Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 267 of 318
Found at i:85433724 original size:179 final size:176
Alignment explanation
Indices: 85433339--85433878 Score: 508
Period size: 179 Copynumber: 3.0 Consensus size: 176
85433329 CGTTGAGGTA
* * * *
85433339 TTTTC-AATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AG
1 TTTTCAAATTT-TGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * *
85433401 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGC
65 ACGCTGAGGTATTTT-CATTT-TGTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGC
* * * *
85433465 GAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
126 GAGAGGTGAGTTGAGCCTAGACTCACACGCCGAGGTATTTTCAAATTATGT
* *
85433516 TTTTCAAATTTTGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTCAAATTTTGTCTTTCC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
85433581 CACGCTGAGGTATTTTCATTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
64 CACGCTGAGGTATTTTCATTTTGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCG
*
85433646 AGAGGTGAGTTGAGCCTCAGGC-CACACGCCGAGGTATTTTC-AATTGATGTTT
127 AGAGGTGAGTTGAGCCT-AGACTCACACGCCGAGGTATTTTCAAATT-ATG--T
** * * * * *
85433698 TTTTTTAATTTATG-CTTTGC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTC
1 TTTTCAAATTT-TGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
** * * *
85433761 ACATATCGAGATATTTTCATAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTG
65 AC-GCT-GAGGTATTTTCAT--TTTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTG
* * * ** * * * *
85433823 CGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
125 CGAGAGGTGAGTTGAGCCTAGACTCACACGCCGAGGTATTTTCAAATTATGT
85433875 TTTT
1 TTTT
85433879 AATGTCTAGT
Statistics
Matches: 305, Mismatches: 39, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
177 17 0.06
178 10 0.03
179 159 0.52
180 56 0.18
181 29 0.10
182 15 0.05
183 14 0.05
184 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (176 bp):
TTTTCAAATTTTGTCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCATTTTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTAGACTCACACGCCGAGGTATTTTCAAATTATGT
Found at i:85434019 original size:21 final size:21
Alignment explanation
Indices: 85433993--85434034 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85433983 TTTATATCCC
85433993 TGAAGTTACAGTGAAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
* *
85434014 TGAAGTTGCAGTGGAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
85434035 CGAGGATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAAGTTACAGTGAAGCTAAT
Found at i:85440742 original size:14 final size:13
Alignment explanation
Indices: 85440694--85440747 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 13
85440684 ATAAATATTT
85440694 TATTTTTTAAAAA
1 TATTTTTTAAAAA
85440707 TATTTTTTGAGAACAA
1 TATTTTTT-A-AA-AA
85440723 TA-TTTTTAAAAA
1 TATTTTTTAAAAA
85440735 TACTTTTTTAAAA
1 TA-TTTTTTAAAA
85440748 TCAGCAGCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.11
13 10 0.28
14 11 0.31
15 7 0.19
16 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:85440748 original size:13 final size:12
Alignment explanation
Indices: 85440697--85440748 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 12
85440687 AATATTTTAT
85440697 TTTTTAAAAATA
1 TTTTTAAAAATA
85440709 TTTTTTGAGAACAATA
1 -TTTTT-A-AA-AATA
85440725 TTTTTAAAAATA
1 TTTTTAAAAATA
*
85440737 CTTTTTTAAAAT
1 -TTTTTAAAAAT
85440749 CAGCAGCCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.12
13 17 0.50
14 2 0.06
15 7 0.21
16 4 0.12
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:85451668 original size:11 final size:11
Alignment explanation
Indices: 85451661--85451702 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
85451651 CAAAAAATAG
85451661 CACCAAAACAA
1 CACCAAAACAA
*
85451672 CACCCAAACAA
1 CACCAAAACAA
*
85451683 CACCAAAACAG
1 CACCAAAACAA
*
85451694 CACCCAAAC
1 CACCAAAAC
85451703 TGCAGCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.55, C:0.43, G:0.02, T:0.00
Consensus pattern (11 bp):
CACCAAAACAA
Found at i:85451715 original size:22 final size:22
Alignment explanation
Indices: 85451661--85451702 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
85451651 CAAAAAATAG
*
85451661 CACCAAAACAACACCCAAACAA
1 CACCAAAACAGCACCCAAACAA
85451683 CACCAAAACAGCACCCAAAC
1 CACCAAAACAGCACCCAAAC
85451703 TGCAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.43, G:0.02, T:0.00
Consensus pattern (22 bp):
CACCAAAACAGCACCCAAACAA
Found at i:85452287 original size:28 final size:28
Alignment explanation
Indices: 85452234--85452287 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
85452224 CATGCCATAC
* *
85452234 TATTTTTCAATTTAATCCCTCCTTCTTT
1 TATTCTTCAATTTAATCCCTCATTCTTT
*
85452262 TATTCTTCAATTTAATCCCTTATTCT
1 TATTCTTCAATTTAATCCCTCATTCT
85452288 GTTAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (28 bp):
TATTCTTCAATTTAATCCCTCATTCTTT
Found at i:85457844 original size:23 final size:23
Alignment explanation
Indices: 85457812--85457856 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
85457802 CCGATTTGCT
* *
85457812 CCCTCCGTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTGTTCTG
*
85457835 CCCTCTGTTTATTTTCTGTTCT
1 CCCTCCGTTTATTTTCTGTTCT
85457857 TTTCTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.31, G:0.09, T:0.58
Consensus pattern (23 bp):
CCCTCCGTTTATTTTCTGTTCTG
Found at i:85457912 original size:66 final size:66
Alignment explanation
Indices: 85457819--85457968 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
85457809 GCTCCCTCCG
85457819 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGT-CAATTTGCTCCCTTCGTTT
85457883 CT
65 CT
* * *
85457885 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
85457950 T
66 T
85457951 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
85457969 GATTTGCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 79 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.26, G:0.08, T:0.63
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
T
Found at i:85457966 original size:38 final size:38
Alignment explanation
Indices: 85457835--85457975 Score: 133
Period size: 38 Copynumber: 4.0 Consensus size: 38
85457825 TTCTTTTCTG
* * *
85457835 CCCTCTGTTTATTTTCTGTTCTTTTCTTCCAATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
85457873 CCCT-TCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCT-GTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
85457901 CCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
* *
85457939 CCCTTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGC
85457976 CAGTTTCTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
28 18 0.21
29 4 0.05
30 3 0.04
32 1 0.01
34 1 0.01
36 3 0.04
37 4 0.05
38 51 0.60
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.60
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:85457993 original size:66 final size:66
Alignment explanation
Indices: 85457819--85457994 Score: 167
Period size: 66 Copynumber: 2.7 Consensus size: 66
85457809 GCTCCCTCCG
* ** * * * *
85457819 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGT-CGATTTGCTCCCTTCGTTT
85457883 CT
65 CT
* ** * ** * *
85457885 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
85457950 T
66 T
* *
85457951 TTTCTTTTCTTTTCTGCCGATTTG-CCAGTTTCTGCTGATTTCTG
1 TTTCTTTTCTTTTCTGCC-ATCTGTCCAGTTTCTGCTCATTTCTG
85457995 AGTTACTGCA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
66 92 0.96
67 4 0.04
ACGTcount: A:0.05, C:0.25, G:0.10, T:0.60
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
T
Found at i:85459909 original size:21 final size:21
Alignment explanation
Indices: 85459879--85459926 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
85459869 CATCTTAAAG
85459879 GCTGCAGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
85459900 GCTGCGGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
85459921 ACTGCA
1 GCTGCA
85459927 AAGAAGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GCTGCAGAACAGTTTGTCATC
Found at i:85462349 original size:41 final size:39
Alignment explanation
Indices: 85462304--85462440 Score: 118
Period size: 41 Copynumber: 3.4 Consensus size: 39
85462294 ATTTTATAGT
* *
85462304 ATTATATATTATGATTTTAGTAAATTATATATTTTTGTTAA
1 ATTATATATTATAATTTTAATAAATTATATA-TTTT-TTAA
** *
85462345 ATTATAT-TTAATAATAATTATTTTAAA-T-TATATTTTATAA
1 ATTATATATT-ATAAT--TT-TAATAAATTATATATTTTTTAA
*
85462385 TATTATATATTATAATTTTAATAAATTCATATATTTTATCAA
1 -ATTATATATTATAATTTTAATAAATT-ATATATTTT-TTAA
85462427 ATTATATATTATAA
1 ATTATATATTATAA
85462441 AAAATATATT
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
38 5 0.06
39 3 0.04
40 5 0.06
41 49 0.63
42 8 0.10
43 3 0.04
44 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (39 bp):
ATTATATATTATAATTTTAATAAATTATATATTTTTTAA
Found at i:85462375 original size:26 final size:25
Alignment explanation
