Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 20 of 100
Found at i:5831168 original size:15 final size:15
Alignment explanation
Indices: 5831150--5831179 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5831140 GAATAATTAA
*
5831150 ATAATTTTTAAATAT
1 ATAATTTATAAATAT
5831165 ATAATTTATAAATAT
1 ATAATTTATAAATAT
5831180 TTTAAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTTATAAATAT
Found at i:5833878 original size:4 final size:4
Alignment explanation
Indices: 5833869--5833898 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
5833859 AAGGGATTGC
5833869 CTTT CTTT CTTT CTTT CTTT CTTT CCTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT C
5833899 CTCCTCTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:5835465 original size:2 final size:2
Alignment explanation
Indices: 5835458--5835483 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5835448 GTTTTGTCAT
5835458 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
5835484 TTACTTGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5839724 original size:30 final size:29
Alignment explanation
Indices: 5839685--5839746 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
5839675 ATGGCATTTG
*
5839685 AAATAGTTAAATACCTTATTTACTTTTAT
1 AAATAGTTAAACACCTTATTTACTTTTAT
* * *
5839714 AAATATGTTAAACGCCTTATTTGCTTTTGT
1 AAATA-GTTAAACACCTTATTTACTTTTAT
5839744 AAA
1 AAA
5839747 AATTTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (29 bp):
AAATAGTTAAACACCTTATTTACTTTTAT
Found at i:5841024 original size:21 final size:23
Alignment explanation
Indices: 5840984--5841045 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
5840974 TAAATTGATT
*
5840984 ATATTATTT-TTTATGCTTTT-AA
1 ATATTATTTATTTAT-TTTTTAAA
*
5841006 CT-TTATTTATTTATTTTTTAAA
1 ATATTATTTATTTATTTTTTAAA
*
5841028 ATATTATATATTTATTTT
1 ATATTATTTATTTATTTT
5841046 ACAAATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 10 0.30
22 9 0.27
23 14 0.42
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (23 bp):
ATATTATTTATTTATTTTTTAAA
Found at i:5841055 original size:23 final size:23
Alignment explanation
Indices: 5841008--5841056 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5840998 GCTTTTAACT
* **
5841008 TTATTTATTTATTTTTTAAAATA
1 TTATATATTTATTTTACAAAATA
*
5841031 TTATATATTTATTTTACAAATTA
1 TTATATATTTATTTTACAAAATA
5841054 TTA
1 TTA
5841057 ATAGTATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATATATTTATTTTACAAAATA
Found at i:5845935 original size:2 final size:2
Alignment explanation
Indices: 5845928--5845962 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5845918 GAAAACCATT
5845928 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5845963 AGCTATGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5862879 original size:21 final size:20
Alignment explanation
Indices: 5862855--5862895 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
5862845 AGATTTTGTT
5862855 TTAAATATTTCTATTAGATAA
1 TTAAATATTTCTATT-GATAA
* *
5862876 TTAAATTTTTTTATTGATAA
1 TTAAATATTTCTATTGATAA
5862896 ATATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAAATATTTCTATTGATAA
Found at i:5863260 original size:2 final size:2
Alignment explanation
Indices: 5863253--5863287 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5863243 AACATTAGTA
5863253 AT AT 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 AT AT A
5863288 AGAATACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5867150 original size:25 final size:25
Alignment explanation
Indices: 5867114--5867173 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
5867104 TTGAACCATA
5867114 AATCTAAG-ATTATTTACTTAATAGT
1 AATC-AAGAATTATTTACTTAATAGT
5867139 AATCAAGAATTATTTACTTAATAGT
1 AATCAAGAATTATTTACTTAATAGT
5867164 AATCAAGAAT
1 AATCAAGAAT
5867174 CAAGTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 3 0.09
25 31 0.91
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (25 bp):
AATCAAGAATTATTTACTTAATAGT
Found at i:5871705 original size:27 final size:29
Alignment explanation
Indices: 5871657--5871718 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
5871647 ATATTAAAAA
5871657 ATTAAAATTTTTATATCTAATTATA-ATT
1 ATTAAAATTTTTATATCTAATTATATATT
*
5871685 ATTAAAAGTTTTTAT-TC-AATTTTATATT
1 ATTAAAA-TTTTTATATCTAATTATATATT
5871713 -TTAAAA
1 ATTAAAA
5871719 ATATTGTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 12 0.39
28 12 0.39
29 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTAAAATTTTTATATCTAATTATATATT
Found at i:5872452 original size:15 final size:16
Alignment explanation
Indices: 5872423--5872455 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5872413 AGATTGAGAT
5872423 AAATAAAAGTAAAAGA
1 AAATAAAAGTAAAAGA
5872439 AAATAAAA-TAAAAGA
1 AAATAAAAGTAAAAGA
5872454 AA
1 AA
5872456 GTAATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATAAAAGTAAAAGA
Found at i:5874329 original size:22 final size:22
Alignment explanation
Indices: 5874283--5874329 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5874273 AATACAATAT
** *
5874283 TAATATATTTTTATATAGTATA
1 TAATATATTTGAATATAGTAAA
*
5874305 TAATATATTTGAATATATTAAA
1 TAATATATTTGAATATAGTAAA
5874327 TAA
1 TAA
5874330 AAAGTATTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATATATTTGAATATAGTAAA
Found at i:5877354 original size:179 final size:179
Alignment explanation
Indices: 5877049--5877405 Score: 644
Period size: 179 Copynumber: 2.0 Consensus size: 179
5877039 ATGAGTAGAA
* * *
5877049 ATCTTATCTTAGTTCATTGTTAGGAAGTTTTTGAAGAAGACAGAAAAGCGTGGATATCTTTAGAA
1 ATCTTATCTTAGTTCATTGTTAGGAAGGTTTTGAAGAAGACAGAAAAGCATGGATATCGTTAGAA
*
5877114 GCAGCAATATTGCTTAAACTCTCTTCTGTCTCCTGAGGTTTCTTGGCTCCCCCTTTTTCCAAGTG
66 GCAGCAATATTGCTTAAACTCTCTTCTGTCTCCTGAGGTTTCTTGGCTCCCCCTCTTTCCAAGTG
*
5877179 ATTTGGCTAGTATATACAGCTTAGCCAATTTCTAGTGAAATATCTTGGC
131 ATTTGGCTAGTATATACAACTTAGCCAATTTCTAGTGAAATATCTTGGC
*
5877228 ATCTTATCTTAGTTCATTGTTAGGAAGGTTTTGAAGAAGATAGAAAAGCATGGATATCGTTAGAA
1 ATCTTATCTTAGTTCATTGTTAGGAAGGTTTTGAAGAAGACAGAAAAGCATGGATATCGTTAGAA
5877293 GCAGCAATATTGCTTAAACTCTCTTCTGTCTCCTGAGGTTTCTTGG-TACCCCCTCTTTCCAAGT
66 GCAGCAATATTGCTTAAACTCTCTTCTGTCTCCTGAGGTTTCTTGGCT-CCCCCTCTTTCCAAGT
5877357 GATTTGGCTAGTATATACAACTTAGCCAATTTCTAGTGAAATATCTTGG
130 GATTTGGCTAGTATATACAACTTAGCCAATTTCTAGTGAAATATCTTGG
5877406 TAGAATCTAG
Statistics
Matches: 171, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
178 1 0.01
179 170 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (179 bp):
ATCTTATCTTAGTTCATTGTTAGGAAGGTTTTGAAGAAGACAGAAAAGCATGGATATCGTTAGAA
GCAGCAATATTGCTTAAACTCTCTTCTGTCTCCTGAGGTTTCTTGGCTCCCCCTCTTTCCAAGTG
ATTTGGCTAGTATATACAACTTAGCCAATTTCTAGTGAAATATCTTGGC
Found at i:5877514 original size:85 final size:85
Alignment explanation
Indices: 5877371--5877540 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
5877361 TGGCTAGTAT
5877371 ATACAACTTAGCCAATTTCTAGTGAAATATCTTGGTAGAATCTAGCAGTGTTATGCAAATGTAAG
1 ATACAACTTAGCCAATTTCTAGTGAAATATCTTGGTAGAATCTAGCAGTGTTATGCAAATGTAAG
5877436 AACTCATTGATTGTTTGGAA
66 AACTCATTGATTGTTTGGAA
5877456 ATACAACTTAGCCAATTTCTAGTGAAATATCTTGGTAGAATCTAGCAGTGTTATGCAAATGTAAG
1 ATACAACTTAGCCAATTTCTAGTGAAATATCTTGGTAGAATCTAGCAGTGTTATGCAAATGTAAG
5877521 AACTCATTGATTGTTTGGAA
66 AACTCATTGATTGTTTGGAA
5877541 TTGTGAGTCT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (85 bp):
ATACAACTTAGCCAATTTCTAGTGAAATATCTTGGTAGAATCTAGCAGTGTTATGCAAATGTAAG
AACTCATTGATTGTTTGGAA
Found at i:5881674 original size:30 final size:30
Alignment explanation
Indices: 5881638--5881695 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
5881628 CTAGTCCTTA
5881638 CATTGGCCATTGACAAGCAAGGATCTATTG
1 CATTGGCCATTGACAAGCAAGGATCTATTG
5881668 CATTGGCCATTGACAAGCAAGGATCTAT
1 CATTGGCCATTGACAAGCAAGGATCTAT
5881696 CTTGTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (30 bp):
CATTGGCCATTGACAAGCAAGGATCTATTG
