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 18 of 19
Found at i:8193203 original size:27 final size:28
Alignment explanation
Indices: 8193173--8193261 Score: 71
Period size: 30 Copynumber: 3.2 Consensus size: 28
8193163 ATTTTTATTG
8193173 TTTTAATATAATTT-TTTATAT-TATATA
1 TTTTAATATAATTTCTTT-TATCTATATA
* *
8193200 TTTTATTTTAATTTCTTTTATCTATATTA
1 TTTTAATATAATTTCTTTTATCTATA-TA
** *
8193229 TATAAAATTTAATTTCTTTTAT-T-T-TA
1 T-TTTAATATAATTTCTTTTATCTATATA
8193255 TTTTAAT
1 TTTTAAT
8193262 TTTTAATTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.08
26 3 0.06
27 15 0.29
28 8 0.16
29 4 0.08
30 17 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTAATATAATTTCTTTTATCTATATA
Found at i:8193318 original size:41 final size:41
Alignment explanation
Indices: 8193143--8193318 Score: 112
Period size: 41 Copynumber: 4.3 Consensus size: 41
8193133 TTCATTTCTT
* * *
8193143 ATTATAATCTTATATATTTTATTTT-TATTGTTTTAATATA
1 ATTATAATATTATATATTTTATTTTATATTATTTTATTATA
* * *
8193183 ATTTTTTATATTATATATTTTATTTTA-ATTTCTTTTATCTATA
1 A-TTATAATATTATATATTTTATTTTATA-TTATTTTAT-TATA
* * * * *
8193226 TTATATAAAATT-TA-A-TTTCTTTTATTTTATTTTAATTTTTA
1 AT-TATAATATTATATATTTTATTTTATATTATTTT-A-TTATA
* * * *
8193267 ATTCTTATATTGTATATTTTATTTTAATATT-TTTTATTTTA
1 ATTATAATATTATATATTTTATTTT-ATATTATTTTATTATA
8193308 ATTATAATATT
1 ATTATAATATT
8193319 CCAAAATATT
Statistics
Matches: 103, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
40 21 0.20
41 44 0.43
42 13 0.13
43 21 0.20
44 4 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (41 bp):
ATTATAATATTATATATTTTATTTTATATTATTTTATTATA
Found at i:8195683 original size:27 final size:27
Alignment explanation
Indices: 8195630--8195716 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
8195620 TATATTCTTT
* ** *
8195630 TAAAAAATTAAAATAAATTATATAATA
1 TAAAAAATTATAATAAAAAATAAAATA
*
8195657 TAAAAAATTATATTAAAAAATAAAATAAAA
1 TAAAAAATTATAATAAAAAATAAAAT---A
8195687 TATATAAAATTATAAT-AAAAATAAAATA
1 TA-A-AAAATTATAATAAAAAATAAAATA
8195715 TA
1 TA
8195717 TGATATTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 21 0.43
28 3 0.06
30 3 0.06
31 12 0.24
32 10 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAAAAATTATAATAAAAAATAAAATA
Found at i:8195703 original size:20 final size:20
Alignment explanation
Indices: 8195633--8195706 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
8195623 ATTCTTTTAA
*
8195633 AAAATTAAAATAAATTATAT
1 AAAATTAAAATAAAATATAT
* *
8195653 AATA-T-AAA-AAATTATATT
1 AAAATTAAAATAAAATATA-T
*
8195671 AAAAAATAAAATAAAATATAT
1 -AAAATTAAAATAAAATATAT
*
8195692 AAAATTATAATAAAA
1 AAAATTAAAATAAAA
8195707 ATAAAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 4 0.09
20 17 0.39
21 4 0.09
22 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAAAATAAAATATAT
Found at i:8195727 original size:32 final size:33
Alignment explanation
Indices: 8195639--8195779 Score: 123
Period size: 32 Copynumber: 4.4 Consensus size: 33
8195629 TTAAAAAATT
* *
8195639 AAAATAAATTATATAATATAAAAAATTATATTAA
1 AAAATAAAATATATAATATAAAAAATTATAAT-A
*
8195673 AAAATAAAATA-A-AATATATAAAATTATAATA
1 AAAATAAAATATATAATATAAAAAATTATAATA
* * * *
8195704 AAAATAAAATATATGATATTAAAAA-TATATTT
1 AAAATAAAATATATAATATAAAAAATTATAATA
* *
8195736 AAAATATAATAT-T-GTAT-AAAAATTAATAATA
1 AAAATAAAATATATAATATAAAAAATT-ATAATA
*
8195767 TAAATATAAATAT
1 AAAATA-AAATAT
8195780 TTTAAACTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
29 5 0.06
30 4 0.05
31 22 0.25
32 38 0.43
33 9 0.10
34 10 0.11
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (33 bp):
AAAATAAAATATATAATATAAAAAATTATAATA
Found at i:8195772 original size:63 final size:65
Alignment explanation
Indices: 8195639--8195779 Score: 162
Period size: 63 Copynumber: 2.2 Consensus size: 65
8195629 TTAAAAAATT
*
8195639 AAAATAAATTATATAATATAAAAAATTATATTAAAAAATAAAATAAAATATATAAAATTATAATA
1 AAAATAAAATATATAATATAAAAAATTATATTAAAAAATAAAATAAAATATATAAAATTATAATA
* * * * ***
8195704 AAAATAAAATATATGATATTAAAAA-TATATT-TAAAATATAATATTGTATA-AAAATTAATAAT
1 AAAATAAAATATATAATATAAAAAATTATATTAAAAAATAAAATAAAATATATAAAATT-ATAAT
8195766 A
65 A
*
8195767 TAAATATAAATAT
1 AAAATA-AAATAT
8195780 TTTAAACTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
62 6 0.09
63 25 0.38
64 12 0.18
65 22 0.34
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (65 bp):
AAAATAAAATATATAATATAAAAAATTATATTAAAAAATAAAATAAAATATATAAAATTATAATA
Found at i:8195831 original size:20 final size:19
Alignment explanation
Indices: 8195802--8195849 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8195792 TTTTAATAAA
8195802 TATAATTTTAACAATTAATAT
1 TATAATTTTAACAA--AATAT
*
8195823 TAT-ATTTTAATAAAATAT
1 TATAATTTTAACAAAATAT
8195841 TATAATTTT
1 TATAATTTT
8195850 TTATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 9 0.36
21 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATAATTTTAACAAAATAT
Found at i:8195839 original size:18 final size:18
Alignment explanation
Indices: 8195787--8195849 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
8195777 TATTTTAAAC
8195787 TTATATTTTAAT-AAATA
1 TTATATTTTAATAAAATA
*
8195804 -TA-ATTTTAACAATTAATA
1 TTATATTTTAATAA--AATA
8195822 TTATATTTTAATAAAATA
1 TTATATTTTAATAAAATA
8195840 TTATAATTTT
1 TTAT-ATTTT
8195850 TTATATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.18
16 3 0.08
18 12 0.32
19 7 0.18
20 9 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATTTTAATAAAATA
Found at i:8195896 original size:23 final size:23
Alignment explanation
Indices: 8195838--8195896 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
8195828 TTTAATAAAA
* * *
8195838 TATTATAATTTTTTATATTTTAAT
1 TATTATAA-TATTTATATATTAAG
**
8195862 TATTATTTTATTTATATATTAAG
1 TATTATAATATTTATATATTAAG
8195885 TATTATAATATT
1 TATTATAATATT
8195897 ATTTTTATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTATAATATTTATATATTAAG
Found at i:8195920 original size:15 final size:15
Alignment explanation
Indices: 8195850--8195944 Score: 65
Period size: 15 Copynumber: 6.5 Consensus size: 15
8195840 TTATAATTTT
* *
8195850 TTATATT-TTAATTA
1 TTATATTATTTATAA
*
8195864 TTATTTTATTTATATA
1 TTATATTATTTATA-A
*
8195880 TTA-AGTA-TTATAA
1 TTATATTATTTATAA
8195893 -TATTATT-TTTATAA
1 TTA-TATTATTTATAA
8195907 TTATATTATTTATAA
1 TTATATTATTTATAA
* * *
8195922 TTACAATACTTATAA
1 TTATATTATTTATAA
*
8195937 TTAGATTA
1 TTATATTA
8195945 CATTGTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
12 2 0.03
13 1 0.02
14 23 0.37
15 33 0.52
16 4 0.06
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTATATTATTTATAA
Found at i:8198754 original size:15 final size:15
Alignment explanation
Indices: 8198736--8198779 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
8198726 CATCAAAGTA
*
8198736 ATCATCATCATCTCC
1 ATCATCATCACCTCC
8198751 ATCATCATCACCTCC
1 ATCATCATCACCTCC
8198766 ATC-TC--CACCTCC
1 ATCATCATCACCTCC
8198778 AT
1 AT
8198780 GGTTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCATCATCACCTCC
Found at i:8203823 original size:2 final size:2
Alignment explanation
Indices: 8203818--8203850 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8203808 TATGTATATA
8203818 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
8203851 CCAACTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:8213413 original size:2 final size:2
Alignment explanation
Indices: 8213408--8213434 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8213398 TATTCACATC
8213408 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 A
8213435 AAAAATAACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8217658 original size:29 final size:29
Alignment explanation
Indices: 8217636--8217701 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
8217626 ATAAAGGGAT
*
8217636 TAAATTGACTAATTTTGAGATAAAAGAAC
1 TAAATTGACTAATTTTAAGATAAAAGAAC
* *
8217665 TAAATTGACTAGTTTTAAGATAGAA-AAC
1 TAAATTGACTAATTTTAAGATAAAAGAAC
8217693 TAAATTGAC
1 TAAATTGAC
8217702 GAAAACCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 12 0.35
29 22 0.65
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (29 bp):
TAAATTGACTAATTTTAAGATAAAAGAAC
Found at i:8221080 original size:2 final size:2
Alignment explanation
Indices: 8221075--8221104 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8221065 GATTTCACAC
8221075 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
8221105 TAGTGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8221990 original size:30 final size:30
Alignment explanation
Indices: 8221931--8221990 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8221921 ATATTTTTGT
* *
8221931 TTTTTATTTCAAATTAAGTAAATTATTATA
1 TTTTTATTTCAAATAAAATAAATTATTATA
