Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, 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: 9139585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 37885 characters in sequence are not A, C, G, or T
File 17 of 19
Found at i:7643970 original size:17 final size:15
Alignment explanation
Indices: 7643939--7643987 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
7643929 TATTAATATA
*
7643939 ATTTTATTTTAATTT
1 ATTTTATTTTTATTT
7643954 CATTTTACTTTTTATTT
1 -ATTTTA-TTTTTATTT
7643971 ATTTTTATTTTTTATTT
1 A-TTTTA-TTTTTATTT
7643988 GTAAATTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTATTTTTATTT
Found at i:7646196 original size:6 final size:6
Alignment explanation
Indices: 7646185--7646209 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7646175 TAAATGAGTT
7646185 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
7646210 AAACTTTTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:7647173 original size:3 final size:3
Alignment explanation
Indices: 7647165--7647197 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
7647155 TGCCAATGTT
7647165 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7647198 AAAAGCTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7660140 original size:10 final size:10
Alignment explanation
Indices: 7660124--7660154 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7660114 ATCAAAATAA
7660124 ATTTAATTAT
1 ATTTAATTAT
*
7660134 TTTTAATTAT
1 ATTTAATTAT
7660144 ATTTAATTAT
1 ATTTAATTAT
7660154 A
1 A
7660155 ACTTGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTTAATTAT
Found at i:7660785 original size:28 final size:27
Alignment explanation
Indices: 7660712--7660786 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 27
7660702 AGGTATTGAA
*
7660712 GTGTAATAAAATATTTTTGAATATGAC
1 GTGTAATAAAATATTTTTGAACATGAC
*
7660739 GTGTAACAATAATATTTTTGAAACATGAC
1 GTGTAATAA-AATATTTTTG-AACATGAC
*
7660768 GTGTAATAACAGTATTTTT
1 GTGTAATAA-AATATTTTT
7660787 TTTACAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 8 0.20
28 10 0.24
29 23 0.56
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.40
Consensus pattern (27 bp):
GTGTAATAAAATATTTTTGAACATGAC
Found at i:7661030 original size:45 final size:45
Alignment explanation
Indices: 7660981--7661392 Score: 231
Period size: 45 Copynumber: 9.0 Consensus size: 45
7660971 GTATAGGACA
* * *
7660981 TGTAACAACTTAAACATAGCGTATAACATGTTTTTGTACATGGTG
1 TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGCG
* * *
7661026 TGTAACAACCTAACCAT-G-GTACGTCACATGTTTTTGTACATAGCA
1 TGTAACAACCTAACCATAGCGTA--TAACATGTTTTTGTACATGGCG
* * * * * *
7661071 TATAACAACCTAACCATAACGTGTAACATATTTCTATACATGGCG
1 TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGCG
* * * * *
7661116 TGTAACAACCTAACCAT-GACATGTTACAAGTTTTTGTACATGACG
1 TGTAACAACCTAACCATAG-CGTATAACATGTTTTTGTACATGGCG
* * * * * * *
7661161 TATAACAACCTAACCATAACGTGTAACATGCTTCTATACATGGCA
1 TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGCG
* * ** * ** *
7661206 TATAACATCATGGCATGTTAA-GTTAGGCGTGTAACATGTTTTTGTACATAACA
1 TGTAACA--A---C---CTAACCATA-GCGTATAACATGTTTTTGTACATGGCG
* * * **
7661259 TGTAACAACCTAACCATAGCATGTAACATGTTTCTGTACATAACG
1 TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGCG
* * * * * *
7661304 TGTAACAATCTAAGCAT-GACATATCACATGTTTTTATACATAGCG
1 TGTAACAACCTAACCATAG-CGTATAACATGTTTTTGTACATGGCG
* * * * * *
7661349 TATAACAACCTAACCGTAACGTGTAACATGTTTTTATATATGGC
1 TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGC
7661393 ATATAACATC
Statistics
Matches: 282, Mismatches: 67, Indels: 36
0.73 0.17 0.09
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 237 0.84
46 2 0.01
47 3 0.01
48 1 0.00
50 1 0.00
51 1 0.00
52 2 0.01
53 30 0.11
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (45 bp):
TGTAACAACCTAACCATAGCGTATAACATGTTTTTGTACATGGCG
Found at i:7661111 original size:90 final size:90
Alignment explanation
Indices: 7660906--7661392 Score: 358
Period size: 90 Copynumber: 5.3 Consensus size: 90
7660896 TTTTTTTTAA
* * ** * ** *
7660906 CATAACGTGTAATATGTTTTTATACATGATGTGTATCAATTTAACC-CGG-ACGTGTCACAT-TT
1 CATAACGTGTAACATGTTTCTATACATGGCGTGTAACAACCTAACCATGGCAC--GTCACATGTT
* * *
7660968 TTTGT--ATAGGACATGTAACAACTTAAA
64 TTTGTACATA-G-CATATAACAACCTAAC
* * * * * *
7660995 CATAGCGTATAACATGTTTTTGTACATGGTGTGTAACAACCTAACCATGGTACGTCACATGTTTT
1 CATAACGTGTAACATGTTTCTATACATGGCGTGTAACAACCTAACCATGGCACGTCACATGTTTT
7661060 TGTACATAGCATATAACAACCTAAC
66 TGTACATAGCATATAACAACCTAAC
* * * * *
7661085 CATAACGTGTAACATATTTCTATACATGGCGTGTAACAACCTAACCATGACATGTTACAAGTTTT
1 CATAACGTGTAACATGTTTCTATACATGGCGTGTAACAACCTAACCATGGCACGTCACATGTTTT
*
7661150 TGTACAT-GACGTATAACAACCTAAC
66 TGTACATAG-CATATAACAACCTAAC
* * * * ** ** *
7661175 CATAACGTGTAACATGCTTCTATACATGGCATATAACATCATGGCATGTTAA-GTTAGGCGTGTA
1 CATAACGTGTAACATGTTTCTATACATGGCGTGTAACA--A---C---CTAACCAT-GGCACGTC
* *
7661239 ACATGTTTTTGTACATAACATGTAACAACCTAAC
57 ACATGTTTTTGTACATAGCATATAACAACCTAAC
* * * ** * * * **
7661273 CATAGCATGTAACATGTTTCTGTACATAACGTGTAACAATCTAAGCATGACATATCACATGTTTT
1 CATAACGTGTAACATGTTTCTATACATGGCGTGTAACAACCTAACCATGGCACGTCACATGTTTT
* *
7661338 TATACATAGCGTATAACAACCTAAC
66 TGTACATAGCATATAACAACCTAAC
* * *
7661363 CGTAACGTGTAACATGTTTTTATATATGGC
1 CATAACGTGTAACATGTTTCTATACATGGC
7661393 ATATAACATC
Statistics
Matches: 315, Mismatches: 66, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
89 46 0.15
90 191 0.61
91 4 0.01
92 4 0.01
95 1 0.00
96 1 0.00
97 1 0.00
98 67 0.21
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (90 bp):
CATAACGTGTAACATGTTTCTATACATGGCGTGTAACAACCTAACCATGGCACGTCACATGTTTT
TGTACATAGCATATAACAACCTAAC
Found at i:7661272 original size:188 final size:188
Alignment explanation
Indices: 7661051--7661405 Score: 532
Period size: 188 Copynumber: 1.9 Consensus size: 188
7661041 ATGGTACGTC
* * **
7661051 ACATGTTTTTGTACATAGCATATAACAACCTAACCATAACGTGTAACATATTTCTATACATGGCG
1 ACATGTTTTTGTACATAACATATAACAACCTAACCATAACATGTAACATATTTCTATACATAACG
* * *
7661116 TGTAACAACCTAACCATGACATGTTACAAGTTTTTGTACAT-GACGTATAACAACCTAACCATAA
66 TGTAACAACCTAACCATGACATATCACAAGTTTTTATACATAG-CGTATAACAACCTAACCATAA
7661180 CGTGTAACATGCTTCTATACATGGCATATAACATCATGGCATGTTAAGTTAGGCGTGTA
130 CGTGTAACATGCTTCTATACATGGCATATAACATCATGGCATGTTAAGTTAGGCGTGTA
* * * *
7661239 ACATGTTTTTGTACATAACATGTAACAACCTAACCATAGCATGTAACATGTTTCTGTACATAACG
1 ACATGTTTTTGTACATAACATATAACAACCTAACCATAACATGTAACATATTTCTATACATAACG
* * * *
7661304 TGTAACAATCTAAGCATGACATATCACATGTTTTTATACATAGCGTATAACAACCTAACCGTAAC
66 TGTAACAACCTAACCATGACATATCACAAGTTTTTATACATAGCGTATAACAACCTAACCATAAC
* * *
7661369 GTGTAACATGTTTTTATATATGGCATATAACATCATG
131 GTGTAACATGCTTCTATACATGGCATATAACATCATG
7661406 ACGTGTACTT
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
188 147 0.99
189 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (188 bp):
ACATGTTTTTGTACATAACATATAACAACCTAACCATAACATGTAACATATTTCTATACATAACG
TGTAACAACCTAACCATGACATATCACAAGTTTTTATACATAGCGTATAACAACCTAACCATAAC
GTGTAACATGCTTCTATACATGGCATATAACATCATGGCATGTTAAGTTAGGCGTGTA
Found at i:7673420 original size:12 final size:12
Alignment explanation
Indices: 7673403--7673427 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7673393 TGAAGTATGA
7673403 TCAAATTCATTT
1 TCAAATTCATTT
7673415 TCAAATTCATTT
1 TCAAATTCATTT
7673427 T
1 T
7673428 AAGGGTTTTC
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCAAATTCATTT
Found at i:7685181 original size:18 final size:18
Alignment explanation
Indices: 7685158--7685194 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7685148 GAGGATGAGC
7685158 AAGCGGA-GACGGCGAAGA
1 AAGCGGAGGA-GGCGAAGA
7685176 AAGCGGAGGAGGCGAAGA
1 AAGCGGAGGAGGCGAAGA
7685194 A
1 A
7685195 GAGGCAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.41, C:0.14, G:0.46, T:0.00
Consensus pattern (18 bp):
AAGCGGAGGAGGCGAAGA
Found at i:7686198 original size:37 final size:37
Alignment explanation
Indices: 7686157--7686268 Score: 224
Period size: 37 Copynumber: 3.0 Consensus size: 37
7686147 TTTTCCTTTC
7686157 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
1 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
7686194 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
1 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
7686231 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
1 TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
7686268 T
1 T
7686269 TGTGACTTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (37 bp):
TCTCAAGGATTAGCGAAGATCGATACATGATGTGCAT
Found at i:7700407 original size:54 final size:54
Alignment explanation
Indices: 7700343--7700446 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
7700333 GTTCGAGGCA
* * * *
7700343 GGACAGATTGAGGGCAATGGTGCAGTCAAGATCCAACCAAGTGTTGATGGCTCG
1 GGACAGATTGAGGGAAATGGCGCAGTCAAGAACCAACCAAGTGTGGATGGCTCG
* * * *
7700397 GGACAGATTGATGGAAATGGCGCTGTGAAGAACCAATCAAGTGTGGATGG
1 GGACAGATTGAGGGAAATGGCGCAGTCAAGAACCAACCAAGTGTGGATGG
7700447 TTCATGAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.35, T:0.20
Consensus pattern (54 bp):
GGACAGATTGAGGGAAATGGCGCAGTCAAGAACCAACCAAGTGTGGATGGCTCG
Found at i:7712546 original size:30 final size:29
Alignment explanation
Indices: 7712484--7712559 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
7712474 AAAAAAAATT
* *
7712484 TTAAATAAA-TTGTATTATTTTTTATTTCA
1 TTAAATAAATTTTTA-TATTTTTTATTTAA
*
7712513 TTAAATCAAGTTTTTATATTTTATT-TTTAA
1 TTAAAT-AAATTTTTATATTTT-TTATTTAA
7712543 TTAAATAAATTTTTATA
1 TTAAATAAATTTTTATA
7712560 ATTAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 16 0.40
30 18 0.45
31 6 0.15
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTAAATAAATTTTTATATTTTTTATTTAA
Found at i:7712556 original size:29 final size:28
Alignment explanation
Indices: 7712484--7712559 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
7712474 AAAAAAAATT
*
7712484 TTAAATAAATTGTATTAT-TTTTTATTTCA
1 TTAAATAAATT-T-TTATATTTTTATTTAA
* *
7712513 TTAAATCAAGTTTTTATATTTTATTTTTAA
1 TTAAAT-AAATTTTTATATTTT-TATTTAA
7712543 TTAAATAAATTTTTATA
1 TTAAATAAATTTTTATA
7712560 ATTAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.10
29 21 0.52
30 15 0.38
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTAAATAAATTTTTATATTTTTATTTAA
Found at i:7712571 original size:29 final size:30
Alignment explanation
Indices: 7712512--7712571 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
7712502 TTTTTATTTC
* * * *
7712512 ATTAAATCAAGTTTTTATATTTTATTTTTA
1 ATTAAATCAAATTTTTATAATTAATTATTA
7712542 ATTAAAT-AAATTTTTATAATTAATTATTA
1 ATTAAATCAAATTTTTATAATTAATTATTA
7712571 A
1 A
7712572 AATATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
ATTAAATCAAATTTTTATAATTAATTATTA
Found at i:7712767 original size:22 final size:21
Alignment explanation
Indices: 7712742--7712817 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 21
7712732 GGTATAAAAT
7712742 ATAAATAATATTTTAATTAATA
1 ATAAATAATATTTTAATTAA-A
7712764 AT-AATAA-ATTATTTAATTTAAA
1 ATAAATAATA-T-TTTAA-TTAAA
*