Found at i:5884937 original size:54 final size:54
Alignment explanation
Indices: 5884759--5884922 Score: 303
Period size: 54 Copynumber: 3.1 Consensus size: 54
5884749 TGCATTAAAC
* *
5884759 AATCCAACCATTT-AAAAGAATCATACGACTCTATATGTTGCAATACCAATGCA
1 AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
5884812 AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
1 AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
5884866 AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
1 AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
5884920 AAT
1 AAT
5884923 GATAAATCAA
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
53 13 0.12
54 95 0.88
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (54 bp):
AATCCAACCATTTAAAAATAATCATACGACGCTATATGTTGCAATACCAATGCA
Found at i:5885843 original size:4 final size:4
Alignment explanation
Indices: 5885834--5885863 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
5885824 TTTAAGTGCT
*
5885834 TTTA TTTA TTTA TTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
5885864 CTGCCATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:5901535 original size:29 final size:29
Alignment explanation
Indices: 5901503--5901576 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
5901493 AATGTAATTT
*
5901503 TTTATTAAATTAATATA-TTAAACAATATA
1 TTTATTAAATTAATATATTTAAAC-ATAAA
*
5901532 TTTATTAATATAATATATATTTAAACATAAA
1 TTTATTAA-ATTA-ATATATTTAAACATAAA
*
5901563 TTTAATAAA-TAATA
1 TTTATTAAATTAATA
5901577 AAATATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 3 0.08
29 9 0.24
30 4 0.11
31 16 0.42
32 6 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTATTAAATTAATATATTTAAACATAAA
Found at i:5902706 original size:28 final size:29
Alignment explanation
Indices: 5902646--5902706 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 29
5902636 GTCTTTATGT
* * *
5902646 TTAATATGATATTTGAGTTTTAAAATTTA
1 TTAATATGATATTTAAATTATAAAATTTA
5902675 -TAATATGATATTTAAATTAT-AAATTTA
1 TTAATATGATATTTAAATTATAAAATTTA
5902702 TTAAT
1 TTAAT
5902707 TAATATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (29 bp):
TTAATATGATATTTAAATTATAAAATTTA
Found at i:5904057 original size:29 final size:28
Alignment explanation
Indices: 5903993--5904058 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
5903983 TTATTTTGAT
* *
5903993 ATAAATTAAAAATTAAAAATTTATTTAA
1 ATAAAATAAAAATTAAAAATTTATCTAA
* **
5904021 GTGCAATAAAAATATAAAAATTTATCTAA
1 ATAAAATAAAAAT-TAAAAATTTATCTAA
5904050 ATAAAATAA
1 ATAAAATAA
5904059 TAAAATTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
ATAAAATAAAAATTAAAAATTTATCTAA
Found at i:5907659 original size:6 final size:6
Alignment explanation
Indices: 5907644--5907681 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
5907634 AGGTGTAGCG
*
5907644 AAGCCT AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AA
1 AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AAGCCC AA
5907682 TGAAAGGCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.37, C:0.45, G:0.16, T:0.03
Consensus pattern (6 bp):
AAGCCC
Found at i:5927418 original size:11 final size:11
Alignment explanation
Indices: 5927402--5927427 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5927392 TCAATAATTT
5927402 TATGCATCAAA
1 TATGCATCAAA
5927413 TATGCATCAAA
1 TATGCATCAAA
5927424 TATG
1 TATG
5927428 ACCTTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (11 bp):
TATGCATCAAA
Found at i:5931308 original size:2 final size:2
Alignment explanation
Indices: 5931301--5931325 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5931291 TCAAAACCAT
5931301 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
5931326 ACAAATTGAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5934647 original size:18 final size:18
Alignment explanation
Indices: 5934608--5934656 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
5934598 ATTTGTATTC
5934608 AAAATAAATTTTTAATAT
1 AAAATAAATTTTTAATAT
* * *
5934626 -AAATTAATTTTTTATCT
1 AAAATAAATTTTTAATAT
*
5934643 AAAATAAAATTTTA
1 AAAATAAATTTTTA
5934657 TTTGAATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATAAATTTTTAATAT
Found at i:5937950 original size:2 final size:2
Alignment explanation
Indices: 5937943--5937967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5937933 AAGTGTAAGA
5937943 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
5937968 GTCTGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5941504 original size:22 final size:24
Alignment explanation
Indices: 5941479--5941528 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
5941469 AATTATGTTA
*
5941479 TAAAATTA-AATTAATT-AATTTT
1 TAAAATTATAATCAATTGAATTTT
*
5941501 T-AAATTATGATCAATTGAATTTT
1 TAAAATTATAATCAATTGAATTTT
5941524 TAAAA
1 TAAAA
5941529 GATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 7 0.30
24 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
TAAAATTATAATCAATTGAATTTT
Found at i:5947974 original size:20 final size:20
Alignment explanation
Indices: 5947949--5948010 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
5947939 GACTTGACTT
5947949 AAAATAATTTTAATAAAATA
1 AAAATAATTTTAATAAAATA
** * *** *
5947969 AAAATAAAATTATTTTTATC
1 AAAATAATTTTAATAAAATA
5947989 AAAATAATTTTAATAAAATA
1 AAAATAATTTTAATAAAATA
5948009 AA
1 AA
5948011 TTTAATTGAC
Statistics
Matches: 28, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTTAATAAAATA
Found at i:5947998 original size:15 final size:14
Alignment explanation
Indices: 5947948--5948016 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
5947938 TGACTTGACT
5947948 TAAAATAATTTTAA
1 TAAAATAATTTTAA
*
5947962 TAAAATAA---AAA
1 TAAAATAATTTTAA
* *
5947973 TAAAATTATTTTTA
1 TAAAATAATTTTAA
5947987 TCAAAATAATTTTAA
1 T-AAAATAATTTTAA
*
5948002 TAAAATAAATTTAA
1 TAAAATAATTTTAA
5948016 T
1 T
5948017 TGACTTAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
11 9 0.20
14 23 0.52
15 12 0.27
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATAATTTTAA
Found at i:5948250 original size:21 final size:21
Alignment explanation
Indices: 5948208--5948251 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5948198 TAAATATAAA
* *
5948208 ATAAACATAAAATTGATGTTG
1 ATAAAAATAAAATTGATATTG
5948229 ATAAAAATAAAATTTGA-ATTG
1 ATAAAAATAAAA-TTGATATTG
5948250 AT
1 AT
5948252 GTGTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (21 bp):
ATAAAAATAAAATTGATATTG
Found at i:5949633 original size:16 final size:16
Alignment explanation
Indices: 5949612--5949650 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5949602 GTAAGTATAA
* *
5949612 AATATCATTTTGTGTT
1 AATATCATCTTGCGTT
5949628 AATATCATCTTGCGTT
1 AATATCATCTTGCGTT
*
5949644 CATATCA
1 AATATCA
5949651 AGGATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (16 bp):
AATATCATCTTGCGTT
Found at i:5950978 original size:17 final size:17
Alignment explanation
Indices: 5950952--5950989 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5950942 AATTAATTAA
*
5950952 AATTTTATTAT-TATTTT
1 AATTTAATTATAT-TTTT
5950969 AATTTAATTATATTTTT
1 AATTTAATTATATTTTT
5950986 AATT
1 AATT
5950990 GAATGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTAATTATATTTTT
Found at i:5951282 original size:10 final size:10
Alignment explanation
Indices: 5951211--5951297 Score: 56
Period size: 10 Copynumber: 8.7 Consensus size: 10
5951201 TTTATTCAAA
5951211 TAAATACTAAT
1 TAAATA-TAAT
* *
5951222 TAAATACAAA
1 TAAATATAAT
5951232 TAAATATTAAAT
1 TAAATA-T-AAT
5951244 T-AAT-TAAT
1 TAAATATAAT
* *
5951252 T-GATCATAAA
1 TAAAT-ATAAT
*
5951262 AAAAT-TAAT
1 TAAATATAAT
5951271 TAAATATAAT
1 TAAATATAAT
*
5951281 TAAATATAAA
1 TAAATATAAT
5951291 TAAATAT
1 TAAATAT
5951298 TAAAATTAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
8 6 0.10
9 8 0.14
10 31 0.53
11 11 0.19
12 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (10 bp):