Indices: 85462332--85462390 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
85462322 AGTAAATTAT
*
85462332 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
85462358 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
85462384 ATATTAT
1 ATATTAT
85462391 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:85462416 original size:24 final size:22
Alignment explanation
Indices: 85462371--85462439 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
85462361 ATTATTTTAA
85462371 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
85462393 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
85462412 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
85462434 ATTATA
1 ATTATA
85462440 AAAAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:85462420 original size:67 final size:69
Alignment explanation
Indices: 85462240--85462416 Score: 195
Period size: 70 Copynumber: 2.6 Consensus size: 69
85462230 AATCATAAGA
* * **
85462240 ATATT-TAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAATAATTTTATAGT
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAG-
85462304 ATTAT
65 ATTAT
* * ** *
85462309 ATATTATGATTTTAGTAAATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTA-A-A
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAGA
85462372 TTAT
66 TTAT
* *
85462376 ATTTTATAATATTA-TATATTATA-A-TTTTAATAAATTCATAT
1 ATATTATAATATTAGTAAATTATATATTTTTAATAAATT-ATAT
85462417 ATTTTATCAA
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
64 10 0.10
65 5 0.05
66 8 0.08
67 16 0.16
69 6 0.06
70 52 0.54
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (69 bp):
ATATTATAATATTAGTAAATTATATATTTTTAATAAATTATATTTAATAATAATAATTTTATAGA
TTAT
Found at i:85462422 original size:18 final size:17
Alignment explanation
Indices: 85462393--85462436 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
85462383 AATATTATAT
85462393 ATTATA-ATTTTAAT-AA
1 ATTATATATTTT-ATCAA
85462409 ATTCATATATTTTATCAA
1 ATT-ATATATTTTATCAA
85462427 ATTATATATT
1 ATTATATATT
85462437 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 12 0.48
18 10 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATATATTTTATCAA
Found at i:85462435 original size:17 final size:17
Alignment explanation
Indices: 85462247--85462456 Score: 63
Period size: 18 Copynumber: 12.6 Consensus size: 17
85462237 AGAATATTTA
*
85462247 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
85462264 ATTTTTGTTAAATTATAT
1 A-TTTTAATAAATTATAT
* *
85462282 -TTAATAATAATAATTTTAT
1 ATT-TTAAT-A-AATTATAT
* * *
85462301 AGTATT-ATATATTAT-G
1 A-TTTTAATAAATTATAT
*
85462317 ATTTTAGTAAATTATAT
1 ATTTTAATAAATTATAT
**
85462334 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
85462350 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
85462364 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
85462383 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
85462399 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
85462417 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
*
85462434 ATTATAA-AAA--ATAT
1 ATTTTAATAAATTATAT
85462448 A-TTTAATAA
1 ATTTTAATAA
85462457 TAATTATGTT
Statistics
Matches: 142, Mismatches: 28, Indels: 49
0.65 0.13 0.22
Matches are distributed among these distances:
13 6 0.04
14 13 0.09
15 11 0.08
16 25 0.18
17 31 0.22
18 40 0.28
19 10 0.07
20 5 0.04
21 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:85462705 original size:16 final size:16
Alignment explanation
Indices: 85462684--85462751 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
85462674 GATTTGCTAT
85462684 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
85462700 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
85462716 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
85462732 TACACCTGTAATCCAA
1 TACACCTCTAATCCAA
85462748 TACA
1 TACA
85462752 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.35, C:0.35, G:0.01, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:85470224 original size:49 final size:50
Alignment explanation
Indices: 85470134--85470234 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
85470124 TAAATGCTAA
*
85470134 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTTAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
*
85470184 AATTATTTAAGCAACTAAAAAAAATT-AAAACAACTGAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
85470233 AA
1 AA
85470235 ACATATCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 24 0.49
50 25 0.51
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (50 bp):
AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
Found at i:85472195 original size:46 final size:46
Alignment explanation
Indices: 85472143--85472407 Score: 222
Period size: 46 Copynumber: 5.7 Consensus size: 46
85472133 TGTGTGTGCT
* *
85472143 AGTGTAAGACATGTCTGGGACATGCATTGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCC
* * * *
85472189 AATGTAAGATCATATCTGGGACATGGCATCGG-CAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT--GATGAGAGCC
*
85472237 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATGATG-AGAGCC
* * *
85472283 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGA-GAGCC
* * * *
85472327 AGTGTATGACATGTCTAGGACATGCATTGGCACAGATATG-TGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-C--ATATGATGAGAGCC
* *
85472375 AGTGTAAAACCATGTCTGGGAAATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
85472408 ATTATACCCT
Statistics
Matches: 175, Mismatches: 25, Indels: 34
0.75 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 32 0.18
45 1 0.01
46 53 0.30
47 32 0.18
48 30 0.17
49 17 0.10
50 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCC
Found at i:85478721 original size:20 final size:20
Alignment explanation
Indices: 85478698--85478737 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
85478688 GGTTTGTACG
85478698 CGGCTTTCAGACGTTGTAAC
1 CGGCTTTCAGACGTTGTAAC
85478718 CGGCTTTCAGACGTTGTAAC
1 CGGCTTTCAGACGTTGTAAC
85478738 TCGGTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (20 bp):
CGGCTTTCAGACGTTGTAAC
Found at i:85479335 original size:24 final size:25
Alignment explanation
Indices: 85479302--85479348 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85479292 AACTAACATC
*
85479302 ACATAGCTC-AAATACTCATCAATG
1 ACATAACTCAAAATACTCATCAATG
*
85479326 ACATAACTCAAAATATTCATCAA
1 ACATAACTCAAAATACTCATCAA
85479349 AATCAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (25 bp):
ACATAACTCAAAATACTCATCAATG
Found at i:85482862 original size:9 final size:9
Alignment explanation
Indices: 85482848--85482883 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
85482838 ACAAGTCTTA
85482848 TTTTAATTT
1 TTTTAATTT
85482857 TTTTAATTT
1 TTTTAATTT
85482866 ATTTTAGATTT
1 -TTTTA-ATTT
85482877 TTTTAAT
1 TTTTAAT
85482884 CTAGTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 11 0.44
10 10 0.40
11 4 0.16
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTAATTT
Found at i:85482869 original size:19 final size:20
Alignment explanation
Indices: 85482845--85482883 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85482835 TTAACAAGTC
85482845 TTATTTTA-ATTTTTTTAAT
1 TTATTTTAGATTTTTTTAAT
85482864 TTATTTTAGATTTTTTTAAT
1 TTATTTTAGATTTTTTTAAT
85482884 CTAGTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTTAGATTTTTTTAAT
Found at i:85491064 original size:27 final size:27
Alignment explanation
Indices: 85491026--85491080 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
85491016 CTATTCTCTT
85491026 CTCCATCAACCCCAACCAAGTAAACCA
1 CTCCATCAACCCCAACCAAGTAAACCA
*
85491053 CTCCATCAACCCTAACCAAGTAAACCA
1 CTCCATCAACCCCAACCAAGTAAACCA
85491080 C
1 C
85491081 CCACGTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.44, G:0.04, T:0.13
Consensus pattern (27 bp):
CTCCATCAACCCCAACCAAGTAAACCA
Found at i:85492332 original size:17 final size:18
Alignment explanation
Indices: 85492302--85492347 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
85492292 ATTTAAATTG
85492302 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
85492320 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
85492336 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
85492348 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:85496646 original size:3 final size:3
Alignment explanation
Indices: 85496638--85496746 Score: 83
Period size: 3 Copynumber: 36.0 Consensus size: 3
85496628 GTAAAAAATT
* **
85496638 TAA TAA TAA TAA TAC TGG TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
85496684 TAA TAA TAA TAA TGA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
85496732 TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA
85496747 AAATCTTAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
3 90 0.97
4 3 0.03
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:85505557 original size:22 final size:22
Alignment explanation
Indices: 85505522--85505572 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
