Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 17 of 313
Found at i:5584041 original size:21 final size:20
Alignment explanation
Indices: 5584000--5584040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
5583990 GCATCCTCGC
*
5584000 TCTCTTTTCTTTCTTTCTTT
1 TCTCTTTTCTTTCTCTCTTT
5584020 TCTCTTCTTCTTTCTC-CTTT
1 TCTCTT-TTCTTTCTCTCTTT
5584040 T
1 T
5584041 TTAAATGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTCTTTTCTTTCTCTCTTT
Found at i:5585287 original size:37 final size:37
Alignment explanation
Indices: 5585211--5585288 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
5585201 CTGTTCACAA
* * * * *
5585211 TTTGGTGTGTTGGATGGACGAGTTTTGGGGAACCGAT
1 TTTGGCGTGTTGGATGGACGAGTTCTGAGAAACCAAT
*
5585248 TTTGGCGTGTTGGATGGAGGAGTTCT-AGAAACTCAAT
1 TTTGGCGTGTTGGATGGACGAGTTCTGAGAAAC-CAAT
5585285 TTTG
1 TTTG
5585289 CTGTGTAGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 4 0.12
37 30 0.88
ACGTcount: A:0.19, C:0.09, G:0.36, T:0.36
Consensus pattern (37 bp):
TTTGGCGTGTTGGATGGACGAGTTCTGAGAAACCAAT
Found at i:5585409 original size:49 final size:46
Alignment explanation
Indices: 5585350--5585458 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 46
5585340 CAAAATGTGC
* *
5585350 ATTGACATGATCATGCATAGTATAAAAGTGAAAAATTGAGTTATATGCA
1 ATTGATATGATCATG-ATAGTAT-AAAGT-AAAAATTGAGTTATATGAA
* * * *
5585399 ATTGATATGATTGTTATGATTGTATAATGTAAATATTGAGTTATATGAA
1 ATTGATATGA---TCATGATAGTATAAAGTAAAAATTGAGTTATATGAA
5585448 ATTGATATGAT
1 ATTGATATGAT
5585459 TGTTATGATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
46 1 0.02
49 36 0.71
50 4 0.08
51 6 0.12
52 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (46 bp):
ATTGATATGATCATGATAGTATAAAGTAAAAATTGAGTTATATGAA
Found at i:5585459 original size:49 final size:49
Alignment explanation
Indices: 5585384--5585478 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
5585374 AAAGTGAAAA
*
5585384 ATTGAGTTATATGCAATTGATATGATTGTTATGATTGTATAATGTAAAT
1 ATTGAGTTATATGAAATTGATATGATTGTTATGATTGTATAATGTAAAT
5585433 ATTGAGTTATATGAAATTGATATGATTGTTATGATTGTATAATGTA
1 ATTGAGTTATATGAAATTGATATGATTGTTATGATTGTATAATGTA
5585479 TATGTTTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (49 bp):
ATTGAGTTATATGAAATTGATATGATTGTTATGATTGTATAATGTAAAT
Found at i:5585690 original size:20 final size:20
Alignment explanation
Indices: 5585665--5585705 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
5585655 AATAAGTGTA
5585665 AGTATGGACTGTGGCATAGG
1 AGTATGGACTGTGGCATAGG
5585685 AGTATGGACTGTGGCATAGG
1 AGTATGGACTGTGGCATAGG
5585705 A
1 A
5585706 CTTTATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.39, T:0.24
Consensus pattern (20 bp):
AGTATGGACTGTGGCATAGG
Found at i:5587117 original size:20 final size:20
Alignment explanation
Indices: 5587067--5587119 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
5587057 ATGATTTCAT
5587067 TTTTCTTTTTCAAGCTCTCAAA
1 TTTTCTTTTTCAA-C-CTCAAA
*
5587089 -TTTCATTTTCAA-CTCAAA
1 TTTTCTTTTTCAACCTCAAA
5587107 GTTTTCTTTTTCA
1 -TTTTCTTTTTCA
5587120 TAAAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTTCTTTTTCAACCTCAAA
Found at i:5603912 original size:32 final size:32
Alignment explanation
Indices: 5603871--5603936 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
5603861 TGAATAATCA
*
5603871 TGGTGGTTTGA-AAAGTTTATTCTCATCATTCC
1 TGGTGGTTTGAGAAA-TTTATTCTCATAATTCC
* * *
5603903 TGGTTGTTTGAGGAATTTATTCTCCTAATTCC
1 TGGTGGTTTGAGAAATTTATTCTCATAATTCC
5603935 TG
1 TG
5603937 CTATCAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (32 bp):
TGGTGGTTTGAGAAATTTATTCTCATAATTCC
Found at i:5614856 original size:38 final size:38
Alignment explanation
Indices: 5614800--5615109 Score: 467
Period size: 38 Copynumber: 8.1 Consensus size: 38
5614790 GGCACGAAGG
* * * * *
5614800 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
5614838 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
5614876 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
5614914 CCCGGATATATTACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
5614952 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
5614990 CCCGGATATTTTACCAGCACGAAGCCTGTGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
*
5615029 GCCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
5615068 CCCGGATATAATACCAGCATGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
5615106 CCCG
1 CCCG
5615110 AATAAACATC
Statistics
Matches: 251, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 211 0.84
39 10 0.04
40 30 0.12
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:5624367 original size:46 final size:46
Alignment explanation
Indices: 5624147--5624466 Score: 181
Period size: 46 Copynumber: 6.7 Consensus size: 46
5624137 GGATAAGTTA
* * * *
5624147 TCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGG
1 TCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-GTGG
* *
5624196 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAGTATATATGTGTG
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATA-ATGTG-G
* * * * * * * *
5624248 TTGACGCCATGTCCCAGACATGGTCTTATACTAG--CACA-ACTCTTAG
1 TCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-GTGG
*
5624294 -CTGATGCATGTCCCAGACATGTGTTACACTGGCTCTCATAATGTGG
1 TC-GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGG
* * *
5624340 TCGATGCATGTCCCAAACATGTCTTACACTAGCACTTGTC-TCAA--T-G
1 TCGATGCATGTCCCAGACATGTCTTACACT-G-GC-TCTCAT-AATGTGG
* * *
5624386 -CTATTGCCATGTCCCAGACATGTTCTTGCACTGGCTCTCATAATATGG
1 TCGA-TG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATAATGTGG
* * *
5624434 CCGATGCATGTCCAAGACGTGTCTTACACTGGC
1 TCGATGCATGTCCCAGACATGTCTTACACTGGC
5624467 ACACAAATAA
Statistics
Matches: 212, Mismatches: 36, Indels: 49
0.71 0.12 0.16
Matches are distributed among these distances:
44 9 0.04
45 21 0.10
46 52 0.25
47 36 0.17
48 14 0.07
49 40 0.19
50 2 0.01
51 4 0.02
52 34 0.16
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (46 bp):
TCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGG
Found at i:5624583 original size:15 final size:15
Alignment explanation
Indices: 5624563--5624596 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5624553 GCATTCTTAG
5624563 TTCACAATATAGCAA
1 TTCACAATATAGCAA
* *
5624578 TTCACACTATATCAA
1 TTCACAATATAGCAA
5624593 TTCA
1 TTCA
5624597 ATGAAAATTC
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:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (15 bp):
TTCACAATATAGCAA
Found at i:5629733 original size:30 final size:29
Alignment explanation
Indices: 5629697--5629754 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
5629687 AGTGGATACG
* *
5629697 CATTCCTGCATATACTTGCTGAGCTTCAC
1 CATTCCTGCACATACTTACTGAGCTTCAC
* *
5629726 NCATTCCTGCGCATACTTACTGAGTTTCA
1 -CATTCCTGCACATACTTACTGAGCTTCA
5629755 TAAACTCACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.34
Consensus pattern (29 bp):
CATTCCTGCACATACTTACTGAGCTTCAC
Found at i:5632081 original size:46 final size:46
Alignment explanation
Indices: 5631930--5632196 Score: 224
Period size: 46 Copynumber: 5.7 Consensus size: 46
5631920 GATAAGTTGT
* ** * *
5631930 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCACCATAGAGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-GTGGC
* * * * * *
5631979 CGATGCCATGTCCCAGACATGGTCTTATACTAG--CACA-ACTCTTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAAT-GTGGC
* *
5632025 CAATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
*
5632071 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC-TCAA--T-GC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCTC-TCAT-AATGTGGC
5632117 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTGGC
* * *
5632165 CAATGCATATCCCGGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
5632197 ATACAAATAA
Statistics
Matches: 178, Mismatches: 27, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 63 0.35
47 34 0.19
48 20 0.11
49 34 0.19
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
Found at i:5632152 original size:94 final size:91
Alignment explanation
Indices: 5631930--5632193 Score: 325
Period size: 94 Copynumber: 2.8 Consensus size: 91
5631920 GATAAGTTGT
* ** * *
5631930 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTATCACCATAGAGGTCGATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGTCCCAG
* *
5631995 ACATGGTCTTATACTAGCACAACTCTTAGC
63 ACAT-GTCTTACACTAGCACAACTCTAAGC
* *
5632025 CAATGCATGTCCTAGACAT-GTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
*
5632089 TGTCTTACACTAGCAC-TCGTCTCAATGC
66 TGTCTTACACTAGCACAAC-TCT-AA-GC
* * *
5632117 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATATCCCGGAC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
5632182 ATGTCTTACACT
