Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 15 of 75
Found at i:4279821 original size:38 final size:38
Alignment explanation
Indices: 4279760--4279832 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
4279750 GGTCTCACTC
* *
4279760 GTGTGGCTCACACGGCTTGGCCCATTGCCCACACGTCT
1 GTGTGGCTCACACGCCTTGGCCCATTACCCACACGTCT
* *
4279798 GTGTGTCTCACACGACCTT-GCCCATTATCCACACG
1 GTGTGGCTCACACG-CCTTGGCCCATTACCCACACG
4279833 CCCATGTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 27 0.90
39 3 0.10
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (38 bp):
GTGTGGCTCACACGCCTTGGCCCATTACCCACACGTCT
Found at i:4281325 original size:6 final size:6
Alignment explanation
Indices: 4281314--4281340 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4281304 TTACCATCTC
4281314 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
4281341 GCCACAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:4285622 original size:25 final size:25
Alignment explanation
Indices: 4285594--4285647 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
4285584 TAGCTCACAT
*
4285594 GAGCATCCCAATATTTAGTTCTTAC
1 GAGCATCCCAATATATAGTTCTTAC
* * *
4285619 GAGCTTCCCATTATATGGTTCTTAC
1 GAGCATCCCAATATATAGTTCTTAC
4285644 GAGC
1 GAGC
4285648 TTCTCATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (25 bp):
GAGCATCCCAATATATAGTTCTTAC
Found at i:4285903 original size:25 final size:25
Alignment explanation
Indices: 4285858--4285928 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
4285848 ATGAGCTTCC
* *
4285858 CGTTACATGGCTCACATGAGCCTCT
1 CGTTACATGACTCACAAGAGCCTCT
*
4285883 CGTTACATGACTCGA-AAGAGCTTCT
1 CGTTACATGACTC-ACAAGAGCCTCT
* *
4285908 CGTTTATAT-ACTCACATGAGC
1 CG-TTACATGACTCACAAGAGC
4285929 ATTCCTGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 31 0.82
26 6 0.16
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (25 bp):
CGTTACATGACTCACAAGAGCCTCT
Found at i:4290302 original size:37 final size:37
Alignment explanation
Indices: 4290249--4290333 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
4290239 TATGTGACAC
**
4290249 AAGTTTAGCTCAGACGAGTAACTTAATGTTGTTTTAT
1 AAGTTTAGCTCAGACGAGTAACTTAATGTCATTTTAT
** *
4290286 AAGTTTAGCTTGGACGAGTAACTTGATGTCATTTTAT
1 AAGTTTAGCTCAGACGAGTAACTTAATGTCATTTTAT
4290323 AAGTTTAGCTC
1 AAGTTTAGCTC
4290334 GGATGGCTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (37 bp):
AAGTTTAGCTCAGACGAGTAACTTAATGTCATTTTAT
Found at i:4291242 original size:24 final size:24
Alignment explanation
Indices: 4291215--4291266 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4291205 TACCCATGCT
*
4291215 ATTCAAAATATATTAAATTCTTTA
1 ATTCAAAATATATTAAATTCCTTA
** *
4291239 ATTCCCAATGTATTAAATTCCTTA
1 ATTCAAAATATATTAAATTCCTTA
4291263 ATTC
1 ATTC
4291267 CCAATTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTCAAAATATATTAAATTCCTTA
Found at i:4291267 original size:24 final size:24
Alignment explanation
Indices: 4291225--4291271 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4291215 ATTCAAAATA
*
4291225 TATTAAATTCTTTAATTCCCAATG
1 TATTAAATTCCTTAATTCCCAATG
4291249 TATTAAATTCCTTAATTCCCAAT
1 TATTAAATTCCTTAATTCCCAAT
4291272 TTCTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTAAATTCCTTAATTCCCAATG
Found at i:4291703 original size:22 final size:22
Alignment explanation
Indices: 4291675--4291746 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
4291665 AGTAGGCATC
4291675 GAAGTGCAAATTACTAAGCACT
1 GAAGTGCAAATTACTAAGCACT
* * *
4291697 GAAGTGCAAAATAGTGA-CACT
1 GAAGTGCAAATTACTAAGCACT
* * *
4291718 AAAGTGCAGAATGAC-AAGCACC
1 GAAGTGCA-AATTACTAAGCACT
4291740 GAAGTGC
1 GAAGTGC
4291747 GAAACGGTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 12 0.32
22 26 0.68
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.17
Consensus pattern (22 bp):
GAAGTGCAAATTACTAAGCACT
Found at i:4292265 original size:56 final size:57
Alignment explanation
Indices: 4292203--4292316 Score: 221
Period size: 56 Copynumber: 2.0 Consensus size: 57
4292193 CTATTTCTAA
4292203 TATAAAATTTCCCAAATTTAAGATTTAACCCTTAATTTCCACAACTT-GGAAATAAT
1 TATAAAATTTCCCAAATTTAAGATTTAACCCTTAATTTCCACAACTTAGGAAATAAT
4292259 TATAAAATTTCCCAAATTTAAGATTTAACCCTTAATTTCCACAACTTAGGAAATAAT
1 TATAAAATTTCCCAAATTTAAGATTTAACCCTTAATTTCCACAACTTAGGAAATAAT
4292316 T
1 T
4292317 GTAGTTTGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 47 0.82
57 10 0.18
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (57 bp):
TATAAAATTTCCCAAATTTAAGATTTAACCCTTAATTTCCACAACTTAGGAAATAAT
Found at i:4292295 original size:28 final size:28
Alignment explanation
Indices: 4292208--4292298 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
4292198 TCTAATATAA
4292208 AATTTCCCAAATTTAAGATTTAACCCTT
1 AATTTCCCAAATTTAAGATTTAACCCTT
* * *** *
4292236 AATTTCCACAACTTGGAA-A--TAATTATAA
1 AATTTCC-CAAATT-TAAGATTTAACCCT-T
4292264 AATTTCCCAAATTTAAGATTTAACCCTT
1 AATTTCCCAAATTTAAGATTTAACCCTT
4292292 AATTTCC
1 AATTTCC
4292299 ACAACTTAGG
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 10 0.22
28 21 0.47
29 10 0.22
30 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.37
Consensus pattern (28 bp):
AATTTCCCAAATTTAAGATTTAACCCTT
Found at i:4293631 original size:20 final size:20
Alignment explanation
Indices: 4293608--4293646 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4293598 CTTACACATG
4293608 GGCGTGTAGACCACCACACA
1 GGCGTGTAGACCACCACACA
*
4293628 GGCGTGTAGACCTCCACAC
1 GGCGTGTAGACCACCACAC
4293647 GATTGGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.36, G:0.26, T:0.13
Consensus pattern (20 bp):
GGCGTGTAGACCACCACACA
Found at i:4301371 original size:12 final size:13
Alignment explanation
Indices: 4301340--4301372 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4301330 TAATAGAAGT
4301340 GATAACAAAAATG
1 GATAACAAAAATG
*
4301353 GATAACAAAATTG
1 GATAACAAAAATG
4301366 GA-AACAA
1 GATAACAA
4301373 TATAACTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.61, C:0.09, G:0.15, T:0.15
Consensus pattern (13 bp):
GATAACAAAAATG
Found at i:4302215 original size:617 final size:605
Alignment explanation
Indices: 4300494--4302220 Score: 2324
Period size: 617 Copynumber: 2.8 Consensus size: 605
4300484 GACAAAAAAC
* * * * * *
4300494 TTACTATCATCTATAAGAATTGCCACTTTTTGAGAAGCAAAGGCAAAGGGTTTGAAGAACTTCCA
1 TTACTATCATCTACAAGAATTGCCGCTTTTTGAGAAGCAAA-GTAAGGGGATTGAAGAACTTCCC
* ** * * *
4300559 ATGTGTAAATTTTGTTGAGACTGCAGAA-CC--CATTGAAGCAATGATCAACAAAAAAATAACTT
65 AT-TTTTGA-TTT-TTGAGACTGCAGAATCCATGATTGAAGCAACGATCAACAAAAAAATAGCTT
* * *
4300621 TGATACCATACTAGAAATATAAAAGAAAAAGAGTAATTCATTAATCATACTCTTAGAATATAGGG
127 TGATACCATACTAGAAATAT-AGAGAAGAAGAGTAATTCATTAATCATACTCTTAGAATACAGGG
* * *
4300686 GCCTTTGTGTATTTATACACTAGAGGCTTAACAGAAGTTATAACAAAAAAGGATAACATG-AATG
191 GCC-TTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAACA-GAAATG
* * *
4300750 GAAACTACACATAACTAGATTTAGTTGAGCCTAACTTACAACAATTATCTAGTTACTTCCTCTAA
254 GAAACTACTCATAACTAGATTTAGTTGAGCCTAACTT---AC----AGCTAGTTACTTCCTCTAC
* * * * *
4300815 TATTCCATAGGCACAGGGAGGGGAACCAAGTAGCTAATAGTATGGTTGCCTTTGTCGGAAATCTC
312 TATTCCATAGGTATA-GGAAGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTC
* * *
4300880 CCTTTACGCCTTCATGTTTGTGCATCTCCCTATGACTTTATTTTAAAAGGCTCTATATGATGTTT
376 CCTTTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATT
* * *
4300945 GTGGCATGGTTTTGCCTAGATTAGTTACTATGTCATTGTTTTATTTTCCCCATTTAAAAAAATAA
441 GTAGCATGGTTTTGCCTAGATTAGTTACTATGTAATTGTTCTATTTTCCCCATTTAAAAAAATAA
** *
4301010 ATTCAATTATTGATATGCAATCAATCATAAAAAAAATTGATAAACTTTTTTGGGTGTAAATTCAA
506 ATTCAACAATTGAAATGCAATCAATCATAAAAAAAATTGATAAACTTTTTTGGGTGTAAATTCAA
* *
4301075 GATGTTTGGAAGTTACATTTAACTTGAGACGCAAG
571 AATGTTTGGAAGTTACATTCAACTTGAGACGCAAG
*
4301110 TTACTATCATCTACAAGAATTGCCGCTTTTTGAGAAGCAAAGATAAGGGGATTGGAGAACTTCCC
1 TTACTATCATCTACAAGAATTGCCGCTTTTTGAGAAGCAAAG-TAAGGGGATTGAAGAACTTCCC
** **
4301175 ATTTGTTGATTTTTGAGACTATAGAATCCATGATTGAAGCAACGATCGGCAAAAAAATAGCTTTG
65 ATTT-TTGATTTTTGAGACTGCAGAATCCATGATTGAAGCAACGATCAACAAAAAAATAGCTTTG
*
4301240 ATACCATACTAGAAATATAGAAGAAGAAGAGTAATTCATTAATAATACTCTTAGAATACAGGGGC
129 ATACCATACTAGAAATATAG-AGAAGAAGAGTAATTCATTAATCATACTCTTAGAATACAGGGGC
*
4301305 CTTGTGTATTTATACACTGGAGGCTTAATAGAAGTGATAACAAAAATGGATAACA-AAATTGGAA
193 CTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAACAGAAA-TGGAA
* * * *
4301369 AC-AAT-ATAACTAGATTTACTTGAGTCTAACTTATAGAATTTATCTAGTTACTTCCTCTACTAT
257 ACTACTCATAACTAGATTTAGTTGAGCCTAACTTACAG-------CTAGTTACTTCCTCTACTAT
* * * *
4301432 TCCATAGGTATAAGAAGGGGAACCAAGTAGCTAATATCATGGTTGTCTTTGATGGAAATCTCCCT
315 TCCATAGGTATAGGAA-GGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTCCCT
* *
4301497 TTACGCCTTCATGTTTATTCATCTCTCTATGAATTTATTTTAAAAGGCTCTATATGATGATTGTA
379 TTACGCCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTA
* *
4301562 GCATGGCTTTGCCTAGATTAGTTACTATGTAATTGTTCTATTTTCCCTCTTTTAAAAAAAAAATA
444 GCATGGTTTTGCCTAGATTAGTTACTATGTAATTGTTCTATTTTCCC-CATTT---AAAAAAATA
* * * *
4301627 AATTCAACAATTGAAATGC-ATCCAGTCATACAAAAAAAAATTGATACATTTTCTTTTGGTGTAA
505 AATTCAACAATTGAAATGCAAT-CAATCAT---AAAAAAAATTGATAAACTTT-TTTGGGTGTAA
*
4301691 ATTCAAAATGTTTGGAAGTTACATTCCACTTGAGACGCAAG
565 ATTCAAAATGTTTGGAAGTTACATTCAACTTGAGACGCAAG
*
4301732 TTACTATCATTTACAAGAATTGCCGCTTTTTGAGAAGCAAATGTAAGGGGATTGAAGAACTTCCC
1 TTACTATCATCTACAAGAATTGCCGCTTTTTGAGAAGCAAA-GTAAGGGGATTGAAGAACTTCCC
*
4301797 ATTTTTCGATTCTATTGAGATTGCAGAATCCATGATTGAAGCAACGATCAACAAAAAAATAGCTT
65 ATTTTT-GATT-T-TTGAGACTGCAGAATCCATGATTGAAGCAACGATCAACAAAAAAATAGCTT
** * * *
4301862 TGATAATATACTAGAAATATAGAGTAAGAAGAGTAATTGATTAATCATACTCTTAAAATACAAGG
127 TGATACCATACTAGAAATATAGAG-AAGAAGAGTAATTCATTAATCATACTCTTAGAATACAGGG
*
4301927 GCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAATAGAAATGGA
191 GCCTTGTGTATTTATACACTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAACAGAAATGGA
*
4301992 AACTACTCATAACTAGATTTAGTTGAGCCTAACTTACAGC-AGTT-CTTCCTTTACTATTCCATA
256 AACTACTCATAACTAGATTTAGTTGAGCCTAACTTACAGCTAGTTACTTCCTCTACTATTCCATA
* * *
4302055 GGTATTAGGAAGGGAACCAAGTAGCTAATAGCATGGCTG-CTTGTGTTGGAAATCTCCTTTTATG
321 GGTA-TAGGAAGGGAACCAAGTAGCTAATAGCATGGTTGCCTT-TGTTGGAAATCTCCCTTTACG
*
4302119 CCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTAGCTTG
384 CCTTCATGTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTAGCATG
4302184 GTTTTGCCTAGATTAGTTACTATGTAATTGTTCTATT
449 GTTTTGCCTAGATTAGTTACTATGTAATTGTTCTATT
4302221 CCTCCCCCCC
Statistics
Matches: 985, Mismatches: 91, Indels: 69
0.86 0.08 0.06
Matches are distributed among these distances:
607 1 0.00
611 1 0.00
613 2 0.00
614 212 0.22
615 14 0.01
616 121 0.12
617 255 0.26
618 40 0.04
619 1 0.00
621 20 0.02
622 117 0.12
623 4 0.00
624 164 0.17
625 5 0.01
626 28 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (605 bp):
TTACTATCATCTACAAGAATTGCCGCTTTTTGAGAAGCAAAGTAAGGGGATTGAAGAACTTCCCA
TTTTTGATTTTTGAGACTGCAGAATCCATGATTGAAGCAACGATCAACAAAAAAATAGCTTTGAT
ACCATACTAGAAATATAGAGAAGAAGAGTAATTCATTAATCATACTCTTAGAATACAGGGGCCTT
GTGTATTTATACACTGGAGGCTTAACAGAAGTGATAACAAAAATGGATAACAGAAATGGAAACTA
CTCATAACTAGATTTAGTTGAGCCTAACTTACAGCTAGTTACTTCCTCTACTATTCCATAGGTAT
AGGAAGGGAACCAAGTAGCTAATAGCATGGTTGCCTTTGTTGGAAATCTCCCTTTACGCCTTCAT
GTTTATGCATCTCTCTATGACTTTATTTTAAAAGGCTCTATATGATGATTGTAGCATGGTTTTGC
CTAGATTAGTTACTATGTAATTGTTCTATTTTCCCCATTTAAAAAAATAAATTCAACAATTGAAA
TGCAATCAATCATAAAAAAAATTGATAAACTTTTTTGGGTGTAAATTCAAAATGTTTGGAAGTTA
CATTCAACTTGAGACGCAAG
Found at i:4302569 original size:20 final size:20
Alignment explanation