*
8221961 TTTTTATTTTAAATAAAATAAAATT-TTATA
1 TTTTTATTTCAAATAAAAT-AAATTATTATA
8221991 ATTAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TTTTTATTTCAAATAAAATAAATTATTATA
Found at i:8222082 original size:21 final size:21
Alignment explanation
Indices: 8222040--8222079 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8222030 ATATCATGTG
* *
8222040 ATATTAATATAATATATCAAT
1 ATATTAAAATAATATATAAAT
8222061 ATATTAAAATAATA-ATAAA
1 ATATTAAAATAATATATAAA
8222080 ATAGTATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTAAAATAATATATAAAT
Found at i:8244483 original size:18 final size:18
Alignment explanation
Indices: 8244460--8244496 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8244450 CACCCTCTCA
8244460 CATGTTTATGTATGCATG
1 CATGTTTATGTATGCATG
* *
8244478 CATGTTTTTGTATGTATG
1 CATGTTTATGTATGCATG
8244496 C
1 C
8244497 TATACTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.49
Consensus pattern (18 bp):
CATGTTTATGTATGCATG
Found at i:8244533 original size:19 final size:19
Alignment explanation
Indices: 8244511--8244553 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
8244501 CTACATGTTT
8244511 ATATCCATGT-ACTATGTGC
1 ATATCCATGTCA-TATGTGC
* *
8244530 ATATGCATGTCATATGTGT
1 ATATCCATGTCATATGTGC
8244549 ATATC
1 ATATC
8244554 TGGTGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
ATATCCATGTCATATGTGC
Found at i:8245519 original size:2 final size:2
Alignment explanation
Indices: 8245514--8245547 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8245504 AGAGAGGAGA
8245514 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
8245548 TCAAGTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8253628 original size:74 final size:71
Alignment explanation
Indices: 8253543--8253700 Score: 178
Period size: 71 Copynumber: 2.2 Consensus size: 71
8253533 ATGTATATAT
8253543 AATAGATTAATATAACATGTAATCAAG-CATTTTCCAGAAAGAAA-TTG-TCGAAGTCAAGCCCC
1 AATAGATTAATATAAC-TGTAA--AAGACA--TTCCAGAAAGAAATTTGAT-GAAGTCAAGCCCC
* *
8253605 AGGATAAGTAAC
60 AGAATAAGTAAA
* * * *
8253617 AATAGATTAATATCACTTTAAGAGACATTCCATAAAGAAATTTGATGAAGTCAAGCCCCAGAATA
1 AATAGATTAATATAACTGTAAAAGACATTCCAGAAAGAAATTTGATGAAGTCAAGCCCCAGAATA
*
8253682 GGTAAA
66 AGTAAA
8253688 AATAGATTAATAT
1 AATAGATTAATAT
8253701 CACTTTAAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
70 12 0.16
71 40 0.54
72 3 0.04
73 4 0.05
74 15 0.20
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (71 bp):
AATAGATTAATATAACTGTAAAAGACATTCCAGAAAGAAATTTGATGAAGTCAAGCCCCAGAATA
AGTAAA
Found at i:8253692 original size:71 final size:70
Alignment explanation
Indices: 8253574--8253709 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 70
8253564 ATCAAGCATT
* *
8253574 TTCCAGAAAGAAATTGTCGAAGTCAAGCCCCAGGATAAGTAACAATAGATTAATATCACTTTAAG
1 TTCCAGAAAGAAATTGTCGAAGTCAAGCCCCAGAATAAGTAAAAATAGATTAATATCACTTTAAG
8253639 AGACA
66 AGACA
* *
8253644 TTCCATAAAGAAATTTGAT-GAAGTCAAGCCCCAGAATAGGTAAAAATAGATTAATATCACTTTA
1 TTCCAGAAAGAAA-TTG-TCGAAGTCAAGCCCCAGAATAAGTAAAAATAGATTAATATCACTTTA
8253708 AG
64 AG
8253710 CCGAGTTGAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 12 0.20
71 47 0.78
72 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (70 bp):
TTCCAGAAAGAAATTGTCGAAGTCAAGCCCCAGAATAAGTAAAAATAGATTAATATCACTTTAAG
AGACA
Found at i:8259557 original size:5 final size:5
Alignment explanation
Indices: 8259547--8259595 Score: 73
Period size: 5 Copynumber: 10.0 Consensus size: 5
8259537 ACTGGCACTT
* *
8259547 AAATA AAATA AAATA AAATA AAATA TAA-A ATATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
8259596 TAAAAGCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
4 2 0.05
5 37 0.95
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:8259585 original size:24 final size:24
Alignment explanation
Indices: 8259554--8259600 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8259544 CTTAAATAAA
8259554 ATAAAATAAAATAAAATATAAAAT
1 ATAAAATAAAATAAAATATAAAAT
8259578 ATAAAATAAAATAAAATATAAAA
1 ATAAAATAAAATAAAATATAAAA
8259601 GCAAGAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (24 bp):
ATAAAATAAAATAAAATATAAAAT
Found at i:8259921 original size:28 final size:29
Alignment explanation
Indices: 8259890--8259946 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8259880 TATTTAAAAA
8259890 ATTTAAAT-AATTTCTTAT-TTTTTATTAT
1 ATTTAAATAAATTT-TTATATTTTTATTAT
*
8259918 ATTTAATTAAATTTTTATATTTTTATTAT
1 ATTTAAATAAATTTTTATATTTTTATTAT
8259947 TAATATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTTAAATAAATTTTTATATTTTTATTAT
Found at i:8269288 original size:34 final size:34
Alignment explanation
Indices: 8269250--8269331 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
8269240 TTCCACCATA
8269250 AGACATGATTTTTTTTTATTTTTTTATTTTCGAT
1 AGACATGATTTTTTTTTATTTTTTTATTTTCGAT
8269284 AGACATGATTTTTTTTTATTTTTTTATTTTCGAT
1 AGACATGATTTTTTTTTATTTTTTTATTTTCGAT
* *
8269318 AGATATGACTTTTT
1 AGACATGATTTTTT
8269332 CTTTGTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.22, C:0.06, G:0.10, T:0.62
Consensus pattern (34 bp):
AGACATGATTTTTTTTTATTTTTTTATTTTCGAT
Found at i:8281778 original size:20 final size:21
Alignment explanation
Indices: 8281742--8281783 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
8281732 TTAAAATCTG
*
8281742 TTAAATATTTAATTAAATAAT
1 TTAAATATTTAATTAAAAAAT
8281763 TTAAA-ATTT-ATATAAAAAAT
1 TTAAATATTTAAT-TAAAAAAT
8281783 T
1 T
8281784 AATTTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 2 0.11
20 12 0.63
21 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAATATTTAATTAAAAAAT
Found at i:8293678 original size:102 final size:102
Alignment explanation
Indices: 8293541--8293749 Score: 296
Period size: 102 Copynumber: 2.0 Consensus size: 102
8293531 GTCAACCTTA
* * ** *
8293541 TCTGAAGACGAATTATCAGGAGCAAACCTGGCAGATAGAACTCAAGTCTTGCAGCTTCAAGATGA
1 TCTGAAGACGAATTATCAGGAGAAAACCTAGCAGATAGAACTCAAGTCTCCCAGCTTCAAGAGGA
* *
8293606 AGTAGATGAAAGAAAGCATGACAGTGTACTTCATCAG
66 AGTAGATCAAAGAAAGCACGACAGTGTACTTCATCAG
*
8293643 TCTGAAGACGAATTATCCA-GA-AAAAGCCTAGCAGATAGAACTCAAGTCTCCCAGCTTCAAGGG
1 TCTGAAGACGAATTAT-CAGGAGAAAA-CCTAGCAGATAGAACTCAAGTCTCCCAGCTTCAAGAG
* *
8293706 GAAGTAGATCAAGGAAAGCACGACAGTGTACTTCATCTG
64 GAAGTAGATCAAAGAAAGCACGACAGTGTACTTCATCAG
8293745 TCTGA
1 TCTGA
8293750 GAATCCAAAG
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
101 3 0.03
102 90 0.95
103 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (102 bp):
TCTGAAGACGAATTATCAGGAGAAAACCTAGCAGATAGAACTCAAGTCTCCCAGCTTCAAGAGGA
AGTAGATCAAAGAAAGCACGACAGTGTACTTCATCAG
Found at i:8295188 original size:68 final size:68
Alignment explanation
Indices: 8295109--8295280 Score: 247
Period size: 68 Copynumber: 2.5 Consensus size: 68
8295099 TAATTATTTT
* * **
8295109 AAAAAAATGATCATGATGAGTTTGAGATTAATAATGATTTTTGTGAATAATAATCACTTAAAATT
1 AAAAAAATGATCTTGACGAGTTTGAGATTAATAATGATCATTGTGAATAATAATCACTTAAAA-T
8295174 AA-A
65 AATA
* *
8295177 AAAAAAATGATCTTGACAAGTTTGAGATTAATATTGATCATTGTGAATAATAATCACTTAAAATA
1 AAAAAAATGATCTTGACGAGTTTGAGATTAATAATGATCATTGTGAATAATAATCACTTAAAATA
8295242 ATA
66 ATA
* *
8295245 AAAAAAATAAGTCTTGACGAATTTGAGATTAATAAT
1 AAAAAAATGA-TCTTGACGAGTTTGAGATTAATAAT
8295281 TTTGATGATT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
67 3 0.03
68 67 0.73
69 22 0.24
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (68 bp):
AAAAAAATGATCTTGACGAGTTTGAGATTAATAATGATCATTGTGAATAATAATCACTTAAAATA
ATA
Found at i:8295454 original size:81 final size:81
Alignment explanation
Indices: 8295291--8295453 Score: 247
Period size: 80 Copynumber: 2.0 Consensus size: 81
8295281 TTTGATGATT
* * *
8295291 AACAATAATTGTTGTGACTAATAATCACTCAAAACAATAAAAAGAAATGTTTCCGACAAGTTAGT
1 AACAATAATTATTGTGAATAATAATCACTCAAAACAATAAAAAGAAATGTTTCCAACAAGTTAGT
8295356 GGTCATGAAGATTAAA
66 GGTCATGAAGATTAAA
* * * * *
8295372 AACAATAATTATTGTGAATAATAGTCATTCAAAAC-GTAAAAAGAAATGTTTTCAACAAGTTGGT
1 AACAATAATTATTGTGAATAATAATCACTCAAAACAATAAAAAGAAATGTTTCCAACAAGTTAGT
8295436 GGTCATGAAGATTAAA
66 GGTCATGAAGATTAAA
8295452 AA
1 AA
8295454 AAAAACATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 43 0.58
81 31 0.42
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (81 bp):
AACAATAATTATTGTGAATAATAATCACTCAAAACAATAAAAAGAAATGTTTCCAACAAGTTAGT
GGTCATGAAGATTAAA
Found at i:8295782 original size:24 final size:23
Alignment explanation
Indices: 8295732--8295781 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
8295722 AAAAAAAATT
8295732 AAAATATTTTTTAATTAATTTAA
1 AAAATATTTTTTAATTAATTTAA
**
8295755 AAAATATTATTTT-ATTTTTTTAA
1 AAAATATT-TTTTAATTAATTTAA
8295778 AAAA
1 AAAA
8295782 AAATAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAAATATTTTTTAATTAATTTAA
Found at i:8323475 original size:5 final size:5
Alignment explanation
Indices: 8323461--8323519 Score: 63
Period size: 5 Copynumber: 12.4 Consensus size: 5
8323451 TAACATATCT
*
8323461 TAAT- TAATA TAATA TAATA TAATA T-AT- TAATA TATTA TAATA -AATAA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A
*
8323508 TAACA TAATA TA
1 TAATA TAATA TA
8323520 TTAATCTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
3 1 0.02
4 11 0.24
5 32 0.70
6 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:8323489 original size:23 final size:21
Alignment explanation
Indices: 8323461--8323519 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
8323451 TAACATATCT
8323461 TAATTAATATAATATAATATAA
1 TAATTAATATAATATAATA-AA
*
8323483 TATATTAATATATTATAATAAA
1 TA-ATTAATATAATATAATAAA
*
8323505 TAA-TAACATAATATA
1 TAATTAATATAATATA
8323520 TTAATCTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.30
21 1 0.03
22 6 0.18
23 16 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATTAATATAATATAATAAA
Found at i:8328742 original size:7 final size:7
Alignment explanation
Indices: 8328730--8328764 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
8328720 ACAGCAACAA
8328730 CAAAAAC
1 CAAAAAC
8328737 CAAAAAC
1 CAAAAAC
8328744 CAAAAAC
1 CAAAAAC
*
8328751 CCAAAAC
1 CAAAAAC
*
8328758 CCAAAAC
1 CAAAAAC
8328765 AGCCCCCCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAC
Found at i:8338507 original size:54 final size:53
Alignment explanation
Indices: 8338431--8338608 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 53
8338421 ATTTGCCTTG
* *
8338431 ATATTTAGCAAATAATTAGATATTGTTTCCTTTAAGCTTTTGTTATTTGCTTTC-
1 ATATTAAGCAAATAATTGGATATTGTTT-CTTTAAGCTTTTGTTATTTGC-TTCA
* * * * *
8338485 ATATTAAGCAAATAATTGGATATTGTTTACGTTAGGCTTTTGTCATTTACTTCG
1 ATATTAAGCAAATAATTGGATATTGTTT-CTTTAAGCTTTTGTTATTTGCTTCA
*
8338539 ATATTAAGCAAATAATTGGATATTGTTTCTGCTAAGCTTTTGTTATTTGCTTCA
1 ATATTAAGCAAATAATTGGATATTGTTTCT-TTAAGCTTTTGTTATTTGCTTCA
* *
8338593 ATAATAAACAAATAAT
1 ATATTAAGCAAATAAT
8338609 ACTTAAATCT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 4 0.04
54 103 0.96
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (53 bp):
ATATTAAGCAAATAATTGGATATTGTTTCTTTAAGCTTTTGTTATTTGCTTCA
Found at i:8339120 original size:32 final size:32
Alignment explanation
Indices: 8339084--8339148 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8339074 TAAATGGAGT
8339084 ATTAACAGTTTGTACTGATTGATGGATATGTA
1 ATTAACAGTTTGTACTGATTGATGGATATGTA
* *
8339116 ATTAATAGTTTGTATTGATTGATGGATATGTA
1 ATTAACAGTTTGTACTGATTGATGGATATGTA
8339148 A
1 A
8339149 GAAAGAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (32 bp):
ATTAACAGTTTGTACTGATTGATGGATATGTA
Found at i:8343945 original size:2 final size:2
Alignment explanation
Indices: 8343938--8343966 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8343928 AGTCCCTTAC
8343938 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 A
8343967 ATGGAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8350272 original size:14 final size:15
Alignment explanation
Indices: 8350255--8350287 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8350245 TAGAGACAAT
8350255 ATAAA-AAAATTTAA
1 ATAAATAAAATTTAA
8350269 ATAAATAAAATTTAA
1 ATAAATAAAATTTAA
8350284 ATAA
1 ATAA
8350288 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATAAAATTTAA
Found at i:8351786 original size:32 final size:32
Alignment explanation
Indices: 8351747--8351811 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8351737 TAAATGGAGT
* *
8351747 ATTAATAGTTTGTATTGGTTGGTGGATATGTA
1 ATTAATAGTTTGTATTGATTGATGGATATGTA
8351779 ATTAATAGTTTGTATTGATTGATGGATATGTA
1 ATTAATAGTTTGTATTGATTGATGGATATGTA
8351811 A
1 A
8351812 GAAACAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (32 bp):
ATTAATAGTTTGTATTGATTGATGGATATGTA
Found at i:8365224 original size:20 final size:21
Alignment explanation
Indices: 8365194--8365235 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8365184 CAAACTGATG
*
8365194 CCGAGACGTTGTAAAAGACAC
1 CCGAGACGTTGCAAAAGACAC
*
8365215 CCGA-ACGTTGCGAAAGACAC
1 CCGAGACGTTGCAAAAGACAC
8365235 C
1 C
8365236 AATTATGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.36, C:0.29, G:0.24, T:0.12
Consensus pattern (21 bp):
CCGAGACGTTGCAAAAGACAC
Found at i:8372961 original size:29 final size:29
Alignment explanation
Indices: 8372919--8372977 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
8372909 CTCTTTCTCT
* *
8372919 AAAGTTATGTTTGGTGGATTAGGTAGGAA
1 AAAGTTATGTTTGGTGGATTAAGCAGGAA
8372948 AAAGTTATGTTTGGTGGATTAAGCAGGAA
1 AAAGTTATGTTTGGTGGATTAAGCAGGAA
8372977 A
1 A
8372978 GGAATAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (29 bp):
AAAGTTATGTTTGGTGGATTAAGCAGGAA
Found at i:8373196 original size:29 final size:28
Alignment explanation
Indices: 8373154--8373210 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
8373144 CTCTTTCTCT
8373154 AAAGTTATGTTTGGTGGATTAGGTAGGAA
1 AAAGTTATGTTTGGTGG-TTAGGTAGGAA
8373183 AAAGTTATGTTTGGTGGTTAGGTAGGAA
1 AAAGTTATGTTTGGTGGTTAGGTAGGAA
8373211 TGGAATAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (28 bp):
AAAGTTATGTTTGGTGGTTAGGTAGGAA
Found at i:8373319 original size:234 final size:235
Alignment explanation
Indices: 8372909--8373377 Score: 886
Period size: 234 Copynumber: 2.0 Consensus size: 235
8372899 TGGCTACTAT
8372909 CTCTTTCTCTAAAGTTATGTTTGGTGGATTAGGTAGGAAAAAGTTATGTTTGGTGGATTAAGCAG
1 CTCTTTCTCTAAAGTTATGTTTGGTGGATTAGGTAGGAAAAAGTTATGTTTGGTGGATTAAGCAG
8372974 GAAAGGAATAGAATAGTTATTATGTGAGAATATAATGAAGTGAAAATAGAATAAAATAGTTATTA
66 GAAAGGAATAGAATAGTTATTATGTGAGAATATAATGAAGTGAAAATAGAATAAAATAGTTATTA
*
8373039 TTTTATTTGGTACGACAAATGGAATAAGACAGAAATAGTTATTATGATTTATTACAATGTTTGGT
131 TTTTATTTGGTACGACAAATGGAATAAGACAGAAATAGTTATTATGACTTATTACAATGTTTGGT
8373104 TGGTAACAATAATTTTAAAATAAGAAAGGAATAGAAAATA
196 TGGTAACAATAATTTTAAAATAAGAAAGGAATAGAAAATA
* *
8373144 CTCTTTCTCTAAAGTTATGTTTGGTGGATTAGGTAGGAAAAAGTTATGTTTGGTGG-TTAGGTAG
1 CTCTTTCTCTAAAGTTATGTTTGGTGGATTAGGTAGGAAAAAGTTATGTTTGGTGGATTAAGCAG
*
8373208 GAATGGAATAGAATAGTTATTATGTGAGAATATAATGAAGTGAAAATAGAATAAAATAGTTATTA
66 GAAAGGAATAGAATAGTTATTATGTGAGAATATAATGAAGTGAAAATAGAATAAAATAGTTATTA
*
8373273 TTTTATTTGGTACGATAAATGGAATAAGACAGAAATAGTTATTATGACTTATTACAATGTTTGGT
131 TTTTATTTGGTACGACAAATGGAATAAGACAGAAATAGTTATTATGACTTATTACAATGTTTGGT
8373338 TGGTAACAATAATTTTAAAATAAGAAAGGAATAGAAAATA
196 TGGTAACAATAATTTTAAAATAAGAAAGGAATAGAAAATA
8373378 AAAAGATAAA
Statistics
Matches: 229, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
234 173 0.76
235 56 0.24
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (235 bp):
CTCTTTCTCTAAAGTTATGTTTGGTGGATTAGGTAGGAAAAAGTTATGTTTGGTGGATTAAGCAG
GAAAGGAATAGAATAGTTATTATGTGAGAATATAATGAAGTGAAAATAGAATAAAATAGTTATTA
TTTTATTTGGTACGACAAATGGAATAAGACAGAAATAGTTATTATGACTTATTACAATGTTTGGT
TGGTAACAATAATTTTAAAATAAGAAAGGAATAGAAAATA
Found at i:8375201 original size:2 final size:2
Alignment explanation
Indices: 8375194--8375222 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8375184 TGGCTGAGAA
8375194 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 A
8375223 AAAGATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8390730 original size:19 final size:21
Alignment explanation
Indices: 8390706--8390751 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
8390696 CTGGTGTTAG
8390706 AGATGCTATGCCG-CC-TAGA
1 AGATGCTATGCCGACCATAGA
*
8390725 AGATGCTATGCTGACCATAGA
1 AGATGCTATGCCGACCATAGA
8390746 AGATGC
1 AGATGC
8390752 ATGGTGCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 10 0.42
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (21 bp):
AGATGCTATGCCGACCATAGA
Found at i:8391338 original size:2 final size:2
Alignment explanation
Indices: 8391333--8391370 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8391323 TGAGAGAGAA
* *
8391333 CT CT CT TT CT CT CT CT GT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8391371 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (2 bp):
CT
Found at i:8404460 original size:8 final size:8
Alignment explanation
Indices: 8404447--8404477 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8404437 CACACATTTC
8404447 TATCTATT
1 TATCTATT
8404455 TATCTATT
1 TATCTATT
*
8404463 TATCTATC
1 TATCTATT
8404471 TATCTAT
1 TATCTAT
8404478 ATCTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (8 bp):
TATCTATT
Found at i:8405473 original size:2 final size:2
Alignment explanation
Indices: 8405466--8405493 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8405456 CTTAACAATC
8405466 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