65 ATGTCTTACACT
5632194 GGCATACAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
89 1 0.01
90 17 0.11
91 15 0.10
92 14 0.09
93 32 0.21
94 66 0.44
95 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACAACTCTAAGC
Found at i:5637313 original size:39 final size:40
Alignment explanation
Indices: 5637196--5637418 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
5637186 GCTCCTCGTT
* *
5637196 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
5637236 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
5637276 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
5637315 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
5637354 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
5637395 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5637419 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:5637364 original size:78 final size:80
Alignment explanation
Indices: 5637196--5637418 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
5637186 GCTCCTCGTT
* *
5637196 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCAGGACTTAACCCGG
*
5637261 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
5637276 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCAGG-CTTAGCCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCAGGACTTAACCC
*
5637337 GGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCA
* * * * * * *
5637354 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGT-AATTCGCACAAATGCCTTCAGGACTTAACCC
5637416 GGA
64 GGA
5637419 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 2 0.02
78 44 0.35
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCAGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:5637379 original size:118 final size:119
Alignment explanation
Indices: 5637196--5637418 Score: 280
Period size: 118 Copynumber: 1.9 Consensus size: 119
5637186 GCTCCTCGTT
* *
5637196 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCAGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
5637261 AT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* **
5637315 CAAATGCCTTCAGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCAGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
5637376 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGA
5637419 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
117 15 0.16
118 56 0.62
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCAGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:5641617 original size:13 final size:13
Alignment explanation
Indices: 5641599--5641628 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5641589 CGATTACAAC
5641599 CATTTATAAAACA
1 CATTTATAAAACA
5641612 CATTTATAAAACA
1 CATTTATAAAACA
5641625 CATT
1 CATT
5641629 ACTTAGAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATTTATAAAACA
Found at i:5672484 original size:33 final size:33
Alignment explanation
Indices: 5672437--5672500 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
5672427 TGTGTACACT
**
5672437 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
5672470 TGAAAAGGAAAGGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
5672501 CTTGGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:5681940 original size:16 final size:16
Alignment explanation
Indices: 5681903--5681933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5681893 TATTAAAACT
5681903 ACTAATCAAATAATAA
1 ACTAATCAAATAATAA
*
5681919 ACTAATCTAATAATA
1 ACTAATCAAATAATA
5681934 TAATAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (16 bp):
ACTAATCAAATAATAA
Found at i:5682523 original size:8 final size:8
Alignment explanation
Indices: 5682510--5682535 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5682500 GGAGAAGACA
5682510 TGCCAGGG
1 TGCCAGGG
5682518 TGCCAGGG
1 TGCCAGGG
5682526 TGCCAGGG
1 TGCCAGGG
5682534 TG
1 TG
5682536 AGTGAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.50, T:0.15
Consensus pattern (8 bp):
TGCCAGGG
Found at i:5686885 original size:42 final size:42
Alignment explanation
Indices: 5686812--5686917 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
5686802 GAGATGAGAA
* *
5686812 TACGTATAAGACCATATCTGGGAAAAAGCATCAATATGATAT
1 TACGTGTAAGACCATATCTGGGAAAAAGCATCAATATGAAAT
* * * ** *
5686854 TACGTGTAAGACCATGTCTTGGACATGGCATCGATATGAAAT
1 TACGTGTAAGACCATATCTGGGAAAAAGCATCAATATGAAAT
* * *
5686896 TTCGTGTAAGTCCATAGCTGGG
1 TACGTGTAAGACCATATCTGGG
5686918 CTATTGGCAT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
TACGTGTAAGACCATATCTGGGAAAAAGCATCAATATGAAAT
Found at i:5686960 original size:43 final size:42
Alignment explanation
Indices: 5686878--5686969 Score: 103
Period size: 43 Copynumber: 2.2 Consensus size: 42
5686868 TGTCTTGGAC
* * * * ** *
5686878 ATGGCATCGATATGAAATTTCGTGTAAGTCCATAGCTGGGCT
1 ATGGCATCGATATAAAATTACATGAAAGAACATAGCTGGGAT
*
5686920 ATTGGCATCGATATAAAATTACATGAAAGAACATATCTGGGAT
1 A-TGGCATCGATATAAAATTACATGAAAGAACATAGCTGGGAT
5686963 ATGGCAT
1 ATGGCAT
5686970 TGTACGACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 7 0.17
43 34 0.83
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (42 bp):
ATGGCATCGATATAAAATTACATGAAAGAACATAGCTGGGAT
Found at i:5694661 original size:19 final size:19
Alignment explanation
Indices: 5694623--5694662 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5694613 ATCTTTAATA
* *
5694623 GATACTAAAATTTATGATG
1 GATACCAAAATTTATCATG
*
5694642 GATACCAAAATTTCTCATG
1 GATACCAAAATTTATCATG
5694661 GA
1 GA
5694663 AGATGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (19 bp):
GATACCAAAATTTATCATG
Found at i:5694738 original size:20 final size:20
Alignment explanation
Indices: 5694691--5694738 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
5694681 CTTCCGTCAA
* *
5694691 AAATTTTAGTATTTTGTTAC
1 AAATTTTGGTATTTTATTAC
*
5694711 AAATTTTGGTATTTTATTAG
1 AAATTTTGGTATTTTATTAC
5694731 AAATTTTG
1 AAATTTTG
5694739 AAAAGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (20 bp):
AAATTTTGGTATTTTATTAC
Found at i:5694841 original size:20 final size:20
Alignment explanation
Indices: 5694818--5694894 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
5694808 TTTTTCAATA
5694818 TTTGTTACAAATTTTGGTAT
1 TTTGTTACAAATTTTGGTAT
*
5694838 TTTGTTACAAATTTTGATATGT
1 TTTGTTACAAATTTTGGTA--T
* *
5694860 TTCATGTTAGAAATATTGGTAT
1 TT--TGTTACAAATTTTGGTAT
* *
5694882 GTTGTTAAAAATT
1 TTTGTTACAAATT
5694895 CTAGTACAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 27 0.59
22 5 0.11
24 14 0.30
ACGTcount: A:0.30, C:0.04, G:0.16, T:0.51
Consensus pattern (20 bp):
TTTGTTACAAATTTTGGTAT
Found at i:5695347 original size:32 final size:32
Alignment explanation
Indices: 5695310--5695375 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
5695300 GTGGCAATAT
** * *
5695310 CATGTCATCACCGACTGTTGACGTGATAGTTC
1 CATGTCATCACCGAAGGCTGACGTGATAGCTC
*
5695342 CATGTCATCATCGAAGGCTGACGTGATAGCTC
1 CATGTCATCACCGAAGGCTGACGTGATAGCTC
5695374 CA
1 CA
5695376 CGTTATTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (32 bp):
CATGTCATCACCGAAGGCTGACGTGATAGCTC
Found at i:5695510 original size:16 final size:17
Alignment explanation
Indices: 5695480--5695512 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5695470 AGATGTTTAG
5695480 ATTCATTTGAATCTAGAC
1 ATTCATTTG-ATCTAGAC
5695498 ATTCATTTG-TCTAGA
1 ATTCATTTGATCTAGA
5695513 TACATTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
ATTCATTTGATCTAGAC
Found at i:5695557 original size:19 final size:21
Alignment explanation
Indices: 5695524--5695577 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
5695514 ACATTCTAAA
**
5695524 ATTATAAAAACATAAAA-A-T
1 ATTATAAAATTATAAAAGATT
5695543 ATTATAAAATTATAAAAGATT
1 ATTATAAAATTATAAAAGATT
5695564 ATTA-AAAATTATAA
1 ATTATAAAATTATAA
5695578 GAATTATCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 15 0.48
20 11 0.35
21 5 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
ATTATAAAATTATAAAAGATT
Found at i:5695579 original size:18 final size:21
Alignment explanation
Indices: 5695524--5695584 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 21
5695514 ACATTCTAAA
**
5695524 ATTATAAAAACATAAA-AA-T
1 ATTATAAAATTATAAAGAATT
5695543 ATTATAAAATTATAAA-AGATT
1 ATTATAAAATTATAAAGA-ATT
5695564 ATTA-AAAATTAT-AAGAATT
1 ATTATAAAATTATAAAGAATT
5695583 AT
1 AT
5695585 CAGAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 22 0.59
20 10 0.27
21 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
ATTATAAAATTATAAAGAATT
Found at i:5695584 original size:9 final size:9
Alignment explanation
Indices: 5695521--5695584 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
5695511 GATACATTCT
5695521 AAAATTATA
1 AAAATTATA
*
5695530 AAAA-CATA
1 AAAATTATA
5695538 AAAA-TATTA