7712786 ATAAA-AATA-CTTAATTAAA
1 ATAAATAATATTTTAATTAAA
*
7712805 CAT-AATAAAATTT
1 -ATAAATAATATTT
7712818 ATTTAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 17
0.68 0.05 0.27
Matches are distributed among these distances:
19 7 0.16
20 10 0.23
21 7 0.16
22 12 0.28
23 7 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAATAATATTTTAATTAAA
Found at i:7712770 original size:25 final size:24
Alignment explanation
Indices: 7712742--7712813 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 24
7712732 GGTATAAAAT
7712742 ATAAATAATATTTTAATTAATAATA
1 ATAAATAATA-TTTAATTAATAATA
7712767 ATAAAT--TATTTAATT--TAA-A
1 ATAAATAATATTTAATTAATAATA
*
7712786 ATAAA-AATACTTAATTAA-ACATA
1 ATAAATAATATTTAATTAATA-ATA
7712809 ATAAA
1 ATAAA
7712814 ATTTATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
19 6 0.15
20 11 0.28
21 1 0.03
22 8 0.20
23 8 0.20
25 6 0.15
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAATAATATTTAATTAATAATA
Found at i:7712809 original size:20 final size:21
Alignment explanation
Indices: 7712754--7712813 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
7712744 AAATAATATT
*
7712754 TTAATTAATAATAATAAATTAT
1 TTAATTAA-AATAATAAATTAC
7712776 TTAATTTAAAATAA-AAA-TAC
1 TTAA-TTAAAATAATAAATTAC
7712796 TTAATTAAACATAATAAA
1 TTAATTAAA-ATAATAAA
7712814 ATTTATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 5 0.15
20 10 0.29
21 6 0.18
22 9 0.26
23 4 0.12
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAATTAAAATAATAAATTAC
Found at i:7712823 original size:20 final size:20
Alignment explanation
Indices: 7712748--7712823 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
7712738 AAATATAAAT
*
7712748 AATATTTTAATTAATAATAATA
1 AATA-TTTATTTAA-AATAATA
7712770 AATTATTTAATTTAAAATAA-A
1 AA-TATTT-ATTTAAAATAATA
* *
7712791 AATACTTAATTAAACATAATA
1 AATATTTATTTAAA-ATAATA
7712812 AA-ATTTATTTAA
1 AATATTTATTTAA
7712824 TTTTTTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 6 0.13
20 16 0.36
21 6 0.13
22 10 0.22
23 7 0.16
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATTTATTTAAAATAATA
Found at i:7729191 original size:33 final size:33
Alignment explanation
Indices: 7729126--7729191 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
7729116 TAGCTGGACA
** *
7729126 GCTAGAAGCGTCCATTTCCGTAGCTATGATAAT
1 GCTAGAAGCGTCCATTTCCAAAGCTATCATAAT
7729159 GCTAGAAGCGTCCATTTCCAAAGGC-ATCATAAT
1 GCTAGAAGCGTCCATTTCCAAA-GCTATCATAAT
7729192 CATGCCGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (33 bp):
GCTAGAAGCGTCCATTTCCAAAGCTATCATAAT
Found at i:7729815 original size:21 final size:20
Alignment explanation
Indices: 7729774--7729815 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
7729764 GATAAATAGG
*
7729774 TTACTAAATTTATTATTATT
1 TTACTAAATTTATTATGATT
7729794 TTACTTAAATTATATT-TGATT
1 TTAC-TAAATT-TATTATGATT
7729815 T
1 T
7729816 ATAATTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (20 bp):
TTACTAAATTTATTATGATT
Found at i:7744252 original size:11 final size:11
Alignment explanation
Indices: 7744236--7744260 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7744226 GTTCCATAAT
7744236 TAAGTAGCAAA
1 TAAGTAGCAAA
7744247 TAAGTAGCAAA
1 TAAGTAGCAAA
7744258 TAA
1 TAA
7744261 AATCTAGCTA
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:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (11 bp):
TAAGTAGCAAA
Found at i:7750766 original size:43 final size:43
Alignment explanation
Indices: 7750718--7750804 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
7750708 AACTACTACA
* *
7750718 TTACTGGTAGTTTTAGCTAATGCTGGGTAAATGATAGCCGCAC
1 TTACTGGTAGTTTTAGCTAATGCTAGGTAAATGATAGCCACAC
*
7750761 TTACTGGTAGTTTTAGCTAATGCTAGGTAAGTGATAGCCACAC
1 TTACTGGTAGTTTTAGCTAATGCTAGGTAAATGATAGCCACAC
7750804 T
1 T
7750805 ATCGTGGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TTACTGGTAGTTTTAGCTAATGCTAGGTAAATGATAGCCACAC
Found at i:7750953 original size:2 final size:2
Alignment explanation
Indices: 7750946--7750985 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7750936 TTACACGTGA
7750946 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
7750986 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7765392 original size:245 final size:246
Alignment explanation
Indices: 7764231--7766050 Score: 1577
Period size: 245 Copynumber: 7.4 Consensus size: 246
7764221 CGTAAATTAA
* * * *
7764231 TAAGAATTGACATAAAAA-TTCATAAAGGT-AGAAT-ACTAAATTTAAAATTTTAACATAAATGA
1 TAAGAATTAACGTAAAAACTT-ATAAAGGTGA-AATAACTAAATTT-AAATCTTAACATAAATGT
* * ** * * *
7764293 GTAAAAGTTAATATAACAAGTCAA-T---TAAAAAAATTTAATTTTAATAAAAAATAAATATTTA
63 GTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTT-
* * *
7764354 AATTTATATTCTTGAACTATAAA-TGTTTAACGATATACAAATTTTAATTTTT-AATAAAAATAA
127 AATTTATATT-TTCAAATA-AAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAA
* * * * * * * * *
7764417 TAATAATACTAAAATAATTACA-ATTCAAAATTGACATAAATAAGCCTTAAAGTAAAAATA
190 TAAGAA-A-T-AAA-AATTATATGTTTAAAATTGACATAGATAAGCTTTAACGTAAAACTG
* * * * * **
7764477 TAA-AATTGACGTAAAAACTTATAAAAGTGTAATAACTAAATTTTAAATATTAACGTAAGCGTGT
1 TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAA-TTTAAATCTTAACATAAATGTGT
* * * * **
7764541 GAGAGTTAACAT-ACTATGTTGATTAAGT-AAAAAGT-TAAATTTTAATGAAAAATAAGCATTTA
65 GAGAGTTAACGTAAC-AAGTTAATTAAGTAAAAAAATCT-AATTTTAATGAAAAATAAATATTTA
* * * * * *
7764603 TATTTATATTATCAAGATAAAAGAATGTAACAATATATAAATTTTAAATTTTAAATAAAAATAAT
128 -ATTTATATTTTCAA-ATAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAAT
* *
7764668 AAGGATAA-AAATAATTATAT-TTTAAAATTGACATAAATAAG-TCTTAACAT-AAACTG
191 AA-GA-AATAAA-AATTATATGTTTAAAATTGACATAGATAAGCT-TTAACGTAAAACTG
* * * * *
7764724 TAAAAATTAA-GTAAAAACTTATAAAAGTGAAATACCTAAATTTTAAATTTTAACATAAACGTGT
1 TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAA-TTTAAATCTTAACATAAATGTGT
* * * *
7764788 GAGAGTTAACGTAAGAAATCAATTAAGTAAAAAAATCTAATTTTAGT-AAAAA-AAATATTTAAA
65 GAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTT-AA
* * * *
7764851 TTTATATTTTCATACTACAAGTGTTTAACGATATACAAA-TTTAAATTTT-AATAAAAAATAATA
129 TTTATATTTTCA-AATAAAAGTATTTAACGATATACAAATTTTAATTTTTAAAT-AAAAATAAT-
* * ** * ** * *
7764914 AAGATTAA-AATAATTATA-GTTTAAAATGGACATAGA-AAAATCTTGACAAAAAATTA
191 AAGA--AATAAAAATTATATGTTTAAAATTGACATAGATAAGCT-TTAACGTAAAACTG
* * *
7764970 TAAGAATTGA--TATAAAACTTATAAAGATGAAATAA-T---TTTAAATCTTAACATAAATGTAT
1 TAAGAATTAACGTA-AAAACTTATAAAGGTGAAATAACTAAATTTAAATCTTAACATAAATGTGT
* * * * * *
7765029 AAGAGTTAACATAGCAAGTCAATT-AGTAAAAAAATTTAATTTTACTGAAAAATAAATATTTAAA
65 GAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTT-AA
** * *
7765093 TTTATATTCTTGGAATAAAAGTATTTAACGATATA-TAGTTTTAATTTTTAAATAAAAATAATAA
129 TTTATATT-TTCAAATAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAATAA
*
7765157 GAAATAAAAATTATATGTTTAAAA-TGACATAGATAAGCTTTAAACATAAAACTG
193 GAAATAAAAATTATATGTTTAAAATTGACATAGATAAGCTTT-AACGTAAAACTG
* *
7765211 TAAGAATTAACGTAAAAA-TTATAAAGGTGAAATAACTAAA-TTAAATATTAACGTAAATGTGTG
1 TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAATTTAAATCTTAACATAAATGTGTG
* * * * **
7765274 AGAATTAACGTAATAAGTTAATTAAGTAAAAAAGTCTAATTTTAATGAAAACTAAGCATTT-ATG
66 AGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTTAAT-
* * ** *
7765338 TTATATTATCAAGCTAAAAG-ACTGAAACAATATACAAATTTTAATTTTTAAATAAAAATAATAA
130 TTATATTTTCAA-ATAAAAGTA-TTTAACGATATACAAATTTTAATTTTTAAATAAAAATAATAA
* * * *
7765402 G-GATAAAAATAATATAGTTTAAAATTGACATATATAA-TTCTTAACGTAAAACTG
193 GAAATAAAAATTATAT-GTTTAAAATTGACATAGATAAGCT-TTAACGTAAAACTG
* * * *
7765456 TAAGAATTAACGTAAAATCTTATAAAAGTAAAATAACTAAATTTTAAATCTTAACATAAACGTGT
1 TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAA-TTTAAATCTTAACATAAATGTGT
* *
7765521 GAGAGTTAACGTAACAAATTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA-AAATATTTAAA
65 GAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTT-AA
* *
7765585 TTTATA-TTT-AATATTACAAGTATTTAATGATATACAAATTTTAATTTTTAAAT-AAAA-AATA
129 TTTATATTTTCAA-A-TAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAATA
* ** ** * * *
7765646 AGAATTAAAATAATTATA-GTTTAAAATAAACA-AGA-AATATCTTGACGTAAAATTA
192 AGAAAT-AAA-AATTATATGTTTAAAATTGACATAGATAAGCT-TTAACGTAAAACTG
* * * * *
7765701 AAAGAATTGAA-GTAAAAACTTATAAAGATGAAATAATTAAATTTTAAATCTTAACAAAAATGTA
1 TAAGAATT-AACGTAAAAACTTATAAAGGTGAAATAACTAAA-TTTAAATCTTAACATAAATGTG
* * * *
7765765 TGAGAGTTAACATAGCAAGTTAATT-AGTAAAAAAAAT-TAATTTTATTAAAAAAATAAATATTT
64 TGAGAGTTAACGTAACAAGTTAATTAAGT-AAAAAAATCTAATTTTAAT-GAAAAATAAATATTT
* * *
7765828 AAATTTATATTCTTGAAATAAAAGTATTTAATGATATATAAATTTTAATTTTTAAATAAAAATAA
127 -AATTTATATT-TTCAAATAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAA
* * * * * *
7765893 TAAG-GATAAAAGTAATAATAGTTTAAAATTGATATAGATAAACTTTCACGTAAAACTG
190 TAAGAAATAAAAATTAT-AT-GTTTAAAATTGACATAGATAAGCTTTAACGTAAAACTG
* * * *
7765951 TAAAAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCTTAACGTAAATGTGT
1 TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAA-TTTAAATCTTAACATAAATGTGT
*
7766016 GAGAGTTAACGTAAAAAGTTAATTAAGTAAAAAAA
65 GAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAA
7766051 CGTAAAAAGT
Statistics
Matches: 1292, Mismatches: 201, Indels: 158
0.78 0.12 0.10
Matches are distributed among these distances:
239 2 0.00
240 39 0.03
241 93 0.07
242 61 0.05
243 12 0.01
244 90 0.07
245 282 0.22
246 188 0.15
247 172 0.13
248 149 0.12
249 84 0.07
250 111 0.09
251 8 0.01
252 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (246 bp):
TAAGAATTAACGTAAAAACTTATAAAGGTGAAATAACTAAATTTAAATCTTAACATAAATGTGTG
AGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAATGAAAAATAAATATTTAATT
TATATTTTCAAATAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAAATAATAAGAA
ATAAAAATTATATGTTTAAAATTGACATAGATAAGCTTTAACGTAAAACTG
Found at i:7766018 original size:495 final size:498
Alignment explanation
Indices: 7764210--7767877 Score: 2833
Period size: 493 Copynumber: 7.4 Consensus size: 498
7764200 GTTATGATTA
*
7764210 AAAATCTTTAACGT-AAATTAATAAGAATTGACA-TAAAAA-TTCATAAAGGT-AGAAT-ACTAA
1 AAAATC-TTAACGTAAAATTAA-AAGAATTGA-AGTAAAAACTT-ATAAAGATGA-AATAACTAA
* * * * ** * *
7764270 ATTTAAAATTTTAACATAAATG-AGTAAAAGTTAATATAACAAGTCAA-T---T-AAAAAAATTT
61 ATTTTAAATTTTAACATAAACGTA-TGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCT
*
7764329 AATTTTAATAAAAAATAAATATTTAAATTTATATTCTTGAACTATAAA-TGTTTAACGATATACA
125 AATTTTAATAAAAAATAAATATTTAAATTTATATTCTTCAACTA-AAAGTGTTTAACGATATACA
** * * *
7764393 AATTTTAATTTTT-AATAAAAATAATAATAATACTAAAATAATTACAATTCAAAATTGACATAAA
189 AATTTTAATTTTTAAATAAAAATAATAAGGATA--AAAATAATTATAGTTTAAAATTGACATAAA
* * * * * **
7764457 TAAGC-CTTAAAGTAAAAATAT-AAAATTGACGTAAAAACTTATAAAAGTGTAATAACTAAATTT
252 TAAACTCTTAACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTAAAATAACTAAATTT
* ** * * * *
7764520 TAAATATTAACGTAAGCGTGTGAGAGTTAACAT-ACTATGTTGATTAAGT-AAAAAGT-TAAATT
317 TAAATCTTAACGTAAATGTGTGAGAGTTAACGTAAC-AAGTTAATTAAGTAAAAAAATCT-AATT
* ** * * * * * *
7764582 TTAATGAAAAATAAGCATTTATATTTATATTATCAAGA-TAAAAGAATGTAACAATATATAAATT
380 TTAGTGAAAAA-AAATATTTAAATTTATATTCT-AATATTAAAAGTATTTAACGATATATAAATT