Indices: 4302544--4302611 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
4302534 GTATCCCCTT
*
4302544 ATAATTTTTTATGCATCCTC
1 ATAATTTTTTATGCTTCCTC
*
4302564 ATAATTTTTTATACTTCCTC
1 ATAATTTTTTATGCTTCCTC
* *
4302584 ACATTTTTTTGATG-TTCCCTC
1 ATAATTTTTT-ATGCTT-CCTC
4302605 ATAATTT
1 ATAATTT
4302612 CAAAAGGAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 28 0.72
21 11 0.28
ACGTcount: A:0.24, C:0.19, G:0.04, T:0.53
Consensus pattern (20 bp):
ATAATTTTTTATGCTTCCTC
Found at i:4303118 original size:19 final size:20
Alignment explanation
Indices: 4303094--4303137 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4303084 TATTAAAAAT
4303094 ATTTTT-ATATCAAAAATTA
1 ATTTTTCATATCAAAAATTA
* *
4303113 ATTTTTCATGTCAAAATTTA
1 ATTTTTCATATCAAAAATTA
4303133 ATTTT
1 ATTTT
4303138 GAAAATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTTTCATATCAAAAATTA
Found at i:4304101 original size:30 final size:28
Alignment explanation
Indices: 4304065--4304145 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
4304055 AAGTTGGTAA
*
4304065 AAAAAAAAATTTTGACCCTTTAAAAGTTT
1 AAAAAAAAATTTTGACCCTTTAAAA-ATT
* ** *
4304094 CAAAAAAAATTTAAACCCCTTAAAAATT
1 AAAAAAAAATTTTGACCCTTTAAAAATT
4304122 AAAAAACAATATTTTGGACCCTTT
1 AAAAAA-AA-ATTTT-GACCCTTT
4304146 TGACCTTGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 7 0.17
29 23 0.57
30 4 0.10
31 6 0.15
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (28 bp):
AAAAAAAAATTTTGACCCTTTAAAAATT
Found at i:4305620 original size:2 final size:2
Alignment explanation
Indices: 4305613--4305648 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4305603 AGTTCATGAA
4305613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4305649 TTGGGTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4307227 original size:19 final size:19
Alignment explanation
Indices: 4307183--4307229 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4307173 TTTGATGTCA
4307183 CAATAAAA-ATTTAAGTAT
1 CAATAAAATATTTAAGTAT
* *
4307201 GAAAAAAATATTTAAGTAT
1 CAATAAAATATTTAAGTAT
*
4307220 CAGTAAAATA
1 CAATAAAATA
4307230 CTTACAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (19 bp):
CAATAAAATATTTAAGTAT
Found at i:4308932 original size:42 final size:41
Alignment explanation
Indices: 4308864--4308947 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 41
4308854 TATATATGCC
* *
4308864 ACACAGCCTGGGCACACCCTTGTGTCCTTGCCCGTATGGTTT
1 ACACAGCCTGGGCACACCC-TATGTCCTTGCCCATATGGTTT
*
4308906 ACACAGCCTGGGCACATGCCC-ATGTCCTTGCCCATGTGGTTT
1 ACACAGCCTGGGCACA--CCCTATGTCCTTGCCCATATGGTTT
4308948 TAAAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 34 0.92
44 3 0.08
ACGTcount: A:0.15, C:0.33, G:0.24, T:0.27
Consensus pattern (41 bp):
ACACAGCCTGGGCACACCCTATGTCCTTGCCCATATGGTTT
Found at i:4310914 original size:49 final size:49
Alignment explanation
Indices: 4310846--4310941 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
4310836 ATAATCAACG
* * *
4310846 TCAACTGGGGGCTCAAGTTATACCTCAACCTGTGACCACATAACCACCA
1 TCAACTGGGAGCCCAAGTTATACCTCAACCTCTGACCACATAACCACCA
* * * *
4310895 TCAACTGGGAGCCCTAGTTATACTTCAACTTCTGACCATATAACCAC
1 TCAACTGGGAGCCCAAGTTATACCTCAACCTCTGACCACATAACCAC
4310942 GGTGAACTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (49 bp):
TCAACTGGGAGCCCAAGTTATACCTCAACCTCTGACCACATAACCACCA
Found at i:4313443 original size:15 final size:17
Alignment explanation
Indices: 4313416--4313450 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4313406 TAATTAATAG
4313416 AAATAATAAAAC-AACA
1 AAATAATAAAACAAACA
4313432 AAATAA-AAAACAAACA
1 AAATAATAAAACAAACA
4313448 AAA
1 AAA
4313451 ACAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.80, C:0.11, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAATAAAACAAACA
Found at i:4316096 original size:6 final size:6
Alignment explanation
Indices: 4316085--4316114 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4316075 CTTTTCTTTC
*
4316085 TTCTGT TTCTGT TTCTGT TTCTGC TTCTGT
1 TTCTGT TTCTGT TTCTGT TTCTGT TTCTGT
4316115 CCTTTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.17, T:0.63
Consensus pattern (6 bp):
TTCTGT
Found at i:4318402 original size:13 final size:13
Alignment explanation
Indices: 4318384--4318408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4318374 TTTTTGAGTC
4318384 AAAAGTGTTTTTA
1 AAAAGTGTTTTTA
4318397 AAAAGTGTTTTT
1 AAAAGTGTTTTT
4318409 CAACTCAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
AAAAGTGTTTTTA
Found at i:4319800 original size:23 final size:23
Alignment explanation
Indices: 4319774--4319820 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4319764 ATCTAGATAG
*
4319774 AAAAACAACTAATTGATATATTT
1 AAAAACAACTAATCGATATATTT
4319797 AAAAACAACTAATCGATATATTT
1 AAAAACAACTAATCGATATATTT
4319820 A
1 A
4319821 GTAAGCCTTT
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:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (23 bp):
AAAAACAACTAATCGATATATTT
Found at i:4320309 original size:2 final size:2
Alignment explanation
Indices: 4320298--4320327 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4320288 GTCTAATTGT
4320298 TA TA -A 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 TA T
4320328 GTAATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4327448 original size:11 final size:11
Alignment explanation
Indices: 4327432--4327461 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4327422 CTGCTTTTCT
4327432 GCATTTTCTTG
1 GCATTTTCTTG
*
4327443 GCATTTTGTTG
1 GCATTTTCTTG
4327454 GCATTTTC
1 GCATTTTC
4327462 CTGGATTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.53
Consensus pattern (11 bp):
GCATTTTCTTG
Found at i:4330068 original size:33 final size:33
Alignment explanation
Indices: 4330028--4330096 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
4330018 GAAACACCAT
4330028 CACCACCCACAAATACTAAACCACAT-ATTGAAC
1 CACCACCCACAAATACTAAACCACATGA-TGAAC
*
4330061 CACCACCCACAAATACTGAACCACATGATGAAC
1 CACCACCCACAAATACTAAACCACATGATGAAC
4330094 CAC
1 CAC
4330097 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.38, G:0.06, T:0.13
Consensus pattern (33 bp):
CACCACCCACAAATACTAAACCACATGATGAAC
Found at i:4333253 original size:19 final size:19
Alignment explanation
Indices: 4333201--4333244 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4333191 TAGTTATGCG
*
4333201 AAAAA-TTCTTAAAATTTT
1 AAAAAGTTCATAAAATTTT
*
4333219 AAAATGTTCATAAAATTTT
1 AAAAAGTTCATAAAATTTT
4333238 AAAAAGT
1 AAAAAGT
4333245 ATTAAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAAAGTTCATAAAATTTT
Found at i:4335621 original size:89 final size:90
Alignment explanation
Indices: 4335478--4335714 Score: 239
Period size: 89 Copynumber: 2.6 Consensus size: 90
4335468 CAGACGTTTG
* * * * ** * *
4335478 TGAATACACAACATTATTGCAGATAAAAGTTGCCAAATAATGGGTGGGTGAACCACCAAAGGCTG
1 TGAATACACAACATTTTTGCAGATAAAAATTGCTAGATAATATGTGGATGAACCACCAAA-GCTA
*
4335543 TA-GGCTAT-G-CTGCCAGATGGTTC
65 CATGGCTATAGTCTGCCAGATGGTTC
* * * * **
4335566 TGAATACACAACCTTTTTTGCATATAAAAATT-ATCAGGTAATATGTGGATGAACCACCAAATTT
1 TGAATACACAA-CATTTTTGCAGATAAAAATTGCT-AGATAATATGTGGATGAACCACCAAAGCT
** *
4335630 ACATGTTTATAGTCTGCCAGATGGTTG
64 ACATGGCTATAGTCTGCCAGATGGTTC
* *
4335657 TGAATACACAACATTTTTGTAGATAAAAGTTGCTAGATAATATGTGGATGAACCACCA
1 TGAATACACAACATTTTTGCAGATAAAAATTGCTAGATAATATGTGGATGAACCACCA
4335715 GATTTGCAGA
Statistics
Matches: 119, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
88 13 0.11
89 41 0.34
90 40 0.34
91 25 0.21
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (90 bp):
TGAATACACAACATTTTTGCAGATAAAAATTGCTAGATAATATGTGGATGAACCACCAAAGCTAC
ATGGCTATAGTCTGCCAGATGGTTC
Found at i:4335711 original size:90 final size:88
Alignment explanation
Indices: 4335429--4335740 Score: 286
Period size: 90 Copynumber: 3.5 Consensus size: 88
4335419 CACATCGGGT
* * * * * *
4335429 TGTGGATGAACCACCAAATGTTGTAGGTTAATACGCTACCAGACGTTTGTGAATACACAACATTA
1 TGTGGATGAACCACCAAAT-TTGCA-GTTTATA-GCTGCCAGATGGTTGTGAATACACAACATTT
* * *
4335494 TTGCAGATAAAAGTTGCCAAATAATG
63 TTGCAGATAAAAGTTGCTAGATAATA
* * ** * ** * *
4335520 GGTGGGTGAACCACCAAAGGCTGTAGGCTAT-GCTGCCAGATGGTTCTGAATACACAACCTTTTT
1 TGTGGATGAACCACCAAA-TTTGCAGTTTATAGCTGCCAGATGGTTGTGAATACACAA-CATTTT
* * * *
4335584 TGCATATAAAAATT-ATCAGGTAATA
64 TGCAGATAAAAGTTGCT-AGATAATA
*
4335609 TGTGGATGAACCACCAAATTTACATGTTTATAGTCTGCCAGATGGTTGTGAATACACAACATTTT
1 TGTGGATGAACCACCAAATTTGCA-GTTTATAG-CTGCCAGATGGTTGTGAATACACAACATTTT
*
4335674 TGTAGATAAAAGTTGCTAGATAATA
64 TGCAGATAAAAGTTGCTAGATAATA
* *
4335699 TGTGGATGAACCACCAGATTTGCAGATTTATAGTTTGCCAGA
1 TGTGGATGAACCACCAAATTTGCAG-TTTATAG-CTGCCAGA
4335741 ACTTCCTCCT
Statistics
Matches: 175, Mismatches: 38, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
88 24 0.14
89 42 0.24
90 64 0.37
91 45 0.26
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (88 bp):
TGTGGATGAACCACCAAATTTGCAGTTTATAGCTGCCAGATGGTTGTGAATACACAACATTTTTG
CAGATAAAAGTTGCTAGATAATA
Found at i:4337570 original size:33 final size:33
Alignment explanation
Indices: 4337518--4337589 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
4337508 TTAATTTCAA
**
4337518 AAATTTAAAAATTCAAAAAATTATTTAAAAATT
1 AAATTTAAAAATTCAAAAAATTATAAAAAAATT
4337551 AAATTTCAAAAATTC-AAAAATTATAAAAAAATT
1 AAATTT-AAAAATTCAAAAAATTATAAAAAAATT
4337584 ATAATT
1 A-AATT
4337590 GTTTTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (33 bp):
AAATTTAAAAATTCAAAAAATTATAAAAAAATT
Found at i:4349586 original size:10 final size:10
Alignment explanation
Indices: 4349573--4349651 Score: 51
Period size: 10 Copynumber: 8.2 Consensus size: 10
4349563 AAAAGTTATA
4349573 AAAATTATTT
1 AAAATTATTT
*
4349583 AAAA--ATTA
1 AAAATTATTT
4349591 AAAATTA-TT
1 AAAATTATTT
*
4349600 AAAATAATTT
1 AAAATTATTT
* *
4349610 AAAA-AATATA
1 AAAATTAT-TT
*
4349620 AAAATATTTTT
1 AAAAT-TATTT
4349631 AAAATT-TTT
1 AAAATTATTT
*
4349640 AAAATTAATT
1 AAAATTATTT
4349650 AA
1 AA
4349652 TTGCTAACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
8 7 0.13
9 19 0.35
10 21 0.39
11 6 0.11
12 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTATTT
Found at i:4349602 original size:28 final size:27
Alignment explanation
Indices: 4349551--4349647 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
4349541 TAATTAAACT
*
4349551 TTTAAAAATTCAAAAAGTTATAAAAATTA
1 TTTAAAAATT-AAAAA-TTATTAAAATTA
*
4349580 TTTAAAAATTAAAAATTATTAAAATAA
1 TTTAAAAATTAAAAATTATTAAAATTA
*
4349607 TTTAAAAAATATAAAAATATTTTTAAAATT-
1 TTT-AAAAAT-T-AAAA-ATTATTAAAATTA
4349637 TTT-AAAATTAA
1 TTTAAAAATTAA
4349648 TTAATTGCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
26 2 0.03
27 14 0.23
28 16 0.27
29 11 0.18
30 7 0.12
31 10 0.17
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
TTTAAAAATTAAAAATTATTAAAATTA
Found at i:4349613 original size:20 final size:20
Alignment explanation
Indices: 4349571--4349649 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
4349561 CAAAAAGTTA
*
4349571 TAAAAATTATTTAAA-AA-T
1 TAAAAATTATTAAAATAATT
4349589 TAAAAATTATTAAAATAATT
1 TAAAAATTATTAAAATAATT
* * *
4349609 TAAAAAATATAAAAATATTT
1 TAAAAATTATTAAAATAATT
* *
4349629 TTAAAATTTTTAAAATTAATT
1 TAAAAATTATTAAAA-TAATT
4349650 AATTGCTAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 14 0.29
19 2 0.04
20 29 0.59
21 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAATTATTAAAATAATT
Found at i:4353806 original size:215 final size:215
Alignment explanation
Indices: 4353429--4353856 Score: 757
Period size: 215 Copynumber: 2.0 Consensus size: 215
4353419 GAGTTGATCA
