Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 31
Found at i:1596493 original size:83 final size:83
Alignment explanation
Indices: 1596348--1596625 Score: 360
Period size: 83 Copynumber: 3.3 Consensus size: 83
1596338 TACCATTCAG
* * * * * *
1596348 TTGATATGCCATCGAGCTGAATGGAATCGAACTCGACAGTTGTTTGTTAAGAGATGACCCTTCTT
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGA-AG--GTTTGTTGACAGATGACCCTTCTC
*
1596413 ACCTTGAGCTATGCTGTAAAT
63 GCCTTGAGCTATGCTGTAAAT
* *
1596434 TTGATATGCCCTTGAGCAT-AATGTAATCGAACTTGAAGGTTTGTTGATAGATGACCCTTCTCGC
1 TTGATATGCCCTTGAGC-TGAATGTAATCGAACTCGAAGGTTTGTTGACAGATGACCCTTCTCGC
1596498 CTTGAGCTATGCTGTAAAT
65 CTTGAGCTATGCTGTAAAT
* * * *
1596517 TTGATATGCCCTTGAGTTGAATGTAATCGAGCTCGAAGGTTTTTAATGACAGATAACCCTTCTCG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTGT--TGACAGATGACCCTTCTCG
*
1596582 CCTTGAGCTACGCTGTAAAT
64 CCTTGAGCTATGCTGTAAAT
*
1596602 TTGATATGCCCCTGAGCTGAATGT
1 TTGATATGCCCTTGAGCTGAATGT
1596626 GGATGAGTGT
Statistics
Matches: 171, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 79 0.46
85 60 0.35
86 30 0.18
87 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (83 bp):
TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATGACCCTTCTCGCC
TTGAGCTATGCTGTAAAT
Found at i:1597777 original size:21 final size:21
Alignment explanation
Indices: 1597734--1597778 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1597724 AAATCTTTTC
*
1597734 TTTATTTTACTTTAAATCGCT
1 TTTATTTTACTTTAAATAGCT
*
1597755 TTTATTATTA-TTTAAATATCT
1 TTTATT-TTACTTTAAATAGCT
1597776 TTT
1 TTT
1597779 TACCAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATTTTACTTTAAATAGCT
Found at i:1608682 original size:21 final size:21
Alignment explanation
Indices: 1608638--1608683 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1608628 TAAATCTTTT
*
1608638 TTTTATTTTACTTTAAATCGC
1 TTTTATTTTACTTTAAATAGC
*
1608659 TTTTATTATTA-TTTAAATATC
1 TTTTATT-TTACTTTAAATAGC
1608680 TTTT
1 TTTT
1608684 TACCAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATTTTACTTTAAATAGC
Found at i:1614587 original size:11 final size:11
Alignment explanation
Indices: 1614567--1614661 Score: 61
Period size: 11 Copynumber: 8.4 Consensus size: 11
1614557 ATTAGATAAG
1614567 AAATAATAAAT
1 AAATAATAAAT
*
1614578 AAATATTAAAT
1 AAATAATAAAT
*
1614589 AAATCAAAGTAAAA
1 AAAT--AA-TAAAT
1614603 AAATAATAAAT
1 AAATAATAAAT
* *
1614614 AAATCAAAGGAAAA
1 AAAT--AA-TAAAT
1614628 AAATAA-AAAT
1 AAATAATAAAT
1614638 AAA-AATAAA-
1 AAATAATAAAT
* *
1614647 AAGTATTAAAT
1 AAATAATAAAT
1614658 AAAT
1 AAAT
1614662 CAAAGGAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
9 4 0.06
10 14 0.22
11 25 0.38
12 4 0.06
13 3 0.05
14 15 0.23
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:1614601 original size:25 final size:24
Alignment explanation
Indices: 1614573--1614679 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 24
1614563 TAAGAAATAA
1614573 TAAATAAATATTAAATAAATCAAAG
1 TAAA-AAATATTAAATAAATCAAAG
*
1614598 TAAAAAAATAATAAATAAATCAAAG
1 T-AAAAAATATTAAATAAATCAAAG
* * *
1614623 GAAAAAA-A-T-AA-AAATAAAAA
1 TAAAAAATATTAAATAAATCAAAG
*
1614643 TAAAAAGTATTAAATAAATCAAAG
1 TAAAAAATATTAAATAAATCAAAG
*
1614667 GAAAAAA-ATTAAA
1 TAAAAAATATTAAA
1614680 AGTAATAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
20 12 0.18
21 3 0.04
22 2 0.03
23 9 0.13
24 18 0.27
25 20 0.30
26 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (24 bp):
TAAAAAATATTAAATAAATCAAAG
Found at i:1614641 original size:39 final size:39
Alignment explanation
Indices: 1614589--1614698 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 39
1614579 AATATTAAAT
*
1614589 AAATCAAAGTAAAAAAATAATAAATAAATCAAAGGAAAA
1 AAATAAAAGTAAAAAAATAATAAATAAATCAAAGGAAAA
* *
1614628 AAATAAAAATAAAAATAAAAAGTATTAAATAAATCAAAGGAAAA
1 AAATAAAAGT---AA-AAAAA-TAATAAATAAATCAAAGGAAAA
* *
1614672 AAATTAAAAGTAATAAAATTA-AAATAA
1 AAA-TAAAAGTAAAAAAATAATAAATAA
1614699 TAAGAAGTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
39 14 0.24
40 1 0.02
41 4 0.07
42 4 0.07
43 5 0.09
44 24 0.41
45 6 0.10
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (39 bp):
AAATAAAAGTAAAAAAATAATAAATAAATCAAAGGAAAA
Found at i:1614701 original size:14 final size:15
Alignment explanation
Indices: 1614671--1614701 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1614661 TCAAAGGAAA
1614671 AAAATTAAAAGTAAT
1 AAAATTAAAAGTAAT
1614686 AAAATTAAAA-TAAT
1 AAAATTAAAAGTAAT
1614700 AA
1 AA
1614702 GAAGTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATTAAAAGTAAT
Found at i:1614807 original size:29 final size:28
Alignment explanation
Indices: 1614736--1614809 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
1614726 AATAAAAAAT
*
1614736 ACTAAAATTAAAAGG-AAAAATTGAATA
1 ACTAAAATTAAAAGGAAAAAAATGAATA
1614763 ACTAAAATTAAAAAAGGAAAAAAATGAATA
1 ACTAAAATT--AAAAGGAAAAAAATGAATA
*
1614793 ACTAAAAATTTAAAGGA
1 ACT-AAAATTAAAAGGA
1614810 CCAAATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 9 0.22
29 12 0.29
30 14 0.34
31 6 0.15
ACGTcount: A:0.65, C:0.04, G:0.11, T:0.20
Consensus pattern (28 bp):
ACTAAAATTAAAAGGAAAAAAATGAATA
Found at i:1614823 original size:30 final size:27
Alignment explanation
Indices: 1614736--1614819 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 27
1614726 AATAAAAAAT
1614736 ACTAAAATTAAAAGGAAAAATTGAATA
1 ACTAAAATTAAAAGGAAAAATTGAATA
*
1614763 ACTAAAATTAAAAAAGGAAAAAAATGAATA
1 ACTAAAATT--AAAAGG-AAAAATTGAATA
* *
1614793 ACTAAAAATTTAAAGGACCAAATTGAA
1 ACT-AAAATTAAAAGGA-AAAATTGAA
1614820 ATAAATTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 9 0.19
28 1 0.02
29 18 0.38
30 14 0.29
31 6 0.12
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (27 bp):
ACTAAAATTAAAAGGAAAAATTGAATA
Found at i:1615709 original size:23 final size:23
Alignment explanation
Indices: 1615682--1615731 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1615672 CACCACAGCT
1615682 CGTATAAATGCACCAAAGTGCCA
1 CGTATAAATGCACCAAAGTGCCA
* *
1615705 CGTATAATTGCACCAAAGTGCCG
1 CGTATAAATGCACCAAAGTGCCA
1615728 CGTA
1 CGTA
1615732 GAATTACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCAAAGTGCCA
Found at i:1615736 original size:23 final size:23
Alignment explanation
Indices: 1615690--1615746 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1615680 CTCGTATAAA
*
1615690 TGCACCAAAGTGCCACGTATAAT
1 TGCACCAAAGTGCCACGTAGAAT
*
1615713 TGCACCAAAGTGCCGCGTAGAAT
1 TGCACCAAAGTGCCACGTAGAAT
* *
1615736 TACACCGAAGT
1 TGCACCAAAGT
1615747 TCCATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (23 bp):
TGCACCAAAGTGCCACGTAGAAT
Found at i:1617285 original size:64 final size:64
Alignment explanation
Indices: 1617213--1617334 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 64
1617203 TTTTTCCTTT
* * * * *
1617213 AGGGGGTATCGATA-CCCTACTGGGGGTATCGGTA-ACCTCATGACATTTTGTAATTTTTCGTTC
1 AGGGGGTATCGATACCCCT-CTGGGGGAATCAGTACCCCT-ATGACATTCTGAAATTTTTCGTTC
1617276 A
64 A
*
1617277 AGGGGGTATCGGTACCCCTCTGGGGGAATCAGTACCCCTATGACATTCTGAAATTTTT
1 AGGGGGTATCGATACCCCTCTGGGGGAATCAGTACCCCTATGACATTCTGAAATTTTT
1617335 GTTTGAGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 43 0.86
65 7 0.14
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (64 bp):
AGGGGGTATCGATACCCCTCTGGGGGAATCAGTACCCCTATGACATTCTGAAATTTTTCGTTCA
Found at i:1617311 original size:20 final size:20
Alignment explanation
Indices: 1617278--1617315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1617268 TTTCGTTCAA
* *
1617278 GGGGGTATCGGTACCCCTCT
1 GGGGGAATCAGTACCCCTCT
1617298 GGGGGAATCAGTACCCCT
1 GGGGGAATCAGTACCCCT
1617316 ATGACATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (20 bp):
GGGGGAATCAGTACCCCTCT
Found at i:1617842 original size:5 final size:5
Alignment explanation
Indices: 1617832--1617869 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
1617822 TGGAGCTTAC
*
1617832 GAGAA GAGAA GAGAA GAGAA GAGAA GATAA GAGGAA GA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GA-GAA GA
1617870 AGATAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (5 bp):
GAGAA
Found at i:1619060 original size:10 final size:10
Alignment explanation
Indices: 1619045--1619117 Score: 57
Period size: 10 Copynumber: 7.3 Consensus size: 10
1619035 TGGATCGAAT
1619045 TAAAATAAAA
1 TAAAATAAAA
1619055 TAAAAT-AAA
1 TAAAATAAAA
*
1619064 TAAAAATATAA
1 T-AAAATAAAA
1619075 T-AAAT-AAA
1 TAAAATAAAA
1619083 -AAAATATAAA
1 TAAAATA-AAA
1619093 TAAAGAT-AAA
1 TAAA-ATAAAA
1619103 TAATAATAATAA
1 TAA-AATAA-AA
1619115 TAA
1 TAA
1619118 TATATTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
8 6 0.12
9 8 0.16
10 22 0.43
11 8 0.16
12 7 0.14
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:1619091 original size:29 final size:28
Alignment explanation
Indices: 1619047--1619119 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
1619037 GATCGAATTA
1619047 AAATAAAATAAAATAAATAAAAATATAAT
1 AAATAAAATAAAATAAATAAAAATA-AAT
*
1619076 AAATAAAA-AAATATAAATAAAGATAAAT
1 AAATAAAATAAA-ATAAATAAAAATAAAT
1619104 -AATAATAATAATAATA
1 AAATAA-AATAA-AATA
1619120 TATTATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 5 0.13
28 8 0.21
29 25 0.64
30 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (28 bp):
AAATAAAATAAAATAAATAAAAATAAAT
Found at i:1619092 original size:34 final size:34
Alignment explanation
Indices: 1619045--1619119 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
1619035 TGGATCGAAT
*
1619045 TAAAATAAAATAAAATAAATAAAAAT-ATAATAAA
1 TAAAATAAAAT-AAATAAAGAAAAATAATAATAAA
*
1619079 TAAAA-AAATATAAATAAAGATAAATAATAAT-AA
1 TAAAATAAA-ATAAATAAAGAAAAATAATAATAAA
1619112 TAATAATA
1 TAA-AATA
1619120 TATTATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
33 20 0.57
