Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 25 of 153
Found at i:8798690 original size:75 final size:75
Alignment explanation
Indices: 8798549--8798691 Score: 162
Period size: 75 Copynumber: 1.9 Consensus size: 75
8798539 ACGGACACAC
* * * ** *
8798549 CACAACTCGTATGAGCTTCTCGATATTCAACTCACTTGAGATTTCTGTTATACAGCTCGCATGAG
1 CACAACTCGCATGAGCTTCTCGATATTCAACTCACATGAGATTCCCATTATACAGCTCGCAGGAG
8798614 CTTTCTGTTA
66 CTTTCTGTTA
* * * * * *
8798624 CACAGCTCGCATGAGCTTCTCGATATTTAGCTCGCATGAGCTTCCCATTATTCAGCTCAG-AGGA
1 CACAACTCGCATGAGCTTCTCGATATTCAACTCACATGAGATTCCCATTATACAGCTC-GCAGGA
8798688 GCTT
65 GCTT
8798692 CTTGTTTACA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
75 54 0.98
76 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (75 bp):
CACAACTCGCATGAGCTTCTCGATATTCAACTCACATGAGATTCCCATTATACAGCTCGCAGGAG
CTTTCTGTTA
Found at i:8811934 original size:21 final size:21
Alignment explanation
Indices: 8811876--8811962 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
8811866 CCTAATCAGT
8811876 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
8811896 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
8811917 ATACGACACATAAAGTGCTTGAG
1 ATACGACACATAAAGTGCCT--G
8811940 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
8811961 AT
1 AT
8811963 CGGCAAAGCC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 8 0.15
21 25 0.47
23 20 0.38
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:8811960 original size:44 final size:41
Alignment explanation
Indices: 8811876--8811962 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
8811866 CCTAATCAGT
* * *
8811876 ATACGACACATAAGTGCCTGAAATGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
8811917 ATACGACACATAAAGTGCTTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
8811961 AT
1 AT
8811963 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 9 0.24
43 1 0.03
44 17 0.45
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:8812979 original size:22 final size:23
Alignment explanation
Indices: 8812951--8812998 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
8812941 GCATTAGTTA
8812951 ATAATAA-AAATAATAATATATT
1 ATAATAACAAATAATAATATATT
* *
8812973 ATAATAATCATATAATAATATTTT
1 ATAATAA-CAAATAATAATATATT
8812997 AT
1 AT
8812999 TCACAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAATAACAAATAATAATATATT
Found at i:8813164 original size:30 final size:27
Alignment explanation
Indices: 8813124--8813188 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 27
8813114 TTTCCTATAA
*
8813124 TATATTATTTTAATTTTAATTAATATAATT
1 TATAATATTTTAA-TTTAA-TAATAT-ATT
*
8813154 TATAATATTTTAATTTAATAATATTTT
1 TATAATATTTTAATTTAATAATATATT
8813181 TATAATAT
1 TATAATAT
8813189 AAATCAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 10 0.30
28 6 0.18
29 5 0.15
30 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATAATATTTTAATTTAATAATATATT
Found at i:8813171 original size:25 final size:26
Alignment explanation
Indices: 8813136--8813188 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
8813126 TATTATTTTA
8813136 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
8813160 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
8813187 AT
1 AT
8813189 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:8813174 original size:16 final size:16
Alignment explanation
Indices: 8813129--8813180 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
8813119 TATAATATAT
8813129 TATTTTAATTTTAATTAA
1 TATTTTAA-TTTAA-TAA
8813147 TA---TAATTT-ATAA
1 TATTTTAATTTAATAA
8813159 TATTTTAATTTAATAA
1 TATTTTAATTTAATAA
8813175 TATTTT
1 TATTTT