1 AAAATTA-TA
5695547 TAAAATTATA
1 -AAAATTATA
5695557 AAAGATTATTA
1 AAA-ATTA-TA
5695568 AAAATTATA
1 AAAATTATA
*
5695577 AGAATTAT
1 AAAATTAT
5695585 CAGAAATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.17
9 18 0.38
10 14 0.30
11 7 0.15
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Found at i:5695591 original size:19 final size:20
Alignment explanation
Indices: 5695548--5695593 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
5695538 AAAATATTAT
*
5695548 AAAATTATAAAAGATTATTA
1 AAAATTATAAAAGATTATCA
*
5695568 AAAATTATAAGA-ATTATCA
1 AAAATTATAAAAGATTATCA
*
5695587 GAAATTA
1 AAAATTA
5695594 ATTAAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAGATTATCA
Found at i:5695593 original size:29 final size:30
Alignment explanation
Indices: 5695538--5695600 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
5695528 TAAAAACATA
5695538 AAAATATTATAAAATTATAAAAGATT-ATT
1 AAAATATTATAAAATTATAAAAGATTAATT
*
5695567 AAAA-ATTATAAGAATTATCAGAA-ATTAATT
1 AAAATATTATAA-AATTAT-AAAAGATTAATT
5695597 AAAA
1 AAAA
5695601 CCATAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.23
29 13 0.43
30 10 0.33
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAATATTATAAAATTATAAAAGATTAATT
Found at i:5696081 original size:19 final size:17
Alignment explanation
Indices: 5696057--5696093 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
5696047 AGTTAATTTA
5696057 TAATAATTATTATATAGTT
1 TAATAATT-TT-TATAGTT
5696076 TAATAATTTTTATAGTT
1 TAATAATTTTTATAGTT
5696093 T
1 T
5696094 TTATAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TAATAATTTTTATAGTT
Found at i:5696096 original size:19 final size:19
Alignment explanation
Indices: 5696057--5696121 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
5696047 AGTTAATTTA
5696057 TAATAATTATTATATAG--TT
1 TAATAATT-TT-TATAGTTTT
5696076 TAATAATTTTTATAGTTTT
1 TAATAATTTTTATAGTTTT
5696095 T-ATAAGTTTTTCAT-GTTTT
1 TAATAA-TTTTT-ATAGTTTT
*
5696114 TTATAATT
1 TAATAATT
5696122 CGAAAATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 24 0.59
20 6 0.15
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TAATAATTTTTATAGTTTT
Found at i:5702365 original size:4 final size:4
Alignment explanation
Indices: 5702356--5702403 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
5702346 ATACAAAACT
5702356 AAGA AAGAA AAGA AAGAA AAGA AAG- AA-A AAGA AA-A AAGA AAG- AAGA
1 AAGA AAG-A AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
5702402 AA
1 AA
5702404 ATAAGGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 10 0.26
4 20 0.53
5 8 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:5702368 original size:9 final size:9
Alignment explanation
Indices: 5702356--5702399 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
5702346 ATACAAAACT
5702356 AAGAAAGAA
1 AAGAAAGAA
5702365 AAGAAAGAA
1 AAGAAAGAA
5702374 AAGAAAGAA
1 AAGAAAGAA
5702383 AA-AGAA-AA
1 AAGA-AAGAA
5702391 AAGAAAGAA
1 AAGAAAGAA
5702400 GAAAATAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:5702372 original size:13 final size:13
Alignment explanation
Indices: 5702356--5702404 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
5702346 ATACAAAACT
5702356 AAGAAAGAAAAGA
1 AAGAAAGAAAAGA
5702369 AAGAAA-AGAAAGA
1 AAGAAAGA-AAAGA
*
5702382 AA-AAGAAAAAAGA
1 AAGAA-AGAAAAGA
5702395 AAG-AAGAAAA
1 AAGAAAGAAAA
5702405 TAAGGTGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 8 0.26
13 22 0.71
14 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAGA
Found at i:5702375 original size:22 final size:22
Alignment explanation
Indices: 5702333--5702375 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5702323 TTTAATTTGA
* *
5702333 TAAGTAAGAAAAGATACAAAAC
1 TAAGAAAGAAAAGAAACAAAAC
*
5702355 TAAGAAAGAAAAGAAAGAAAA
1 TAAGAAAGAAAAGAAACAAAA
5702376 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (22 bp):
TAAGAAAGAAAAGAAACAAAAC
Found at i:5702381 original size:22 final size:21
Alignment explanation
Indices: 5702338--5702403 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
5702328 TTTGATAAGT
* * *
5702338 AAGAAAAGATACAAAACTAAGA
1 AAGAAAAGAAAGAAAA-GAAGA
5702360 AAGAAAAGAAAGAAAAGAAAGA
1 AAGAAAAGAAAGAAAAG-AAGA
*
5702382 AA-AAGAAAAAAG-AAAGAAGA
1 AAGAA-AAGAAAGAAAAGAAGA
5702402 AA
1 AA
5702404 ATAAGGTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 6 0.16
21 6 0.16
22 26 0.68
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (21 bp):
AAGAAAAGAAAGAAAAGAAGA
Found at i:5705242 original size:29 final size:29
Alignment explanation
Indices: 5705202--5705260 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
5705192 ATATGGAGTT
*
5705202 AAGCAAGTGTCCCACTCATGGAATCTAAG
1 AAGCAAGAGTCCCACTCATGGAATCTAAG
5705231 AAGCAAGAGTCCCACTCATGGAATCTAAG
1 AAGCAAGAGTCCCACTCATGGAATCTAAG
5705260 A
1 A
5705261 TTCAATCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (29 bp):
AAGCAAGAGTCCCACTCATGGAATCTAAG
Found at i:5710714 original size:25 final size:26
Alignment explanation
Indices: 5710679--5710759 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 26
5710669 TACCAATGGC
*
5710679 AAAATCATCAAAATTTTACTA-GGGT
1 AAAATCGTCAAAATTTTACTAGGGGT
5710704 AAAATCGTC-AAATTTTACTAGGGGT
1 AAAATCGTCAAAATTTTACTAGGGGT
* * * *
5710729 AAAATTGTTAAAATTTTATTGGGGGT
1 AAAATCGTCAAAATTTTACTAGGGGT
5710755 AAAAT
1 AAAAT
5710760 AAGAATGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 11 0.22
25 19 0.39
26 19 0.39
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (26 bp):
AAAATCGTCAAAATTTTACTAGGGGT
Found at i:5710753 original size:26 final size:25
Alignment explanation
Indices: 5710679--5710759 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 25
5710669 TACCAATGGC
*
5710679 AAAATCATCAAAATTTTACTA-GGGT
1 AAAATCGT-AAAATTTTACTAGGGGT
*
5710704 AAAATCGTCAAATTTTACTAGGGGT
1 AAAATCGTAAAATTTTACTAGGGGT
* * *
5710729 AAAATTGTTAAAATTTTATTGGGGGT
1 AAAATCG-TAAAATTTTACTAGGGGT
5710755 AAAAT
1 AAAAT
5710760 AAGAATGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 11 0.23
25 17 0.35
26 20 0.42
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (25 bp):
AAAATCGTAAAATTTTACTAGGGGT
Found at i:5716275 original size:3 final size:3
Alignment explanation
Indices: 5716267--5716291 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5716257 ATAGTTCAAC
5716267 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
5716292 TTCACATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5727668 original size:14 final size:14
Alignment explanation
Indices: 5727649--5727677 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5727639 GTTGCTATAT
5727649 TAAAAATATTGGGC
1 TAAAAATATTGGGC
5727663 TAAAAATATTGGGC
1 TAAAAATATTGGGC
5727677 T
1 T
5727678 TCTTTCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TAAAAATATTGGGC
Found at i:5736349 original size:17 final size:17
Alignment explanation
Indices: 5736324--5736366 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5736314 TGAGTTGAGA
*
5736324 AAATT-ATTTAATTGAT
1 AAATTAATTTAATTAAT
*
5736340 AAATTAATTTAGTTAAT
1 AAATTAATTTAATTAAT
5736357 ATAATTAATT
1 A-AATTAATT
5736367 AAATAAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
AAATTAATTTAATTAAT
Found at i:5739215 original size:27 final size:26
Alignment explanation
Indices: 5739173--5739277 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 26
5739163 GAGGAAGCGT
5739173 TCTGGTGGCTAC-GCCACAATTATCTGA
1 TCTGGTGGCT-CTGCCAC-ATTATCTGA
*
5739200 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGA
5739227 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTG-A
* *
5739255 TCTGGT-GCTCCGTCACATTATCT
1 TCTGGTGGCTCTGCCACATTATCT
5739278 ATTCTGGCAG
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.14
27 52 0.74
28 8 0.11
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGA
Found at i:5739272 original size:54 final size:53
Alignment explanation
Indices: 5739171--5739284 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 53
5739161 TGGAGGAAGC
*
5739171 GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCCGCCACAT-TATCT
* *
5739225 GTTCTGGTGGCT-CTGCCACGATTATCTGTATCTGGT-GCTCCGTCACATTATCT
1 GTTCTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGGCTCCGCCACATTATCT
*
5739278 ATTCTGG
1 GTTCTGG
5739285 CAGCCATACT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
53 12 0.22
54 35 0.65
55 7 0.13
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (53 bp):
GTTCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCCGCCACATTATCT
Found at i:5745080 original size:28 final size:28
Alignment explanation
Indices: 5745048--5745101 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
5745038 GGGAGAGATA
5745048 CAAGGACTTACTAAGAAGGTGCCCTCAC
1 CAAGGACTTACTAAGAAGGTGCCCTCAC
*
5745076 CAAGGACTTACTAAGGAGGTGCCCTC