34 14 0.40
35 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (34 bp):
TAAAATAAAATAAATAAAGAAAAATAATAATAAA
Found at i:1619225 original size:73 final size:72
Alignment explanation
Indices: 1619117--1619311 Score: 275
Period size: 73 Copynumber: 2.7 Consensus size: 72
1619107 AATAATAATA
* * *
1619117 ATATATTATATATATTTTCAAAAATATTTTCCAAAACTATATAATATAT-GTTTTTCAAAAATAT
1 ATATATTATATATATTTTCAAAAATGTTTT-CAAAACTATATAATATATAG-TTTTCAAAAAAAA
* *
1619181 TTTAAAACT
64 CTCAAAACT
* *
1619190 ATATATTATATATATTTTTTAAAAATGTTTTCAAAACTATATATTATATAGTTTTCAAAAAAAAC
1 ATATATTATATATA-TTTTCAAAAATGTTTTCAAAACTATATAATATATAGTTTTCAAAAAAAAC
1619255 TCAAAACT
65 TCAAAACT
**
1619263 ATATATTATATACGTTTTCAAAAATGTTTTCAAAACTATATAATATATA
1 ATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATAATATATA
1619312 TATATATATA
Statistics
Matches: 109, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
72 33 0.30
73 61 0.56
74 15 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (72 bp):
ATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATAATATATAGTTTTCAAAAAAAACT
CAAAACT
Found at i:1619310 original size:2 final size:2
Alignment explanation
Indices: 1619299--1619328 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1619289 TTTTCAAAAC
1619299 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1619329 TTAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1619311 original size:37 final size:36
Alignment explanation
Indices: 1619118--1619311 Score: 225
Period size: 37 Copynumber: 5.4 Consensus size: 36
1619108 ATAATAATAA
*
1619118 TATATTATATATA-TTTTCAAAAATATTTTCCAAAAC
1 TATATAATATATAGTTTTCAAAAATATTTT-CAAAAC
1619154 TATATAATATAT-GTTTTTCAAAAATATTTT-AAAAC
1 TATATAATATATAG-TTTTCAAAAATATTTTCAAAAC
* * *
1619189 TATATATTATATATATTTTTTAAAAATGTTTTCAAAAC
1 TATATA--ATATATAGTTTTCAAAAATATTTTCAAAAC
* ***
1619227 TATATATTATATAGTTTTCAAAAA-AAACTCAAAAC
1 TATATAATATATAGTTTTCAAAAATATTTTCAAAAC
* *
1619262 TATATATTATATACGTTTTCAAAAATGTTTTCAAAAC
1 TATATAATATATA-GTTTTCAAAAATATTTTCAAAAC
1619299 TATATAATATATA
1 TATATAATATATA
1619312 TATATATATA
Statistics
Matches: 134, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
35 31 0.23
36 37 0.28
37 55 0.41
38 11 0.08
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTCAAAAATATTTTCAAAAC
Found at i:1619362 original size:36 final size:38
Alignment explanation
Indices: 1619310--1619487 Score: 197
Period size: 36 Copynumber: 4.7 Consensus size: 38
1619300 ATATAATATA
* *
1619310 TATATATATATATATATATTT-AAAATATTTTTAAAAGC
1 TATATAT-TATATATATATTTCAAAATATTTTCAAAAAC
1619348 TATATATTATTATATATATATTTTCAAAATATTTTC-AAAAC
1 --TATA-TATTATATATATA-TTTCAAAATATTTTCAAAAAC
*
1619389 TATATATTATATA-AGT-TTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATA-TATTTCAAAATATTTTCAAAAAC
* *
1619426 TATATATTATATATAT-TTTTAAAAT-TTCTCAAAAAC
1 TATATATTATATATATATTTCAAAATATTTTCAAAAAC
*
1619462 TATATATTGTATATATATATTCAAAA
1 TATATATTATATATATAT-TTCAAAA
1619488 ACCGATTTTT
Statistics
Matches: 123, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
36 39 0.32
37 29 0.24
38 17 0.14
39 4 0.03
40 14 0.11
41 10 0.08
42 10 0.08
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (38 bp):
TATATATTATATATATATTTCAAAATATTTTCAAAAAC
Found at i:1619450 original size:73 final size:72
Alignment explanation
Indices: 1619310--1619474 Score: 174
Period size: 73 Copynumber: 2.2 Consensus size: 72
1619300 ATATAATATA
*
1619310 TATATATATATATATA-TATTT-AAAATATTTTTAAAAGCTATATATTATTATATATATATTTTC
1 TATATAT-TATATA-AGT-TTTCAAAATATTTTCAAAA-C--TATA-TATTATATATAT-TTTT-
1619373 AAAATATTTTCAAAAC
57 AAAATATTTTCAAAAC
*
1619389 TATATATTATATAAGTTTTCAAAATGTTTTCAAAAACTATATATTATATATATTTTTAAAAT-TT
1 TATATATTATATAAGTTTTCAAAATATTTTC-AAAACTATATATTATATATATTTTTAAAATATT
*
1619453 CTCAAAAAC
65 TTC-AAAAC
*
1619462 TATATATTGTATA
1 TATATATTATATA
1619475 TATATATTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
72 4 0.05
73 22 0.28
74 4 0.05
75 12 0.15
76 4 0.05
77 4 0.05
78 17 0.22
79 11 0.14
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (72 bp):
TATATATTATATAAGTTTTCAAAATATTTTCAAAACTATATATTATATATATTTTTAAAATATTT
TCAAAAC
Found at i:1620431 original size:42 final size:42
Alignment explanation
Indices: 1620332--1620547 Score: 314
Period size: 42 Copynumber: 5.2 Consensus size: 42
1620322 GACTATCGCA
**
1620332 TTGCGATAGTCCAAGTTCATGTTGCGATTTA---CATA-TTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCA-AGTTCG
1620371 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 --TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* * * *
1620415 TTACGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
1620457 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1620499 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1620541 TTGCGAT
1 TTGCGAT
1620548 TTATTCCAAA
Statistics
Matches: 159, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
41 29 0.18
42 123 0.77
43 1 0.01
44 6 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:1620459 original size:63 final size:61
Alignment explanation
Indices: 1620373--1620617 Score: 275
Period size: 63 Copynumber: 3.9 Consensus size: 61
1620363 CATATTCGCA
*
1620373 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTACGA-TAGTCGAAGTTCGTG
1 TTGCGATAGTCCAAGTTC-CGTTGCGATTTATTCCAAGTTCGTTACGATTAGTCCAAGTTC--G
* * * * *
1620436 TTGCGATTTATTCCAAATT-CGTTGCGA--TAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTC
1 TTGCGA--TAGTCCAAGTTCCGTTGCGATTTATTCCAAGTT--CGTTACGA-TTAGTCCAAGTTC
1620498 G
61 G
* * *
1620499 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTC-CGTTGCGATTTATTCCAAGTTCGTTACGA-TTAGTCCAAGTTCG
1620562 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTACGA-TAGTCCAA
1 TTGCGATAGTCCAAGTTC-CGTTGCGATTTATTCCAAGTTCGTTACGATTAGTCCAA
1620618 AATCGCAACG
Statistics
Matches: 160, Mismatches: 12, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
61 26 0.16
63 105 0.66
65 29 0.18
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (61 bp):
TTGCGATAGTCCAAGTTCCGTTGCGATTTATTCCAAGTTCGTTACGATTAGTCCAAGTTCG
Found at i:1620564 original size:42 final size:40
Alignment explanation
Indices: 1620332--1620610 Score: 264
Period size: 42 Copynumber: 6.7 Consensus size: 40
1620322 GACTATCGCA
1620332 TTGCGATAGTCCAAGTTCATGTTGCGATTTA---CATA-TTCG
1 TTGCGATAGTCCAAGTTC--GTTGCGATTTATTCCA-AGTTCG
1620371 CATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 --TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
* * *
1620415 TTACGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTC--GTTGCGATTTATTCCAAGTTCG
*
1620457 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
1620499 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTT--CGTTGCGATTTATTCCAAGTTCG
* * *
1620541 TTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAGTTCGCG
1 TTGCGA--TAGTCCAAGTTCGTTGCGATTTATTCCAAGTT--CG
* *
1620583 TTGCGATTTATTCCAAGTTCGTTACGAT
1 TTGCGA--TAGTCCAAGTTCGTTGCGAT
1620611 AGTCCAAAAT
Statistics
Matches: 210, Mismatches: 13, Indels: 28
0.84 0.05 0.11
Matches are distributed among these distances:
40 11 0.05
41 28 0.13
42 153 0.73
43 2 0.01
44 16 0.08
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGTTGCGATTTATTCCAAGTTCG
Found at i:1620564 original size:84 final size:83
Alignment explanation
Indices: 1620332--1620603 Score: 295
Period size: 84 Copynumber: 3.2 Consensus size: 83
1620322 GACTATCGCA
** * * *
1620332 TTGCGATAGTCCAAGTTCATGTTGCGATTTA---CATATTCGCATTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG--TTGCGATAATCCAAATTC-CG
1620394 TTGCGATTTATTCCAAGTTCG
63 TTGCGATTTATTCCAAGTTCG
* * * *
1620415 TTACGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCGTTGCGATAATCCAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAATCCAAATTC-CGTT
1620480 GCGATTTATTCCAAGTTCG
65 GCGATTTATTCCAAGTTCG
* *
1620499 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTTATTCCAAATT-CGT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAATCCAAATTCCGT
*
1620563 TGCGA--TAGTCCAAGTTCGCG
64 TGCGATTTATTCCAAGTT--CG
*
1620583 TTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAGTTCG
1620604 TTACGATAGT
Statistics
Matches: 167, Mismatches: 13, Indels: 15
0.86 0.07 0.08
Matches are distributed among these distances:
82 10 0.06
83 28 0.17
84 101 0.60
86 28 0.17
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (83 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAATCCAAATTCCGTTG
CGATTTATTCCAAGTTCG
Found at i:1620730 original size:18 final size:18
Alignment explanation
Indices: 1620707--1620747 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1620697 CGTATTACCA
*
1620707 CGACCATGACCCCGACCC
1 CGACCACGACCCCGACCC
1620725 CGACCACGACCCCGACCC
1 CGACCACGACCCCGACCC
1620743 CGACC
1 CGACC
1620748 CGAGACGAGA
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:0.22, C:0.59, G:0.17, T:0.02
Consensus pattern (18 bp):
CGACCACGACCCCGACCC
Found at i:1620748 original size:6 final size:6
Alignment explanation
Indices: 1620714--1620748 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1620704 CCACGACCAT
*
1620714 GACCCC GACCCC GACCAC GACCCC GACCCC GACCC
1 GACCCC GACCCC GACCCC GACCCC GACCCC GACCC
1620749 GAGACGAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.20, C:0.63, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCCC
Found at i:1621247 original size:5 final size:5
Alignment explanation
Indices: 1621229--1621295 Score: 118
Period size: 5 Copynumber: 13.6 Consensus size: 5
1621219 CCGCCGCCGC
*
1621229 CGTC- CGTCT AGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT
1621278 CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGT
1621296 GGTCGTGGTC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
