066 Score: 92
Period size: 38 Copynumber: 2.5 Consensus size: 38
7202959 TCTCAAAAGA
* * *
7202969 AAAATAAGGAAAAAAAAGAAACAAGAGAAAAATAA-ATAAC
1 AAAATAA-GAAAAAAAA-AGA-GAGAGAAAAATAAGAGAAC
**
7203009 AAAATAAGAAAAAAAAAGAGAGAGAAAGGTAAGAGAAC
1 AAAATAAGAAAAAAAAAGAGAGAGAAAAATAAGAGAAC
*
7203047 AAGAAT-TGAAAAAAAAAGAG
1 AA-AATAAGAAAAAAAAAGAG
7203067 CAACAAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
37 10 0.20
38 21 0.42
39 12 0.24
40 7 0.14
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.07
Consensus pattern (38 bp):
AAAATAAGAAAAAAAAAGAGAGAGAAAAATAAGAGAAC
Found at i:7203708 original size:22 final size:23
Alignment explanation
Indices: 7203683--7203744 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
7203673 AAAAAAATTG
7203683 AAAAAAGGCAACAAAATAAAATA
1 AAAAAAGGCAACAAAATAAAATA
* * *
7203706 AAATAAGG-AAAAAAATAAACTA
1 AAAAAAGGCAACAAAATAAAATA
*
7203728 AGAAAAAGACAACAAAA
1 A-AAAAAGGCAACAAAA
7203745 CAATTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 13 0.42
23 12 0.39
24 6 0.19
ACGTcount: A:0.74, C:0.08, G:0.10, T:0.08
Consensus pattern (23 bp):
AAAAAAGGCAACAAAATAAAATA
Found at i:7203720 original size:17 final size:16
Alignment explanation
Indices: 7203700--7203734 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7203690 GCAACAAAAT
7203700 AAAATAAAATAAGGAAA
1 AAAATAAAATAA-GAAA
*
7203717 AAAATAAACTAAGAAA
1 AAAATAAAATAAGAAA
7203733 AA
1 AA
7203735 GACAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (16 bp):
AAAATAAAATAAGAAA
Found at i:7212395 original size:15 final size:15
Alignment explanation
Indices: 7212375--7212426 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
7212365 TTGACATCTA
7212375 AATTTTGTTCAATTT
1 AATTTTGTTCAATTT
*
7212390 AA-TTT-TTAAATTAT
1 AATTTTGTTCAATT-T
7212404 ATATTTTTGTTCAATTT
1 A-A-TTTTGTTCAATTT
7212421 AATTTT
1 AATTTT
7212427 TATACTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 7 0.23
16 1 0.03
17 5 0.17
18 6 0.20
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (15 bp):
AATTTTGTTCAATTT
Found at i:7212425 original size:16 final size:16
Alignment explanation
Indices: 7212377--7212427 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 16
7212367 GACATCTAAA
7212377 TTTTGTTCAATTTAA-
1 TTTTGTTCAATTTAAT
*
7212392 -TTT-TTAAATTATATAT
1 TTTTGTTCAATT-TA-AT
7212408 TTTTGTTCAATTTAAT
1 TTTTGTTCAATTTAAT
7212424 TTTT
1 TTTT
7212428 ATACTATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 6 0.21
14 5 0.17
15 1 0.03
16 6 0.21
17 5 0.17
18 6 0.21
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTGTTCAATTTAAT
Found at i:7219621 original size:2 final size:2
Alignment explanation
Indices: 7219614--7219638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7219604 AGGGTTTTGC
7219614 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
7219639 ATGCTGGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:7223589 original size:117 final size:117
Alignment explanation
Indices: 7223383--7223608 Score: 407
Period size: 117 Copynumber: 1.9 Consensus size: 117
7223373 TTTTAGCAAC
*
7223383 TTAAATCTAACTGCGAGCAGGCAAATCAATTAGTTGTTAAGCATTACAGTATTGGTTTTTAAGTG
1 TTAAACCTAACTGCGAGCAGGCAAATCAATTAGTTGTTAAGCATTACAGTATTGGTTTTTAAGTG
*
7223448 TTGTATCACTAGTTTTTAGGTATTGCGAGACTTAATCATTGCGTATTGATTT
66 TTGTATCACTAGTTTTTAAGTATTGCGAGACTTAATCATTGCGTATTGATTT
* **
7223500 TTAAACCTAATTGCGAGCAGGCAAATCAATTAGTTGTTAAGCATTGTAGTATTGGTTTTTAAGTG
1 TTAAACCTAACTGCGAGCAGGCAAATCAATTAGTTGTTAAGCATTACAGTATTGGTTTTTAAGTG
7223565 TTGTATCACTAGTTTTTAAGTATTGCGAGACTTAATCATTGCGT
66 TTGTATCACTAGTTTTTAAGTATTGCGAGACTTAATCATTGCGT
7223609 CTCTCATTTT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (117 bp):
TTAAACCTAACTGCGAGCAGGCAAATCAATTAGTTGTTAAGCATTACAGTATTGGTTTTTAAGTG
TTGTATCACTAGTTTTTAAGTATTGCGAGACTTAATCATTGCGTATTGATTT
Found at i:7223859 original size:22 final size:22
Alignment explanation
Indices: 7223828--7223869 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7223818 CTATCAACCA
*
7223828 ATTACTCAATATCTAAAAACTG
1 ATTACACAATATCTAAAAACTG
*
7223850 ATTACACAATATTTAAAAAC
1 ATTACACAATATCTAAAAAC
7223870 AACCAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTACACAATATCTAAAAACTG
Found at i:7224281 original size:16 final size:16
Alignment explanation
Indices: 7224253--7224292 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
7224243 TATATGAGTC
7224253 AATTTTA-TTAAAAGT
1 AATTTTATTTAAAAGT
*
7224268 AATTTTATTTAAAATT
1 AATTTTATTTAAAAGT
7224284 AA-TTTATTT
1 AATTTTATTT
7224293 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTATTTAAAAGT
Found at i:7229755 original size:24 final size:23
Alignment explanation
Indices: 7229690--7229755 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
7229680 GAAAAGAGAT
7229690 GTTATATT-TTATTATCTTTTTAA
1 GTTATATTATTATTAT-TTTTTAA
* *
7229713 GTTAT-TCATAGATTAATTTTTTAA
1 GTTATATTAT-TATT-ATTTTTTAA
7229737 GTTATAGTTATTATTATTT
1 GTTATA-TTATTATTATTT
7229756 AAAATAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 1 0.03
23 6 0.18
24 19 0.56
25 5 0.15
26 3 0.09
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (23 bp):
GTTATATTATTATTATTTTTTAA
Found at i:7231648 original size:197 final size:196
Alignment explanation
Indices: 7231294--7231676 Score: 511
Period size: 197 Copynumber: 1.9 Consensus size: 196
7231284 TTTCAGTCTC
* * *
7231294 TCTATTTAAAATCGTAATAATTTAATTTTTTAATTTTAAAAATTATTTTAATTTAATTACTCTAA
1 TCTATTCAAAATCGTAACAATTTAATATTTTAATTTTAAAAATTATTTTAATTTAATTACTCTAA
* * * * * *
7231359 TATTTTTCTTTCGAAATAACCTTTCACAAAGCTGATGTCATTGTTGATGTGATGCTGACATAACA
66 TATTGTCCTTTCAAAATAACCTTTCACAAAGCTAATGTCATTGTTAATGTGATGCTAACATAACA
* * ** *
7231424 TATGAAGTGGACTGAAAATGTTGACATGGTATTAACAAAGATAGTGACATGTGTCTCTTTCTTGT
131 TATGAAGTGAACTGAAAATGCTGACATGACATTAAC-AAGATAATGACATGTGTCTCTTTCTTGT
7231489 TT
195 TT
* *
7231491 TCTATTCAAAATTGTAACAATTTAATATTTTAATTTTAAAAATTATTTTAATTTAATCT-CTTTA
1 TCTATTCAAAATCGTAACAATTTAATATTTTAATTTTAAAAATTATTTTAATTTAAT-TACTCTA
* * *
7231555 ATATTGTCCTTTCAAAATTACTCTTT-ACAAAGTTAATGTTATTGTTAATGTGATGCTAACATAA
65 ATATTGTCCTTTCAAAATAAC-CTTTCACAAAGCTAATGTCATTGTTAATGTGATGCTAACATAA
* * *
7231619 CATGT-AATGTGAATTGGAAATGCTGACATGACATTAACAAGATAATGACATGTGTCTC
129 CATATGAA-GTGAACTGAAAATGCTGACATGACATTAACAAGATAATGACATGTGTCTC
7231677 GTTTTTATTT
Statistics
Matches: 161, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
196 21 0.13
197 135 0.84
198 5 0.03
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (196 bp):
TCTATTCAAAATCGTAACAATTTAATATTTTAATTTTAAAAATTATTTTAATTTAATTACTCTAA
TATTGTCCTTTCAAAATAACCTTTCACAAAGCTAATGTCATTGTTAATGTGATGCTAACATAACA
TATGAAGTGAACTGAAAATGCTGACATGACATTAACAAGATAATGACATGTGTCTCTTTCTTGTT