8813181 TATAATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 3 0.10
15 9 0.30
16 10 0.33
18 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTAATTTAATAA
Found at i:8821900 original size:13 final size:13
Alignment explanation
Indices: 8821882--8821908 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8821872 TACCCGTCGC
8821882 TGTGGCTCCAATA
1 TGTGGCTCCAATA
8821895 TGTGGCTCCAATA
1 TGTGGCTCCAATA
8821908 T
1 T
8821909 ACTCTAGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
TGTGGCTCCAATA
Found at i:8822908 original size:31 final size:31
Alignment explanation
Indices: 8822872--8822957 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 31
8822862 AAGTTGTAAA
* * * *
8822872 TTTAGTCTATTTACTTTTTAAATTAATCAAT
1 TTTAGTCCATGTACTCTTCAAATTAATCAAT
8822903 TTTAGTCCATGTACTCTTCAAATTAATCAAT
1 TTTAGTCCATGTACTCTTCAAATTAATCAAT
* * *
8822934 TTTAATCCTTGTACTTTTCAAATT
1 TTTAGTCCATGTACTCTTCAAATT
8822958 CATTTGGCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.30, C:0.15, G:0.05, T:0.50
Consensus pattern (31 bp):
TTTAGTCCATGTACTCTTCAAATTAATCAAT
Found at i:8828794 original size:7 final size:7
Alignment explanation
Indices: 8828774--8828832 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
8828764 AGGCAACCCA
8828774 ATTT-TT
1 ATTTATT
8828780 ATTT-TT
1 ATTTATT
8828786 ATTTATT
1 ATTTATT
8828793 ATTTATT
1 ATTTATT
8828800 ACTTTA-T
1 A-TTTATT
8828807 -TTT-TT
1 ATTTATT
8828812 A-TTATT
1 ATTTATT
8828818 ATTTATT
1 ATTTATT
8828825 ACTTTATT
1 A-TTTATT
8828833 TTTTTCGATA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
5 6 0.13
6 13 0.28
7 17 0.37
8 10 0.22
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTATT
Found at i:8828806 original size:12 final size:12
Alignment explanation
Indices: 8828791--8828833 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
8828781 TTTTTATTTA
8828791 TTATTTATTACT
1 TTATTTATTACT
* *
8828803 TTATTTTTTATT
1 TTATTTATTACT
8828815 ATTATTTATTACT
1 -TTATTTATTACT
8828828 TTATTT
1 TTATTT
8828834 TTTTCGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTACT
Found at i:8828816 original size:25 final size:26
Alignment explanation
Indices: 8828777--8828836 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
8828767 CAACCCAATT
8828777 TTTA-TTTTTATTTATTATTTATTAC
1 TTTATTTTTTATTTATTATTTATTAC
8828802 TTTATTTTTTA-TTATTATTTATTAC
1 TTTATTTTTTATTTATTATTTATTAC
8828827 TTTATTTTTT
1 TTTATTTTTT
8828837 TCGATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 28 0.82
26 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTATTTTTTATTTATTATTTATTAC
Found at i:8830125 original size:111 final size:113
Alignment explanation
Indices: 8829982--8830186 Score: 297
Period size: 111 Copynumber: 1.8 Consensus size: 113
8829972 ACAAAAAATT
* * *
8829982 TTAGGAATGTGTTGGGTTGAGTAACCGGGGTGGGATGCTTGGCTGTCATCTCTCTTCGCATCAAA
1 TTAGGAATATGTTGGGATGAGTAACCGGGGTGGGATACTTGGCTGTCATCTCTCTTCGCATCAAA
*
8830047 AGTTTCAATATATTCTTAAG-AAA-AAAACATATATAAATATAATAAA
66 AGGTTCAATATATTCTTAAGCAAAGAAAACATATATAAATATAATAAA
* * * * * * *
8830093 TTAGGAGTATGTTGGGATGAGTAACTGGGGTGGGGTACTTGGTTGTCATCTCTTTTTGCGTCAAA
1 TTAGGAATATGTTGGGATGAGTAACCGGGGTGGGATACTTGGCTGTCATCTCTCTTCGCATCAAA
8830158 AGGTTCAATATATTCTTAAGCAAAGAAAA
66 AGGTTCAATATATTCTTAAGCAAAGAAAA
8830187 ACGAAAAATA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
111 74 0.91
112 3 0.04
113 4 0.05
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (113 bp):
TTAGGAATATGTTGGGATGAGTAACCGGGGTGGGATACTTGGCTGTCATCTCTCTTCGCATCAAA
AGGTTCAATATATTCTTAAGCAAAGAAAACATATATAAATATAATAAA
Found at i:8831757 original size:16 final size:16
Alignment explanation