TAAATATAAT
Found at i:5951286 original size:59 final size:60
Alignment explanation
Indices: 5951211--5951323 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 60
5951201 TTTATTCAAA
*
5951211 TAAATACTAATTAAATACAAATAAATATT-AAATTAATTAATTGATCATAAAAAAATTAAT
1 TAAATACTAATTAAATACAAATAAATATTAAAATTAATTAATT-ACCATAAAAAAATTAAT
* *
5951271 TAAATA-TAATTAAATATAAATAAATATTAAAATTAATTGATTACCATAAAAAA
1 TAAATACTAATTAAATACAAATAAATATTAAAATTAATTAATTACCATAAAAAA
5951324 TAAATAATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 31 0.63
60 18 0.37
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (60 bp):
TAAATACTAATTAAATACAAATAAATATTAAAATTAATTAATTACCATAAAAAAATTAAT
Found at i:5953871 original size:27 final size:27
Alignment explanation
Indices: 5953836--5953909 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
5953826 TTATGAATAA
5953836 TTTAAAATTATAATATAATATTTAAAT
1 TTTAAAATTATAATATAATATTTAAAT
*
5953863 TTTAAAATTTTAATATAATATTTAAAT
1 TTTAAAATTATAATATAATATTTAAAT
* *
5953890 TATAAATTTATTAAT-TAATA
1 TTTAAAATTA-TAATATAATA
5953910 AAATTTTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 38 0.90
28 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTAAAATTATAATATAATATTTAAAT
Found at i:5954007 original size:28 final size:28
Alignment explanation
Indices: 5953984--5954048 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
5953974 ATAATTTATT
5953984 TATCATATTAAAA-ATTTTAAAATTTAAA
1 TATCATA-TAAAATATTTTAAAATTTAAA
5954012 TATCATATAAAATATTTTATTATAATTTAAA
1 TATCATATAAAATATTTTA--A-AATTTAAA
*
5954043 AATCAT
1 TATCAT
5954049 TCGTAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 5 0.16
28 13 0.41
30 1 0.03
31 13 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (28 bp):
TATCATATAAAATATTTTAAAATTTAAA
Found at i:5955766 original size:9 final size:9
Alignment explanation
Indices: 5955754--5955779 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5955744 TATAATAAAA
5955754 ATTATTATG
1 ATTATTATG
5955763 ATTATTATG
1 ATTATTATG
5955772 ATTATTAT
1 ATTATTAT
5955780 AGTCGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
ATTATTATG
Found at i:5956744 original size:15 final size:16
Alignment explanation
Indices: 5956724--5956755 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5956714 CACCTCACCA
5956724 CACCCAATCCC-TCCC
1 CACCCAATCCCTTCCC
5956739 CACCCAATCCCTTCCC
1 CACCCAATCCCTTCCC
5956755 C
1 C
5956756 GCCACCCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.19, C:0.66, G:0.00, T:0.16
Consensus pattern (16 bp):
CACCCAATCCCTTCCC
Found at i:5958603 original size:125 final size:125
Alignment explanation
Indices: 5958381--5958633 Score: 425
Period size: 125 Copynumber: 2.0 Consensus size: 125
5958371 TGTAATTTGC
* * *
5958381 CTTATATTATTTTTTACATCTGTGTTCTAAGTTCTGACCAAAACCTTGTGAATCATGGGTGCTGG
1 CTTATATTATTTTTGACATCTGTGTTCTAAGTTCTGACCAAAAACTTGCGAATCATGGGTGCTGG
** * *
5958446 CTATGCTTCGGAATATATTGGTTCTCCGATCAAAAAGCCCAAGAACCAATATTGGATTCA
66 CTACACTTCGGAATATATTGGTTCTCCGATCAAAAAGCCCAAAAACCAATATCGGATTCA
*
5958506 CTTATATTATTTTTGACATCTGTGTTCTGAGTTCTGACCAAAAACTTGCGAATCATGGGTGCTGG
1 CTTATATTATTTTTGACATCTGTGTTCTAAGTTCTGACCAAAAACTTGCGAATCATGGGTGCTGG
*
5958571 CTACACTTCGGAATATATTGGTTCTCCTATCAAAAAGCCCAAAAACCAATATCGGATTCA
66 CTACACTTCGGAATATATTGGTTCTCCGATCAAAAAGCCCAAAAACCAATATCGGATTCA
5958631 CTT
1 CTT
5958634 TCGGCTAAGT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (125 bp):
CTTATATTATTTTTGACATCTGTGTTCTAAGTTCTGACCAAAAACTTGCGAATCATGGGTGCTGG
CTACACTTCGGAATATATTGGTTCTCCGATCAAAAAGCCCAAAAACCAATATCGGATTCA
Found at i:5967529 original size:2 final size:2
Alignment explanation
Indices: 5967522--5967555 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5967512 AGGACATTTC
5967522 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5967556 ATTAGAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5976054 original size:15 final size:16
Alignment explanation
Indices: 5976034--5976072 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
5976024 ACATAATTAT
5976034 TTAAAA-AAATTAAAA
1 TTAAAATAAATTAAAA
*
5976049 TTAAAATATATTAAAA
1 TTAAAATAAATTAAAA
5976065 -TAAAATAA
1 TTAAAATAA
5976073 TAATGTGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAATAAATTAAAA
Found at i:5977096 original size:12 final size:12
Alignment explanation
Indices: 5977079--5977117 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5977069 ATTTCGAGTT
5977079 TTAAATTTAAAA
1 TTAAATTTAAAA
*
5977091 TTAAATTTAAAC
1 TTAAATTTAAAA
* *
5977103 TCAAATTTAATA
1 TTAAATTTAAAA
5977115 TTA
1 TTA
5977118 TATCGATCCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAATTTAAAA
Found at i:5977752 original size:2 final size:2
Alignment explanation
Indices: 5977747--5977772 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5977737 CAAAAAAAAA
5977747 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
5977773 CTAGATGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5988422 original size:28 final size:29
Alignment explanation
Indices: 5988381--5988438 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
5988371 ATACTTAGAC
5988381 AAAATGACATTTCATTTAGTTATAAATAT
1 AAAATGACATTTCATTTAGTTATAAATAT
*
5988410 AAAA-GACATTTCATTTAGTTATAATTAT
1 AAAATGACATTTCATTTAGTTATAAATAT
5988438 A
1 A
5988439 GAATTATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (29 bp):
AAAATGACATTTCATTTAGTTATAAATAT
Found at i:5995988 original size:2 final size:2
Alignment explanation
Indices: 5995975--5996008 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5995965 GAACTTTTCC
*
5995975 CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5996009 GTGTGTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:6004674 original size:1 final size:1
Alignment explanation
Indices: 6004668--6004697 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
6004658 TTCTACTCTG
6004668 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6004698 AAATAGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6009638 original size:23 final size:22
Alignment explanation
Indices: 6009594--6009663 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 22
6009584 TAAAAATCAT
*
6009594 AAAAAT-AATTTTTAAATA-TA
1 AAAAATAAAATTTTAAATATTA
6009614 AAAAAGTAAAATTTTAAATATTA
1 AAAAA-TAAAATTTTAAATATTA
*
6009637 AAAAATATAATTTTAAGATATCTA
1 AAAAATAAAATTTTAA-ATAT-TA
6009661 AAA
1 AAA
6009664 GAAAGATAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 1 0.02
22 21 0.49
23 11 0.26
24 5 0.12
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAAATAAAATTTTAAATATTA
Found at i:6009840 original size:93 final size:94
Alignment explanation
Indices: 6009675--6009854 Score: 335
Period size: 94 Copynumber: 1.9 Consensus size: 94
6009665 AAAGATAGAC
6009675 AAAAAAAAAAAAAAGAGGAATAGAGGGAGTAGTAACTTGATCTAACCATTAAAAAAAAAATCCCC
1 AAAAAAAAAAAAAAGAGGAATAGAGGGAGTAGTAACTTGATCTAACCATTAAAAAAAAAATCCCC
6009740 ATATTGCATAGACCATTAATAATAGACAA
66 ATATTGCATAGACCATTAATAATAGACAA
* *
6009769 AAAAAAAAAAAAAAGAGTAATAGAGGGAGTAGTAACTTGATCTAACCATT-AAAAAACAATCCCC
1 AAAAAAAAAAAAAAGAGGAATAGAGGGAGTAGTAACTTGATCTAACCATTAAAAAAAAAATCCCC
6009833 ATATTGCATAGACCATTAATAA
66 ATATTGCATAGACCATTAATAA
6009855 ATGTTCCCTC
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 35 0.42
94 49 0.58
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (94 bp):
AAAAAAAAAAAAAAGAGGAATAGAGGGAGTAGTAACTTGATCTAACCATTAAAAAAAAAATCCCC
ATATTGCATAGACCATTAATAATAGACAA
Found at i:6011407 original size:18 final size:18
Alignment explanation
Indices: 6011384--6011418 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6011374 CTTATTCTTG
6011384 ATTTTT-TATATTATATTA
1 ATTTTTGTAT-TTATATTA
6011402 ATTTTTGTATTTATATT
1 ATTTTTGTATTTATATT
6011419 CAATGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTGTATTTATATTA
Found at i:6011572 original size:18 final size:18
Alignment explanation