85505512 AATTAAGCTT
*
85505522 AATA-TTA-TTTTATTTATAAT
1 AATATTTATTTTTATTTATAAA
* *
85505542 AATTTTTATTTTTATTTTTAAA
1 AATATTTATTTTTATTTATAAA
85505564 AATATTTAT
1 AATATTTAT
85505573 AATTATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 19 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATATTTATTTTTATTTATAAA
Found at i:85505694 original size:22 final size:21
Alignment explanation
Indices: 85505654--85505715 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
85505644 TTAGTCATAT
* *
85505654 AATAAATTATTAATATAATTA
1 AATAAATTATTATTTTAATTA
85505675 ATATAAATTATTATTTTAA-TA
1 A-ATAAATTATTATTTTAATTA
* * *
85505696 AATTATTTAATATTTTAATT
1 AATAAATTATTATTTTAATT
85505716 TTATTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.41
21 5 0.15
22 15 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAAATTATTATTTTAATTA
Found at i:85506913 original size:30 final size:30
Alignment explanation
Indices: 85506856--85506918 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
85506846 TTAAATAGTC
* * *
85506856 CACACGGTCGTATGGTATGACCGTGTGTAG
1 CACACGGTCATATGGTACGACCATGTGTAG
* * *
85506886 CACACGGTCATGTGGTGCGACCATGTGTGG
1 CACACGGTCATATGGTACGACCATGTGTAG
85506916 CAC
1 CAC
85506919 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (30 bp):
CACACGGTCATATGGTACGACCATGTGTAG
Found at i:85508269 original size:27 final size:27
Alignment explanation
Indices: 85508239--85508290 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
85508229 ATCACACACT
*
85508239 ATTTTATACTATATTCAAT-TCATTCTA
1 ATTTTAT-CAATATTCAATATCATTCTA
*
85508266 ATTTTCTCAATATTCAATATCATTC
1 ATTTTATCAATATTCAATATCATTC
85508291 AATATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTATCAATATTCAATATCATTCTA
Found at i:85519077 original size:21 final size:21
Alignment explanation
Indices: 85519051--85519091 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85519041 ATCTGCTCAA
* *
85519051 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
85519072 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
85519092 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:85525365 original size:13 final size:13
Alignment explanation
Indices: 85525330--85525370 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
85525320 AATAAAACTC
85525330 AAAGAGTCCACATAA
1 AAAGAGTCCA-A-AA
*
85525345 AAAAAGTCCAAAA
1 AAAGAGTCCAAAA
85525358 AAAGAGTCCAAAA
1 AAAGAGTCCAAAA
85525371 TTACAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.58
14 1 0.04
15 9 0.38
ACGTcount: A:0.61, C:0.17, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAGAGTCCAAAA
Found at i:85526394 original size:3 final size:3
Alignment explanation
Indices: 85526380--85526436 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
85526370 TATTAAATTA
* *
85526380 ATT ATT ACT ATT ATT ATT ATT ATT -TAT ATT CATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT ATT ATT ATT ATT
*
85526426 ATT ATT TTT AT
1 ATT ATT ATT AT
85526437 GATCATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 40 0.89
4 4 0.09
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:85526395 original size:12 final size:12
Alignment explanation
Indices: 85526363--85526431 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
85526353 TGTTATTTCG
85526363 ACTATT-TTATT
1 ACTATTATTATT
*
85526374 A-AATTAATTATT
1 ACTATT-ATTATT
85526386 ACTATTATTATT
1 ACTATTATTATT
*
85526398 ATTATT-TATATT
1 ACTATTAT-TATT
*
85526410 CATTATTATTATT
1 -ACTATTATTATT
85526423 ACTATTATT
1 ACTATTATT
85526432 TTTATGATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
10 3 0.06
11 2 0.04
12 29 0.60
13 13 0.27
14 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
ACTATTATTATT
Found at i:85526611 original size:61 final size:60
Alignment explanation
Indices: 85526539--85526679 Score: 189
Period size: 61 Copynumber: 2.3 Consensus size: 60
85526529 GATTTTTTTA
85526539 TTATTTCATTTATT-ATTCCTCTATTATT-TTATTTATT-TCATTATTATTATCTTATTATATAT
1 TTATTT-ATTTATTCATT--TCTATT-TTGTT-TTTATTCTCATTATTATTATCTTATTATATAT
* *
85526601 TTATTTATTTATTTCATTTTTATTTTGTTTTTGTTCTCATTATTATTATCTTATTATATAT
1 TTATTTATTTA-TTCATTTCTATTTTGTTTTTATTCTCATTATTATTATCTTATTATATAT
85526662 TTATTTATTTATTCATTT
1 TTATTTATTTATTCATTT
85526680 ATGTCTTTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
60 14 0.19
61 48 0.66
62 8 0.11
63 3 0.04
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.67
Consensus pattern (60 bp):
TTATTTATTTATTCATTTCTATTTTGTTTTTATTCTCATTATTATTATCTTATTATATAT
Found at i:85528683 original size:18 final size:20
Alignment explanation
Indices: 85528641--85528677 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85528631 ATATTTTATG
*
85528641 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
85528660 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
85528678 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:85530880 original size:46 final size:46
Alignment explanation
Indices: 85530828--85531101 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
85530818 AGTGTGCTCT
*
85530828 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
85530874 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
85530920 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *** *
85530966 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
85531012 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
85531058 ATGACA-GAAAAT-TAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGT-GTAAGACCATGGTTGAAAGATACCATGGCA
85531102 TCATGTCAAA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:85530985 original size:92 final size:92
Alignment explanation
Indices: 85530827--85531101 Score: 390
Period size: 92 Copynumber: 3.0 Consensus size: 92
85530817 GAGTGTGCTC
* * * **
85530827 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAGTAA
85530892 GACCATGGTTGAAAGATACCATGGCAG
66 GACCATGGTTGAAAGATACCATGGCAG
* * *
85530919 TCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAGTAA
85530984 GACCATGGTTGAAAGATACCATGGCAG
66 GACCATGGTTGAAAGATACCATGGCAG
* ** * *
85531011 -CGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATTAGTA
1 TC-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAGTA
* * *
85531075 AGACCATAGTTGAAAGACACTATGGCA
65 AGACCATGGTTGAAAGATACCATGGCA
85531102 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 1 0.01
92 162 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAGTAA
GACCATGGTTGAAAGATACCATGGCAG
Found at i:85531087 original size:138 final size:138
Alignment explanation
Indices: 85530843--85531106 Score: 379
Period size: 138 Copynumber: 1.9 Consensus size: 138
85530833 ATGAAATGTG
* **
85530843 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * *
85530908 TACCATGGCAGTCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAGACTGACATGAAAAGTGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
85530973 GAAATAAA
131 GAAATAAA
* *
85530981 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
85531046 TACCATGGCA-ACATGACA-GAAAATTAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAGAC-TGACATGAAAAGT-GTAAGACCATAGTTGAAAGACACCATGGCAACATG
85531107 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
137 6 0.05
138 105 0.95
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAGACTGACATGAAAAGTGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATAAA
Found at i:85532493 original size:16 final size:16
Alignment explanation
Indices: 85532471--85532533 Score: 81
Period size: 16 Copynumber: 3.9 Consensus size: 16
85532461 CACTATAGTG
85532471 GAATAGAGCTGTAATT
1 GAATAGAGCTGTAATT
* *
85532487 AAATAGAGTTGTAATT
1 GAATAGAGCTGTAATT
* * *
85532503 GAATACAACTGTAATG
1 GAATAGAGCTGTAATT
85532519 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
85532534 CAGTAATTCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (16 bp):
GAATAGAGCTGTAATT
Found at i:85537311 original size:22 final size:22
Alignment explanation
Indices: 85537269--85537311 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
85537259 GTTTAGTGAC
**
85537269 TATTTTTATAGTTTACTATTTT
1 TATTTTTATAGTTTAAAATTTT
85537291 TATTTTTATAG-TTAGAAATTT
1 TATTTTTATAGTTTA-AAATTT
85537312 AAATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATAGTTTAAAATTTT
Found at i:85538071 original size:11 final size:11
Alignment explanation
Indices: 85538055--85538079 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85538045 CTTCTTCTTC
85538055 TTTTTTTGTTT
1 TTTTTTTGTTT
85538066 TTTTTTTGTTT
1 TTTTTTTGTTT
85538077 TTT
1 TTT
85538080 GCAGTTAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:85562393 original size:31 final size:30
Alignment explanation
Indices: 85562341--85562399 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
85562331 GAAAAGTTTA
* **
85562341 AATTTTTTAAAATAACTTTTTGATTTTTTC
1 AATTTTTCAAAATAAAGTTTTGATTTTTTC
*
85562371 AATTATTTCAAAATAAAGTTTTGGTTTTT
1 AATT-TTTCAAAATAAAGTTTTGATTTTT
