Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 138 of 161
Found at i:42997862 original size:5 final size:5
Alignment explanation
Indices: 42997852--42997877 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
42997842 TGTTTGGAGT
42997852 GAAGA GAAGA GAAGA GAAGA GAAGA G
1 GAAGA GAAGA GAAGA GAAGA GAAGA G
42997878 TGAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:43003269 original size:6 final size:6
Alignment explanation
Indices: 43003258--43003287 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
43003248 TAATTAAAGA
43003258 ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT
43003288 TTTCATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:43012729 original size:240 final size:240
Alignment explanation
Indices: 43011767--43012727 Score: 1904
Period size: 240 Copynumber: 4.0 Consensus size: 240
43011757 AATAATGAAA
43011767 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
1 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
43011832 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
66 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
43011897 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
131 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
43011962 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
196 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
43012007 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
1 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
43012072 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
66 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
43012137 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
131 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
43012202 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
196 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
43012247 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
1 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
43012312 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
66 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
43012377 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
131 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
43012442 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
196 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
**
43012487 TCCAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
1 TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
43012552 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
66 TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
43012617 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
131 ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
43012682 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
196 AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
43012727 T
1 T
43012728 CCTTCCTCAA
Statistics
Matches: 719, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 719 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (240 bp):
TAAAAAAATATAATTCTTACAACTAAGCCCTTAGCCATTAAGTGTTGGGTCCTTCAATACTTGTA
TACAAAGAAACTCTCAACGTTTAGTTGAGGACTATCTGTCTTAAAGTCTAGATTCTAAGTATACT
ATTTGGCTTTGTTGTTATTGATCCTGTGGCAAAGCCTCTAATGGTACTCTCTTTCTATATGCATG
AATCTAACTTCCAAAGATCCCCGATCTCTATTCCATCTAGCTTGG
Found at i:43018936 original size:19 final size:19
Alignment explanation
Indices: 43018886--43018948 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
43018876 GAACAAAAAA
43018886 TTATAAAATAATCAAAATAAT
1 TTATAAAATAATCAAAAT--T
*
43018907 CT-TAAAA-AATCAAAATT
1 TTATAAAATAATCAAAATT
*
43018924 TTATAAAATAATCTTAAATT
1 TTATAAAATAATC-AAAATT
43018944 TTATA
1 TTATA
43018949 TAAAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.36
20 15 0.42
21 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATAAAATAATCAAAATT
Found at i:43025569 original size:12 final size:12
Alignment explanation
Indices: 43025552--43025582 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
43025542 GGATGAAAAT
43025552 AAGTCATTTTAC
1 AAGTCATTTTAC
43025564 AAGTCATTTTAC
1 AAGTCATTTTAC
43025576 AAGTCAT
1 AAGTCAT
43025583 ATTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (12 bp):
AAGTCATTTTAC
Found at i:43026857 original size:11 final size:11
Alignment explanation
Indices: 43026841--43026871 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
43026831 TATAAATACT
43026841 GCCATGGTCCA
1 GCCATGGTCCA
43026852 GCCATGGTCCA
1 GCCATGGTCCA
*
43026863 ACCATGGTC
1 GCCATGGTC
43026872 TTACGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (11 bp):
GCCATGGTCCA
Found at i:43029184 original size:59 final size:58
Alignment explanation
Indices: 43029092--43029205 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 58
43029082 AATTTCATCC
*
43029092 TTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCATAATTCTTCACCTA
1 TTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCTA
* *
43029150 NTTGAGTCATCACTTAATTTGGTAAAATTGTGATTTAGTCCCTTAAAATTCTTCAC
1 -TTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCAC
43029206 GTTTTTCAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (58 bp):
TTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCAAAATTCTTCACCTA
Found at i:43029594 original size:25 final size:25
Alignment explanation
Indices: 43029539--43029601 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
43029529 TCTCGATACT
* * * *
43029539 TGGCTCTTATGAACTTCCCATTATT
1 TGGCTCTTATGAGCATCCCAATATG
* *
43029564 TAGCTCTTATGAGCATCCTAATATG
1 TGGCTCTTATGAGCATCCCAATATG
*
43029589 TGGCTCTCATGAG
1 TGGCTCTTATGAG
43029602 TTTCCTGATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (25 bp):
TGGCTCTTATGAGCATCCCAATATG
Found at i:43029619 original size:25 final size:24
Alignment explanation
Indices: 43029563--43029658 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
43029553 TTCCCATTAT
* * *
43029563 TTAGCTCTTATGAGCATCCTAATA
1 TTAGCTCTCATGAGCTTCCTGATA
* *
43029587 TGTGGCTCTCATGAGTTTCCTGATTAA
1 T-TAGCTCTCATGAGCTTCCTGA-T-A
* *
43029614 TT-GCTCTCTTAAGCTTCCTGATA
1 TTAGCTCTCATGAGCTTCCTGATA
43029637 TTAGCTCTCATGAGCTTCCTGA
1 TTAGCTCTCATGAGCTTCCTGA
43029659 ATTTGGCTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.05
24 19 0.33
25 32 0.55
26 2 0.03
27 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (24 bp):
TTAGCTCTCATGAGCTTCCTGATA
Found at i:43029760 original size:25 final size:25
Alignment explanation
Indices: 43029688--43029761 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
43029678 TGTGGCTCGT
* *
43029688 ATGAGCTTCCCGATAAT-TGGCTCGC
1 ATGAGCTTCCC-ATTATATGGCTCAC
* * *
43029713 AAGAGCTTCCCATTACATAGCTCAC
1 ATGAGCTTCCCATTATATGGCTCAC
*
43029738 ATGAGCTTCCTATTATATGGCTCA
1 ATGAGCTTCCCATTATATGGCTCA
43029762 AAAGAGCTAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 3 0.08
25 36 0.92
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGGCTCAC
Found at i:43029768 original size:25 final size:25
Alignment explanation
Indices: 43029713--43029769 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
43029703 ATTGGCTCGC
*
43029713 AAGAGCTTCCCATTACATAGCTCAC
1 AAGAGCTTCCCATTACATAGCTCAA
* * * *
43029738 ATGAGCTTCCTATTATATGGCTCAA
1 AAGAGCTTCCCATTACATAGCTCAA
43029763 AAGAGCT
1 AAGAGCT
43029770 ACCCGTTGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (25 bp):
AAGAGCTTCCCATTACATAGCTCAA
Found at i:43031787 original size:50 final size:51
Alignment explanation
Indices: 43031725--43031834 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 51
43031715 CCATTTCAAT
* *
43031725 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACCTTTCGTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
* * * *
43031776 CCTTTT-ATAATTTCATGACATAGTTTATTTGAATGCATACATTTCCTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
*
43031826 CTTTTTCAT
1 CCTTTTCAT
43031835 GCTTATTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 43 0.84
51 8 0.16
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (51 bp):
CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
Found at i:43042320 original size:70 final size:71
Alignment explanation
Indices: 43042233--43042380 Score: 280
Period size: 70 Copynumber: 2.1 Consensus size: 71
43042223 TTTTTAATTT
43042233 TTTTTATTTTTAAAAAATTAAAACATGAGATTTTATAGGGAATTATCTAGCTTTGAAATGAAAGA
1 TTTTTATTTTTAAAAAATTAAAACATGAGATTTTATAGGGAATTATCTAGCTTTGAAATGAAAGA
43042298 CTTA-G
66 CTTAGG
*
43042303 TTTTTATTTTTAAAAAATTAAAACATGAGATTTTATAGGGAATTATCTAGCTTTGAAATGAAAGC
1 TTTTTATTTTTAAAAAATTAAAACATGAGATTTTATAGGGAATTATCTAGCTTTGAAATGAAAGA
43042368 CTTAGG
66 CTTAGG
43042374 TTTTTAT
1 TTTTTAT
43042381 AGGGAAAAGT
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 68 0.89
71 8 0.11
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (71 bp):
TTTTTATTTTTAAAAAATTAAAACATGAGATTTTATAGGGAATTATCTAGCTTTGAAATGAAAGA
CTTAGG
Found at i:43042877 original size:72 final size:72
Alignment explanation
Indices: 43042792--43042935 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
43042782 AGAATGAATA
43042792 AAAAAGAAAACACCTTGCGTTTATATATATATATACAACTTTGGTTTTTACAAGAAAAATCATTT
1 AAAAAGAAAACACCTTGCGTTTATATATATATATACAACTTTGGTTTTTACAAGAAAAATCATTT
43042857 TATCTTT
66 TATCTTT
*
43042864 AAAAATAAAACACCTTGCGTTTATATATATATATACAACTTTGGTTTTTACAAGAAAAATCATTT
1 AAAAAGAAAACACCTTGCGTTTATATATATATATACAACTTTGGTTTTTACAAGAAAAATCATTT
43042929 TATCTTT
66 TATCTTT
43042936 TTAATCTTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (72 bp):
AAAAAGAAAACACCTTGCGTTTATATATATATATACAACTTTGGTTTTTACAAGAAAAATCATTT
TATCTTT
Found at i:43045136 original size:23 final size:21
Alignment explanation
Indices: 43045100--43045148 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
43045090 ATCTACATTC
43045100 ATCTTAAATATTAAAAAATAA