4353429 AAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACTCGAA
1 AAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACTCGAA
* * *
4353494 GATATGAATAGCTTGGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAGGGAAAA
66 GAGATGAATAGCTTAGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGGAAAA
* * *
4353559 TAAGGCAAATTGTTTATTAAGTATACTGCACTACTGAAGGCATCATTCCAGTAGGTTAAGGGCAT
131 GAAGGCAAACTGTTTATCAAGTATACTGCACTACTGAAGGCATCATTCCAGTAGGTTAAGGGCAT
4353624 AGATGCATGAGCCAGTATCG
196 AGATGCATGAGCCAGTATCG
*
4353644 AAACTGTAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACTCGAA
1 AAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACTCGAA
* * *
4353709 GAGATGAATAGCTTAGTTGAAGCTGAAAGAGTTTTTCATACGGTGAGATGTTGCCTAAAGGAAAA
66 GAGATGAATAGCTTAGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGGAAAA
*
4353774 GAAGGCAACCTGTTTATCAAGTATACTGCACTACTGAAGGCATCATTCCAGTAGGTTAAGGGCAT
131 GAAGGCAAACTGTTTATCAAGTATACTGCACTACTGAAGGCATCATTCCAGTAGGTTAAGGGCAT
4353839 AGATGCATGAGCCAGTAT
196 AGATGCATGAGCCAGTAT
4353857 GGAAGGACCA
Statistics
Matches: 202, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
215 202 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (215 bp):
AAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACTCGAA
GAGATGAATAGCTTAGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGGAAAA
GAAGGCAAACTGTTTATCAAGTATACTGCACTACTGAAGGCATCATTCCAGTAGGTTAAGGGCAT
AGATGCATGAGCCAGTATCG
Found at i:4355933 original size:42 final size:42
Alignment explanation
Indices: 4355831--4355989 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
4355821 AATGTGATAT
*
4355831 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GA-TTA
* * * *
4355875 CGTGTAATACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
* *
4355917 CGTGTAAGACC-CTGTCTGGGACAGTGACATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTA
* **
4355960 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
4355990 TGTACGAGCC
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.31
43 34 0.36
44 29 0.31
45 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
Found at i:4355966 original size:43 final size:42
Alignment explanation
Indices: 4355872--4355980 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
4355862 GATTTGAGAT
* * * * *
4355872 TTACGTGTAATACCATGTCTGGGACATTGGCGTCGTATATGA
1 TTACGTGTAAGACCCTGTCTGGGACAGTGACATCGTATATGA
*
4355914 TTACGTGTAAGACCCTGTCTGGGACAGTGACATCGTTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACAGTGACATCG-TATATGA
*
4355957 TTACATGTAAGACCAC-GTCTGGGA
1 TTACGTGTAAGACC-CTGTCTGGGA
4355981 TGTTGGCATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 30 0.52
43 27 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCCTGTCTGGGACAGTGACATCGTATATGA
Found at i:4358949 original size:23 final size:22
Alignment explanation
Indices: 4358906--4358963 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4358896 AAAGGGTATC
* *
4358906 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4358927 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4358950 TGCATATCATATCT
1 TACAAATCATATCT
4358964 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4360354 original size:388 final size:388
Alignment explanation
Indices: 4359638--4360416 Score: 1558
Period size: 388 Copynumber: 2.0 Consensus size: 388
4359628 ATGCCATTAT
4359638 AACCAAAATCAAATCATCCAAAATTACCGATAGAACCAATGGATAGTGTGATATAACTCCGACAA
1 AACCAAAATCAAATCATCCAAAATTACCGATAGAACCAATGGATAGTGTGATATAACTCCGACAA
4359703 ACTTCTAACCCGTTCGAGCTTCCAATAATTTGTAGGGTAAATAAAAACAAATACGTAAGCAATGA
66 ACTTCTAACCCGTTCGAGCTTCCAATAATTTGTAGGGTAAATAAAAACAAATACGTAAGCAATGA
4359768 ATGCTTAGGAAGCTCGTGTAGTCTTTAATCATATTAATTCATTTCAAATATGAAATCTGTACATA
131 ATGCTTAGGAAGCTCGTGTAGTCTTTAATCATATTAATTCATTTCAAATATGAAATCTGTACATA
4359833 TTAAGAATAATCCAATATTGATACCACAATACTCATAAAGTTACATTCATCAATTCACAAGATGA
196 TTAAGAATAATCCAATATTGATACCACAATACTCATAAAGTTACATTCATCAATTCACAAGATGA
4359898 ATAAATCCACAGTATCACTTGTACATATTATCCCAAGCTTAGTAGGATTTTATATAACATTAACT
261 ATAAATCCACAGTATCACTTGTACATATTATCCCAAGCTTAGTAGGATTTTATATAACATTAACT
4359963 CTTCCAAATTTCTTTATTTTCATTTTCATTTCTTTACTTTCCACACTTATTCTATATGCATAA
326 CTTCCAAATTTCTTTATTTTCATTTTCATTTCTTTACTTTCCACACTTATTCTATATGCATAA
4360026 AACCAAAATCAAATCATCCAAAATTACCGATAGAACCAATGGATAGTGTGATATAACTCCGACAA
1 AACCAAAATCAAATCATCCAAAATTACCGATAGAACCAATGGATAGTGTGATATAACTCCGACAA
4360091 ACTTCTAACCCGTTCGAGCTTCCAATAATTTGTAGGGTAAATAAAAACAAATACGTAAGCAATGA
66 ACTTCTAACCCGTTCGAGCTTCCAATAATTTGTAGGGTAAATAAAAACAAATACGTAAGCAATGA
4360156 ATGCTTAGGAAGCTCGTGTAGTCTTTAATCATATTAATTCATTTCAAATATGAAATCTGTACATA
131 ATGCTTAGGAAGCTCGTGTAGTCTTTAATCATATTAATTCATTTCAAATATGAAATCTGTACATA
4360221 TTAAGAATAATCCAATATTGATACCACAATACTCATAAAGTTACATTCATCAATTCACAAGATGA
196 TTAAGAATAATCCAATATTGATACCACAATACTCATAAAGTTACATTCATCAATTCACAAGATGA
4360286 ATAAATCCACAGTATCACTTGTACATATTATCCCAAGCTTAGTAGGATTTTATATAACATTAACT
261 ATAAATCCACAGTATCACTTGTACATATTATCCCAAGCTTAGTAGGATTTTATATAACATTAACT
4360351 CTTCCAAATTTCTTTATTTTCATTTTCATTTCTTTACTTTCCACACTTATTCTATATGCATAA
326 CTTCCAAATTTCTTTATTTTCATTTTCATTTCTTTACTTTCCACACTTATTCTATATGCATAA
4360414 AAC
1 AAC
4360417 ACAAGTCATA
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
388 391 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (388 bp):
AACCAAAATCAAATCATCCAAAATTACCGATAGAACCAATGGATAGTGTGATATAACTCCGACAA
ACTTCTAACCCGTTCGAGCTTCCAATAATTTGTAGGGTAAATAAAAACAAATACGTAAGCAATGA
ATGCTTAGGAAGCTCGTGTAGTCTTTAATCATATTAATTCATTTCAAATATGAAATCTGTACATA
TTAAGAATAATCCAATATTGATACCACAATACTCATAAAGTTACATTCATCAATTCACAAGATGA
ATAAATCCACAGTATCACTTGTACATATTATCCCAAGCTTAGTAGGATTTTATATAACATTAACT
CTTCCAAATTTCTTTATTTTCATTTTCATTTCTTTACTTTCCACACTTATTCTATATGCATAA
Found at i:4367521 original size:16 final size:15
Alignment explanation
Indices: 4367483--4367521 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4367473 AATATTTTTG
4367483 TATTTTTATATATTT
1 TATTTTTATATATTT
*
4367498 TAAATTTTATATATTAT
1 T-ATTTTTATATATT-T
4367515 TATTTTT
1 TATTTTT
4367522 TGTCAACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.85
17 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATATATTT
Found at i:4369367 original size:16 final size:15
Alignment explanation
Indices: 4369329--4369367 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4369319 AATATTTTTG
4369329 TATTTTTATATATTT
1 TATTTTTATATATTT
*
4369344 TAAATTTTATATATTAT
1 T-ATTTTTATATATT-T
4369361 TATTTTT
1 TATTTTT
4369368 TGTCAACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.85
17 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATATATTT
Found at i:4370875 original size:2 final size:2
Alignment explanation
Indices: 4370870--4370901 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4370860 ATATTTACCC
4370870 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
4370902 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4374306 original size:231 final size:231
Alignment explanation
Indices: 4373903--4374358 Score: 912
Period size: 231 Copynumber: 2.0 Consensus size: 231
4373893 ATTGATTAAA
4373903 ATGTCTTTAATACATTTTCTAATGAAGTCCATGTATGAATAAAAATATATCAAAGTACATAATAT
1 ATGTCTTTAATACATTTTCTAATGAAGTCCATGTATGAATAAAAATATATCAAAGTACATAATAT
4373968 CAATAGTTAAAGCTCTTAGTACTTAGATAATTTAGGTTCAAACCCTGCCATCCCCTTTCTCTCTC
66 CAATAGTTAAAGCTCTTAGTACTTAGATAATTTAGGTTCAAACCCTGCCATCCCCTTTCTCTCTC
4374033 TCCCAACATTGTTATGATTAAAAAGTACATAATAATAATTAATTTCATAGGAATGCAAATTAGAA
131 TCCCAACATTGTTATGATTAAAAAGTACATAATAATAATTAATTTCATAGGAATGCAAATTAGAA
4374098 TATAACTATTGCATTTCGAAATATGTATATGATATT
196 TATAACTATTGCATTTCGAAATATGTATATGATATT
4374134 ATGTCTTTAATACATTTTCTAATGAAGTCCATGTATGAATAAAAATATATCAAAGTACATAATAT
1 ATGTCTTTAATACATTTTCTAATGAAGTCCATGTATGAATAAAAATATATCAAAGTACATAATAT
4374199 CAATAGTTAAAGCTCTTAGTACTTAGATAATTTAGGTTCAAACCCTGCCATCCCCTTTCTCTCTC
66 CAATAGTTAAAGCTCTTAGTACTTAGATAATTTAGGTTCAAACCCTGCCATCCCCTTTCTCTCTC
4374264 TCCCAACATTGTTATGATTAAAAAGTACATAATAATAATTAATTTCATAGGAATGCAAATTAGAA
131 TCCCAACATTGTTATGATTAAAAAGTACATAATAATAATTAATTTCATAGGAATGCAAATTAGAA
4374329 TATAACTATTGCATTTCGAAATATGTATAT
196 TATAACTATTGCATTTCGAAATATGTATAT
4374359 AAAATTTAAT
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 225 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (231 bp):
ATGTCTTTAATACATTTTCTAATGAAGTCCATGTATGAATAAAAATATATCAAAGTACATAATAT
CAATAGTTAAAGCTCTTAGTACTTAGATAATTTAGGTTCAAACCCTGCCATCCCCTTTCTCTCTC
TCCCAACATTGTTATGATTAAAAAGTACATAATAATAATTAATTTCATAGGAATGCAAATTAGAA
TATAACTATTGCATTTCGAAATATGTATATGATATT
Found at i:4374408 original size:18 final size:19
Alignment explanation
Indices: 4374378--4374414 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4374368 TCAATAAATA
4374378 TTTTATATAAT-AATTTAG
1 TTTTATATAATAAATTTAG
4374396 TTTTA-ATATATAAATTTAG
1 TTTTATATA-ATAAATTTAG
4374415 AGTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 7 0.41
19 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTATATAATAAATTTAG
Found at i:4374524 original size:2 final size:2
Alignment explanation
Indices: 4374517--4374564 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
4374507 TCAAGTCACA
* *
4374517 AT AT AT AT TT ACT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4374560 AT AT A
1 AT AT A
4374565 AGCACTTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 40 0.98
3 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4377266 original size:131 final size:132
Alignment explanation
Indices: 4377121--4377383 Score: 510
Period size: 131 Copynumber: 2.0 Consensus size: 132
4377111 ATTTAATCAA
4377121 TAAATATTTTATATAATAATTTAGTTTTAATATATAAATTAAGAGTTAAAATTCTATTATAATTA
1 TAAATATTTTATATAATAATTTAGTTTTAATATATAAATTAAGAGTTAAAATTCTATTATAATTA
4377186 ACTGTTCAAAATTGAAAATAACTTTATTGAGACATTATGGAAAAATAATTAAAATA-GATATAAT
66 ACTGTTCAAAATTGAAAATAACTTTATTGAGACATTATGGAAAAATAATTAAAATATGATATAAT
4377250 AC
131 AC
*
4377252 TAAATATTTTATATAATAATTTAGTTTTAATATATAAATTTAGAGTTAAAATTCTATTATAATTA
1 TAAATATTTTATATAATAATTTAGTTTTAATATATAAATTAAGAGTTAAAATTCTATTATAATTA
4377317 ACTGTTCAAAATTGAAAATAACTTTATTGAGACATTATGGAAAAATAATTAAAATATGATATAAT
66 ACTGTTCAAAATTGAAAATAACTTTATTGAGACATTATGGAAAAATAATTAAAATATGATATAAT
4377382 AC
131 AC
4377384 AAAAGATAAT
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
131 120 0.92
132 10 0.08
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (132 bp):
TAAATATTTTATATAATAATTTAGTTTTAATATATAAATTAAGAGTTAAAATTCTATTATAATTA
ACTGTTCAAAATTGAAAATAACTTTATTGAGACATTATGGAAAAATAATTAAAATATGATATAAT
AC
Found at i:4377288 original size:18 final size:19
Alignment explanation
Indices: 4377258--4377294 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4377248 ATACTAAATA
4377258 TTTTATATAAT-AATTTAG
1 TTTTATATAATAAATTTAG
4377276 TTTTA-ATATATAAATTTAG
1 TTTTATATA-ATAAATTTAG
4377295 AGTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 7 0.41
19 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTATATAATAAATTTAG
Found at i:4379054 original size:18 final size:18
Alignment explanation
Indices: 4379031--4379067 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4379021 TACTCATTCT
4379031 TTTGCTCATCATTACAGG
1 TTTGCTCATCATTACAGG
4379049 TTTGCTCATCATTACAGG
1 TTTGCTCATCATTACAGG
4379067 T
1 T
4379068 GCCTAACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTGCTCATCATTACAGG
Found at i:4380715 original size:100 final size:100
Alignment explanation
Indices: 4380532--4380727 Score: 374
Period size: 100 Copynumber: 2.0 Consensus size: 100
4380522 AGGAATAATA
*
4380532 AAATAACACAAAAAAATAAAAATAAATAATAATGAGATAATAATGACAATATAAAAAAATGTACA