4 4 0.07
5 56 0.93
ACGTcount: A:0.01, C:0.39, G:0.21, T:0.39
Consensus pattern (5 bp):
CGTCT
Found at i:1621303 original size:6 final size:6
Alignment explanation
Indices: 1621292--1621316 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1621282 TCGTCTCGTC
1621292 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
1621317 AATACGTGTC
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:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:1621503 original size:21 final size:20
Alignment explanation
Indices: 1621476--1621592 Score: 117
Period size: 21 Copynumber: 5.6 Consensus size: 20
1621466 GATTTACATA
*
1621476 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCAAC
*
1621496 TATCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGT-CAAC
* *
1621518 TTCGTATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAC
* *
1621539 TTCGTATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTC-AAC
*
1621560 TTCGCATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTC-AAC
*
1621581 TTCGCGTTGCGA
1 TTCGCATTGCGA
1621593 ATTTGGAAAC
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.02
21 84 0.94
22 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCAAC
Found at i:1621548 original size:42 final size:42
Alignment explanation
Indices: 1621476--1621592 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 42
1621466 GATTTACATA
* *
1621476 TTCGCATTGCGATAGT-CGACTATCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATAGTCCAAG
* * *
1621518 TTCGTATTGCGATAGTCCAAGTTCGTATTGCGATAGTCTAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAG
* *
1621560 TTCGCATTGCGATAGTCTAAGTTCGCGTTGCGA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
1621593 ATTTGGAAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 62 0.95
43 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAG
Found at i:1626163 original size:20 final size:20
Alignment explanation
Indices: 1626138--1626262 Score: 137
Period size: 20 Copynumber: 6.2 Consensus size: 20
1626128 TTGTAAATCA
*
1626138 CAACACAGAAGTTAAATTCG
1 CAACACAGAAGTCAAATTCG
1626158 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
**
1626178 CAATGC-GATAGTCAAATTCG
1 CAACACAGA-AGTCAAATTCG
* *
1626198 CAACACAAAAGTCAAATTCA
1 CAACACAGAAGTCAAATTCG
*
1626218 CAACGC-GATAGTCAAATTCG
1 CAACACAGA-AGTCAAATTCG
* *
1626238 CAACACTGAATTTCAAATTCG
1 CAACACAGAA-GTCAAATTCG
1626259 CAAC
1 CAAC
1626263 TGAATTTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.03
20 69 0.78
21 16 0.18
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (20 bp):
CAACACAGAAGTCAAATTCG
Found at i:1626210 original size:40 final size:40
Alignment explanation
Indices: 1626151--1626322 Score: 161
Period size: 40 Copynumber: 4.3 Consensus size: 40
1626141 CACAGAAGTT
* *
1626151 AAATTCGCAACACAGAAGTCAAATTCGCAATGCGATAGTC
1 AAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTC
*
1626191 AAATTCGCAACACAAAAGTCAAATTCACAACGCGATAGTC
1 AAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTC
* ** * *
1626231 AAATTCGCAACACTGAATTTCAAATTCGCAAC-TGA-ATTTC
1 AAATTCGCAACAC-AAAAGTCAAATTCGCAACGCGATA-GTC
** ** * **
1626271 AAATTCGCAAC-TGAATTTCAAATTCGCAACTCGATTTTC
1 AAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTC
*
1626310 GAATTCGCAACAC
1 AAATTCGCAACAC
1626323 GAATTTAATT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
38 18 0.16
39 16 0.14
40 65 0.58
41 14 0.12
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (40 bp):
AAATTCGCAACACAAAAGTCAAATTCGCAACGCGATAGTC
Found at i:1626266 original size:19 final size:19
Alignment explanation
Indices: 1626229--1626320 Score: 139
Period size: 19 Copynumber: 4.7 Consensus size: 19
1626219 AACGCGATAG
1626229 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
1626250 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
1626269 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
1626288 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
*
1626308 TCGAATTCGCAAC
1 TCAAATTCGCAAC
1626321 ACGAATTTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
19 41 0.60
20 17 0.25
21 10 0.15
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1626292 original size:38 final size:39
Alignment explanation
Indices: 1626229--1626337 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
1626219 AACGCGATAG
1626229 TCAAATTCGCAACACTGAATTTCAAATTCGCAACT-GAATT
1 TCAAATTCGC-A-ACTGAATTTCAAATTCGCAACTCGAATT
*
1626269 TCAAATTCGCAACTGAATTTCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACTGAATTTCAAATTCGCAACTCGAATT
* * *
1626308 TCGAATTCGCAACACGAATTT-AATTTCGCA
1 TCAAATTCGCAAC-TGAATTTCAAATTCGCA
1626338 TCAAGTTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
38 22 0.35
39 25 0.40
40 16 0.25
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (39 bp):
TCAAATTCGCAACTGAATTTCAAATTCGCAACTCGAATT
Found at i:1626337 original size:19 final size:19
Alignment explanation
Indices: 1626189--1626337 Score: 131
Period size: 20 Copynumber: 7.6 Consensus size: 19
1626179 AATGCGATAG
* **
1626189 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAAC-CGAATT
* *
1626209 TCAAATTCACAACGCG-ATAG
1 TCAAATTCGCAAC-CGAAT-T
1626229 TCAAATTCGCAACACTGAATT
1 TCAAATTCGCAAC-C-GAATT
*
1626250 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACCGAATT
*
1626269 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACCGAATT
*
1626288 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAAC-CGAATT
*
1626308 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAAC-CGAATT
*
1626328 T-AATTTCGCA
1 TCAAATTCGCA
1626338 TCAAGTTTTA
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
19 45 0.41
20 49 0.45
21 14 0.13
22 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (19 bp):
TCAAATTCGCAACCGAATT
Found at i:1627148 original size:12 final size:12
Alignment explanation
Indices: 1627127--1627160 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1627117 ACCACATTTC
*
1627127 CAATACCAAACA
1 CAATATCAAACA
1627139 CAATATCAAACA
1 CAATATCAAACA
*
1627151 CAATCTCAAA
1 CAATATCAAA
1627161 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1627332 original size:24 final size:24
Alignment explanation
Indices: 1627281--1627334 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1627271 GTATTCTAAA
* *
1627281 TTTGATCTTGGTCGATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
1627305 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
1627329 TTTGAT
1 TTTGAT
1627335 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:1629619 original size:18 final size:17
Alignment explanation
Indices: 1629596--1629630 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
1629586 AAGCAAAAGG
1629596 AAATCAAAATCGCAATCA
1 AAATCAAAATC-CAATCA
1629614 AAATCAAAATCCAATCA
1 AAATCAAAATCCAATCA
1629631 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATCAAAATCCAATCA
Found at i:1629906 original size:20 final size:20
Alignment explanation
Indices: 1629881--1629995 Score: 113
Period size: 20 Copynumber: 5.8 Consensus size: 20
1629871 AAACCGAAAA
1629881 TCGCGTTGCGAATTTAACTT
1 TCGCGTTGCGAATTTAACTT
* *
1629901 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTAACTT
**** * *
1629921 TCGTAACGTGAATTTGACTT
1 TCGCGTTGCGAATTTAACTT
*
1629941 TCGCGTTGCGATTTTAACTT
1 TCGCGTTGCGAATTTAACTT
* * *
1629961 TCACGTTGTGAATTTACCTT
1 TCGCGTTGCGAATTTAACTT
*
1629981 TCACGTTGCGAATTT
1 TCGCGTTGCGAATTT
1629996 GTACCTTCAA
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAACTT
Found at i:1630175 original size:64 final size:66
Alignment explanation
Indices: 1630051--1630179 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 66
1630041 ATTTAAAACA
1630051 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTT
1 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTT
1630116 T
66 T
* *
1630117 ACAAATCAATTAAACAAG-AAAAAAATAATTCTTATTTCCTCATC-AATTAAACAAATCAACTTT
1 ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTT
1630180 CAATGTAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 19 0.31
65 24 0.39
66 18 0.30
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (66 bp):
ACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAACAAATCAACTTT
T
Found at i:1631549 original size:21 final size:19
Alignment explanation
Indices: 1631525--1631592 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 19
1631515 GAGGGACCCA
1631525 TTGAACGATAACATGGGCCTC
1 TTGAACGATAA-A-GGGCCTC
* * *
1631546 TTGAACGGTGGGAGGGGCCTC
1 TTGAACGAT--AAAGGGCCTC
1631567 TTGAACGATAGAAGGCGCCTC
1 TTGAACGATA-AAGG-GCCTC
1631588 TTGAA
1 TTGAA
1631593 TGATGACAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
20 3 0.08
21 33 0.89
23 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (19 bp):
TTGAACGATAAAGGGCCTC
Found at i:1631560 original size:42 final size:42
Alignment explanation
Indices: 1631501--1631592 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
1631491 GTGAATCGGG
1631501 CTCTTGAAAGGTGGGAGGGACC-CATTGAACGATA-ACATGG-GC
1 CTCTTGAAAGGTGGGAGGGACCTC-TTGAACGATAGA-A-GGCGC
* *
1631543 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATAGAAGGCGC
1 CTCTTGAAAGGTGGGAGGGACCTCTTGAACGATAGAAGGCGC
1631585 CTCTTGAA
1 CTCTTGAA
1631593 TGATGACAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
41 2 0.04
42 41 0.91
43 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (42 bp):
CTCTTGAAAGGTGGGAGGGACCTCTTGAACGATAGAAGGCGC
Found at i:1633798 original size:20 final size:21
Alignment explanation
Indices: 1633775--1633813 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1633765 TCGCGTTGCG
*
1633775 ATTTTGGTGTTGC-AATTTTC
1 ATTTTGATGTTGCGAATTTTC
*
1633795 ATTTTTATGTTGCGAATTT
1 ATTTTGATGTTGCGAATTT