8405494 GTAAGAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8407306 original size:60 final size:60
Alignment explanation
Indices: 8407198--8407317 Score: 145
Period size: 60 Copynumber: 2.0 Consensus size: 60
8407188 TCCGCTCCAC
* * * *
8407198 TAATTCCCTCTTCTGCTGTATTCATTGCTGCTTTGCTCGAGTCGCTTGTCTTGCTAGTTT
1 TAATTCCCTCTTCTGCTATATTCATTGCTGCTTTGCTCGAATCACTTGTCTTGCCAGTTT
* * *
8407258 TAATTCCTTCTTCTGTTATATTC-TCTGCTGCTTTGC-GGTAATCACTTGTCTTGCCAGTTT
1 TAATTCCCTCTTCTGCTATATTCAT-TGCTGCTTTGCTCG-AATCACTTGTCTTGCCAGTTT
8407318 CCTCTCCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (60 bp):
TAATTCCCTCTTCTGCTATATTCATTGCTGCTTTGCTCGAATCACTTGTCTTGCCAGTTT
Found at i:8418668 original size:64 final size:64
Alignment explanation
Indices: 8418562--8418688 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
8418552 CAGGTGATCA
*
8418562 ATGAACAACCAGATTTTGTATGTAAAACCACAAGTCGATATCATCAATAT-AAGATAAATGATTG
1 ATGAACAACCAGATTGTGTATGTAAAACCACAAGTC-ATATCATCAATATAAAGATAAATGATTG
* *
8418626 ATGAACTACCAGATTGTGTATCG-AAAACCACATGCTTC-TATCATCAATATAAAGATAAATGAT
1 ATGAACAACCAGATTGTGTAT-GTAAAACCACAAG--TCATATCATCAATATAAAGATAAATGAT
8418689 GCGTACATTC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
64 41 0.73
65 13 0.23
66 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (64 bp):
ATGAACAACCAGATTGTGTATGTAAAACCACAAGTCATATCATCAATATAAAGATAAATGATTG
Found at i:8441717 original size:13 final size:13
Alignment explanation
Indices: 8441699--8441723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8441689 ATAATAATCT
8441699 ATTACAATGTAAG
1 ATTACAATGTAAG
8441712 ATTACAATGTAA
1 ATTACAATGTAA
8441724 TTATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
ATTACAATGTAAG
Found at i:8441747 original size:23 final size:23
Alignment explanation
Indices: 8441721--8441769 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8441711 GATTACAATG
*
8441721 TAATTAT-ATTATAATAAAAAAT
1 TAATTATAATTACAATAAAAAAT
*
8441743 ATAA-TATAATTACAATATAAAAT
1 -TAATTATAATTACAATAAAAAAT
8441766 TAAT
1 TAAT
8441770 ACAATCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATTATAATTACAATAAAAAAT
Found at i:8441921 original size:26 final size:27
Alignment explanation
Indices: 8441892--8441950 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
8441882 AATAAAATAT
* *
8441892 AAAAAATTAAAAT-TTATATAATATTA
1 AAAAAAGTAAAATAATATATAATATTA
8441918 AAAAAAGTAAAATAAAATATATAATATTA
1 AAAAAAGTAAAAT--AATATATAATATTA
8441947 AAAA
1 AAAA
8441951 TTATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
29 16 0.57
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAAAGTAAAATAATATATAATATTA
Found at i:8441930 original size:46 final size:40
Alignment explanation
Indices: 8441869--8441987 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 40
8441859 ATAATTAAAA
*
8441869 TAAAAAATATTAAAATAAAATATAAAAAATTAAAATTTATATAATAT
1 TAAAAAA-A-TAAAATAAAATATATAAAATTAAAA---AT-T-ATAT
*
8441916 TAAAAAAAGTAAAATAAAATATATAATATTAAAAATTATAT
1 TAAAAAAA-TAAAATAAAATATATAAAATTAAAAATTATAT
*
8441957 TAAAGAAATAAAAATAAAATATATAAAATTA
1 TAAAAAAAT-AAAATAAAATATATAAAATTA
8441988 TAATAAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
40 1 0.02
41 31 0.47
42 1 0.02
43 2 0.03
46 24 0.36
47 7 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (40 bp):
TAAAAAAATAAAATAAAATATATAAAATTAAAAATTATAT
Found at i:8441934 original size:66 final size:64
Alignment explanation
Indices: 8441864--8442071 Score: 145
Period size: 66 Copynumber: 3.0 Consensus size: 64
8441854 ATGTTATAAT
8441864 TAAAATAAAAAATATTAAAATAAAATATAAAAAATTAAAATTTATATAATATTAAAAAAAGTAAA
1 TAAAATAAAAAATATTAAAATAAAATATAAAAAATTAAAA-TTATATAATATTAAAAAAA-TAAA
8441929 A
64 A
* * ** * *
8441930 TAAAATATATAATATTAAAA-ATTATATTAAAGAAATAAAAATAAAATATATAAAATTATAATAA
1 TAAAATAAAAAATATTAAAATAAAATA-TAAA-AAATTAAAAT----TATATAATA-T-TAA-AA
8441994 AAATAAAAA
57 AAAT-AAAA
* * *
8442003 TAAAATATATAAA-ATTATAATAATAAAATAATAAAATATATAAAA-T-TATAATAATAAAAAAA
1 TAAAATA-AAAAATA-T-TAA-AATAAAAT-ATAAAAAAT-TAAAATTATATAATATTAAAAAAA
8442065 TAAAA
60 TAAAA
8442070 TA
1 TA
8442072 TATAACATCA
Statistics
Matches: 110, Mismatches: 15, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
65 4 0.04
66 23 0.21
67 14 0.13
68 6 0.05
69 3 0.03
70 8 0.07
71 7 0.06
72 5 0.05
73 17 0.15
74 3 0.03
75 3 0.03
76 5 0.05
77 11 0.10
78 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (64 bp):
TAAAATAAAAAATATTAAAATAAAATATAAAAAATTAAAATTATATAATATTAAAAAAATAAAA
Found at i:8441957 original size:41 final size:43
Alignment explanation
Indices: 8441869--8442102 Score: 158
Period size: 46 Copynumber: 5.2 Consensus size: 43
8441859 ATAATTAAAA
*
8441869 TAAAAAATATTAAAATAAAATATAAAAAATTAAAATTTATATAATAT
1 TAAAAAA-A-TAAAATAAAATATATAAAATTAAAA--TATATAATAT
*
8441916 TAAAAAAAGTAAAATAAAATATATAATATTAAAA-AT-T-ATAT
1 TAAAAAAA-TAAAATAAAATATATAAAATTAAAATATATAATAT
* * * * *
8441957 TAAAGAAATAAAAATAAAATATATAAAATTATAATAAAAATAAAAA
1 TAAAAAAAT-AAAATAAAATATATAAAATTA-AA-ATATATAATAT
* * *
8442003 TAAAATATATAAAATTATAATA-ATAAAATAATAAAATATATAAAAT
1 TAAAA-AAATAAAA-TAAAATATATAAAAT--TAAAATATATAATAT
* * *
8442049 TATAATAATAAAAAAATAAAATATATAACATCAAAA-ATAT-AT-T
1 TA-AA-AA-AATAAAATAAAATATATAAAATTAAAATATATAATAT
8442092 TAAAAATAATA
1 TAAAAA-AATA
8442103 TTATATAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 34
0.73 0.10 0.16
Matches are distributed among these distances:
40 1 0.01
41 37 0.24
42 5 0.03
43 6 0.04
44 2 0.01
45 5 0.03
46 55 0.36
47 27 0.18
48 14 0.09
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (43 bp):
TAAAAAAATAAAATAAAATATATAAAATTAAAATATATAATAT
Found at i:8441974 original size:26 final size:28
Alignment explanation
Indices: 8441929--8442065 Score: 90
Period size: 26 Copynumber: 4.9 Consensus size: 28
8441919 AAAAAGTAAA
* *
8441929 ATAAAAT-AT-ATAATATTAAAAATTAT
1 ATAAAATGATAATAAAAATAAAAATTAT
*
8441955 ATTAAA-GA-AATAAAAAT-AAAA-TAT
1 ATAAAATGATAATAAAAATAAAAATTAT
*
8441979 ATAAAATTATAATAAAAATAAAAATAAAATAT
1 ATAAAATGATAATAAAAATAAAAAT----TAT
* *
8442011 ATAAAATTATAATAATAAAATAATAAAATAT
1 ATAAAATGATAAT-A-AAAATAA-AAATTAT
* *
8442042 ATAAAATTATAATAATAA-AAAAAT
1 ATAAAATGATAATAAAAATAAAAAT
8442066 AAAATATATA
Statistics
Matches: 90, Mismatches: 8, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
24 8 0.09
25 5 0.06
26 21 0.23
27 7 0.08
28 2 0.02
29 3 0.03
30 1 0.01
31 16 0.18
32 16 0.18
33 1 0.01
34 7 0.08
35 3 0.03
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.31
Consensus pattern (28 bp):
ATAAAATGATAATAAAAATAAAAATTAT
Found at i:8441983 original size:23 final size:23
Alignment explanation
Indices: 8441963--8442076 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 23
8441953 ATATTAAAGA
8441963 AATAAAAATAAAATATATAAAATTAT
1 AATAAAAATAAAATATAT-AAA--AT
8441989 AATAAAAAT-AAA-A-ATAAAAT
1 AATAAAAATAAAATATATAAAAT
* *
8442009 ATATAAAATTATAATA-ATAAAAT
1 A-ATAAAAATAAAATATATAAAAT
8442032 AATAAAATATATAAA-ATTATAATAAT
1 AATAAAA-ATA-AAATA-TATAA-AAT
8442058 AA-AAAAATAAAATATATAA
1 AATAAAAATAAAATATATAA
8442077 CATCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
20 3 0.04
21 7 0.09
22 11 0.15
23 22 0.29
24 7 0.09
25 11 0.15
26 14 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAAAAATAAAATATATAAAAT
Found at i:8442003 original size:32 final size:32
Alignment explanation
Indices: 8441926--8442167 Score: 206
Period size: 31 Copynumber: 7.4 Consensus size: 32
8441916 TAAAAAAAGT
* *
8441926 AAAATAAAATATATAATAT-TAAAAATTATATTAA
1 AAAATAAAA-ATAAAATATAT-AAAATTATAAT-A
8441960 AGAAATAAAAATAAAATATATAAAATTATAATA
1 A-AAATAAAAATAAAATATATAAAATTATAATA
8441993 AAAATAAAAATAAAATATATAAAATTATAATA
1 AAAATAAAAATAAAATATATAAAATTATAATA
* *
8442025 ATAA-AATAATAAAATATATAAAATTATAATA
1 AAAATAAAAATAAAATATATAAAATTATAATA
* * * *
8442056 ATAA-AAAAATAAAATATATAACATCAAAAATA
1 AAAATAAAAATAAAATATATAAAAT-TATAATA
* ** * *
8442088 TATTTAAAAATAATATTATATAAAAAT-TAATA
1 AAAATAAAAATAA-AATATATAAAATTATAATA
* * * *
8442120 ATAATAAATAT-AAATATATTAAATTTATATTTTA
1 AAAATAAAAATAAAATATA-TAAAATTATA--ATA
8442154 ATAAATAAAAATAA
1 A-AAATAAAAATAA
8442168 TTTTAAAAAT
Statistics
Matches: 169, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
30 5 0.03
31 54 0.32
32 51 0.30
33 10 0.06
34 31 0.18
35 17 0.10
36 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAATAAAAATAAAATATATAAAATTATAATA
Found at i:8442016 original size:87 final size:94
Alignment explanation
Indices: 8441880--8442076 Score: 203
Period size: 87 Copynumber: 2.2 Consensus size: 94
8441870 AAAAAATATT
* ** * * * *
8441880 AAAATAAAATATAAAAAATTAAAATTTATATAATATTAAAAAAAGTAAAA-TAAAAT-ATATAAT
1 AAAATAAAATATATAAAATTAAAATAAAAATAAAAATAAAAAAAGTAAAATTAAAATAATAAAAT
* * *