* * * *
7764646 TTAAATTTTAAATAAAAATAATAAGGATAAAAATAATTATATTTTAAAATTGACATA-
443 TTAATTTTTAAAT-AAAATAATAAGAATTAAAATAATTATAGTTTAAAATTGACA-AG
* * *
7764703 AATAAGTCTTAACATAAACTGT-AAA-AATT-AAGTAAAAACTTATAAA-AGTGAAATACCTAAA
1 AA-AA-TCTTAACGTAAAAT-TAAAAGAATTGAAGTAAAAACTTATAAAGA-TGAAATAACTAAA
* * *
7764764 TTTTAAATTTTAACATAAACGTGTGAGAGTTAACGTAAGAAATCAATTAAGT-AAAAAAATCTAA
62 TTTTAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAA
* *
7764828 TTTTAGT-AAAAA-AAATATTTAAATTTATATT-TTCATACTACAAGTGTTTAACGATATACAAA
127 TTTTAATAAAAAATAAATATTTAAATTTATATTCTTCA-ACTAAAAGTGTTTAACGATATACAAA
* * * *
7764890 -TTTAAATTTT-AATAAAAAATAATAAAGATTAAAATAATTATAGTTTAAAATGGACATAGAA-A
191 TTTTAATTTTTAAAT-AAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATA-AATA
* ** * * * **
7764952 AA-TCTTGACAAAAAATTATAAGAATTGA--TATAAAACTTATAAA-G-ATGA-AA-T-AATTTT
254 AACTCTTAACGTAAAACTGTAAAAATTGACGTA-AAAACTTATAAAGGTAAAATAACTAAATTTT
* * * * * * *
7765009 AAATCTTAACATAAATGTATAAGAGTTAACATAGCAAGTCAATT-AGTAAAAAAATTTAATTTTA
318 AAATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTA
* *** * *
7765073 CTGAAAAATAAATATTTAAATTTATATTCTTGGAATAAAAGTATTTAACGATATAT-AGTTTTAA
383 GTGAAAAA-AAATATTTAAATTTATATTCTAATATTAAAAGTATTTAACGATATATAAATTTTAA
*
7765137 TTTTTAAATAAAAATAATAAGAAAT-AAA-AATTATATGTTTAAAA-TGACATAG
447 TTTTTAAAT-AAAATAATAAGAATTAAAATAATTATA-GTTTAAAATTGACA-AG
* * * * ** *
7765189 ATAAGCTTTAAACATAAAACTGTAAGAATT-AACGTAAAAA-TTATAAAGGTGAAATAACTAAA-
1 AAAATC-TT-AACGTAAAATTAAAAGAATTGAA-GTAAAAACTTATAAAGATGAAATAACTAAAT
* * * * * * *
7765251 -TTAAATATTAACGTAAATGTGTGAGAATTAACGTAATAAGTTAATTAAGT-AAAAAAGTCTAAT
63 TTTAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAAT
* * ** * ** ** *
7765314 TTTAATGAAAACTAAGCATTT--ATGTTATATT-ATCAAGCTAAAAGACTGAAACAATATACAAA
128 TTTAATAAAAAATAAATATTTAAAT-TTATATTCTTCAA-CTAAAAGTGTTTAACGATATACAAA
*
7765376 TTTTAATTTTTAAATAAAAATAATAAGGATAAAAATAA-TATAGTTTAAAATTGACATATAT-AA
191 TTTTAATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAAA
* * * * *
7765439 TTCTTAACGTAAAACTGTAAGAATTAACGTAAAATCTTATAAAAGTAAAATAACTAAATTTTAAA
256 CTCTTAACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTAAAATAACTAAATTTTAAA
* * *
7765504 TCTTAACATAAACGTGTGAGAGTTAACGTAACAAATTAATTAAGTAAAAAAATCTAATTTTAGTG
321 TCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAGTG
* * *
7765569 AAAAAAAATATTTAAATTTATATT-TAATATTACAAGTATTTAATGATATACAAATTTTAATTTT
386 AAAAAAAATATTTAAATTTATATTCTAATATTAAAAGTATTTAACGATATATAAATTTTAATTTT
**
7765633 TAAATAAAA-AATAAGAATTAAAATAATTATAGTTTAAAATAAACAAG
451 TAAATAAAATAATAAGAATTAAAATAATTATAGTTTAAAATTGACAAG
* *
7765680 AAATATCTTGACGTAAAATTAAAAGAATTGAAGTAAAAACTTATAAAGATGAAATAATTAAATTT
1 AAA-ATCTTAACGTAAAATTAAAAGAATTGAAGTAAAAACTTATAAAGATGAAATAACTAAATTT
* * * * ** *
7765745 TAAATCTTAACAAAAATGTATGAGAGTTAACATAGCAAGTTAATT-AGTAAAAAAAAT-TAATTT
65 TAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAATTT
* * * * * *
7765808 TATTAAAAAAATAAATATTTAAATTTATATTCTTGAAATAAAAGTATTTAATGATATATAAATTT
130 TAAT-AAAAAATAAATATTTAAATTTATATTCTTCAACTAAAAGTGTTTAACGATATACAAATTT
* * * *
7765873 TAATTTTTAAATAAAAATAATAAGGATAAAAGTAATAATAGTTTAAAATTGATATAGATAAACT-
194 TAATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAAACTC
* **
7765937 TTCACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTGGAATAACTAAATTTTAAATCT
259 TTAACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTAAAATAACTAAATTTTAAATCT
*
7766002 TAACGTAAATGTGTGAGAGTTAACGTAAAAAGTTAATTAAGTAAAAAAA-CGTAAAAAGTTAATT
324 TAACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATC-T---AA-TT--TT
* * *
7766066 AAGT-AAAAAAGTCTAATTTTAATGAAAAATAAGTATCTATATTTATATTATCGACTTGAAAGTA
382 -AGTGAAAAAA----AATATT--T-----A-AA-T-T-TATA-TTCTA--AT--A-TTAAAAGTA
* * *
7766130 TGTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AGATAAAAATAATTATAGTATAA
425 TTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAGA-ATTAAAATAATTATAGTTTAA
7766194 AATTGACAAAG
489 AATTGAC-AAG
* * *
7766205 ATAAATCTTAACGGAAAATTGTAAA-AATTGACA-T-AAAATTTATAAA-A-GTAGAATAACTAA
1 A-AAATCTTAACGTAAAATT-AAAAGAATTGA-AGTAAAAACTTATAAAGATG-A-AATAACTAA
** *
7766265 ATTTTAAATTTTAATGTAAACGTATGAGAGTTAACGTAATAAGTCCATTAAGTAAAAAAAATCTA
61 ATTTTAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTA
* * *
7766330 ATTTTAAGAAAAAA-AAATATTTAAATATATATTCTT-AGACTAAAAGTGTTTAACGATATATAA
126 ATTTTAATAAAAAATAAATATTTAAATTTATATTCTTCA-ACTAAAAGTGTTTAACGATATACAA
* *
7766393 ATTTTATTTTTTAAATAAAAATAAT-A--ATAAAAATAATTATAGTTCAAAATTGACATAAATAA
190 ATTTTAATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAA
* * * * * *
7766455 A-TCTTGACTTAAAACTGTAACAGTTGACGTAAAAA-TCTATAAAGATAAAATAATTAAATTTTA
255 ACTCTTAACGTAAAACTGTAAAAATTGACGTAAAAACT-TATAAAGGTAAAATAACTAAATTTTA
* * * * * *
7766518 AATCTTAATGTAAATATATGAGAGTTAATGTAACAAGTCAATTGAA-TGAAACAAATTCTAATTT
319 AATCTTAACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATT-AAGT-AAA-AAAATCTAATTT
* * * * *
7766582 TAGT-AAAAAATAATATTTAAATATATATTCT--TCAGCTAAATGTGTTTGACGATATATAAATT
381 TAGTGAAAAAA-AATATTTAAATTTATATTCTAAT-A-TTAAAAGTATTTAACGATATATAAATT
* * * ** * *
7766644 TTAATTTTAAAATAATA-AATAATAA-TAATAATAATTATACCTCAAAATTGTCATAG
443 TTAATTTTTAAATAAAATAATAAGAATTAA-AATAATTATAGTTTAAAATTGACA-AG
* * * *
7766700 ATAAATTTTGACGTAAAATTATAAGAATTGATA-TAAAAACTTATAAAGGT-AGAATAAC---A-
1 A-AAATCTTAACGTAAAATTAAAAGAATTGA-AGTAAAAACTTATAAAGATGA-AATAACTAAAT
*
7766759 ---AAA--TT----T-AACG--T-A-A--TAA-GT--TAAG-----TAAGT-AAAAAAGTCTAAT
63 TTTAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAAT
* * * * * * * * *
7766799 TTTAATGAAAAAAT-AGTA-TT-ATTATTATATT-ATCGAGCTAAAAATATGTAATGATATATAA
128 TTTAAT-AAAAAATAAATATTTAAAT-TTATATTCTTC-AACTAAAAGTGTTTAACGATATACAA
* * *
7766860 ATTTTAATTTTTAAAT-ACAATAATAAGGATAAAAATAATTATAGTATAAAA-TGACATAGAT-A
190 ATTTTAATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAA
* * * * *
7766922 AGTCTTAACGTAAAATTGTAAGAATTGACGTAAAAATTTATAGAA-GTAGAATAACTAAATTTTA
255 ACTCTTAACGTAAAACTGTAAAAATTGACGTAAAAACTTATA-AAGGTAAAATAACTAAATTTTA
* *
7766986 AATCTTAAC-TAAATGT-TAGAGAGTTAACGTAATAAGTTCATTAAGTGAAAAGAAAATCTAATT
319 AATCTTAACGTAAATGTGT-GAGAGTTAACGTAACAAGTTAATTAAGT--AAA-AAAATCTAATT
* * * * * * * * *
7767049 TTAATGAAAATAAATATTTACA-TTATATTCTCAGAATAAATGTGTTTAACAATATATAAATTTT
380 TTAGTGAAAAAAAATATTTAAATTTATATTCTAATATTAAAAGTATTTAACGATATATAAATTTT
* * * * * **
7767113 AGTTTTTGAAT-AAATAATAATAATAAAAATAATTATAGTTCAAAATTGGTATAG
445 AATTTTTAAATAAAATAATAAGAATTAAAATAATTATAGTTTAAAATTGACA-AG
* * * * * * * * *
7767167 ATAAATCTTAACATAAAACTATAACAGTTGACGTAAAAACCTATAAAGGTGAAATAATTAAATTT
1 A-AAATCTTAACGTAAAATTAAAAGAATTGAAGTAAAAACTTATAAAGATGAAATAACTAAATTT
* * ** * * * * *
7767232 TAAA-TCTAA-GTAAATATGTGAGAGTTAACGTAACAAGTCAATTGAGTAAAAAAATTTTTAATT
65 TAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAA-ATCTAATT
* * * ** * * *
7767295 TTAGTGAAAAATAAATATTTAAATATATATTCTTCGGCTAAATA-TATTTGACGATATATAAATT
129 TTAATAAAAAATAAATATTTAAATTTATATTCTTCAACTAAA-AGTGTTTAACGATATACAAATT
* * * *
7767359 TTAATTTTTAAAT--AAATAAT-A--A-AAAAATAATTATAGCTCAAAATTGTCATAGATAAA-T
193 TTAATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAAACT
* * * * * * * *
7767417 TTTGACGTACAACTGTAAGAATTGACGTAAAAAATTATAAATGTAGAATAACTAAATTTTAAATA
258 CTTAACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTAAAATAACTAAATTTTAAATC
* * * * *
7767482 TTAACGTAAATGTGTGAGAGTTAACGTAATAAGTTAATTAA-TTAAAAAATATAATTTTAATAAA
323 TTAACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAGTGAA
* * * ** * *
7767546 AAAATAAGTATTTATATTTATATTATCGA-GCTAAAAGTATATAACAATATATAAATTTTAATTT
388 AAAA-AA-TATTTAAATTTATATTCT-AATATTAAAAGTATTTAACGATATATAAATTTTAATTT
* * * * *
7767610 TTAAATAGAATAATAACG-ATAAAAATAATTATAGTATAAAATTGATATAA
450 TTAAATAAAATAATAA-GAATTAAAATAATTATAGTTTAAAATTGACA-AG
* * ** * * *
7767660 ATAAATCTTAACATAAAACTGTAAGAATTGATGTAAAAATTTATAAA-AGTAAAATAACTAAATT
1 A-AAATCTTAACGTAAAATTAAAAGAATTGAAGTAAAAACTTATAAAGA-TGAAATAACTAAATT
* * * * *
7767724 TTAAATTTTAACGTAAACGTATGAGAGTTAATGTAACAAGTCCATTAAATAAAAAAAATCTAATT
64 TTAAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAATT
* * *
7767789 TTAATAAAAAATAAATTTTTAAATATATATT-TTCAGACTAAAAGTGTTTAACGATATATAAATT
129 TTAATAAAAAATAAATATTTAAATTTATATTCTTCA-ACTAAAAGTGTTTAACGATATACAAATT
*
7767853 TTATTTTTTAAATAAATAATAATAA
193 TTAATTTTTAAATAAA-AATAATAA
7767878 TAATAATAAT
Statistics
Matches: 2598, Mismatches: 384, Indels: 381
0.77 0.11 0.11
Matches are distributed among these distances:
466 15 0.01
467 209 0.08
468 111 0.04
469 29 0.01
470 1 0.00
473 4 0.00
474 3 0.00
475 3 0.00
476 3 0.00
478 2 0.00
479 3 0.00
480 1 0.00
481 1 0.00
482 5 0.00
483 2 0.00
484 1 0.00
485 88 0.03
486 95 0.04
487 107 0.04
488 110 0.04
489 28 0.01
490 39 0.02
491 94 0.04
492 236 0.09
493 320 0.12
494 191 0.07
495 297 0.11
496 111 0.04
497 30 0.01
498 3 0.00
499 2 0.00
501 11 0.00
502 7 0.00
504 1 0.00
505 7 0.00
506 1 0.00
507 1 0.00
511 1 0.00
512 1 0.00
513 8 0.00
514 1 0.00
515 1 0.00
516 13 0.01
517 4 0.00
518 2 0.00
519 2 0.00
520 6 0.00
521 120 0.05
522 7 0.00
523 48 0.02
524 155 0.06
525 43 0.02
526 14 0.01
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (498 bp):
AAAATCTTAACGTAAAATTAAAAGAATTGAAGTAAAAACTTATAAAGATGAAATAACTAAATTTT
AAATTTTAACATAAACGTATGAGAGTTAACGTAATAAGTCAATTAAGTAAAAAAAATCTAATTTT
AATAAAAAATAAATATTTAAATTTATATTCTTCAACTAAAAGTGTTTAACGATATACAAATTTTA
ATTTTTAAATAAAAATAATAAGGATAAAAATAATTATAGTTTAAAATTGACATAAATAAACTCTT
AACGTAAAACTGTAAAAATTGACGTAAAAACTTATAAAGGTAAAATAACTAAATTTTAAATCTTA
ACGTAAATGTGTGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAA
AAATATTTAAATTTATATTCTAATATTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAAT
AAAATAATAAGAATTAAAATAATTATAGTTTAAAATTGACAAG
Found at i:7766059 original size:26 final size:26
Alignment explanation
Indices: 7766023--7766075 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7766013 TGTGAGAGTT
7766023 AACGTAAAAAGTTAATTAAGTAAAAA
1 AACGTAAAAAGTTAATTAAGTAAAAA
7766049 AACGTAAAAAGTTAATTAAGTAAAAA
1 AACGTAAAAAGTTAATTAAGTAAAAA
7766075 A
1 A
7766076 GTCTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (26 bp):
AACGTAAAAAGTTAATTAAGTAAAAA
Found at i:7766580 original size:248 final size:246
Alignment explanation
Indices: 7766049--7767887 Score: 1051
Period size: 249 Copynumber: 7.5 Consensus size: 246
7766039 TAAGTAAAAA
* * * * * * * * *
7766049 AACGTAAAAAGTTAATTAAGT-AAAAAAGTCTAATTTTAATGAAAAATAAGTATCTATATTTATA
1 AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGT-AAAAAAAAATATTTAAATATATA
* * * *
7766113 TT-ATC-GACTTGAAAGTATGTAACGATATATAAATTTTAATTTTTAAAT-AAAATAATAAAGAT
65 TTCTTCAG-C-TAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAATAAT--A-AT
* * *
7766175 AAAAATAATTATAGTAT-AAAATTGACA-AAGATAAATCTTAACGGAAAATTGTAAAAATTGACA
125 AAAAATAATTATAGT-TCAAAATTGACATAA-ATAAATCTTGACGTAAAACTGTAAAAATTGACA
* * * *
7766238 TAAAATTTATAAAAGTAGAATAACTAAATTTTAAATTTTAATGTAAACGTATGAGAGTT
188 TAAAATCTATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* *
7766297 AACGTAATAAGTCCATTAAGTAAAAAAAATCTAATTTTAAG-AAAAAAAAATATTTAAATATATA