1633814 AAGTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (21 bp):
ATTTTGATGTTGCGAATTTTC
Found at i:1634179 original size:22 final size:22
Alignment explanation
Indices: 1634152--1634198 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1634142 GATGGAGATA
*
1634152 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCATCGGAGATGGG
1634174 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCGGAGATGGG
1634196 GAC
1 GAC
1634199 AGATGTCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCATCGGAGATGGG
Found at i:1634411 original size:40 final size:40
Alignment explanation
Indices: 1634362--1634576 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 40
1634352 TAAACGCGCT
* * *
1634362 TTGCGAATTTGACTTTCGCGTTGCAAATTTGACTTTTGTA
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
*
1634402 TTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
* * * **
1634442 TTGCG-ATTT-ACAGATTCGCGTTGCGAATTTGAGATGC-GCC
1 TTGCGAATTTGAC--TTTCGCGTTGCGAATTTGA-CTTCTGTG
* * *
1634482 TTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
* * *
1634522 TTGTGAATTTGACTATCGCGTTGTGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
1634562 TTGCGAATTTGACTT
1 TTGCGAATTTGACTT
1634577 CTATGTTGCG
Statistics
Matches: 144, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
38 2 0.01
39 6 0.04
40 128 0.89
41 6 0.04
42 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (40 bp):
TTGCGAATTTGACTTTCGCGTTGCGAATTTGACTTCTGTG
Found at i:1634428 original size:60 final size:60
Alignment explanation
Indices: 1634362--1634613 Score: 275
Period size: 60 Copynumber: 4.2 Consensus size: 60
1634352 TAAACGCGCT
* * * *
1634362 TTGCGAATTTGACTT-TCGCGTTGCAAATTTGACTTTTGTATTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTCT-GTGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCG
* * *
1634422 TTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAGATTC-GCGTTGCGAATTTGA-GATGCGCC
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGAC---TTCTGTGTTGCGAATTTGACTAT-CGCG
* * *
1634482 TTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGTGTTGTGAATTTGACTATCGCG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCG
* *
1634542 TTGTGAATTTGACTTCTGTGTTGCGAATTTGACTTCTATGTTGCG-ATTT-ACATATTCGCG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGAATTTGAC-TA-TCGCG
*
1634602 TTGTGAATTTGA
1 TTGCGAATTTGA
1634614 AAACTATGAT
Statistics
Matches: 164, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
58 4 0.02
59 15 0.09
60 134 0.82
61 9 0.05
62 2 0.01
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (60 bp):
TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCG
Found at i:1634577 original size:20 final size:20
Alignment explanation
Indices: 1634362--1634587 Score: 196
Period size: 20 Copynumber: 11.3 Consensus size: 20
1634352 TAAACGCGCT
*
1634362 TTGCGAATTTGACTT-TCGCG
1 TTGCGAATTTGACTTCT-GTG
* * *
1634382 TTGCAAATTTGACTTTTGTA
1 TTGCGAATTTGACTTCTGTG
*
1634402 TTGCGAATTTGACTATC-GCG
1 TTGCGAATTTGACT-TCTGTG
1634422 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
1634442 TTGCG-ATTT-ACAGATTC-GCG
1 TTGCGAATTTGAC---TTCTGTG
* * **
1634462 TTGCGAATTTGAGATGC-GCC
1 TTGCGAATTTGA-CTTCTGTG
*
1634482 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
*
1634502 TTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTCTGTG
* *
1634522 TTGTGAATTTGACTATC-GCG
1 TTGCGAATTTGACT-TCTGTG
*
1634542 TTGTGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
1634562 TTGCGAATTTGACTTCTATG
1 TTGCGAATTTGACTTCTGTG
1634582 TTGCGA
1 TTGCGA
1634588 TTTACATATT
Statistics
Matches: 170, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.01
19 9 0.05
20 147 0.86
21 11 0.06
22 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:1634627 original size:60 final size:60
Alignment explanation
Indices: 1634503--1634652 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 60
1634493 ACTTTTGTGT
* *** * *
1634503 TGCGAATTTGACTTCAGTGTTGTGAATTTGACTATCGCGTTGTGAATTTGACTTCTGTGT
1 TGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCGTTGTGAATTTGAAAACTATGA
1634563 TGCGAATTTGACTTCTA-TGTTGCG-ATTT-ACATATTCGCGTTGTGAATTTGAAAACTATGA
1 TGCGAATTTGACTTC-AGTGTTGCGAATTTGAC-TA-TCGCGTTGTGAATTTGAAAACTATGA
* * *
1634623 TGCGAAATTGAAGTTC-GCGTTGCGAATTTG
1 TGCGAATTTG-ACTTCAGTGTTGCGAATTTG
1634653 TTGGTCATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
58 2 0.03
59 6 0.08
60 57 0.77
61 9 0.12
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (60 bp):
TGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCGTTGTGAATTTGAAAACTATGA
Found at i:1636051 original size:21 final size:20
Alignment explanation
Indices: 1635965--1636122 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1635955 AAATGACCAA
**
1635965 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1635984 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1636004 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1636024 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1636045 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1636066 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1636086 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1636107 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1636123 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1636164 original size:20 final size:20
Alignment explanation
Indices: 1636089--1636282 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
1636079 CGATTTTCCA
* ** *
1636089 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1636109 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
1636129 AAATCGCAACGCGTATTCGT
1 AAATCGCAACGCGTATCCGT
*
1636149 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1636169 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1636189 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1636209 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1636229 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1636249 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1636270 AAATCGCAACGCG
1 AAATCGCAACGCG
1636283 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 16 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1636173 original size:60 final size:60
Alignment explanation
Indices: 1636089--1636282 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1636079 CGATTTTCCA
* ** * * *
1636089 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATTCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1636149 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1636209 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1636270 AAATCGCAACGCG
1 AAATCGCAACGCG
1636283 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1636704 original size:33 final size:33
Alignment explanation
Indices: 1636665--1636735 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1636655 TTCACTTAGA
*
1636665 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1636698 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1636731 TTTCA
1 TTTCA
1636736 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1636862 original size:20 final size:20
Alignment explanation
Indices: 1636815--1636924 Score: 99
Period size: 21 Copynumber: 5.8 Consensus size: 20
1636805 TGCAGAAGAG
*
1636815 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
* ***
1636836 TCCCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1636856 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1636877 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
1636891 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1636910 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1636925 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 2 0.03
19 15 0.21
20 19 0.27
21 22 0.31
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1636872 original size:41 final size:41
Alignment explanation
Indices: 1636814--1636891 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1636804 TTGCAGAAGA
*
1636814 GTCGCAACGAGATAAATGAAAATCCCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCCCAACGAGAGAATGACT
*
1636855 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCCCAACGAGAGAAT
1636892 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCCCAACGAGAGAATGACT
Found at i:1636894 original size:14 final size:14
Alignment explanation
Indices: 1636875--1636931 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1636865 GAGAAATGAA
1636875 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1636889 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1636908 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1636922 AATCGCAACG
1 AATCGCAACG
1636932 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1636907 original size:33 final size:33
Alignment explanation
Indices: 1636867--1636947 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1636857 CGCAACGAGA
1636867 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1636900 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1636933 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1636948 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1636965 original size:19 final size:19
Alignment explanation
Indices: 1636943--1637026 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
1636933 GAAACCAAAA
*
1636943 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1636962 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1636976 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1636995 TCGCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
1637014 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1637027 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 40 0.71