1 CAAGGACTTACTAAGAAGGTGCCCTC
5745102 TCCATGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.19
Consensus pattern (28 bp):
CAAGGACTTACTAAGAAGGTGCCCTCAC
Found at i:5747563 original size:79 final size:81
Alignment explanation
Indices: 5747427--5747611 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
5747417 TTGAATGATG
*
5747427 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
5747491 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
5747506 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
5747568 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
5747586 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5747612 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:5747625 original size:40 final size:39
Alignment explanation
Indices: 5747428--5747611 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
5747418 TGAATGATGT
* * *
5747428 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
5747468 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
5747508 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
5747546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
5747587 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
5747612 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:5747633 original size:79 final size:79
Alignment explanation
Indices: 5747428--5747644 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
5747418 TGAATGATGT
** * * * **
5747428 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
5747491 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
5747508 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
5747573 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
5747587 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
5747645 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:5755523 original size:79 final size:81
Alignment explanation
Indices: 5755387--5755571 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
5755377 TTGAATGATG
*
5755387 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
5755451 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
5755466 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
5755528 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
5755546 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5755572 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:5755585 original size:40 final size:40
Alignment explanation
Indices: 5755388--5755571 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
5755378 TGAATGATGT
* * * *
5755388 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
5755428 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
5755468 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
5755506 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
5755547 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
5755572 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:5755593 original size:79 final size:79
Alignment explanation
Indices: 5755440--5755604 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
5755430 GGACTAAGAT
* **
5755440 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
5755505 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
5755519 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
5755582 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
5755598 CCGAAGG
1 CCGAAGG
5755605 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:5758041 original size:6 final size:6
Alignment explanation
Indices: 5758030--5758067 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
5758020 CCTCTTATCT
*
5758030 TTTTAA TTTTAA TTTTAA TTTTAA TTTT-A TTTTCA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
5758068 CATTTGAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:5760464 original size:14 final size:14
Alignment explanation
Indices: 5760445--5760471 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5760435 TAAATACTTG
5760445 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
5760459 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
5760472 GCTTGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:5763898 original size:11 final size:11
Alignment explanation
Indices: 5763882--5763915 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
5763872 GATTTGATAC
5763882 GATATGCACAT
1 GATATGCACAT
5763893 GATATG--CAT
1 GATATGCACAT
5763902 GATATGCACAT
1 GATATGCACAT
5763913 GAT
1 GAT
5763916 GTTTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (11 bp):
GATATGCACAT
Found at i:5764038 original size:25 final size:25
Alignment explanation
Indices: 5763962--5764057 Score: 133
Period size: 24 Copynumber: 3.9 Consensus size: 25
5763952 GAGGAAGTGC
* *
5763962 AAAAGGGC-TATGCCCCAGTTACCG
1 AAAAGGGCTTTTGCCCCAGTTACCA
*
5763986 AAAAGGGC-TTCGCCCCAGTTACCA
1 AAAAGGGCTTTTGCCCCAGTTACCA
*
5764010 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAG-TTACCA
5764036 AAAAGGGCTTTTGCCCCAGTTA
1 AAAAGGGCTTTTGCCCCAGTTA
5764058 TTAAAAGAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
24 29 0.45
25 12 0.18
26 24 0.37
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTACCA
Found at i:5764069 original size:25 final size:26
Alignment explanation
Indices: 5763972--5764069 Score: 84
Period size: 26 Copynumber: 3.9 Consensus size: 26
5763962 AAAAGGGCTA
*
5763972 TGCCCCAG-TTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
* *
5763996 CGCCCCAG-TTACCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
5764021 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
*
5764047 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
5764070 AGGCCTCCAG
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.06
24 15 0.23
25 21 0.32
26 25 0.38
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:5764314 original size:31 final size:31
Alignment explanation
Indices: 5764276--5764385 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
5764266 TTGTTACAGT
*
5764276 AAAGGCTTTGGCCCAATGATATGAATAATGA
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
*
5764307 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
* *
5764338 AAAGGCTTCAGCCCAGA-GATATGAATAATGT
1 AAAGGCTTCGGCCCA-ATGATATGAATAATGA
*
5764369 AAAGGCTTTGGCCCAAT
1 AAAGGCTTCGGCCCAAT
5764386 AATTTAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.01
31 69 0.99
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGAATAATGA
Found at i:5772769 original size:68 final size:67
Alignment explanation
Indices: 5772697--5772846 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
5772687 CATCATGTGT
* * * *
5772697 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
5772759 ATGTAG
62 ATGTAG
** * *
5772765 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
5772830 AG
66 AG
5772832 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
5772847 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:5772802 original size:64 final size:64
Alignment explanation
Indices: 5772721--5772904 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
5772711 AGACATTATG
* *
5772721 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
5772785 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
5772850 AA
63 AA
* * * *
5772852 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GCACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
5772905 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:5775996 original size:25 final size:26
Alignment explanation
Indices: 5775925--5775994 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
5775915 CAAAAGGGCT
* *
5775925 AAGGGC-TTTGCCCCAGTTTACCGAA
1 AAGGGCTTTTGCCCCAGTTTATCAAA
5775950 AAGGGCTTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTTGCCCCAGTTTATCAAA
5775976 AAGGGCTTTTGCCCCAGTT
1 AAGGGCTTTTGCCCCAGTT
5775995 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 6 0.14
26 36 0.86
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (26 bp):
AAGGGCTTTTGCCCCAGTTTATCAAA
Found at i:5776007 original size:25 final size:26
Alignment explanation
Indices: 5775931--5776007 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
5775921 GGCTAAGGGC
*
5775931 TTTGCCCCAGTTTACCGAAAAG-GGCT
1 TTTGCCCCAGTTTATC-AAAAGAGGCT
5775957 TTTGCCCCAGTTTATCAAAA-AGGGCT
1 TTTGCCCCAGTTTATCAAAAGA-GGCT
*
5775983 TTTGCCCCAG-TTATTAAAAGAGGCT
1 TTTGCCCCAGTTTATCAAAAGAGGCT
5776008 AGGCCTCCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 16 0.35
26 30 0.65
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
TTTGCCCCAGTTTATCAAAAGAGGCT
Found at i:5776252 original size:31 final size:31
Alignment explanation
Indices: 5776214--5776290 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
5776204 TTGTTACAGT