T
Found at i:7232507 original size:33 final size:33
Alignment explanation
Indices: 7232463--7232556 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
7232453 AATATATTTT
* *
7232463 TAATATTATATATTTTATTTTCATTTC-TTATTA
1 TAATTTTATATATTTTATTTT-ATTTCTTTAATA
7232496 TAATTTTATATATTTTATTTTTATTTCTTTAATA
1 TAATTTTATATATTTTA-TTTTATTTCTTTAATA
*
7232530 TAATTTTTTATATTATATATTTTATTT
1 TAATTTTATATATT-T-TATTTTATTT
7232557 TAATTTCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
33 21 0.39
34 22 0.41
35 9 0.17
36 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (33 bp):
TAATTTTATATATTTTATTTTATTTCTTTAATA
Found at i:7232542 original size:34 final size:33
Alignment explanation
Indices: 7232463--7232556 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
7232453 AATATATTTT
* * *
7232463 TAATATTATATATTTTATTTTCATTTCTTATTA
1 TAATTTTATATATTTTATTTTTATTTCTTAATA
7232496 TAATTTTATATATTTTATTTTTATTTCTTTAATA
1 TAATTTTATATATTTTATTTTTATTTC-TTAATA
* *
7232530 TAATTTTTTATATTATATATTTTATTT
1 TAATTTTATATATTTTAT-TTTTATTT
7232557 TAATTTCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 25 0.46
34 21 0.39
35 8 0.15
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (33 bp):
TAATTTTATATATTTTATTTTTATTTCTTAATA
Found at i:7232644 original size:33 final size:32
Alignment explanation
Indices: 7232584--7232649 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 32
7232574 ATTAGAGAAA
*
7232584 TTTTAATTTCTTATGTTTTATTTTATTTTAAT
1 TTTTAATTTCTTATATTTTATTTTATTTTAAT
7232616 TTTTAA-TTCTTATATTATATATTTTATTTTAAT
1 TTTTAATTTCTTATATT-T-TATTTTATTTTAAT
7232649 T
1 T
7232650 ATAACATTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 9 0.29
32 7 0.23
33 15 0.48
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.70
Consensus pattern (32 bp):
TTTTAATTTCTTATATTTTATTTTATTTTAAT
Found at i:7233203 original size:24 final size:24
Alignment explanation
Indices: 7233170--7233217 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
7233160 TTTGACTTTT
7233170 TTTTGTAAAAAAAATAAAATAATAA
1 TTTTGTAAAAAAAAT-AAATAATAA
**
7233195 TTTT-TAAAATTAATAAATAATAA
1 TTTTGTAAAAAAAATAAATAATAA
7233218 AATTCTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 8 0.38
25 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTTGTAAAAAAAATAAATAATAA
Found at i:7246535 original size:17 final size:17
Alignment explanation
Indices: 7246505--7246537 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7246495 CTCCTCTCTG
7246505 CCTTTAGTACCTATTCA
1 CCTTTAGTACCTATTCA
7246522 CCTTT-GTACACTATTC
1 CCTTTAGTAC-CTATTC
7246538 TTCGAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.21, C:0.30, G:0.06, T:0.42
Consensus pattern (17 bp):
CCTTTAGTACCTATTCA
Found at i:7254746 original size:24 final size:24
Alignment explanation
Indices: 7254692--7254739 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
7254682 ATAGCTCAAC
* *
7254692 TCTAATTAATTAACAATATTGTAG
1 TCTAATTAACTAACAACATTGTAG
7254716 TCTAATTAACTAACAACATTGTAG
1 TCTAATTAACTAACAACATTGTAG
7254740 CATAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (24 bp):
TCTAATTAACTAACAACATTGTAG
Found at i:7254793 original size:24 final size:25
Alignment explanation
Indices: 7254757--7254804 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
7254747 CTAACGAAAT
7254757 AATTTGTACAATTGTTTTAACAATA
1 AATTTGTACAATTGTTTTAACAATA
* * *
7254782 AATTT-TATAATTTTTTTTACAAT
1 AATTTGTACAATTGTTTTAACAAT
7254805 CGAGTGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (25 bp):
AATTTGTACAATTGTTTTAACAATA
Found at i:7263629 original size:22 final size:21
Alignment explanation
Indices: 7263590--7263630 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7263580 ATTATTTAAA
* *
7263590 TAAATTAATAATTTTTTATTC
1 TAAATTAATAAATATTTATTC
7263611 TAAATTAAATAAATATTTAT
1 TAAATT-AATAAATATTTAT
7263631 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATTAATAAATATTTATTC
Found at i:7273622 original size:12 final size:12
Alignment explanation
Indices: 7273589--7273621 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7273579 CTTGTTAATT
*
7273589 ATTTATTTTTCA
1 ATTTATTTTTAA
7273601 ATTTATTTTTAA
1 ATTTATTTTTAA
7273613 ATTT-TTTTT
1 ATTTATTTTT
7273622 TTTAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTATTTTTAA
Found at i:7273653 original size:23 final size:23
Alignment explanation
Indices: 7273607--7273668 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
7273597 TTCAATTTAT
** *
7273607 TTTTAAATTTTTTTTTTTAGAAA
1 TTTTAAATTTTTTTAATTAAAAA
*
7273630 TTTTATATTTTTTTAATTAAAAA
1 TTTTAAATTTTTTTAATTAAAAA
** *
7273653 TAATGAATTTTTTTAA
1 TTTTAAATTTTTTTAA
7273669 GAAAACAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
TTTTAAATTTTTTTAATTAAAAA
Found at i:7274231 original size:12 final size:12
Alignment explanation
Indices: 7274216--7274243 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7274206 TTTAAAAATT
7274216 ATGTCTTACAAC
1 ATGTCTTACAAC
7274228 ATGTCTTACAAC
1 ATGTCTTACAAC
7274240 ATGT
1 ATGT
7274244 AGAGATGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (12 bp):
ATGTCTTACAAC
Found at i:7276149 original size:2 final size:2
Alignment explanation
Indices: 7276144--7276169 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7276134 TTTTATAGGA
7276144 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7276170 CAGTCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7281577 original size:17 final size:17
Alignment explanation
Indices: 7281555--7281587 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7281545 GTGAAGTTTA
7281555 GCAGAAATAGATGCTTG
1 GCAGAAATAGATGCTTG
*
7281572 GCAGAAATAGGTGCTT
1 GCAGAAATAGATGCTT
7281588 TGTAATTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (17 bp):
GCAGAAATAGATGCTTG
Found at i:7295064 original size:21 final size:21
Alignment explanation
Indices: 7295040--7295088 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
7295030 CCTCCTGCCC
7295040 CTTGCCCCTTTGCTTCAGCCT
1 CTTGCCCCTTTGCTTCAGCCT
7295061 CTTGCCCCTTTGCTTCAGCCT
1 CTTGCCCCTTTGCTTCAGCCT
7295082 CTTGCCC
1 CTTGCCC
7295089 ATTAAGCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.04, C:0.45, G:0.14, T:0.37
Consensus pattern (21 bp):
CTTGCCCCTTTGCTTCAGCCT
Found at i:7295800 original size:28 final size:29
Alignment explanation
Indices: 7295768--7295829 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
7295758 GAATAACATG
*
7295768 TTTTTAAATTGATATAAT-ATTTTTAAAT-
1 TTTTTAAATT-ATATAATAAATTTTAAATA
*
7295796 TTTTTAAATTATTTAATAAATTTTAAATA
1 TTTTTAAATTATATAATAAATTTTAAATA
7295825 TTTTT
1 TTTTT
7295830 TTATTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 19 0.63