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1637026 original size:52 final size:52
Alignment explanation
Indices: 1636943--1637048 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
1636933 GAAACCAAAA
*
1636943 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
1636995 TCGCGTTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1637047 TC
1 TC
1637049 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:1638905 original size:93 final size:93
Alignment explanation
Indices: 1638746--1639121 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
1638736 TAGATTGCTT
* *
1638746 AGTAAATTTATTCGGTTACTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1638811 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1638839 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1638904 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1638932 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1638997 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1639025 AGTAAATTTGTTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1639090 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1639117 AGTAA
1 AGTAA
1639122 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 274 0.98
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1639208 original size:19 final size:19
Alignment explanation
Indices: 1639168--1639296 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1639158 TAGTTTACTT
* *
1639168 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1639188 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1639207 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1639226 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1639240 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1639259 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
1639273 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1639292 TCGCA
1 TCGCA
1639297 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1639247 original size:33 final size:32
Alignment explanation
Indices: 1639204--1639296 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
1639194 CGCGAAACCA
**
1639204 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1639236 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1639269 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1639297 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1639294 original size:52 final size:52
Alignment explanation
Indices: 1639168--1639296 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
1639158 TAGTTTACTT
**
1639168 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
1639220 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
1639273 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
1639297 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:1639314 original size:19 final size:19
Alignment explanation
Indices: 1639292--1639426 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
1639282 GAAACCAAAA
*
1639292 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1639311 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1639327 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1639344 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
1639360 T--CGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1639377 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1639396 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1639416 TCGTGTTGCGA
1 TCGCGTTGCGA
1639427 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 11 0.12
17 11 0.12
19 45 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1639333 original size:14 final size:14
Alignment explanation
Indices: 1639314--1639366 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
1639304 TTTCATTTCG
1639314 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1639328 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1639345 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1639361 CGTTGC
1 CGTTGC
1639367 AATTTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 12 0.36
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1639339 original size:33 final size:33
Alignment explanation
Indices: 1639297--1639389 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1639287 CAAAATCGCA
*
1639297 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1639330 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1639363 TTGCAATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1639390 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1641368 original size:14 final size:14
Alignment explanation
Indices: 1641349--1641384 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1641339 ATTGTTTAAT
1641349 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1641363 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1641377 TGATTTGT
1 TGATTTGT
1641385 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1641506 original size:19 final size:19
Alignment explanation
Indices: 1641482--1641571 Score: 127
Period size: 19 Copynumber: 4.9 Consensus size: 19
1641472 GTTGAAGGCA
1641482 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1641501 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
1641518 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1641534 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
1641553 GGAAATGAAAATCGCAATG
1 -GAAATGAAAATCGCAATG
1641572 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.46
20 18 0.29
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:1641601 original size:53 final size:53
Alignment explanation
Indices: 1641482--1641587 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
1641472 GTTGAAGGCA
1641482 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
1641534 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1641587 G
1 G
1641588 TTTATAATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 19 0.37
53 33 0.63
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.14
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:1641631 original size:33 final size:33
Alignment explanation
Indices: 1641594--1641746 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
1641584 TGCGTTTATA
1641594 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1641627 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
1641667 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1641698 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1641731 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
1641747 TTCATTTCGC
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 52 0.54
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:1641640 original size:19 final size:19
Alignment explanation
Indices: 1641616--1641832 Score: 249
Period size: 19 Copynumber: 12.4 Consensus size: 19
1641606 GATTCTCTCG
1641616 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1641635 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1641654 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1641668 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1641687 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1641706 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1641720 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1641739 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1641758 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1641772 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1641792 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
1641806 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1641825 TTGCGATT
1 TTGCGATT
1641833 CTCTCGTTGC
Statistics
Matches: 169, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 29 0.17
16 23 0.14
17 20 0.12
18 3 0.02
19 82 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1641651 original size:52 final size:52
Alignment explanation
Indices: 1641594--1641804 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
1641584 TGCGTTTATA
1641594 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1641646 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1641698 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1641750 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1641803 AT
1 AT
1641805 GTTGGGATTT
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 141 0.89
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1641854 original size:33 final size:33
Alignment explanation
Indices: 1641635--1641846 Score: 234
Period size: 33 Copynumber: 6.2 Consensus size: 33
1641625 TCATTTCGCA
1641635 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1641668 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
1641704 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
1641739 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
1641772 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
1641806 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1641839 TTGCGATT
1 TTGCGATT
1641847 GTAATTTCCG
Statistics
Matches: 149, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 73 0.49
34 29 0.19
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:1644145 original size:12 final size:12
Alignment explanation
Indices: 1644128--1644152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1644118 TCTTCGGGGA
1644128 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1644140 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1644152 C
1 C
1644153 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1644361 original size:24 final size:24
Alignment explanation
Indices: 1644327--1644373 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1644317 CTGAAACATC