Indices: 8831736--8831766 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8831726 TTTAACCCTA
8831736 CTTTTCTTATACTATT
1 CTTTTCTTATACTATT
8831752 CTTTTCTTATACTAT
1 CTTTTCTTATACTAT
8831767 CTAAGCTTTG
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:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (16 bp):
CTTTTCTTATACTATT
Found at i:8832289 original size:3 final size:3
Alignment explanation
Indices: 8832275--8832306 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8832265 ACCCCCGCCT
*
8832275 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8832307 GCCCTTGTAG
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:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:8847995 original size:19 final size:19
Alignment explanation
Indices: 8847971--8848011 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8847961 TCAAACCATG
8847971 TATTTAGCTTTTGGGTTAA
1 TATTTAGCTTTTGGGTTAA
8847990 TATTTAGCTTTTGGGTTAA
1 TATTTAGCTTTTGGGTTAA
8848009 TAT
1 TAT
8848012 ACTATTTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.54
Consensus pattern (19 bp):
TATTTAGCTTTTGGGTTAA
Found at i:8853213 original size:4 final size:4
Alignment explanation
Indices: 8853204--8853231 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8853194 CCGTTAATCT
8853204 CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC
8853232 ATCTGTAAGG
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:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:8859030 original size:21 final size:21
Alignment explanation
Indices: 8859000--8859039 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8858990 TATTGCTGTA
* *
8859000 GGTGGCGTTGTTGTTGTTGAT
1 GGTGGCGTTGATGTCGTTGAT
*
8859021 GGTGGTGTTGATGTCGTTG
1 GGTGGCGTTGATGTCGTTG
8859040 CCGCCGTCGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.05, G:0.45, T:0.45
Consensus pattern (21 bp):
GGTGGCGTTGATGTCGTTGAT
Found at i:8862352 original size:19 final size:18
Alignment explanation
Indices: 8862317--8862361 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
8862307 TTAAAAAAAA
8862317 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATTTT
*
8862335 TATAAATATTTTAAATTTT
1 TATAAAT-TTTGAAATTTT
*
8862354 TAAAAATT
1 TATAAATT
8862362 GTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATAAATTTTGAAATTTT
Found at i:8864023 original size:30 final size:27
Alignment explanation
Indices: 8863987--8864046 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
8863977 AATAATGTAT
*
8863987 TATTATATATACATACTTATAGTAAAAAAA
1 TATTATACATACATA--TATA-TAAAAAAA
*
8864017 TATTATACATACATATATATAAAAATA
1 TATTATACATACATATATATAAAAAAA
8864044 TAT
1 TAT
8864047 AAATTAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 4 0.14
30 14 0.50
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
TATTATACATACATATATATAAAAAAA
Found at i:8864026 original size:26 final size:25
Alignment explanation
Indices: 8863994--8864044 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
8863984 TATTATTATA
*
8863994 TATACATACTTATAGTAAAAAAATAT
1 TATACATACATATA-TAAAAAAATAT
*
8864020 TATACATACATATATATAAAAATAT
1 TATACATACATATATAAAAAAATAT
8864045 ATAAATTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (25 bp):
TATACATACATATATAAAAAAATAT
Found at i:8865838 original size:26 final size:26
Alignment explanation
Indices: 8865758--8865840 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
8865748 ATCATTACTT
* *
8865758 TTAATTTGAATAGTGATAGTAAATAA
1 TTAATTTGAATATTGATAGTGAATAA
* * * *
8865784 TTAATTT-ACAAAGTTTAT-G-GACT-T
1 TTAATTTGA-ATA-TTGATAGTGAATAA
8865808 TTAATTTGAATATTGATAGTGAATAA
1 TTAATTTGAATATTGATAGTGAATAA
8865834 TTAATTT
1 TTAATTT