29 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAATTATATAATAAATTTTAAATA
Found at i:7295910 original size:25 final size:24
Alignment explanation
Indices: 7295865--7295929 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
7295855 ATATATTTTG
* *
7295865 AATTAAATATATTTTTA-TAATTAA
1 AATTAATTA-ATTATTATTAATTAA
7295889 TAATTAATTAATTATTATTAATTAA
1 -AATTAATTAATTATTATTAATTAA
*
7295914 AA-T-ATTATTTATTATT
1 AATTAATTAATTATTATT
7295930 TTATATCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.33
23 1 0.03
24 8 0.22
25 15 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTAATTAATTATTATTAATTAA
Found at i:7296065 original size:30 final size:29
Alignment explanation
Indices: 7296014--7296100 Score: 95
Period size: 30 Copynumber: 3.0 Consensus size: 29
7296004 ATGAAATACA
* * *
7296014 AAATAATAAATAATATTTTAATTAAATTT
1 AAATAAAAAATAAAAATTTAATTAAATTT
***
7296043 AAATAAAAATATAAAAATTTAATTAAACAA
1 AAATAAAAA-ATAAAAATTTAATTAAATTT
*
7296073 AAATAAAAAATAAAAA-TTATTTAAATTT
1 AAATAAAAAATAAAAATTTAATTAAATTT
7296101 TTTTGAATAG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 8 0.17
29 15 0.32
30 24 0.51
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATAAAAAATAAAAATTTAATTAAATTT
Found at i:7296091 original size:24 final size:24
Alignment explanation
Indices: 7296036--7296087 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7296026 ATATTTTAAT
* *
7296036 TAAATTTAAATAAAAATATAAAAA
1 TAAAATTAAACAAAAATATAAAAA
**
7296060 TTTAATTAAACAAAAATA-AAAAA
1 TAAAATTAAACAAAAATATAAAAA
7296083 TAAAA
1 TAAAA
7296088 ATTATTTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAATTAAACAAAAATATAAAAA
Found at i:7320651 original size:113 final size:113
Alignment explanation
Indices: 7320472--7320697 Score: 337
Period size: 113 Copynumber: 2.0 Consensus size: 113
7320462 TGAATGAATA
* * * *
7320472 AAAATAGATCGTGACAAATGATGTTCAGTGTTGTTCAGAGCCCTTACTTCTATCAAAGAACTCAC
1 AAAATAGATCGTGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAACACAC
*
7320537 ATGTACTAC-ATCCTAGGTACTGAGGACACCAGAAAAATTGATATCATG
66 ATGTAAT-CTATCCTAGGTACTGAGGACACCAGAAAAATTGATATCATG
* ** * *
7320585 AAAATAGATCTTGACAAATGATGTTTGGAGTTGTTCAGAGCTCTTAATTCCATCAAAGATCACAC
1 AAAATAGATCGTGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAACACAC
*
7320650 ATGTAATCTATCCTAGGTACTGATGACACCAGAAAAATTGATATCATG
66 ATGTAATCTATCCTAGGTACTGAGGACACCAGAAAAATTGATATCATG
7320698 CTTCTAATCT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
112 1 0.01
113 100 0.99
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (113 bp):
AAAATAGATCGTGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAACACAC
ATGTAATCTATCCTAGGTACTGAGGACACCAGAAAAATTGATATCATG
Found at i:7326241 original size:19 final size:20
Alignment explanation
Indices: 7326205--7326243 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7326195 TTAATTATTT
*
7326205 TAATTTTTTAAATATAATAA
1 TAATTTTTAAAATATAATAA
7326225 TAATTTTTAAAAT-TAATAA
1 TAATTTTTAAAATATAATAA
7326244 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTTAAAATATAATAA
Found at i:7334315 original size:185 final size:185
Alignment explanation
Indices: 7334052--7334475 Score: 695
Period size: 185 Copynumber: 2.3 Consensus size: 185
7334042 CGATCATTAG
* * * * * * * * * *
7334052 AAAAGGAATAGGAATTGTAGACAGAGAAAGGATATTCTAACTATAAGGCATGCTGGTTTTGAAAA
1 AAAAGGAATAGGAATTGCAAACAGAGAGAGGACATTCTTACAATAAGGGATGTTCGTTTCGAAAA
7334117 TGTAAAAAAATTCAAGAATACCTAGATATGATTTTAAGAAGAGGAAGTCAACAATAAATTATCTC
66 TGTAAAAAAATTCAAGAATACCTAGATATGATTTTAAGAAGAGGAAGTCAACAATAAATTATCTC
*
7334182 TCTACATCTTTTACAGTTTTTAAAAATTTAAAACTACATAAAAAATAATTTTTTA
131 TCTACATCTTTCACAGTTTTTAAAAATTTAAAACTACATAAAAAATAATTTTTTA
* *
7334237 AAAAGGAATAAGAATTGCAAATAGAGAGAGGACATTCTTACAATAAGGGATGTTCGTTTCGAAAA
1 AAAAGGAATAGGAATTGCAAACAGAGAGAGGACATTCTTACAATAAGGGATGTTCGTTTCGAAAA
* *
7334302 TGTAGAGAAATTCAAGAATACCTAGATATGATTTTAAGAAGAGGAAGTCAACAATAAATTATCTC
66 TGTAAAAAAATTCAAGAATACCTAGATATGATTTTAAGAAGAGGAAGTCAACAATAAATTATCTC
*
7334367 TCTACATCTTTCACAGTTTTTAAAAATTTAAAACTACTTAAAAAATAATTTTTTA
131 TCTACATCTTTCACAGTTTTTAAAAATTTAAAACTACATAAAAAATAATTTTTTA
*
7334422 AAAAGAAATAGGAATTGCAAACAGAGAGAGGACATTCTTACAATAAGGGATGTT
1 AAAAGGAATAGGAATTGCAAACAGAGAGAGGACATTCTTACAATAAGGGATGTT
7334476 GGGTTTAAAG
Statistics
Matches: 220, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
185 220 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (185 bp):
AAAAGGAATAGGAATTGCAAACAGAGAGAGGACATTCTTACAATAAGGGATGTTCGTTTCGAAAA
TGTAAAAAAATTCAAGAATACCTAGATATGATTTTAAGAAGAGGAAGTCAACAATAAATTATCTC
TCTACATCTTTCACAGTTTTTAAAAATTTAAAACTACATAAAAAATAATTTTTTA
Found at i:7339148 original size:138 final size:138
Alignment explanation
Indices: 7338990--7339244 Score: 395
Period size: 138 Copynumber: 1.8 Consensus size: 138
7338980 CCATCATGAT
* *
7338990 AGTATATGAAATCTAAGACATGCTTCTTTCATGTGTTTCCTATATCTTTTCGTTT-TCACAAATC
1 AGTATATGAAATCTAAGACATGCTTCTTTCATGTGTTTCCTATACCTTTTCATTTAT-ACAAATC
* * *
7339054 TAAAAGGTAACTCATCTATAATAATCATCTTAATTAAACTTCTTCTAATTGCACTAACAACAATC
65 TAAAAGGCAACTCATCTATAATAATCATCTTAACTAAACTCCTTCTAATTGCACTAACAACAATC
7339119 CATTGTGGC
130 CATTGTGGC
* * *
7339128 AGTATATGAAATCTAGGACATGCTTCTTTTATGTTTTTCCTATACCTTTTCATTTATACAAATCT
1 AGTATATGAAATCTAAGACATGCTTCTTTCATGTGTTTCCTATACCTTTTCATTTATACAAATCT
* * *
7339193 AAAAGGCAACTCATCTATAATAATCCTTTTAGCTAAACTCCTTCTAATTGCA
66 AAAAGGCAACTCATCTATAATAATCATCTTAACTAAACTCCTTCTAATTGCA
7339245 TCATGATCAA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
138 104 0.99
139 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (138 bp):
AGTATATGAAATCTAAGACATGCTTCTTTCATGTGTTTCCTATACCTTTTCATTTATACAAATCT
AAAAGGCAACTCATCTATAATAATCATCTTAACTAAACTCCTTCTAATTGCACTAACAACAATCC
ATTGTGGC
Found at i:7342432 original size:29 final size:29
Alignment explanation
Indices: 7342400--7342468 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
7342390 CAGGTTTAAC
* *
7342400 ATTAATTTTCATACATACACAAACATGTT
1 ATTAATTTCCAAACATACACAAACATGTT
*
7342429 ATTAATTTCCAAACATACACAAATATGTT
1 ATTAATTTCCAAACATACACAAACATGTT
7342458 ATTAATTTCCA
1 ATTAATTTCCA
7342469 GACACAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTAATTTCCAAACATACACAAACATGTT
Found at i:7342775 original size:141 final size:139
Alignment explanation
Indices: 7342601--7342856 Score: 358
Period size: 141 Copynumber: 1.8 Consensus size: 139
7342591 ATTAGTTACT
* *
7342601 AAAAATACACTAATATGTTATCAATTTTCACACATACA-AAGGCATGATATTAATTTCAAAACAT
1 AAAAATACACCAATATGATATCAATTTTCACACATACACAA-GCATGATATTAATTTC-AAACAT
* * *
7342665 ACATAATTTTGATATTAGTTTCC-CAAA-ATACATTGATATGATATTAATTTCCATGTATGGGTT
64 ACACAA-GTTGATATTAATTTCCACAAATATAC--TGATATGATATTAATTTCCATGTATGGGTT
7342728 TGATATTAGGTTCC