Indices: 6011551--6011593 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
6011541 ATTGTATATT
6011551 TATATAATTTTT-TATAAA
1 TATAT-ATTTTTATATAAA
6011569 TATATATTTTTAAATATAAA
1 TATATATTTTT--ATATAAA
6011589 TATAT
1 TATAT
6011594 TAGTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
20 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATATTTTTATATAAA
Found at i:6011659 original size:28 final size:32
Alignment explanation
Indices: 6011588--6011662 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
6011578 TTAAATATAA
* *
6011588 ATATATTAGTTTTAATTAATTTAAAATAAAATT
1 ATATATTA-TTCTAATTAATCTAAAATAAAATT
6011621 ATATATTTATTCTAATTAATCTAAAATAAAATT
1 ATATA-TTATTCTAATTAATCTAAAATAAAATT
6011654 -TATATTATT
1 ATATATTATT
6011663 AAATAAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 5 0.13
32 4 0.10
33 27 0.69
34 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (32 bp):
ATATATTATTCTAATTAATCTAAAATAAAATT
Found at i:6011671 original size:20 final size:19
Alignment explanation
Indices: 6011644--6011686 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6011634 AATTAATCTA
*
6011644 AAAT-AAAATTTATATTATT
1 AAATAAAAATTAAT-TTATT
*
6011663 AAATAAAAATTAATTTGTT
1 AAATAAAAATTAATTTATT
6011682 AAATA
1 AAATA
6011687 TATAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATAAAAATTAATTTATT
Found at i:6018715 original size:57 final size:58
Alignment explanation
Indices: 6018579--6018740 Score: 211
Period size: 58 Copynumber: 2.8 Consensus size: 58
6018569 TTTTGTACAG
* *
6018579 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTAGAAAACTTATTTTCAA
* *
6018637 GAAAAACTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
* * * * * *
6018695 G-GAAATTGATACTTTTAACTTCTCATCGAAAATATTTTTTAAAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAA
6018741 AATTGATACT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
57 42 0.46
58 49 0.54
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:6018899 original size:24 final size:24
Alignment explanation
Indices: 6018872--6018917 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6018862 AAAAAATACC
6018872 AAAAC-AATTAGTGGCTCGGCTTAG
1 AAAACTAATT-GTGGCTCGGCTTAG
**
6018896 AAAACTCGTTGTGGCTCGGCTT
1 AAAACTAATTGTGGCTCGGCTT
6018918 CAAACATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (24 bp):
AAAACTAATTGTGGCTCGGCTTAG
Found at i:6020585 original size:11 final size:10
Alignment explanation
Indices: 6020570--6020605 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
6020560 AGGCTTCCCC
6020570 TTTTGTTTTT
1 TTTTGTTTTT
6020580 CTTTTGTTTTT
1 -TTTTGTTTTT
6020591 TTTT-TTTTT
1 TTTTGTTTTT
6020600 TTTTGT
1 TTTTGT
6020606 ATATTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 5 0.21
11 10 0.42
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:6020952 original size:14 final size:15
Alignment explanation
Indices: 6020933--6020961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6020923 ATAACTATTT
6020933 TTATTT-AAATATAA
1 TTATTTAAAATATAA
6020947 TTATTTAAAATATAA
1 TTATTTAAAATATAA
6020962 ATAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATTTAAAATATAA
Found at i:6025545 original size:2 final size:2
Alignment explanation
Indices: 6025538--6025567 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6025528 ACAAAAGTGC
6025538 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
6025568 TCAAAAGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6027370 original size:19 final size:19
Alignment explanation
Indices: 6027334--6027377 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6027324 ACATTTTTAG
* *
6027334 TTATTTGTTTAATAAAAAA
1 TTATTTGGTTAACAAAAAA
*
6027353 TTATTTGGTTAACGAAAAA
1 TTATTTGGTTAACAAAAAA
*
6027372 TAATTT
1 TTATTT
6027378 ATTGATCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (19 bp):
TTATTTGGTTAACAAAAAA
Found at i:6027579 original size:13 final size:12
Alignment explanation
Indices: 6027553--6027610 Score: 66
Period size: 13 Copynumber: 4.7 Consensus size: 12
6027543 TATATGAATA
6027553 AATAATATACTATT
1 AATAA-ATA-TATT
6027567 AATATAATATATT
1 AATA-AATATATT
6027580 AATAAATAATATT
1 AATAAAT-ATATT
6027593 -AT-AATATATT
1 AATAAATATATT
6027603 AATAAATA
1 AATAAATA
6027611 ATATAAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
10 5 0.12
11 5 0.12
12 9 0.22
13 13 0.32
14 7 0.17
15 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAAATATATT
Found at i:6027595 original size:23 final size:22
Alignment explanation
Indices: 6027510--6027629 Score: 89
Period size: 23 Copynumber: 5.1 Consensus size: 22
6027500 AATTTTACTT
*
6027510 ATAAATAATATTATATTAATAA
1 ATAAATAATATTATAATAATAA
* *
6027532 AGAAATAATACTAT-ATGAATAA
1 ATAAATAATATTATAAT-AATAA
* *
6027554 ATAATATACTATTAATATAATATATTA
1 ATAA-ATA--A-TATTATAATA-ATAA
*
6027581 ATAAATAATATTATAATATATTA
1 ATAAATAATATTATAATA-ATAA
* *
6027604 ATAAATAATATAAAGAATAATAA
1 ATAAATAATAT-TATAATAATAA
6027627 ATA
1 ATA
6027630 GTTTCGTTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 20 0.25
23 34 0.43
24 6 0.08
25 1 0.01
26 9 0.11
27 9 0.11
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (22 bp):
ATAAATAATATTATAATAATAA
Found at i:6027688 original size:19 final size:19
Alignment explanation
Indices: 6027643--6027688 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6027633 TCGTTTTAAG
*
6027643 TATTTTTATATTAACATAA
1 TATTTTAATATTAACATAA
*
6027662 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAACATAA
6027680 TATTATTAA
1 TATT-TTAA
6027689 AATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTAATATTAACATAA
Found at i:6027732 original size:36 final size:36
Alignment explanation
Indices: 6027663--6027733 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
6027653 TTAACATAAT
*
6027663 ATTTTAATATTAAATATTATTATTAAAATATAATTA
1 ATTTTAATATTAAATATTATTAATAAAATATAATTA
6027699 ATTTTGAATATT-AATAGTT-TTAATAATAA-ATAATT
1 ATTTT-AATATTAAATA-TTATTAATAA-AATATAATT
6027734 TCAATATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 21 0.68
37 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (36 bp):
ATTTTAATATTAAATATTATTAATAAAATATAATTA
Found at i:6027765 original size:26 final size:24
Alignment explanation
Indices: 6027711--6027773 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
6027701 TTTGAATATT
6027711 AATAGTTTTAATAATAAATAATTTC
1 AATA-TTTTAATAATAAATAATTTC
* ** *
6027736 AATATATTTTAATAATAATTTTTTTT
1 -A-ATATTTTAATAATAAATAATTTC
6027762 AATATTTTAATA
1 AATATTTTAATA
6027774 GTTATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 1 0.03
26 17 0.53
27 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
AATATTTTAATAATAAATAATTTC
Found at i:6029618 original size:2 final size:2
Alignment explanation
Indices: 6029613--6029646 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6029603 CAAAAAAAAA
6029613 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
6029647 TAAAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6037002 original size:18 final size:19
Alignment explanation
Indices: 6036979--6037016 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6036969 ATAACGTAAA
6036979 ATAAATATTTAA-ATATTT
1 ATAAATATTTAATATATTT
*
6036997 ATAAATTTTTAATATATTT
1 ATAAATATTTAATATATTT
6037016 A
1 A
6037017 AAAGATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAAATATTTAATATATTT
Found at i:6043379 original size:23 final size:23
Alignment explanation
Indices: 6043349--6043396 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6043339 TGATGGCATC
6043349 TTAGTATTAGCTCTATCTGATCA
1 TTAGTATTAGCTCTATCTGATCA
6043372 TTAGTATTAGCTCTATCTGATCA
1 TTAGTATTAGCTCTATCTGATCA
6043395 TT
1 TT
6043397 CTCTTGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (23 bp):
TTAGTATTAGCTCTATCTGATCA
Found at i:6053188 original size:17 final size:18
Alignment explanation