1 AAATAACACAAAAAAATAAAAATAAATAATAATGAGATAATAATGACAATAGAAAAAAATGTACA
4380597 AATATGAACAATATAAATTTTAAAATAAAAAACAT
66 AATATGAACAATATAAATTTTAAAATAAAAAACAT
*
4380632 AAATAACACAAAAAAATAAAAATAAATAATAATGAGATAATAATGACAATAGAACAAAATGTACA
1 AAATAACACAAAAAAATAAAAATAAATAATAATGAGATAATAATGACAATAGAAAAAAATGTACA
4380697 AATATGAACAATATAAATTTTAAAATAAAAA
66 AATATGAACAATATAAATTTTAAAATAAAAA
4380728 GCAAGGGAAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (100 bp):
AAATAACACAAAAAAATAAAAATAAATAATAATGAGATAATAATGACAATAGAAAAAAATGTACA
AATATGAACAATATAAATTTTAAAATAAAAAACAT
Found at i:4381519 original size:18 final size:19
Alignment explanation
Indices: 4381483--4381528 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
4381473 CTTTTTGTAA
*
4381483 TTGGACTTGTAATTTTTAT
1 TTGGGCTTGTAATTTTTAT
4381502 TTGGGCTTGTAA-TTTTAT
1 TTGGGCTTGTAATTTTTAT
4381520 TTGGG-TTGT
1 TTGGGCTTGT
4381529 TTGTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
19 11 0.42
ACGTcount: A:0.15, C:0.04, G:0.24, T:0.57
Consensus pattern (19 bp):
TTGGGCTTGTAATTTTTAT
Found at i:4382633 original size:19 final size:19
Alignment explanation
Indices: 4382596--4382634 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4382586 TTATAAAGGC
*
4382596 TTAAAAATATATACATATA
1 TTAAAAATATACACATATA
* *
4382615 TTAAAAATATGCACCTATA
1 TTAAAAATATACACATATA
4382634 T
1 T
4382635 ATTATATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (19 bp):
TTAAAAATATACACATATA
Found at i:4384522 original size:44 final size:44
Alignment explanation
Indices: 4384362--4384711 Score: 219
Period size: 44 Copynumber: 7.8 Consensus size: 44
4384352 CAGTATAGGG
* * * *
4384362 AGACAAGATCTG-TTGTCTTTGATCTATTTCACGCCAATACATGA
1 AGACAAGATCTGCTT-TCTTCGATCTACTTCAAGCCAGTACATGA
* * ***
4384406 AGACAAGATCTACTTTTTCCTTCGATCTACTTTGCCA-CCAGTATGGGA
1 AGACAAGATCTGC--TTT-CTTCGATCTAC-TT-CAAGCCAGTACATGA
* * *
4384454 AGACAAGATCT-ATTATCTTTGATCTACTTCAAGCTAGTACATGA
1 AGACAAGATCTGCTT-TCTTCGATCTACTTCAAGCCAGTACATGA
* * ** * ***
4384498 AGACAATATTTGCTTTCTTCGATCTTTTTCGCCA-CCAGTATGGGA
1 AGACAAGATCTGCTTTCTTCGATCTACTT--CAAGCCAGTACATGA
* * *
4384543 AGACAAGATCTG-TTACCTTTGATCTACTTCACGCCAGTACATGA
1 AGACAAGATCTGCTT-TCTTCGATCTACTTCAAGCCAGTACATGA
** * ***
4384587 AGACAAGATCTGCTTTCTTCGATCTGTTTCGCCA-CCAGTATGGGA
1 AGACAAGATCTGCTTTCTTCGATCTACTT--CAAGCCAGTACATGA
* * *
4384632 AGACAAGATCTG-TTATCTTTGATTTACTTCACGCCAGTACATGA
1 AGACAAGATCTGCTT-TCTTCGATCTACTTCAAGCCAGTACATGA
* * *
4384676 AGACAATATTTGCTTTCTTCGATCTACTTCACGCCA
1 AGACAAGATCTGCTTTCTTCGATCTACTTCAAGCCA
4384712 ATATAGAGAG
Statistics
Matches: 227, Mismatches: 60, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
43 4 0.02
44 111 0.49
45 75 0.33
46 5 0.02
47 11 0.05
48 20 0.09
49 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (44 bp):
AGACAAGATCTGCTTTCTTCGATCTACTTCAAGCCAGTACATGA
Found at i:4384553 original size:89 final size:89
Alignment explanation
Indices: 4384295--4384700 Score: 522
Period size: 89 Copynumber: 4.6 Consensus size: 89
4384285 TCTGCTGCGC
* * * *
4384295 TTGATCTACTTCACGCC---A-ATGAAAACAAGGTCTG-TTCTCTTCGATCTAC-TCCCCCACCA
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCTTCGATCT-CTTTCGCCACCA
*
4384354 GTATAGGG-AGACAAGATCTGTTGTCT
64 GTAT-GGGAAGACAAGATCTGTTATCT
* * *
4384380 TTGATCTATTTCACGCCAATACATGAAGACAAGATCTACTTTTTCCTTCGATCTACTTT-GCCAC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCT-CTTTCGCCAC
*
4384444 CAGTATGGGAAGACAAGATCTATTATCT
62 CAGTATGGGAAGACAAGATCTGTTATCT
* * * * *
4384472 TTGATCTACTTCAAGCTAGTACATGAAGACAATATTTGCTTTCTTCGATCTTTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTCTTTCGCCACCAGT
*
4384537 ATGGGAAGACAAGATCTGTTACCT
66 ATGGGAAGACAAGATCTGTTATCT
*
4384561 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTCTTTCGCCACCAGT
4384626 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
4384650 TTGATTTACTTCACGCCAGTACATGAAGACAATATTTGCTTTCTTCGATCT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
4384701 ACTTCACGCC
Statistics
Matches: 283, Mismatches: 27, Indels: 18
0.86 0.08 0.05
Matches are distributed among these distances:
85 16 0.06
88 4 0.01
89 184 0.65
90 3 0.01
91 4 0.01
92 71 0.25
93 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTCTTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:4384791 original size:45 final size:45
Alignment explanation
Indices: 4384742--4385060 Score: 146
Period size: 44 Copynumber: 7.2 Consensus size: 45
4384732 TATCTTTGAT
* *
4384742 CTGCTTCACTGTCGGTACAAGAAGGCAAGATATGCTATCTTCAAC
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* *** * * * * *
4384787 CTGCTCCACT-ACGACCCAAGGAGGCAAG-GCTGATATCTTCGAT
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* * *
4384830 CTGCTTCACTGTTGGTATAAGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* **** * * * * * * *
4384875 CTGCTCCACT-ACAACCCAGGGAGACAAG-GCTGGTATCTTCGAT
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* * * * * *
4384918 CTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAAC
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* **** * * * * * * *
4384963 CTGCTCCACT-ACAACCCAGGGAGACAAG-GCTGGTATCTTCGAT
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
* * * * * *
4385006 CTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAAC
1 CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
4385051 CTGCTCCACT
1 CTGCTCCACT
4385061 ACAACCCAGG
Statistics
Matches: 189, Mismatches: 79, Indels: 12
0.68 0.28 0.04
Matches are distributed among these distances:
43 56 0.30
44 68 0.36
45 65 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
CTGCTCCACTGTCGGTACAAGAAGGCAAGATCTGCTATCTTCAAC
Found at i:4384813 original size:88 final size:88
Alignment explanation
Indices: 4384723--4385135 Score: 646
Period size: 88 Copynumber: 4.7 Consensus size: 88
4384713 TATAGAGAGG
* * * * * * *
4384723 CAAGGCTGGTATCTTTGATCTGCTTCACTGTCGGTACAAGAAGGCAAGATATGCTATCTTCAACC
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
* * *
4384788 TGCTCCACTACGACCCAAGGAGG
66 TGCTCCACTACAACCCAGGGAGA
* * * * ** * *
4384811 CAAGGCTGATATCTTCGATCTGCTTCACTGTTGGTATAAGAAGGCAAGATCTGCTATCTTCAACC
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
4384876 TGCTCCACTACAACCCAGGGAGA
66 TGCTCCACTACAACCCAGGGAGA
4384899 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
4384964 TGCTCCACTACAACCCAGGGAGA
66 TGCTCCACTACAACCCAGGGAGA
4384987 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
4385052 TGCTCCACTACAACCCAGGGAGA
66 TGCTCCACTACAACCCAGGGAGA
* *
4385075 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAACCACTATCTTC
1 CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTC
4385136 NNNNNNNNNN
Statistics
Matches: 307, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 307 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (88 bp):
CAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTACTATCTTCAACC
TGCTCCACTACAACCCAGGGAGA
Found at i:4385135 original size:45 final size:45
Alignment explanation
Indices: 4384908--4385135 Score: 176
Period size: 44 Copynumber: 5.2 Consensus size: 45
4384898 ACAAGGCTGG
*
4384908 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTAC
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
* * * * * * ** * * **
4384953 TATCTTCAACCTGCTCCACT-ACAACCCAGGGAGACAAG-GCTGG
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
*
4384996 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTAC
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
* * * * * * ** * * **
4385041 TATCTTCAACCTGCTCCACT-ACAACCCAGGGAGACAAG-GCTGG
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
* *
4385084 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAACCAC
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
4385129 TATCTTC
1 TATCTTC
4385136 NNNNNNNNNN
Statistics
Matches: 126, Mismatches: 53, Indels: 8
0.67 0.28 0.04
Matches are distributed among these distances:
43 36 0.29
44 48 0.38
45 42 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (45 bp):
TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGAGCTAC
Found at i:4386974 original size:19 final size:20
Alignment explanation
Indices: 4386946--4386987 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
4386936 ATAGTTTGGC
4386946 AAAAAGAATC-TGAAAGAATG
1 AAAAAGAATCGT-AAAGAATG
4386966 AAAAA-AATCGTAAAGAATG
1 AAAAAGAATCGTAAAGAATG
4386985 AAA
1 AAA
4386988 GAACATTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.64, C:0.05, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAAAGAATCGTAAAGAATG
Found at i:4388871 original size:19 final size:19
Alignment explanation
Indices: 4388847--4388892 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4388837 AACGATGTCT
* *
4388847 AATGCATATG-ATGTAATG
1 AATGCAAATGCATGAAATG
4388865 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
4388885 AATGCAAA
1 AATGCAAA
4388893 AAAGAGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.24
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:4390972 original size:19 final size:19
Alignment explanation
Indices: 4390935--4390973 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4390925 TTATAAAGGC
*
4390935 TTAAAAATATATACATATA
1 TTAAAAATATACACATATA
* *
4390954 TTAAAAATATGCACCTATA
1 TTAAAAATATACACATATA
4390973 T
1 T
4390974 ATTATATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (19 bp):
TTAAAAATATACACATATA
Found at i:4392048 original size:19 final size:19
Alignment explanation
Indices: 4392011--4392049 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4392001 TTATAAAGGC
*
4392011 TTAAAAATATATACATATA
1 TTAAAAATATACACATATA
* *
4392030 TTAAAAATATGCACCTATA
1 TTAAAAATATACACATATA
4392049 T
1 T
4392050 ATTATATGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (19 bp):
TTAAAAATATACACATATA
Found at i:4394737 original size:39 final size:38
Alignment explanation
Indices: 4394672--4394749 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
4394662 GTATATTAGA
* * *
4394672 ATTAGTGGCGCTTTTTGGATATCGCCGCTAAAGTATATT
1 ATTAGCGGCGCTTTTTGGATAGCGCCGCAAAAG-ATATT
*
4394711 ATTAGCGGCGCTTTTT-TATAAGCGCCGCAAAAGATATT
1 ATTAGCGGCGCTTTTTGGAT-AGCGCCGCAAAAGATATT
4394749 A
1 A
4394750 ACAAAAACGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 8 0.24
39 26 0.76
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (38 bp):
ATTAGCGGCGCTTTTTGGATAGCGCCGCAAAAGATATT
Found at i:4394888 original size:115 final size:115
Alignment explanation
Indices: 4394387--4394888 Score: 343
Period size: 115 Copynumber: 4.4 Consensus size: 115
4394377 CATGTTGTGG
* ** * * * *
4394387 TAAGCACCGCAAAACCTCTTAACCAAAACGCAGAGTTTGGTATTGAGGTATACTAGAATTAGTGG
1 TAAGCGCCGCAAAATGTATTAACCAAAACGCAGCGTTTTGTCTTGAGGTATACTAGAATTAGTGG
** * * * * ** *
4394452 CGC-AGAGCGA-ACA-CACCACTAATGCATACTATTAGCGGCGC-TTTCGTA
66 CGCTTCA-CGAGAAATCGCCGCTAAAGCATTGTATTAGCGGCGCTTTTTG-A
* * * * * * * *
4394500 TAAGCGCCGCAAAATTTGA-CAACAAAAATGCAACGTTTTTGTCTCGATGTATAC-AG-TTGCTA
1 TAAGCGCCGCAAAATGT-ATTAACCAAAACGCAGCG-TTTTGTCTTGAGGTATACTAGAAT--TA
* * * *
4394562 GTGGCGCATAT-A-AAGAAA-CGCCGCTAAATCATAGTATTAGCGGCGC-TTGTGCA
62 GTGGCGC-T-TCACGAGAAATCGCCGCTAAAGCATTGTATTAGCGGCGCTTTTTG-A
* * * * * * *
4394615 GAAGCGCCGCAAAATATACTCACCAAAACGCTGCGTTTT-TACATGAGGTATATTAGAATTAGTG
1 TAAGCGCCGCAAAATGTATTAACCAAAACGCAGCGTTTTGT-CTTGAGGTATACTAGAATTAGTG
*** * * *
4394679 GCGCTTTTTG-GATATCGCCGCTAAAGTATAT-TATTAGCGGCGCTTTTTTA
65 GCGCTTCACGAGAAATCGCCGCTAAAGCAT-TGTATTAGCGGCGCTTTTTGA
* * * *
4394729 TAAGCGCCGCAAAA-GATATTAACAAAAACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGT
1 TAAGCGCCGCAAAATG-TATTAACCAAAACGCAGCGTTT-TGTCTTGAGGTATACTAGAATTAGT
4394793 GGCG-TTCACGAGAAATCGCCGCTAAAGCATTGTATTAGCGGCGCTTTTTGA
64 GGCGCTTCACGAGAAATCGCCGCTAAAGCATTGTATTAGCGGCGCTTTTTGA
* *
4394844 TAAGCGCCGGAAAATGTATTAACCAAAACGCAGAGTTTTGGTCTT
1 TAAGCGCCGCAAAATGTATTAACCAAAACGCAGCGTTTT-GTCTT
4394889 AACCATGCAT
Statistics
Matches: 298, Mismatches: 67, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
112 2 0.01
113 32 0.11
114 106 0.36
115 154 0.52
116 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (115 bp):
TAAGCGCCGCAAAATGTATTAACCAAAACGCAGCGTTTTGTCTTGAGGTATACTAGAATTAGTGG
CGCTTCACGAGAAATCGCCGCTAAAGCATTGTATTAGCGGCGCTTTTTGA
Found at i:4394972 original size:21 final size:20
Alignment explanation
Indices: 4394948--4394986 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4394938 TTTGGTCTAT
*
4394948 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
4394969 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
4394987 AATATGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:4408570 original size:21 final size:21
Alignment explanation
Indices: 4408545--4408615 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
4408535 CAGCAACTTA
* *
4408545 AAGCAGAGGCGGCAGCGAGTG
1 AAGCAGAGGCCGCAGCGAGAG
** *
4408566 AAGCAGAGGCTACAGCGAGAC
1 AAGCAGAGGCCGCAGCGAGAG
4408587 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
4408608 AAGCAGAG
1 AAGCAGAG
4408616 AGAGAAGCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.35, C:0.21, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:4408618 original size:12 final size:12
Alignment explanation
Indices: 4408598--4408639 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4408588 AGCAGAGGCC
*
4408598 GCAGCGAGAGAA
1 GCAGAGAGAGAA
4408610 GCAGAGAGAGAA
1 GCAGAGAGAGAA
*
4408622 GCAGCA-ATAGAA
1 GCAG-AGAGAGAA
4408634 GCAGAG
1 GCAGAG
4408640 GTTCAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.45, C:0.14, G:0.38, T:0.02
Consensus pattern (12 bp):
GCAGAGAGAGAA
Found at i:4409112 original size:42 final size:42
Alignment explanation
Indices: 4409058--4409390 Score: 485
Period size: 42 Copynumber: 7.9 Consensus size: 42
4409048 TTTGTGAAAT
**
4409058 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCG-TTTTTGAA
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCA
* *
4409099 CAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTGTTTCT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
* * *
4409142 ATGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTTTTT-T
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
*
4409183 AAGCGCCGCTAAAGAACATGATCTTTAGAGGCGTTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTCA
*
4409226 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
*
4409268 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
* * *
4409310 AAGCGCCGCTAAAGAACATGATCTTTAACGGCATTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
4409352 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
4409391 ATGTAAGCGC
Statistics
Matches: 269, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
41 33 0.12
42 199 0.74
43 37 0.14
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCA
Found at i:4409511 original size:22 final size:22
Alignment explanation
Indices: 4409480--4409522 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4409470 TAGTGGCGTT
* *
4409480 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAAACCTA
4409502 AAAAAACGCCGCTAAAAACCT
1 AAAAAACGCCGCTAAAAACCT
4409523 GTTCTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:4412017 original size:18 final size:16
Alignment explanation
Indices: 4411985--4412020 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
4411975 ATGGGATGAG
4411985 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
4412001 AATAAATTTAATTAATTA
1 AATAAATTT--TTAATTA
4412019 AA
1 AA
4412021 AATTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:4412323 original size:38 final size:38
Alignment explanation
Indices: 4412272--4412347 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
4412262 CCTCCTTTCT
*
4412272 CAACCAAACCCTCCATTTCAATTTGTTGTTCTTCAAAA
1 CAACCAAACCCTCCATTTCAATTTGCTGTTCTTCAAAA
4412310 CAACCAAACCCTCCATTTCAATTTGCTGTTCTTCAAAA
1 CAACCAAACCCTCCATTTCAATTTGCTGTTCTTCAAAA
4412348 GGACCAGGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (38 bp):
CAACCAAACCCTCCATTTCAATTTGCTGTTCTTCAAAA
Found at i:4416117 original size:104 final size:105
Alignment explanation
Indices: 4415990--4416201 Score: 417
Period size: 104 Copynumber: 2.0 Consensus size: 105
4415980 TTAAAATTAT
4415990 AATAAATATTTGAATTTCAAATTAATTATGATTATCGAGTTACAATTTATTTAAATATTTAACAA
1 AATAAATATTTGAATTTCAAATTAATTATGATTATCGAGTTACAATTTATTTAAATATTTAACAA
4416055 CTATTATGATGAATTACTATAAATATGAAAAGGAAATTGA
66 CTATTATGATGAATTACTATAAATATGAAAAGGAAATTGA
4416095 AATAAATA-TTGAATTTCAAATTAATTATGATTATCGAGTTACAATTTATTTAAATATTTAACAA
1 AATAAATATTTGAATTTCAAATTAATTATGATTATCGAGTTACAATTTATTTAAATATTTAACAA
4416159 CTATTATGATGAATTACTATAAATATGAAAAGGAAATTGA
66 CTATTATGATGAATTACTATAAATATGAAAAGGAAATTGA
4416199 AAT
1 AAT
4416202 GAAAAGAACT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 99 0.93
105 8 0.07
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (105 bp):
AATAAATATTTGAATTTCAAATTAATTATGATTATCGAGTTACAATTTATTTAAATATTTAACAA
CTATTATGATGAATTACTATAAATATGAAAAGGAAATTGA
Found at i:4417216 original size:2 final size:2
Alignment explanation
Indices: 4417209--4417239 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4417199 AGCATCTAAG
4417209 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4417240 AGAGAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4419728 original size:8 final size:7
Alignment explanation
Indices: 4419685--4419751 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
4419675 TATTTAACCG
4419685 ATTTTTT
1 ATTTTTT
4419692 ATTTTTT
1 ATTTTTT
*
4419699 ATTATTT
1 ATTTTTT
4419706 ATTTATCGTTT
1 A-TT-T--TTT
4419717 ATTTTTT
1 ATTTTTT
4419724 CATTTTTT
1 -ATTTTTT
*
4419732 ATTTTAAT
1 ATTTT-TT
*
4419740 ATTTTAT
1 ATTTTTT
4419747 ATTTT
1 ATTTT
4419752 ACGTTCTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 29 0.57
8 15 0.29
9 1 0.02
10 2 0.04
11 4 0.08
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:4424479 original size:137 final size:138
Alignment explanation
Indices: 4424218--4424492 Score: 444
Period size: 137 Copynumber: 2.0 Consensus size: 138
4424208 CATATAACTA
4424218 TGTTCTGTCGAAGAATGACAGGATACGTCAATAATGATCAACTATTAATCCACTGCTTCCAGGAC
1 TGTTCTGTCGAAGAATGACAGGATACGTCAATAATGATCAACTATTAATCCACTGCTTCCAGGAC
* * * *
4424283 AGTTTGATTGGATCTGCAGCCAAGTGGTACAACCAGCTGAGTCGTGCTAAAGTTAGTTCATGGAA
66 AGTTTGATCGGATCTGCAGCCAAATGGTACAACCAGCTAAGTCGTACTAAAGTTAGTTCATGGAA
4424348 AGACTTGG
131 AGACTTGG
* * *
4424356 TGTTCTGTCG-AGAATGACAGGATACGTCAATAATGATCAACTGTTAATCCACTGCTTTCAGGAT
1 TGTTCTGTCGAAGAATGACAGGATACGTCAATAATGATCAACTATTAATCCACTGCTTCCAGGAC
* * * *
4424420 AGTTTGATCGGGTCTGCAGCTAAATGGTACAACCAGCTAAGTCGTACTAAAGTTGGTTCATGGAG
66 AGTTTGATCGGATCTGCAGCCAAATGGTACAACCAGCTAAGTCGTACTAAAGTTAGTTCATGGAA
4424485 AGACTTGG
131 AGACTTGG
4424493 CGCAAGCTTT
Statistics
Matches: 126, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 116 0.92
138 10 0.08
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (138 bp):
TGTTCTGTCGAAGAATGACAGGATACGTCAATAATGATCAACTATTAATCCACTGCTTCCAGGAC
AGTTTGATCGGATCTGCAGCCAAATGGTACAACCAGCTAAGTCGTACTAAAGTTAGTTCATGGAA
AGACTTGG
Found at i:4431654 original size:15 final size:16
Alignment explanation
Indices: 4431634--4431665 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4431624 TGACATTCTG
4431634 CATTC-ATGCAAATAT
1 CATTCAATGCAAATAT
4431649 CATTCAATGCAAATAT
1 CATTCAATGCAAATAT
4431665 C
1 C
4431666 GTCCATACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (16 bp):
CATTCAATGCAAATAT
Found at i:4432132 original size:82 final size:82
Alignment explanation
Indices: 4431995--4432564 Score: 836
Period size: 82 Copynumber: 7.0 Consensus size: 82
4431985 NNNNNNNNNN
4431995 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
*
4432060 AGTAGTTGAGCAGATCA
66 AGTAGTGGAGCAGATCA
4432077 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
*
4432142 AGTAGTGGAGTAGATCA
66 AGTAGTGGAGCAGATCA
* * *
4432159 CATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGACAGAG-CAGCAGATCTTATCTCCCTAAG
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCA-CAGATCTTATCTCCCTAAG
*
4432223 CAGTAGTTGAGCAGATCA
65 CAGTAGTGGAGCAGATCA
* * *
4432241 CATCAAGTCTTATCTCCCTAAGCAGTAGCAGAGCGGACAAAGCCACAGATCTTATCTCCTTAAGC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
* *
4432306 AATAGTGGAGCAGATCG
66 AGTAGTGGAGCAGATCA
* * * * *
4432323 CATCAAGTCTTATCTCCCTAAGTAGTAGCAGAGCGGACAAAACCACAGATCTTATCTCCCTAAAC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
*
4432388 AGTAGTGGAGCAGATCG
66 AGTAGTGGAGCAGATCA
* * * * * *
4432405 CATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACAAAACTACAAACCTTATCTCCCTAAGC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
* *
4432470 AATAGTGGAGCAGATCG
66 AGTAGTGGAGCAGATCA
* * * * * *
4432487 CATCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGGCAAAACAACAGACCTTATCTCCCTAAGC
1 CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
*
4432552 AGCAGTGGAGCAG
66 AGTAGTGGAGCAG
4432565 GTTGAAGACA
Statistics
Matches: 448, Mismatches: 38, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
81 2 0.00
82 444 0.99
83 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (82 bp):
CATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAAAGCCACAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCA
Found at i:4434067 original size:8 final size:7
Alignment explanation
Indices: 4434024--4434090 Score: 53
Period size: 7 Copynumber: 8.7 Consensus size: 7
4434014 TATTTAACCG
4434024 ATTTTTT
1 ATTTTTT
4434031 ATTTTTT
1 ATTTTTT
*
4434038 ATTATTT
1 ATTTTTT
4434045 ATTTATCGTTT
1 A-TT-T--TTT
4434056 ATTTTTT
1 ATTTTTT
4434063 CATTTTTT
1 -ATTTTTT
*
4434071 ATTTTAAT
1 ATTTT-TT
*
4434079 ATTTTAT
1 ATTTTTT
4434086 ATTTT
1 ATTTT
4434091 ACGTTCTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 29 0.57
8 15 0.29
9 1 0.02
10 2 0.04
11 4 0.08
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:4434626 original size:15 final size:16
Alignment explanation
Indices: 4434595--4434627 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4434585 ATATCCTTTT
*
4434595 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
4434611 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
4434626 AA
1 AA
4434628 GGCAATACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:4439793 original size:3 final size:3
Alignment explanation
Indices: 4439785--4439819 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
4439775 ATTACAACAT
* *
4439785 ATA ATA ATA ATA GTA ATA ATA ATA ATG ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4439820 CAAATTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4441351 original size:40 final size:39
Alignment explanation
Indices: 4441306--4441440 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 39
4441296 GTTTGGAACA
*
4441306 AAAGCGCCACAAAAAATCAAGCATTAGCGGCGATTTAGCC
1 AAAGCGCCACAAAAAAT-AAGCATTAGCGGCGATTTATCC
* * ** *
4441346 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-TCC
1 AAAGCGCCACAAAAAATA-AGCATTAGCGGCGATTTATCC
* * * * * * **
4441385 GGAAGCGCCGCTAAAAATAGGAATTAGCGGCGTTTTATAT
1 -AAAGCGCCACAAAAAATAAGCATTAGCGGCGATTTATCC
4441425 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
4441441 CCTAAGAACA