5776214 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
5776245 AAAGGCTTCTGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
5776276 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
5776291 CTATATGCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:5783932 original size:19 final size:18
Alignment explanation
Indices: 5783908--5783943 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5783898 TCTAAATGAT
*
5783908 TTTAAATTATTTTTAAAAC
1 TTTAAATT-TGTTTAAAAC
5783927 TTTAAATTTGTTTAAAA
1 TTTAAATTTGTTTAAAA
5783944 AATATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATTTGTTTAAAAC
Found at i:5790444 original size:48 final size:48
Alignment explanation
Indices: 5790392--5790712 Score: 278
Period size: 48 Copynumber: 6.7 Consensus size: 48
5790382 TATGTGCGCT
* * *
5790392 AGTGTAAGACCATGTCTGGGACATGGCTTCGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAATATGAGAGCC
* * * * * *
5790440 AGTGTAAGACTATGTTTGGAAAATGGCATCGACAAT-ATAATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAAT-ATGAGAGCC
* * *
5790488 AGTGTAAGACCATGTCTGGGACATGGCATCGGTA-C-TGATATGTGCA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACCATAATATGAG-AGCC
* * *
5790536 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAATATGAGAGCC
* * * * * *
5790584 AGTGTAAGACCATGTCTGGAACATGACATC-AACATTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TAATATGAGAGCC
* * * *
5790632 AGTGTAAAACCATGTCTAGGACATGGCATC-AGCC-TCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAT-AATATGAGAGCC
* * *
5790680 AGTGTAAGACCATGTTTGGAATATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
5790713 AATTCACCCT
Statistics
Matches: 218, Mismatches: 43, Indels: 24
0.76 0.15 0.08
Matches are distributed among these distances:
46 1 0.00
47 9 0.04
48 201 0.92
49 6 0.03
50 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATAATATGAGAGCC
Found at i:5790644 original size:144 final size:144
Alignment explanation
Indices: 5790379--5790661 Score: 408
Period size: 144 Copynumber: 2.0 Consensus size: 144
5790369 GGCATTTGAG
* * * *
5790379 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCTTCGGCCATGATATGAGAGCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTG
* * * * * * *
5790444 TAAGACTATGTTTGGAAAATGGCATCGACAATATAATGAGAGCTAGTGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAAAATGACATCAACAATATAACGAGAGCTAGTGTAAAACCATGTCTAGGA
5790509 CATGGCATCGGTAC
131 CATGGCATCGGTAC
*
5790523 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CATTGTGAGAGCCAGT
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCA-TATGAGAGCCAGT
* *
5790587 GTAAGACCATGTCTGGAACATGACATCAACATTA-AGACGAGAGCTAGTGTAAAACCATGTCTAG
65 GTAAGACCATGTCTGGAAAATGACATCAACAATATA-ACGAGAGCTAGTGTAAAACCATGTCTAG
5790651 GACATGGCATC
129 GACATGGCATC
5790662 AGCCTCAACA
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 2 0.02
144 121 0.98
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (144 bp):
TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTG
TAAGACCATGTCTGGAAAATGACATCAACAATATAACGAGAGCTAGTGTAAAACCATGTCTAGGA
CATGGCATCGGTAC
Found at i:5790675 original size:144 final size:144
Alignment explanation
Indices: 5790383--5790712 Score: 398
Period size: 144 Copynumber: 2.3 Consensus size: 144
5790373 TTTGAGTGAT
* * * *
5790383 ATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCTTCGGCCATGATATGAGAGCCAGTGTAAG
1 ATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTGTAAG
* * * * * * *
5790448 ACTATGTTTGGAAAATGGCATCGACAATATAATGAGAGCTAGTGTAAGACCATGTCTGGGACATG
66 ACCATGTCTGGAAAATGACATCAACAATATAACGAGAGCTAGTGTAAAACCATGTCTAGGACATG
* * *
5790513 GCATCGGTACTGAT
131 GCATCAGTACTAAC
*
5790527 ATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CATTGTGAGAGCCAGTGTAA
1 ATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCA-TATGAGAGCCAGTGTAA
* *
5790591 GACCATGTCTGGAACATGACATCAACATTA-AGACGAGAGCTAGTGTAAAACCATGTCTAGGACA
65 GACCATGTCTGGAAAATGACATCAACAATATA-ACGAGAGCTAGTGTAAAACCATGTCTAGGACA
*
5790655 TGGCATCAG-CCTCAAC
129 TGGCATCAGTACT-AAC
* * * *
5790671 ATGTG-AGCCAGTGTAAGACCATGTTTGGAATATGGCATCGAC
1 ATGTGCA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
5790713 AATTCACCCT
Statistics
Matches: 160, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
143 5 0.03
144 155 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (144 bp):
ATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGACCATCATATGAGAGCCAGTGTAAG
ACCATGTCTGGAAAATGACATCAACAATATAACGAGAGCTAGTGTAAAACCATGTCTAGGACATG
GCATCAGTACTAAC
Found at i:5792954 original size:9 final size:10
Alignment explanation
Indices: 5792942--5792998 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
5792932 TACGTGGGAT
5792942 ATGATAT-AC
1 ATGATATGAC
*
5792951 ATGAT-TGAT
1 ATGATATGAC
5792960 ATGATATGCAC
1 ATGATATG-AC
*
5792971 ATGATATG-T
1 ATGATATGAC
5792980 ATGATATGCAC
1 ATGATATG-AC
5792991 ATGATATG
1 ATGATATG
5792999 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:5792974 original size:20 final size:20
Alignment explanation
Indices: 5792941--5793015 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
5792931 ATACGTGGGA
5792941 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
5792958 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
5792979 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
5792999 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
5793016 GAATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:5792976 original size:11 final size:11
Alignment explanation
Indices: 5792960--5793015 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
5792950 CATGATTGAT
5792960 ATGATATGCAC
1 ATGATATGCAC
*
5792971 ATGATATG--T
1 ATGATATGCAC
5792980 ATGATATGCAC
1 ATGATATGCAC
*
5792991 ATGATATG--T
1 ATGATATGCAC
*
5793000 ATGAAATGCAC
1 ATGATATGCAC
5793011 ATGAT
1 ATGAT
5793016 GAATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:5793127 original size:52 final size:51
Alignment explanation
Indices: 5793065--5793200 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 51
5793055 GAGGAAGTGC
* *
5793065 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATTCCTCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCA
* * *
5793117 AAAAGGGCTTATGCCCCAGTTTATTGAAAACGACTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
*
5793168 AAAAGGGCTT-TGTCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
5793201 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.05
49 8 0.11
50 7 0.09
51 22 0.29
52 34 0.45
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:5793162 original size:25 final size:26
Alignment explanation
Indices: 5793065--5793200 Score: 145
Period size: 26 Copynumber: 5.3 Consensus size: 26
5793055 GAGGAAGTGC
5793065 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * ***
5793091 AAAAGGGCTTATTCCTCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
5793117 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* * **
5793143 AAAACGACTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
5793168 AAAAGGGCTT-TGTCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
5793191 AAAAGAGGCT
1 AAAAG-GGCT
5793201 AGGCCTCCAG
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
23 5 0.06
24 7 0.08
25 28 0.31
26 50 0.56
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:5803842 original size:21 final size:21
Alignment explanation
Indices: 5803816--5803857 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5803806 TTTTGATGAG
* *
5803816 AATGATAGCAGGGATGAGGAA
1 AATGATAGCAGGAAAGAGGAA
5803837 AATGATAGCAGGAAAGAGGAA
1 AATGATAGCAGGAAAGAGGAA
5803858 TATAAACTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.36, T:0.12
Consensus pattern (21 bp):
AATGATAGCAGGAAAGAGGAA
Found at i:5813355 original size:27 final size:26
Alignment explanation
Indices: 5813317--5813425 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 26
5813307 AAGCGTCCTA
5813317 GTGGCTAC-GCCACAATTATCTGATCTG
1 GTGGCT-CTGCCAC-ATTATCTGATCTG
* * *
5813344 GTGGCTCTGCCACATATATTTGTTCTA
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
5813371 GTGGCTCTACCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
5813399 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
5813425 G
1 G
5813426 CAACCATGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.12
27 44 0.66
28 15 0.22
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:5821117 original size:27 final size:27
Alignment explanation
Indices: 5821077--5821145 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
5821067 AGGAAGCGTC
*
5821077 CTGGTGGCTATGCCACA-ATGATCTAAT
1 CTGGTGGCTCTGCCACATAT-ATCTAAT
**
5821104 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTAAT
5821131 CTGGTGGCTCTGCCA
1 CTGGTGGCTCTGCCA