8441943 ATTAAAA-AT-T-ATATTA-AAGAA-ATA
66 AATAAAATATATAAAATTATAAGAATAAA
* * *
8441967 AAAATAAAATATATAAAATTATAATAAAAATAAAAATAAAATATA-TAAAATTATAATAATAAAA
1 AAAATAAAATATATAAAATTAAAATAAAAATAAAAATAAAA-AAAGTAAAATTAAAATAATAAAA
*
8442031 TAATAAAATATATAAAATTATAATAATAAA
65 TAATAAAATATATAAAATTATAAGAATAAA
8442061 AAAATAAAATATATAA
1 AAAATAAAATATATAA
8442077 CATCAAAAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
87 39 0.44
88 7 0.08
89 12 0.14
90 2 0.02
91 1 0.01
92 5 0.06
93 4 0.05
94 18 0.20
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (94 bp):
AAAATAAAATATATAAAATTAAAATAAAAATAAAAATAAAAAAAGTAAAATTAAAATAATAAAAT
AATAAAATATATAAAATTATAAGAATAAA
Found at i:8442039 original size:31 final size:31
Alignment explanation
Indices: 8441865--8442144 Score: 201
Period size: 31 Copynumber: 8.6 Consensus size: 31
8441855 TGTTATAATT
* *
8441865 AAAATAAAAAATATTAAAA-TAAAAT-ATAAA
1 AAAATAAAATATA-TAAAATTATAATAATAAA
* * * *
8441895 AAATTAAAATTTATATAATATTAAAAAAAGTAAAA
1 AAAATAAAA--TATATAAAATTATAATAA-T-AAA
* *
8441930 TAAAATATATAATAT-TAAAAATTATATTAAAGAAATA
1 -AAAATA-A-AATATAT-AAAATTATAAT-AA-TAA-A
*
8441967 AAAATAAAATATATAAAATTATAATAAAAATA
1 AAAATAAAATATATAAAATTATAATAATAA-A
8441999 AAAATAAAATATATAAAATTATAATAATAAA
1 AAAATAAAATATATAAAATTATAATAATAAA
*
8442030 ATAATAAAATATATAAAATTATAATAATAAA
1 AAAATAAAATATATAAAATTATAATAATAAA
* * * **
8442061 AAAATAAAATATATAACATCAAAAATATATTTA
1 AAAATAAAATATATAAAAT-TATAATA-ATAAA
* *
8442094 AAAATAATATTATATAAAAAT-TAATAAT-AA
1 AAAATAA-AATATATAAAATTATAATAATAAA
* *
8442124 TAAATATAAATATATTAAATT
1 AAAATA-AAATATATAAAATT
8442145 TATATTTTAA
Statistics
Matches: 204, Mismatches: 29, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
30 24 0.12
31 55 0.27
32 51 0.25
33 13 0.06
34 25 0.12
35 6 0.03
36 23 0.11
37 5 0.02
38 2 0.01
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (31 bp):
AAAATAAAATATATAAAATTATAATAATAAA
Found at i:8442109 original size:67 final size:62
Alignment explanation
Indices: 8441969--8442143 Score: 194
Period size: 63 Copynumber: 2.8 Consensus size: 62
8441959 AAGAAATAAA
* * *
8441969 AATAAAATATATAAAATTATAATAAAAATAAAAATAAAATATATAAAATTATAATAATAAAAT
1 AATAAAATATATAAAATTATAATAATAA-AAAAATAAAATATATAAAATAAAAATAATAAAAT
* *
8442032 AATAAAATATATAAAATTATAATAATAAAAAAATAAAATATATAACATCAAAAATATATTTAAA-
1 AATAAAATATATAAAATTATAATAATAAAAAAATAAAATATATAAAAT-AAAAATA-A-TAAAAT
* * * *
8442096 AATAATATTATATAAAAAT-TAATAAT-AATAAATATAAATATATTAAAT
1 AATAA-AATATATAAAATTATAATAATAAAAAAATA-AAATATATAAAAT
8442144 TTATATTTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
62 19 0.20
63 39 0.40
64 24 0.25
65 15 0.15
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (62 bp):
AATAAAATATATAAAATTATAATAATAAAAAAATAAAATATATAAAATAAAAATAATAAAAT
Found at i:8442122 original size:23 final size:22
Alignment explanation
Indices: 8441990--8442142 Score: 68
Period size: 23 Copynumber: 6.5 Consensus size: 22
8441980 TAAAATTATA
8441990 ATAAAAA-TAAAAAT-A-AAAT
1 ATAAAAATTAAAAATAATAAAT
*
8442009 ATATAAAATT-ATAATAATAAAAT
1 ATA-AAAATTAAAAATAAT-AAAT
8442032 AATAAAATATATAAAATTATAAT-AAT
1 -ATAAAA-AT-TAAAA--ATAATAAAT
*
8442058 A-AAAAAAT-AAAATATATAACAT
1 ATAAAAATTAAAAATA-ATAA-AT
* *
8442080 CAAAAATATATTTAAAAATAATATTAT
1 -ATAAA-A-A-TTAAAAATAATA-AAT
*
8442107 ATAAAAATTAATAATAATAAAT
1 ATAAAAATTAAAAATAATAAAT
8442129 ATAAATATATTAAA
1 ATAAA-A-ATTAAA
8442143 TTTATATTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 41
0.67 0.06 0.27
Matches are distributed among these distances:
19 6 0.06
20 10 0.10
21 6 0.06
22 10 0.10
23 21 0.21
24 18 0.18
25 4 0.04
26 10 0.10
27 6 0.06
28 11 0.11
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAAAAATTAAAAATAATAAAT
Found at i:8442134 original size:20 final size:20
Alignment explanation
Indices: 8442096--8442134 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8442086 TATATTTAAA
* *
8442096 AATAATATTATATAAAAATT
1 AATAATAATAAATAAAAATT
*
8442116 AATAATAATAAATATAAAT
1 AATAATAATAAATAAAAAT
8442135 ATATTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATAATAAATAAAAATT
Found at i:8442144 original size:95 final size:94
Alignment explanation
Indices: 8441865--8442144 Score: 232
Period size: 95 Copynumber: 2.9 Consensus size: 94
8441855 TGTTATAATT
* * **
8441865 AAAATAAAAAATATTAAAATAAAATATAAAAAATTAAAATTTATATAATAT-TAAAAAAAGTAA-
1 AAAATAAAATATA-TAAAATAAAA-AT-AAAAA-TAAAA---ATAAAATATATAAAATTA-TAAT
* * *
8441928 AATAAAAT-ATATAATAT-TAAAAATTATATTAAAGAAATA
58 AATAAAATAATAAAATATAT-AAAATTATAAT-AA-TAA-A
* *
8441967 AAAATAAAATATATAAAATTATAATAAAAATAAAAATAAAATATATAAAATTATAATAATAAAAT
1 AAAATAAAATATATAAAATAAAAATAAAAATAAAAATAAAATATATAAAATTATAATAATAAAAT
8442032 AATAAAATATATAAAATTATAATAATAAA
66 AATAAAATATATAAAATTATAATAATAAA
* * ** *
8442061 AAAATAAAATATATAACATCAAAAATATATTTAAAAATAATATTATATAAAAATTAATAATAAT-
1 AAAATAAAATATATAAAAT-AAAAATAAAAATAAAAATAA-AATATAT-AAAATT-ATAATAATA
*
8442125 AAAT-AT-AAATATATTAAATT
62 AAATAATAAAATATATAAAATT
8442145 TATATTTTAA
Statistics
Matches: 153, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
94 19 0.12
95 41 0.27
96 24 0.16
97 28 0.18
98 14 0.09
99 5 0.03
100 2 0.01
101 8 0.05
102 12 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (94 bp):
AAAATAAAATATATAAAATAAAAATAAAAATAAAAATAAAATATATAAAATTATAATAATAAAAT
AATAAAATATATAAAATTATAATAATAAA
Found at i:8446603 original size:36 final size:38
Alignment explanation
Indices: 8446529--8446615 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 38
8446519 GATTAGATGG
* *
8446529 TACATATGCCTTGGACCCACACGTGATACAATTTGACA
1 TACAAATGCCTTGCACCCACACGTGATACAATTTGACA
*
8446567 TTCAAATGCCTTGCACCCACA-G-GCA-ACAATTTGACA
1 TACAAATGCCTTGCACCCACACGTG-ATACAATTTGACA
*
8446603 TACATATGCCTTG
1 TACAAATGCCTTG
8446616 GACCAACAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
36 23 0.53
37 2 0.05
38 18 0.42
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (38 bp):
TACAAATGCCTTGCACCCACACGTGATACAATTTGACA
Found at i:8452311 original size:30 final size:30
Alignment explanation
Indices: 8452276--8452333 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8452266 TCATTAATAC
*
8452276 TTTTATTTTAAATCAAATAAATTTTTATAT
1 TTTTATTTTAAATCAAATAAACTTTTATAT
*
8452306 TTTTATTTTAAATCAAATCAACTTTTAT
1 TTTTATTTTAAATCAAATAAACTTTTAT
8452334 GATTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTATTTTAAATCAAATAAACTTTTATAT
Found at i:8454467 original size:16 final size:18
Alignment explanation
Indices: 8454428--8454468 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
8454418 AGCACCCCTA
*
8454428 AAAAAACATTGACAACCC
1 AAAAAACATTGACAAACC
*
8454446 AGAAAAC-TT-ACAAACC
1 AAAAAACATTGACAAACC
8454462 AAAAAAC
1 AAAAAAC
8454469 CAAACTTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.61, C:0.24, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAAACATTGACAAACC
Found at i:8457615 original size:28 final size:28
Alignment explanation
Indices: 8457583--8457651 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 28
8457573 AAATCTCTGC
8457583 AATATTTTTA-AAAATTAAATAAATTATT
1 AATATTTTTATAAAATTAAATAAATT-TT
* *
8457611 AATATTTTTATCTTAAATTAAATATATTTT
1 AATATTTTTA--TAAAATTAAATAAATTTT
8457641 AATATTTTTAT
1 AATATTTTTAT
8457652 TTTGAGTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 11 0.31
30 12 0.33
31 13 0.36
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
AATATTTTTATAAAATTAAATAAATTTT
Found at i:8457645 original size:30 final size:31
Alignment explanation
Indices: 8457594--8457651 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
8457584 ATATTTTTAA
8457594 AAATTAAATAAATTATTAATATTTTTATCTT
1 AAATTAAATAAATTATTAATATTTTTATCTT
*
8457625 AAATTAAATATATT-TTAATATTTTTAT
1 AAATTAAATAAATTATTAATATTTTTAT
8457652 TTTGAGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
AAATTAAATAAATTATTAATATTTTTATCTT
Found at i:8457664 original size:30 final size:29
Alignment explanation
Indices: 8457594--8457669 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
8457584 ATATTTTTAA
*
8457594 AAATTAAATAAATTATTAATATTTTTATCTT
1 AAATCAAAT-AATT-TTAATATTTTTATCTT
* *
8457625 AAATTAAATATATTTTAATATTTTTATTTT
1 AAATCAAATA-ATTTTAATATTTTTATCTT
* *
8457655 GAGTCAAATAATTTT
1 AAATCAAATAATTTT
8457670 TTATGATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 5 0.12
30 23 0.57
31 12 0.30
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
AAATCAAATAATTTTAATATTTTTATCTT
Found at i:8471232 original size:21 final size:21
Alignment explanation
Indices: 8471208--8471249 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8471198 GTAATAAAAA
*
8471208 AATTA-TAAAAATTTTAAATAT
1 AATTAGTAAAAA-ATTAAATAT
8471229 AATTAGTAAAAAATTAAATAT