85562400 AAGAAAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (30 bp):
AATTTTTCAAAATAAAGTTTTGATTTTTTC
Found at i:85562423 original size:147 final size:147
Alignment explanation
Indices: 85562151--85562420 Score: 359
Period size: 150 Copynumber: 1.8 Consensus size: 147
85562141 TTTTTTTAAA
* **
85562151 AAAATAAAAATATGTTTTTTTTGTCATTTTAAAGGAAAGTTTAAATTTTTAAATTTTTTTTGATT
1 AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATACTTTTTGATT
* *
85562216 TTTTTAACTATTTCGAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTTAAAAAAA
66 TTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGA-TTTTTTTTAAAAAAA
85562281 GATAAAGTTTAGATTTTT
130 GATAAAGTTTAGATTTTT
*
85562299 AAAAT-AAAATATG-TTTTTTAGTCATTTCT-ATGGAAAAGTTTAAATTTTTTAAAATAACTTTT
1 AAAATAAAAATATGTTTTTTTAGTCATTT-TAAAGG-AAAGTTTAAA-TTTTT-AAAT-ACTTTT
* * ** *
85562361 TGATTTTTTCAATTATTTCAAAATAAAGT-TTTGGTTTTTAAGAAAAGTAGTGATTTTTTT
61 TGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTT
85562421 AAAGAAATCT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
146 16 0.15
147 19 0.18
148 17 0.16
149 25 0.24
150 29 0.27
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (147 bp):
AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATACTTTTTGATT
TTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAAAAG
ATAAAGTTTAGATTTTT
Found at i:85562456 original size:147 final size:146
Alignment explanation
Indices: 85562144--85562453 Score: 325
Period size: 150 Copynumber: 2.1 Consensus size: 146
85562134 GGTTTCTTTT
* **
85562144 TTTTAAAAAAATAAAAATATGTTTTTTTTGTCATTTTAAAGGAAAGTTTAAATTTTTAAATTTTT
1 TTTTAAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATACTT
* *
85562209 TTTGATTTTTTTAACTATTTCGAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTT
66 TTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGA-TTTTTTTT
*
85562274 AAAAAAAGATAAAGTTTAGA
130 ---AAAAGATAAACTTTAGA
* *
85562294 TTTT--TAAAAT-AAAATATG-TTTTTTAGTCATTTCT-ATGGAAAAGTTTAAATTTTTTAAAAT
1 TTTTAAAAAAATAAAAATATGTTTTTTTAGTCATTT-TAAAGG-AAAGTTTAAA-TTTTT-AAAT
* * ** *
85562354 AACTTTTTGATTTTTTCAATTATTTCAAAATAAAGT-TTTGGTTTTTAAGAAAAGTAGTGA-TTT
62 -ACTTTTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTT
*
85562417 TTTT-AAAGA-AATCTTT-GA
126 TTTTAAAAGATAAACTTTAGA
85562435 TTTTGCAAAAAAATAAAAA
1 TTTT--AAAAAAATAAAAA
85562454 ATAAAATTTC
Statistics
Matches: 135, Mismatches: 15, Indels: 24
0.78 0.09 0.14
Matches are distributed among these distances:
141 6 0.04
142 5 0.04
143 5 0.04
145 5 0.04
146 20 0.15
147 26 0.19
148 10 0.07
149 25 0.19
150 33 0.24
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (146 bp):
TTTTAAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATACTT
TTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTA
AAAGATAAACTTTAGA
Found at i:85563050 original size:16 final size:16
Alignment explanation
Indices: 85563018--85563052 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
85563008 TTATTTCGTC
85563018 TTTATTTATTTTCATG
1 TTTATTTATTTTCATG
85563034 TTTATTTATATTT-ATG
1 TTTATTTAT-TTTCATG
85563050 TTT
1 TTT
85563053 TTTTGCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTATTTATTTTCATG
Found at i:85566106 original size:26 final size:26
Alignment explanation
Indices: 85566070--85566121 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
85566060 AATCTAAAGA
85566070 TAGAAAATAATCATTTTATGATTCTT
1 TAGAAAATAATCATTTTATGATTCTT
85566096 TAGAAAATAATCATTTTATGATTCTT
1 TAGAAAATAATCATTTTATGATTCTT
85566122 ATGAGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (26 bp):
TAGAAAATAATCATTTTATGATTCTT
Found at i:85570104 original size:46 final size:46
Alignment explanation
Indices: 85569964--85570104 Score: 128
Period size: 46 Copynumber: 3.0 Consensus size: 46
85569954 GCCCATAAGC
* * *
85569964 GAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGT
* * * *
85570011 GAACTCGGACTCAACTTAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGT
* *
85570057 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
85570103 GA
1 GA
85570105 CATGTCACTT
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.44
47 27 0.36
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
Found at i:85572507 original size:15 final size:15
Alignment explanation
Indices: 85572487--85572527 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
85572477 CAAGAAAACT
85572487 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
85572502 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
85572517 GGATAAAGAAA
1 GAATAAAGAAA
85572528 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:85572536 original size:15 final size:15
Alignment explanation
Indices: 85572489--85572536 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
85572479 AGAAAACTGA
85572489 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
85572503 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
85572519 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
85572534 ATA
1 ATA
85572537 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:85575954 original size:45 final size:45
Alignment explanation
Indices: 85575890--85575980 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
85575880 AATAAATTTA
*
85575890 AAGCAAGGTTGGTAGCCAAAGGGTTTACACAAAAACAATGTATTG
1 AAGCAAGGTTGGTAGCCAAAGGGTTTACACAAAAACAATGCATTG
* *
85575935 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAATAATGCATTG
1 AAGCAAGGTTGGTAGCCAAAGGGTTTACACAAAAACAATGCATTG
85575980 A
1 A
85575981 TTACTTTGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (45 bp):
AAGCAAGGTTGGTAGCCAAAGGGTTTACACAAAAACAATGCATTG
Found at i:85577921 original size:96 final size:96
Alignment explanation
Indices: 85577752--85577949 Score: 387
Period size: 96 Copynumber: 2.1 Consensus size: 96
85577742 GATATTGATT
*
85577752 CAAGTTAAGCTCTTATTCAAAAGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGT
1 CAAGATAAGCTCTTATTCAAAAGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGT
85577817 GGAGTTGATTGCGCGCCTAGAGATAGGGTGA
66 GGAGTTGATTGCGCGCCTAGAGATAGGGTGA
85577848 CAAGATAAGCTCTTATTCAAAAGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGT
1 CAAGATAAGCTCTTATTCAAAAGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGT
85577913 GGAGTTGATTGCGCGCCTAGAGATAGGGTGA
66 GGAGTTGATTGCGCGCCTAGAGATAGGGTGA
85577944 CAAGAT
1 CAAGAT
85577950 TTTTCCAGAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (96 bp):
CAAGATAAGCTCTTATTCAAAAGAGGAATAGACCCTGTCTAAGAGTACATTTGTCATAATTAAGT
GGAGTTGATTGCGCGCCTAGAGATAGGGTGA
Found at i:85586302 original size:3 final size:3
Alignment explanation
Indices: 85586294--85586330 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
85586284 ATAAGCTGCA
85586294 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
85586331 ACATCATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85586315 original size:14 final size:14
Alignment explanation
Indices: 85586298--85586326 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85586288 GCTGCAAATA
85586298 ATAATAATAATAAT
1 ATAATAATAATAAT
85586312 ATAATAATAATAAT
1 ATAATAATAATAAT
85586326 A
1 A
85586327 ATAAACATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:85586315 original size:17 final size:17
Alignment explanation
Indices: 85586295--85586329 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
85586285 TAAGCTGCAA
85586295 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
85586312 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
85586329 A
1 A
85586330 AACATCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:85591874 original size:19 final size:19
Alignment explanation
Indices: 85591825--85591874 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
85591815 TAAAGTGTGC
* *
85591825 ATAATAAAAAATAAAATGT
1 ATAAAAAAAAATAAAATGA
*
85591844 ATAAAAACAAATAAAAT-A
1 ATAAAAAAAAATAAAATGA
85591862 ATAAAATAAAAAT
1 ATAAAA-AAAAAT
85591875 TTTATTAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAAAAAATAAAATGA
Found at i:85619295 original size:12 final size:12
Alignment explanation
Indices: 85619278--85619302 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85619268 CGAACATAAA
85619278 TCTATTGGCATG
1 TCTATTGGCATG
85619290 TCTATTGGCATG
1 TCTATTGGCATG
85619302 T
1 T
85619303 TAATCGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TCTATTGGCATG
Found at i:85626364 original size:147 final size:147
Alignment explanation
Indices: 85626097--85626373 Score: 554
Period size: 147 Copynumber: 1.9 Consensus size: 147
85626087 CTTACTCTAG
85626097 GTTGCCCTCTGAGCTTTGCCACTTTTCGAGAGTATTTCCTTCAGATCATCGCAGCGACTCCGGTG
1 GTTGCCCTCTGAGCTTTGCCACTTTTCGAGAGTATTTCCTTCAGATCATCGCAGCGACTCCGGTG
85626162 GTAATCTATCCACATGCAAAGTTGCCTAATGGCCTCCCTCTTCTCCTCTCCTAGGCCTAATATAC
66 GTAATCTATCCACATGCAAAGTTGCCTAATGGCCTCCCTCTTCTCCTCTCCTAGGCCTAATATAC
85626227 CTTCATCCTTCTCTTTT
131 CTTCATCCTTCTCTTTT
85626244 GTTGCCCTCTGAGCTTTGCCACTTTTCGAGAGTATTTCCTTCAGATCATCGCAGCGACTCCGGTG