5821146 GGATTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTAAT
Found at i:5823124 original size:38 final size:38
Alignment explanation
Indices: 5823026--5823145 Score: 127
Period size: 38 Copynumber: 3.1 Consensus size: 38
5823016 TTTAAGCTCA
* * *
5823026 GATATAATACCAGTACT-AGGCCTACGGGATTTAACCCG
1 GATATAATACCAGCA-TGAAGCCTGCGGGATTTAACCCG
5823064 GATATAATACCAGCATGAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCATGAAGCCTGCGGGATTTAACCCG
* * **
5823102 GATATATTTCCAGCAT-ATAGCCTGCAGGTCTTTAAGCCCG
1 GATATAATACCAGCATGA-AGCCTGC-GGGATTTAA-CCCG
5823142 GATA
1 GATA
5823146 CACATCAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
37 2 0.03
38 54 0.76
39 7 0.10
40 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (38 bp):
GATATAATACCAGCATGAAGCCTGCGGGATTTAACCCG
Found at i:5830112 original size:17 final size:18
Alignment explanation
Indices: 5830090--5830124 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5830080 AGGCCAATCT
5830090 GGGCGTGTCGGCC-ATAC
1 GGGCGTGTCGGCCTATAC
*
5830107 GGGCGTGTGGGCCTATAC
1 GGGCGTGTCGGCCTATAC
5830125 AGGCATGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.11, C:0.26, G:0.43, T:0.20
Consensus pattern (18 bp):
GGGCGTGTCGGCCTATAC
Found at i:5830133 original size:18 final size:17
Alignment explanation
Indices: 5830099--5830141 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
5830089 TGGGCGTGTC
* *
5830099 GGCCATACGGGCGTGTG
1 GGCCATACAGGCATGTG
5830116 GGCCTATACAGGCATGTG
1 GGCC-ATACAGGCATGTG
5830134 GGTCCATA
1 GG-CCATA
5830142 ATTCTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 16 0.73
19 2 0.09
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (17 bp):
GGCCATACAGGCATGTG
Found at i:5835196 original size:23 final size:23
Alignment explanation
Indices: 5835162--5835208 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
5835152 TATTTGGTAC
*
5835162 ACATATCTGATTTCTGAACATTA
1 ACATATCCGATTTCTGAACATTA
5835185 ACATATCCGATTTCTGAACATTA
1 ACATATCCGATTTCTGAACATTA
5835208 A
1 A
5835209 ACAATCGTCA
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:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (23 bp):
ACATATCCGATTTCTGAACATTA
Found at i:5842539 original size:15 final size:15
Alignment explanation
Indices: 5842521--5842549 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5842511 CAAAGTACAG
5842521 AACATGCTAGTATGC
1 AACATGCTAGTATGC
5842536 AACATGCTAGTATG
1 AACATGCTAGTATG
5842550 TACGATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (15 bp):
AACATGCTAGTATGC
Found at i:5846298 original size:41 final size:41
Alignment explanation
Indices: 5846251--5846333 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
5846241 ATCTTTCAAA
5846251 TGACTATGGATAACATAGACTTTTTCTTCTGTTTCACGCAC
1 TGACTATGGATAACATAGACTTTTTCTTCTGTTTCACGCAC
*
5846292 TGACTATGGATAACATAGACTTTTTCTTCTTTTTCACGCAC
1 TGACTATGGATAACATAGACTTTTTCTTCTGTTTCACGCAC
5846333 T
1 T
5846334 AACTCAAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (41 bp):
TGACTATGGATAACATAGACTTTTTCTTCTGTTTCACGCAC
Found at i:5858358 original size:40 final size:39
Alignment explanation
Indices: 5858321--5858438 Score: 173
Period size: 40 Copynumber: 2.9 Consensus size: 39
5858311 GCTACTCGTT
* *
5858321 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
5858361 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
5858401 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCG
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCG
5858439 AGCACACAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 68 0.96
41 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:5860889 original size:19 final size:20
Alignment explanation
Indices: 5860849--5860890 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
5860839 TACTTATTAG
*
5860849 ATGACATTGAATTAATTTGA
1 ATGACATTGAATTAAATTGA
*
5860869 ATGACATTGTA-TAAATTGA
1 ATGACATTGAATTAAATTGA
5860888 ATG
1 ATG
5860891 GCTTTGGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGACATTGAATTAAATTGA
Found at i:5861812 original size:17 final size:17
Alignment explanation
Indices: 5861790--5861828 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
5861780 ACATGGGCTA
*
5861790 ACACACAG-TCGTGTGTG
1 ACACACAGCT-GTGCGTG
5861807 ACACACAGCTGTGCGTG
1 ACACACAGCTGTGCGTG
5861824 ACACA
1 ACACA
5861829 TGGTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (17 bp):
ACACACAGCTGTGCGTG
Found at i:5879111 original size:13 final size:13
Alignment explanation
Indices: 5879093--5879122 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5879083 CTGCCAAAAG
*
5879093 GACACGGCCGTGT
1 GACACGCCCGTGT
5879106 GACACGCCCGTGT
1 GACACGCCCGTGT
5879119 GACA
1 GACA
5879123 AAGTCCAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:5889925 original size:12 final size:12
Alignment explanation
Indices: 5889908--5889932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5889898 AAGTAAGTGA
5889908 TCTTGATGATTT
1 TCTTGATGATTT
5889920 TCTTGATGATTT
1 TCTTGATGATTT
5889932 T
1 T
5889933 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:5891629 original size:12 final size:13
Alignment explanation
Indices: 5891593--5891630 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
5891583 AAATATTTGA
5891593 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
5891606 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
5891620 CTTG-TCTTAAT
1 CTTGTTCTTAAT
5891631 ATTCTAGGAT
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:5907942 original size:46 final size:47
Alignment explanation
Indices: 5907841--5908110 Score: 225
Period size: 46 Copynumber: 5.7 Consensus size: 47
5907831 TAATTTGTGT
* * *
5907841 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGA-CGAGT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGAGC-A-A
* *
5907889 GCAAGTGTAAGA-CATGTC-AGGGACAT-GCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACCATGTCTA-GGACATGGCATCGGCCTCGAGA-GCAA
*
5907935 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACGAGA-CAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGAGCAA
* ** * * * * *
5907979 GTCAGTGTAAGACCATGTCCGGGACATGGTATCGACATGGATATGCAA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGA-GCAA
* *
5908027 GAACTAGTGTAAGACCATGTCT-GAGACATGGCATCGGCCTCGATGAGGATA
1 G--CCAGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCGA-GAGCA-A
*
5908078 GCTAGTGTAAGACCATGTCTAGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATC
5908111 AGCAACTTAA
Statistics
Matches: 180, Mismatches: 26, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 57 0.32
47 15 0.08
48 14 0.08
49 31 0.17
50 34 0.19
51 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGAGCAA
Found at i:5916659 original size:27 final size:27
Alignment explanation
Indices: 5916628--5916805 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
5916618 TAAATTGTAC
* *
5916628 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
5916655 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
5916681 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
5916709 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
5916737 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
5916764 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
5916791 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5916806 GACTCAAAAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:5916689 original size:54 final size:55
Alignment explanation
Indices: 5916628--5916805 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 55
5916618 TAAATTGTAC
* * **
5916628 AGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
5916683 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-GTTGAATATGAT
* * *
5916737 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
5916791 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5916806 GACTCAAAAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 61 0.59
55 43 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:5916745 original size:82 final size:81
Alignment explanation
Indices: 5916629--5916784 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
5916619 AAATTGTACA
* * *
5916629 GCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5916693 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
5916710 GCACTAAGTGTGCGAGGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-GTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5916775 TGCGAGTTGA
65 TGCGAATTGA
5916785 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5916796 original size:82 final size:81
Alignment explanation
Indices: 5916625--5916805 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
5916615 GATTAAATTG
* * *