126 TGATATTAGGTTCC
* * *
7342742 AAAAATACACCAATATGATATTAATTTGT-ACACATACACAAGTATGATATTAATTTCAAACATG
1 AAAAATACACCAATATGATATCAATTT-TCACACATACACAAGCATGATATTAATTTCAAACATA
7342806 CACAAGTTGATATTAATTTCCACAAATATACTGATATGATATTAATTTCCA
65 CACAAGTTGATATTAATTTCCACAAATATACTGATATGATATTAATTTCCA
7342857 CATATACAGT
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
139 34 0.33
140 14 0.14
141 52 0.50
142 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (139 bp):
AAAAATACACCAATATGATATCAATTTTCACACATACACAAGCATGATATTAATTTCAAACATAC
ACAAGTTGATATTAATTTCCACAAATATACTGATATGATATTAATTTCCATGTATGGGTTTGATA
TTAGGTTCC
Found at i:7342778 original size:29 final size:28
Alignment explanation
Indices: 7342746--7343148 Score: 275
Period size: 29 Copynumber: 14.1 Consensus size: 28
7342736 GGTTCCAAAA
*
7342746 ATACACCAA-TATGATATTAATTTGTACAC
1 ATACA-CAAGTATGATATTAATTT-CACAC
*
7342775 ATACACAAGTATGATATTAATTTCAAAC
1 ATACACAAGTATGATATTAATTTCACAC
* *
7342803 ATGCACAAGT-TGATATTAATTTCCACAA
1 ATACACAAGTATGATATTAATTT-CACAC
* *
7342831 ATATAC-TGATATGATATTAATTTC-CAC
1 ATACACAAG-TATGATATTAATTTCACAC
* *
7342858 ATATAC-AGTAGGTTGATATTGATTT--C-C
1 ATACACAAGTA---TGATATTAATTTCACAC
* * * * *
7342885 ATACATAGGTTTGATATTAATATCAAGAC
1 ATACACAAGTATGATATTAATTTC-ACAC
* * *
7342914 ACATACATGTATGATATTAATTTCCACAC
1 ATACACAAGTATGATATTAATTT-CACAC
* * * *
7342943 ATACACAAATTTGATATAAATTTCCATAC
1 ATACACAAGTATGATATTAATTT-CACAC
* * *
7342972 ATACACAAGTTTGATATTAACTTCCATAC
1 ATACACAAGTATGATATTAA-TTTCACAC
*
7343001 ATACGCAAGTATGATATTAATTTGCACAC
1 ATACACAAGTATGATATTAATTT-CACAC
* * * *
7343030 ACACACAAGTTTGATATTAACTTCCATAC
1 ATACACAAGTATGATATTAA-TTTCACAC
* * *
7343059 ATACACAAGTTTGATATTCATTTCAAGAC
1 ATACACAAGTATGATATTAATTTC-ACAC
** *
7343088 ATGTACAAGTATGGTATT-ATTTCTACAC
1 ATACACAAGTATGATATTAATTTC-ACAC
* *
7343116 ATACACAGGTTTGATATTAATTTTCACAC
1 ATACACAAGTATGATATTAA-TTTCACAC
7343145 ATAC
1 ATAC
7343149 GCAGATATGA
Statistics
Matches: 296, Mismatches: 59, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
25 10 0.03
26 2 0.01
27 27 0.09
28 53 0.18
29 195 0.66
30 9 0.03
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (28 bp):
ATACACAAGTATGATATTAATTTCACAC
Found at i:7343029 original size:87 final size:87
Alignment explanation
Indices: 7342755--7343148 Score: 408
Period size: 87 Copynumber: 4.6 Consensus size: 87
7342745 AATACACCAA
** * * *
7342755 TATGATATTAATTTGTACACATACACAAGTATGATATTAATTT-CAAACATGCACAAG-TTGATA
1 TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATACACAAGTTTGATA
* * * *
7342818 TTAATTTCCACAAATATAC-TG
66 TTAATTTCAAGACATATACAAG
* ** * * *
7342839 ATATGATATTAATTTCCACATATACAGTAGGTTGATATTGATTTCCATACAT----AGGTTTGAT
1 -TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATACACAAGTTTGAT
* * *
7342900 ATTAATATCAAGACACATACATG
65 ATTAATTTCAAGACATATACAAG
* *
7342923 TATGATATTAATTTCCACACATACACAAATTTGATATAAATTTCCATACATACACAAGTTTGATA
1 TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATACACAAGTTTGATA
* * * **
7342988 TTAACTTCCATACATACGCAAG
66 TTAATTTCAAGACATATACAAG
* * *
7343010 TATGATATTAATTTGCACACACACACAAGTTTGATATTAACTTCCATACATACACAAGTTTGATA
1 TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATACACAAGTTTGATA
* *
7343075 TTCATTTCAAGACATGTACAAG
66 TTAATTTCAAGACATATACAAG
* * * * *
7343097 TATGGTATT-ATTTCTACACATACACAGGTTTGATATTAATTTTCACACATAC
1 TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATAC
7343149 GCAGATATGA
Statistics
Matches: 251, Mismatches: 51, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
82 2 0.01
83 64 0.25
84 2 0.01
85 35 0.14
86 42 0.17
87 106 0.42
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (87 bp):
TATGATATTAATTTCCACACATACACAAGTTTGATATTAATTTCCATACATACACAAGTTTGATA
TTAATTTCAAGACATATACAAG
Found at i:7343167 original size:29 final size:30
Alignment explanation
Indices: 7343107--7343167 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
7343097 TATGGTATTA
* * *
7343107 TTTCTACACATACACAGGTTTGATATTAAT
1 TTTCTACACATACACAGATATGAAATTAAT
* *
7343137 TTTC-ACACATACGCAGATATGAAATTGAT
1 TTTCTACACATACACAGATATGAAATTAAT
7343166 TT
1 TT
7343168 AAAAAATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (30 bp):
TTTCTACACATACACAGATATGAAATTAAT
Found at i:7354240 original size:2 final size:2
Alignment explanation
Indices: 7354233--7354258 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7354223 ATGTTAAGAT
7354233 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7354259 AAATATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7355359 original size:23 final size:25
Alignment explanation
Indices: 7355333--7355378 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
7355323 CGAATGATTT
7355333 TAAATTTA-AAAATA-AAATTTAGA
1 TAAATTTATAAAATACAAATTTAGA
*
7355356 TAAATTTATAAATTACAAATTTA
1 TAAATTTATAAAATACAAATTTA
7355379 CATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 5 0.25
25 7 0.35
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAATTTATAAAATACAAATTTAGA
Found at i:7369800 original size:254 final size:254
Alignment explanation
Indices: 7369351--7369862 Score: 988
Period size: 254 Copynumber: 2.0 Consensus size: 254
7369341 CTGTCAAAAA
* *
7369351 AACTACTCTGTGGAAGAATTTGATGATGAAAAGATCATCAGGGATGCTTGAGTGTATTTTCCTCT
1 AACTACTCTGTGGAAGAATTTGATGATGAAAAGATCATCAGGGATGCTTGAGTGTAGTCTCCTCT
7369416 TTAGTAAGAATTAGGAATAAGAAAGGAAAACAGCCCTTAACTTCAAGAAGAAAATGAAGTTAGAG
66 TTAGTAAGAATTAGGAATAAGAAAGGAAAACAGCCCTTAACTTCAAGAAGAAAATGAAGTTAGAG
7369481 CTCCATCCTCTATAGAAAAGAGTCAAAACAAAAACAAAAAAACCCAAAACAAAAAATCTGCGTTT
131 CTCCATCCTCTATAGAAAAGAGTCAAAACAAAAACAAAAAAACCCAAAACAAAAAATCTGCGTTT
7369546 AGAATCAATTATCTGAAGCCAACAAATTAACATTAAAAGAAACACAAACCCCTTTAATT
196 AGAATCAATTATCTGAAGCCAACAAATTAACATTAAAAGAAACACAAACCCCTTTAATT
7369605 AACTACTCTGTGGAAGAATTTGATGATGAAAAGATCATCAGGGATGCTTGAGTGTAGTCTCCTCT
1 AACTACTCTGTGGAAGAATTTGATGATGAAAAGATCATCAGGGATGCTTGAGTGTAGTCTCCTCT
7369670 TTAGTAAGAATTAGGAATAAGAAAGGAAAACAGCCCTTAACTTCAAGAAGAAAATGAAGTTAGAG
66 TTAGTAAGAATTAGGAATAAGAAAGGAAAACAGCCCTTAACTTCAAGAAGAAAATGAAGTTAGAG
*
7369735 CTCCATCCTCTATAGAAAAGAGTCAAAACAAAAACAAAAAAACCCAAAACGAAAAATCTGCGTTT
131 CTCCATCCTCTATAGAAAAGAGTCAAAACAAAAACAAAAAAACCCAAAACAAAAAATCTGCGTTT
*
7369800 AGATTCAATTATCTGAAGCCAACAAATTAACATTAAAAGAAACACAAACCCCTTTAATT
196 AGAATCAATTATCTGAAGCCAACAAATTAACATTAAAAGAAACACAAACCCCTTTAATT
7369859 AACT
1 AACT
7369863 GCTTCAGCTA
Statistics
Matches: 254, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 254 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (254 bp):
AACTACTCTGTGGAAGAATTTGATGATGAAAAGATCATCAGGGATGCTTGAGTGTAGTCTCCTCT
TTAGTAAGAATTAGGAATAAGAAAGGAAAACAGCCCTTAACTTCAAGAAGAAAATGAAGTTAGAG