1644327 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1644351 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1644374 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1645084 original size:20 final size:20
Alignment explanation
Indices: 1645056--1645285 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
1645046 AAATTTCAGT
* * *
1645056 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1645076 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1645096 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1645116 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1645136 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1645156 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1645176 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1645196 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1645216 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1645236 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1645256 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1645276 GTTGCGATTT
1 GTTGCGATTT
1645286 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1645302 original size:21 final size:21
Alignment explanation
Indices: 1645272--1645354 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1645262 ATTTTCATAT
*
1645272 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1645293 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1645314 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1645335 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1645355 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1645345 original size:42 final size:43
Alignment explanation
Indices: 1645252--1645350 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1645242 ATTTATGTGT
* *
1645252 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1645293 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1645335 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1645351 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1646932 original size:2 final size:2
Alignment explanation
Indices: 1646925--1646980 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1646915 TATAAGATTA
1646925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1646967 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1646981 TATTTTCTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1650884 original size:23 final size:23
Alignment explanation
Indices: 1650841--1650884 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1650831 TGACACATCT
*
1650841 TCTGTCATTATGACATATTTTTC
1 TCTGTCATTATGACACATTTTTC
* *
1650864 TCTGTCTTTATGACACGTTTT
1 TCTGTCATTATGACACATTTT
1650885 CGGTCGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (23 bp):
TCTGTCATTATGACACATTTTTC
Found at i:1652378 original size:54 final size:55
Alignment explanation
Indices: 1652241--1652378 Score: 171
Period size: 50 Copynumber: 2.6 Consensus size: 55
1652231 AATTGTATGA
* * *
1652241 GTGTATCGGTACATTGAGGAGTGTATCAATACACTCAAAACATCAAATGTCATTT
1 GTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCAAATGTCATTT
* * *
1652296 GTGTATC----CACTAAGGAGTGTATCGATACCCTC-GAACATCGAATG-CAATTT
1 GTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCAAATGTC-ATTT
1652346 GTGTATCGGTACACTGAGGAGTGTATCGATACC
1 GTGTATCGGTACACTGAGGAGTGTATCGATACC
1652379 TTCAGTTATG
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
49 1 0.01
50 21 0.30
51 21 0.30
54 21 0.30
55 7 0.10
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (55 bp):
GTGTATCGGTACACTGAGGAGTGTATCGATACCCTCAAAACATCAAATGTCATTT
Found at i:1658700 original size:22 final size:22
Alignment explanation
Indices: 1658672--1658729 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
1658662 GGGTCTACGC
1658672 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACATATACAGA
1658694 GGTCCTTCGGGACATATACAGA
1 GGTCCTTCGGGACATATACAGA
*
1658716 GGTCCTTCTGGACA
1 GGTCCTTCGGGACA
1658730 AATTTCACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (22 bp):
GGTCCTTCGGGACATATACAGA
Found at i:1660012 original size:23 final size:22
Alignment explanation
Indices: 1659982--1660067 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 22
1659972 CCGGGACAAA
1659982 TATGTGGCACTTCGATGCAACCC
1 TATGTGGCACTTCGATGCAA-CC
*
1660005 TATGTGGCACTTTGATGCAACC
1 TATGTGGCACTTCGATGCAACC
* *
1660027 TATGTGGTC-CTTCG-GGACAA-T
1 TATGTGG-CACTTCGATG-CAACC
*
1660048 TATGTGGCACTTCGGTGCAA
1 TATGTGGCACTTCGATGCAA
1660068 ATTACAAGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
20 1 0.02
21 16 0.30
22 17 0.31
23 20 0.37
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (22 bp):
TATGTGGCACTTCGATGCAACC
Found at i:1662268 original size:283 final size:283
Alignment explanation
Indices: 1661755--1662270 Score: 900
Period size: 283 Copynumber: 1.8 Consensus size: 283
1661745 AAATAGTCCC
*
1661755 TGTAGTTTATGCATGTTTGTATTTTGAATTCAAATCTTTTTATTTATTTATTTTAATTTGTCCAT
1 TGTAGTTTATGCATGTTTGTATTTCGAATTCAAATC-TTTTATTTATTTATTTTAATTTGTCCAT
*
1661820 GTAATTCTAATTTATTTTAATTTAGTTCCTATCTTTTATTTATTTTTATTATTTGTAATTTTAGC
65 GTAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATTTATTTTTATTATTTGTAATTTTAGC
1661885 ACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAATTTATTTTGTTTTAATTTTGGCATGA
130 ACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAA-TTATTTTGTTTTAATTTTGGCATGA
1661950 TGGTTTGATTATTTATATTTTAGTCCTATTTTTATTTTTATTTTATTTTTTTGCAAGTTGCTTCA
194 TGGTTTGATTATTTATATTTTAGTCCTATTTTTATTTTTATTTTATTTTTTTGCAAGTTGCTTCA
1662015 TTTTAGTCTTAATTAATTTAGTATG
259 TTTTAGTCTTAATTAATTTAGTATG
* *
1662040 TGTAGTTTATTCATGTTTGTATTTCGAATTCGAATC-TTTATTTATTTATTTTAATTTGTCCATG
1 TGTAGTTTATGCATGTTTGTATTTCGAATTCAAATCTTTTATTTATTTATTTTAATTTGTCCATG
1662104 TAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATTTATTTTTATTATTT-TAATTTTAGCA
66 TAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATTTATTTTTATTATTTGTAATTTTAGCA
* *
1662168 CTTAATATTGAAAATGCTTATTTTAGTAACCTGTATAA-T-TTTT-TTTTAATTTTGGCATGATG
131 CTTAATATTGAAAATGCTCATTTTAGTAACATGTATAATTATTTTGTTTTAATTTTGGCATGATG
* *
1662230 GTTTGATTGTTTATGTTTTAGTCCTATTTTTA-TTTTATTTT
196 GTTTGATTATTTATATTTTAGTCCTATTTTTATTTTTATTTT
1662271 TTTGCATGTT
Statistics
Matches: 223, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
277 9 0.04
278 49 0.22
279 4 0.02
280 1 0.00
282 47 0.21
283 80 0.36
285 33 0.15
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.58
Consensus pattern (283 bp):
TGTAGTTTATGCATGTTTGTATTTCGAATTCAAATCTTTTATTTATTTATTTTAATTTGTCCATG
TAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATTTATTTTTATTATTTGTAATTTTAGCA
CTTAATATTGAAAATGCTCATTTTAGTAACATGTATAATTATTTTGTTTTAATTTTGGCATGATG
GTTTGATTATTTATATTTTAGTCCTATTTTTATTTTTATTTTATTTTTTTGCAAGTTGCTTCATT
TTAGTCTTAATTAATTTAGTATG
Found at i:1662377 original size:283 final size:274
Alignment explanation
Indices: 1661795--1662329 Score: 690
Period size: 283 Copynumber: 1.9 Consensus size: 274
1661785 CAAATCTTTT
* * *
1661795 TATTTATTTATTTTAATTTGTCCATGTAATTCTAATTTATTTTAATTTAGTTCCTATCTTTTATT
1 TATTGATTCATTTTAATTTGTCCATGTAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATT
1661860 TATTTTTATTATTTGTAATTTTAGCACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAAT
66 TATTTTTATTATTTGTAATTTTAGCACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAA-
1661925 TTATTTTGTTTTAATTTTGGCATGATGGTTTGATTATTTATATTTTAGTCCTATTTTTATTTTTA
130 TTATTTTGTTTTAATTTTGGCATGATGGTTTGATTATTTATATTTTAGTCC-----TTATTTTTA
* * * * ** *
1661990 TTTTATTTTTTTGCAAGTTGCTTCATTTTAGTCTTAATTAATTTAGTATGTGTAGTTTATTCATG
190 TTTTATTTTTTTGCAAGTTGCTTCATTTTAGTC---ACTAATTTAGTATGTATACTATAAGCATA
** * *
1662055 TTTGTATTTCGAATTCGAATCTT
252 TTTGTAAATCAAATTCGAATCTA
* *
1662078 TATTTATTTATTTTAATTTGTCCATGTAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATT
1 TATTGATTCATTTTAATTTGTCCATGTAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATT
* *
1662143 TATTTTTATTATTT-TAATTTTAGCACTTAATATTGAAAATGCTTATTTTAGTAACCTGTATAA-
66 TATTTTTATTATTTGTAATTTTAGCACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAAT
* *
1662206 T-TTTT-TTTTAATTTTGGCATGATGGTTTGATTGTTTATGTTTTAGTCC-TATTTTTATTTTAT
131 TATTTTGTTTTAATTTTGGCATGATGGTTTGATTATTTATATTTTAGTCCTTATTTTTATTTTAT
* *
1662268 TTTTTTGCATGTTAG-TTCATTTTAGTC-CTAATTTGGTATG-ATACCCTCATAAGCATCATTTG
196 TTTTTTGCAAGTT-GCTTCATTTTAGTCACTAATTTAGTATGTATA--CT-ATAAGCAT-ATTTG
1662330 ACTCAAATCA
Statistics
Matches: 233, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
267 2 0.01
268 11 0.05
269 1 0.00
270 5 0.02
271 4 0.02
272 38 0.16
273 1 0.00
278 41 0.18
279 4 0.02
280 1 0.00
282 47 0.20
283 78 0.33
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (274 bp):
TATTGATTCATTTTAATTTGTCCATGTAATTCTAATTTATTTTAAATTAGTTCCTATCTTTTATT
TATTTTTATTATTTGTAATTTTAGCACTTAATATTGAAAATGCTCATTTTAGTAACATGTATAAT
TATTTTGTTTTAATTTTGGCATGATGGTTTGATTATTTATATTTTAGTCCTTATTTTTATTTTAT
TTTTTTGCAAGTTGCTTCATTTTAGTCACTAATTTAGTATGTATACTATAAGCATATTTGTAAAT
CAAATTCGAATCTA
Found at i:1663832 original size:29 final size:28
Alignment explanation
Indices: 1663780--1663835 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1663770 TTTTTTAAAA
**
1663780 AAAATTAATGTAACTTTTGTTTTTTTTT
1 AAAATTAATGTAACTTTTAATTTTTTTT
*
1663808 AAAATTAATGTAACTTTTAAATTTTTTT
1 AAAATTAATGTAACTTTTAATTTTTTTT
1663836 CACTCAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (28 bp):
AAAATTAATGTAACTTTTAATTTTTTTT
Found at i:1664213 original size:14 final size:16
Alignment explanation
Indices: 1664190--1664231 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1664180 AAAAATAAAA
1664190 ATAAAA-ATATATTA-
1 ATAAAATATATATTAT
1664204 A-AAAATATATATTAT