Indices: 6053175--6053215 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
6053165 TCATTAACAA
6053175 AAATATTTT-TTTAAAAT
1 AAATATTTTATTTAAAAT
6053192 AAATATTTTATTTAAATAT
1 AAATATTTTATTTAAA-AT
6053211 AAATA
1 AAATA
6053216 AAAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTTTATTTAAAAT
Found at i:6053279 original size:28 final size:27
Alignment explanation
Indices: 6053199--6053279 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
6053189 AATAAATATT
6053199 TTATTTAAATATAAATAAAA-AAT--AA
1 TTATTTAAATA-AAATAAAATAATAAAA
* *
6053224 TTTTTTAAATATAATAAAATTACA-AAAA
1 TTATTTAAATAAAATAAAA-TA-ATAAAA
6053252 TTATTTAAATAAAATAAAATAATTAAAA
1 TTATTTAAATAAAATAAAATAA-TAAAA
6053280 GCCAAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
24 7 0.16
25 10 0.22
26 2 0.04
27 3 0.07
28 23 0.51
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
TTATTTAAATAAAATAAAATAATAAAA
Found at i:6061393 original size:60 final size:60
Alignment explanation
Indices: 6061291--6061453 Score: 190
Period size: 59 Copynumber: 2.7 Consensus size: 60
6061281 TGCTTTTATA
* * *
6061291 CAAGAAAAATTGATACTTTCAAC-TTTTCATTAAAAATATTTTTCTT-GAAAATTTCA-TTCC
1 CAAGGAAAATTGATACTTTCAACTTTTTC-TT-AAAATGTTTTT-TTAAAAAATTTCATTTCC
* * * *
6061351 CAAGGAAAATTGATATTTTTAACTTTTTCTTAAAATGTTTTTTTAAAAAATTTTATTTTC
1 CAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTTTAAAAAATTTCATTTCC
* *
6061411 GAA-GAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTTT
6061454 TTTTAAATCT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 2 0.02
59 55 0.62
60 27 0.30
61 5 0.06
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTTTAAAAAATTTCATTTCC
Found at i:6061588 original size:58 final size:59
Alignment explanation
Indices: 6061463--6061601 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 59
6061453 TTTTTAAATC
* * *
6061463 TTTCAACTTTTTCTCAAAAGTGCTTTTTGAAAAATTTTATTTTCAAAAAAAATTGATAG
1 TTTCAACTTTTTCTCAAAAATACTTTTCGAAAAATTTTATTTTCAAAAAAAATTGATAG
* *** *
6061522 TTTCAACTTTTCCTCAAAAATACTTTTCGAAAAATTTTATTTTC-AAGGGAATTGATAT
1 TTTCAACTTTTTCTCAAAAATACTTTTCGAAAAATTTTATTTTCAAAAAAAATTGATAG
* *
6061580 TTTTAACTTTTTTTCAAAAATA
1 TTTCAACTTTTTCTCAAAAATA
6061602 TATATTTAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 29 0.42
59 40 0.58
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (59 bp):
TTTCAACTTTTTCTCAAAAATACTTTTCGAAAAATTTTATTTTCAAAAAAAATTGATAG
Found at i:6061736 original size:22 final size:21
Alignment explanation
Indices: 6061711--6061770 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
6061701 AAGAATGTTT
* **
6061711 AATTAAATAAATAAATTATTTC
1 AATTAAAT-AATAAATTAATAA
* *
6061733 AATTTAATCAATAAATAAATAA
1 AATTAAAT-AATAAATTAATAA
6061755 AATTAAATAATAAATT
1 AATTAAATAATAAATT
6061771 TAAAAGAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTAAATAATAAATTAATAA
Found at i:6063112 original size:86 final size:86
Alignment explanation
Indices: 6062966--6063237 Score: 334
Period size: 86 Copynumber: 3.2 Consensus size: 86
6062956 AATTAAATAA
* * * * *
6062966 AATGACCTTGGACTAAGCTAGAG-AAGATTCTGGCATAGATCGAAATTCAAAAATAGGATGACTT
1 AATGA-CTTGGACTGAGCCAAAGAAAGATT-TGGCATAGGTCGAAATTTAAAAATAGGATGACTT
*
6063030 GGATTGAACTGAAGTTTGAAATG
64 GGATTGAACTGAAGTCTGAAATG
* * *
6063053 AATGATTTGGACTGAGCCAAAGAAAGATTTGGCATAGGTCAAAATTTAAAAATAGGATGACCTGG
1 AATGACTTGGACTGAGCCAAAGAAAGATTTGGCATAGGTCGAAATTTAAAAATAGGATGACTTGG
** *
6063118 ATTGAACCAAAGTCTGAAACG
66 ATTGAACTGAAGTCTGAAATG
* * * * *
6063139 AATGACTTGGATTGAGCCGAAGAAGGATTTGACATAGGTCGAAATCCT-AAAATAGGATGACTTG
1 AATGACTTGGACTGAGCCAAAGAAAGATTTGGCATAGGTCGAAAT-TTAAAAATAGGATGACTTG
6063203 GATTGAA-TCGAAGTCTGAAATG
65 GATTGAACT-GAAGTCTGAAATG
6063225 AATGACTTGGACT
1 AATGACTTGGACT
6063238 AAATCGAAGA
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
86 146 0.92
87 12 0.08
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (86 bp):
AATGACTTGGACTGAGCCAAAGAAAGATTTGGCATAGGTCGAAATTTAAAAATAGGATGACTTGG
ATTGAACTGAAGTCTGAAATG
Found at i:6063246 original size:86 final size:85
Alignment explanation
Indices: 6062966--6063332 Score: 319
Period size: 86 Copynumber: 4.4 Consensus size: 85
6062956 AATTAAATAA
* * * * *
6062966 AATGACCTTGGACTAAG-C-TAGAGAAGATTCTGGCATAGATCGAAATTCAAAAATAGGATGACT
1 AATGA-CTTGGACTAAGCCGAAGA-AAGATT-T-GCATAGGTCGAAATCCTAAAATAGGATGACC
*
6063029 TGGATTGAA-CTGAAGTTTGAAATG
62 TGGATTGAATC-GAAGTCTGAAATG
* * * * *
6063053 AATGATTTGGACTGAGCCAAAGAAAGATTTGGCATAGGTCAAAAT-TTAAAAATAGGATGACCTG
1 AATGACTTGGACTAAGCCGAAGAAAGATTT-GCATAGGTCGAAATCCT-AAAATAGGATGACCTG
* * *
6063117 GATTGAACCAAAGTCTGAAACG
64 GATTGAATCGAAGTCTGAAATG
* * * *
6063139 AATGACTTGGATTGAGCCGAAGAAGGATTTGACATAGGTCGAAATCCTAAAATAGGATGACTTGG
1 AATGACTTGGACTAAGCCGAAGAAAGATTTG-CATAGGTCGAAATCCTAAAATAGGATGACCTGG
6063204 ATTGAATCGAAGTCTGAAATG
65 ATTGAATCGAAGTCTGAAATG
** * * * *
6063225 AATGACTTGGACTAAATCGAAGAAAGA--T-C-TA-G-C-ATATGCC-GAAATAAGATGACCTAG
1 AATGACTTGGACTAAGCCGAAGAAAGATTTGCATAGGTCGAAAT-CCTAAAATAGGATGACCTGG
*
6063282 ATTGAATCGAAGTCTAAAATG
65 ATTGAATCGAAGTCTGAAATG
* *
6063303 AATGATTTGGACTAAGTCGAAGAAA-ATTTG
1 AATGACTTGGACTAAGCCGAAGAAAGATTTG
6063333 GTACATGTCA
Statistics
Matches: 236, Mismatches: 34, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
77 1 0.00
78 59 0.25
79 4 0.02
80 1 0.00
81 2 0.01
82 1 0.00
84 1 0.00
85 1 0.00
86 149 0.63
87 14 0.06
88 3 0.01
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (85 bp):
AATGACTTGGACTAAGCCGAAGAAAGATTTGCATAGGTCGAAATCCTAAAATAGGATGACCTGGA
TTGAATCGAAGTCTGAAATG
Found at i:6075110 original size:58 final size:57
Alignment explanation
Indices: 6074900--6075228 Score: 220
Period size: 59 Copynumber: 5.6 Consensus size: 57
6074890 TGCTTTTATA
* * * * ** *
6074900 CAAGGAAAATTGAAACTTTCAACTTTTTCTCAAAAATATTTTTCTTGAAAACCTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAAATTTTT-TTG-AAATTTTTTTT
* * * * *** * **
6074959 CTAAAAAAAATTGATACTTT-TAGTTTTCCTTAAAATGCTTTTTTGGAGGTTTTATTTT
1 C-AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAAATTTTTTTGAAATTTT-TTTT
*
6075017 CAAGAAAAATTGATACTTTCAA-TTTTTCCTCAAAAAAATATTTTTTG-AATTTTTGTTT
1 CAAGAAAAATTGATACTTTCAACTTTTT-CTTAAAAAAAT-TTTTTTGAAATTTTT-TTT
* ** * **
6075075 CAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATGTTTTTCTTGAAAATTTCATTCC
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAAATTTTT-TTG-AAATTT-TTTTT
* ** *
6075135 CAACG-AAAATTGATA-TTTGTAACTTTTTCTT-AAAATGTTTTTCTGAAAAATTTTATTTT
1 CAA-GAAAAATTGATACTTT-CAACTTTTTCTTAAAAAAATTTTTTTG--AAATTTT-TTTT
*
6075194 CGAGAAAAATTGATACTTTCAACTTTTTCTTAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAA
6075229 TGTTTTTTTT
Statistics
Matches: 212, Mismatches: 40, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
57 29 0.14
58 56 0.26
59 74 0.35
60 51 0.24
61 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAAAATTTTTTTGAAATTTTTTTT
Found at i:6075469 original size:59 final size:58
Alignment explanation
Indices: 6075356--6075493 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 58
6075346 ATTGTTATTA
*
6075356 TTTTTAAAATTTTTATTTTCAAATAAAATTGATACTTTTAACTTTTTCTCAAAAATAC
1 TTTTTAAAAATTTTATTTTCAAATAAAATTGATACTTTTAACTTTTTCTCAAAAATAC
*
6075414 TTTTTGAAAAATTTTATTTTCAAGA-AAAATTGATACTTTTAACTTTCTT-TTAAAAATA-
1 TTTTT-AAAAATTTTATTTTCAA-ATAAAATTGATACTTTTAACTTT-TTCTCAAAAATAC
*
6075472 TATATATTTAAAATTTTATTTT
1 T-T-T-TTAAAAATTTTATTTT
6075494 AAAAGAGATC
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
58 6 0.08
59 46 0.65
60 17 0.24
61 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.51
Consensus pattern (58 bp):
TTTTTAAAAATTTTATTTTCAAATAAAATTGATACTTTTAACTTTTTCTCAAAAATAC
Found at i:6075539 original size:23 final size:22
Alignment explanation
Indices: 6075513--6075561 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
6075503 CATTGAAAAT
*
6075513 TAAAGAATGTTTAATTAAATAAA
1 TAAAGAAT-TTCAATTAAATAAA
** *
6075536 TAAATTATTTCAATTTAATAAA