1 GTTGCCCTCTGAGCTTTGCCACTTTTCGAGAGTATTTCCTTCAGATCATCGCAGCGACTCCGGTG
85626309 GTAATCTATCCACATGCAAAGTTGCCTAATGGCCTCCCTCTTCTCCTCTCCTAGGCCTAATATAC
66 GTAATCTATCCACATGCAAAGTTGCCTAATGGCCTCCCTCTTCTCCTCTCCTAGGCCTAATATAC
85626374 TTTATTTTCC
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 130 1.00
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (147 bp):
GTTGCCCTCTGAGCTTTGCCACTTTTCGAGAGTATTTCCTTCAGATCATCGCAGCGACTCCGGTG
GTAATCTATCCACATGCAAAGTTGCCTAATGGCCTCCCTCTTCTCCTCTCCTAGGCCTAATATAC
CTTCATCCTTCTCTTTT
Found at i:85627296 original size:14 final size:14
Alignment explanation
Indices: 85627273--85627312 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
85627263 ACAGAAAAGT
*
85627273 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
85627287 AAATCATTTTACGG
1 AAAACATTTTACAG
85627301 AAAACATTTTAC
1 AAAACATTTTAC
85627313 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:85627298 original size:34 final size:35
Alignment explanation
Indices: 85627238--85627304 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
85627228 CAAACACCAG
* *
85627238 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
85627273 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
85627305 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:85630742 original size:17 final size:18
Alignment explanation
Indices: 85630720--85630754 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85630710 ATTGGTCCTA
85630720 AAAAT-AGTATCGATACT
1 AAAATAAGTATCGATACT
*
85630737 AAAATAAGTATTGATACT
1 AAAATAAGTATCGATACT
85630755 TTGTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
AAAATAAGTATCGATACT
Found at i:85643897 original size:22 final size:22
Alignment explanation
Indices: 85643869--85643915 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
85643859 TACCACTAAG
85643869 TTAAAACTTTATTTTAATAATT
1 TTAAAACTTTATTTTAATAATT
85643891 TTAAAACTTTATTTTAATAATT
1 TTAAAACTTTATTTTAATAATT
85643913 TTA
1 TTA
85643916 TACATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAAAACTTTATTTTAATAATT
Found at i:85644072 original size:5 final size:5
Alignment explanation
Indices: 85644062--85644091 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
85644052 GTCCTTTCGT
85644062 AATTA AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AATTA
85644092 TTCAAGGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:85646889 original size:10 final size:10
Alignment explanation
Indices: 85646876--85646916 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
85646866 ATAATAATAA
85646876 ATTTTTATAT
1 ATTTTTATAT
85646886 ATTTTTATATT
1 ATTTTTATA-T
*
85646897 AATATTTATAT
1 -ATTTTTATAT
85646908 ATTTTTATA
1 ATTTTTATA
85646917 ATTAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:85646906 original size:22 final size:22
Alignment explanation
Indices: 85646879--85646926 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
85646869 ATAATAAATT
85646879 TTTATATATTTTTAT-ATTAATA
1 TTTATATATTTTTATAATTAA-A
85646901 TTTATATATTTTTATAATTAAA
1 TTTATATATTTTTATAATTAAA
85646923 TTTA
1 TTTA
85646927 AATTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATATTTTTATAATTAAA
Found at i:85648063 original size:20 final size:20
Alignment explanation
Indices: 85648038--85648075 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
85648028 CCTTACATCG
85648038 TTACATAATTGAAACTTTCA
1 TTACATAATTGAAACTTTCA
85648058 TTACATAATTGAAACTTT
1 TTACATAATTGAAACTTT
85648076 TCAGAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (20 bp):
TTACATAATTGAAACTTTCA
Found at i:85648145 original size:23 final size:23
Alignment explanation
Indices: 85648114--85648194 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
85648104 ATACAAACCA
* *
85648114 CAGAGAATATTCACTATTCATGC
1 CAGAGAATATTTACTATTCACGC
*
85648137 CAGAAAATATTTACTATTCACGC
1 CAGAGAATATTTACTATTCACGC
85648160 CAGAGAATATTTA-TGATTCACGC
1 CAGAGAATATTTACT-ATTCACGC
85648183 CAGAGAATATTT
1 CAGAGAATATTT
85648195 CTTGTTCACT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 1 0.02
23 52 0.98
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (23 bp):
CAGAGAATATTTACTATTCACGC
Found at i:85651007 original size:21 final size:21
Alignment explanation
Indices: 85650981--85651028 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
85650971 TCAACTTAGA
85650981 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
*
85651002 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
85651023 GCGGAG
1 GCGGAG
85651029 CAGAACAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAACAGCGAGGGAG
Found at i:85651377 original size:43 final size:43
Alignment explanation
Indices: 85651330--85651615 Score: 308
Period size: 43 Copynumber: 6.5 Consensus size: 43
85651320 GCAAATCAGT
*
85651330 GGCGTTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
* *
85651373 GGCGTTTTTTTACAAAAGCGGCCGCTAAAAGTACAAGTCTATAGC
1 GGCG-TTTTTTAAAAAAGC-GCCGCTAAAAGTACAGGTCTATAGC
* * * *
85651418 GGTGTTTTTTTTTACAAAAGTGCCACTAAAAGTACAGGTCTATAGC
1 GGCG---TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
* *
85651464 GGCATTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
* * * * *
85651507 GGCGTTTTCTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAAC
1 GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGC
* * * *
85651550 GGCGTTTTTATAAAAAA-CGCCGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTTT-TAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
*
85651593 GGCGCTTTTATAAAAAA-CGCCGC
1 GGCG-TTTTTTAAAAAAGCGCCGC
85651616 GAACTTTTGT
Statistics
Matches: 211, Mismatches: 24, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
42 6 0.03
43 112 0.53
44 27 0.13
45 27 0.13
46 25 0.12
47 14 0.07
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
GGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATAGC
Found at i:85654724 original size:107 final size:108
Alignment explanation
Indices: 85654538--85654749 Score: 390
Period size: 107 Copynumber: 2.0 Consensus size: 108
85654528 TGTAATAAAC
* *
85654538 TAAGAATATTATATTCAGACATTCTGTCTATATTGCATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
85654603 TTCTGGAAAATGGGTTTTT-TTCTATATTAAGATCAGGTGCAG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
*
85654645 TAAGAATATTATCTTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
85654710 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
85654750 TAGTGATTTT
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 81 0.80
108 20 0.20
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (108 bp):
TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
Found at i:85657222 original size:20 final size:20
Alignment explanation
Indices: 85657197--85657237 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
85657187 ATCCCTTACA
85657197 TCATTACATAATTAAAACTT
1 TCATTACATAATTAAAACTT
*
85657217 TCATTACATAATTGAAACTT
1 TCATTACATAATTAAAACTT
85657237 T
1 T
85657238 TCAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATTACATAATTAAAACTT
Found at i:85657788 original size:25 final size:24
Alignment explanation
Indices: 85657760--85657809 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
85657750 AAATCAATGC
85657760 TCTTCTGTAAAATCCAAATCTCAAT
1 TCTTCTGTAAAATCCAAAT-TCAAT
* *
85657785 TCTTCTTTAAAATCTAAATTCAAT
1 TCTTCTGTAAAATCCAAATTCAAT
85657809 T
1 T
85657810 ATTATCTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (24 bp):
TCTTCTGTAAAATCCAAATTCAAT
Found at i:85660203 original size:14 final size:14
Alignment explanation
Indices: 85660184--85660215 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
85660174 ATTTACAGTG
85660184 CTAACAGTCACATA
1 CTAACAGTCACATA
85660198 CTAACAGTCACATA
1 CTAACAGTCACATA
85660212 CTAA
1 CTAA
85660216 TGATGTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (14 bp):
CTAACAGTCACATA
Found at i:85662158 original size:14 final size:13
Alignment explanation
Indices: 85662096--85662174 Score: 63
Period size: 14 Copynumber: 5.6 Consensus size: 13
85662086 TCGCTATTAT
85662096 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
*
85662109 TTTATATTTAT-TT
1 TTT-TATTTATCTA
85662122 TTTTATTCTAATACTA
1 TTTTATT-T-AT-CTA
85662138 TTATTATTTATCTAA
1 TT-TTATTTATCT-A
85662153 TTTTATTTATCTA
1 TTTTATTTATCTA
85662166 TTTATATTT
1 TTT-TATTT
85662175 CTATTTATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
12 4 0.07
13 14 0.25
14 23 0.42
15 5 0.09
16 4 0.07
17 5 0.09
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.67
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:85663576 original size:26 final size:26
Alignment explanation
Indices: 85663547--85663654 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85663537 TGGTACAAAT
85663547 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
85663573 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
85663599 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