1 AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTT-AGTAAAAAAAAATATTTAAATATATA
*
7766361 TTCTT-AGACTAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAAAATAATAATAAAA
65 TTCTTCAG-CTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAATAAAA
* * * *
7766425 ATAATTATAGTTCAAAATTGACATAAATAAATCTTGACTTAAAACTGTAACAGTTGACGTAAAAA
129 ATAATTATAGTTCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGACAT-AAAA
* *
7766490 TCTAT-AAAGATAAAATAATTAAATTTTAAATCTTAATGTAAATATATGAGAGTT
193 TCTATAAAAG-TAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* * * *
7766544 AATGTAACAAGTCAATTGAA-TGAAACAAATTCTAATTTTAGTAAAAAATAATATTTAAATATAT
1 AACGTAACAAGTCAATT-AAGT-AAAAAAAATCTAATTTTAGTAAAAAAAAATATTTAAATATAT
* * * *
7766608 ATTCTTCAGCTAAATGTGTTTGACGATATATAAATTTTAATTTTAAAATAATAAATAATAATAAT
64 ATTCTTCAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAA-AAATAATAATAAA
** * * * * * * *
7766673 AATAATTATACCTCAAAATTGTCATAGATAAATTTTGACGTAAAATTATAAGAATTGATATAAAA
128 AATAATTATAGTTCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGACATAAAA
* * * * * *
7766738 ACTTATAAAGGTAGAATAAC-AAAATTT-AA-CGTAA--T-AA-GT-T-A-AG-T
193 TC-TATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* * * * * *** ** *
7766782 AA-GTAAAAAAGTCTAATTTTAA-TGAAAAAATAGTATTATTATTA-TATTATCGAGCTA--AAA
1 AACGT-AACAAGTC-AA--TTAAGT-AAAAAA-AATCTAATT-TTAGTA-AAAAAAAATATTTAA
* * ** * * ** **
7766842 ATATGTAATGAT-A--TATAAA-T-TTT-A--ATTTTTAAA-TACAA-TAATAAGGATAAAAATA
58 ATATATATTCTTCAGCTA-AAAGTGTTTAACGATATATAAATTTTAATTTTTAA--ATAAAAATA
* * * ** * * * *
7766897 ATTATAGTATAAAATGA-CATAGAT-AAGTCTTAACGTAAAATTGTAAGA-ATTGACGTAAAAAT
120 A-TA-A-TA-AAAATAATTATAGTTCAA-AATTGACAT-AAA---TAA-ATCTTGACGTAAAACT
* * * *** * * * *
7766959 TTATAGAAGTAGA-AT--AA-CTA-AATTTTAAATCTTAACTAAATGTTAGAGA-GTTAACGT--
175 GTA-A-AAATTGACATAAAATCTATAAAAGTAAA--ATAACTAAATTTTA-A-ATCTTAATGTAA
7767016 --A-AT-A-AGTT
234 ACATATGAGAGTT
** * * * * *
7767024 --C--ATTAAGTGAA--AAG-----AAAATCTAATTTTAATGAAAATAAATATTTACAT-TATAT
1 AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTAAAAAAAAATATTTAAATATATAT
* * * * * *
7767077 TCTC-AGAATAAATGTGTTTAACAATATATAAATTTTAGTTTTTGAATAAATAATAATAATAAAA
66 TCTTCAG-CTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAA-AATAATAATAAAA
** * * * * * * *
7767141 ATAATTATAGTTCAAAATTGGTATAGATAAATCTTAACATAAAACTATAACAGTTGACGTAAAAA
129 ATAATTATAGTTCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGACAT-AAAA
* * * * * *
7767206 CCTATAAAGGTGAAATAATTAAATTTTAAATC-TAA-GTAAATATGTGAGAGTT
193 TCTATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* * * *
7767258 AACGTAACAAGTCAATTGAGTAAAAAAATTTTTAATTTTAGTGAAAAATAAATATTTAAATATAT
1 AACGTAACAAGTCAATTAAGTAAAAAAA-ATCTAATTTTAGT-AAAAAAAAATATTTAAATATAT
* * *
7767323 ATTCTTCGGCTAAATA-TATTTGACGATATATAAATTTTAATTTTTAAAT--AAATAATAA-AAA
64 ATTCTTCAGCTAAA-AGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAATAAA
* * * * * * *
7767384 AATAATTATAGCTCAAAATTGTCATAGATAAATTTTGACGTACAACTGTAAGAATTGACGTAAAA
128 AATAATTATAGTTCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGAC--ATAA
* * * * ** *
7767449 AAT-TATAAATGTAGAATAACTAAATTTTAAATATTAACGTAAATGTGTGAGAGTT
191 AATCTATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* * * * * * *
7767504 AACGTAATAAGTTAATTAA-T-TAAAAAATATAATTTTAATAAAAAAATAAGTATTTATATTTAT
1 AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTAAAAAAA-AA-TATTTAAATATAT
* * * * **
7767567 ATT-ATCGAGCTAAAAGTATATAACAATATATAAATTTTAATTTTTAAATAGAATAATAACGATA
64 ATTCTTC-AGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATA-AA-AATAATAATA
* * * * **
7767631 AAAATAATTATAGTAT-AAAATTGATATAAATAAATCTTAACATAAAACTGTAAGAATTGATGTA
126 AAAATAATTATAGT-TCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGACAT-
* * * *
7767695 AAAATTTATAAAAGTAAAATAACTAAATTTTAAATTTTAACGTAAACGTATGAGAGTT
189 AAAATCTATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
* * * * *
7767753 AATGTAACAAGTCCATTAAATAAAAAAAATCTAATTTTAATAAAAAATAAATTTTTAAATATATA
1 AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTAAAAAA-AAATATTTAAATATATA
* *
7767818 TT-TTCAGACTAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAATAATAATAATAAT
65 TTCTTCAG-CTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAA-AATAATAATAAA
7767882 AATAAT
128 AATAAT
7767888 AATAAGTATT
Statistics
Matches: 1221, Mismatches: 253, Indels: 233
0.72 0.15 0.14
Matches are distributed among these distances:
226 12 0.01
227 17 0.01
228 24 0.02
229 3 0.00
230 16 0.01
231 18 0.01
232 26 0.02
233 19 0.02
234 21 0.02
235 23 0.02
236 16 0.01
237 12 0.01
238 31 0.03
239 22 0.02
240 27 0.02
241 23 0.02
242 14 0.01
243 18 0.01
244 133 0.11
245 20 0.02
246 105 0.09
247 86 0.07
248 217 0.18
249 234 0.19
250 58 0.05
251 25 0.02
252 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (246 bp):
AACGTAACAAGTCAATTAAGTAAAAAAAATCTAATTTTAGTAAAAAAAAATATTTAAATATATAT
TCTTCAGCTAAAAGTGTTTAACGATATATAAATTTTAATTTTTAAATAAAAATAATAATAAAAAT
AATTATAGTTCAAAATTGACATAAATAAATCTTGACGTAAAACTGTAAAAATTGACATAAAATCT
ATAAAAGTAAAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTT
Found at i:7767559 original size:19 final size:20
Alignment explanation
Indices: 7767509--7767559 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
7767499 GAGTTAACGT
*
7767509 AATAAGTTAATTAATTAAAAA
1 AATAAG-TATTTAATTAAAAA
7767530 ATATAA-T-TTTAA-TAAAAA
1 A-ATAAGTATTTAATTAAAAA
7767548 AATAAGTATTTA
1 AATAAGTATTTA
7767560 TATTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
19 8 0.31
20 1 0.04
21 1 0.04
22 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATAAGTATTTAATTAAAAA
Found at i:7767698 original size:249 final size:243
Alignment explanation
Indices: 7766763--7767874 Score: 1180
Period size: 248 Copynumber: 4.5 Consensus size: 243
7766753 ATAACAAAAT
* * * *
7766763 TTAACGTAATAAGTTAAGTAAGTAAAAAAGTCTAATTTTAATGAAAAAAT-AGTA-TT-ATTATT
1 TTAACGTAATAAGTTAATTAA-TAAAAAAATCTAATTTTAAT-AAAAAATAAATATTTAAAT-TT
* * *
7766825 ATATTATCGAGCTAAAAATATGTAATGATATATAAATTTTAATTTTTAAATACAATAATAAGGAT
63 ATATTATCGAGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATA-AATAATAA-GAT
* * * *
7766890 AAAAATAATTATAGTATAAAA-TGACATAGATAAGTCTTAACGTAAAATTGTAAGAATTGACGTA
126 AAAAATAATTATAGT-TAAAATTGATATAGATAAATCTTAACATAAAACTGTAAGAATTGACGTA
7766954 AAAATTTATAGAAGTAGAATAACTAAATTTTAAATCTTAAC-TAAATGT-TAGAGAG
190 AAAATTTATA-AAGTAGAATAACTAAATTTTAAAT-TTAACGTAAATGTGT-GAGAG
* * *
7767009 TTAACGTAATAAGTTCATTAAGTGAAAAGAAAATCTAATTTTAAT-GAAAATAAATATTTACA-T
1 TTAACGTAATAAGTTAATTAA-T--AAA-AAAATCTAATTTTAATAAAAAATAAATATTTAAATT
* * * * * * * *
7767072 TATATTCTC-AGAATAAATGTGTTTAACAATATATAAATTTTAGTTTTTGAATAAATAATAATAA
62 TATATTATCGAG-CTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAATAATAA-GA
* * * *
7767136 TAAAAATAATTATAGTTCAAAATTGGTATAGATAAATCTTAACATAAAACTATAACAGTTGACGT
125 TAAAAATAATTATAGTT-AAAATTGATATAGATAAATCTTAACATAAAACTGTAAGAATTGACGT
** * * *
7767201 AAAAACCTATAAAGGT-GAAATAATTAAATTTTAAATCTAA-GTAAATATGTGAGAG
189 AAAAATTTATAAA-GTAG-AATAACTAAATTTTAAATTTAACGTAAATGTGTGAGAG
* * * * * * *
7767256 TTAACGTAACAAGTCAATTGAGTAAAAAAATTTTTAATTTTAGTGAAAAATAAATATTTAAATAT
1 TTAACGTAATAAGTTAATT-AATAAAAAAA--TCTAATTTTAATAAAAAATAAATATTTAAATTT
* *
7767321 ATATTCTTCG-GCTAAATA-TATTTGACGATATATAAATTTTAATTTTTAAATAAATAAT-A-A-
63 ATATT-ATCGAGCTAAA-AGTATTTAACGATATATAAATTTTAATTTTTAAATAAATAATAAGAT
* * * * *
7767381 AAAAATAATTATAGCTCAAAATTG-TCATAGATAAATTTTGACGTACAACTGTAAGAATTGACGT
126 AAAAATAATTATAG-TTAAAATTGAT-ATAGATAAATCTTAACATAAAACTGTAAGAATTGACGT
*
7767445 AAAAAATTATAAATGTAGAATAACTAAATTTTAAATATTAACGTAAATGTGTGAGAG
189 AAAAATTTATAAA-GTAGAATAACTAAATTTTAAAT-TTAACGTAAATGTGTGAGAG
* * * *
7767502 TTAACGTAATAAGTTAATTAATTAAAAAATATAATTTTAATAAAAAAATAAGTATTTATATTTAT
1 TTAACGTAATAAGTTAATTAATAAAAAAATCTAATTTTAAT-AAAAAATAAATATTTAAATTTAT
* *
7767567 ATTATCGAGCTAAAAGTATATAACAATATATAAATTTTAATTTTTAAATAGAATAATAACGATAA
65 ATTATCGAGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATA-AATAATAA-GATAA
* *
7767632 AAATAATTATAGTATAAAATTGATATAAATAAATCTTAACATAAAACTGTAAGAATTGATGTAAA
128 AAATAATTATAGT-TAAAATTGATATAGATAAATCTTAACATAAAACTGTAAGAATTGACGTAAA
* * *
7767697 AATTTATAAAAGTAAAATAACTAAATTTTAAATTTTAACGTAAACGTATGAGAG
192 AATTTAT-AAAGTAGAATAACTAAATTTTAAA-TTTAACGTAAATGTGTGAGAG
* * ** * *
7767751 TTAATGTAACAAGTCCATTAAATAAAAAAAATCTAATTTTAATAAAAAATAAATTTTTAAATATA
1 TTAACGTAATAAGTTAATT-AAT-AAAAAAATCTAATTTTAATAAAAAATAAATATTTAAATTTA
* * *
7767816 TATTTTC-AGACTAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAATAATAA
64 TATTATCGAG-CTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAATAATAA
7767875 TAATAATAAT
Statistics
Matches: 722, Mismatches: 103, Indels: 79
0.80 0.11 0.09
Matches are distributed among these distances:
243 15 0.02
244 145 0.20
245 23 0.03
246 64 0.09
247 86 0.12
248 158 0.22
249 145 0.20
250 69 0.10
251 17 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (243 bp):
TTAACGTAATAAGTTAATTAATAAAAAAATCTAATTTTAATAAAAAATAAATATTTAAATTTATA
TTATCGAGCTAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAATAATAAGATAAAAA
TAATTATAGTTAAAATTGATATAGATAAATCTTAACATAAAACTGTAAGAATTGACGTAAAAATT
TATAAAGTAGAATAACTAAATTTTAAATTTAACGTAAATGTGTGAGAG
Found at i:7767875 original size:3 final size:3
Alignment explanation
Indices: 7767867--7767892 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7767857 TTTTTAAATA
7767867 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7767893 GTATTAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7770252 original size:16 final size:16
Alignment explanation
Indices: 7770216--7770258 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
7770206 AATGAAAATT
7770216 TATTAATTAATTGAAA
1 TATTAATTAATTGAAA
*
7770232 TATTATTTAATTGATAA
1 TATTAATTAATTGA-AA
7770249 -ATTAA-TAATT
1 TATTAATTAATT
7770259 TATTAACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 17 0.71
17 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (16 bp):
TATTAATTAATTGAAA
Found at i:7777377 original size:2 final size:2
Alignment explanation
Indices: 7777370--7777400 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7777360 CTATTGTTGC
7777370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7777401 GTAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7783306 original size:29 final size:29
Alignment explanation
Indices: 7783260--7783315 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
7783250 TGGCTTGTAG
*
7783260 TTATCTGGGTTTAGTAAGGTTATAATATT
1 TTATCTGGGTTTAATAAGGTTATAATATT
*
7783289 TTATTTGGGTTTAATAAGGTTATAATA
1 TTATCTGGGTTTAATAAGGTTATAATA
7783316 CAAATATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (29 bp):
TTATCTGGGTTTAATAAGGTTATAATATT
Found at i:7786040 original size:20 final size:20
Alignment explanation
Indices: 7786017--7786059 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7786007 TTTTATTGTG
7786017 TTTA-TGTAAATTCATATATT
1 TTTATTGTAAATT-ATATATT
*
7786037 TTTATTTTAAATTATATATT
1 TTTATTGTAAATTATATATT
7786057 TTT
1 TTT