1 TAAAGAATTTCAATTAAATAAA
6075558 TAAA
1 TAAA
6075562 TAAATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
TAAAGAATTTCAATTAAATAAA
Found at i:6075559 original size:4 final size:4
Alignment explanation
Indices: 6075552--6075580 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
6075542 ATTTCAATTT
6075552 AATA AATA AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
6075581 ATTAAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:6076299 original size:13 final size:13
Alignment explanation
Indices: 6076283--6076323 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
6076273 GTTTATCCCC
6076283 ATTCAAAAGCCAA
1 ATTCAAAAGCCAA
6076296 ATTCAAAAGCCAA
1 ATTCAAAAGCCAA
6076309 ATTCAAAAGCCAA
1 ATTCAAAAGCCAA
6076322 AT
1 AT
6076324 CCTTGATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (13 bp):
ATTCAAAAGCCAA
Found at i:6077035 original size:22 final size:21
Alignment explanation
Indices: 6076988--6077051 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 21
6076978 TATATTTTCA
*
6076988 ATAAAAATCA-CATTTTTATCT
1 ATAAAAAT-ATCATTTTTATTT
*
6077009 -TAAAATTATCATTTTTATTT
1 ATAAAAATATCATTTTTATTT
* *
6077029 ATAAAAA-ATAATTTTTTTTT
1 ATAAAAATATCATTTTTATTT
6077049 ATA
1 ATA
6077052 TTTTCAACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.83
21 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAAAATATCATTTTTATTT
Found at i:6081642 original size:73 final size:73
Alignment explanation
Indices: 6081523--6081669 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
6081513 ACATGGTGGA
6081523 TCAAACTCAATAGTAGCTATCATCTTACATTCCTACATCTTCTACCTAAATATGGTTATACATGC
1 TCAAACTCAATAGTAGCTATCATCTTACATTCCTACATCTTCTACCTAAATATGGTTATACATGC
*
6081588 ATCATACT
66 ATCAAACT
6081596 TCAAACTCAATAGTAGCTATCATCTTACATTCCTACATCTTCTACCTAAATATGGTTATACATGC
1 TCAAACTCAATAGTAGCTATCATCTTACATTCCTACATCTTCTACCTAAATATGGTTATACATGC
6081661 ATCAAACT
66 ATCAAACT
6081669 T
1 T
6081670 GTACAAAAAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.35
Consensus pattern (73 bp):
TCAAACTCAATAGTAGCTATCATCTTACATTCCTACATCTTCTACCTAAATATGGTTATACATGC
ATCAAACT
Found at i:6092432 original size:1 final size:1
Alignment explanation
Indices: 6092428--6092452 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
6092418 TTGATTAAGC
6092428 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
6092453 CCAAAAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6104431 original size:26 final size:27
Alignment explanation
Indices: 6104375--6104431 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
6104365 ATGAACTCAT
* *
6104375 TTATAAAGATTTTTAAAGCTATATTAA
1 TTATAAAGATATTTAAAACTATATTAA
6104402 -TATAAAGA-ATTTAAAACTATATTAA
1 TTATAAAGATATTTAAAACTATATTAA
6104427 TTATA
1 TTATA
6104432 TAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (27 bp):
TTATAAAGATATTTAAAACTATATTAA
Found at i:6115137 original size:21 final size:22
Alignment explanation
Indices: 6115113--6115153 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
6115103 AATAAATTTT
6115113 TTATTTA-AATCTAT-TAATTAC
1 TTATTTATAAT-TATATAATTAC
6115134 TTATTTATAATTATATAATT
1 TTATTTATAATTATATAATT
6115154 TCAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTTATAATTATATAATTAC
Found at i:6117504 original size:3 final size:3
Alignment explanation
Indices: 6117490--6117535 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
6117480 TCCTCCCCCA
* *
6117490 TCT TCC TCT TCT TCT TCT GCT TCT TCT TCT TCT TCT TCT TCAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT
6117536 CTGAAAATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:6125501 original size:75 final size:76
Alignment explanation
Indices: 6125360--6125507 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
6125350 CCAATCCTTG
*
6125360 CTCCTCCATCTCACAAGTGCCATTAAGAAAAAAAAAATTTTTTAATTTGAAATTGTTAGGGTTTC
1 CTCCTCCATCTCACAAGTGCCATTAAGAAAAAAAAAATATTTTAATTTGAAATTGTTAGGGTTTC
6125425 AGGGTTTGTTA
66 AGGGTTTGTTA
6125436 CTCCTCCATCTCACAAGTGCCATTAAGAAAAAAAAAA-ATTTTAATTTGAAATTGTTAGGGTTTC
1 CTCCTCCATCTCACAAGTGCCATTAAGAAAAAAAAAATATTTTAATTTGAAATTGTTAGGGTTTC
6125500 AGGGTTTG
66 AGGGTTTG
6125508 ATGCTTAATC
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 34 0.48
76 37 0.52
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (76 bp):
CTCCTCCATCTCACAAGTGCCATTAAGAAAAAAAAAATATTTTAATTTGAAATTGTTAGGGTTTC
AGGGTTTGTTA
Found at i:6128884 original size:21 final size:21
Alignment explanation
Indices: 6128848--6128901 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
6128838 TTTACTGTTT
* *
6128848 TTTGTTTTGCTACTGCAGATGC
1 TTTGTTTT-TTACTGCAAATGC
6128870 TTTGTTTTTTACTGCAAATGC
1 TTTGTTTTTTACTGCAAATGC
6128891 TTTGTTTTTTA
1 TTTGTTTTTTA
6128902 TTTGGTCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.56
Consensus pattern (21 bp):
TTTGTTTTTTACTGCAAATGC
Found at i:6131153 original size:17 final size:18
Alignment explanation
Indices: 6131122--6131159 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
6131112 TACAAACTTA
6131122 TCTATTAAGAATTCATTT
1 TCTATTAAGAATTCATTT
6131140 TCTATTAA-AATTCATTT
1 TCTATTAAGAATTCATTT
6131157 TCT
1 TCT
6131160 GTAAGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.53
Consensus pattern (18 bp):
TCTATTAAGAATTCATTT
Found at i:6137709 original size:51 final size:50
Alignment explanation
Indices: 6137561--6137698 Score: 150
Period size: 52 Copynumber: 2.7 Consensus size: 50
6137551 AAAAAAGAAG
** ** * * *
6137561 AAAAAAAAAAGGTTTCTAAATAAACCCAAATGGTGAAAATTTTAAAAATTTC
1 AAAAAAAAAATATTTCTAAATTGACCCAAATAGTGAAAAATTT-AGAA-TTC
* * *
6137613 AAAAAAAAGATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAATTC
1 AAAAAAAAAATATTTCTAAATTGACCCAAATAGTGAAAAATTTAGAATTC
*
6137663 AAAAGAAAAAATATTTCTAATTTGACCCAAATAGTG
1 AAAA-AAAAAATATTTCTAAATTGACCCAAATAGTG
6137699 GAATAATTAG
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 7 0.10
51 30 0.41
52 36 0.49
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAAAAAAAATATTTCTAAATTGACCCAAATAGTGAAAAATTTAGAATTC
Found at i:6141686 original size:25 final size:25
Alignment explanation
Indices: 6141650--6141751 Score: 100
Period size: 25 Copynumber: 4.1 Consensus size: 25
6141640 CTAATGGATG
*
6141650 AAAAAATCAAAAAGGAAAAA-AAATA
1 AAAAAATAAAAAAGGAAAAATAAA-A
* *
6141675 ATAAAATAAAAAATGAAAAATAAAA
1 AAAAAATAAAAAAGGAAAAATAAAA
**
6141700 AAAAAATAAAAAATAAAAAAT-AAA
1 AAAAAATAAAAAAGGAAAAATAAAA
* * *
6141724 AAAAAATGAAAGAATGAAAAAGAAAA
1 AAAAAAT-AAAAAAGGAAAAATAAAA
6141750 AA
1 AA
6141752 TGAAAAAGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.15
25 48 0.73
26 8 0.12
ACGTcount: A:0.81, C:0.01, G:0.07, T:0.11
Consensus pattern (25 bp):
AAAAAATAAAAAAGGAAAAATAAAA
Found at i:6141687 original size:7 final size:7
Alignment explanation
Indices: 6141667--6141726 Score: 81
Period size: 7 Copynumber: 8.9 Consensus size: 7
6141657 CAAAAAGGAA
6141667 AAAAAAT
1 AAAAAAT
6141674 AATAAAAT
1 AA-AAAAT
6141682 AAAAAAT
1 AAAAAAT
*
6141689 GAAAAAT
1 AAAAAAT
6141696 --AAAA-
1 AAAAAAT
6141700 AAAAAAT
1 AAAAAAT
6141707 AAAAAAT
1 AAAAAAT
6141714 AAAAAAT
1 AAAAAAT
6141721 AAAAAA
1 AAAAAA
6141727 AAATGAAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
5 4 0.08
6 4 0.08
7 33 0.69
8 7 0.15
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:6141694 original size:32 final size:32
Alignment explanation
Indices: 6141650--6141760 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 32
6141640 CTAATGGATG
*
6141650 AAAAAATCAAAAAGGAAAAAAAATAATAAAAT
1 AAAAAATGAAAAAGGAAAAAAAATAATAAAAT
**
6141682 AAAAAATGAAAAATAAAAAAAAAATAA-AAAAT
1 AAAAAATGAAAAA-GGAAAAAAAATAATAAAAT
* * *
6141714 AAAAAAT-AAAAA--AAAATGAAAGAATGAAAAAG
1 AAAAAATGAAAAAGGAAAA-AAAATAAT--AAAAT
6141746 AAAAAATGAAAAAGG
1 AAAAAATGAAAAAGG
6141761 GATAAAATGA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
28 4 0.06
29 5 0.08
31 5 0.08