1 ATAAAATATATATTAT
*
1664219 ATATAATATATAT
1 ATAAAATATATAT
1664232 GTAACATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 1 0.04
16 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATATATATTAT
Found at i:1664436 original size:16 final size:16
Alignment explanation
Indices: 1664415--1664447 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1664405 ATCATACAAC
1664415 ACCTCCTTAATCATCG
1 ACCTCCTTAATCATCG
1664431 ACCTCCTTAATCATCG
1 ACCTCCTTAATCATCG
1664447 A
1 A
1664448 GGACAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.36, G:0.06, T:0.30
Consensus pattern (16 bp):
ACCTCCTTAATCATCG
Found at i:1664952 original size:19 final size:19
Alignment explanation
Indices: 1664910--1664947 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1664900 AATAAAATTT
*
1664910 AAAATTATACTCAAACCCA
1 AAAATTATACACAAACCCA
1664929 AAAATTATACCACAAACCC
1 AAAATTATA-CACAAACCC
1664948 TAAATCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATTATACACAAACCCA
Found at i:1665742 original size:20 final size:21
Alignment explanation
Indices: 1665703--1665742 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1665693 AGTAACTTTC
**
1665703 AATATTAATATTTTTGATAAA
1 AATATTAATATTTTAAATAAA
1665724 AATA-TAATATTTTAAATAA
1 AATATTAATATTTTAAATAA
1665743 TATTTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATTAATATTTTAAATAAA
Found at i:1665744 original size:32 final size:33
Alignment explanation
Indices: 1665708--1665771 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
1665698 CTTTCAATAT
1665708 TAATATTTTTGAT-AAAAATA-T-AATATTTTAAA
1 TAATA-TTTT-ATCAAAAATATTAAATATTTTAAA
1665740 TAATATTTTATCAAAAATATTAAATATTTTAA
1 TAATATTTTATCAAAAATATTAAATATTTTAA
1665772 GTAGACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 2 0.07
31 11 0.38
32 6 0.21
33 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
TAATATTTTATCAAAAATATTAAATATTTTAAA
Found at i:1673777 original size:5 final size:5
Alignment explanation
Indices: 1673764--1673803 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
1673754 GCAATTTTCG
*
1673764 TAAAG TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1673804 GTGAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1674481 original size:37 final size:37
Alignment explanation
Indices: 1674431--1674531 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
1674421 TTCTTCTTAT
* *
1674431 TAGGATTCAAACTCCTAAAAATATGATAGAATTTTGC
1 TAGGATTCAAACTCCTAAAAATATGATAGAATTCTAC
* *
1674468 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATATGATAGAATTCTAC
* * *
1674505 TATGATTTAAACTCCTAAAGATATGAT
1 TAGGATTCAAACTCCTAAAAATATGAT
1674532 CCACAAGCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATATGATAGAATTCTAC
Found at i:1675317 original size:18 final size:18
Alignment explanation
Indices: 1675296--1675351 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
1675286 GTTTTTGGTT
1675296 TTATTTTTTTATATTATA
1 TTATTTTTTTATATTATA
* *
1675314 TTATATTTTCATATTATTA
1 TTATTTTTTTATATTA-TA
*
1675333 TTATTATTGTTATGATTAT
1 TTATT-TTTTTAT-ATTAT
1675352 TATTTTTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 14 0.47
19 6 0.20
20 6 0.20
21 4 0.13
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (18 bp):
TTATTTTTTTATATTATA
Found at i:1675427 original size:16 final size:16
Alignment explanation
Indices: 1675406--1675446 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1675396 ATTTCATTTA
*
1675406 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
1675422 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
1675437 TATT-TTTATT
1 T-TTATTTATT
1675447 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:1675434 original size:25 final size:26
Alignment explanation
Indices: 1675398--1675466 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
1675388 ATATTAATAT
* *
1675398 TTCA-TTTATTTATTTATTTTTCCTT-
1 TTCATTTTTTTTATTTATTTTT-ATTC
*
1675423 TT-ATTTTTTTTACTTATTTTTATTC
1 TTCATTTTTTTTATTTATTTTTATTC
*
1675448 TTCATTTTTTTCATTTATT
1 TTCATTTTTTTTATTTATT
1675467 CATTTTTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 19 0.53
26 14 0.39
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (26 bp):
TTCATTTTTTTTATTTATTTTTATTC
Found at i:1678740 original size:8 final size:8
Alignment explanation
Indices: 1678727--1678762 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
1678717 GAACATTTCA
*
1678727 TGCATTCT
1 TGCATTTT
1678735 TGCA-TTT
1 TGCATTTT
1678742 TGCATTTT
1 TGCATTTT
1678750 TGCATTTT
1 TGCATTTT
1678758 TGCAT
1 TGCAT
1678763 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (8 bp):
TGCATTTT
Found at i:1678747 original size:15 final size:16
Alignment explanation
Indices: 1678727--1678762 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1678717 GAACATTTCA
1678727 TGCATTCTTGCA-TTT
1 TGCATTCTTGCATTTT
*
1678742 TGCATTTTTGCATTTT
1 TGCATTCTTGCATTTT
1678758 TGCAT
1 TGCAT
1678763 CTTCATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (16 bp):
TGCATTCTTGCATTTT
Found at i:1679599 original size:14 final size:14
Alignment explanation
Indices: 1679580--1679612 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1679570 AAAGAAGAAG
*
1679580 AATTCATCTGAAAT
1 AATTCATCCGAAAT
1679594 AATTCATCCGAAAT
1 AATTCATCCGAAAT
1679608 AATTC
1 AATTC
1679613 TATCATGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (14 bp):
AATTCATCCGAAAT
Found at i:1679967 original size:20 final size:19
Alignment explanation
Indices: 1679926--1680013 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 19
1679916 TCCAATCAAG
* *
1679926 AAAAAA-AAGAAAAGAAGTA
1 AAAAAAGAAAAAAAAAAG-A
*
1679945 AAAGAAGAAAAAAAAAAG-
1 AAAAAAGAAAAAAAAAAGA
* *
1679963 AAAAAATAAAAACAAAAGA
1 AAAAAAGAAAAAAAAAAGA
*
1679982 AAAAAAGAAAGAACAAAAA-T
1 AAAAAAGAAA-AA-AAAAAGA
*
1680002 CAAAAAGAAAAA
1 AAAAAAGAAAAA
1680014 GGGACAAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
18 15 0.27
19 16 0.29
20 20 0.36
21 4 0.07
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAAGAAAAAAAAAAGA
Found at i:1679972 original size:26 final size:27
Alignment explanation
Indices: 1679926--1680014 Score: 89
Period size: 26 Copynumber: 3.3 Consensus size: 27
1679916 TCCAATCAAG
1679926 AAAAAAAAGAAAAGAAGTAAAAGA-AGAA
1 AAAAAAAAGAAAAGAAGTAAAA-ACA-AA
1679954 AAAAAAAAGAAAA-AA-TAAAAACAAA
1 AAAAAAAAGAAAAGAAGTAAAAACAAA
*
1679979 AGAAAAAAAG-AAAGAA-CAAAAATCAAA
1 A-AAAAAAAGAAAAGAAGTAAAAA-CAAA
*
1680006 AAGAAAAAG
1 AAAAAAAAG
1680015 GGACAAAAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.13
26 28 0.51
27 7 0.13
28 13 0.24
ACGTcount: A:0.81, C:0.03, G:0.12, T:0.03
Consensus pattern (27 bp):
AAAAAAAAGAAAAGAAGTAAAAACAAA
Found at i:1679992 original size:12 final size:12
Alignment explanation
Indices: 1679935--1680000 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 12
1679925 GAAAAAAAAG
1679935 AAAAG-AAGTAAA
1 AAAAGAAAG-AAA
*
1679947 AGAAGAAA-AAA
1 AAAAGAAAGAAA
*
1679958 AAAAGAAAAAATA
1 AAAAGAAAGAA-A
*
1679971 AAAACAAAAGAAA
1 AAAA-GAAAGAAA
1679984 AAAAGAAAGAACA
1 AAAAGAAAGAA-A
1679997 AAAA
1 AAAA
1680001 TCAAAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
11 10 0.23
12 12 0.27
13 17 0.39
14 5 0.11
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:1680007 original size:46 final size:44
Alignment explanation
Indices: 1679926--1680013 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 44
1679916 TCCAATCAAG
* *
1679926 AAAAAAAAGAAAAGAAGTAAAAGAAGAAAAAAAAAAGAAAAAATA
1 AAAAAAAAGAAAAAAAG-AAAAGAACAAAAAAAAAAGAAAAAATA
1679971 AAAACAAAAGAAAAAAAG-AAAGAACAAAAATCAAAAAGAAAAA
1 AAAA-AAAAGAAAAAAAGAAAAGAACAAAAA--AAAAAGAAAAA
1680014 GGGACAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
44 11 0.29
45 4 0.11
46 23 0.61
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.03
Consensus pattern (44 bp):
AAAAAAAAGAAAAAAAGAAAAGAACAAAAAAAAAAGAAAAAATA
Found at i:1680652 original size:22 final size:21
Alignment explanation
Indices: 1680619--1680670 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 21
1680609 GCTACCCCAT
1680619 CAAACCGTTGAGCATCAAATGC
1 CAAACC-TTGAGCATCAAATGC
1680641 CAAACCTATGAGCATCAAATGC
1 CAAACCT-TGAGCATCAAATGC
1680663 CAAACCTT
1 CAAACCTT
1680671 TGACCAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.19
Consensus pattern (21 bp):
CAAACCTTGAGCATCAAATGC
Found at i:1681123 original size:18 final size:18
Alignment explanation
Indices: 1681088--1681123 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1681078 TCAACATCAA
**
1681088 ATATTGGGGCATTTTTTG
1 ATATTGGGGCATCATTTG
1681106 ATATTGGGGCATCATTTG
1 ATATTGGGGCATCATTTG
1681124 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.28, T:0.44
Consensus pattern (18 bp):
ATATTGGGGCATCATTTG
Found at i:1681454 original size:106 final size:106
Alignment explanation
Indices: 1681269--1682425 Score: 1893
Period size: 106 Copynumber: 10.9 Consensus size: 106
1681259 CTTTTAGAGT
* *
1681269 CAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
1681334 AATTCAACTTCACAGCGAAGGATATTAGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1681375 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCAATTTCAAAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1681440 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1681481 CAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
**
1681546 ATTTCAACTTCACATTGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
1681587 CAAGTTCAACTTTACGACGAAGGGACCGCTAGTTGTCAATAAATAATTTCCCAATTTTAAAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
1681652 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
1681693 CAAGTTCAAATTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGACA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