85663625 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
85663651 TGAT
1 TGAT
85663655 GGACATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:85670653 original size:11 final size:10
Alignment explanation
Indices: 85670624--85670664 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
85670614 AAAACCTAAC
85670624 TTTGTAAAAA
1 TTTGTAAAAA
85670634 TTCT-TAAAAA
1 TT-TGTAAAAA
85670644 TTTGTGAAAAA
1 TTTGT-AAAAA
85670655 -TTGTAAAAA
1 TTTGTAAAAA
85670664 T
1 T
85670665 ATATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (10 bp):
TTTGTAAAAA
Found at i:85670661 original size:20 final size:20
Alignment explanation
Indices: 85670624--85670664 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
85670614 AAAACCTAAC
*
85670624 TTTGTAAAAATTCTTAAAAA
1 TTTGTAAAAATTCGTAAAAA
85670644 TTTGTGAAAAATT-GTAAAAA
1 TTTGT-AAAAATTCGTAAAAA
85670664 T
1 T
85670665 ATATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTGTAAAAATTCGTAAAAA
Found at i:85670913 original size:20 final size:20
Alignment explanation
Indices: 85670878--85670916 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85670868 TTCTTATAGA
**
85670878 ATATTGTTATTTAGAGAGAG
1 ATATTGTTATCGAGAGAGAG
85670898 ATATTGTTATCGAGAGAGA
1 ATATTGTTATCGAGAGAGA
85670917 TGTTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (20 bp):
ATATTGTTATCGAGAGAGAG
Found at i:85671392 original size:23 final size:21
Alignment explanation
Indices: 85671333--85671395 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
85671323 AATTTTTTAA
85671333 ATTTTTTAAATAGTTA-TTATG
1 ATTTTTTAAATA-TTATTTATG
85671354 A-TTTTT-AATAATTATTTATG
1 ATTTTTTAAAT-ATTATTTATG
85671374 ATTTTTTAACATATCTATTTAT
1 ATTTTTTAA-ATAT-TATTTAT
85671396 ATAACAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 6 0.17
20 12 0.33
21 6 0.17
22 3 0.08
23 9 0.25
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTTTAAATATTATTTATG
Found at i:85671880 original size:28 final size:29
Alignment explanation
Indices: 85671822--85671880 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
85671812 TTTTATTTTT
* *
85671822 CCCCAAAACTTTTACTTCCTCCCACTTCC
1 CCCCAAAACTTTTACTTCCCCCCACTCCC
85671851 CCCCAAAACTTTTA-TTCCCCTCCA-TCCC
1 CCCCAAAACTTTTACTTCCCC-CCACTCCC
85671879 CC
1 CC
85671881 ACTTCTACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (29 bp):
CCCCAAAACTTTTACTTCCCCCCACTCCC
Found at i:85672219 original size:35 final size:35
Alignment explanation
Indices: 85672177--85672248 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
85672167 GAATTATTGA
* *
85672177 TGATGTCATAAAGTATTCGTGTTAAAATTTTAAGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
* *
85672212 TGATGTCATAAAATATTCGTGCTAAGATTTTATGT
1 TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
85672247 TG
1 TG
85672249 GTATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (35 bp):
TGATGTCATAAAATATTCGTGCTAAAATTTTAAGT
Found at i:85674829 original size:16 final size:16
Alignment explanation
Indices: 85674808--85674843 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
85674798 AATCCCTAAC
* *
85674808 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
85674824 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
85674840 AATC
1 AATC
85674844 GATAGCATTC
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:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:85674904 original size:32 final size:32
Alignment explanation
Indices: 85674865--85674938 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
85674855 GAAATCTTTT
* *
85674865 TGAAATCCCTAAAATTTTTACGAATCAAATCA
1 TGAAATCCCTAAAACTATTACGAATCAAATCA
* * * *
85674897 TTAAATCCCTAAAACTATTAGGAATGAAATCG
1 TGAAATCCCTAAAACTATTACGAATCAAATCA
85674929 TGAAATCCCT
1 TGAAATCCCT
85674939 TAGAACCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (32 bp):
TGAAATCCCTAAAACTATTACGAATCAAATCA
Found at i:85676109 original size:43 final size:43
Alignment explanation
Indices: 85676061--85676220 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
85676051 GCAAAATTTT
* *
85676061 GCGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGACCTTTA
1 GCGGCGCTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
* * *
85676104 GCGGCGCTTCTCCCGCAAACGCCGCTAAAGACCATAACCTTTA
1 GCGGCGCTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
* * * * * *
85676147 GCGACACTTTTTTTTACAAACGCCGCTACAGAACA-AACCTTTA
1 GCGGCGC-TTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
** *
85676190 ATGGCGCTTTTCTCACAAATGCCGCTAAAGA
1 GCGGCGCTTTTCTCACAAACGCCGCTAAAGA
85676221 ATGTAACCTT
Statistics
Matches: 94, Mismatches: 22, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
42 20 0.21
43 54 0.57
44 20 0.21
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
GCGGCGCTTTTCTCACAAACGCCGCTAAAGACCATAACCTTTA
Found at i:85676228 original size:86 final size:87
Alignment explanation
Indices: 85676068--85676232 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 87
85676058 TTTGCGGCGC
* * * *
85676068 TTTTTTCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCCCGCAAACGCCGCTAAA
1 TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACGGCGCTTCTCCCACAAACGCCGCTAAA
*
85676133 GACCATAACCTTTAGCGACACT
66 GAACATAACCTTTAGCGACACT
* * * * * *
85676155 TTTTTTTACAAACGCCGCTACAGAACA-AACCTTTAATGGCGCTTTTCTCACAAATGCCGCTAAA
1 TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACGGCGCTTCTCCCACAAACGCCGCTAAA
**
85676219 GAATGTAACCTTTA
66 GAACATAACCTTTA
85676233 AAAATATACA
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
86 41 0.63
87 24 0.37
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (87 bp):
TTTTTTCACAAACGCCGCTAAAGAACATAACCTTTAACGGCGCTTCTCCCACAAACGCCGCTAAA
GAACATAACCTTTAGCGACACT
Found at i:85676878 original size:24 final size:24
Alignment explanation
Indices: 85676850--85676896 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
85676840 CTTCAACACC
85676850 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
85676874 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
85676897 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:85680003 original size:17 final size:18
Alignment explanation
Indices: 85679970--85680003 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85679960 TATCTCTTAA
85679970 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
85679988 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
85680004 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:85680442 original size:14 final size:14
Alignment explanation
Indices: 85680425--85680464 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
85680415 TGTAAAACAA
*
85680425 AAAACCACAAACTC
1 AAAACCAAAAACTC
*
85680439 AAAACCATAAACTC
1 AAAACCAAAAACTC
*
85680453 TAAACCAAAAAC
1 AAAACCAAAAAC
85680465 AATAAACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.60, C:0.30, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAACCAAAAACTC
Found at i:85681209 original size:41 final size:41
Alignment explanation
Indices: 85681164--85681271 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
85681154 TTATTTTTTT
* *
85681164 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
85681205 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
*
85681246 GCGGCGTTTTTCCAAAAGCACCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
85681272 TTGTTCAGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCAATA
Found at i:85681302 original size:41 final size:40
Alignment explanation
Indices: 85681244--85681325 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 40
85681234 CCTCGACCAA
** * *
85681244 TAGCGGCGTTTTTCCAAAAGCACCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
85681284 TAGCGGCGTTTGGACCAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTT-GACCAAAAACACCGCTATTGCTCAGTTTT
85681325 T
1 T
85681326 TGTGGAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 11 0.30
41 26 0.70
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (40 bp):
TAGCGGCGTTTGACCAAAAACACCGCTATTGCTCAGTTTT
Found at i:85685773 original size:79 final size:80
Alignment explanation
Indices: 85685605--85685789 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
85685595 GCTACTCGTT
* * *
85685605 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
85685669 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* ** *
85685686 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* *
85685749 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
85685765 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
85685790 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TATAGTAACTAGCAC
Found at i:85685789 original size:40 final size:40
Alignment explanation
Indices: 85685586--85685789 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
85685576 CGGAATTTAA