5916625 TACAGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5916690 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
5916706 TGCGGCACTAAGTGTGCGAGGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-GTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5916770 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5916788 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5916806 GACTCAAAAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5921901 original size:221 final size:221
Alignment explanation
Indices: 5921518--5921959 Score: 839
Period size: 221 Copynumber: 2.0 Consensus size: 221
5921508 AAATTCGTGA
5921518 AGCTCAGAAAGTCGATGAGGAATTGGTTGCAAAACGAGCTGAGTGTGTTCCGAACAAGGAATCGG
1 AGCTCAGAAAGTCGATGAGGAATTGGTTGCAAAACGAGCTGAGTGTGTTCCGAACAAGGAATCGG
5921583 AGTTTCAGATTGATGATGATGGTTGTTTGAGGTTTAGAAGTCGTTTGTGCGTTCCAAGGAATTCG
66 AGTTTCAGATTGATGATGATGGTTGTTTGAGGTTTAGAAGTCGTTTGTGCGTTCCAAGGAATTCG
*
5921648 GAACTCATTCCGATGATCCTGAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGCAC
131 AAACTCATTCCGATGATCCTGAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGCAC
5921713 GAAAATGTACAACGACTTGAAACGTC
196 GAAAATGTACAACGACTTGAAACGTC
* *
5921739 AGCTCAGGAAGTCGATGATGAATTGGTTGCAAAACGAGCTGAGTGTGTTCCGAACAAGGAATCGG
1 AGCTCAGAAAGTCGATGAGGAATTGGTTGCAAAACGAGCTGAGTGTGTTCCGAACAAGGAATCGG
*
5921804 AGTTTCAGATTGATGATGATGGTTGTTTGAGGTTTAGAAGTCGTTTGTGTGTTCCAAGGAATTCG
66 AGTTTCAGATTGATGATGATGGTTGTTTGAGGTTTAGAAGTCGTTTGTGCGTTCCAAGGAATTCG
*
5921869 AAACTCATTCCGATGATTCTGAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGCAC
131 AAACTCATTCCGATGATCCTGAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGCAC
5921934 GAAAATGTACAACGACTTGAAACGTC
196 GAAAATGTACAACGACTTGAAACGTC
5921960 GGTTTTGGTG
Statistics
Matches: 216, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
221 216 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (221 bp):
AGCTCAGAAAGTCGATGAGGAATTGGTTGCAAAACGAGCTGAGTGTGTTCCGAACAAGGAATCGG
AGTTTCAGATTGATGATGATGGTTGTTTGAGGTTTAGAAGTCGTTTGTGCGTTCCAAGGAATTCG
AAACTCATTCCGATGATCCTGAACGAAGCCCATTGTAGCCGAATGTCAATTCACCCGGGGAGCAC
GAAAATGTACAACGACTTGAAACGTC
Found at i:5925160 original size:27 final size:27
Alignment explanation
Indices: 5925126--5925303 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5925116 TAAATTGTAC
5925126 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5925153 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5925179 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5925207 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5925235 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5925262 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5925289 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5925304 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5925240 original size:82 final size:81
Alignment explanation
Indices: 5925127--5925282 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5925117 AAATTGTACA
* *
5925127 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5925191 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5925208 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5925273 TGCGAGTTGA
65 TGCGAATTGA
5925283 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5925294 original size:82 final size:81
Alignment explanation
Indices: 5925123--5925303 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5925113 CATTAAATTG
* *
5925123 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5925188 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5925204 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5925268 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5925286 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5925304 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5926260 original size:70 final size:70
Alignment explanation
Indices: 5926147--5926287 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
5926137 GAAAAGATCA
5926147 TATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACAGTTTCTGGATTC
1 TATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACAGTTTCTGGATTC
5926212 CCTGC
66 CCTGC
*
5926217 TATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACGGTTTCTGGATTC
1 TATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACAGTTTCTGGATTC
5926282 CCTGC
66 CCTGC
5926287 T
1 T
5926288 CCGACTTTGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (70 bp):
TATGGGCAGTATATTAAGAGATAATCAGATTTTTGTGGGACAGGGCCAGAACAGTTTCTGGATTC
CCTGC
Found at i:5931667 original size:24 final size:25
Alignment explanation
Indices: 5931626--5931672 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
5931616 AAATTTCGGA
*
5931626 AAGAATTTCTCAGAAAC-ACTTTTG
1 AAGAATTCCTCAGAAACAACTTTTG
5931650 AAGAATTCCTTCAG-AACAACTTT
1 AAGAATTCC-TCAGAAACAACTTT
5931673 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (25 bp):
AAGAATTCCTCAGAAACAACTTTTG
Found at i:5935756 original size:25 final size:27
Alignment explanation
Indices: 5935692--5935762 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
5935682 AATGCTCATA
*
5935692 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGGGAAGCTCTATCT
*
5935719 CGAGCCATATAACGGGAAGCTC-ATGT
1 CGAGCCATATAACGGGAAGCTCTATCT
*
5935745 -GAGCCATGTAACGGGAAG
1 CGAGCCATATAACGGGAAG
5935763 TTGATTCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 17 0.43
26 6 0.15
27 17 0.43
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (27 bp):
CGAGCCATATAACGGGAAGCTCTATCT
Found at i:5935911 original size:25 final size:25
Alignment explanation
Indices: 5935844--5935929 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
5935834 AGCTCCGGAT
*
5935844 AGCCATATATTAGGAAGCTCATGAAAG
1 AGCCATATATTAGGAAGCTC--CAAAG
* **
5935871 AGCC-TTTAATCGGGAAGCTCCAAAG
1 AGCCATAT-ATTAGGAAGCTCCAAAG
*
5935896 AGCCATATATTAGGAAGAT-CAAGAG
1 AGCCATATATTAGGAAGCTCCAA-AG
5935921 AGCCA-ATAT
1 AGCCATATAT
5935930 CAAGATGATC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
24 7 0.15
25 23 0.48
26 4 0.08
27 14 0.29
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (25 bp):
AGCCATATATTAGGAAGCTCCAAAG
Found at i:5943560 original size:27 final size:27
Alignment explanation
Indices: 5943530--5943608 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 27
5943520 ATTCAAGAAT
5943530 GCTCACACGAGCACATA-AACGGGAAGC
1 GCTCACACGAGC-CATATAACGGGAAGC
* * *
5943557 GCTCTCTCGAGCCATATAATGGGAA--
1 GCTCACACGAGCCATATAACGGGAAGC
*** *
5943582 GCTCATGTGAGCCATGTAACGGGAAGC
1 GCTCACACGAGCCATATAACGGGAAGC
5943609 TTATACGAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 19 0.47
26 4 0.10
27 17 0.43
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.16
Consensus pattern (27 bp):
GCTCACACGAGCCATATAACGGGAAGC
Found at i:5945260 original size:24 final size:26
Alignment explanation
Indices: 5945233--5945291 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
5945223 AAGCTCATAT
*
5945233 GAGCCAATA-AT-AGGAAGCTCCAGA
1 GAGCCAATATATCAGGAAGCTCAAGA
*
5945257 GAGCC-ATATATCATGAAGCTCAAGA
1 GAGCCAATATATCAGGAAGCTCAAGA
5945282 GAGCCAATAT
1 GAGCCAATAT
5945292 TGAGATGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 7 0.23
25 16 0.53
26 4 0.13
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (26 bp):
GAGCCAATATATCAGGAAGCTCAAGA
Found at i:5947678 original size:27 final size:27
Alignment explanation
Indices: 5947647--5947824 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5947637 TAAATTGTAC
5947647 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5947674 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5947700 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5947728 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5947756 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5947783 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5947810 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5947825 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5947761 original size:82 final size:81
Alignment explanation
Indices: 5947648--5947803 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5947638 AAATTGTACA
* *
5947648 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5947712 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5947729 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5947794 TGCGAGTTGA
65 TGCGAATTGA
5947804 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5947815 original size:82 final size:81
Alignment explanation
Indices: 5947644--5947824 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5947634 GATTAAATTG
* *