1681758 ATTTCAACTTCACAGCAAAGGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1681799 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1681864 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1681905 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAATTTCCTAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1681970 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1682011 CAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
*
1682076 ATTTCAACTTCAAAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1682117 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
*
1682182 ATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
1682223 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
* *
1682288 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * ** *
1682329 CAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCC
* *
1682393 AATTTCAACTTCACAACGGAGGATATTGGACTC
65 AATTTCAACTTCACAGCGAAGGATATTGGACTC
1682426 AGAACAATGC
Statistics
Matches: 990, Mismatches: 60, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
105 2 0.00
106 988 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:1683206 original size:36 final size:37
Alignment explanation
Indices: 1683159--1683258 Score: 139
Period size: 36 Copynumber: 2.7 Consensus size: 37
1683149 TTCGTCCTAT
*
1683159 TAGGATTCAAACTCCTAAAAATAGGATAAAATT-TTC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* *
1683195 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* * *
1683232 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
1683259 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 31 0.54
37 26 0.46
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
Found at i:1684048 original size:18 final size:19
Alignment explanation
Indices: 1684027--1684142 Score: 59
Period size: 18 Copynumber: 6.2 Consensus size: 19
1684017 TGGTTTTGTT
*
1684027 TTTTTATATTA-TATTATA
1 TTTTCATATTATTATTATA
1684045 TTTTCATATTATTATTATTA
1 TTTTCATATTATTATTA-TA
** **
1684065 TTATTGTTACGATTATTAT-
1 TT-TTCATATTATTATTATA
*
1684084 TTTTC-TATT-TTACTCAT-
1 TTTTCATATTATTA-TTATA
*
1684101 TTAT-ATATATATATATTATA
1 TTTTCATAT-TAT-TATTATA
1684121 TTTTCAT-TTATTTATT-TA
1 TTTTCATATTA-TTATTATA
1684139 TTTT
1 TTTT
1684143 TCCTTTTATT
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.04
17 11 0.15
18 19 0.25
19 17 0.23
20 12 0.16
21 13 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTCATATTATTATTATA
Found at i:1684158 original size:24 final size:24
Alignment explanation
Indices: 1684119--1684189 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
1684109 ATATATATTA
*
1684119 TATTTTCATTTATTTATTTATTTT
1 TATTTTCATTTTTTTATTTATTTT
* *
1684143 TCCTTTT-ATTTTTTTACTTATTTT
1 T-ATTTTCATTTTTTTATTTATTTT
*
1684167 TATTCTTCATTTTTTCATTTATT
1 TATT-TTCATTTTTTTATTTATT
1684190 CATTTTTTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 19 0.50
25 17 0.45
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (24 bp):
TATTTTCATTTTTTTATTTATTTT
Found at i:1684749 original size:31 final size:31
Alignment explanation
Indices: 1684713--1684771 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1684703 AACTTAAAAG
* *
1684713 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1684744 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1684772 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1684822 original size:22 final size:22
Alignment explanation
Indices: 1684796--1684838 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1684786 AAATAAATTA
1684796 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1684818 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1684839 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1684847 original size:22 final size:22
Alignment explanation
Indices: 1684798--1684846 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1684788 ATAAATTATT
**
1684798 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1684820 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1684843 TAAA
1 TAAA
1684847 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1684849 original size:54 final size:54
Alignment explanation
Indices: 1684787--1685349 Score: 564
Period size: 54 Copynumber: 10.4 Consensus size: 54
1684777 CAACTACAAA
1684787 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
* * ** *
1684841 AATAAATTATTTAAAATAAATCAATCGATACAACTACAATAATAAATCAATCCATATTTT
1 AATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT
* * ** * * * **
1684901 AAAATAAATCAATCCATACAAAT-AA--AATA-TTTAAAATAAATCAATTTATACT
1 --AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
*
1684953 AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
* * *
1685007 AATAAATTATTTAAAATAAAGCAATCCATAATTTAAAATAAATCAATCCATACA
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
*
1685061 AATAAATTATTTAAAATAAATCAATCCCTATTTTAAAATAAATCAATCCATACT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
* ** *
1685115 AATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
1 AATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT
* * * * *
1685175 AAAATAAATCAATTGATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC-
1 --AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
* * *
1685226 AACTACA--A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATACA
1 AA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
*
1685275 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCCATACT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
1685329 AATAAATTATTTAAAATAAAT
1 AATAAATTATTTAAAATAAAT
1685350 TATTTTAAAA
Statistics
Matches: 420, Mismatches: 55, Indels: 68
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.01
48 25 0.06
49 4 0.01
50 19 0.05
51 2 0.00
52 2 0.00
53 3 0.01
54 265 0.63
55 6 0.01
56 2 0.00
57 8 0.02
58 32 0.08
59 3 0.01
60 2 0.00
61 2 0.00
62 28 0.07
63 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (54 bp):
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACT
Found at i:1684858 original size:32 final size:31
Alignment explanation
Indices: 1684818--1685225 Score: 246
Period size: 32 Copynumber: 14.7 Consensus size: 31
1684808 CAATCCATAT
1684818 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
* *
1684850 TTTAAAATAAATCAATCGATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1684880 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1684898 TTTAAAATAAATCAATCCATACAAATAAAATA
1 TTTAAAATAAATCAATCCATACTAAT-AAATA
**
1684930 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1684962 TTTAAAATAAATC-A---AT-CT-AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
1684984 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1685016 TTTAAAATAAAGCAAT-C---C--AT--A-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1685038 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1685070 TTTAAAATAAATCAATCC---C---T--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
1685092 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1685124 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1685154 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
**
1685172 TTTAAAATAAATCAATTGATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1685204 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1685226 AACTACAATA
Statistics
Matches: 299, Mismatches: 14, Indels: 126
0.68 0.03 0.29
Matches are distributed among these distances:
20 2 0.01
22 73 0.24
23 6 0.02
24 7 0.02
25 2 0.01
26 37 0.12
27 4 0.01
28 10 0.03
29 1 0.00
30 5 0.02
31 11 0.04
32 141 0.47
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:1684973 original size:14 final size:14
Alignment explanation
Indices: 1684920--1684973 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1684910 CAATCCATAC
*
1684920 AAATAAAATATTTA
1 AAATAAATTATTTA
*
1684934 AAATAAATCAATTTA
1 AAATAAAT-TATTTA
1684949 TACTAATAAATTATTTA
1 -A--AATAAATTATTTA
1684966 AAATAAAT
1 AAATAAAT
1684974 CAATCTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 14 0.42
15 5 0.15
16 2 0.06
17 5 0.15
18 7 0.21
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1685013 original size:22 final size:22
Alignment explanation
Indices: 1684964--1685012 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1684954 ATAAATTATT
* **
1684964 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
1684986 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1685009 TAAA
1 TAAA
1685013 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1685042 original size:22 final size:22
Alignment explanation
Indices: 1685015--1685058 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1685005 CTAATAAATT
1685015 ATTTAAAATAAAGCAATCCATA
1 ATTTAAAATAAAGCAATCCATA
*
1685037 ATTTAAAATAAATCAATCCATA
1 ATTTAAAATAAAGCAATCCATA
1685059 CAAATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (22 bp):
ATTTAAAATAAAGCAATCCATA
Found at i:1685067 original size:22 final size:22
Alignment explanation
Indices: 1685018--1685066 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1685008 ATAAATTATT
**
1685018 TAAAATAAAGCAATCCATAATT
1 TAAAATAAAGCAATCCATAAAA
*
1685040 TAAAATAAATCAATCCATACAAA
1 TAAAATAAAGCAATCCATA-AAA
1685063 TAAA
1 TAAA
1685067 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAATAAAGCAATCCATAAAA
Found at i:1685121 original size:22 final size:22
Alignment explanation
Indices: 1685072--1685120 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1685062 ATAAATTATT
* **
1685072 TAAAATAAATCAATCCCTATTT
1 TAAAATAAATCAATCCATATAA
1685094 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1685117 TAAA
1 TAAA
1685121 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Done.