32 35 0.54
33 16 0.25
ACGTcount: A:0.79, C:0.01, G:0.09, T:0.11
Consensus pattern (32 bp):
AAAAAATGAAAAAGGAAAAAAAATAATAAAAT
Found at i:6141743 original size:18 final size:17
Alignment explanation
Indices: 6141650--6141749 Score: 74
Period size: 18 Copynumber: 5.4 Consensus size: 17
6141640 CTAATGGATG
* **
6141650 AAAAAATCAAAAAGGAA
1 AAAAAATAAAAAATAAA
6141667 AAAAAATAATAAAATAAAAA
1 AAAAAATAA-AAAAT--AAA
*
6141687 ATGAAAAATAAAAAAAAAA
1 A--AAAAATAAAAAATAAA
6141706 TAAAAAATAAAAAATAAA
1 -AAAAAATAAAAAATAAA
*
6141724 AAAAAATGAAAGAATGAAA
1 AAAAAAT-AAAAAAT-AAA
6141743 AAGAAAA
1 AA-AAAA
6141750 AATGAAAAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
17 15 0.22
18 25 0.37
19 8 0.12
20 8 0.12
21 4 0.06
22 8 0.12
ACGTcount: A:0.81, C:0.01, G:0.07, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAAATAAA
Found at i:6141757 original size:7 final size:7
Alignment explanation
Indices: 6141677--6141758 Score: 63
Period size: 7 Copynumber: 12.6 Consensus size: 7
6141667 AAAAAATAAT
*
6141677 AAAATAA
1 AAAATGA
6141684 AAAATGA
1 AAAATGA
6141691 AAAAT-A
1 AAAATGA
6141697 AAAA--A
1 AAAATGA
*
6141702 AAAATAA
1 AAAATGA
*
6141709 AAAATAA
1 AAAATGA
6141716 AAAAT--
1 AAAATGA
6141721 AAAA--A
1 AAAATGA
6141726 AAAATGA
1 AAAATGA
6141733 AAGAATGA
1 AA-AATGA
6141741 AAAA-GAA
1 AAAATG-A
6141748 AAAATGA
1 AAAATGA
6141755 AAAA
1 AAAA
6141759 GGGATAAAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
5 13 0.20
6 6 0.09
7 39 0.59
8 8 0.12
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (7 bp):
AAAATGA
Found at i:6141771 original size:16 final size:14
Alignment explanation
Indices: 6141667--6141759 Score: 65
Period size: 14 Copynumber: 7.0 Consensus size: 14
6141657 CAAAAAGGAA
* *
6141667 AAAAAATAATAAAAT
1 AAAAAATGA-AAAAG
6141682 AAAAAATGAAAAA-
1 AAAAAATGAAAAAG
* *
6141695 TAAAAA--AAAAAT
1 AAAAAATGAAAAAG
6141707 AAAAAAT-AAAAA-
1 AAAAAATGAAAAAG
*
6141719 ATAAAAA--AAAATG
1 A-AAAAATGAAAAAG
*
6141732 AAAGAATGAAAAAG
1 AAAAAATGAAAAAG
6141746 AAAAAATGAAAAAG
1 AAAAAATGAAAAAG
6141760 GGATAAAATG
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
11 5 0.08
12 14 0.22
13 16 0.25
14 22 0.34
15 8 0.12
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (14 bp):
AAAAAATGAAAAAG
Found at i:6145917 original size:22 final size:22
Alignment explanation
Indices: 6145892--6145938 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6145882 TGAAATTAAA
*
6145892 ATTTTTATTATTATTTTG-ATTT
1 ATTTATATTATT-TTTTGAATTT
*
6145914 ATTTATCTTATTTTTTGAATTT
1 ATTTATATTATTTTTTGAATTT
6145936 ATT
1 ATT
6145939 AAAATCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTATATTATTTTTTGAATTT
Found at i:6146017 original size:2 final size:2
Alignment explanation
Indices: 6146012--6146049 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6146002 TCTCTCTCTT
6146012 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6146050 AATTAACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6147831 original size:4 final size:4
Alignment explanation
Indices: 6147794--6147855 Score: 61
Period size: 4 Copynumber: 15.5 Consensus size: 4
6147784 GTATGATGTA
* * * * * *
6147794 ATAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
6147842 ATAT ATAT AAAT AT
1 ATAT ATAT ATAT AT
6147856 CAAGTGATTC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:6147850 original size:8 final size:8
Alignment explanation
Indices: 6147794--6147846 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
6147784 GTATGATGTA
6147794 ATATACAT
1 ATATACAT
6147802 ATATACAT
1 ATATACAT
*
6147810 ACATACAT
1 ATATACAT
*
6147818 ACATACAT
1 ATATACAT
*
6147826 ATATATAT
1 ATATACAT
*
6147834 ATATATAT
1 ATATACAT
6147842 ATATA
1 ATATA
6147847 TATAAATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATACAT
Found at i:6147850 original size:12 final size:12
Alignment explanation
Indices: 6147794--6147846 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
6147784 GTATGATGTA
6147794 ATATACATATAT
1 ATATACATATAT
* *
6147806 ACATACATACAT
1 ATATACATATAT
*
6147818 ACATACATATAT
1 ATATACATATAT
*
6147830 ATATATATATAT
1 ATATACATATAT
6147842 ATATA
1 ATATA
6147847 TATAAATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATACATATAT
Found at i:6150432 original size:16 final size:15
Alignment explanation
Indices: 6150408--6150439 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
6150398 ATTTCAGTCA
6150408 TTTTAAATTTTGACT
1 TTTTAAATTTTGACT
6150423 TTTTATAATTTTGACT
1 TTTTA-AATTTTGACT
6150439 T
1 T
6150440 GAATTTTAGA
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:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTAAATTTTGACT
Found at i:6152068 original size:11 final size:11
Alignment explanation
Indices: 6152058--6152109 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
6152048 GATAACTTAG
*
6152058 TAATAAATTAG
1 TAATAAATTAA
* *
6152069 TGATAATTTAA
1 TAATAAATTAA
6152080 TAATAAATTAA
1 TAATAAATTAA
* * *
6152091 TGATAATTTAC
1 TAATAAATTAA
6152102 TAATAAAT
1 TAATAAAT
6152110 AGTTGATAAC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:6152341 original size:22 final size:22
Alignment explanation
Indices: 6152071--6152630 Score: 147
Period size: 22 Copynumber: 25.9 Consensus size: 22
6152061 TAAATTAGTG
* * *
6152071 ATAATTTAATAATAAATTAATG
1 ATAATTTAATAGTAAATCAATA
* * * *
6152093 ATAATTTACTAATAAAT-AGTTG
1 ATAATTTAATAGTAAATCA-ATA
* *
6152115 ATAACTTT-TTAGTAAATCAGTA
1 ATAA-TTTAATAGTAAATCAATA
* * *
6152137 ATAATATAATAATATAT-ACATA
1 ATAATTTAATAGTAAATCA-ATA
* * *
6152159 AT-ATGTTAACAATAAATCAATT
1 ATAAT-TTAATAGTAAATCAATA
* * *
6152181 ATAATATAGTTGTAAAT-ACATA
1 ATAATTTAATAGTAAATCA-ATA
* * * *
6152203 ATAATGT-ATAATAAATTAATG
1 ATAATTTAATAGTAAATCAATA
* * ** *
6152224 ATAACTTAACAAAAAAT-AAGTG
1 ATAATTTAATAGTAAATCAA-TA
* * * * *
6152246 ATAATTTAGTAGTTAATTATTG
1 ATAATTTAATAGTAAATCAATA
* * * *
6152268 ATAATTTAGTAATAAATTAACA
1 ATAATTTAATAGTAAATCAATA
** *
6152290 ATAACCTAATAGTAAATTAATA
1 ATAATTTAATAGTAAATCAATA
*
6152312 ATAATTTAATAGTAAATCAATT
1 ATAATTTAATAGTAAATCAATA
* * *
6152334 TTAGTTTAATAGT-AAT-TA-A
1 ATAATTTAATAGTAAATCAATA
* * *
6152353 ATGA--CAGTAGTAAATC-ATA
1 ATAATTTAATAGTAAATCAATA
6152372 AGTAATTTAATAGTAAATCAATA
1 A-TAATTTAATAGTAAATCAATA
* *
6152395 ATAAATTGTAATAATTAAT---TA
1 AT-AATT-TAATAGTAAATCAATA
*
6152416 ATAATTTAGTAGTAAAT-AATTA
1 ATAATTTAATAGTAAATCAA-TA
* * * * *
6152438 AAAACTAAAAAGTAAATCCAT-
1 ATAATTTAATAGTAAATCAATA
* ** * *
6152459 ATAACTTAGCAATAAATCATTA
1 ATAATTTAATAGTAAATCAATA
** * * *
6152481 ATAACATAATCGTTAATCAGTA
1 ATAATTTAATAGTAAATCAATA
* *
6152503 ATAACTTAATAATAAATC-ATA
1 ATAATTTAATAGTAAATCAATA
*
6152524 TATAATTTAATA-TAAATCGATA
1 -ATAATTTAATAGTAAATCAATA
* **
6152546 ATAACTTGGTAGTAAATC-ATAA
1 ATAATTTAATAGTAAATCAAT-A
* **
6152568 ATAATTTAATGGTAAATCGGTA
1 ATAATTTAATAGTAAATCAATA
**
6152590 ATAATTTTGTAGTAAAT-AATCA
1 ATAATTTAATAGTAAATCAAT-A
* * *
6152612 AAAATTAAATAGTTAATCA
1 ATAATTTAATAGTAAATCA
6152631 CTGATAGTTA
Statistics
Matches: 392, Mismatches: 112, Indels: 67
0.69 0.20 0.12
Matches are distributed among these distances:
17 5 0.01
18 4 0.01
19 11 0.03
20 7 0.02
21 62 0.16
22 275 0.70
23 19 0.05
24 9 0.02
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATA
Found at i:6152602 original size:44 final size:43
Alignment explanation
Indices: 6152501--6152606 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
6152491 CGTTAATCAG
** * *
6152501 TAATAACTTAATAATAAATCATATATAATTTAATATAAATCGA
1 TAATAACTTGGTAGTAAATCATAAATAATTTAATATAAATCGA
* *
6152544 TAATAACTTGGTAGTAAATCATAAATAATTTAATGGTAAATCGG
1 TAATAACTTGGTAGTAAATCATAAATAATTTAAT-ATAAATCGA
* *
6152588 TAATAATTTTGTAGTAAAT
1 TAATAACTTGGTAGTAAAT
6152607 AATCAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
43 30 0.56
44 24 0.44
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (43 bp):