CTCCATCCTCTATAGAAAAGAGTCAAAACAAAAACAAAAAAACCCAAAACAAAAAATCTGCGTTT
AGAATCAATTATCTGAAGCCAACAAATTAACATTAAAAGAAACACAAACCCCTTTAATT
Found at i:7374457 original size:25 final size:25
Alignment explanation
Indices: 7374428--7374479 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
7374418 CAAAAGTAAA
7374428 TTTGAAAGAA-CAGAAGCAAAATCAC
1 TTTGAAAGAATC-GAAGCAAAATCAC
*
7374453 TTTGAAAGAATCGAAGCAAAATTAC
1 TTTGAAAGAATCGAAGCAAAATCAC
7374478 TT
1 TT
7374480 ACCAATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (25 bp):
TTTGAAAGAATCGAAGCAAAATCAC
Found at i:7377977 original size:11 final size:11
Alignment explanation
Indices: 7377963--7377998 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7377953 AAACATATTT
*
7377963 TAAAATTAAAA
1 TAAAAATAAAA
7377974 TAAAAATAAAA
1 TAAAAATAAAA
*
7377985 TAAAAATATAA
1 TAAAAATAAAA
7377996 TAA
1 TAA
7377999 TATTCTTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:7384354 original size:2 final size:2
Alignment explanation
Indices: 7384347--7384373 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7384337 TCTTAAATTC
7384347 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7384374 CCAAATGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7384833 original size:21 final size:22
Alignment explanation
Indices: 7384784--7384827 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7384774 TTTTATTTAT
*
7384784 AAATCTATTTTAATATAAAATA
1 AAATATATTTTAATATAAAATA
*
7384806 AAATATATTTTAA-ATAATATA
1 AAATATATTTTAATATAAAATA
7384827 A
1 A
7384828 CTTATACGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATATTTTAATATAAAATA
Found at i:7385084 original size:17 final size:17
Alignment explanation
Indices: 7385034--7385089 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 17
7385024 TAATAATCTT
7385034 ATTAATTATTACTTTAGGTA
1 ATTAATTATTA-TTTA--TA
*
7385054 TTATAATATATTATTTATA
1 AT-TAAT-TATTATTTATA
7385073 ATTAATTATTATTTATA
1 ATTAATTATTATTTATA
7385090 CAAACTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 11 0.34
18 4 0.12
19 3 0.09
20 1 0.03
21 8 0.25
22 5 0.16
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
ATTAATTATTATTTATA
Found at i:7389006 original size:29 final size:29
Alignment explanation
Indices: 7388964--7389024 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
7388954 TCTAGCTTTG
7388964 CTTTTGGGTTTCATTAAGCCATGAATAGC
1 CTTTTGGGTTTCATTAAGCCATGAATAGC
7388993 CTTTTGGGTTTCATTAAGCCATGAATAGC
1 CTTTTGGGTTTCATTAAGCCATGAATAGC
7389022 CTT
1 CTT
7389025 AGTATTGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (29 bp):
CTTTTGGGTTTCATTAAGCCATGAATAGC
Found at i:7395022 original size:27 final size:27
Alignment explanation
Indices: 7394992--7395107 Score: 78
Period size: 27 Copynumber: 4.3 Consensus size: 27
7394982 CTATGATGAG
*
7394992 TAAAAGTATTCATTCACCTTTACTGAA
1 TAAAAGTATTCATTCACCTTTACTGGA
* * *
7395019 TAAAGGTA-TCA-TCGACCTCTACTGGG
1 TAAAAGTATTCATTC-ACCTTTACTGGA
*
7395045 T-AAAGATATCCATTCACCTTTGA-TGGA
1 TAAAAG-TATTCATTCACCTTT-ACTGGA
* * * * * *
7395072 TAAAGGTATTCATCCATCTCTAGTGGG
1 TAAAAGTATTCATTCACCTTTACTGGA
7395099 TAAAAGTAT
1 TAAAAGTAT
7395108 CTATCAACTT
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
25 5 0.07
26 16 0.24
27 40 0.60
28 6 0.09
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (27 bp):
TAAAAGTATTCATTCACCTTTACTGGA
Found at i:7395030 original size:26 final size:26
Alignment explanation
Indices: 7394992--7395080 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 26
7394982 CTATGATGAG
* *
7394992 TAAAAGTATTCATTCACCTTTACTGAA
1 TAAAGGTA-TCATTCACCTTTACTGGA
* *
7395019 TAAAGGTATCA-TCGACCTCTACTGGG
1 TAAAGGTATCATTC-ACCTTTACTGGA
*
7395045 TAAAGATATCCATTCACCTTTGA-TGGA
1 TAAAGGTAT-CATTCACCTTT-ACTGGA
7395072 TAAAGGTAT
1 TAAAGGTAT
7395081 TCATCCATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 20 0.40
27 25 0.50
28 3 0.06
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (26 bp):
TAAAGGTATCATTCACCTTTACTGGA
Found at i:7395126 original size:54 final size:53
Alignment explanation
Indices: 7395018--7395302 Score: 258
Period size: 54 Copynumber: 5.5 Consensus size: 53
7395008 CCTTTACTGA
* * * * * *
7395018 ATAAAGGTA-TCATCGACCTCTACTGGGTAAAGATATCCATTCACCTTTGATGG
1 ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGATATCTA-TCAACTTTGGTGG
7395071 ATAAAGGTATTCATCCATCTCTAGTGGGTAAA-AGTATCTATCAACTTATGGTGG
1 ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGA-TATCTATCAACTT-TGGTGG
* * * *
7395125 AT--A---A---A-CC--CTCTACTGGGTAAAGATATCCATCCACCTTTGATGG
1 ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGATATCTAT-CAACTTTGGTGG
* *
7395168 ATAAAGATATTCATCCATCTCTAGTGGGTAAAGATATCTATCAACTTATGGTAG
1 ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGATATCTATCAACTT-TGGTGG
* *
7395222 ATAAACGTATTCATCTATCTCTAGTGGGTAAAGATATCTATCAACTTCTGGTTGG
1 ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGATATCTATCAACTT-TGG-TGG
*
7395277 -T-AAGCGTATTCATCCATCTCTGGTGG
1 ATAAAG-GTATTCATCCATCTCTAGTGG
7395303 TGGTAAAGGT
Statistics
Matches: 190, Mismatches: 23, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
43 26 0.14
44 6 0.03
45 3 0.02
46 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
52 3 0.02
53 23 0.12
54 123 0.65
55 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (53 bp):
ATAAAGGTATTCATCCATCTCTAGTGGGTAAAGATATCTATCAACTTTGGTGG
Found at i:7395199 original size:27 final size:27
Alignment explanation
Indices: 7395132--7395258 Score: 95
Period size: 27 Copynumber: 4.7 Consensus size: 27
7395122 TGGATAAACC
* * *
7395132 CTCTACTGGGTAAAGATATCCATCCAC
1 CTCTAGTGGGTAAAGATATTCATCCAT
* *
7395159 CT-TTGATGGATAAAGATATTCATCCAT
1 CTCTAG-TGGGTAAAGATATTCATCCAT
*
7395186 CTCTAGTGGGTAAAGATA-TCTAT-CAA
1 CTCTAGTGGGTAAAGATATTC-ATCCAT
*
7395212 CT-TA-TGGTAGATAAACG-TATTCATCTAT
1 CTCTAGTGG--G-TAAA-GATATTCATCCAT
7395240 CTCTAGTGGGTAAAGATAT
1 CTCTAGTGGGTAAAGATAT
7395259 CTATCAACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
24 3 0.04
25 2 0.03
26 9 0.12
27 50 0.64
28 9 0.12
29 2 0.03
30 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (27 bp):
CTCTAGTGGGTAAAGATATTCATCCAT
Found at i:7395206 original size:97 final size:97
Alignment explanation
Indices: 7395034--7395227 Score: 345
Period size: 97 Copynumber: 2.0 Consensus size: 97
7395024 GTATCATCGA
* *
7395034 CCTCTACTGGGTAAAGATATCCATTCACCTTTGATGGATAAAGGTATTCATCCATCTCTAGTGGG
1 CCTCTACTGGGTAAAGATATCCATCCACCTTTGATGGATAAAGATATTCATCCATCTCTAGTGGG
*
7395099 TAAAAGTATCTATCAACTTATGGTGGATAAAC
66 TAAAAGTATCTATCAACTTATGGTAGATAAAC
7395131 CCTCTACTGGGTAAAGATATCCATCCACCTTTGATGGATAAAGATATTCATCCATCTCTAGTGGG
1 CCTCTACTGGGTAAAGATATCCATCCACCTTTGATGGATAAAGATATTCATCCATCTCTAGTGGG