7786060 TATGATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTATTGTAAATTATATATT
Found at i:7786070 original size:21 final size:20
Alignment explanation
Indices: 7786017--7786077 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
7786007 TTTTATTGTG
*
7786017 TTTATGTAAATTCATATA-TT
1 TTTATGTTAATT-ATATATTT
*
7786037 TTTATTTTAAATTATATATTT
1 TTTATGTT-AATTATATATTT
7786058 TTTATGATTAATTAT-TATTT
1 TTTATG-TTAATTATATATTT
7786078 AATTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 16 0.46
21 17 0.49
22 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATGTTAATTATATATTT
Found at i:7786447 original size:27 final size:27
Alignment explanation
Indices: 7786394--7786448 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7786384 ATAAGAACCT
**
7786394 ATTTGATCCAAAATAAAAAATTTTAAA
1 ATTTGATCCAAAATAAAAAATAATAAA
** *
7786421 ATTTGATTGAAAATATAAAATAATAAA
1 ATTTGATCCAAAATAAAAAATAATAAA
7786448 A
1 A
7786449 AATTTAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (27 bp):
ATTTGATCCAAAATAAAAAATAATAAA
Found at i:7787247 original size:31 final size:32
Alignment explanation
Indices: 7787199--7787262 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
7787189 AAATAAAAAC
*
7787199 TATTCACAAAGTGTTAATT-AAAGAAAAAATA
1 TATTCACAAAGTATTAATTGAAAGAAAAAATA
7787230 TATTCACACAA-TATTAATTGAGAAAGAAAAAAT
1 TATTCACA-AAGTATTAATT--GAAAGAAAAAAT
7787263 CCACAAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 15 0.54
32 2 0.07
34 11 0.39
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (32 bp):
TATTCACAAAGTATTAATTGAAAGAAAAAATA
Found at i:7789268 original size:2 final size:2
Alignment explanation
Indices: 7789261--7789292 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7789251 TGCCTGGTAC
*
7789261 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7789293 GCTTTAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7794042 original size:15 final size:16
Alignment explanation
Indices: 7794017--7794048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7794007 GAAATTCAAA
*
7794017 TTTTATCAAAATTATT
1 TTTTATAAAAATTATT
7794033 TTTTATAAAAATTATT
1 TTTTATAAAAATTATT
7794049 ATACTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTATAAAAATTATT
Found at i:7799635 original size:2 final size:2
Alignment explanation
Indices: 7799628--7799653 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7799618 CATCTACCCA
7799628 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
7799654 GTTATGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7802319 original size:3 final size:3
Alignment explanation
Indices: 7802269--7802295 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7802259 TAAAGTGTTT
7802269 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
7802296 ATAAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7824162 original size:16 final size:17
Alignment explanation
Indices: 7824141--7824172 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7824131 AATTTGTTCT
7824141 GAAATCATT-TTTTTAA
1 GAAATCATTATTTTTAA
7824157 GAAATCATTATTTTTA
1 GAAATCATTATTTTTA
7824173 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
GAAATCATTATTTTTAA
Found at i:7833651 original size:5 final size:5
Alignment explanation
Indices: 7833641--7833667 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7833631 AAAAAGGCTG
7833641 TGGCA TGGCA TGGCA TGGCA TGGCA TG
1 TGGCA TGGCA TGGCA TGGCA TGGCA TG
7833668 ATATATTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (5 bp):
TGGCA
Found at i:7839118 original size:13 final size:13
Alignment explanation
Indices: 7839102--7839133 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
7839092 TTAAGGTTAA
7839102 TTTTTATTTTTAT
1 TTTTTATTTTTAT
7839115 TTTTTATTTTTAT
1 TTTTTATTTTTAT
7839128 TTTTTA
1 TTTTTA
7839134 AATGAATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:7839133 original size:7 final size:6
Alignment explanation
Indices: 7839101--7839131 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
7839091 TTTAAGGTTA
7839101 ATTTTT ATTTTT ATTTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT
7839132 TAAATGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
ATTTTT
Found at i:7843822 original size:20 final size:20
Alignment explanation
Indices: 7843797--7843837 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7843787 TCATTTGCAG
*
7843797 ATGAACTCGAAGCTGCCGTA
1 ATGAACTCGAAGCAGCCGTA
7843817 ATGAACTCGAAGCAGCCGTA
1 ATGAACTCGAAGCAGCCGTA
7843837 A
1 A
7843838 AACTTGTTGT
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:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (20 bp):
ATGAACTCGAAGCAGCCGTA
Found at i:7855322 original size:2 final size:2
Alignment explanation
Indices: 7855311--7855350 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
7855301 GTTATATCTT
7855311 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7855351 GTTGTGTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7856460 original size:18 final size:18
Alignment explanation
Indices: 7856432--7856484 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
7856422 GAAAATCTAG
7856432 TAAATAAATATTTATAATT
1 TAAA-AAATATTTATAATT
7856451 TAAAAAATATTTAT--TT
1 TAAAAAATATTTATAATT
7856467 TGAAAAAAT-TTTA-AATT
1 T-AAAAAATATTTATAATT
7856484 T
1 T
7856485 TAATGTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 10 0.32
19 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAAAAATATTTATAATT
Found at i:7856662 original size:73 final size:73
Alignment explanation
Indices: 7856571--7856716 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
7856561 GATGATTGTT
7856571 ACTTACAGATTTAAATAACTTCTTAAATTTGATGCGTTTAACCGTGAGGAAAACAAAGAAAAGAA
1 ACTTACAGATTTAAATAACTTCTTAAATTTGATGCGTTTAACCGTGAGGAAAACAAAGAAAAGAA
7856636 AATACTAA
66 AATACTAA
* *
7856644 ACTTGCAGATTTAAATAACTTCTTAAATTTGATGCGTTTAATCGTGAGGAAAACAAAGAAAAGAA
1 ACTTACAGATTTAAATAACTTCTTAAATTTGATGCGTTTAACCGTGAGGAAAACAAAGAAAAGAA
7856709 AATACTAA
66 AATACTAA
7856717 CAAAATGGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (73 bp):
ACTTACAGATTTAAATAACTTCTTAAATTTGATGCGTTTAACCGTGAGGAAAACAAAGAAAAGAA
AATACTAA
Found at i:7856814 original size:24 final size:26
Alignment explanation
Indices: 7856766--7856815 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
7856756 TAAAATATAT
*
7856766 AATATATGAGATTATATTAAGAAAAA
1 AATATATGAGATTATAATAAGAAAAA
7856792 AATATATGAGATTATAATAA-AAAA
1 AATATATGAGATTATAATAAGAAAA
7856816 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (26 bp):
AATATATGAGATTATAATAAGAAAAA
Found at i:7856821 original size:28 final size:27
Alignment explanation
Indices: 7856757--7856823 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
7856747 AAATAAAAAT
* *
7856757 AAAATATATAATATATGAGATTATATTA
1 AAAATA-AAAATATATGAGATTATATAA
*
7856785 AGAA-AAAAATATATGAGATTATAATAA
1 AAAATAAAAATATATGAGATTAT-ATAA
7856812 AAAATAAAAATA
1 AAAATAAAAATA
7856824 AAATATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 16 0.48
27 7 0.21
28 10 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATAAAAATATATGAGATTATATAA
Found at i:7856853 original size:33 final size:32
Alignment explanation
Indices: 7856750--7856853 Score: 86
Period size: 33 Copynumber: 3.2 Consensus size: 32
7856740 AAAATTGAAA
* * * *
7856750 TAAAAATAAAATATATAATATATGAGATTATAT
1 TAAAAATAAAATATATGATAT-TAAAAATATAT
* * *
7856783 TAAGAAA-AAAATATATGAGATTATAATAA-AAAA
1 TAA-AAATAAAATATATGATATTA-AA-AATATAT
7856816 TAAAAATAAAATATATGATATTAAAAATATAT
1 TAAAAATAAAATATATGATATTAAAAATATAT
*
7856848 TTAAAA
1 TAAAAA
7856854 GATGATAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
31 2 0.04
32 13 0.24
33 36 0.65
34 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (32 bp):
TAAAAATAAAATATATGATATTAAAAATATAT
Found at i:7858101 original size:17 final size:18
Alignment explanation
Indices: 7858064--7858102 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7858054 TCTAGTAAAT
7858064 AAATATTTATAATTTTAA
1 AAATATTTATAATTTTAA
**
7858082 AAATATTTATTTTTTTAA
1 AAATATTTATAATTTTAA
7858100 AAA
1 AAA
7858103 AATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATTTATAATTTTAA
Found at i:7881567 original size:20 final size:21
Alignment explanation
Indices: 7881530--7881570 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7881520 AAAAAATAAT
7881530 AAAATAAGATACTTTTTTTAA
1 AAAATAAGATACTTTTTTTAA
*
7881551 AAAATAA-ATATTATTTTTTA
1 AAAATAAGATACT-TTTTTTA
7881571 TATTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAATAAGATACTTTTTTTAA
Found at i:7882671 original size:2 final size:2
Alignment explanation
Indices: 7882664--7882690 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7882654 GGACTGTATG
7882664 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7882691 CATGTTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7883639 original size:40 final size:40
Alignment explanation
Indices: 7883552--7883632 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7883542 GTGATGATGT
7883552 TGAACCAATGACAATGATGCCTGTTACAAGTTCTTGCTTG
1 TGAACCAATGACAATGATGCCTGTTACAAGTTCTTGCTTG
7883592 TGAACCAATGACAATGATGCCTGTTACAAGTTCTTGCTTG
1 TGAACCAATGACAATGATGCCTGTTACAAGTTCTTGCTTG
7883632 T
1 T
7883633 AGACCAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
TGAACCAATGACAATGATGCCTGTTACAAGTTCTTGCTTG
Found at i:7890434 original size:17 final size:17
Alignment explanation
Indices: 7890375--7890440 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 17
7890365 TAATGCATAA
*
7890375 AATATAAATAGTTAAAT
1 AATATAAATAATTAAAT
*
7890392 ATGATATACACAATAGTTAAAT
1 A--ATAT--A-AATAATTAAAT
7890414 -ATATAAATAATTAAAT
1 AATATAAATAATTAAAT
7890430 AATATAAATAA
1 AATATAAATAA
7890441 AAAATAGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
16 10 0.24
17 12 0.29
19 8 0.19
21 1 0.02
22 11 0.26
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (17 bp):
AATATAAATAATTAAAT
Found at i:7891127 original size:2 final size:2
Alignment explanation
Indices: 7891115--7891170 Score: 53
Period size: 2 Copynumber: 28.0 Consensus size: 2
7891105 TATAAATTCA
* * *
7891115 AT AT AT GT AT AT AT A- AT AT AT GACT TT AT -T GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -A-T AT AT AT AT AT AT AT AT AT
7891157 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7891171 GAAATTAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
1 2 0.04
2 41 0.91
3 1 0.02
4 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7891132 original size:209 final size:219
Alignment explanation
Indices: 7890749--7891366 Score: 853
Period size: 230 Copynumber: 2.8 Consensus size: 219
7890739 ATGATATTAT
* *
7890749 TTATATGTTATAATATTTTATATCAAAGTTTATATAAATAATAACTAATTATAAATAATATGTTA
1 TTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAATAATATGTTA
* *
7890814 TAAAATCTAAGGTGATAGCTAATAAACTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
66 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
* * *
7890879 TTGTAGTAATGTTCATGTATAAATTAAATATATGTATGTATAATATATTATT-T-TAT-TATATA
131 TTATAGTAATCTT-ATGTATAAATTAAATATATGTATATATAATATATTATTGTATATATATATA