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
39 29 0.39
40 45 0.61
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (39 bp):
AAAGCGCCACAAAAAATAAGCATTAGCGGCGATTTATCC
Found at i:4441536 original size:41 final size:41
Alignment explanation
Indices: 4441479--4441675 Score: 184
Period size: 41 Copynumber: 4.8 Consensus size: 41
4441469 TTTTTTAAAC
* *
4441479 CTTTAGCGGCATTTTTATCTAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGT
* * *
4441520 CTTTAGCGGCGTTTTTATCTGACCGCCGCTAATGCTCTGGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGT
* * * * *
4441561 CTTTGGCGGCGTTTTTGAT-TGAGCGCCACTAATTCTCTTGT
1 CTTTAGCGGCGTTTTT-ATCTAAGCGCCGCTAATGCTCTGGT
* * * * *
4441602 CTTCAGCGGCGTTTGTAGCTAAGCGCCGCTAATG-TAT-TT
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGT
** *
4441641 ACCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 --CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
4441676 AGTAACAAAA
Statistics
Matches: 127, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 121 0.95
42 2 0.02
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGT
Found at i:4441668 original size:82 final size:82
Alignment explanation
Indices: 4441477--4441675 Score: 204
Period size: 82 Copynumber: 2.4 Consensus size: 82
4441467 GATTTTTTAA
* * * * * * *
4441477 ACCTTTAGCGGCATTTTTATCTAAGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTATCTGA
1 ACCTTTAGCGGCGTTTTTGTCGAAGCGCCGCTAATGCTCGGGTCTTCAGCGGCGTTTGTAGCTAA
4441542 CCGCCGCTAATGCTCTG
66 CCGCCGCTAATGCTCTG
* * * * * **
4441559 GCCTTTGGCGGCGTTTTTGATTG-AGCGCCACTAATTCTCTTGTCTTCAGCGGCGTTTGTAGCTA
1 ACCTTTAGCGGCGTTTTTG-TCGAAGCGCCGCTAATGCTCGGGTCTTCAGCGGCGTTTGTAGCTA
* * *
4441623 AGCGCCGCTAATG-TATTT
65 ACCGCCGCTAATGCT-CTG
*
4441641 ACCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 ACCTTTAGCGGCGTTTTTGTCGAAGCGCCGCTAAT
4441676 AGTAACAAAA
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
81 2 0.02
82 89 0.97
83 1 0.01
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.34
Consensus pattern (82 bp):
ACCTTTAGCGGCGTTTTTGTCGAAGCGCCGCTAATGCTCGGGTCTTCAGCGGCGTTTGTAGCTAA
CCGCCGCTAATGCTCTG
Found at i:4454614 original size:43 final size:43
Alignment explanation
Indices: 4454566--4454769 Score: 246
Period size: 43 Copynumber: 4.7 Consensus size: 43
4454556 AGGTGTTGGC
* * * * *
4454566 CTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAATATAAGGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * * *
4454609 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTCAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* * *
4454652 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
* *** *
4454695 CTTTAGTGGCGTTTGTGGTTGAAGCGCCGCTAGAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
*
4454738 CTTTTGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
4454770 TAGACCAACA
Statistics
Matches: 134, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 134 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCAGGGT
Found at i:4454920 original size:22 final size:22
Alignment explanation
Indices: 4454888--4454930 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4454878 TTGCGGCGCT
*
4454888 AAAAAGAGCCGCTAAAGGCCTA
1 AAAAAGAGCCGCTAAAAGCCTA
*
4454910 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGAGCCGCTAAAAGCCT
4454931 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGAGCCGCTAAAAGCCTA
Found at i:4460548 original size:21 final size:22
Alignment explanation
Indices: 4460514--4460557 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
4460504 AAAGTACATT
*
4460514 TATATTATATATAAAT-TAAATA
1 TATACTATATAT-AATCTAAATA
4460536 TATACTAT-TATAATCTAAATA
1 TATACTATATATAATCTAAATA
4460557 T
1 T
4460558 TAAAATACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATACTATATATAATCTAAATA
Found at i:4463443 original size:2 final size:2
Alignment explanation
Indices: 4463436--4463460 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4463426 ACATATAAGC
4463436 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4463461 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4464509 original size:2 final size:2
Alignment explanation
Indices: 4464502--4464534 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4464492 NNNNNNNNNN
4464502 TA TA 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 TA TA T
4464535 TAGACACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4474337 original size:27 final size:29
Alignment explanation
Indices: 4474298--4474352 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
4474288 CGAAAAAACA
4474298 GAGAGAAGAAGAAGA-AGAAAAGAGAATTT
1 GAGAGAAGAAGAAGAGA-AAAAGAGAATTT
4474327 GAGAG-AG-AGAAGAGAAAAAGAGAATT
1 GAGAGAAGAAGAAGAGAAAAAGAGAATT
4474353 CTGAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 17 0.68
28 3 0.12
29 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (29 bp):
GAGAGAAGAAGAAGAGAAAAAGAGAATTT
Found at i:4476603 original size:3 final size:3
Alignment explanation
Indices: 4476589--4476705 Score: 114
Period size: 3 Copynumber: 39.3 Consensus size: 3
4476579 AAGTAGAAAT
* * * *
4476589 ATA ATG ATA ATA ATA A-C ATAA ATA TTA ATA ATA ATA ACA A-A GATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
* *
4476634 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATG ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
4476681 ATA ATA GTA ATA TTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4476706 GAATGCTAAG
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
2 4 0.04
3 85 0.92
4 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4478352 original size:87 final size:90
Alignment explanation
Indices: 4478278--4479124 Score: 371
Period size: 90 Copynumber: 9.9 Consensus size: 90
4478268 TCTGTGGTTC
* * *
4478278 TAATCCGCTCCGCTGCAA-CTTAGGGAGACAGGAT-TACTA-GCTTCAATCTACTCCGCTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
4478340 CTCAGGGAGATAAGATTACTATCTT
66 CTCAGGGAGATAAGATTACTATCTT
* * * * * * **
4478365 TGATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
* *
4478430 CTCAGGGAGATAAGA--CCTGA--TA
66 CTCAGGGAGATAAGATTACT-ATCTT
* * ** * * * **
4478452 TGATCCACTCTACTGTAA-CTTCAGAGAGATAAGA--T-C-AT--TT-AATCCGCTCCACTGTAA
1 TAATCCGCTCCGCTGCAATCTT-AGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAA
* *
4478509 TCTCAAGGAGATAGGATTACTATCTT
65 TCTCAGGGAGATAAGATTACTATCTT
* * * * * * * **
4478535 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
* *
4478600 CTCAGGGAGATAAGA--CCTGA--TA
66 CTCAGGGAGATAAGATTACT-ATCTT
* * ** * * *
4478622 TGATCCACTCTACTGTAA-CTTCAGAGAGATAAGATC--C--T--TT-AATC-AGCTCCACTGTA
1 TAATCCGCTCCGCTGCAATCTT-AGGGAGACAAGATCTACAATGCTTCAATCTA-CTCCACTGTA
* *
4478678 ATCTCAAGGAGATAGGATTACTATCTT
64 ATCTCAGGGAGATAAGATTACTATCTT
* * * * * * * **
4478705 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
* *
4478770 CTCAGGGAGATAAGA--CCTGA--TA
66 CTCAGGGAGATAAGATTACT-ATCTT
* * ** * * *
4478792 TGATCCACTCTACTGTAA-CTTCAGAGAGATAAGATC--C--T--TT-AATC-AGCTCCACTGTA
1 TAATCCGCTCCGCTGCAATCTT-AGGGAGACAAGATCTACAATGCTTCAATCTA-CTCCACTGTA
* *
4478848 ATCTCAAGGAGATAGGATTACTATCTT
64 ATCTCAGGGAGATAAGATTACTATCTT
* * * * * * * **
4478875 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
* *
4478940 CTCAGGGAGATAAGA--CCTGA--TA
66 CTCAGGGAGATAAGATTACT-ATCTT
* * ** * * *
4478962 TGATCCACTCTACTGTAA-CTTCAGAGAGATAAGATC--C--T--TT-AATC-AGCTCCACTGTA
1 TAATCCGCTCCGCTGCAATCTT-AGGGAGACAAGATCTACAATGCTTCAATCTA-CTCCACTGTA
* *
4479018 ATCTCAAGGAGATAGGATTACTATCTT
64 ATCTCAGGGAGATAAGATTACTATCTT
* * * * * * * ** *
4479045 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAAT
1 TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
4479110 CTCAGGGAGATAAGA
66 CTCAGGGAGATAAGA
4479125 CCTGATANNN
Statistics
Matches: 584, Mismatches: 111, Indels: 127
0.71 0.14 0.15
Matches are distributed among these distances:
79 3 0.01
80 108 0.18
81 12 0.02
82 8 0.01
83 115 0.20
84 9 0.02
85 8 0.01
86 10 0.02
87 130 0.22
88 22 0.04
89 15 0.03
90 142 0.24
91 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (90 bp):
TAATCCGCTCCGCTGCAATCTTAGGGAGACAAGATCTACAATGCTTCAATCTACTCCACTGTAAT
CTCAGGGAGATAAGATTACTATCTT
Found at i:4478481 original size:41 final size:41
Alignment explanation
Indices: 4478417--4479130 Score: 292
Period size: 46 Copynumber: 16.8 Consensus size: 41
4478407 TCTTCGGTCT
* *
4478417 ACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTGATTTGATCC
* * *
4478458 ACTCTACTGTAA-CTTCAGAGAGATAAGA--TCATTTAATCC
1 ACTCCACTGTAATC-TCAGAGAGATAAGACCTGATTTGATCC
* * * *
4478497 GCTCCACTGTAATCTCA-AGGAGATAGGATTACT-ATCTTTGATCT
1 ACTCCACTGTAATCTCAGA-GAGATAAGA--CCTGA--TTTGATCC
* * * * * *
4478541 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTG--A-T-TT-GATCC
* *
4478587 ACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTGATTTGATCC
* *
4478628 ACTCTACTGTAA-CTTCAGAGAGATAAGATCC---TTTAAT-C
1 ACTCCACTGTAATC-TCAGAGAGATAAGA-CCTGATTTGATCC
* * *
4478666 AGCTCCACTGTAATCTCA-AGGAGATAGGATTACT-ATCTTTGATCT
1 A-CTCCACTGTAATCTCAGA-GAGATAAGA--CCTGA--TTTGATCC
* * * * * *
4478711 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTG--A-T-TT-GATCC
* *
4478757 ACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTGATTTGATCC
* *
4478798 ACTCTACTGTAA-CTTCAGAGAGATAAGATCC---TTTAAT-C
1 ACTCCACTGTAATC-TCAGAGAGATAAGA-CCTGATTTGATCC
* * *
4478836 AGCTCCACTGTAATCTCA-AGGAGATAGGATTACT-ATCTTTGATCT
1 A-CTCCACTGTAATCTCAGA-GAGATAAGA--CCTGA--TTTGATCC
* * * * * *
4478881 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTG--A-T-TT-GATCC
* *
4478927 ACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTGATTTGATCC
* *
4478968 ACTCTACTGTAA-CTTCAGAGAGATAAGATCC---TTTAAT-C
1 ACTCCACTGTAATC-TCAGAGAGATAAGA-CCTGATTTGATCC
* * *
4479006 AGCTCCACTGTAATCTCA-AGGAGATAGGATTACT-ATCTTTGATCT
1 A-CTCCACTGTAATCTCAGA-GAGATAAGA--CCTGA--TTTGATCC
* * * * * *
4479051 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTG--A-T-TT-GATCC
* *
4479097 GCTCCACTGTAATCTCAGGGAGATAAGACCTGAT
1 ACTCCACTGTAATCTCAGAGAGATAAGACCTGAT
4479131 ANNNNNNNNN
Statistics
Matches: 523, Mismatches: 84, Indels: 130
0.71 0.11 0.18
Matches are distributed among these distances:
38 10 0.02
39 104 0.20
40 14 0.03
41 105 0.20
42 18 0.03
43 5 0.01
44 122 0.23
45 12 0.02
46 133 0.25
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (41 bp):
ACTCCACTGTAATCTCAGAGAGATAAGACCTGATTTGATCC
Found at i:4478534 original size:170 final size:170
Alignment explanation
Indices: 4478328--4479131 Score: 1545
Period size: 170 Copynumber: 4.7 Consensus size: 170
4478318 CTTCAATCTA
* * * *
4478328 CTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGCTCCGCTGTAATCTTAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
4478393 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
66 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
* *
4478458 ACTCTACTGTAACTTCAGAGAGATAAGATCATTTAATCCG
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
4478498 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
4478563 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
66 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
4478628 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
4478668 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
4478733 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
66 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
4478798 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
4478838 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