** * *
85685586 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85685626 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85685666 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85685705 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85685745 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85685785 CCGGA
1 CCGGA
85685790 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85693759 original size:40 final size:39
Alignment explanation
Indices: 85693674--85693855 Score: 183
Period size: 39 Copynumber: 4.6 Consensus size: 39
85693664 GCTACTCGTT
* *
85693674 CAAATGCCTTCGGGACAT-GCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
85693713 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* *
85693753 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * * * *
85693792 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
*
85693833 CAAA-GCCTTCGGGACGTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
85693856 GACATCATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 52 0.43
40 50 0.42
41 16 0.13
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:85693798 original size:39 final size:41
Alignment explanation
Indices: 85693674--85693857 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
85693664 GCTACTCGTT
* *
85693674 CAAATGCCTTCGGGACAT-GCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
85693713 CAAATGCCTTCGGGACTTAACCCAG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
85693753 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * * *
85693792 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
85693833 CAAA-GCCTTCGGGACGTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85693858 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 60 0.49
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:85693841 original size:79 final size:80
Alignment explanation
Indices: 85693674--85693857 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
85693664 GCTACTCGTT
* *
85693674 CAAATGCCTTCGGGACAT-GCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACGTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
85693737 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
85693754 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACGTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* *
85693817 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
85693833 CAAAGCCTTCGGGACGTAGCCCGGA
1 CAAAGCCTTCGGGACGTAGCCCGGA
85693858 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 5 0.06
79 64 0.74
80 18 0.21
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAAGCCTTCGGGACGTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TATAGTAACTAGCAC
Found at i:85699515 original size:46 final size:46
Alignment explanation
Indices: 85699448--85699713 Score: 215
Period size: 46 Copynumber: 5.7 Consensus size: 46
85699438 TGTAACCCAC
*
85699448 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
85699494 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * *
85699544 --TTCA-CGAACTCGGACTCAACTCAACTAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * *
85699587 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * * *
85699637 --TTCA-CGAACTTGGACTCAAATCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
85699680 CCATAAGTGAACTCTGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
85699714 AGATGCCTAG
Statistics
Matches: 169, Mismatches: 33, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 2 0.01
45 4 0.02
46 83 0.49
47 52 0.31
48 5 0.03
49 2 0.01
50 7 0.04
51 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:85699563 original size:93 final size:93
Alignment explanation
Indices: 85699455--85699763 Score: 519
Period size: 93 Copynumber: 3.3 Consensus size: 93
85699445 CACCCATAAG
* * *
85699455 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
85699520 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
85699548 CGAACTCGGACTCAACTCAACTAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
85699613 ATGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* * *
85699641 CGAACTTGGACTCAAATCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCTGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
85699706 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
85699734 CGAACTCGGACTCAACTCAATGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
85699764 TGCCCAAATA
Statistics
Matches: 201, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 201 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:85699574 original size:47 final size:46
Alignment explanation
Indices: 85699502--85699767 Score: 252
Period size: 47 Copynumber: 5.7 Consensus size: 46
85699492 ATCCATAAGT
85699502 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * *
85699549 GAACTCGGACTCAACTCAACTAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
*
85699595 GAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * * *
85699642 GAACTTGGACTCAAATCAACGAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
* *
85699688 GAACTCTGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
*
85699735 GAACTCGGACTCAACTCAATGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
85699768 CAAATATCCG
Statistics
Matches: 168, Mismatches: 41, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
45 4 0.02
46 64 0.38
47 96 0.57
48 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:85701205 original size:294 final size:294
Alignment explanation
Indices: 85700747--85701332 Score: 1057
Period size: 294 Copynumber: 2.0 Consensus size: 294
85700737 ATCCATGTCC
85700747 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
1 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
*
85700812 AAGCAATTTCATACTAGAAACTTCAAGAATGCAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
* *
85700877 TTCAAATTAAGCACTTTATGCATCAAATTTCTTCACAAAATTTTCACACAATCATGTAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACAAAATTTTCACACAATCATGCAATCATAT
*
85700942 CATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTC-GAATTTGTGGTCCCGAAACCACT
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAG-ATTTGTGGTCCCGAAACCACT
85701006 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
260 ATTCCGATTAGGCCCTAATTCGGGATATCACATGG
* * *
85701041 AATTTTTGTCCATAAACTTAGAAATTGGTCAAATTGCTATTTAAGACCTCCTAATTAATATTTCA
1 AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
* *
85701106 AAGCAATTTCATACTATAAACTTCTAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
66 AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
*
85701171 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATAT
131 TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACAAAATTTTCACACAATCATGCAATCATAT
85701236 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTA
196 CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTA
*
85701301 TTCTGATTAGGCCCTAATTCGGGATATCACAT
261 TTCCGATTAGGCCCTAATTCGGGATATCACAT
85701333 CTACATTCTT
Statistics
Matches: 280, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
294 279 1.00
295 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (294 bp):
AATTTTTATCCATAAACCTAGAAATTGGTCAAATTGCTATTTAAGACCTCATAATTAATATTTCA
AAGCAATTTCATACTAGAAACTTCAAGAATGAAAGTTTTGTAACTTATTCAATTTAGTCCCTAAC
TTCAAATTAAGCACTTTATGCATAAAATTTCTTCACAAAATTTTCACACAATCATGCAATCATAT
CATAGACCTCAAAATAATCACAAAATAATTATTTCTATCTCAGATTTGTGGTCCCGAAACCACTA
TTCCGATTAGGCCCTAATTCGGGATATCACATGG
Found at i:85701619 original size:51 final size:51
Alignment explanation
Indices: 85701559--85701711 Score: 252
Period size: 51 Copynumber: 3.0 Consensus size: 51
85701549 CTACGTGTAG
* * *
85701559 CAGCAACATTATCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
* *
85701610 CAGCAACATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
*
85701661 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
85701712 TACCAGTAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:85701932 original size:33 final size:33
Alignment explanation
Indices: 85701850--85701958 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 33
85701840 ACCTCTCCTA
* * *
85701850 CATCACCCTCCTCACCAGATTCTA-CCTTTTCT
1 CATCACCCTCCTCATCAGATTCTACCCCTTTAT
* * *
85701882 AGATCACCTTCATCATCAGATTCTACCCCTTTAT
1 -CATCACCCTCCTCATCAGATTCTACCCCTTTAT
* * *
85701916 CATCACCCTCCCCATCA-ACTTCCACCCCTTCAAT
1 CATCACCCTCCTCATCAGA-TTCTACCCCTT-TAT
85701950 -ATCACCCTC
1 CATCACCCTC
85701959 TCCAGTAGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
32 1 0.02
33 52 0.85
34 8 0.13
ACGTcount: A:0.23, C:0.44, G:0.03, T:0.30
Consensus pattern (33 bp):
CATCACCCTCCTCATCAGATTCTACCCCTTTAT
Found at i:85702969 original size:18 final size:16
Alignment explanation
Indices: 85702926--85702961 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
85702916 GAATGCTATC
* *
85702926 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
85702942 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
85702958 GATT
1 GATT
85702962 GTTAGGGATT
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:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:85704522 original size:30 final size:31