1 AATTAGTAAAAAATTAAATAT
8471250 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTAGTAAAAAATTAAATAT
Found at i:8474043 original size:21 final size:22
Alignment explanation
Indices: 8474009--8474049 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
8473999 TTTTTGTTGT
8474009 AATATTTTATTTTTA-ATTTAA
1 AATATTTTATTTTTATATTTAA
8474030 AATA-TTTATTTTTTATATTT
1 AATATTTTA-TTTTTATATTT
8474050 TATTGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
AATATTTTATTTTTATATTTAA
Found at i:8474139 original size:53 final size:52
Alignment explanation
Indices: 8474055--8474180 Score: 130
Period size: 53 Copynumber: 2.4 Consensus size: 52
8474045 TATTTTATTG
* * * *
8474055 AAAATATTAATAAATTATTATTTCAAAATTTA-ATGATTATCTATTTTATTTTT
1 AAAATATTAATAATTTA-TAATTAAAAATTTATATCATTAT-TATTTTATTTTT
* * * *
8474108 AGACTATTAATAATTTATAATTAAAATATTTATATCATTATTTTTTTCTTTTT
1 AAAATATTAATAATTTATAATTAAAA-ATTTATATCATTATTATTTTATTTTT
*
8474161 AAAATATTAAT-TTTTATAAT
1 AAAATATTAATAATTTATAAT
8474181 ATATAATTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
52 15 0.25
53 38 0.63
54 7 0.12
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (52 bp):
AAAATATTAATAATTTATAATTAAAAATTTATATCATTATTATTTTATTTTT
Found at i:8474176 original size:15 final size:16
Alignment explanation
Indices: 8474156--8474188 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8474146 TATTTTTTTC
8474156 TTTTTAAAATAT-TAA
1 TTTTTAAAATATATAA
*
8474171 TTTTTATAATATATAA
1 TTTTTAAAATATATAA
8474187 TT
1 TT
8474189 AAAACTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAAAATATATAA
Found at i:8478311 original size:24 final size:24
Alignment explanation
Indices: 8478275--8478320 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8478265 TAAAATAATA
*
8478275 AATTACATTTTAATTGTAAAAATT
1 AATTACATTTTAATTATAAAAATT
8478299 AATTA-ATTATTAATTATAAAAA
1 AATTACATT-TTAATTATAAAAA
8478321 CATATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTACATTTTAATTATAAAAATT
Found at i:8479805 original size:23 final size:24
Alignment explanation
Indices: 8479763--8479810 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8479753 TTTTAATTAA
8479763 TAAAAAATAATAAAATAATAATTT
1 TAAAAAATAATAAAATAATAATTT
* * *
8479787 TAAAAATTAATTAAA-AATATTTT
1 TAAAAAATAATAAAATAATAATTT
8479810 T
1 T
8479811 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAAAATAATAAAATAATAATTT
Found at i:8494322 original size:11 final size:11
Alignment explanation
Indices: 8494298--8494327 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8494288 TCTCTGCCCA
8494298 AATTCTTT-AT
1 AATTCTTTCAT
8494308 AATTCTTTCAT
1 AATTCTTTCAT
8494319 AATTCTTTC
1 AATTCTTTC
8494328 TTCTAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTCTTTCAT
Found at i:8505723 original size:9 final size:9
Alignment explanation
Indices: 8505709--8505733 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8505699 TTAGCTACCT
8505709 TTGTTCGCC
1 TTGTTCGCC
8505718 TTGTTCGCC
1 TTGTTCGCC
8505727 TTGTTCG
1 TTGTTCG
8505734 ATAGTATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.24, T:0.48
Consensus pattern (9 bp):
TTGTTCGCC
Found at i:8506016 original size:4 final size:4
Alignment explanation
Indices: 8506007--8506039 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
8505997 AAGTCAAAAG
8506007 ATAA ATAA ATAA ATAA AT-- ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
8506040 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.07
4 25 0.93
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:8506030 original size:14 final size:14
Alignment explanation
Indices: 8506011--8506041 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8506001 CAAAAGATAA
8506011 ATAAATAAATAAAT
1 ATAAATAAATAAAT
8506025 ATAAATAAATAAAT
1 ATAAATAAATAAAT
8506039 ATA
1 ATA
8506042 TATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATAAATAAAT
Found at i:8506030 original size:18 final size:18
Alignment explanation
Indices: 8506007--8506045 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
8505997 AAGTCAAAAG
8506007 ATAAATAAATAAATAAAT
1 ATAAATAAATAAATAAAT
*
8506025 ATAAATAAATAAATATAT
1 ATAAATAAATAAATAAAT
8506043 ATA
1 ATA
8506046 TATATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATAAATAAATAAAT
Found at i:8512229 original size:19 final size:17
Alignment explanation
Indices: 8512207--8512241 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
8512197 AAATTAATTA
8512207 AAAAATATAAATATTATAT
1 AAAAA-ATAAA-ATTATAT
8512226 AAAAAATAAAATTATA
1 AAAAAATAAAATTATA
8512242 ATAGATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAATAAAATTATAT
Found at i:8513217 original size:28 final size:28
Alignment explanation
Indices: 8513153--8513211 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
8513143 ATGTTGTGTT
*
8513153 TAAATA-AAATATTAATAATTGTATAAA
1 TAAATATAAATATGAATAATTGTATAAA
8513180 TAAATATAAATATGATATAATT-TATTAAA
1 TAAATATAAATATGA-ATAATTGTA-TAAA
8513209 TAA
1 TAA
8513212 GTTAAAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 6 0.21
28 9 0.32
29 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (28 bp):
TAAATATAAATATGAATAATTGTATAAA
Found at i:8514758 original size:14 final size:15
Alignment explanation
Indices: 8514739--8514770 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8514729 CTTCTTTCCC
8514739 ATTAATT-AAATATT
1 ATTAATTAAAATATT
8514753 ATTAATTAAAATATT
1 ATTAATTAAAATATT
8514768 ATT
1 ATT
8514771 TTATATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAAAATATT
Found at i:8514770 original size:18 final size:19
Alignment explanation
Indices: 8514747--8514810 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 19
8514737 CCATTAATTA
8514747 AATATTATTA-ATTAAAAT
1 AATATTATTATATTAAAAT
* *
8514765 ATTATT-TTATATTAACAT
1 AATATTATTATATTAAAAT
* *
8514783 AATATTATCATA-AAAAAT
1 AATATTATTATATTAAAAT
*
8514801 AAAATTATTA
1 AATATTATTA
8514811 CATAATTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 3 0.08
18 29 0.81
19 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AATATTATTATATTAAAAT
Found at i:8516331 original size:2 final size:2
Alignment explanation
Indices: 8516324--8516356 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8516314 GGGTTGTTTT
*
8516324 CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
8516357 GCACGCACGC
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:0.45, C:0.52, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8516357 original size:8 final size:8
Alignment explanation
Indices: 8516326--8516368 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
8516316 GTTGTTTTCA
*
8516326 CACACACA
1 CACACACG
*
8516334 CACACACA
1 CACACACG
8516342 CACACACG
1 CACACACG
8516350 CACACACG
1 CACACACG
*
8516358 CACGCACG
1 CACACACG
8516366 CAC
1 CAC
8516369 GCAAAGTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.40, C:0.51, G:0.09, T:0.00
Consensus pattern (8 bp):
CACACACG
Found at i:8516361 original size:12 final size:12
Alignment explanation
Indices: 8516326--8516364 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8516316 GTTGTTTTCA
*
8516326 CACACACACACA
1 CACACACACACG
8516338 CACACACACACG
1 CACACACACACG
*
8516350 CACACACGCACG
1 CACACACACACG
8516362 CAC
1 CAC
8516365 GCACGCAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.51, G:0.08, T:0.00
Consensus pattern (12 bp):
CACACACACACG
Found at i:8516369 original size:12 final size:12
Alignment explanation
Indices: 8516326--8516371 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8516316 GTTGTTTTCA
* *
8516326 CACACACACACA
1 CACACACGCACG
*
8516338 CACACACACACG
1 CACACACGCACG
8516350 CACACACGCACG
1 CACACACGCACG
*
8516362 CACGCACGCA
1 CACACACGCA
8516372 AAGTCATGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.39, C:0.50, G:0.11, T:0.00
Consensus pattern (12 bp):
CACACACGCACG
Found at i:8519248 original size:22 final size:23
Alignment explanation
Indices: 8519220--8519275 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
8519210 AAATATCATT
*
8519220 TATATTTATTATTATATAT-TAA
1 TATATTTATTATTATAAATCTAA
*
8519242 TATATTT-TAATTATAAATCTAA
1 TATATTTATTATTATAAATCTAA
*
8519264 AATATATTATTA
1 TATAT-TTATTA
8519276 ATAACCGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.33
22 14 0.52
23 2 0.07
24 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TATATTTATTATTATAAATCTAA
Found at i:8519380 original size:16 final size:16
Alignment explanation
Indices: 8519359--8519403 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
8519349 TCTAAACATT
8519359 AAAATTAA-TATCTAAA
1 AAAATTAATTAT-TAAA
8519375 AAAATTTAATTATTAAA
1 AAAA-TTAATTATTAAA
8519392 AAAATT-ATTATT
1 AAAATTAATTATT