1 ATCTTAAATATTAAAAAATAA
* **
43045121 ATCTTGAA-A-TAATTAATAA
1 ATCTTAAATATTAAAAAATAA
43045140 ATCTTAAAT
1 ATCTTAAAT
43045149 TGTTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 15 0.65
20 1 0.04
21 7 0.30
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
ATCTTAAATATTAAAAAATAA
Found at i:43054231 original size:21 final size:21
Alignment explanation
Indices: 43054207--43054259 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
43054197 CATTGTTTCT
*
43054207 AATCTCACCGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* * *
43054228 AATCTCACAGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
43054249 AATCTCACCGC
1 AATCTCACCGC
43054260 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:43054648 original size:16 final size:16
Alignment explanation
Indices: 43054629--43054664 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
43054619 TTTTCACTCC
* *
43054629 CTCCCTCCCTCCTTCA
1 CTCCCTCACACCTTCA
43054645 CTCCCTCACACCTTCA
1 CTCCCTCACACCTTCA
43054661 CTCC
1 CTCC
43054665 ACAAAACGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.61, G:0.00, T:0.28
Consensus pattern (16 bp):
CTCCCTCACACCTTCA
Found at i:43060293 original size:24 final size:24
Alignment explanation
Indices: 43060266--43060313 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43060256 CTTTACGATT
43060266 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
43060290 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
43060314 GGCATGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.04, T:0.33
Consensus pattern (24 bp):
CTACTTAACCAGCCTCTATTCTAA
Found at i:43063200 original size:3 final size:3
Alignment explanation
Indices: 43063194--43063233 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
43063184 CTATTATTAT
*
43063194 TAC TAC TAC TAC TAC TAC TAC TGC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
43063234 TATTTGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:43068800 original size:35 final size:35
Alignment explanation
Indices: 43068761--43068828 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
43068751 TACCTCAAAG
* * *
43068761 CCTTTTTAGTTGAACTTCTTATCATGAATATTTTA
1 CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
*
43068796 CCTTTCTAATTGAACTCCTTATCTTGAATATTT
1 CCTTTCTAATTGAACTCCTTATCATGAATATTT
43068829 CGGAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (35 bp):
CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
Found at i:43069662 original size:121 final size:121
Alignment explanation
Indices: 43069448--43069693 Score: 474
Period size: 121 Copynumber: 2.0 Consensus size: 121
43069438 ACCTTTCATA
*
43069448 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCTCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
*
43069513 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTTATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
43069569 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
43069634 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
43069690 ACTA
1 ACTA
43069694 ACCAAATCAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (121 bp):
ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
Found at i:43072065 original size:21 final size:21
Alignment explanation
Indices: 43072041--43072080 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43072031 TATATTTATT
*
43072041 CATAACATAGGTAAGTTCAAC
1 CATAACATACGTAAGTTCAAC
*
43072062 CATAACATACGTAATTTCA
1 CATAACATACGTAAGTTCA
43072081 CAAATATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
CATAACATACGTAAGTTCAAC
Found at i:43086003 original size:18 final size:18
Alignment explanation
Indices: 43085949--43085996 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
43085939 AGTTGACTCG
43085949 AATAACTTGATTAATTTA
1 AATAACTTGATTAATTTA
43085967 AATAACTTGATTAATTTA
1 AATAACTTGATTAATTTA
43085985 AATAACTTGATT
1 AATAACTTGATT
43085997 CGTTTAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
AATAACTTGATTAATTTA
Found at i:43094716 original size:16 final size:16
Alignment explanation
Indices: 43094695--43094736 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43094685 TTATTAAATT
*
43094695 ATATATTTTAATTATA
1 ATATATTTTAATAATA
43094711 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43094726 AT-TATGTTTAA
1 ATATAT-TTTAA
43094737 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:43094721 original size:15 final size:15
Alignment explanation
Indices: 43094686--43094727 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43094676 TTAAGAATTT
*
43094686 TATTAAATTAT-ATA
1 TATTTAATTATAATA
43094700 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
43094714 TATTTAATAATAAT
1 TATTTAATTATAAT
43094728 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:43094971 original size:16 final size:16
Alignment explanation
Indices: 43094950--43095019 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
43094940 TTGATTTGCT
*
43094950 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
43094966 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
43094982 ATTACTCCTCTAATCC
1 ATTACACCTCTAATCC
*
43094998 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
43095014 AATACA
1 ATTACA
43095020 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:43095973 original size:25 final size:25
Alignment explanation
Indices: 43095936--43095984 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43095926 CAGTTAGGGA
43095936 AATTATAAAAAATATATATT-TTTAT
1 AATTATAAAAAAT-TATATTATTTAT
43095961 AATTA-AAATAAATTATATTATTTA
1 AATTATAAA-AAATTATATTATTTA
43095985 AGGGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTATAAAAAATTATATTATTTAT
Found at i:43099545 original size:13 final size:13
Alignment explanation
Indices: 43099527--43099551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43099517 TAATTAAGGT
43099527 ATAAAAGAAAAAA
1 ATAAAAGAAAAAA
43099540 ATAAAAGAAAAA
1 ATAAAAGAAAAA
43099552 GATGACATTT
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
ATAAAAGAAAAAA
Found at i:43110643 original size:94 final size:95
Alignment explanation
Indices: 43110459--43110650 Score: 307
Period size: 94 Copynumber: 2.0 Consensus size: 95
43110449 TTCAGATGAC
** * * *
43110459 TTTAATTACTGGATTACCCCCATTGCACTATTTAAAAAAAATGAAAAGTAGAAAAAAAAAGGTTC
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
43110524 TTAATGAATGCTGAGCCCTCGCTATTTTCAT
66 TTAATGAATGCTGAGCCCTCGCTATTTTC-T
*
43110555 TTTAATTACCAGATTACCCCCATTGCACTGTTT-AAAAAAATAAAAAGGAG-AAAAAAAAGCTTC
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
43110618 TTAATGAATGCTGAGCCCTCGCTATTTTCT
66 TTAATGAATGCTGAGCCCTCGCTATTTTCT
43110648 TTT
1 TTT
43110651 CGTCACTTCC
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
93 4 0.04
94 41 0.46
95 15 0.17
96 30 0.33
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.32
Consensus pattern (95 bp):
TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
TTAATGAATGCTGAGCCCTCGCTATTTTCT
Found at i:43113982 original size:6 final size:6
Alignment explanation
Indices: 43113967--43114014 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
43113957 CTTAAAACTG
43113967 ATCC-A ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA
43114014 A
1 A
43114015 AAACCCAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCCAA
Found at i:43118963 original size:12 final size:11
Alignment explanation
Indices: 43118946--43119014 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
43118936 GATAAGAAGA
43118946 AATAATGAAAAT
1 AATAAT-AAAAT
43118958 AATAATAACAAT
1 AATAATAA-AAT
*
43118970 AATAGTACAAAT
1 AATAATA-AAAT
**
43118982 AATAATAGGAT
1 AATAATAAAAT
43118993 --TAAT-AAAT
1 AATAATAAAAT
*
43119001 AATAATAAATT
1 AATAATAAAAT
43119012 AAT
1 AAT
43119015 TAGTAAAAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
8 2 0.04
9 4 0.09
10 4 0.09
11 10 0.22
12 24 0.53
13 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:43119260 original size:19 final size:21
Alignment explanation
Indices: 43119222--43119260 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
43119212 CTTTTTTTAA
*
43119222 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
43119243 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
43119261 AACAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:43119479 original size:19 final size:19
Alignment explanation
Indices: 43119455--43119510 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
43119445 AATCACATCT
43119455 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
43119474 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
43119495 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
43119511 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:43119492 original size:21 final size:21
Alignment explanation
Indices: 43119466--43119509 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43119456 CTAAGATTAC
43119466 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
43119487 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
43119508 AT
1 AT
43119510 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:43122595 original size:37 final size:37
Alignment explanation
Indices: 43122554--43122626 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
43122544 CATACGGTCC
* *
43122554 AAAATTTATAACATTATTTAATTCACACGCTCACTTG
1 AAAATTTATAACACTATTTAATTCACACACTCACTTG
* *
43122591 AAAATTTTTAACACTATTTAATTCATACACTCACTT
1 AAAATTTATAACACTATTTAATTCACACACTCACTT
43122627 CACACCAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (37 bp):
AAAATTTATAACACTATTTAATTCACACACTCACTTG
Found at i:43124306 original size:6 final size:6
Alignment explanation
Indices: 43124281--43124317 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