*
7890941 CATA-AT-TA-ATG-GT-A-C-AAA
195 CATATATATATATGAATGACCTAAA
* * *
7890959 TTATATGTTAAAATGTTTTATATCAAAGTTTGTATAAATAATAATTAATTATAAATAATATATTA
1 TTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAATAATATGTTA
*
7891024 TAAAATCTAA-GTGATAACTAATAAAGTTATTAAGTGTAATCATATAAATAAAGTCTATTATAAG
66 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
* *
7891088 TTATATTAATACTTATGTATAAATTCAATATATGTATATATAATATATGACTTTATTGTATATAT
131 TTATAGTAAT-CTTATGTATAAATTAAATATATGTATATAT-A-ATAT-A--TTATTGTATATAT
* *
7891153 ATATATATATATATATATGAAATTAATGACCTAAC
190 ATATACATATATATATATG-----AATGACCTAAA
* *
7891188 TTATATGTTATAATGATTTATATCAAAGTTTGTATAAATAATAACTAATTATAAAAAATATGTTA
1 TTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAATAATATGTTA
* *
7891253 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATAATATAAATAAAGTTTATTATAAA
66 TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
*
7891318 TTATAGTAATGTTTATGTATAAATTAAATATATGTATATATAATATATT
131 TTATAGTAAT-CTTATGTATAAATTAAATATATGTATATATAATATATT
7891367 TACACAATTA
Statistics
Matches: 358, Mismatches: 28, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
209 84 0.23
210 73 0.20
211 4 0.01
212 1 0.00
214 5 0.01
215 1 0.00
216 3 0.01
217 9 0.03
218 2 0.01
219 2 0.01
220 3 0.01
225 2 0.01
226 1 0.00
227 2 0.01
228 5 0.01
229 73 0.20
230 88 0.25
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (219 bp):
TTATATGTTATAATGTTTTATATCAAAGTTTGTATAAATAATAACTAATTATAAATAATATGTTA
TAAAATCTAAGGTGATAACTAATAAAGTTATTAAGTGTAATCATATAAATAAAGTTTATTATAAG
TTATAGTAATCTTATGTATAAATTAAATATATGTATATATAATATATTATTGTATATATATATAC
ATATATATATATGAATGACCTAAA
Found at i:7891322 original size:23 final size:23
Alignment explanation
Indices: 7891300--7891347 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
7891290 TAATAATATA
7891300 AATAAAGTTTAT-TATAAATTAT
1 AATAAAGTTTATGTATAAATTAT
* *
7891322 AGTAATGTTTATGTATAAATTA-
1 AATAAAGTTTATGTATAAATTAT
7891344 AATA
1 AATA
7891348 TATGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
AATAAAGTTTATGTATAAATTAT
Found at i:7891352 original size:23 final size:21
Alignment explanation
Indices: 7891298--7891360 Score: 65
Period size: 23 Copynumber: 2.9 Consensus size: 21
7891288 TGTAATAATA
*
7891298 TAAATAAAGTTTATTATAAAT
1 TAAATAATGTTTATTATAAAT
*
7891319 TATAGTAATGTTTATGTATAAAT
1 TA-AATAATGTTTAT-TATAAAT
*
7891342 TAAATATATGTATA-TATAA
1 TAAATA-ATGTTTATTATAA
7891361 TATATTTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 7 0.20
22 13 0.37
23 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
TAAATAATGTTTATTATAAAT
Found at i:7903099 original size:28 final size:28
Alignment explanation
Indices: 7903067--7903132 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
7903057 TATCCATCTT
7903067 AAATTCAG-TAACCCAACTTTAAAATTTA
1 AAATT-AGATAACCCAACTTTAAAATTTA
7903095 AAATTAGATAACCCAACTTTAAAATTTA
1 AAATTAGATAACCCAACTTTAAAATTTA
7903123 AAATTAGATA
1 AAATTAGATA
7903133 GATATGTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.32
Consensus pattern (28 bp):
AAATTAGATAACCCAACTTTAAAATTTA
Found at i:7907348 original size:2 final size:2
Alignment explanation
Indices: 7907341--7907365 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7907331 TCTCGTTGTA
7907341 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7907366 ACGTATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7926070 original size:83 final size:83
Alignment explanation
Indices: 7925941--7926096 Score: 276
Period size: 83 Copynumber: 1.9 Consensus size: 83
7925931 GGCATGGTAT
* * *
7925941 TAACGTTGATGTGTGAGTTATTTGGGAACTGATGATATAGTTTTATTTGGTTATTGGGTTATGAA
1 TAACCTTGATGCGTGAGTTATTTGGGAACTGATGATATAGTTTTATTTGGTTATTGGGTTAGGAA
7926006 GAATTGGCGGCATGGGGC
66 GAATTGGCGGCATGGGGC
*
7926024 TAACCTTGATGCGTGAGTTATTTGGGAACTGATGATATAGTTTTATTTGGTTATTGGGTTAGGGA
1 TAACCTTGATGCGTGAGTTATTTGGGAACTGATGATATAGTTTTATTTGGTTATTGGGTTAGGAA
7926089 GAATTGGC
66 GAATTGGC
7926097 TTCCTAGCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.23, C:0.06, G:0.31, T:0.39
Consensus pattern (83 bp):
TAACCTTGATGCGTGAGTTATTTGGGAACTGATGATATAGTTTTATTTGGTTATTGGGTTAGGAA
GAATTGGCGGCATGGGGC
Found at i:7926813 original size:6 final size:6
Alignment explanation
Indices: 7926798--7926842 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
7926788 TAATCCACTG
*
7926798 GGTGGT GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGT
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGT
7926843 TTGGGCTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.13, C:0.00, G:0.67, T:0.20
Consensus pattern (6 bp):
GGTGGA
Found at i:7931293 original size:14 final size:14
Alignment explanation
Indices: 7931274--7931302 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7931264 TGTTTTGTAA
7931274 GATACCTAGATAAT
1 GATACCTAGATAAT
7931288 GATACCTAGATAAT
1 GATACCTAGATAAT
7931302 G
1 G
7931303 TTTAATGAAT
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:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (14 bp):
GATACCTAGATAAT
Found at i:7938737 original size:2 final size:2
Alignment explanation
Indices: 7938730--7938773 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
7938720 TATGAATAGA
*
7938730 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
7938772 AT
1 AT
7938774 TCTATTAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7943532 original size:17 final size:18
Alignment explanation
Indices: 7943510--7943543 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7943500 TGTAATTATA
7943510 AAAATA-CAAAAATAAAT
1 AAAATATCAAAAATAAAT
*
7943527 AAAATATCACAAATAAA
1 AAAATATCAAAAATAAA
7943544 CAACTCCTTT
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:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATATCAAAAATAAAT
Found at i:7945709 original size:3 final size:3
Alignment explanation
Indices: 7945701--7945732 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7945691 AGGTCCTTAT
*
7945701 TTC TTC TTC TTC TTC TTC TGC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7945733 TATTTATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:7947672 original size:12 final size:12
Alignment explanation
Indices: 7947655--7947680 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7947645 ATTAATCCAT
7947655 CTGTCCCATGGC
1 CTGTCCCATGGC
7947667 CTGTCCCATGGC
1 CTGTCCCATGGC
7947679 CT
1 CT
7947681 ATCTCTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.23, T:0.27
Consensus pattern (12 bp):
CTGTCCCATGGC
Found at i:7950313 original size:17 final size:17
Alignment explanation
Indices: 7950291--7950324 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7950281 AGGCTGCAAC
* *
7950291 AAAAAGACAGAAAATTA
1 AAAAAGAAAAAAAATTA
7950308 AAAAAGAAAAAAAATTA
1 AAAAAGAAAAAAAATTA
7950325 GAGAATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAGAAAAAAAATTA
Found at i:7961305 original size:3 final size:3
Alignment explanation
Indices: 7961297--7961325 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7961287 AAATCCTTAA
7961297 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7961326 AGGAAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7971487 original size:6 final size:6
Alignment explanation
Indices: 7971473--7971513 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
7971463 TCGCTCGTCA
* * *
7971473 TCTCTC TCTCGC TCTCCC ACTCCC TCTCCC TCTCCC TCTCC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCC
7971514 ATCAGGCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.02, C:0.61, G:0.02, T:0.34
Consensus pattern (6 bp):
TCTCCC
Found at i:7975509 original size:26 final size:26
Alignment explanation
Indices: 7975478--7975532 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
7975468 ATAAAACCTT
*
7975478 ATTTAAT-TCAAAATAAAAATATAAAA
1 ATTTAATAACAAAATAAAAATA-AAAA
*
7975504 ATTTAATAAACATAATAAAAATAAAAA
1 ATTTAAT-AACAAAATAAAAATAAAAA
7975531 AT
1 AT
7975533 GATTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 6 0.24
28 12 0.48
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (26 bp):
ATTTAATAACAAAATAAAAATAAAAA
Found at i:7984825 original size:2 final size:2
Alignment explanation
Indices: 7984820--7984845 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7984810 CTTGTCACTT
7984820 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
7984846 ATTACATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7986233 original size:5 final size:5
Alignment explanation
Indices: 7986223--7986248 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7986213 CAAAATTTGA
7986223 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
7986249 TTAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:7989966 original size:62 final size:62
Alignment explanation
Indices: 7989897--7990025 Score: 240
Period size: 62 Copynumber: 2.1 Consensus size: 62
7989887 ATCTATCTGA
* *
7989897 AAACATAAGCCCCAATTTGGTAGTGCAAAACTTCTTTCCATTGATGCAACTTATAGAAACAG
1 AAACATAAACCCCAATTTGGTAGTGCAAAACTTCTTTCCATTGATACAACTTATAGAAACAG
7989959 AAACATAAACCCCAATTTGGTAGTGCAAAACTTCTTTCCATTGATACAACTTATAGAAACAG
1 AAACATAAACCCCAATTTGGTAGTGCAAAACTTCTTTCCATTGATACAACTTATAGAAACAG
7990021 AAACA
1 AAACA
7990026 ACAATATCAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (62 bp):
AAACATAAACCCCAATTTGGTAGTGCAAAACTTCTTTCCATTGATACAACTTATAGAAACAG
Found at i:7998038 original size:54 final size:54
Alignment explanation
Indices: 7997980--7998109 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
7997970 GAATCAAAAC
*
7997980 AAGAAGAAACAAAGGTAGAGGCCCAA-AAGGAAGAA-CCAGAGGCAGAACCAAAGA
1 AAGAAGAAACAAAGGCAGAGG-CCAAGAAGGAAGAACCCA-AGGCAGAACCAAAGA
* * * *
7998034 AAGAAG-AACAAAAGGCAGAGGCTAAGGAGGAAGAACCCAAGGTAGAGCCAAAGA
1 AAGAAGAAAC-AAAGGCAGAGGCCAAGAAGGAAGAACCCAAGGCAGAACCAAAGA
* **
7998088 AAGAAGAACCAAAAACAGAGGC
1 AAGAAGAAACAAAGGCAGAGGC
7998110 ACCAGCTGCC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
53 6 0.09
54 53 0.83
55 5 0.08
ACGTcount: A:0.53, C:0.16, G:0.28, T:0.02
Consensus pattern (54 bp):
AAGAAGAAACAAAGGCAGAGGCCAAGAAGGAAGAACCCAAGGCAGAACCAAAGA
Found at i:7998039 original size:27 final size:26
Alignment explanation
Indices: 7998009--7998099 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
7997999 GGCCCAAAAG
*
7998009 GAAGAACCAGAGGCAGAACCAAAGAAA
1 GAAGAACCA-AGGCAGAGCCAAAGAAA
* * * * *
7998036 GAAGAACAAAAGGCAGAGGCTAAGGAG
1 GAAGAAC-CAAGGCAGAGCCAAAGAAA
*
7998063 GAAGAACCCAAGGTAGAGCCAAAGAAA
1 GAAGAA-CCAAGGCAGAGCCAAAGAAA
7998090 GAAGAACCAA
1 GAAGAACCAA
7998100 AAACAGAGGC
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
26 4 0.08
27 44 0.88
28 2 0.04
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.02
Consensus pattern (26 bp):
GAAGAACCAAGGCAGAGCCAAAGAAA
Found at i:8002142 original size:57 final size:57
Alignment explanation
Indices: 8002052--8002174 Score: 135
Period size: 58 Copynumber: 2.2 Consensus size: 57
8002042 GGCATACAAT
* * *
8002052 AATTTTTTTAACATGGTGTGTATAACAACTTTTTT-TTTTAACATAGA-GGATGGTAA
1 AATTTTTTTAACATGGTGTGTATAACAACTTTTTTCTTTCAAAAT-GATGGATAGTAA
* ** *