8519404 TTTAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.22
16 6 0.22
17 12 0.44
18 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTAATTATTAAA
Found at i:8527853 original size:2 final size:2
Alignment explanation
Indices: 8527846--8527875 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8527836 GGCCAGAGTT
8527846 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
8527876 GTTTTGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8534739 original size:22 final size:22
Alignment explanation
Indices: 8534698--8534741 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8534688 ATTTTATATA
*
8534698 TTTTATATTAAAATTTAAAAAT
1 TTTTATATTAAAATTAAAAAAT
8534720 TTTTATATTATAAA-TAAAAAAT
1 TTTTATATTA-AAATTAAAAAAT
8534742 AAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTATATTAAAATTAAAAAAT
Found at i:8537156 original size:3 final size:3
Alignment explanation
Indices: 8537148--8537175 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8537138 ATATAAGGTA
8537148 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
8537176 GTTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8545656 original size:4 final size:4
Alignment explanation
Indices: 8545647--8545674 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8545637 CAAATACACG
8545647 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
8545675 ATCAATCGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:8546241 original size:16 final size:17
Alignment explanation
Indices: 8546216--8546248 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8546206 GTTAATCGTG
8546216 TATATATATA-AAAATA
1 TATATATATATAAAATA
*
8546232 TATATTTATATAAAATA
1 TATATATATATAAAATA
8546249 CATTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATATATATAAAATA
Found at i:8546543 original size:4 final size:4
Alignment explanation
Indices: 8546534--8546558 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8546524 TCTTACCCAA
8546534 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
8546559 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:8548363 original size:18 final size:17
Alignment explanation
Indices: 8548327--8548365 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
8548317 TTTTTTTAAA
* *
8548327 ATTTTTAATAAATTTTT
1 ATTTTTAATAAAATATT
8548344 ATTTTTAAATAAAATATT
1 ATTTTT-AATAAAATATT
8548362 ATTT
1 ATTT
8548366 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTAATAAAATATT
Found at i:8549165 original size:6 final size:6
Alignment explanation
Indices: 8549154--8549198 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
8549144 TGTTATAATT
8549154 AAAATA AAAATA TTAAAAT- AAAAT- AAAAT- AAAATA AAAATA AAAA
1 AAAATA AAAATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
8549199 ATTTAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 15 0.42
6 16 0.44
8 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:8549175 original size:5 final size:5
Alignment explanation
Indices: 8549153--8549236 Score: 59
Period size: 5 Copynumber: 17.4 Consensus size: 5
8549143 ATGTTATAAT
* * *
8549153 TAAAA TAAAA -ATAT TAAAA TAAAA TAAAA TAAAA TAAAA -ATAAA -AAAT
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA
* * * * *
8549201 TTAAA TAATA T-AAG TAAAA TAAAT TGAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
8549237 TATAATGTAA
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
4 7 0.12
5 52 0.88
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (5 bp):
TAAAA
Found at i:8549186 original size:29 final size:28
Alignment explanation
Indices: 8549155--8549299 Score: 91
Period size: 29 Copynumber: 5.0 Consensus size: 28
8549145 GTTATAATTA
8549155 AAATAAAAATATTAAAATAAAATAAAAT
1 AAATAAAAATATTAAAATAAAATAAAAT
* * *
8549183 AAAATAAAAATA-AAAAATTTAAATAATAT
1 -AAATAAAAATATTAAAA-TAAAATAAAAT
* * *
8549212 AAGTAAAATAAATTGAAATAAAATATATAATGT
1 AAATAAAA-ATATTAAAATAAAATA-A-AA--T
*
8549245 AAA-AAATATATTAAAAATAAAAATAAAAT
1 AAATAAAAATATT-AAAAT-AAAATAAAAT
* *
8549274 ATATAAAATTA-TAATAAT-AAATAAAA
1 AAATAAAAATATTAA-AATAAAATAAAA
8549300 ATATATTTAA
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
27 8 0.09
28 13 0.15
29 35 0.39
30 9 0.10
31 7 0.08
32 8 0.09
33 9 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAATAAAAATATTAAAATAAAATAAAAT
Found at i:8549207 original size:34 final size:34
Alignment explanation
Indices: 8549154--8549223 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
8549144 TGTTATAATT
8549154 AAAATAAAAATATTAAAATAAAATAAAATAAAATA
1 AAAATAAAAATATTAAAATAAAAT-AAATAAAATA
* * *
8549189 AAAATAAAAA-ATTTAAATAATATAAGTAAAATA
1 AAAATAAAAATATTAAAATAAAATAAATAAAATA
8549222 AA
1 AA
8549224 TTGAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 11 0.34
34 11 0.34
35 10 0.31
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (34 bp):
AAAATAAAAATATTAAAATAAAATAAATAAAATA
Found at i:8549235 original size:42 final size:43
Alignment explanation
Indices: 8549172--8549274 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
8549162 AATATTAAAA
* *
8549172 TAAAATAAAATAAAATAAAAATAAAAAATTTAAATAATATAAG
1 TAAAATAAAATAAAATAAAAATAAAAAATGTAAAAAATATAAG
* * * * *
8549215 TAAAATAAATTGAAAT-AAAATATATAATGTAAAAAATAT-AT
1 TAAAATAAAATAAAATAAAAATAAAAAATGTAAAAAATATAAG
8549256 TAAAAATAAAAATAAAATA
1 T-AAAAT-AAAATAAAATA
8549275 TATAAAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.04
42 24 0.50
43 22 0.46
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (43 bp):
TAAAATAAAATAAAATAAAAATAAAAAATGTAAAAAATATAAG
Found at i:8549293 original size:14 final size:15
Alignment explanation
Indices: 8549228--8549294 Score: 59
Period size: 15 Copynumber: 4.4 Consensus size: 15
8549218 AATAAATTGA
8549228 AATAAAATATATAATGT
1 AATAAAATATATAA--T
*
8549245 AA-AAAATATATTAAA
1 AATAAAATATA-TAAT
*
8549260 AATAAAA-ATAAAAT
1 AATAAAATATATAAT
8549274 ATATAAAAT-TATAAT
1 A-ATAAAATATATAAT
8549289 AATAAA
1 AATAAA
8549295 TAAAAATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 8 0.19
15 17 0.40
16 12 0.29
17 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
AATAAAATATATAAT
Found at i:8549297 original size:18 final size:17
Alignment explanation
Indices: 8549155--8549304 Score: 77
Period size: 18 Copynumber: 8.7 Consensus size: 17
8549145 GTTATAATTA
8549155 AAATAAAAATATTAA-AAT
1 AAAT-AAAATA-TAATAAT
*
8549173 AAAATAAAATAAAATAA-
1 -AAATAAAATATAATAAT
*
8549190 AAATAAAAAATTTAAATAAT
1 AAAT--AAAATAT-AATAAT
8549210 ATAAGTAAAATA-AAT--T
1 A-AA-TAAAATATAATAAT
8549226 GAAATAAAATAT-ATAAT
1 -AAATAAAATATAATAAT
* *
8549243 GTAA-AAAATATATTAA-
1 -AAATAAAATATAATAAT
8549259 AAATAAAA-ATAA-AAT
1 AAATAAAATATAATAAT
*
8549274 ATATAAAATTATAATAAT
1 AAATAAAA-TATAATAAT
8549292 AAATAAAAATATA
1 AAAT-AAAATATA
8549305 TTTAAGAGAT
Statistics
Matches: 103, Mismatches: 10, Indels: 37
0.69 0.07 0.25
Matches are distributed among these distances:
14 2 0.02
15 21 0.20
16 18 0.17
17 14 0.14
18 26 0.25
19 13 0.13
20 6 0.06
21 2 0.02
22 1 0.01
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATAAAATATAATAAT
Found at i:8549477 original size:23 final size:23
Alignment explanation
Indices: 8549434--8549482 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
8549424 ACGCTACAAT
* *
8549434 ATTATCTTTTTTACATTTTAATC
1 ATTATCTTTTTTACATATTAAAC
*
8549457 ATTAT-TTTATTTATATATTAAAC
1 ATTATCTTT-TTTACATATTAAAC
8549480 ATT
1 ATT
8549483 GTAATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATCTTTTTTACATATTAAAC
Found at i:8554068 original size:1 final size:1
Alignment explanation
Indices: 8554064--8554156 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
8554054 GGGCGAGGGC
* * * * * * * * * *
8554064 GGGGGCGGGGCGGGCGGGGGCGGGGGCGGGCGGGGGAGGCGGGCGGGCGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
** * * *
8554129 GCCGGGGCGGCGGGGGGCGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
8554157 ACGGGAGGCG
Statistics
Matches: 64, Mismatches: 28, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.01, C:0.15, G:0.84, T:0.00
Consensus pattern (1 bp):
G
Found at i:8554090 original size:27 final size:27
Alignment explanation
Indices: 8554048--8554238 Score: 149
Period size: 27 Copynumber: 6.9 Consensus size: 27
8554038 ATGCTGCCAT
* *
8554048 GGGCGGGGGCGAGGGCGGGGGCGGGGC
1 GGGCGGGGGCGGGGGCGGGGGGGGGGC
8554075 GGGCGGGGGCGGGGGCGGGCGGGGGAGGC
1 GGGCGGGGGCGGGGGCGGG-GGGGG-GGC
*
8554104 GGGCGGGCGG-GGGGGGGGGGGGGGGGC
1 GGGCGGG-GGCGGGGGCGGGGGGGGGGC
* *
8554131 CGG-GGCGGCGGGGGGCGGGGGGGGGGAC
1 GGGCGGGGGC-GGGGGCGGGGGGGGGG-C
* * * *
8554159 GGGAGGCGGCGGGCGCGCGAGGGGGGGAC
1 GGGCGGGGGCGGG-G-GCGGGGGGGGGGC
*
8554188 GGGGCGGGGG-GCCGGGCGGGGGGCGGGGC
1 -GGGCGGGGGCG-GGGGCGGGGGG-GGGGC
* *
8554217 GCG-GGGGGAGGGGG-GGGGGGGG