43124271 CCAAACACAC
43124281 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
43124318 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:43124348 original size:45 final size:43
Alignment explanation
Indices: 43124297--43124440 Score: 179
Period size: 45 Copynumber: 3.3 Consensus size: 43
43124287 ACAGTAATCA
43124297 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACC
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAA-C
* * * *
43124341 TGTAACAGTAACGGTAACTGTATTCTACACACAAAGTGCCG-A-
1 -GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
*
43124383 GT--CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAA-C
43124425 AGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
43124441 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 32 0.38
40 1 0.01
41 2 0.02
43 2 0.02
44 1 0.01
45 47 0.55
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
Found at i:43124389 original size:39 final size:39
Alignment explanation
Indices: 43124301--43124440 Score: 172
Period size: 39 Copynumber: 3.4 Consensus size: 39
43124291 TAATCAGTAA
43124301 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTG-A---GT
* * * *
43124344 AACAGTAACGGTAACTGTATTCTACACACAAAGTGCCGAGT
1 --CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAGT
* *
43124385 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAGT
43124424 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
43124441 GTCGGCACAT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 51 0.59
41 2 0.02
44 1 0.01
45 32 0.37
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAGT
Found at i:43125528 original size:16 final size:16
Alignment explanation
Indices: 43125509--43125541 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43125499 TTCTATTCTG
*
43125509 TTTCTTTTCTTTCTTT
1 TTTCTATTCTTTCTTT
43125525 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
43125541 T
1 T
43125542 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:43125563 original size:5 final size:5
Alignment explanation
Indices: 43125550--43125621 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
43125540 TTGTTTTATG
*
43125550 TATATA TATAA TATAA TATAT TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
*
43125598 TATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
43125622 GTATTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 5 0.09
5 34 0.62
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:43125584 original size:19 final size:19
Alignment explanation
Indices: 43125551--43125603 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
43125541 TGTTTTATGT
43125551 ATATATATAATATAATATA
1 ATATATATAATATAATATA
*
43125570 TTATAT-TAATAATAATATA
1 ATATATATAAT-ATAATATA
*
43125589 ATATA-AAAATATAAT
1 ATATATATAATATAAT
43125604 CATTACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATATAATATAATATA
Found at i:43125603 original size:24 final size:26
Alignment explanation
Indices: 43125557--43125619 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
43125547 ATGTATATAT
**
43125557 ATAATATAATAT-ATTATATTAAT-A
1 ATAATATAATATAAAAATATTAATCA
43125581 ATAATATAATATAAAAATA-TAATCA
1 ATAATATAATATAAAAATATTAATCA
* *
43125606 TTACTATAATATAA
1 ATAATATAATATAA
43125620 TAGTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 16 0.48
25 17 0.52
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
ATAATATAATATAAAAATATTAATCA
Found at i:43126954 original size:16 final size:17
Alignment explanation
Indices: 43126933--43126964 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43126923 TTAAAATACT
43126933 TTTTAAAA-AAATTTTA
1 TTTTAAAATAAATTTTA
43126949 TTTTAAAATAAATTTT
1 TTTTAAAATAAATTTT
43126965 GTGTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAAATAAATTTTA
Found at i:43127615 original size:14 final size:14
Alignment explanation
Indices: 43127595--43127629 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
43127585 AATCAACCTT
43127595 CACCTCCACCAATC
1 CACCTCCACCAATC
* *
43127609 TACCTCCACCGATC
1 CACCTCCACCAATC
43127623 CACCTCC
1 CACCTCC
43127630 GGTCCTCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.57, G:0.03, T:0.17
Consensus pattern (14 bp):
CACCTCCACCAATC
Found at i:43128811 original size:5 final size:5
Alignment explanation
Indices: 43128803--43128832 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
43128793 TTCTTTTTAG
*
43128803 AATTT AATTT AATTT AATTT AATTT GATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
43128833 TCTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:43129368 original size:24 final size:24
Alignment explanation
Indices: 43129341--43129388 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
43129331 GAATTTTTAA
43129341 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
*
43129365 GTTTTAAATTGTTTAAATTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
43129389 TTTAAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:43130324 original size:33 final size:33
Alignment explanation
Indices: 43130287--43130353 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
43130277 AGAGCAAGAG
43130287 AAACCACCATTGCCCTTGGTTAGTAAAAGAAAA
1 AAACCACCATTGCCCTTGGTTAGTAAAAGAAAA
*
43130320 AAACCACCATTGGCCTTGGTTAGTAAAAGAAAA
1 AAACCACCATTGCCCTTGGTTAGTAAAAGAAAA
43130353 A
1 A
43130354 GGATATAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (33 bp):
AAACCACCATTGCCCTTGGTTAGTAAAAGAAAA
Found at i:43131082 original size:12 final size:12
Alignment explanation
Indices: 43131065--43131090 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43131055 TATTTACTTA
43131065 TGATTATTGATG
1 TGATTATTGATG
43131077 TGATTATTGATG
1 TGATTATTGATG
43131089 TG
1 TG
43131091 GATTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (12 bp):
TGATTATTGATG
Found at i:43136519 original size:68 final size:67
Alignment explanation
Indices: 43136445--43136582 Score: 197
Period size: 68 Copynumber: 2.0 Consensus size: 67
43136435 AAATTGGAGG
* * *
43136445 GGGGAGGGGTTGGGGGAGCTGGGGGGTGGGATGGGAAGGGAATAAAAGTTTT-AGGAGAAAAGTG
1 GGGGAGGGGTTGGGGGAGATGGGAGGTGGGATGGGAAGAGAATAAAAGTTTTAAGG-GAAAAGTG
43136509 GGA
65 GGA
* * *
43136512 NGGGGAGGGTTTGGGGTAGATGGGAGGTGGGATGGGAAGAGAATAAAATTTTTAAGGGAAAAGTG
1 -GGGGAGGGGTTGGGGGAGATGGGAGGTGGGATGGGAAGAGAATAAAAGTTTTAAGGGAAAAGTG
43136577 GGA
65 GGA
43136580 GGG
1 GGG
43136583 AGTAAAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
67 3 0.05
68 57 0.90
69 3 0.05
ACGTcount: A:0.28, C:0.01, G:0.52, T:0.18
Consensus pattern (67 bp):
GGGGAGGGGTTGGGGGAGATGGGAGGTGGGATGGGAAGAGAATAAAAGTTTTAAGGGAAAAGTGG
GA
Found at i:43136987 original size:9 final size:10
Alignment explanation
Indices: 43136958--43136984 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43136948 CGAAATTCAA
43136958 ATTTTTTTCG
1 ATTTTTTTCG
43136968 ATTTTTTTCG
1 ATTTTTTTCG
43136978 ATTTTTT
1 ATTTTTT
43136985 CGAGTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.74
Consensus pattern (10 bp):
ATTTTTTTCG
Found at i:43137516 original size:24 final size:24
Alignment explanation
Indices: 43137489--43137540 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43137479 TTAGTAAGTC
*
43137489 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43137513 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43137537 AAAT
1 AAAT
43137541 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43145687 original size:93 final size:94
Alignment explanation
Indices: 43145503--43145693 Score: 296
Period size: 93 Copynumber: 2.0 Consensus size: 94
43145493 TTCAGATGAC
** * *
43145503 TTTAATTACTGGATTACCCCCATTGCACTATTTAAAAAAAATGAAAAGTAGAAAAAAAAAGGTTC
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAG-AGAAAAAAAAAGCTTC
43145568 TTAATGAATGCTGAGCCCTCGCTATTTTCAT
65 TTAATGAATGCTGAGCCCTCGCTATTTTC-T
* *
43145599 TTTAATTACCAGATTACCCCCATTGCACTGTTT-AAAAAAATAAAAAG-GAGAAAAAAAGCTTCT
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGAGAAAAAAAAAGCTTCT
43145662 TAATGAATGCTGAGCCCTCGCTATTTTCT
66 TAATGAATGCTGAGCCCTCGCTATTTTCT
43145691 TTT
1 TTT
43145694 CGTCACTTCC
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
92 4 0.04
93 42 0.47
95 13 0.15
96 30 0.34
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (94 bp):
TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGAGAAAAAAAAAGCTTCT
TAATGAATGCTGAGCCCTCGCTATTTTCT
Found at i:43149026 original size:6 final size:6
Alignment explanation
Indices: 43149011--43149040 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
43149001 CTTAAAACTG
43149011 ATCC-A ATCCAA ATCCAA ATCCAA ATCCAA A
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA A
43149041 AAACCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCCAA
Found at i:43152908 original size:5 final size:5
Alignment explanation
Indices: 43152898--43152922 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43152888 CAATCGTTAA
43152898 CAAAT CAAAT CAAAT CAAAT CAAAT
1 CAAAT CAAAT CAAAT CAAAT CAAAT
43152923 ATATACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
CAAAT
Found at i:43162709 original size:132 final size:133
Alignment explanation
Indices: 43162562--43162800 Score: 358
Period size: 132 Copynumber: 1.8 Consensus size: 133
43162552 AACGCCATAA
* * * *
43162562 AAAATTATTTTATTTGGAATAAAACGACATTGTTTTGCTAT-AT-AAAATGGCGCTAATTTTTTA
1 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCT-ATTTTTTA
*
43162625 AACTAAAATTATTTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTATTGCTCACCTTTTGCGGCG
65 AACTAAAATTA-TTTTTTGTGGCGTTTTTTTATAAAAACACCGCTATTGCTCACCTTTTGCGGCG
43162689 TTTTT
129 TTTTT
* *
43162694 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGCTAAAAATCTCGCTATTTTTTAA
1 AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCTATTTTTTAA
* *