Alignment explanation
Indices: 85704467--85704525 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
85704457 CACCCTTAAA
* * *
85704467 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAGCCCCTCAAATTTTTT
85704498 ATATTTACACT-TTAGCCCCTCAAATTTT
1 ATATTTACACTATTAGCCCCTCAAATTTT
85704526 AAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCCTCAAATTTTTT
Found at i:85704533 original size:30 final size:31
Alignment explanation
Indices: 85704466--85704535 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
85704456 CCACCCTTAA
* * *
85704466 AATATTTGCACTATTAGTCCTTCAAATTTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
*
85704497 TATATTTACACT-TTAGCCCCTCAAA-TTTT
1 AATATTTACACTATTAGCCCCTCAAATTTTT
85704526 AAGTATTTAC
1 AA-TATTTAC
85704536 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.46
Consensus pattern (31 bp):
AATATTTACACTATTAGCCCCTCAAATTTTT
Found at i:85704991 original size:30 final size:30
Alignment explanation
Indices: 85704951--85705008 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
85704941 ACCTCTTTAC
*
85704951 TTTTCCCCAAAATTTTTACTC-CCTCCCCA
1 TTTTCCCCAAAACTTTTACTCTCCTCCCCA
*
85704980 TTTTCCCCCAAAACTTTTATTCTCCTCCC
1 TTTT-CCCCAAAACTTTTACTCTCCTCCC
85705009 ATCCCACCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 15 0.60
31 6 0.24
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCTCCTCCCCA
Found at i:85706684 original size:15 final size:15
Alignment explanation
Indices: 85706664--85706714 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
85706654 TAAGGTGAAA
85706664 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
* ***
85706679 GTAAAAA--TATAAA
1 GTAAAAATTTTTGGG
85706692 GTAAAAATTTTTGGG
1 GTAAAAATTTTTGGG
85706707 GTAAAAAT
1 GTAAAAAT
85706715 ATAAAATATT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
GTAAAAATTTTTGGG
Found at i:85706694 original size:28 final size:28
Alignment explanation
Indices: 85706661--85706719 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
85706651 TTTTAAGGTG
85706661 AAAGTAAAAATTTTTGGGGTAAAAATAT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
85706689 AAAGTAAAAATTTTTGGGGTAAAAATAT
1 AAAGTAAAAATTTTTGGGGTAAAAATAT
85706717 AAA
1 AAA
85706720 ATATTATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (28 bp):
AAAGTAAAAATTTTTGGGGTAAAAATAT
Found at i:85711449 original size:22 final size:22
Alignment explanation
Indices: 85711415--85711463 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
85711405 ATATCCAAAC
85711415 AATAATAACAAAAT-AGTAGCAA
1 AATAATAACAAAATGA-TAGCAA
*
85711437 CATAAT-ACTAAAATGATAGCAA
1 AATAATAAC-AAAATGATAGCAA
85711459 AATAA
1 AATAA
85711464 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 2 0.09
22 20 0.87
23 1 0.04
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATGATAGCAA
Found at i:85712043 original size:6 final size:6
Alignment explanation
Indices: 85712034--85712065 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
85712024 AGGTGCACAT
*
85712034 GAAGAT GAAGAC GAAGAC GAAGAC GAAGAC GA
1 GAAGAC GAAGAC GAAGAC GAAGAC GAAGAC GA
85712066 TGAGGAGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.34, T:0.03
Consensus pattern (6 bp):
GAAGAC
Found at i:85714749 original size:12 final size:14
Alignment explanation
Indices: 85714728--85714772 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 14
85714718 AAATAACTCA
85714728 AAATAATAATA-AT
1 AAATAATAATATAT
85714741 AAA-AATAATATAT
1 AAATAATAATATAT
85714754 GAAATAATAATATAT
1 -AAATAATAATATAT
85714769 AAAT
1 AAAT
85714773 GAAATTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 7 0.24
15 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:85714776 original size:19 final size:18
Alignment explanation
Indices: 85714727--85714777 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
85714717 GAAATAACTC
85714727 AAAATAAT-AAT--AATA
1 AAAATAATAAATGAAATA
*
85714742 AAAATAATATATGAAATA
1 AAAATAATAAATGAAATA
*
85714760 ATAATATATAAATGAAAT
1 AAAATA-ATAAATGAAAT
85714778 TTCAAAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 8 0.28
16 2 0.07
18 9 0.31
19 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAATAATAAATGAAATA
Found at i:85714785 original size:27 final size:27
Alignment explanation
Indices: 85714725--85714801 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 27
85714715 TCGAAATAAC
*
85714725 TCAAAATAATAATAATAAAAATAATATA
1 TCAAAATAATAAT-ATATAAATAATATA
* *
85714753 T-GAAATAATAATATATAAATGAA-ATT
1 TCAAAATAATAATATATAAAT-AATATA
85714779 TCAAAATACATAACGTATATAAA
1 TCAAAATA-ATAA--TATATAAA
85714802 AAAGTAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 10 0.25
27 17 0.43
28 5 0.12
30 8 0.20
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (27 bp):
TCAAAATAATAATATATAAATAATATA
Found at i:85715003 original size:16 final size:16
Alignment explanation
Indices: 85714955--85715006 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
85714945 CCTTAGAAGA
*
85714955 AATATATATACACAA-
1 AATATATATACATAAT
*
85714970 AATA-ATATAAAATCAAT
1 AATATATAT-ACAT-AAT
85714987 AATATATATACATAAT
1 AATATATATACATAAT
85715003 AATA
1 AATA
85715007 AAAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.13
15 6 0.20
16 9 0.30
17 7 0.23
18 4 0.13
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATATATACATAAT
Found at i:85715013 original size:23 final size:20
Alignment explanation
Indices: 85714976--85715027 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
85714966 ACAAAATAAT
* *
85714976 ATAAAATCAATAATATATATAC
1 ATAAAAT-AA-AAAATATTTAC
85714998 ATAATAATAAAAAATATTTAC
1 ATAA-AATAAAAAATATTTAC
85715019 ATAAAATAA
1 ATAAAATAA
85715028 TAGGAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 6 0.22
23 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAATAAAAAATATTTAC
Found at i:85723111 original size:21 final size:20
Alignment explanation
Indices: 85723081--85723120 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
85723071 AATCCTGAAC
*
85723081 CTAAAACCTAGAACCTTAAAT
1 CTAAAACCTA-AACCCTAAAT
*
85723102 CTAAACCCTAAACCCTAAA
1 CTAAAACCTAAACCCTAAA
85723121 CTCGAACACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (20 bp):
CTAAAACCTAAACCCTAAAT
Found at i:85729609 original size:22 final size:22
Alignment explanation
Indices: 85729581--85729625 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
85729571 TGATTTTAGT
85729581 AGAAATTGATTTTTAAGACCTA
1 AGAAATTGATTTTTAAGACCTA
85729603 AGAAATTGATTTTTAAGACCTA
1 AGAAATTGATTTTTAAGACCTA
85729625 A
1 A
85729626 TTATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
AGAAATTGATTTTTAAGACCTA
Found at i:85732168 original size:35 final size:35
Alignment explanation
Indices: 85732124--85732405 Score: 97
Period size: 33 Copynumber: 8.3 Consensus size: 35
85732114 ATAACCAGCT
* * *
85732124 ATGGTCTTACATGTATACACTGTCATGGTCCAACC
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * * * ***
85732159 ATGGTCTTAC--GTCTATAGTGCCATAATCCAGTT
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * * *
85732192 ATGGTC-T-CAT-CATCAGAATGCCATAGCCCAACT
1 ATGGTCTTACATGTAT-ACAATGCCATAGTCCAACC
* * *
85732225 ATGGTCTTACATGTATACATTGTCATGGTCCAACC
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * * ** ***
85732260 ATGGTCTTAC--GTCTATAGTGCCATAACCCAGTT
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
* * * * *
85732293 ATGGTC-TA-AT-CATCAAAATGTCATAGCCCAACT
1 ATGGTCTTACATGTAT-ACAATGCCATAGTCCAACC
* * * * *
85732326 ATGGTC-T-CAT-CATCAGAATGTCATAG-CGTAACT
1 ATGGTCTTACATGTAT-ACAATGCCATAGTC-CAACC
* *
85732359 ATGGTCTTACATGTATACACTGCCATGGTCCAACC
1 ATGGTCTTACATGTATACAATGCCATAGTCCAACC
85732394 ATGGTCTTACAT
1 ATGGTCTTACAT
85732406 CTAAATAGTT
Statistics
Matches: 181, Mismatches: 51, Indels: 30
0.69 0.19 0.11
Matches are distributed among these distances:
31 1 0.01
32 6 0.03
33 105 0.58
34 2 0.01
35 62 0.34
36 5 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (35 bp):
ATGGTCTTACATGTATACAATGCCATAGTCCAACC
Found at i:85732228 original size:33 final size:33
Alignment explanation
Indices: 85732191--85732365 Score: 129
Period size: 33 Copynumber: 5.2 Consensus size: 33
85732181 ATAATCCAGT
*
85732191 TATGGTCTCATCATCAGAATGCCATAGCCCAAC
1 TATGGTCTCATCATCAGAATGTCATAGCCCAAC
* * * * *
85732224 TATGGTCTTACATGTAT-ACATTGTCATGGTCCAAC
1 TATGGTC-T-CAT-CATCAGAATGTCATAGCCCAAC
* * * * * * * **
85732259 CATGGTCTTA-CGTCTATAGTGCCATAACCCAGT
1 TATGGTCTCATCATC-AGAATGTCATAGCCCAAC
* *
85732292 TATGGTCTAATCATCAAAATGTCATAGCCCAAC
1 TATGGTCTCATCATCAGAATGTCATAGCCCAAC
**
85732325 TATGGTCTCATCATCAGAATGTCATAGCGTAAC
1 TATGGTCTCATCATCAGAATGTCATAGCCCAAC
85732358 TATGGTCT
1 TATGGTCT
85732366 TACATGTATA
Statistics
Matches: 105, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
31 1 0.01
33 75 0.71
34 5 0.05
35 22 0.21
36 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
TATGGTCTCATCATCAGAATGTCATAGCCCAAC
Done.