5947644 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5947709 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5947725 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5947789 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5947807 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5947825 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5952932 original size:12 final size:12
Alignment explanation
Indices: 5952915--5952939 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5952905 GTAAAATTCT
5952915 AGGAAATTTTCC
1 AGGAAATTTTCC
5952927 AGGAAATTTTCC
1 AGGAAATTTTCC
5952939 A
1 A
5952940 AGTGAGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AGGAAATTTTCC
Found at i:5957852 original size:46 final size:46
Alignment explanation
Indices: 5957802--5957974 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
5957792 TGGTTGAGCA
5957802 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
5957848 TCCGAACTCGTT-AAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAA-TTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
5957893 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5957941 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTA
5957975 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.56
47 26 0.25
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:5957958 original size:93 final size:93
Alignment explanation
Indices: 5957799--5957969 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
5957789 GGATGGTTGA
* *
5957799 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
5957864 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
5957892 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
5957957 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5957970 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:5958870 original size:18 final size:19
Alignment explanation
Indices: 5958837--5958872 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5958827 CCCTGTTCTG
*
5958837 AATTTAAAAATTAATAATA
1 AATTTAAAAATAAATAATA
5958856 AATTTAAAAA-AAATAAT
1 AATTTAAAAATAAATAAT
5958873 TAGACGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTTAAAAATAAATAATA
Found at i:5973693 original size:39 final size:40
Alignment explanation
Indices: 5973598--5973859 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
5973588 TTGAATGATG
*
5973598 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5973636 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5973677 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
5973716 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5973755 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5973794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5973833 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5973860 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5978402 original size:24 final size:24
Alignment explanation
Indices: 5978357--5978402 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
5978347 GCTAACTGAG
*
5978357 TGCCGATTTTGTTTCTAGCTTTGC
1 TGCCGATTTTGTTTCTAACTTTGC
5978381 TGCCGA-TTTGTTTCTCAACTTT
1 TGCCGATTTTGTTTCT-AACTTT
5978403 TCTGGTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.11, C:0.22, G:0.17, T:0.50
Consensus pattern (24 bp):
TGCCGATTTTGTTTCTAACTTTGC
Found at i:5981417 original size:27 final size:27
Alignment explanation
Indices: 5981365--5981417 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
5981355 GACCTCAATT
* **
5981365 TGTAAAATCACTGAAATACCTTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
*
5981392 TGTAAAATGACCGAAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
5981418 TGATAGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:5984703 original size:27 final size:28
Alignment explanation
Indices: 5984672--5984728 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
5984662 TCTGATACTG
*
5984672 ATTCTG-TATTGGGCTTAGGCCCACCTA
1 ATTCTGTTATTGGGCTAAGGCCCACCTA
5984699 ATTCTGTTATTGGGCTAAGGCCCACCTA
1 ATTCTGTTATTGGGCTAAGGCCCACCTA
5984727 AT
1 AT
5984729 ACTATTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
ATTCTGTTATTGGGCTAAGGCCCACCTA
Found at i:5987842 original size:44 final size:42
Alignment explanation
Indices: 5987715--5987866 Score: 112
Period size: 43 Copynumber: 3.5 Consensus size: 42
5987705 GCTATGGCTA
* * * * *
5987715 TTAA-AAATGGCACTGAGTGTGCAAAAATATAACAGCAAT-GG
1 TTAATAAATGGCACTAAGTGTGCAATAATATTATAGC-TTCGG
* * ** *
5987756 CTGAATAAATGGCACTATGTGTGCAATACCAATATAAG-TTCGG
1 -TTAATAAATGGCACTAAGTGTGCAATAATATTAT-AGCTTCGG
5987799 TTTAATGAAATGGCACTAAGTGTGCAATAATATTATAGCTTCGG
1 -TTAAT-AAATGGCACTAAGTGTGCAATAATATTATAGCTTCGG
* * *
5987843 CTAATTAATTGGAACTAAGTGTGC
1 TTAA-TAAATGGCACTAAGTGTGC
5987867 TAGTTCAAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 11
0.74 0.17 0.10
Matches are distributed among these distances:
42 4 0.05
43 48 0.56
44 33 0.39
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (42 bp):
TTAATAAATGGCACTAAGTGTGCAATAATATTATAGCTTCGG
Found at i:5995836 original size:46 final size:46
Alignment explanation
Indices: 5995659--5996060 Score: 222
Period size: 46 Copynumber: 8.5 Consensus size: 46
5995649 TTTGTGTGCT
* * *
5995659 AGTGTAAGA-CATATCTGGGACATGCATTGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACGA-GATGTA-AGCC
* * * * * * *
5995705 AGTGTAAGACCATGTCTAGGACAGGCATCGACATTGAAACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCA-CGAGATGTA-AGCC
* *
5995752 AGTCTAAGA-CATGTCTGGGACATGCATCAGC-CTTGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAC--GAGATGTAAGCC
* *
5995798 AGTGTAAGA-CATGTCTGGGACATGCATTGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTAAGCC
* * *
5995842 AGTGTAAGACCATGTCTGGGACATGCCATCAGCACGTATCGAGGT--GTC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCACG-A--GATGTAAGCC
* * *
5995890 AGTGTAAGATCATGTCTGGGACATGGCATCGGCACGAAAATGTGAGACC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACG-AGATGTAAG-CC
* ** ** * *
5995939 TAGTATAAGACCATGTCTGGGACATGGTGTCGGC-CTCGATTTCGATAG-T
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGAGATGT--A-AGCC
* *
5995988 ATGTGTAAGACCATGTCTGGGACATGGCATCGACATGATGGATG--AGCC
1 A-GTGTAAGACCATGTCTGGGACAT-GCATCGGCACGA--GATGTAAGCC
5996036 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
5996061 GTATCGGTAT
Statistics
Matches: 280, Mismatches: 50, Indels: 52
0.73 0.13 0.14
Matches are distributed among these distances:
44 11 0.04
45 18 0.06
46 81 0.29
47 57 0.20
48 48 0.17
49 31 0.11
50 29 0.10
51 2 0.01
52 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
Found at i:5995904 original size:48 final size:43
Alignment explanation
Indices: 5995756--5995926 Score: 173
Period size: 48 Copynumber: 3.7 Consensus size: 43
5995746 AGAGCTAGTC
* * *
5995756 TAAGACATGTCTGGGACATGCATCAGC-CTTGAGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCAC--GAGAGGT--GTCAGTG
* *
5995802 TAAGACATGTCTGGGACATGCATTGGCTACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGC-ACGAGAGGTGTCAGTG
*
5995846 TAAGACCATGTCTGGGACATGCCATCAGCACGTATCGAGGTGTCAGTG
1 TAAGA-CATGTCTGGGACATG-CATCGGCACG-A--GAGGTGTCAGTG
5995894 TAAGATCATGTCTGGGACATGGCATCGGCACGA
1 TAAGA-CATGTCTGGGACAT-GCATCGGCACGA
5995927 AAATGTGAGA
Statistics
Matches: 109, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
44 11 0.10
45 18 0.17
46 38 0.35
47 1 0.01
48 40 0.37
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
TAAGACATGTCTGGGACATGCATCGGCACGAGAGGTGTCAGTG
Found at i:5996016 original size:99 final size:96
Alignment explanation
Indices: 5995891--5996067 Score: 250
Period size: 96 Copynumber: 1.8 Consensus size: 96
5995881 CGAGGTGTCA
*
5995891 GTGTAAGATCATGTCTGGGACATGGCATCGGCACGAAAAT-G-TGAGACCTAGTATAAGACCATG
1 GTGTAAGACCATGTCTGGGACATGGCATC-G-AC-AAAATGGATGAG-CC-AGTATAAGACCATG
*
5995954 TCTGGGACATGGTGTCGGCCTCGATTTCGATAGTAT
61 TCTGGGACATGGTATCGGCCTCGATTTCGATAGTAT
** *
5995990 GTGTAAGACCATGTCTGGGACATGGCATCGACATGATGGATGAGCCAGTGTAAGACCATGTCTGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACAAAATGGATGAGCCAGTATAAGACCATGTCTGG
5996055 GACATGGTATCGG
66 GACATGGTATCGG
5996068 TATTATACCC
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
96 33 0.46
97 5 0.07
98 5 0.07
99 28 0.39
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACAAAATGGATGAGCCAGTATAAGACCATGTCTGG
GACATGGTATCGGCCTCGATTTCGATAGTAT
Found at i:5999660 original size:10 final size:10
Alignment explanation
Indices: 5999645--5999693 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
5999635 TTTATTTCCT
5999645 TATGACTTAC
1 TATGACTTAC
5999655 TATGACTTAC
1 TATGACTTAC
* *
5999665 TA-GGCTATAA
1 TATGACT-TAC
*
5999675 AATGACTTAC
1 TATGACTTAC
5999685 TATGACTTA
1 TATGACTTA
5999694 GTAAGCTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 3 0.10
10 25 0.81
11 3 0.10
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (10 bp):
TATGACTTAC
Done.