43162759 AGTAAATTTATTTTTTGTGGCGTTTTTTTATAAAAACACCGC
66 ACTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGC
43162801 AAAAAATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
132 50 0.53
133 36 0.38
134 9 0.09
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (133 bp):
AAAATTATTTCATTTGGAATAAAACGACACTATTTTGCTATGATAAAAATCGCGCTATTTTTTAA
ACTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGCTATTGCTCACCTTTTGCGGCGTT
TTT
Found at i:43163320 original size:8 final size:7
Alignment explanation
Indices: 43163291--43163336 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
43163281 AGTAGTTAAT
43163291 CTAAACC
1 CTAAACC
*
43163298 TTAAACC
1 CTAAACC
43163305 CTAAACC
1 CTAAACC
43163312 CTAAAACC
1 CT-AAACC
43163320 CTAAACC
1 CTAAACC
43163327 CATAAACC
1 C-TAAACC
43163335 CT
1 CT
43163337 TAACACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 21 0.60
8 14 0.40
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:43163320 original size:15 final size:15
Alignment explanation
Indices: 43163291--43163336 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
43163281 AGTAGTTAAT
*
43163291 CTAAA-CCTTAAACC
1 CTAAACCCTAAAACC
43163305 CTAAACCCTAAAACC
1 CTAAACCCTAAAACC
43163320 CTAAACCC-ATAAACC
1 CTAAACCCTA-AAACC
43163335 CT
1 CT
43163337 TAACACATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 6 0.21
15 23 0.79
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAACCCTAAAACC
Found at i:43163345 original size:15 final size:15
Alignment explanation
Indices: 43163299--43163346 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
43163289 ATCTAAACCT
*
43163299 TAAACCCTAAAC-CC
1 TAAACCCTAAACACA
*
43163313 TAAAACCCTAAACCCA
1 T-AAACCCTAAACACA
*
43163329 TAAACCCTTAACACA
1 TAAACCCTAAACACA
43163344 TAA
1 TAA
43163347 CCTTTAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAACCCTAAACACA
Found at i:43163701 original size:41 final size:41
Alignment explanation
Indices: 43163644--43163722 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
43163634 TTTTAAATCT
43163644 CTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
1 CTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
**
43163685 CTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 CTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAA
43163723 TCCCCGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
Found at i:43163911 original size:114 final size:113
Alignment explanation
Indices: 43163654--43164175 Score: 839
Period size: 113 Copynumber: 4.6 Consensus size: 113
43163644 CTGAGCATTA
43163654 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGC-TTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
43163719 TAAATCCCCGAAAGCTCA-AAAACGGCGTCGTTGGGTTTAGGTTTTTTT
65 TAAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
** * * * *
43163767 GCGGCGCTTCTTTAAAAACACCGCTAAAGACCAGAGCATTAGCGGTGCTTTCTTAAAAACACCGC
1 GCGGCGCTTC-CCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* ** *
43163832 TAAATCCCCGAAAGCTCAGAAAACGGTATCGTTGGGCTTAGGTTTTTTT
65 TAAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
43163881 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTT-CCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
*
43163946 TAAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTGTTTTG
65 TAAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
43163995 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
1 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
43164060 AAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
66 AAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
* * * * *
43164108 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTAAGCTTTAGCGGGGCTTCCCTAAAAACGCCGCT
1 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
43164173 AAA
66 AAA
43164176 GACCTGAGCA
Statistics
Matches: 380, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
112 3 0.01
113 239 0.63
114 137 0.36
115 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (113 bp):
GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
AAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
Found at i:43164049 original size:227 final size:226
Alignment explanation
Indices: 43163654--43164175 Score: 839
Period size: 227 Copynumber: 2.3 Consensus size: 226
43163644 CTGAGCATTA
43163654 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGC-TTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * * * **
43163719 TAAATCCCCGAAAGCTCAAAAACGGCGTCGTTGGGTTTAGGTTTTTTTGCGGCGCTTCTTTAAAA
65 TAAATCACCGAAAGCTCAAAAACGGCGTCGTTGGGCTTAGGTGTTTTGGCGGCGCTTCTCCAAAA
* *
43163784 ACACCGCTAAAGACCAGAGCATTAGCGGTGCTTTCTTAAAAACACCGCTAAATCCCCGAAAGCTC
130 ACACCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAACACCGCTAAATCACCGAAAGCTC
* *
43163849 AGAAAACGGTATCGTTGGGCTTAGGTTTTTTT
195 AGAAAACGGCATCGTTGGGCTTAGGTTTTTTG
43163881 GCGGCGCTTCCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTT-CCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
43163946 TAAATCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTGTTTTGGCGGCGCTTC-CCAAA
65 TAAATCACCGAAAGCTCA-AAAACGGCGTCGTTGGGCTTAGGTGTTTTGGCGGCGCTTCTCCAAA
* * *
43164010 AACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCACCGAAAGCT
129 AACACCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAACACCGCTAAATCACCGAAAGCT
*
43164075 CAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTG
194 CAGAAAACGGCATCGTTGGGCTTAGGTTTTTTG
* * * * *
43164108 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTAAGCTTTAGCGGGGCTTCCCTAAAAACGCCGCT
1 GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
43164173 AAA
66 AAA
43164176 GACCTGAGCA
Statistics
Matches: 274, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
226 56 0.20
227 181 0.66
228 37 0.14
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (226 bp):
GCGGCGCTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT
AAATCACCGAAAGCTCAAAAACGGCGTCGTTGGGCTTAGGTGTTTTGGCGGCGCTTCTCCAAAAA
CACCGCTAAAGACCAGAGCATTAGCGGCGCTTTCTTAAAAACACCGCTAAATCACCGAAAGCTCA
GAAAACGGCATCGTTGGGCTTAGGTTTTTTG
Found at i:43164167 original size:41 final size:41
Alignment explanation
Indices: 43164108--43164216 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
43164098 AGGTTTTTTG
*
43164108 GCGGCGCTTCCC-AAAAACGCCGCTAAAGACCTAAGCTTTA
1 GCGGCGCTTCCCTAAAAACGCCGCTAAAGACCTAAGCATTA
* *
43164148 GCGGGGCTTCCCTAAAAACGCCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTCCCTAAAAACGCCGCTAAAGACCTAAGCATTA
* *
43164189 GCGGCGCTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTCCCTAAAAACGCCGCTAAA
43164217 TCACCGAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 11 0.18
41 51 0.82
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCCCTAAAAACGCCGCTAAAGACCTAAGCATTA
Found at i:43166793 original size:21 final size:21
Alignment explanation
Indices: 43166767--43166822 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
43166757 AACAGCGGTG
*
43166767 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGATACTATA
* *
43166788 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTATA
43166809 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
43166823 AACAGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:43166945 original size:9 final size:9
Alignment explanation
Indices: 43166931--43166965 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
43166921 ATAGAAGTTT
43166931 TTTAAATTA
1 TTTAAATTA
43166940 TTTAAATTA
1 TTTAAATTA
43166949 TTTAAAATTA
1 TTT-AAATTA
*
43166959 TTAAAAT
1 TTTAAAT
43166966 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTAAATTA
Found at i:43173347 original size:32 final size:32
Alignment explanation
Indices: 43173271--43173356 Score: 130
Period size: 26 Copynumber: 2.9 Consensus size: 32
43173261 TAAAAAATTC
43173271 AAGTATTAATCAATTGTTATCACCAGTTTAAT
1 AAGTATTAATCAATTGTTATCACCAGTTTAAT
43173303 AAG-A--AA-C-A-TGTTATCACCAGTTTAAT
1 AAGTATTAATCAATTGTTATCACCAGTTTAAT
43173329 AAGTATTAATCAATTGTTATCACCAGTT
1 AAGTATTAATCAATTGTTATCACCAGTT
43173357 GGATGGTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
26 21 0.44
27 2 0.04
28 1 0.02
29 4 0.08
30 1 0.02
31 2 0.04
32 17 0.35
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (32 bp):
AAGTATTAATCAATTGTTATCACCAGTTTAAT
Found at i:43178038 original size:41 final size:41
Alignment explanation
Indices: 43177981--43178064 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
43177971 TCCTTGTTTG
43177981 TTGTCTTGTTGGATCCTTCATGTTATATTATTTAATTAGTC
1 TTGTCTTGTTGGATCCTTCATGTTATATTATTTAATTAGTC
43178022 TTGTCTTGTTGGATCCTTCATGTTATATTATTTAATTAGTC
1 TTGTCTTGTTGGATCCTTCATGTTATATTATTTAATTAGTC
43178063 TT
1 TT
43178065 AAGGTTTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (41 bp):
TTGTCTTGTTGGATCCTTCATGTTATATTATTTAATTAGTC
Found at i:43181070 original size:18 final size:18
Alignment explanation
Indices: 43181047--43181087 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
43181037 AAATCAAAGA
43181047 GCAAACTAGGCCTTTCAG
1 GCAAACTAGGCCTTTCAG
43181065 GCAAACTAGGCCTTTCAG
1 GCAAACTAGGCCTTTCAG
*
43181083 TCAAA
1 GCAAA
43181088 ATTTTTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (18 bp):
GCAAACTAGGCCTTTCAG
Found at i:43185692 original size:54 final size:53
Alignment explanation
Indices: 43185602--43185716 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 53
43185592 GTTGAGACTA
*
43185602 ATTCAGAATAGGTACAAAATCGATGACAACTTTACAGAGAGGTAGAACACCGAT
1 ATTC-GAATAGGTACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
*
43185656 ATTCGAATAGGTTACAAAATCGATGACAACTCTACAGAGAGGTAGAAGACCGAT
1 ATTCGAATAGG-TACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
43185710 ATTCGAA
1 ATTCGAA
43185717 AATAATGTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 7 0.12