7395196 T-AAAGATATCTATCAACTTATGGTAGATAAAC
66 TAAAAG-TATCTATCAACTTATGGTAGATAAAC
7395228 GTATTCATCT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 4 0.04
97 89 0.96
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (97 bp):
CCTCTACTGGGTAAAGATATCCATCCACCTTTGATGGATAAAGATATTCATCCATCTCTAGTGGG
TAAAAGTATCTATCAACTTATGGTAGATAAAC
Found at i:7395278 original size:27 final size:27
Alignment explanation
Indices: 7395194--7395279 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
7395184 ATCTCTAGTG
*
7395194 GGTAAAGATATCTATCAACTTATGGTA
1 GGTAAAGATATCTATCAACTTCTGGTA
* * * *
7395221 GATAAACG-TAT-TCATCTA-TCTCTAGTG
1 GGTAAA-GATATCT-ATCAACT-TCTGGTA
*
7395248 GGTAAAGATATCTATCAACTTCTGGTT
1 GGTAAAGATATCTATCAACTTCTGGTA
7395275 GGTAA
1 GGTAA
7395280 GCGTATTCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
26 3 0.07
27 38 0.86
28 3 0.07
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAAAGATATCTATCAACTTCTGGTA
Found at i:7395327 original size:29 final size:26
Alignment explanation
Indices: 7395140--7395327 Score: 65
Period size: 27 Copynumber: 6.9 Consensus size: 26
7395130 CCCTCTACTG
* * *
7395140 GGTAAAGATATCCATCCAC-CTTTGAT
1 GGTAAAGGTATCCATCCACTC-TGGTT
* * * *
7395166 GGATAAAGATATTCATCCATCTCTAGTG
1 GG-TAAAGGTATCCATCCA-CTCTGGTT
* * * * *
7395194 GGTAAAGATATCTATCAACTTATGGTA
1 GGTAAAGGTATCCATCCAC-TCTGGTT
* * * * * *
7395221 GATAAACGTATTCATCTATCTCTAGTG
1 GGTAAAGGTATCCATCCA-CTCTGGTT
* * *
7395248 GGTAAAGATATCTATCAACTTCTGGTT
1 GGTAAAGGTATCCATCCAC-TCTGGTT
*
7395275 GGT-AAGCGTATTCATCCATCTCTGGTGGT
1 GGTAAAG-GTATCCATCCA-CTCTGGT--T
7395304 GGTAAAGGTATCCATCCACATCTG
1 GGTAAAGGTATCCATCCAC-TCTG
7395328 ATGAGTAAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 21
0.69 0.19 0.12
Matches are distributed among these distances:
26 7 0.06
27 81 0.69
28 8 0.07
29 19 0.16
30 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
GGTAAAGGTATCCATCCACTCTGGTT
Found at i:7396921 original size:22 final size:21
Alignment explanation
Indices: 7396883--7396923 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7396873 TATTTATTTT
* *
7396883 TTATTTAAATAACAATTATTG
1 TTATTAAAATAAAAATTATTG
7396904 TTATTAAAATTAAAAATTAT
1 TTATTAAAA-TAAAAATTAT
7396924 AATTCCGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTATTAAAATAAAAATTATTG
Found at i:7408427 original size:17 final size:19
Alignment explanation
Indices: 7408395--7408429 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7408385 CTAAGAACAC
7408395 ATGAACAAATAGAATAAAA
1 ATGAACAAATAGAATAAAA
7408414 ATGAA-AAATA-AATAAA
1 ATGAACAAATAGAATAAA
7408430 TAACTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (19 bp):
ATGAACAAATAGAATAAAA
Found at i:7408483 original size:3 final size:3
Alignment explanation
Indices: 7408428--7408466 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
7408418 AAAATAAATA
7408428 AAT AACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7408467 AGAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7416216 original size:20 final size:20
Alignment explanation
Indices: 7416169--7416218 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7416159 TAATATATTT
*
7416169 ATATTATTTAACTATAATAA
1 ATATTATTTTACTATAATAA
*
7416189 ATATTATTTTACTATAGTAA
1 ATATTATTTTACTATAATAA
7416209 A-ATGTATTTT
1 ATAT-TATTTT
7416219 GATTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
ATATTATTTTACTATAATAA
Found at i:7416216 original size:23 final size:20
Alignment explanation
Indices: 7416148--7416209 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
7416138 TGGAAATATT
*
7416148 TAAATATAATTTAA-TAT-A
1 TAAATATTATTTAACTATAA
**
7416166 TTTATATTATTTAACTATAA
1 TAAATATTATTTAACTATAA
* *
7416186 TAAATATTATTTTACTATAG
1 TAAATATTATTTAACTATAA
7416206 TAAA
1 TAAA
7416210 ATGTATTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
18 11 0.31
19 3 0.09
20 21 0.60
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAATATTATTTAACTATAA
Found at i:7416887 original size:23 final size:21
Alignment explanation
Indices: 7416859--7416908 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
7416849 AAATTTTACA
**
7416859 TAAATTTTTATTTTTTTATTAT
1 TAAATTTTTAAATTTTTATT-T
7416881 TCAAATTTTTAAATTTTTATTT
1 T-AAATTTTTAAATTTTTATTT
7416903 TAAATT
1 TAAATT
7416909 AAATCTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 3 0.12
23 17 0.68
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TAAATTTTTAAATTTTTATTT
Found at i:7425351 original size:7 final size:7
Alignment explanation
Indices: 7425339--7425363 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7425329 AGCTGGCACG
7425339 GCACTCT
1 GCACTCT
7425346 GCACTCT
1 GCACTCT
7425353 GCACTCT
1 GCACTCT
7425360 GCAC
1 GCAC
7425364 ATGGCCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.16, T:0.24
Consensus pattern (7 bp):
GCACTCT
Found at i:7426283 original size:22 final size:23
Alignment explanation
Indices: 7426245--7426288 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
7426235 GCTCCCTGCT
*
7426245 TATTTTATTTTGTAATT-TAAAA
1 TATTTTATTTTGAAATTCTAAAA
7426267 TATTTTAATTTT-AAATTCTAAA
1 TATTTT-ATTTTGAAATTCTAAA
7426289 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTTTATTTTGAAATTCTAAAA
Found at i:7427617 original size:3 final size:3
Alignment explanation
Indices: 7427609--7427639 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7427599 GTACCTCCCT
*
7427609 TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
7427640 GTATTGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:7466896 original size:2 final size:2
Alignment explanation
Indices: 7466889--7466917 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7466879 AATCTACAAT
7466889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7466918 TTGGTATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7468809 original size:16 final size:15
Alignment explanation
Indices: 7468771--7468813 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
7468761 AAAAAAGAAT
*
7468771 ATATTTAAAATTAAG
1 ATATTTAAAATTAAC
7468786 A-A-TTAAAATTAATC
1 ATATTTAAAATTAA-C
7468800 ATATTTAAAATTAA
1 ATATTTAAAATTAA
7468814 AGTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 2 0.08
16 10 0.42
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
ATATTTAAAATTAAC
Found at i:7486094 original size:35 final size:34
Alignment explanation
Indices: 7486046--7486116 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
7486036 CTATTATAAC
*
7486046 ATAGTTTTTTGTTAATGTGATATTGCATCTAATG
1 ATAGTTTTTTGTTAATATGATATTGCATCTAATG
*
7486080 ATAGTTTTTTTGTTAATATGATATTGCATCTGATG
1 ATAG-TTTTTTGTTAATATGATATTGCATCTAATG
7486115 AT
1 AT