4478903 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
66 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
4478968 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
4479008 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
*
4479073 ATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATA
66 ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATA
4479132 NNNNNNNNNN
Statistics
Matches: 627, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 627 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (170 bp):
CTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATATGATCC
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCAG
Found at i:4490557 original size:109 final size:109
Alignment explanation
Indices: 4490384--4490677 Score: 403
Period size: 109 Copynumber: 2.7 Consensus size: 109
4490374 GTTAAACGAG
* * * * *
4490384 AAATCGAA-ACCCAGCACCTTAGGGCACG-TTCCTTGAATTTTCAAACGCAAAACATTGCTTTAT
1 AAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTAT
* * *
4490447 TTTGAAATTTTTGAAAGGATATTTAGCTATTTGGTTGAATGAGAA
65 TTTGAAATTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAA
4490492 AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* **
4490557 TTAAAATTCCTAAAAGGATATTTAGCTATTTGGTCGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAA
* * * * * *
4490601 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACACTAAATATTGCCTCAAT
1 AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
4490666 TTGAAATATTTT
66 TTGAAAT-TTTT
4490678 CCTTTTTTGA
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
107 2 0.01
108 24 0.15
109 135 0.83
110 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (109 bp):
AAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAA
Found at i:4490871 original size:11 final size:11
Alignment explanation
Indices: 4490855--4490887 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
4490845 AAATTCATGA
4490855 ATGAAAAATAT
1 ATGAAAAATAT
4490866 ATG-AAAATAT
1 ATGAAAAATAT
*
4490876 ATGAAAATTAT
1 ATGAAAAATAT
4490887 A
1 A
4490888 GAATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (11 bp):
ATGAAAAATAT
Found at i:4491128 original size:28 final size:27
Alignment explanation
Indices: 4491074--4491134 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
4491064 AATAAAATAA
*
4491074 ATATATTCATAAAAATGAATATGTATAC
1 ATATATTCATAAAAAAGAATA-GTATAC
*
4491102 ATATATTCATGAGAAAAAGAATA-TATAG
1 ATATATTCAT-A-AAAAAGAATAGTATAC
4491130 ATATA
1 ATATA
4491135 CACGTATNNN
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 19 0.66
29 1 0.03
30 9 0.31
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (27 bp):
ATATATTCATAAAAAAGAATAGTATAC
Found at i:4491477 original size:3 final size:3
Alignment explanation
Indices: 4491463--4491579 Score: 114
Period size: 3 Copynumber: 39.3 Consensus size: 3
4491453 AAGTAGAAAT
* * * *
4491463 ATA ATG ATA ATA ATA A-C ATAA ATA TTA ATA ATA ATA ACA A-A GATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA
* *
4491508 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATG ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
4491555 ATA ATA GTA ATA TTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4491580 GAATGCTAAG
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
2 4 0.04
3 85 0.92
4 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4502670 original size:28 final size:29
Alignment explanation
Indices: 4502639--4502700 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
4502629 ATAATGTATA
*
4502639 ATAAACAT-TAATAAA-AAATTAAAAATTT
1 ATAAACATAT-ATAAATAAACTAAAAATTT
* *
4502667 ATAAACATATATAAATGAACTAAAATTTT
1 ATAAACATATATAAATAAACTAAAAATTT
4502696 ATAAA
1 ATAAA
4502701 GTTGTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAAACATATATAAATAAACTAAAAATTT
Found at i:4504693 original size:81 final size:82
Alignment explanation
Indices: 4504592--4504769 Score: 268
Period size: 81 Copynumber: 2.2 Consensus size: 82
4504582 ATATATTATT
* **
4504592 CAAGGATTAAAAGAAGCATTACAAACTAGTATCATACAAGACAGGATTCTTAATGTTTTT-GACA
1 CAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAAGACAGGATTCTTAATGTTTTTCGACA
4504656 TATAACTAGCATTCATC
66 TATAACTAGCATTCATC
* * * *
4504673 CGAGGGTTAAAAGATCCATTACGAACTAGTATCATACAGGTCAGGATTCTTAATGTTTTTCGACA
1 CAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAAGACAGGATTCTTAATGTTTTTCGACA
* *
4504738 TATAACTTGTATTCATC
66 TATAACTAGCATTCATC
4504755 CAAGGGTTAAAAGAT
1 CAAGGGTTAAAAGAT
4504770 TCACTATTCT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 53 0.62
82 33 0.38
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (82 bp):
CAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAAGACAGGATTCTTAATGTTTTTCGACA
TATAACTAGCATTCATC
Found at i:4504807 original size:56 final size:57
Alignment explanation
Indices: 4504718--4504825 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 57
4504708 ACAGGTCAGG
* * **
4504718 ATTCTTAATGTTTTTCGACATATAACTTGTATTCATCCAAGGGTTAAAAGATTCACT
1 ATTCTTAATGTATTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATTCACT
4504775 ATTCTTAATG-ATTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGAT
1 ATTCTTAATGTATTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGAT
4504826 CCATTACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 37 0.79
57 10 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (57 bp):
ATTCTTAATGTATTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATTCACT
Found at i:4504933 original size:80 final size:81
Alignment explanation
Indices: 4504775--4504983 Score: 357
Period size: 80 Copynumber: 2.6 Consensus size: 81
4504765 AAGATTCACT
*
4504775 ATTCTTAATGATTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAG
1 ATTCTTAATGTTTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAG
*
4504840 TATCATACAGGACATG
66 TATCATACAGGACAGG
*
4504856 ATTCTTAATGTTTTCAACGTATAACTCATATTCATCCAA-GGTTAAAAGATCCATTACAAACTAG
1 ATTCTTAATGTTTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAG
4504920 TATCATACAGGACAGG
66 TATCATACAGGACAGG
** *
4504936 ATTCTTAATGTTTTTGACATATAACTCGTATTCATCCAAGGGTTAAAA
1 ATTCTTAATGTTTTCAACATATAACTCATATTCATCCAAGGGTTAAAA
4504984 AAGTTACCTT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 75 0.62
81 45 0.38
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (81 bp):
ATTCTTAATGTTTTCAACATATAACTCATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAG
TATCATACAGGACAGG
Found at i:4512231 original size:21 final size:20
Alignment explanation
Indices: 4512205--4512243 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4512195 TTATTTTAAA
4512205 ATTAAAAAAATTAACAAATAC
1 ATTAAAAAAATTAA-AAATAC
*
4512226 ATTAAAAATATTAAAAAT
1 ATTAAAAAAATTAAAAAT
4512244 TTATATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATTAAAAAAATTAAAAATAC
Found at i:4518843 original size:4 final size:4
Alignment explanation
Indices: 4518834--4518861 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4518824 GATTTACAGG
4518834 TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
4518862 AAACATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:4526180 original size:44 final size:44
Alignment explanation
Indices: 4526126--4526626 Score: 569
Period size: 44 Copynumber: 11.3 Consensus size: 44
4526116 ACCAGTATGG
* * *
4526126 GAAGACAAGATCTGCTATCTTTGATCTGCTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
4526170 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * *
4526214 GAAGACGAGATTTACTTTCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
4526258 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * * ***
4526302 GAAGATAAGATTTGCTTTCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
* *
4526347 GAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC-AATACAT
* * *
4526392 AAAGACAAGATCTACTTTCTTCG-GCGTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATC-TACTTCACGCCAATACAT
* * * * ***
4526436 GAAGACAATATCTGCTTTCTTCAATCTACTTTGC-CACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTAC-TT-CACGCCAATACAT
* *
4526481 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * ** *
4526525 GAAGACAAGATCTACTTTCTTCAATCTACTT--CGCCACCAGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATA-CAT
* *
4526568 GGTAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACAT
1 -G-AAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
4526614 GAAGACAAGATCT
1 GAAGACAAGATCT
4526627 NNNNNNNNNN
Statistics
Matches: 380, Mismatches: 65, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
42 6 0.02
43 3 0.01
44 230 0.61
45 132 0.35
46 3 0.01
47 6 0.02
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:4526431 original size:89 final size:88
Alignment explanation
Indices: 4526126--4526626 Score: 542
Period size: 89 Copynumber: 5.6 Consensus size: 88
4526116 ACCAGTATGG
* * * * * *
4526126 GAAGACAAGATCTGCTATCTTTGATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
4526191 CGATCTACTTCACGCCAATACAT
66 CGATCTACTTCACGCCAATACAT
* * *
4526214 GAAGACGAGATTTACTTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTTTT
1 GAAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
4526279 CGATCTACTTCACGCCAATACAT
66 CGATCTACTTCACGCCAATACAT
* * * * *** *
4526302 GAAGATAAGATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCT
1 GAAGACAAGATTTACTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTACTTTCT
4526367 TCGATCTACTTCACGCCAAATACAT
65 TCGATCTACTTCACGCC-AATACAT
* * * * *
4526392 AAAGACAAGATCTACTTTCTTCG-GCGTACTTCACGCCAATACATGAAGACAATATCTGCTTTCT
1 GAAGACAAGATTTACTTTCTTCGATC-TACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* * * ***
4526456 TCAATCTACTTTGC-CACCAGTATGG
65 TCGATCTAC-TT-CACGCCAATACAT
* * * *
4526481 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
1 GAAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
* ** *
4526546 CAATCTACTT--CGCCACCAGTAT
66 CGATCTACTTCACGCCAATA-CAT
* * * *
4526568 GGTAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
1 -G-AAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT
4526627 NNNNNNNNNN
Statistics
Matches: 355, Mismatches: 49, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
86 5 0.01
87 1 0.00
88 112 0.32
89 198 0.56
90 38 0.11
91 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (88 bp):
GAAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTT
CGATCTACTTCACGCCAATACAT
Found at i:4526438 original size:134 final size:133
Alignment explanation
Indices: 4526126--4526601 Score: 600
Period size: 134 Copynumber: 3.6 Consensus size: 133
4526116 ACCAGTATGG
* * * * *
4526126 GAAGACAAGATCTGCTATCTTTGATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTACTTTCTTCGAGCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * *** * * *
4526191 CGATCTACTTC-ACGCCAATACATGAAGACGAGATTTACTTTCTTTGATCTACTTCACGCCAATA
66 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATA
4526255 CAT
131 CAT
* * * *
4526258 GAAGACAAGATCTACTTTTTTCGATCTACTTCACGCCAATACATGAAGATAAGATTTGCTTTCTT
1 GAAGACAAGATCTACTTTCTTCGAGCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
4526323 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCTTCGATCTACTTCACGCCAAAT
66 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCC-AAT
4526388 ACAT
130 ACAT
* *
4526392 AAAGACAAGATCTACTTTCTTCG-GCGTACTTCACGCCAATACATGAAGACAATATCTGCTTTCT
1 GAAGACAAGATCTACTTTCTTCGAGC-TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
* * * *
4526456 TCAATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAAT
65 TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAAT
4526521 ACAT
130 ACAT
* * ** * *
4526525 GAAGACAAGATCTACTTTCTTCAATCTACTT--CGCCACCAGTATGGTAAGACAAGATCTGCTAT
1 GAAGACAAGATCTACTTTCTTCGAGCTACTTCACGCCAATA-CAT-G-AAGACAAGATCTGCTTT
*
4526588 CTTTGATCTACTTC
63 CTTCGATCTACTTC
4526602 ACGCCAATAC
Statistics
Matches: 299, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
131 6 0.02
132 71 0.24
133 75 0.25
134 147 0.49
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (133 bp):
GAAGACAAGATCTACTTTCTTCGAGCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATA
CAT
Found at i:4528345 original size:8 final size:7
Alignment explanation
Indices: 4528310--4528342 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4528300 CTATTTTTAC
4528310 TTTTTCA
1 TTTTTCA
4528317 TTTTTCA
1 TTTTTCA
4528324 -TTTTCA
1 TTTTTCA
4528330 TCTTTTCA
1 T-TTTTCA
4528338 TTTTT
1 TTTTT
4528343 TCACATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:4532475 original size:13 final size:13
Alignment explanation
Indices: 4532457--4532482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4532447 TGTTCAGTTT
4532457 TTTACTAGAAAAC
1 TTTACTAGAAAAC
4532470 TTTACTAGAAAAC
1 TTTACTAGAAAAC
4532483 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:4534559 original size:18 final size:17
Alignment explanation
Indices: 4534519--4534559 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
4534509 TGTGTAAGTG
*
4534519 TATAAAAATAATAATGA
1 TATAAAAATAATAATAA
4534536 TGATAAAAATAATGAATAA
1 T-ATAAAAATAAT-AATAA
4534555 TATAA
1 TATAA
4534560 TAAGGATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
TATAAAAATAATAATAA
Found at i:4534561 original size:15 final size:15
Alignment explanation
Indices: 4534524--4534577 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
4534514 AAGTGTATAA
4534524 AAATAATAATGATGAT
1 AAATAATAATGA-GAT
4534540 AAA-AATAATGA-AT
1 AAATAATAATGAGAT
4534553 AATATAATAA-G-GAT
1 AA-ATAATAATGAGAT
4534567 ACAATAATAAT
1 A-AATAATAAT
4534578 ATTAACAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 14 0.42
16 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATAATAATGAGAT
Found at i:4535960 original size:38 final size:38
Alignment explanation
Indices: 4535901--4536009 Score: 155
Period size: 38 Copynumber: 2.9 Consensus size: 38
4535891 TACTGATCGC
* * * *
4535901 ATGTTCAACATGCCTACTGCTACTGTTGAATTGAGTAT
1 ATGTTAAACATGTCTATTGCTAGTGTTGAATTGAGTAT
* *
4535939 ATGTTAAACATGTCTATTGCTAGTGATGAATTGAGTGT
1 ATGTTAAACATGTCTATTGCTAGTGTTGAATTGAGTAT
*
4535977 ATGTTAAATATGTCTATTGCTAGTGTTGAATTG
1 ATGTTAAACATGTCTATTGCTAGTGTTGAATTG
4536010 TTCTATTACA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (38 bp):
ATGTTAAACATGTCTATTGCTAGTGTTGAATTGAGTAT
Found at i:4545537 original size:23 final size:22
Alignment explanation
Indices: 4545494--4545537 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
4545484 TTCTAAGTCG
4545494 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
4545517 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
4545538 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:4545740 original size:51 final size:51
Alignment explanation
Indices: 4545681--4545867 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
4545671 TTGGTTCAGA
* * * * *
4545681 TAGTAGCCTGTACATAGTACTACACATGTAACCATTATTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTAACCATAATTATCCGGTACACG
* * * * *
4545732 TAGTAGCCTGCACATAGTACTATACACGTGATCGA-AACTATCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGT-AACCATAATTATCCGGTACACG
* ** *
4545783 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATT-T-CGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTAACC-ATAATTATCCGGTACACG
*
4545833 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTAACCAT
4545868 CACTTTCACT
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 40 0.36
51 65 0.58
52 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTAACCATAATTATCCGGTACACG
Found at i:4545860 original size:101 final size:102
Alignment explanation
Indices: 4545680--4545863 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 102
4545670 TTTGGTTCAG
* * * *
4545680 ATAGTAGCCTGTACATAGTACTACACATGTAACCATTATTATCCGATACATGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCAACCATCATTATCCGATACACGTAGTAGCCTGCAC
*
4545745 ATAGTACTATACACGTGATCGAAACTATCCGGTACAC
66 ATAGTACTACACACGTGATCGAAACTATCCGGTACAC
* *
4545782 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATT-T-CGGTACACGTAGTAGCCTGCA
1 ATAGTAGCCTGCACATAGTACTACACATGCAACC-ATCATTATCCGATACACGTAGTAGCCTGCA
4545845 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
4545864 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.50
102 32 0.43
103 5 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (102 bp):
ATAGTAGCCTGCACATAGTACTACACATGCAACCATCATTATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACAC
Found at i:4554486 original size:41 final size:39
Alignment explanation
Indices: 4554439--4554518 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 39
4554429 TTTAAATATA
4554439 AATTATAAAA-TTCATAAAAAATTTATTGAACAT-TTATAAAT
1 AATTATAAAAGTTC-TAAAAAATTT-TT-AA-ATGTTATAAAT
*
4554480 AATTATAAAAGTTCTAGAAAATTTTTAAATGTTATAAAT
1 AATTATAAAAGTTCTAAAAAATTTTTAAATGTTATAAAT
4554519 TTTTTTAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 2 0.06
39 10 0.28
40 2 0.06
41 19 0.53
42 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (39 bp):
AATTATAAAAGTTCTAAAAAATTTTTAAATGTTATAAAT
Found at i:4554752 original size:43 final size:43
Alignment explanation
Indices: 4554700--4554982 Score: 308
Period size: 43 Copynumber: 6.6 Consensus size: 43
4554690 TTATGTGAAA
* *
4554700 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC
* *
4554743 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTA-TCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCG-CTTTAGTCAC
* *
4554786 AAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTTAGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC
* * *
4554829 AAACACCGCTAAAGATCGTGATCTTTAGCGGCGCTTTAGAT-AC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAG-TCAC
* * * * * *
4554872 AAACGTCGCTAAAGATCGTGAGCTTTAGTGACGCTTTAGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC
* * *
4554915 AAACGCCGCTAAAGAGT-A-AACCTTTAGCGACGCTTCTAG-CAA
1 AAACGCCGCTAAAGA-TCATGACCTTTAGCGGCGCTT-TAGTCAC
* *
4554957 AAACGCCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGATCATGACCTTTA
4554983 AAAAAATATT
Statistics
Matches: 209, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.01
42 41 0.20
43 162 0.78
44 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTAGTCAC
Found at i:4562360 original size:41 final size:41
Alignment explanation
Indices: 4562303--4562479 Score: 327
Period size: 41 Copynumber: 4.3 Consensus size: 41
4562293 NNNNNNNNNN
4562303 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
1 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
* *
4562344 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACACT
1 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
4562385 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
1 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
4562426 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
1 GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
*
4562467 GCTAAAGACCTGA
1 GCTAAAGATCTGA
4562480 TAGGTCAAAA
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (41 bp):
GCTAAAGATCTGAGCATTAGCGGCGCTTTTTCAAAAACGCC
Found at i:4562562 original size:40 final size:39
Alignment explanation
Indices: 4562512--4562648 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
4562502 GGGCTTAGGT
*
4562512 TTTTTTGCGGCGTTTTTACAAAAATTGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTACAAAAA--GCCGCTAATGCTTGA
* **
4562552 TTTTTAGCGGCGCTTTCCTA-AAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTT-TTACAAAAAGCCGCTAATGCTTGA
* * ** *
4562592 TCTTTAGCGGCCTTTTGTGTAAAGAGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-TACAAAAAGCCGCTAATGCTTGA
4562632 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
4562649 TGTCCAAACG
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
39 18 0.22
40 55 0.68
41 6 0.07
42 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTACAAAAAGCCGCTAATGCTTGA
Found at i:4562581 original size:39 final size:41
Alignment explanation
Indices: 4562538--4562643 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 41
4562528 TACAAAAATT
*
4562538 GCCGCTAATGCTT-ATTTTTAGCGGCGCTTTCCT-AAAAGC
1 GCCGCTAATGCTTGATTTTTAGCGGCGCTTTCCTGAAAAGA
* ** *
4562577 GCCGCTAATGCTTGATCTTTAGCGGC-CTTTTGTGTAAAGA
1 GCCGCTAATGCTTGATTTTTAGCGGCGCTTTCCTGAAAAGA
4562617 GCCGCTAATGCTTGATTTTTAGCGGCG
1 GCCGCTAATGCTTGATTTTTAGCGGCG
4562644 TTTTTTGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 18 0.31
40 40 0.69
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
GCCGCTAATGCTTGATTTTTAGCGGCGCTTTCCTGAAAAGA
Found at i:4565309 original size:42 final size:42
Alignment explanation
Indices: 4565244--4565400 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
4565234 GTACATCGTT
* * *
4565244 AACAGAAGCCC-GAAG-GCTGAACAGAAGCTCGTGAGAGCTA
1 AACAGAAACCCAGAAGAGTTGAACAGAAGCTCGTAAGAGCTA
* *
4565284 AACAGAAACCCAGAAGGGTTGAACAGGAGCTCGTAAGAGCTA
1 AACAGAAACCCAGAAGAGTTGAACAGAAGCTCGTAAGAGCTA
* * * * *
4565326 AAC-GAAAACTCATATGAGTTGAAACAGAAGCTCATAAGAGCTG
1 AACAG-AAACCCAGAAGAGTTG-AACAGAAGCTCGTAAGAGCTA
** * * *
4565369 AATGGAAACTCATAATAGTTGAACAGAAGCTC
1 AACAGAAACCCAGAAGAGTTGAACAGAAGCTC
4565401 AATAGAGCTG
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
40 10 0.10
41 5 0.05
42 48 0.49
43 34 0.35
44 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.15
Consensus pattern (42 bp):
AACAGAAACCCAGAAGAGTTGAACAGAAGCTCGTAAGAGCTA
Found at i:4565408 original size:42 final size:43
Alignment explanation
Indices: 4565301--4565456 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 43
4565291 ACCCAGAAGG
* * *
4565301 GTTG-AACAGGAGCTCGTAAGAGCTAAACGAAAACTCATATGA
1 GTTGAAACAGAAGCTCATAAGAGCTGAACGAAAACTCATATGA
* *
4565343 GTTGAAACAGAAGCTCATAAGAGCTGAATGGAAACTCATAAT-A
1 GTTGAAACAGAAGCTCATAAGAGCTGAACGAAAACTCAT-ATGA
*
4565386 GTTG-AACAGAAGCTCA-ATAGAGCTGAACGAAAACTCACATGA
1 GTTGAAACAGAAGCTCATA-AGAGCTGAACGAAAACTCATATGA
* * * * *
4565428 G-TCAAATAGAAGCTCGTGAGAGCTAAACG
1 GTTGAAACAGAAGCTCATAAGAGCTGAACG
4565457 GAAAGTAAAC
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 4 0.04
42 55 0.58
43 34 0.36
44 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (43 bp):
GTTGAAACAGAAGCTCATAAGAGCTGAACGAAAACTCATATGA
Found at i:4565408 original size:85 final size:84
Alignment explanation
Indices: 4565263--4565460 Score: 218
Period size: 85 Copynumber: 2.3 Consensus size: 84
4565253 CCGAAGGCTG
* * * * * ** * *
4565263 AACAGAAGCTCGTGAGAGCTAAACAGAAACCCAGAAGGGTTGAACAGGAGCTCGTAAGAGCTAAA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAATAGTTGAACAGAAGCTCATAAGAGCTAAA
* *
4565328 CGAAAACTCATATGAGTTGA
66 CGAAAACTCACATGAG-TCA
* * *
4565348 AACAGAAGCTCATAAGAGCTGAATGGAAACTCATAATAGTTGAACAGAAGCTCA-ATAGAGCTGA
1 AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAATAGTTGAACAGAAGCTCATA-AGAGCTAA
4565412 ACGAAAACTCACATGAGTCA
65 ACGAAAACTCACATGAGTCA
* * *
4565432 AATAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACGGAAA
4565461 GTAAACACGA
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
84 27 0.29
85 66 0.71
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (84 bp):
AACAGAAGCTCATAAGAGCTAAACGGAAACTCATAATAGTTGAACAGAAGCTCATAAGAGCTAAA
CGAAAACTCACATGAGTCA
Done.