54 51 0.88
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (53 bp):
ATTCGAATAGGTACAAAATCGATGACAACTCTACAGAGAGGTAGAACACCGAT
Found at i:43198447 original size:111 final size:111
Alignment explanation
Indices: 43198253--43198473 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
43198243 CTTATTATTT
*
43198253 AAATCTTCATTTCGAGAAAACGACACGTCACATCCAATACATTAGGACACGACATATCGAATTCC
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
43198318 CGAAAGTGAGTTTTTGGTTTATGCGT-TTTGATTGTAGAAAATTTTA
66 CGAAAGTGAGTTTTTGGTTTATGC-TCTTTGATTGTAGAAAATTTTA
* * * *
43198364 AAATCTTCATTTCGAGAAAGCGACACATCACATCCAATACATTAGGACACGACGTATTGAATTCT
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
43198429 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
66 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
43198474 CGATTATTTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
110 1 0.01
111 103 0.99
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (111 bp):
AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACATATCGAATTCC
CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTTA
Found at i:43200328 original size:27 final size:26
Alignment explanation
Indices: 43200298--43200348 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
43200288 TTTTTGGAGT
43200298 TTTAATTGTTAATTTGGTTTTATTTTA
1 TTTAATTGTTAATTTGG-TTTATTTTA
* *
43200325 TTTATTTGTTTATTTGGTTTATTT
1 TTTAATTGTTAATTTGGTTTATTT
43200349 CACTAACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (26 bp):
TTTAATTGTTAATTTGGTTTATTTTA
Found at i:43201054 original size:53 final size:53
Alignment explanation
Indices: 43200997--43201100 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
43200987 AAATAAGGGG
* * * *
43200997 GAAA-GGAGAGAGTGAAGAAAAAAAAAAGAAA-CCAATCTAATCCATTACCCCAC
1 GAAAGGGAGA-AGT-AAAAAAAAAAAAAAAAACCCAACCTAACCCATTACCCCAC
* *
43201050 GAAAGGGGGAAGTAAAAAAAAAAAAAAAAACCCAACCTAACCCATTCCCCC
1 GAAAGGGAGAAGTAAAAAAAAAAAAAAAAACCCAACCTAACCCATTACCCC
43201101 CCCCCCACCC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 15 0.35
53 24 0.56
54 4 0.09
ACGTcount: A:0.53, C:0.22, G:0.15, T:0.10
Consensus pattern (53 bp):
GAAAGGGAGAAGTAAAAAAAAAAAAAAAAACCCAACCTAACCCATTACCCCAC
Found at i:43208480 original size:19 final size:18
Alignment explanation
Indices: 43208451--43208487 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
43208441 CAAAGATGCG
*
43208451 AAATGAATATGAGATGAT
1 AAATGAATATGAAATGAT
43208469 AAATGAAATATGAAATGAT
1 AAATG-AATATGAAATGAT
43208488 GAGATGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
AAATGAATATGAAATGAT
Found at i:43208493 original size:5 final size:5
Alignment explanation
Indices: 43208484--43208516 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
43208474 AAATATGAAA
*
43208484 TGATG AGATG TGATG TGATG TGATG TGATG TGA
1 TGATG TGATG TGATG TGATG TGATG TGATG TGA
43208517 AACTTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.36
Consensus pattern (5 bp):
TGATG
Found at i:43215565 original size:43 final size:42
Alignment explanation
Indices: 43215455--43215573 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 42
43215445 AGCTCGTACA
* *
43215455 ATGCCATCGTCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCA-CGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * ***
43215498 ATGCCACTGCCCCAAACAAAGTCTTACATGTAATCAAATATCG
1 ATGCCAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
43215541 ATGCCGACGTCCCAGACGTGGTCTTACACTGTA
1 ATGCC-ACGTCCCAGACGTGGTCTTACA-TGTA
43215574 GCGACCTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.89
44 6 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:43216103 original size:17 final size:17
Alignment explanation
Indices: 43216044--43216130 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 17
43216034 ATTTTTTTAA
*
43216044 AAAAAATTTGAAACACG
1 AAAAATTTTGAAACACG
*
43216061 -AAAA-TTTGCAAAACATG
1 AAAAATTTTG--AAACACG
* *
43216078 ACAATTTTTGAAACACG
1 AAAAATTTTGAAACACG
*
43216095 AAAAATTTTTAATACACG
1 AAAAATTTTGAA-ACACG
* * *
43216113 GAAACTTTTGAAATACG
1 AAAAATTTTGAAACACG
43216130 A
1 A
43216131 GAATTTTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 25 0.47
18 16 0.30
19 4 0.08
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
AAAAATTTTGAAACACG
Found at i:43216156 original size:34 final size:34
Alignment explanation
Indices: 43216050--43216159 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
43216040 TTAAAAAAAA
** *
43216050 TTTGAAACACGAAAATTTGCAAAACATGACAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
* * *
43216084 TTTGAAACACGAAAAATTTTTAATACACGGA-AACT
1 TTTGAAACACG-AAAATTTTAAAAACAC-GACAATT
* * *
43216119 TTTGAAATACGAGAATTTTAAAAACACGTCAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
43216153 TTTGAAA
1 TTTGAAA
43216160 ACTTGAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 1 0.02
34 34 0.55
35 25 0.40
36 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTGAAACACGAAAATTTTAAAAACACGACAATT
Found at i:43216801 original size:17 final size:17
Alignment explanation
Indices: 43216779--43216841 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
43216769 TTTTTTTTCC
43216779 TTTTCTCCTTTCTTTTT
1 TTTTCTCCTTTCTTTTT
**
43216796 TTTTCTTTTTTCTTTTT
1 TTTTCTCCTTTCTTTTT
* ** *
43216813 TCTTCTATTTTTTTTTCT
1 TTTTCTCCTTTCTTTT-T
43216831 TTTTCTCCTTT
1 TTTTCTCCTTT
43216842 TTTCCTTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 28 0.76
18 9 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTCCTTTCTTTTT
Found at i:43216810 original size:29 final size:29
Alignment explanation
Indices: 43216773--43216862 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 29
43216763 TGAATCTTTT
43216773 TTTTCCTTTTCTCCTTTCTTTTTTTTTCTT
1 TTTTCCTTTT-TCCTTTCTTTTTTTTTCTT
* *
43216803 TTTT-CTTTTTTCTTCTATTTTTTTTTCTT
1 TTTTCCTTTTTCCTT-TCTTTTTTTTTCTT
43216832 TTTCTCCTTTTTTCCTTATTCTTTCTTTTTT
1 TTT-TCC-TTTTTCC-T-TTCTTT-TTTTTT
43216863 TTGGCCTGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
28 4 0.08
29 21 0.43
30 5 0.10
31 1 0.02
32 6 0.12
33 5 0.10
34 7 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (29 bp):
TTTTCCTTTTTCCTTTCTTTTTTTTTCTT
Found at i:43216834 original size:38 final size:38
Alignment explanation
Indices: 43216787--43216864 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
43216777 CCTTTTCTCC
* * * *
43216787 TTTCTTTTTTTTTCTTTTTTCTTTTTTCTTCTATTTTTT
1 TTTCTTTTTTCTCCTTTTTTCCTTATTCTT-TATTTTTT
*
43216826 TTTC-TTTTTCTCCTTTTTTCCTTATTCTTTCTTTTTT
1 TTTCTTTTTTCTCCTTTTTTCCTTATTCTTTATTTTTT
43216863 TT
1 TT
43216865 GGCCTGCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 9 0.26
38 21 0.62
39 4 0.12
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (38 bp):
TTTCTTTTTTCTCCTTTTTTCCTTATTCTTTATTTTTT
Found at i:43216842 original size:17 final size:17
Alignment explanation
Indices: 43216770--43216863 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
43216760 AATTGAATCT
*
43216770 TTTTTTTCCTTTTCTCC
1 TTTTTTTCTTTTTCTCC
43216787 TTTCTTTT-TTTTTCT--
1 TTT-TTTTCTTTTTCTCC
* **
43216802 TTTTTCTTTTTTCTTCTATT
1 TTTTT-TTCTTT-TTCT-CC
43216822 TTTTTTTCTTTTTCTCC
1 TTTTTTTCTTTTTCTCC
* * *
43216839 TTTTTTCCTTATTCTTTC
1 TTTTTTTCTTTTTC-TCC
43216857 TTTTTTT
1 TTTTTTT
43216864 TGGCCTGCTG
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
14 2 0.03
15 5 0.08
16 3 0.05
17 25 0.41
18 16 0.26
19 5 0.08
20 5 0.08
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTCC
Found at i:43217050 original size:11 final size:10
Alignment explanation
Indices: 43217015--43217052 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
43217005 GCTTGCTTCT
43217015 TTTTTTTTTG
1 TTTTTTTTTG
43217025 TTTTTGTTTTG
1 TTTTT-TTTTG
*
43217036 -TTTTTTTGG
1 TTTTTTTTTG
43217045 TTTTTTTT
1 TTTTTTTT
43217053 GTTGGGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 4 0.16
10 16 0.64
11 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:43217073 original size:6 final size:6
Alignment explanation
Indices: 43217062--43217086 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43217052 TGTTGGGTTG
43217062 TTGGGT TTGGGT TTGGGT TTGGGT T
1 TTGGGT TTGGGT TTGGGT TTGGGT T
43217087 GCGGGTCGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
TTGGGT
Found at i:43217097 original size:12 final size:12
Alignment explanation
Indices: 43217082--43217123 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
43217072 GTTTGGGTTT
*
43217082 GGGTTGCGGGTC
1 GGGTCGCGGGTC
43217094 GGGTCGCGGGTC
1 GGGTCGCGGGTC
43217106 GGGTCGCGGGTC
1 GGGTCGCGGGTC
43217118 GGGTCG
1 GGGTCG
43217124 GATCGGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.00, C:0.21, G:0.60, T:0.19
Consensus pattern (12 bp):
GGGTCGCGGGTC
Found at i:43217167 original size:14 final size:13
Alignment explanation
Indices: 43217143--43217173 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
43217133 GACCCGACTA
43217143 TTTTATTTTTTAT
1 TTTTATTTTTTAT
43217156 TTTTATTTTTTTAT
1 TTTTA-TTTTTTAT
43217170 TTTT
1 TTTT
43217174 TCTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:43217179 original size:3 final size:3
Alignment explanation
Indices: 43217173--43217211 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
43217163 TTTTTATTTT
43217173 TTC TTC TTC TTTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
43217212 ACACGAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:43217185 original size:10 final size:10
Alignment explanation
Indices: 43217172--43217211 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
43217162 TTTTTTATTT
43217172 TTTCTTCTTC
1 TTTCTTCTTC
43217182 TTTCTTCTT-
1 TTTCTTCTTC
43217191 TCTTCTTCTTC
1 T-TTCTTCTTC
43217202 -TTCTTCTTC
1 TTTCTTCTTC
43217211 T
1 T