7486117 GTAACATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.51
Consensus pattern (34 bp):
ATAGTTTTTTGTTAATATGATATTGCATCTAATG
Found at i:7489721 original size:25 final size:25
Alignment explanation
Indices: 7489693--7489741 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
7489683 GGAATCAAAA
*
7489693 AAGAATAATGTAATTCTTTTCATTG
1 AAGAATAATGGAATTCTTTTCATTG
*
7489718 AAGAATACTGGAATTCTTTTCATT
1 AAGAATAATGGAATTCTTTTCATT
7489742 TTACTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (25 bp):
AAGAATAATGGAATTCTTTTCATTG
Found at i:7497110 original size:84 final size:83
Alignment explanation
Indices: 7496969--7497130 Score: 254
Period size: 84 Copynumber: 1.9 Consensus size: 83
7496959 CAGTGCCATT
*
7496969 GGAAATGACCTACAAGTAATGGAAATTGCTTGAAAAATACTAAGTTGAACAGGATGGGATCTGTG
1 GGAAATGACCTACAAGTAACGGAAATTGCTTGAAAAATACTAAGTTGAACAGGATGGGATCTGTG
*
7497034 ATGTCTTTTTCTTTATTTG
66 AT-TCATTTTCTTTATTTG
* *
7497053 GGAAATGACCTACAAGTAACGGAAATTGCTCT-AAAATTTCTAAGTTGAACAGGATGGGATCTGT
1 GGAAATGACCTACAAGTAACGGAAATTGCT-TGAAAAATACTAAGTTGAACAGGATGGGATCTGT
*
7497117 GGTTCATTTTCTTT
65 GATTCATTTTCTTT
7497131 TTTTTTTTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 10 0.14
84 61 0.85
85 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (83 bp):
GGAAATGACCTACAAGTAACGGAAATTGCTTGAAAAATACTAAGTTGAACAGGATGGGATCTGTG
ATTCATTTTCTTTATTTG
Found at i:7505809 original size:3 final size:3
Alignment explanation
Indices: 7505801--7505832 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7505791 CAACCCCCAA
7505801 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7505833 ATGTCTGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7521438 original size:6 final size:6
Alignment explanation
Indices: 7521427--7521477 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
7521417 TGCAGCGATC
* * *
7521427 TATACA TATACA TATATA CATATA TATATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
7521475 TAT
1 TAT
7521478 GATCTGCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:7521445 original size:8 final size:8
Alignment explanation
Indices: 7521427--7521477 Score: 75
Period size: 8 Copynumber: 6.4 Consensus size: 8
7521417 TGCAGCGATC
*
7521427 TATACATA
1 TATATATA
*
7521435 TACATATA
1 TATATATA
*
7521443 TACATATA
1 TATATATA
7521451 TATATATA
1 TATATATA
7521459 TATATATA
1 TATATATA
7521467 TATATATA
1 TATATATA
7521475 TAT
1 TAT
7521478 GATCTGCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:7521446 original size:14 final size:14
Alignment explanation
Indices: 7521427--7521477 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
7521417 TGCAGCGATC
*
7521427 TATACATATACATA
1 TATACATATATATA
7521441 TATACATATATATA
1 TATACATATATATA
*
7521455 TATATATATATATA
1 TATACATATATATA
*
7521469 TATATATAT
1 TATACATAT
7521478 GATCTGCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
TATACATATATATA
Found at i:7523092 original size:15 final size:15
Alignment explanation
Indices: 7523072--7523101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7523062 AACTAAGTAC
7523072 CCATTTAATATAAAA
1 CCATTTAATATAAAA
7523087 CCATTTAATATAAAA
1 CCATTTAATATAAAA
7523102 AATGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
CCATTTAATATAAAA
Found at i:7528644 original size:67 final size:67
Alignment explanation
Indices: 7528565--7528698 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
7528555 AAAGTAAGCT
* *
7528565 TTAAGACTAAACAATTTTGCAAATCCTCGAGTACATCTAGCTGTCTATTCTTGTAAAGTGTAAAG
1 TTAAGACTAAACAACTTTGCAAATCCTCAAGTACATCTAGCTGTCTATTCTTGTAAAGTGTAAAG
7528630 AC
66 AC
7528632 TTAAGACTAAACAACTTTGCAAATCCTCAAGTACATCTAGCTGTCTATTCTTGTAAAGTGTAAAG
1 TTAAGACTAAACAACTTTGCAAATCCTCAAGTACATCTAGCTGTCTATTCTTGTAAAGTGTAAAG
7528697 AC
66 AC
7528699 GAAGTTAGAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (67 bp):
TTAAGACTAAACAACTTTGCAAATCCTCAAGTACATCTAGCTGTCTATTCTTGTAAAGTGTAAAG
AC
Found at i:7528912 original size:22 final size:22
Alignment explanation
Indices: 7528887--7528934 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7528877 GATGTTTTGA
* *
7528887 TGTTTGG-TTTCCTTTTGTTAGG
1 TGTTTGGATTT-CTTATATTAGG
7528909 TGTTTGGATTTCTTATATTAGG
1 TGTTTGGATTTCTTATATTAGG
7528931 TGTT
1 TGTT
7528935 ATTGATTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.10, C:0.06, G:0.25, T:0.58
Consensus pattern (22 bp):
TGTTTGGATTTCTTATATTAGG
Found at i:7540369 original size:2 final size:2
Alignment explanation
Indices: 7540362--7540387 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7540352 GGGGAAGATT
7540362 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
7540388 GTTTACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7545734 original size:15 final size:15
Alignment explanation
Indices: 7545714--7545752 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
7545704 ATTGATGGGA
7545714 GAAGGGTTGTGGTGC
1 GAAGGGTTGTGGTGC
7545729 GAAGGGTTGTGGTGC
1 GAAGGGTTGTGGTGC
7545744 GAAGGGTTG
1 GAAGGGTTG
7545753 AACCATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.54, T:0.26
Consensus pattern (15 bp):
GAAGGGTTGTGGTGC
Found at i:7560041 original size:15 final size:15
Alignment explanation
Indices: 7560021--7560055 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7560011 CAATACAATA
*
7560021 TGATTACAGATAATG
1 TGATTACAAATAATG
*
7560036 TGATTATAAATAATG
1 TGATTACAAATAATG
7560051 TGATT
1 TGATT
7560056 GCAGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (15 bp):
TGATTACAAATAATG
Found at i:7560290 original size:15 final size:15
Alignment explanation
Indices: 7560272--7560323 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
7560262 ATTTTTAATG
*
7560272 TCATACATTTTATTT
1 TCATATATTTTATTT
7560287 TCATTTATTATTTTAATTT
1 TCA--TA-TATTTT-ATTT
7560306 T-ATATATTTTATTT
1 TCATATATTTTATTT
7560320 TCAT
1 TCAT
7560324 TTNNNNNNNN
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
14 5 0.16
15 11 0.35
16 2 0.06
17 2 0.06
18 6 0.19
19 5 0.16
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TCATATATTTTATTT
Found at i:7562662 original size:16 final size:16
Alignment explanation
Indices: 7562641--7562692 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
7562631 TACAAGCAAC
7562641 TAACTAACATTGAAGA
1 TAACTAACATTGAAGA
* *
7562657 TAACTAGC----AA-C
1 TAACTAACATTGAAGA
7562668 TAACTAACATTGAAGA
1 TAACTAACATTGAAGA
7562684 TAACTAACA
1 TAACTAACA
7562693 ACTAACCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
11 7 0.26
12 2 0.07
15 2 0.07
16 16 0.59
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (16 bp):
TAACTAACATTGAAGA
Found at i:7562673 original size:27 final size:27
Alignment explanation
Indices: 7562635--7562698 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