8002108 AATTTTTTTAACTATGGTGTGTA-ATATATTTTTTTTCTTTCAAAATGATGTATAGTAA
1 AATTTTTTTAAC-ATGGTGTGTATA-ACAACTTTTTTCTTTCAAAATGATGGATAGTAA
8002166 AATTTTTTT
1 AATTTTTTT
8002175 GAATATAACA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 13 0.23
57 20 0.36
58 23 0.41
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (57 bp):
AATTTTTTTAACATGGTGTGTATAACAACTTTTTTCTTTCAAAATGATGGATAGTAA
Found at i:8002214 original size:29 final size:29
Alignment explanation
Indices: 8002155--8002237 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
8002145 TTTCAAAATG
* * *
8002155 ATGTATAGTAAAATTTTTTTGAATATAAC
1 ATGTATAATAAAATTTTTTTCAACATAAC
*
8002184 ATGTAGTAATAAAA-TTTTTTCAACATGAC
1 ATGTA-TAATAAAATTTTTTTCAACATAAC
* *
8002213 ATG--TAAT-AATTTTTTTTCAATATAA
1 ATGTATAATAAAATTTTTTTCAACATAA
8002238 TACAACAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 16 0.36
29 20 0.44
30 7 0.16
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (29 bp):
ATGTATAATAAAATTTTTTTCAACATAAC
Found at i:8002284 original size:29 final size:28
Alignment explanation
Indices: 8002169--8002319 Score: 89
Period size: 29 Copynumber: 5.5 Consensus size: 28
8002159 ATAGTAAAAT
* * * * *
8002169 TTTTTTGAATATAACATGTAGTAATAAAA
1 TTTTTTCAACATAGCATGTAATAAT-ATA
8002198 TTTTTTCAACAT-GACATGTAATAAT-T-
1 TTTTTTCAACATAG-CATGTAATAATATA
* ** * * *
8002224 TTTTTTCAATATA--ATACAACAATTTT
1 TTTTTTCAACATAGCATGTAATAATATA
8002250 TATTTTTCAACATAGCATGTAATAATAATA
1 T-TTTTTCAACATAGCATGTAATAAT-ATA
* * *
8002280 TTTTTTCAACATAGCTTGCAATAAT-TT
1 TTTTTTCAACATAGCATGTAATAATATA
*
8002307 TTTTTTTAACATA
1 TTTTTTCAACATA
8002320 ACGTGTAACA
Statistics
Matches: 95, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
24 7 0.07
25 1 0.01
26 12 0.13
27 24 0.25
29 49 0.52
30 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (28 bp):
TTTTTTCAACATAGCATGTAATAATATA
Found at i:8002312 original size:56 final size:53
Alignment explanation
Indices: 8002198--8002338 Score: 146
Period size: 53 Copynumber: 2.6 Consensus size: 53
8002188 AGTAATAAAA
*
8002198 TTTTTTCAACAT-GACATGTAATAATTTTTTTTCAATATAATACAACAATTTT
1 TTTTTTCAACATAGACATGTAATAATTTTTTTTCAACATAATACAACAATTTT
* * *
8002250 TATTTTTCAACATAG-CATGTAATAATAATATTTTTTCAACATAGCTTGCAATAATTTT
1 T-TTTTTCAACATAGACATGTAATAAT--T-TTTTTTCAACATA--ATACAACAATTTT
* *
8002308 TTTTTT-AACATA-ACGTGTAACAATTTTTTTT
1 TTTTTTCAACATAGACATGTAATAATTTTTTTT
8002339 TTACACTTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
52 1 0.01
53 28 0.37
54 2 0.03
55 1 0.01
56 27 0.36
57 5 0.07
58 11 0.15
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (53 bp):
TTTTTTCAACATAGACATGTAATAATTTTTTTTCAACATAATACAACAATTTT
Found at i:8002318 original size:27 final size:27
Alignment explanation
Indices: 8002198--8002341 Score: 98
Period size: 27 Copynumber: 5.3 Consensus size: 27
8002188 AGTAATAAAA
*
8002198 TTTTTTCAACAT-GACATGTAATAA-TT
1 TTTTTTTAACATAG-CATGTAATAATTT
* * ** *
8002224 TTTTTTCAATATA--ATACAACAATTT
1 TTTTTTTAACATAGCATGTAATAATTT
*
8002249 TTATTTTTCAACATAGCATGTAATAATAATA
1 TT-TTTTT-AACATAGCATGTAATAAT--TT
* * *
8002280 TTTTTTCAACATAGCTTGCAATAATTT
1 TTTTTTTAACATAGCATGTAATAATTT
* * *
8002307 TTTTTTTAACATAACGTGTAACAATTT
1 TTTTTTTAACATAGCATGTAATAATTT
8002334 TTTTTTTA
1 TTTTTTTA
8002342 CACTTGAATA
Statistics
Matches: 91, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
24 6 0.07
25 4 0.04
26 15 0.16
27 36 0.40
29 23 0.25
30 4 0.04
31 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (27 bp):
TTTTTTTAACATAGCATGTAATAATTT
Found at i:8002338 original size:82 final size:80
Alignment explanation
Indices: 8002168--8002339 Score: 184
Period size: 82 Copynumber: 2.1 Consensus size: 80
8002158 TATAGTAAAA
* * * *
8002168 TTTTTTTGAATATAACATGTAGTAATAAAATTTTTTCAACATGACATGTAATAATTTTTTTTCAA
1 TTTTTTTCAACATAACATGTAATAATAAAATTTTTTCAACATGACATGCAATAATTTTTTTTCAA
*
8002233 TATAATACAACAATTT
66 CATAATACAACAA-TT
* * *
8002249 TTATTTTTCAACATAGCATGTAATAATAATATTTTTTCAACAT-AGCTTGCAATAATTTTTTTTT
1 TT-TTTTTCAACATAACATGTAATAATAAAATTTTTTCAACATGA-CATGCAATAA-TTTTTTTT
* **
8002313 TAACATAACGTGTAACAATT
63 CAACATAA--TACAACAATT
8002333 TTTTTTT
1 TTTTTTT
8002340 TACACTTGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
81 3 0.04
82 43 0.57
83 19 0.25
84 4 0.05
85 6 0.08
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (80 bp):
TTTTTTTCAACATAACATGTAATAATAAAATTTTTTCAACATGACATGCAATAATTTTTTTTCAA
CATAATACAACAATT
Found at i:8008149 original size:2 final size:2
Alignment explanation
Indices: 8008142--8008166 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8008132 ATAGTATGCG
8008142 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8008167 CATCAATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8028971 original size:26 final size:26
Alignment explanation
Indices: 8028913--8028975 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
8028903 TATTCATAAA
* * *
8028913 ATTTAAA-TAATTTTTATTTTTTTGT
1 ATTTAAATTAAATTTTATATTTTTAT
8028938 ATTT-AATTAAATTTTATATTTTTAT
1 ATTTAAATTAAATTTTATATTTTTAT
*
8028963 TTTTAAATTAAAT
1 ATTTAAATTAAAT
8028976 AAATTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 2 0.06
25 22 0.69
26 8 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTAAATTAAATTTTATATTTTTAT
Found at i:8030008 original size:20 final size:19
Alignment explanation
Indices: 8029965--8030008 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
8029955 TCAATATTTC
*
8029965 AAAAGAAAACATAAATAGA
1 AAAAGAAAACATAAAAAGA
*
8029984 AAAAGAAATCAATAAAAAGA
1 AAAAGAAAAC-ATAAAAAGA
*
8030004 GAAAG
1 AAAAG
8030009 CTTGGACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.09
Consensus pattern (19 bp):
AAAAGAAAACATAAAAAGA
Found at i:8032850 original size:12 final size:13
Alignment explanation
Indices: 8032828--8032860 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8032818 GAATTAAAAA
*
8032828 AAAAAAAAGAAAG
1 AAAAGAAAGAAAG
8032841 -AAAGAAAGAAAG
1 AAAAGAAAGAAAG
8032853 AAAAGAAA
1 AAAAGAAA
8032861 AGCATAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:8033153 original size:6 final size:6
Alignment explanation
Indices: 8033136--8033168 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8033126 CAAAAAATCT
*
8033136 TTTCTC TCTCTC TTTCTC TTTCTC TTTCTC TTT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTT
8033169 GCGGAGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCTC
Found at i:8047518 original size:89 final size:89
Alignment explanation
Indices: 8047405--8047580 Score: 268
Period size: 89 Copynumber: 2.0 Consensus size: 89
8047395 TGTATGAATG
*
8047405 TACACAAACTCTTAATCCATAAAAAAAATT-ACAAACGTCT-AATTTAATATTAATTAATATTTT
1 TACACAAACTCTTAATCCATAAAAAAAATTAACAAACAT-TAAATTTAATATTAATTAATATTTT
8047468 CTATCAACC-AAACTTGAAAACATATT
65 CTATC-ACCGAAACTT-AAAACATATT
* *
8047494 TACACAAACTCTTAATCCATAAAAATAATTAACAAATATTAAATTTAATATTAATTAATATTTTC
1 TACACAAACTCTTAATCCATAAAAAAAATTAACAAACATTAAATTTAATATTAATTAATATTTTC
*
8047559 TATCACCGTAACTTAAAACATA
66 TATCACCGAAACTTAAAACATA
8047581 CCCGCTTATG
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
89 41 0.51
90 39 0.49
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.35
Consensus pattern (89 bp):
TACACAAACTCTTAATCCATAAAAAAAATTAACAAACATTAAATTTAATATTAATTAATATTTTC
TATCACCGAAACTTAAAACATATT
Found at i:8058094 original size:21 final size:21
Alignment explanation
Indices: 8058052--8058119 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
8058042 TTCCTTTGCA
*
8058052 TCTTCCACATCCT-TCTCCTCC
1 TCTTCCACATCCTCT-TCTTCC
*
8058073 TCTTCCACTTCCTCTTCTTCC
1 TCTTCCACATCCTCTTCTTCC
* * * *
8058094 TCCTCCTCCTCCTCTTCTTCT
1 TCTTCCACATCCTCTTCTTCC
8058115 TCTTC
1 TCTTC
8058120 TTTAGCATCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.04, C:0.50, G:0.00, T:0.46
Consensus pattern (21 bp):
TCTTCCACATCCTCTTCTTCC
Found at i:8058100 original size:15 final size:15
Alignment explanation
Indices: 8058061--8058104 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8058051 ATCTTCCACA
*
8058061 TCCTTCTCCTCCTCT
1 TCCTCCTCCTCCTCT
* * *
8058076 TCCACTTCCTCTTCT
1 TCCTCCTCCTCCTCT
8058091 TCCTCCTCCTCCTC
1 TCCTCCTCCTCCTC
8058105 CTCTTCTTCT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.43
Consensus pattern (15 bp):
TCCTCCTCCTCCTCT
Found at i:8062920 original size:2 final size:2
Alignment explanation
Indices: 8062905--8062944 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
8062895 AGAGATTAAA
8062905 AT AT -T AT A- 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
8062945 CACACGTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8075535 original size:18 final size:17
Alignment explanation
Indices: 8075506--8075556 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
8075496 AATTATTCAA
8075506 TAAAATTGTTAATTCTA-T
1 TAAAATT-TTAATT-TAGT
8075524 TAAATATTTTAATTTATGT
1 TAAA-ATTTTAATTTA-GT
8075543 TAAAATTTTAATTT
1 TAAAATTTTAATTT
8075557 CTTATAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.07
18 20 0.67
19 8 0.27
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
TAAAATTTTAATTTAGT
Found at i:8076731 original size:12 final size:12
Alignment explanation
Indices: 8076709--8076741 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8076699 ACGCAACCTT
8076709 AAAAC-AAAATA
1 AAAACAAAAATA
*
8076720 AAAATAAAAATA
1 AAAACAAAAATA
8076732 AAAACAAAAA
1 AAAACAAAAA
8076742 CGCAGCCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (12 bp):
AAAACAAAAATA
Found at i:8096110 original size:20 final size:22
Alignment explanation
Indices: 8096056--8096135 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 22
8096046 ATATTAGATA
* *
8096056 TATAAAATATGTATATTTTATTATT
1 TATAAAATA--TAT-TTTTATAAAT
*
8096081 TATTAAATATATTTTTA-AAAT
1 TATAAAATATATTTTTATAAAT
* *
8096102 TA-AAAATATATATTTATAATT
1 TATAAAATATATTTTTATAAAT
8096123 TATAAAAT-TATTT
1 TATAAAATATATTT
8096136 AAATTTTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
20 12 0.26
21 13 0.28
22 10 0.22
23 3 0.07
25 8 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TATAAAATATATTTTTATAAAT
Found at i:8096129 original size:22 final size:22
Alignment explanation
Indices: 8096056--8096130 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 22
8096046 ATATTAGATA
*
8096056 TATAAAATATGTATATTTTATTATT
1 TATAAAATA--TATA-TTTATAATT
* * *
8096081 TATTAAATATATTTTTA-AAAT
1 TATAAAATATATATTTATAATT
8096102 TA-AAAATATATATTTATAATT
1 TATAAAATATATATTTATAATT
8096123 TATAAAAT
1 TATAAAAT
8096131 TATTTAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
20 12 0.29
21 9 0.22
22 9 0.22
23 3 0.07
25 8 0.20
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TATAAAATATATATTTATAATT
Found at i:8105119 original size:2 final size:2
Alignment explanation
Indices: 8105112--8105144 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8105102 CAACCCCCAA
*
8105112 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8105145 GTCATGACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:8116790 original size:20 final size:21
Alignment explanation