43217212 ACACGAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:43217186 original size:7 final size:7
Alignment explanation
Indices: 43217176--43217209 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
43217166 TTATTTTTTC
43217176 TTCTTCT
1 TTCTTCT
43217183 TTCTTCT
1 TTCTTCT
43217190 TTCTTC-
1 TTCTTCT
43217196 TTCTTC-
1 TTCTTCT
43217202 TTCTTCT
1 TTCTTCT
43217209 T
1 T
43217210 CTACACGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCTTCT
Found at i:43217300 original size:23 final size:21
Alignment explanation
Indices: 43217274--43217332 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
43217264 CCGTTGGAGG
43217274 CTCTCCTCTTCTTCTCTTTTCTC
1 CTCT-CTCTTCTTCTCTTTT-TC
43217297 CTCTCT-TTC-TCTCCTTTTTC
1 CTCTCTCTTCTTCT-CTTTTTC
*
43217317 CTCT-TCTTTTTCTCTT
1 CTCTCTCTTCTTCTCTT
43217333 GTTTGCAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 11 0.34
22 2 0.06
23 4 0.12
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
CTCTCTCTTCTTCTCTTTTTC
Found at i:43217313 original size:21 final size:21
Alignment explanation
Indices: 43217277--43217330 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 21
43217267 TTGGAGGCTC
*
43217277 TCCTCTTC-TTCTCT--TTTC
1 TCCTCTTCTTTCTCTCCTTTT
43217295 TCCTC-TCTTTCTCTCCTTTT
1 TCCTCTTCTTTCTCTCCTTTT
*
43217315 TCCTCTTCTTTTTCTC
1 TCCTCTTCTTTCTCTC
43217331 TTGTTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
20 8 0.27
21 9 0.30
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TCCTCTTCTTTCTCTCCTTTT
Found at i:43217327 original size:12 final size:11
Alignment explanation
Indices: 43217283--43217332 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
43217273 GCTCTCCTCT
43217283 TCTTCTCTTTTC
1 TCTTCT-TTTTC
* *
43217295 TCCTCTCTTTC
1 TCTTCTTTTTC
*
43217306 TCTCCTTTTTCC
1 TCTTCTTTTT-C
43217318 TCTTCTTTTTC
1 TCTTCTTTTTC
43217329 TCTT
1 TCTT
43217333 GTTTGCAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:43217590 original size:29 final size:30
Alignment explanation
Indices: 43217557--43217709 Score: 213
Period size: 29 Copynumber: 5.2 Consensus size: 30
43217547 GGCCAAAACA
**
43217557 TAATTTCGAGGAAGTTTAGGGGTC-AAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* * *
43217586 TAATTTTGAGAAAGTTTAGGGATCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
*
43217616 TAATTTC-AAAAAGTTTAGGGGTAAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* *
43217645 TAATTTTGAAAAATTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
43217675 TAATTTC-AAAAAGTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
43217704 TAATTT
1 TAATTT
43217710 TTATTTTTTT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
29 73 0.66
30 37 0.34
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (30 bp):
TAATTTCGAAAAAGTTTAGGGGTCAAAATG
Found at i:43217644 original size:59 final size:58
Alignment explanation
Indices: 43217568--43217710 Score: 232
Period size: 59 Copynumber: 2.4 Consensus size: 58
43217558 AATTTCGAGG
* *
43217568 AAGTTTAGGGGTCAAATGTAATTTTGAGAAAGTTTAGGGATCAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
* *
43217626 AAGTTTAGGGGTAAAAATGTAATTTTGAAAAATTTTAGGGGTCAAAATGTAATTTCAAA
1 AAGTTTAGGGGT-AAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
43217685 AAGTTTAGGGGTCAAAATGTAATTTT
1 AAGTTTAGGGGT-AAAATGTAATTTT
43217711 TATTTTTTTG
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
58 12 0.15
59 67 0.85
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (58 bp):
AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
Found at i:43217727 original size:17 final size:18
Alignment explanation
Indices: 43217702--43217737 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
43217692 GGGGTCAAAA
43217702 TGTAATTTTT-ATTTTTT
1 TGTAATTTTTGATTTTTT
*
43217719 TGTATTTTTTGATTTTTT
1 TGTAATTTTTGATTTTTT
43217737 T
1 T
43217738 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TGTAATTTTTGATTTTTT
Found at i:43218720 original size:28 final size:28
Alignment explanation
Indices: 43218680--43218736 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
43218670 TATGTTTGTT
43218680 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
43218708 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
43218736 T
1 T
43218737 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:43220551 original size:45 final size:46
Alignment explanation
Indices: 43220494--43220582 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 46
43220484 GTAAGGCCAA
* *
43220494 AGAGATTCAGATCCTGTA-TCCTTGAATTACAGTAGGAG-AGGATTG
1 AGAGATTCAGATCCTATACTCC-TAAATTACAGTAGGAGAAGGATTG
* *
43220539 AGAGAGTT-AGATCTTATACTCCTAAATTACAGTGGGAGAAGGAT
1 AGAGA-TTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGAT
43220583 GGTTCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
45 27 0.73
46 10 0.27
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (46 bp):
AGAGATTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGATTG
Found at i:43220637 original size:24 final size:24
Alignment explanation
Indices: 43220605--43220662 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
43220595 ATGTCCCAAA
*
43220605 ATTACAGTGGATTGAACCTTAAAG
1 ATTATAGTGGATTGAACCTTAAAG
*
43220629 ATTATAGTGAATTGAACCTTAAAG
1 ATTATAGTGGATTGAACCTTAAAG
*
43220653 GTTATAGTGG
1 ATTATAGTGG
43220663 GGGCAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (24 bp):
ATTATAGTGGATTGAACCTTAAAG
Found at i:43221330 original size:44 final size:44
Alignment explanation
Indices: 43221203--43222428 Score: 1295
Period size: 44 Copynumber: 27.3 Consensus size: 44
43221193 CTATAACAAG
*
43221203 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAA
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGAT-A-C-C-AA
* *
43221251 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * *
43221295 TCTTATCTCCCTGAAGTTGTAGCGGAGAAGATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * **
43221339 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATT-AAAATGATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAA
* * * *
43221383 TCCTATAC-CTCTGAAGTTGCAGTAGGTTG--GATT-AAGTCTACCATAACAA
1 TCTTAT-CTCCCTGAAGTTGCAGT-GG-AGCAGATTGAAG------ATACCAA
* * * * *
43221432 GTCTTATCTCCCTTAGGTTGCAGTGGAGAAGACTGAAGATAATTACAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A--CCAA
* * *
43221480 ACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * *
43221525 TCTTATCTCCCTGAAGTTGTAGCGGAGAAGATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * * * **
43221569 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATT-AAAATGATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCAA
* * * * * *
43221613 TCCTATAC-CTCTGAAGTTGTAGTAGG-TCGGATT-AAGTCTACTATAACAA
1 TCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAG------ATACCAA
*
43221662 GTCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAA
1 -TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGAT-A-C-C-AA
* *
43221711 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43221755 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43221799 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43221843 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43221887 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43221931 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43221975 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43222019 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43222063 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43222107 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43222151 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43222195 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43222239 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43222283 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* *
43222327 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
* * *
43222371 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
*
43222415 TCCTATCTCCCTGA
1 TCTTATCTCCCTGA
43222429 TCCATTTTTT
Statistics
Matches: 988, Mismatches: 151, Indels: 82
0.81 0.12 0.07
Matches are distributed among these distances:
43 6 0.01
44 785 0.79
45 16 0.02
46 5 0.01
47 4 0.00
48 103 0.10
49 20 0.02
50 43 0.04
51 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAA
Found at i:43221359 original size:88 final size:88
Alignment explanation
Indices: 43221203--43222428 Score: 1560
Period size: 88 Copynumber: 13.7 Consensus size: 88
43221193 CTATAACAAG
* * * * *
43221203 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAACCTTATCTCCCTGAAG
1 TCTTATCTCCCTGAA-GTTACAGTGGAGCAGATTGAAG-TTA-C-TAATCC-TATCTCCCTGAAG
43221267 TTGCAGTGGAGCAGGTTGAAGATACCAA
61 TTGCAGTGGAGCAGGTTGAAGATACCAA
** * * * *
43221295 TCTTATCTCCCTGAAGTTGTAGCGGAGAAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
* **
43221360 GTGGAGC-GGATT-AAAATGATGAA
66 GTGGAGCAGG-TTGAAGAT-ACCAA
* * * * *
43221383 TCCTATAC-CTCTGAAGTTGCAGTAGGTTG--GATT-AAGTCTACCATAACAAGTCTTATCTCCC
1 TCTTAT-CTCCCTGAAGTTACAGT-GG-AGCAGATTGAAGT-TA-C-T---AA-TCCTATCTCCC
* * * ** *
43221444 TTAGGTTGCAGTGGAGAAGACTGAAGATAATTACAA
56 TGAAGTTGCAGTGGAGCAGGTTGAAGAT-A--CCAA
* * * * * *
43221480 ACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGT
1 TC-TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGC
* * * * *
43221545 AGCGGAGAAGATTGAAGCTACTAA
65 AGTGGAGCAGGTTGAAGATACCAA
* * * * * * * *
43221569 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATGA-TGAATCCTATAC-CTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACT-AATCCTAT-CTCCCTGAAGTTG
* * *
43221632 TAGTAGG-TC-GGATT-AAGTCTACTATAACAA
64 CAGT-GGAGCAGG-TTGAAG------ATACCAA
* * * * *
43221662 GTCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAACCTTATCTCCCTGAA
1 -TCTTATCTCCCTGAA-GTTACAGTGGAGCAGATTGAAG-TTA-C-TAATCC-TATCTCCCTGAA
43221726 GTTGCAGTGGAGCAGGTTGAAGATACCAA
60 GTTGCAGTGGAGCAGGTTGAAGATACCAA
43221755 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43221820 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43221843 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43221908 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43221931 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43221996 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43222019 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43222084 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43222107 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43222172 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43222195 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43222260 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43222283 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
43222348 GTGGAGCAGGTTGAAGATACCAA
66 GTGGAGCAGGTTGAAGATACCAA
43222371 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGA
43222429 TCCATTTTTT
Statistics
Matches: 1007, Mismatches: 83, Indels: 92
0.85 0.07 0.08
Matches are distributed among these distances:
87 13 0.01
88 730 0.72
89 18 0.02
90 4 0.00
91 4 0.00
92 95 0.09
93 20 0.02
94 52 0.05
95 8 0.01
96 1 0.00
97 14 0.01
98 40 0.04
99 8 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCTCCCTGAAGTTGCA
GTGGAGCAGGTTGAAGATACCAA
Found at i:43221375 original size:230 final size:228
Alignment explanation
Indices: 43221112--43222428 Score: 1458
Period size: 230 Copynumber: 5.9 Consensus size: 228
43221102 TATCAAACTT
* * * *
43221112 TATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
43221177 GGTCGGATTAAGTCTACTATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGAT
66 GGTCGGATTAAGTCTAC-ATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGAT
43221242 AACCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
130 AA-CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
* * *
43221307 GAAGTTGTAGCGGAGAAGATTGAAGCTACTAATCC
194 GAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
*
43221342 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
* * *
43221407 GGTTGGATTAAGTCTACCATAACAAGTCTTATCTCCCTTAGGTTGCAGTGGAGAAGACTGAAGAT
66 GGTCGGATTAAGTCTA-CATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGAT
* * *
43221472 AATTACAAACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
130 AA-CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
* * *
43221537 GAAGTTGTAGCGGAGAAGATTGAAGCTACTAATCC
194 GAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
* *
43221572 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGTAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
43221637 GGTCGGATTAAGTCTACTATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGAT
66 GGTCGGATTAAGTCTAC-ATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGAT
43221702 AACCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
130 AA-CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
* *
43221767 GAAGTTACAGTGGAGCAGATTGAAGTTACTAATCC
194 GAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
* ** * * *
43221802 TATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAAGAT-ACCAATCTTAT-CTCCCTGAAGTTACA
1 TATCTCCCTGAAGTTGCAGTGGAGC-GGATT-AAAATGATGAATCCTATAC-CTCTGAAGTTGCA
* * * **
43221864 GT-GGAGCAGATTGAAGT-TAC-T---AA-TCCTATCTCCCTGAA-GTTGCAGTGGAGCAGGTTG
63 GTAGG-TCGGATT-AAGTCTACATAACAAGTCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTG
* * * * * *
43221921 AAGAT-AC-C-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCT
125 AAGATAACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* * * *
43221983 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCT
190 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
* * * * * *
43222022 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACT-AATCCTAT-CTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGA-TGAATCCTATAC-CTCTGAAGTTGCAG
* * * *
43222085 T-GGAGCAGG-TTGAAG-----ATACCAA-TCTTATCTCCCTGAA-GTTACAGTGGAGCAGATTG
64 TAGG-TC-GGATT-AAGTCTACATAACAAGTCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTG
* * *
43222141 AAG-TTAC-TAATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
125 AAGATAACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* *
43222203 CCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCC
190 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
* ** * * *
43222242 TATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAAGAT-ACCAATCTTAT-CTCCCTGAAGTTACA
1 TATCTCCCTGAAGTTGCAGTGGAGC-GGATT-AAAATGATGAATCCTATAC-CTCTGAAGTTGCA
* * * **
43222304 GT-GGAGCAGATTGAAGT-TAC-T---AA-TCCTATCTCCCTGAA-GTTGCAGTGGAGCAGGTTG
63 GTAGG-TCGGATT-AAGTCTACATAACAAGTCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTG
* * * * * *
43222361 AAGAT-AC-C-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAATCCTATCT
125 AAGATAACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
43222423 CCCTGA
190 CCCTGA
43222429 TCCATTTTTT
Statistics
Matches: 965, Mismatches: 94, Indels: 66
0.86 0.08 0.06
Matches are distributed among these distances:
217 1 0.00
219 7 0.01
220 408 0.42
221 8 0.01
222 1 0.00
223 2 0.00
224 33 0.03
225 4 0.00
228 1 0.00
229 4 0.00
230 485 0.50
231 11 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (228 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTA
GGTCGGATTAAGTCTACATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGATA
ACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTGAAGCTACTAATCC
Found at i:43226935 original size:50 final size:50
Alignment explanation
Indices: 43226881--43227003 Score: 192
Period size: 50 Copynumber: 2.5 Consensus size: 50
43226871 CACAGCTTGC
* * *
43226881 ATGAGCGTCCCGTTATTCAGCTTGCATGAGCTTCCCATTATTCAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGG
*
43226931 ATGAGCTTCTCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGG
1 ATGAGCTTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGG
* *
43226981 AAGAGCTTTCCGTTATTCAGCTC
1 ATGAGCTTCCCGTTATTCAGCTC
43227004 AGAAGAACTT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.34
Consensus pattern (50 bp):
ATGAGCTTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGG
Found at i:43227009 original size:25 final size:25
Alignment explanation
Indices: 43226873--43227003 Score: 172
Period size: 25 Copynumber: 5.2 Consensus size: 25
43226863 GGACACACCA
* *
43226873 CAGCTTGCATGAGCGTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
* *
43226898 CAGCTTGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
* *
43226923 CAGCTCGTATGAGCTTCTCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
43226948 CAGCTCGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
* * *
43226973 CAGCTCGGAAGAGCTTTCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
43226998 CAGCTC
1 CAGCTC
43227004 AGAAGAACTT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 93 1.00
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCGTTATT
Found at i:43231712 original size:22 final size:23
Alignment explanation
Indices: 43231685--43231727 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
43231675 ACTTAGGAAA
43231685 TTTTGCTTATT-TTTTT-TTATGT
1 TTTTGCTT-TTATTTTTCTTATGT
43231707 TTTTGCTTTTATTTTTCTTAT
1 TTTTGCTTTTATTTTTCTTAT
43231728 CAAAGTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTGCTTTTATTTTTCTTATGT
Found at i:43234289 original size:21 final size:22
Alignment explanation
Indices: 43234260--43234303 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
43234250 TTTTTTGTGG
43234260 TTTGATGATGAAA-TATAA-ATT
1 TTTGATGAT-AAACTATAATATT
*
43234281 TTTGTTGATAAACTATAATATT
1 TTTGATGATAAACTATAATATT
43234303 T
1 T
43234304 AATTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 13 0.65
22 4 0.20
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (22 bp):
TTTGATGATAAACTATAATATT
Found at i:43235993 original size:43 final size:43
Alignment explanation
Indices: 43235059--43235991 Score: 1789
Period size: 43 Copynumber: 21.7 Consensus size: 43
43235049 GATATGATTT
* * *
43235059 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235102 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235145 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235188 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235231 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235274 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235317 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235360 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235403 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235446 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235489 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235532 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235575 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235618 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235661 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235704 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235747 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235790 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235833 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
43235876 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
*
43235919 CGTGTAAGACCACGTCT-GAGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTAG-GACGTTGGCATTGACTTGTGTTTA
*
43235962 CGTGTAAGACCACGT-TTGAGACGTTGGCAT
1 CGTGTAAGACCACGTCTAG-GACGTTGGCAT
43235992 CGTATTTGAT
Statistics
Matches: 884, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
42 2 0.00