1 GGGCGGGGGCGGGGGCGGGGGGGG
8554239 TTGGTCTACA
Statistics
Matches: 135, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
25 4 0.03
26 8 0.06
27 46 0.34
28 25 0.19
29 32 0.24
30 20 0.15
ACGTcount: A:0.04, C:0.16, G:0.80, T:0.00
Consensus pattern (27 bp):
GGGCGGGGGCGGGGGCGGGGGGGGGGC
Found at i:8554146 original size:62 final size:67
Alignment explanation
Indices: 8554052--8554210 Score: 185
Period size: 61 Copynumber: 2.5 Consensus size: 67
8554042 TGCCATGGGC
* *
8554052 GGGGGCGA-GGGC-GGGGG-CGGGGCGGGCGGGGGC-GGGGGCGGG-CGGG-GGAGGCGGGCGGG
1 GGGGGGGAGGGGCGGGGGGCCGGGGCGGG-GGGGGCGGGGGGCGGGACGGGAGGAGGCGGGCGCG
8554111 CG-
65 CGA
* *
8554113 GGGGGGG-GGGG-GGGGGGCCGGGGCGGCGGGGGGCGGGGGGGGGGACGGGAGGCGGCGGGCGCG
1 GGGGGGGAGGGGCGGGGGGCCGGGGCGG-GGGGGGCGGGGGGCGGGACGGGAGGAGGCGGGCGCG
8554176 CGA
65 CGA
8554179 GGGGGGGACGGGGCGGGGGGCC-GGGCGGGGGG
1 GGGGGGGA-GGGGCGGGGGGCCGGGGCGGGGGG
8554211 CGGGGCGCGG
Statistics
Matches: 83, Mismatches: 4, Indels: 16
0.81 0.04 0.16
Matches are distributed among these distances:
61 14 0.17
62 14 0.17
63 9 0.11
64 4 0.05
65 13 0.16
66 7 0.08
67 4 0.05
68 10 0.12
69 8 0.10
ACGTcount: A:0.04, C:0.17, G:0.79, T:0.00
Consensus pattern (67 bp):
GGGGGGGAGGGGCGGGGGGCCGGGGCGGGGGGGGCGGGGGGCGGGACGGGAGGAGGCGGGCGCGC
GA
Found at i:8554184 original size:68 final size:69
Alignment explanation
Indices: 8554060--8554238 Score: 165
Period size: 68 Copynumber: 2.6 Consensus size: 69
8554050 GCGGGGGCGA
* * * * *
8554060 GGGCGGGGGCGG-GGCGGGCGGGGGCGGGGGCGGGCGGGGGAGGCGGGCGGGCGGGGGG-GGGG-
1 GGGCCGGGGCGGCGGGGGGCGGGGG-GGGGGCGGGAGGGGGAGGCGCGCGAGCGGGGGGAGGGGC
8554122 GGGGG
65 GGGGG
8554127 GGGCCGGGGCGGCGGGGGGCGGGGGGGGGGACGGGAGGCGGCG-GGCGCGCGAG-GGGGGGACGG
1 GGGCCGGGGCGGCGGGGGGCGGGGGGGGGG-CGGGAGG-GG-GAGGCGCGCGAGCGGGGGGA-GG
8554190 GGCGGGGG
62 GGCGGGGG
* * *
8554198 GCCGGGCGGGG-GGCGGGGCGCGGGGGGAGGGG-GGGGGGGGG
1 G--GGCCGGGGCGGCGGGGGGCGGGGGG-GGGGCGGGAGGGGG
8554239 TTGGTCTACA
Statistics
Matches: 94, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
67 16 0.17
68 23 0.24
69 11 0.12
70 7 0.07
71 11 0.12
72 15 0.16
73 11 0.12
ACGTcount: A:0.03, C:0.16, G:0.80, T:0.00
Consensus pattern (69 bp):
GGGCCGGGGCGGCGGGGGGCGGGGGGGGGGCGGGAGGGGGAGGCGCGCGAGCGGGGGGAGGGGCG
GGGG
Found at i:8554198 original size:7 final size:7
Alignment explanation
Indices: 8554188--8554237 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
8554178 AGGGGGGGAC
8554188 GGGGCGG
1 GGGGCGG
8554195 GGGGC--
1 GGGGCGG
*
8554200 CGGGCGG
1 GGGGCGG
8554207 GGGGCGG
1 GGGGCGG
*
8554214 GGCGCGG
1 GGGGCGG
*
8554221 GGGGAGG
1 GGGGCGG
8554228 GGGG-GG
1 GGGGCGG
8554234 GGGG
1 GGGG
8554238 GTTGGTCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
5 4 0.11
6 6 0.17
7 26 0.72
ACGTcount: A:0.02, C:0.14, G:0.84, T:0.00
Consensus pattern (7 bp):
GGGGCGG
Found at i:8554230 original size:46 final size:43
Alignment explanation
Indices: 8554060--8554236 Score: 138
Period size: 42 Copynumber: 4.2 Consensus size: 43
8554050 GCGGGGGCGA
* * * *
8554060 GGGCGGGG-GCGGGGCGGGCGGGGGCGGGGGCGGGCGGGGGAGGC
1 GGGCGGGGCGGGGGGCGGGGGGGGGC-GGGGCGCG-GGGGGAGGG
*
8554104 GGGC-GGGC-GGGGG-GGGGGGGGG-GGGGC-CGGGGCGGCGGG
1 GGGCGGGGCGGGGGGCGGGGGGGGGCGGGGCGCGGGG-GGAGGG
* * * *
8554143 GGGCGGGG-GGGGGGACGGGAGGCGGC-GGGCGCGCGAGG-GGG
1 GGGCGGGGCGGGGGG-CGGGGGGGGGCGGGGCGCGGGGGGAGGG
*
8554184 GGACGGGGCGGGGGGCCGGGCGGGGGGCGGGGCGCGGGGGGAGGG
1 GGGCGGGGCGGGGGG-CGGG-GGGGGGCGGGGCGCGGGGGGAGGG
*
8554229 GGGGGGGG
1 GGGCGGGG
8554237 GGTTGGTCTA
Statistics
Matches: 104, Mismatches: 17, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
38 3 0.03
39 9 0.09
40 13 0.12
41 10 0.10
42 31 0.30
43 15 0.14
44 14 0.13
45 9 0.09
ACGTcount: A:0.03, C:0.16, G:0.80, T:0.00
Consensus pattern (43 bp):
GGGCGGGGCGGGGGGCGGGGGGGGGCGGGGCGCGGGGGGAGGG
Found at i:8554238 original size:7 final size:7
Alignment explanation
Indices: 8554048--8554237 Score: 109
Period size: 6 Copynumber: 27.4 Consensus size: 7
8554038 ATGCTGCCAT
8554048 GGGC-GG
1 GGGCGGG
*
8554054 GGGC-GA
1 GGGCGGG
8554060 GGGC-GG
1 GGGCGGG
8554066 GGGCGGG
1 GGGCGGG
8554073 GCGG-GCGG
1 G-GGCG-GG
8554081 GGGC-GG
1 GGGCGGG
8554087 GGGCGGG
1 GGGCGGG
*
8554094 CGG-GGG
1 GGGCGGG
*
8554100 AGGCGGG
1 GGGCGGG
8554107 CGGGCGGG
1 -GGGCGGG
8554115 GGG-GGG
1 GGGCGGG
8554121 GGG-GGG
1 GGGCGGG
8554127 GGGCCGGG
1 GGG-CGGG
8554135 GCGGCGGG
1 G-GGCGGG
8554143 GGGC-GG
1 GGGCGGG
8554149 GGG-GGG
1 GGGCGGG
*
8554155 GGACGGG
1 GGGCGGG
*
8554162 AGGCGGCG
1 GGGCGG-G
8554170 GGCGCGCGAG
1 GG-GCG-G-G
*
8554180 GGGGGGACG
1 GGGCGG--G
8554189 GGGCGGG
1 GGGCGGG
*
8554196 GGGC--C
1 GGGCGGG
8554201 GGGCGGG
1 GGGCGGG
8554208 GGGCGGG
1 GGGCGGG
*
8554215 GCGCGGG
1 GGGCGGG
*
8554222 GGGAGGG
1 GGGCGGG
8554229 GGG-GGG
1 GGGCGGG
8554235 GGG
1 GGG
8554238 GTTGGTCTAC
Statistics
Matches: 148, Mismatches: 18, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.03
6 52 0.35
7 52 0.35
8 23 0.16
9 13 0.09
10 4 0.03
ACGTcount: A:0.04, C:0.16, G:0.80, T:0.00
Consensus pattern (7 bp):
GGGCGGG
Found at i:8580717 original size:202 final size:202
Alignment explanation
Indices: 8580371--8580775 Score: 686
Period size: 202 Copynumber: 2.0 Consensus size: 202
8580361 GATTTTCATG
* * * *
8580371 TTTCCTTACCTGTGAGCTTACTGTAGGGTACCTATGTGCCACATGTATTTTAATAAAACAAATTT
1 TTTCCTTACCTGTGAGATTACTGAAGGGTACCTATGTGCCACATGTAGTTTAACAAAACAAATTT
* *
8580436 CTCTGTTCATTATGAGATGATGTTGAGACTTCTTTCCACCATCATAGGATGCACTCACTTTGTGG
66 CTCTGTTAATTATCAGATGATGTTGAGACTTCTTTCCACCATCATAGGATGCACTCACTTTGTGG
* *
8580501 AATGGCATTTTATTTTCCTAGTTCACTGTTTAATATAAGCAAGTATTCTACCTAGTGGCGTGTAC
131 AATGGCATTTTATTTTCCTAGTTCACTGTTTAATATAAGCAAGTATGCTACCTAGTGGCATGTAC
8580566 ATCTGAA
196 ATCTGAA
*
8580573 TTTCCTTACCTGTGAGATTACTGAAGGGTACCTGTGTGCCACATGTAGTTTAACAAAACAAATTT
1 TTTCCTTACCTGTGAGATTACTGAAGGGTACCTATGTGCCACATGTAGTTTAACAAAACAAATTT
* *
8580638 -TGCTGTTAATTATCAGATGATGTTGAGACTTCTTTCCAGCATCATAGGATGCAGTCACTTTGTG
66 CT-CTGTTAATTATCAGATGATGTTGAGACTTCTTTCCACCATCATAGGATGCACTCACTTTGTG
*
8580702 GAATGGCATTTTATTTTCCTATTTCACTGTTTAATATAAGCAAGTATGCTACCTAGTGGCATGTA
130 GAATGGCATTTTATTTTCCTAGTTCACTGTTTAATATAAGCAAGTATGCTACCTAGTGGCATGTA
8580767 CATCTGAA
195 CATCTGAA
8580775 T
1 T
8580776 ATTCTTTGGT
Statistics
Matches: 190, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
201 1 0.01
202 189 0.99
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (202 bp):
TTTCCTTACCTGTGAGATTACTGAAGGGTACCTATGTGCCACATGTAGTTTAACAAAACAAATTT
CTCTGTTAATTATCAGATGATGTTGAGACTTCTTTCCACCATCATAGGATGCACTCACTTTGTGG
AATGGCATTTTATTTTCCTAGTTCACTGTTTAATATAAGCAAGTATGCTACCTAGTGGCATGTAC
ATCTGAA
Found at i:8603155 original size:2 final size:2
Alignment explanation
Indices: 8603148--8603178 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8603138 TCTTTTTGCC
8603148 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8603179 ATTTTGCCCC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8606964 original size:46 final size:46
Alignment explanation
Indices: 8606906--8606998 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
8606896 GGTAGGATTT
* * *
8606906 AAATCTTTTAAATCTAAAATGATTAGAACTTGAAAAAATTATATTC
1 AAATCTTTTAAATCTAAAATAATTAAAACTTGAAAAAATCATATTC
* * *
8606952 AAATTTTTTAAATCTGAAATAATTAAAACTTGAAAAAGTCATATTC
1 AAATCTTTTAAATCTAAAATAATTAAAACTTGAAAAAATCATATTC
8606998 A
1 A
8606999 TATAATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (46 bp):
AAATCTTTTAAATCTAAAATAATTAAAACTTGAAAAAATCATATTC
Found at i:8617235 original size:20 final size:20
Alignment explanation
Indices: 8617197--8617235 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8617187 TAATATATTG
*
8617197 TTATTTTTTATATATTTTAT
1 TTATTTTTTATATACTTTAT
8617217 TTATTTTTTA-ATAACTTTA
1 TTATTTTTTATAT-ACTTTA
8617236 CTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTTTTATATACTTTAT
Found at i:8629469 original size:22 final size:21
Alignment explanation
Indices: 8629435--8629481 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
8629425 CAGCTGATAC
*
8629435 AAATCCAAACAACTACTATAG
1 AAATCCAAACAACTAATATAG
*
8629456 AAATCACATACAACTAATATAG
1 AAATC-CAAACAACTAATATAG
8629478 AAAT
1 AAAT
8629482 AAATTATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.21
Consensus pattern (21 bp):
AAATCCAAACAACTAATATAG
Found at i:8635548 original size:19 final size:19
Alignment explanation
Indices: 8635511--8635550 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8635501 ACGAGGAAGA
* **
8635511 AAAAAGCAAAATGTGAAAG
1 AAAAAGCAAAAAGAAAAAG
8635530 AAAAAGCAAAAAGAAAAAG
1 AAAAAGCAAAAAGAAAAAG
8635549 AA
1 AA
8635551 GAAAAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAAAGCAAAAAGAAAAAG
Done.