TAATAACTTGGTAGTAAATCATAAATAATTTAATATAAATCGA
Found at i:6152754 original size:3 final size:3
Alignment explanation
Indices: 6152748--6152787 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
6152738 TATAAAAATT
6152748 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6152788 CAAAAACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6153204 original size:14 final size:14
Alignment explanation
Indices: 6153185--6153214 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6153175 ATTAGAAAGT
6153185 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
6153199 AAAAAAAAAAAGAA
1 AAAAAAAAAAACAA
6153213 AA
1 AA
6153215 CACAAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.93, C:0.03, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:6153986 original size:4 final size:4
Alignment explanation
Indices: 6153977--6154006 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
6153967 ATTTTTGAAT
*
6153977 AATA AATA AATA AATA AAAA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
6154007 AGAGAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:6154020 original size:20 final size:20
Alignment explanation
Indices: 6153974--6154026 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
6153964 CAAATTTTTG
*
6153974 AATAATAAATAAATAAATAA
1 AATAATAAATAAATAAAGAA
* *
6153994 AAAAATAAATAAA-AGAGAA
1 AATAATAAATAAATAAAGAA
6154013 TAATAATAAA-AAAT
1 -AATAATAAATAAAT
6154027 GCTAAAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
AATAATAAATAAATAAAGAA
Found at i:6154175 original size:12 final size:12
Alignment explanation
Indices: 6154150--6154190 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
6154140 GTTAGGGAAT
6154150 TATAAAAAATATA
1 TATAAAAAA-ATA
6154163 TATAAAAAAATA
1 TATAAAAAAATA
*
6154175 TATAAAATAATA
1 TATAAAAAAATA
6154187 -ATAA
1 TATAA
6154191 TAATAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 14 0.52
13 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TATAAAAAAATA
Found at i:6154342 original size:15 final size:14
Alignment explanation
Indices: 6154322--6154420 Score: 67
Period size: 16 Copynumber: 6.7 Consensus size: 14
6154312 CGTTTTCTTT
6154322 AAACCCTAAATTTCA
1 AAACCCTAAATTT-A
*
6154337 AAACCCTAAAACTT-
1 AAACCCT-AAATTTA
*
6154351 AAACCCTAAATTTCT
1 AAACCCTAAATTT-A
*
6154366 AAACCCAAAATCCTTA
1 AAACCCTAAAT--TTA
*
6154382 AAACCCCAAA-TTA
1 AAACCCTAAATTTA
* *
6154395 AAACCCCAAACCTTTC
1 AAACCCTAAA--TTTA
6154411 AAACCCTAAA
1 AAACCCTAAA
6154421 ATCGAGACTT
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
13 18 0.26
14 7 0.10
15 17 0.25
16 25 0.36
17 2 0.03
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAATTTA
Found at i:6154362 original size:29 final size:29
Alignment explanation
Indices: 6154322--6154420 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 29
6154312 CGTTTTCTTT
6154322 AAACCCTAAATTTCAAAACCCTAAAACTT-
1 AAACCCTAAATTTCAAAACCC-AAAACTTA
*
6154351 AAACCCTAAATTTCTAAACCCAAAATCCTTA
1 AAACCCTAAATTTCAAAACCCAAAA--CTTA
* * *
6154382 AAACCCCAAA-TT-AAAACCCCAAACCTTTC
1 AAACCCTAAATTTCAAAA-CCCAAAAC-TTA
6154411 AAACCCTAAA
1 AAACCCTAAA
6154421 ATCGAGACTT
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.08
29 34 0.58
30 11 0.19
31 9 0.15
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (29 bp):
AAACCCTAAATTTCAAAACCCAAAACTTA
Found at i:6154397 original size:13 final size:13
Alignment explanation
Indices: 6154379--6154404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6154369 CCCAAAATCC
6154379 TTAAAACCCCAAA
1 TTAAAACCCCAAA
6154392 TTAAAACCCCAAA
1 TTAAAACCCCAAA
6154405 CCTTTCAAAC
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:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
TTAAAACCCCAAA
Found at i:6154433 original size:21 final size:21
Alignment explanation
Indices: 6154408--6154459 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
6154398 CCCCAAACCT
6154408 TTCAAACCCTAAAATCGAGAC
1 TTCAAACCCTAAAATCGAGAC
6154429 TTCAAACCCTAAAATCGAGAC
1 TTCAAACCCTAAAATCGAGAC
6154450 TTCAAACCCT
1 TTCAAACCCT
6154460 TAAACTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.31, G:0.08, T:0.21
Consensus pattern (21 bp):
TTCAAACCCTAAAATCGAGAC
Found at i:6154484 original size:28 final size:28
Alignment explanation
Indices: 6154451--6154519 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
6154441 AATCGAGACT
*
6154451 TCAAACCCTTAAACTAAAACCTTAAACC
1 TCAAACCCTTAAACTAAAACCCTAAACC
* * *
6154479 TCAAACCCTAAAATTAAAACCCTAAATC
1 TCAAACCCTTAAACTAAAACCCTAAACC
*
6154507 TAAAACCC-TAAAC
1 TCAAACCCTTAAAC
6154520 CCTTTGAACC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.20
Consensus pattern (28 bp):
TCAAACCCTTAAACTAAAACCCTAAACC
Found at i:6154498 original size:14 final size:14
Alignment explanation
Indices: 6154453--6154518 Score: 78
Period size: 14 Copynumber: 4.7 Consensus size: 14
6154443 TCGAGACTTC
*
6154453 AAACCCTTAAACTA
1 AAACCCTAAAACTA
* * *
6154467 AAACCTTAAACCTC
1 AAACCCTAAAACTA
*
6154481 AAACCCTAAAATTA
1 AAACCCTAAAACTA
*
6154495 AAACCCTAAATCTA
1 AAACCCTAAAACTA
6154509 AAACCCTAAA
1 AAACCCTAAA
6154519 CCCTTTGAAC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:6154620 original size:30 final size:30
Alignment explanation
Indices: 6154580--6154636 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6154570 ACCGTAAACC
*
6154580 TCAAATCCTAAAATCAAAACCCT-AAACTTT
1 TCAAACCCTAAAA-CAAAACCCTCAAACTTT
*
6154610 TCAAACCCTAAAACCAAACCCTCAAAC
1 TCAAACCCTAAAACAAAACCCTCAAAC
6154637 CCTTAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (30 bp):
TCAAACCCTAAAACAAAACCCTCAAACTTT
Found at i:6154636 original size:21 final size:23
Alignment explanation
Indices: 6154610--6154651 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
6154600 CCTAAACTTT
6154610 TCAAACCC-TAAAAC-CAAACCC
1 TCAAACCCTTAAAACTCAAACCC
6154631 TCAAACCCTTAAAACTCAAAC
1 TCAAACCCTTAAAACTCAAAC
6154652 TAAAACTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (23 bp):
TCAAACCCTTAAAACTCAAACCC
Found at i:6154657 original size:21 final size:20
Alignment explanation
Indices: 6154612--6154664 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
6154602 TAAACTTTTC
*
6154612 AAACCCTAAAACCAAACCCTC
1 AAACCCTAAAACCAAA-CCTA
6154633 AAACCCTTAAAACTCAAA-CTA
1 AAACCC-TAAAAC-CAAACCTA
*
6154654 AAACTCTAAAA
1 AAACCCTAAAA
6154665 TACAAAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 6 0.21
23 4 0.14
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (20 bp):
AAACCCTAAAACCAAACCTA
Found at i:6156939 original size:16 final size:16
Alignment explanation
Indices: 6156920--6156971 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
6156910 GGATTTTAAG
6156920 ATTTTAGGGAGTTTGA
1 ATTTTAGGGAGTTTGA
* * *
6156936 ATTTAAGGGATTTTGG
1 ATTTTAGGGAGTTTGA
*
6156952 ATTTTAGGG-GTTTTA
1 ATTTTAGGGAGTTTGA
6156967 ATTTT
1 ATTTT
6156972 GGGGTTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
ATTTTAGGGAGTTTGA
Found at i:6156957 original size:32 final size:32
Alignment explanation
Indices: 6156910--6156970 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6156900 TTAAAGGTTA
6156910 GGATTTTAAGATTTTAGGGAGTTTGAATTTAAG
1 GGATTTTAAGATTTTAGGG-GTTTGAATTTAAG
* *
6156943 GGATTTT-GGATTTTAGGGGTTTTAATTT
1 GGATTTTAAGATTTTAGGGGTTTGAATTT
6156971 TGGGGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 10 0.38
33 7 0.27
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.48
Consensus pattern (32 bp):
GGATTTTAAGATTTTAGGGGTTTGAATTTAAG
Found at i:6156979 original size:22 final size:22
Alignment explanation
Indices: 6156945--6156988 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6156935 AATTTAAGGG
* **
6156945 ATTTTGGATTTTAGGGGTTTTA
1 ATTTTGGAGTTTAAAGGTTTTA
*
6156967 ATTTTGGGGTTTAAAGGTTTTA
1 ATTTTGGAGTTTAAAGGTTTTA
6156989 GAATTTAGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (22 bp):
ATTTTGGAGTTTAAAGGTTTTA
Done.