43 882 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATTGACTTGTGTTTA
Found at i:43239163 original size:16 final size:15
Alignment explanation
Indices: 43239140--43239169 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43239130 TTAATATGTT
43239140 TATTTATTCATATCA
1 TATTTATTCATATCA
43239155 TATTGTATTCATATC
1 TATT-TATTCATATC
43239170 GCATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTTATTCATATCA
Found at i:43241495 original size:69 final size:69
Alignment explanation
Indices: 43241352--43241502 Score: 187
Period size: 69 Copynumber: 2.2 Consensus size: 69
43241342 GTATTATAAT
* * * *
43241352 TTTTTTAATGAAATTAGTAAAGAATTGAGCTATAAGAGTATTCTCTGGTCAATGAAGGATTAAAA
1 TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
43241417 TTAA
66 TTAA
* ** * * *
43241421 ATTTTTAATGAAAATAGTAAAGAAGTGAACTATGTGAGTATTCTTTAGTCCATG-TGGATTAAAA
1 TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
43241485 TTAA
66 TTAA
*
43241489 CTTTTTTTATGAAA
1 -TTTTTTAATGAAA
43241503 GTAGGGAAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
68 13 0.19
69 56 0.81
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (69 bp):
TTTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAAGGATTAAAA
TTAA
Found at i:43242975 original size:22 final size:22
Alignment explanation
Indices: 43242949--43243013 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
43242939 AACTTAATCC
43242949 TTTCTCTCAAATTCTCTCT-AA
1 TTTCTCTCAAATTCTCTCTCAA
43242970 TATTCTCTCAAATTCT-TCTCAA
1 T-TTCTCTCAAATTCTCTCTCAA
43242992 TTTCCTCTCAAATTC-CTCTCAA
1 TTT-CTCTCAAATTCTCTCTCAA
43243014 ATTATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.15
22 34 0.85
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTCTCTCAAATTCTCTCTCAA
Found at i:43242991 original size:11 final size:10
Alignment explanation
Indices: 43242950--43243016 Score: 80
Period size: 11 Copynumber: 6.2 Consensus size: 10
43242940 ACTTAATCCT
43242950 TTCTCTCAAA
1 TTCTCTCAAA
43242960 TTCTCTCTAATA
1 TTCTCTC-AA-A
43242972 TTCTCTCAAA
1 TTCTCTCAAA
*
43242982 TTCTTCTCAAT
1 TTC-TCTCAAA
43242993 TTCCTCTCAAA
1 TT-CTCTCAAA
43243004 TTCCTCTCAAA
1 TT-CTCTCAAA
43243015 TT
1 TT
43243017 ATTTTCAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.22
11 31 0.61
12 9 0.18
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:43243011 original size:33 final size:33
Alignment explanation
Indices: 43242953--43243025 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
43242943 TAATCCTTTC
43242953 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
1 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
* *
43242986 TCTCAATTTC-CTCTCAA-ATTCCTCTCAAATTAT
1 TCTCAAATTCTCTCT-AATATT-CTCTCAAATTCT
*
43243019 TTTCAAA
1 TCTCAAA
43243026 AAAGCTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (33 bp):
TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
Found at i:43243024 original size:22 final size:22
Alignment explanation
Indices: 43242955--43243025 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
43242945 ATCCTTTCTC
*
43242955 TCAAATT-CTCTCTAA-TATTCT
1 TCAAATTCCTCTCAAATTATT-T
* * ** *
43242976 CTCAAATTCTTCTCAATTTCCTC
1 -TCAAATTCCTCTCAAATTATTT
43242999 TCAAATTCCTCTCAAATTATTT
1 TCAAATTCCTCTCAAATTATTT
43243021 TCAAA
1 TCAAA
43243026 AAAGCTTTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
22 29 0.81
23 5 0.14
24 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAAATTCCTCTCAAATTATTT
Found at i:43243062 original size:28 final size:28
Alignment explanation
Indices: 43243013--43243076 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
43243003 ATTCCTCTCA
* * *
43243013 AATTATTTTCAAAAAAGCTTTAATTTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
*
43243041 AATTATTTTTAAAAAAATTTTAAATTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
43243069 -ATT-TTTTT
1 AATTATTTTT
43243077 GAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 3 0.09
28 24 0.75
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTATTTTTAAAAAAACTTTAAATTTT
Found at i:43244207 original size:7 final size:7
Alignment explanation
Indices: 43244191--43244229 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
43244181 TAGTCGATTG
*
43244191 GTATTGA
1 GTATTTA
43244198 GTATTTA
1 GTATTTA
43244205 GTATTTA
1 GTATTTA
43244212 GTATTTA
1 GTATTTA
43244219 GTATTTA
1 GTATTTA
43244226 GTAT
1 GTAT
43244230 ATATAACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (7 bp):
GTATTTA
Found at i:43245560 original size:61 final size:61
Alignment explanation
Indices: 43245445--43245563 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
43245435 TAGATTAGAT
* * * *
43245445 TTTCTATGTACTAGTTGGAATTTACTTTTACATTTTTAATATAATAGAAATTCTTTTACAG
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
* * * **
43245506 TTTCTATGTACCAATTGTAATTTACTTTCATATTTTTAATAGATTAGATTTTCTTTTA
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTA
43245564 AATAAGTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (61 bp):
TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
Found at i:43248843 original size:126 final size:126
Alignment explanation
Indices: 43248617--43249035 Score: 658
Period size: 126 Copynumber: 3.3 Consensus size: 126
43248607 GGCCTAAAAG
* * *
43248617 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTTAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* * * *
43248682 CTGCTTAAAGTGTTTTTGACACTATTTGCTTAGAAACGTCAACTCAAAATTATTTTTTCAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * *
43248743 GAGCTACTGTAGCAAAAGCGTGTCCATGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* *
43248808 CTGCCTAAAGCGTTTTTGATACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAG
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* *
43248869 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
* * *
43248934 CTGTCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * *
43248995 GAGCAACTGTAGCAAAAACGCATCCACGTGGGAGTTTCTTT
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
43249036 AAATTAACAA
Statistics
Matches: 269, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 269 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
Found at i:43249178 original size:96 final size:95
Alignment explanation
Indices: 43249074--43249251 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 95
43249064 CCTAAACCCC
* * * *
43249074 AAACCCTAATTTAATTAAATTTTTAC-TT-AAAACCCTAAACACTAAACCCTAATCCAATTTTTA
1 AAACCCTAATTTAATT-AATTTTTACTTTAAAAACCATAAACACGAAA-CCTAATACAATTTTGA
* *
43249137 AACAATTTTTAATTAATTTACTCAAGAAACTGT
64 AA-AAATTATAATTAATTTACTCAAGAAACTGT
* *
43249170 AAACCCTAATTTAATTTATTTTTTCTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
1 AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
43249235 AAATTATAATTAATTTA
66 AAATTATAATTAATTTA
43249252 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 22 0.31
96 34 0.47
97 16 0.22
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.37
Consensus pattern (95 bp):
AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
AAATTATAATTAATTTACTCAAGAAACTGT
Found at i:43257109 original size:90 final size:90
Alignment explanation
Indices: 43257001--43257175 Score: 215
Period size: 90 Copynumber: 1.9 Consensus size: 90
43256991 TGCAATTCTA
* * * * * *
43257001 GTGGTTCATCCATATATTATCTGACAACTTTTATCTGCAATTAAGTTGTGCATTCACAACTATCT
1 GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
* * *
43257066 GGCAGTGTATTAAGCTGCAACACTG
66 GGAAATGTATTAACCTGCAACACTG
* * * * * *
43257091 GTGGTTCGCCCATCTATTATCTGACAGCTCTCATATGCATTTATGTTGTGTATTCACAACCATAT
1 GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
43257156 GGAAATGTATTAACCTGCAA
66 GGAAATGTATTAACCTGCAA
43257176 ATTTGTGGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (90 bp):
GTGGTTCACCCATATATTATCTGACAACTCTCATATGCAATTAAGTTGTGCATTCACAACCATAT
GGAAATGTATTAACCTGCAACACTG
Found at i:43269977 original size:6 final size:6
Alignment explanation
Indices: 43269967--43270014 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
43269957 AAGCTTAAGC
* *
43269967 AAATAA CAATAA ACATAA AAATAAA AAATAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAATA
43270015 TAACAAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:43269993 original size:7 final size:7
Alignment explanation
Indices: 43269983--43270023 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
43269973 CAATAAACAT
43269983 AAAAATA
1 AAAAATA
43269990 AAAAAT-
1 AAAAATA
43269996 AAAAAT-
1 AAAAATA
43270002 AAAAATA
1 AAAAATA
43270009 AAAATATA
1 AAAA-ATA
*
43270017 ACAAATA
1 AAAAATA
43270024 GACTCAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 12 0.39
7 13 0.42
8 6 0.19
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:43269995 original size:25 final size:27
Alignment explanation
Indices: 43269966--43270023 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
43269956 TAAGCTTAAG
* *
43269966 CAAATAACAATAAACATAAAAATA-AA
1 CAAATAAAAATAAAAATAAAAATATAA
43269992 -AAATAAAAATAAAAATAAAAATATAA
1 CAAATAAAAATAAAAATAAAAATATAA
43270018 CAAATA
1 CAAATA
43270024 GACTCAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 21 0.75
26 2 0.07
27 5 0.18
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (27 bp):
CAAATAAAAATAAAAATAAAAATATAA
Found at i:43269998 original size:19 final size:19
Alignment explanation
Indices: 43269974--43270023 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
43269964 AGCAAATAAC
*
43269974 AATAAACATAAAAATAAAA
1 AATAAAAATAAAAATAAAA
43269993 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAATAAAA
43270012 ATATAACAAATA
1 A-ATAA-AAATA
43270024 GACTCAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 19 0.68
20 4 0.14
21 5 0.18
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAA
Done.