Indices: 8116754--8116793 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8116744 TCGAAAGATG
*
8116754 TTCCAAAGATTGGAGTCAACA
1 TTCCAAAGATAGGAGTCAACA
8116775 TTCCAAA-ATAGGAGTCAAC
1 TTCCAAAGATAGGAGTCAAC
8116794 TACAATCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (21 bp):
TTCCAAAGATAGGAGTCAACA
Found at i:8117419 original size:2 final size:2
Alignment explanation
Indices: 8117412--8117450 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8117402 AAACATGCAT
8117412 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8117451 GTGATTTACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8120037 original size:36 final size:36
Alignment explanation
Indices: 8119990--8120109 Score: 170
Period size: 36 Copynumber: 3.3 Consensus size: 36
8119980 TTTTTTTTAT
8119990 ATGCCATCATCAACACCATCAATGCATGCCTTTTGA
1 ATGCCATCATCAACACCATCAATGCATGCCTTTTGA
* * * * *
8120026 ATGCCATCATCAACATCATC-ATACAATTCATTTTGC
1 ATGCCATCATCAACACCATCAATGC-ATGCCTTTTGA
*
8120062 ATGCCATCATCAACACCATCACTGCATGCCTTTTGA
1 ATGCCATCATCAACACCATCAATGCATGCCTTTTGA
8120098 ATGCCATCATCA
1 ATGCCATCATCA
8120110 TACAATTCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
35 3 0.04
36 66 0.93
37 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (36 bp):
ATGCCATCATCAACACCATCAATGCATGCCTTTTGA
Found at i:8124627 original size:348 final size:338
Alignment explanation
Indices: 8123975--8124627 Score: 785
Period size: 338 Copynumber: 1.9 Consensus size: 338
8123965 TTTAGTGTCG
* * *
8123975 TTTACTTTATTTTGTTTTGAGAGTTGCAAAAGAATTATAAAATTAGTATGATTTAGTTAAAATTT
1 TTTACTTTATTTTGTTTCGAGAGTTACAAAAGAATTATAAAATTAGTATGACTTAGTTAAAATTT
* *
8124040 ATACACTAACAATGAATCAAATATAAATTCATGTGTTTTGAACTATATATGAATACATGTATACT
66 ATACACTAACAATGAATCAAATATAAATTCATATATTTTGAACTATATATGAATACATGTATACT
** * * * * *
8124105 TGTTGTTAATAATGAGTTTCGGGGTTCGAGTCATGATCAAAATCGAATCTAAAACTATAGATTTA
131 TGTCATCAATAATGAATTTCGGGATTCGAGTCATGATCAAAATCGAACCTAAAACTATAAATTTA
* * *
8124170 GTGTTTATTTTACTTTGAGGGTTCCAAAAGAATTTTAAAATTAGTATGACTTAGTTAAAATTTAT
196 GTGTTTATTTTACTTTGAGGATTCCAAAAAAATTATAAAATTAGTATGACTTAGTTAAAA-TTAT
* *
8124235 ATACTAATAATGCATCAAATATAAATTTGTATGCTGTCAATTATACATGAATGATCAAAATCCAA
260 ATACTAATAATACATCAAATATAAATTTATATGCTGTCAATTATACATGAATGATCAAAATCCAA
8124300 CCAAAAACTATACA
325 CCAAAAACTATACA
* * *
8124314 TTTACTTTATTTTGTTTCGA-AGATTACAAAAGAATTATGAAATTGGTGTGACTTAGTTAAAATT
1 TTTACTTTATTTTGTTTCGAGAG-TTACAAAAGAATTATAAAATTAGTATGACTTAGTTAAAATT
* * * *
8124378 TATACA-TGATAAT-ATATCAAATATAAATTCGTATATTTTGAATTATATATGAATACATGTATA
65 TATACACTAACAATGA-ATCAAATATAAATTCATATATTTTGAACTATATATGAATACATGTATA
* * * * *
8124441 TTTGTCATCGATAATTAATTTCGGGATTTGAGAATCGTGATCAAAATCGAACCTAAAACTATAAA
129 CTTGTCATCAATAATGAATTTCGGGATTCGAG--TCATGATCAAAATCGAACCTAAAACTATAAA
* ** * *
8124506 TTTATTGTCTTTTATTTTATTTCGTTTTGAGGATTGTAAAAAAATTATAAAATTATTATGA-TTT
192 TTTA--GT-GTTTATTTTA---C--TTTGAGGATTCCAAAAAAATTATAAAATTAGTATGACTTA
* * * *
8124570 GATTAAAA-TATATACATCGATAATATATCAAATATAAATTTATATGCTTTGAATTATA
249 G-TTAAAATTATATAC-T-AATAATACATCAAATATAAATTTATATGCTGTCAATTATA
8124628 TACAAATGCA
Statistics
Matches: 261, Mismatches: 38, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
337 1 0.00
338 74 0.28
339 61 0.23
340 32 0.12
342 2 0.01
343 9 0.03
346 8 0.03
347 4 0.02
348 70 0.27
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (338 bp):
TTTACTTTATTTTGTTTCGAGAGTTACAAAAGAATTATAAAATTAGTATGACTTAGTTAAAATTT
ATACACTAACAATGAATCAAATATAAATTCATATATTTTGAACTATATATGAATACATGTATACT
TGTCATCAATAATGAATTTCGGGATTCGAGTCATGATCAAAATCGAACCTAAAACTATAAATTTA
GTGTTTATTTTACTTTGAGGATTCCAAAAAAATTATAAAATTAGTATGACTTAGTTAAAATTATA
TACTAATAATACATCAAATATAAATTTATATGCTGTCAATTATACATGAATGATCAAAATCCAAC
CAAAAACTATACA
Found at i:8125181 original size:15 final size:15
Alignment explanation
Indices: 8125161--8125242 Score: 56
Period size: 15 Copynumber: 5.0 Consensus size: 15
8125151 ATTGTACGGA
8125161 TATTTATCAAAATGT
1 TATTTATCAAAATGT
* *
8125176 TATTTATGAAAATAT
1 TATTTATCAAAATGT
*
8125191 GATATTATCGTAATTAATGT
1 TAT-TTATC--AA--AATGT
*
8125211 GATATTTATCAAAACGT
1 --TATTTATCAAAATGT
*
8125228 TATTTATGAAAATGT
1 TATTTATCAAAATGT
8125243 GATGATAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
15 28 0.55
16 4 0.08
17 4 0.08
18 2 0.04
19 2 0.04
20 4 0.08
21 5 0.10
22 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (15 bp):
TATTTATCAAAATGT
Found at i:8148001 original size:15 final size:15
Alignment explanation
Indices: 8147981--8148010 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8147971 AAAGCCTTCC
8147981 ATTTCATTAGTTTCA
1 ATTTCATTAGTTTCA
8147996 ATTTCATTAGTTTCA
1 ATTTCATTAGTTTCA
8148011 TGGCTTGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTCATTAGTTTCA
Found at i:8155112 original size:49 final size:49
Alignment explanation
Indices: 8155055--8155154 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
8155045 TGATTGTGGG
8155055 ATGGAGTTTACTTTGCTAGGTTGAACCATCAATGCACATCCAATTTCTA
1 ATGGAGTTTACTTTGCTAGGTTGAACCATCAATGCACATCCAATTTCTA
8155104 ATGGAGTTTACTTTGCTAGGTTGAACCATCAATGCACATCCAATTTCTA
1 ATGGAGTTTACTTTGCTAGGTTGAACCATCAATGCACATCCAATTTCTA
8155153 AT
1 AT
8155155 TTTGTTTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (49 bp):
ATGGAGTTTACTTTGCTAGGTTGAACCATCAATGCACATCCAATTTCTA
Found at i:8161702 original size:16 final size:16
Alignment explanation
Indices: 8161656--8161704 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
8161646 TTCATTAACA
8161656 AATATTTTTTAATATTT
1 AATATTTTTTAATA-TT
* *
8161673 AA-ATAATTTAAATATT
1 AATAT-TTTTTAATATT
8161689 AATATTTTTTAATATT
1 AATATTTTTTAATATT
8161705 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATATTTTTTAATATT
Found at i:8161716 original size:30 final size:31
Alignment explanation
Indices: 8161656--8161724 Score: 104
Period size: 30 Copynumber: 2.2 Consensus size: 31
8161646 TTCATTAACA
*
8161656 AATATTTTTTAATATTTAAATAATTTAAATATT
1 AATATTTTTTAATATTT--ATAAATTAAATATT
8161689 AATATTTTTTAATATTT-TAAATTAAATATT
1 AATATTTTTTAATATTTATAAATTAAATATT
8161719 AATATT
1 AATATT
8161725 CATTGAACCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 18 0.51
33 17 0.49
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
AATATTTTTTAATATTTATAAATTAAATATT
Found at i:8161877 original size:20 final size:20
Alignment explanation
Indices: 8161849--8161892 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
8161839 TTAATCCTTA
8161849 AAATGTTTTACTTT-TAAAAT
1 AAATGTTTTA-TTTATAAAAT
* *
8161869 AAATTTTTTATTTATTAAAT
1 AAATGTTTTATTTATAAAAT
8161889 AAAT
1 AAAT
8161893 ATACATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATGTTTTATTTATAAAAT
Found at i:8162012 original size:4 final size:4
Alignment explanation
Indices: 8162003--8162033 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
8161993 TCTTTTTTGC
8162003 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
8162034 AAGATATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:8178893 original size:16 final size:16
Alignment explanation
Indices: 8178872--8178902 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8178862 TTAATGTCCC
8178872 GTTTCTCTGTAGATGT
1 GTTTCTCTGTAGATGT
8178888 GTTTCTCTGTAGATG
1 GTTTCTCTGTAGATG
8178903 GTTGAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (16 bp):
GTTTCTCTGTAGATGT
Found at i:8184742 original size:15 final size:15
Alignment explanation
Indices: 8184722--8184751 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8184712 ATTAAAAACC
8184722 TTATAATAATAATAA
1 TTATAATAATAATAA
*
8184737 TTATAATTATAATAA
1 TTATAATAATAATAA
8184752 AAACATAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTATAATAATAATAA
Found at i:8185002 original size:26 final size:27
Alignment explanation
Indices: 8184973--8185031 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
8184963 GTCACTTTAT
8184973 AAATATATAAAATTT-ATTTATTAACA
1 AAATATATAAAATTTAATTTATTAACA
* *
8184999 AAATA-ATAATATTTAATTTATTAATA
1 AAATATATAAAATTTAATTTATTAACA
*
8185025 ATATATA
1 AAATATA
8185032 AATACTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 19 0.68
27 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
AAATATATAAAATTTAATTTATTAACA
Found at i:8185865 original size:2 final size:2
Alignment explanation
Indices: 8185860--8185928 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
8185850 CCTTGGAGAT
8185860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8185902 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8185929 GTGTGTGTGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8187726 original size:2 final size:2
Alignment explanation
Indices: 8187719--8187754 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8187709 TACTTTAGCT
8187719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8187755 ATTCCTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8188067 original size:19 final size:18
Alignment explanation
Indices: 8188043--8188090 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
8188033 ATTATTAATG
*
8188043 AAAATTAAATTAATAAATT
1 AAAATTAAATTAATAAA-A
*
8188062 AAAATT-AATTCATAAAA
1 AAAATTAAATTAATAAAA
8188079 ATAAATTAAATT
1 A-AAATTAAATT
8188091 TCAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTAAATTAATAAAA
Found at i:8189583 original size:84 final size:85
Alignment explanation
Indices: 8189486--8189668 Score: 296
Period size: 85 Copynumber: 2.2 Consensus size: 85
8189476 TTGCTTCATA
* * * *
8189486 TATATATATATATAATTGGAAGATATTTGAATTTTACTTTTTAT-AGAAAATTATTTATAAATTA
1 TATATATACATATAATTGGAAGACATTTAAATTTTACTTTTTATAAAAAAATTATTTATAAATTA
*
8189550 ATAAATTAAATATTTAAATG
66 ATAAATTAAATATTCAAATG
*
8189570 TATATATACATATAATTGGAAGACATTTAAATTTTACTTTTTGTAAAAAAATTATTTATAAATTA
1 TATATATACATATAATTGGAAGACATTTAAATTTTACTTTTTATAAAAAAATTATTTATAAATTA
8189635 ATAAATTAAATATTCAAATG
66 ATAAATTAAATATTCAAATG
*
8189655 TGTATATACATATA
1 TATATATACATATA
8189669 TGAAAAATAA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 40 0.44
85 51 0.56
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (85 bp):
TATATATACATATAATTGGAAGACATTTAAATTTTACTTTTTATAAAAAAATTATTTATAAATTA
ATAAATTAAATATTCAAATG
Found at i:8192574 original size:7 final size:6
Alignment explanation
Indices: 8192542--8192579 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
8192532 GAACAAAGAA
*
8192542 ACAATT ACAATT AC-ATT ACGATT ACAAATT ACAATT AC
1 ACAATT ACAATT ACAATT ACAATT AC-AATT ACAATT AC
8192580 GATGCACTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (6 bp):
ACAATT
Found at i:8193193 original size:34 final size:33
Alignment explanation
Indices: 8193121--8193207 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 33
8193111 TTTTAATGTC
* *
8193121 ATATATTTTATTTTCATTTCTTATTATAATCTT
1 ATATATTTTATTTTTATTTCTTAATATAATCTT
* *
8193154 ATATATTTTATTTTTATTGTTTTAATATAATTTT
1 ATATATTTTATTTTTATT-TCTTAATATAATCTT
* *
8193188 TTATATTATATATTTTATTT
1 ATATATTTTAT-TTTTATTT
8193208 TAATTTCTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 17 0.37
34 22 0.48
35 7 0.15
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTCTTAATATAATCTT
Done.