7562625 AATTTATACA
7562635 AGCAACTAACTAACATTGAAGATAACT
1 AGCAACTAACTAACATTGAAGATAACT
7562662 AGCAACTAACTAACATTGAAGATAACT
1 AGCAACTAACTAACATTGAAGATAACT
*
7562689 AACAACTAAC
1 AGCAACTAAC
7562699 CTTTAACTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.50, C:0.20, G:0.09, T:0.20
Consensus pattern (27 bp):
AGCAACTAACTAACATTGAAGATAACT
Found at i:7564973 original size:29 final size:30
Alignment explanation
Indices: 7564920--7564977 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7564910 TGAGGTACAA
7564920 TTAAGGGCTTGTTTGGGTATAAATGAAAGT
1 TTAAGGGCTTGTTTGGGTATAAATGAAAGT
7564950 TTAA-GGCTTTGTTTGGGTAT-AATGAAAG
1 TTAAGGGC-TTGTTTGGGTATAAATGAAAG
7564978 ATAAGGGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.38
Consensus pattern (30 bp):
TTAAGGGCTTGTTTGGGTATAAATGAAAGT
Found at i:7564988 original size:30 final size:31
Alignment explanation
Indices: 7564921--7564984 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
7564911 GAGGTACAAT
*
7564921 TAAGGGC-TTGTTTGGGTATAAATGAAAGTT
1 TAAGGGCTTTGTTTGGGTATAAATGAAAGTA
7564951 TAA-GGCTTTGTTTGGGTAT-AATGAAAG-A
1 TAAGGGCTTTGTTTGGGTATAAATGAAAGTA
7564979 TAAGGG
1 TAAGGG
7564985 GCTTAGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 13 0.42
30 15 0.48
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (31 bp):
TAAGGGCTTTGTTTGGGTATAAATGAAAGTA
Found at i:7568906 original size:14 final size:14
Alignment explanation
Indices: 7568887--7568929 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7568877 AAAACAAAAA
7568887 AAAATAAAAAAATT
1 AAAATAAAAAAATT
7568901 AAAATAGAAAAAA-T
1 AAAATA-AAAAAATT
7568915 AAAA-AAATAAAATT
1 AAAATAAA-AAAATT
7568929 A
1 A
7568930 GTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.08
13 5 0.19
14 13 0.50
15 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAATAAAAAAATT
Found at i:7568913 original size:9 final size:8
Alignment explanation
Indices: 7568884--7568926 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
7568874 GAAAAAACAA
7568884 AAAAAAAT
1 AAAAAAAT
7568892 AAAAAAAT
1 AAAAAAAT
*
7568900 --TAAAAT
1 AAAAAAAT
7568906 AGAAAAAAT
1 A-AAAAAAT
7568915 AAAAAAAT
1 AAAAAAAT
7568923 AAAA
1 AAAA
7568927 TTAGTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 5 0.17
8 19 0.63
9 6 0.20
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:7568915 original size:23 final size:22
Alignment explanation
Indices: 7568885--7568927 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
7568875 AAAAAACAAA
7568885 AAAAAATAAAAAAATTAAAATAG
1 AAAAAATAAAAAAA-TAAAATAG
7568908 AAAAAATAAAAAAATAAAAT
1 AAAAAATAAAAAAATAAAAT
7568928 TAGTATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAAATAAAAAAATAAAATAG
Found at i:7568918 original size:22 final size:23
Alignment explanation
Indices: 7568885--7568927 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
7568875 AAAAAACAAA
*
7568885 AAAAAATAAAAAAATTAAAATAG
1 AAAAAATAAAAAAAATAAAATAG
7568908 AAAAAAT-AAAAAAATAAAAT
1 AAAAAATAAAAAAAATAAAAT
7568928 TAGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAAATAAAAAAAATAAAATAG
Found at i:7600372 original size:15 final size:15
Alignment explanation
Indices: 7600349--7600402 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
7600339 ATTAATGATA
*
7600349 ATATGATATATTGAC
1 ATATTATATATTGAC
7600364 ATATTATATATTGAC
1 ATATTATATATTGAC
*
7600379 ATATCATA-ATT-A-
1 ATATTATATATTGAC
7600391 ATAATTATATAT
1 AT-ATTATATAT
7600403 CATGCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 6 0.18
14 5 0.15
15 21 0.62
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATTATATATTGAC
Found at i:7600372 original size:20 final size:21
Alignment explanation
Indices: 7600319--7600372 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
7600309 GATGCTGACA
*
7600319 TGACATATTAATATGTTATAAT
1 TGACATATT-ATATGATATAAT
*
7600341 T-A-ATGATAATATGATAT-AT
1 TGACAT-ATTATATGATATAAT
7600360 TGACATATTATAT
1 TGACATATTATAT
7600373 ATTGACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
19 3 0.12
20 17 0.65
21 5 0.19
22 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (21 bp):
TGACATATTATATGATATAAT
Found at i:7600617 original size:28 final size:29
Alignment explanation
Indices: 7600554--7600608 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
7600544 TGTAATTTAA
7600554 AATAAAAATATAAAAATTTGATTGAATGT
1 AATAAAAATATAAAAATTTGATTGAATGT
* *
7600583 AATAAAAA-ATAAGAATTTGTTTGAAT
1 AATAAAAATATAAAAATTTGATTGAAT
7600609 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.35
Consensus pattern (29 bp):
AATAAAAATATAAAAATTTGATTGAATGT
Found at i:7601043 original size:38 final size:37
Alignment explanation
Indices: 7600991--7601066 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
7600981 ATTAATTTAT
* *
7600991 AAAAAAAAGTTGGTT-AAGATGATAAAGGTTATATTAA
1 AAAAAAAAGCTGGTTGAA-ATGATAAACGTTATATTAA
* *
7601028 AAAAAAAAGGCTGGTTGAAATGGTAAACTTTATATTAA
1 AAAAAAAA-GCTGGTTGAAATGATAAACGTTATATTAA
7601066 A
1 A
7601067 GGTAGGAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 23 0.70
39 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (37 bp):
AAAAAAAAGCTGGTTGAAATGATAAACGTTATATTAA
Found at i:7604434 original size:22 final size:19
Alignment explanation
Indices: 7604406--7604449 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
7604396 TACAGACAAA
7604406 TTTATTCTTCTCTTCTCTCTTC
1 TTTATTCTT-TC-TCTCT-TTC
7604428 TTTATTCTTTCTCTCTTTC
1 TTTATTCTTTCTCTCTTTC
7604447 TTT
1 TTT
7604450 TCAATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 2 0.09
22 9 0.41
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTCTTTCTCTCTTTC
Found at i:7604441 original size:18 final size:20
Alignment explanation
Indices: 7604413--7604449 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7604403 AAATTTATTC
7604413 TTCTCTTCTCTC-TTCTTTA
1 TTCTCTTCTCTCTTTCTTTA
7604432 TTCT-TTCTCTCTTTCTTT
1 TTCTCTTCTCTCTTTCTTT
7604450 TCAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTCTTCTCTCTTTCTTTA
Found at i:7611817 original size:15 final size:15
Alignment explanation
Indices: 7611790--7611819 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7611780 TAGAAAAAAA
7611790 TTAGAGAGAAAATAT
1 TTAGAGAGAAAATAT
*
7611805 TTAGAGTGAAAATAT
1 TTAGAGAGAAAATAT
7611820 ATCTTATTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (15 bp):
TTAGAGAGAAAATAT
Found at i:7613807 original size:2 final size:2
Alignment explanation
Indices: 7613800--7613826 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7613790 CCGGCGTGAA
7613800 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
7613827 TCGGCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.