8865841 ATCATCTAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 4 0.10
24 10 0.24
25 7 0.17
26 17 0.41
27 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (26 bp):
TTAATTTGAATATTGATAGTGAATAA
Found at i:8876335 original size:31 final size:32
Alignment explanation
Indices: 8876299--8876363 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
8876289 CTTAGATAAT
8876299 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
8876330 TTTAAAGAGTTTTTTTTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
8876362 TT
1 TT
8876364 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.49
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:8877377 original size:23 final size:22
Alignment explanation
Indices: 8877334--8877377 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
8877324 TTTCAAGTCA
8877334 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
8877357 ATATTCATCATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
8877378 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:8877551 original size:23 final size:23
Alignment explanation
Indices: 8877476--8877550 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
8877466 ATAAGTGCCA
*
8877476 CACTGAAATCTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
8877499 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
8877522 CACTGATATGTAGCCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
8877545 CACTGA
1 CACTGA
8877551 TCAATAACAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:8881500 original size:19 final size:20
Alignment explanation
Indices: 8881476--8881522 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8881466 TGTGAAAATC
*
8881476 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGCAATG
*
8881495 TAATGCAAATGCATGGAATG
1 TAATGCAAATGCATGCAATG
8881515 -AATGCAAA
1 TAATGCAAA
8881523 AAGAAAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCAATG
Found at i:8883733 original size:50 final size:51
Alignment explanation
Indices: 8883619--8883750 Score: 130
Period size: 50 Copynumber: 2.6 Consensus size: 51
8883609 GAATAAAATT
* *
8883619 ATAAAAA-CATAAAAAGATATATAAGTATGTATAGATATATGTACATTAAA
1 ATAAAAAGCATAAAAAGATATATAAGTATATATAGATATATGTACATGAAA
* * * * **
8883669 ATTATAAAGTATAAAAAAATATATAAGTATATAT-TA-ATATGTTTATGAAA
1 A-TAAAAAGCATAAAAAGATATATAAGTATATATAGATATATGTACATGAAA
*
8883719 ATAAAAATGCATAAATAGATATAT-A-TATATAT
1 ATAAAAA-GCATAAAAAGATATATAAGTATATAT
8883751 GTAAATAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
48 7 0.10
49 6 0.09
50 26 0.39
51 6 0.09
52 22 0.33
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.34
Consensus pattern (51 bp):
ATAAAAAGCATAAAAAGATATATAAGTATATATAGATATATGTACATGAAA
Found at i:8883744 original size:2 final size:2
Alignment explanation
Indices: 8883737--8883813 Score: 54
Period size: 2 Copynumber: 40.0 Consensus size: 2
8883727 GCATAAATAG
* * *
8883737 AT AT AT AT AT AT AT GT AA AT AA AT -T AT A- AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
8883776 AT AT AT AT A- AGT AT GT AT AT GT AC AT AT AT AT GT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
8883814 GAATTAAAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
1 4 0.07
2 51 0.91
3 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8883768 original size:22 final size:22
Alignment explanation
Indices: 8883730--8883813 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
8883720 TAAAAATGCA
*
8883730 TAAATAGATATATATATATATG
1 TAAATAAATATATATATATATG
*
8883752 TAAATAAAT-TATA-ATATATA
1 TAAATAAATATATATATATATG
* *
8883772 TATAATATATATAAGTATGTATATG
1 TA-AATAAATAT-A-TATATATATG
* * *
8883797 TACATATATATGTATAT
1 TAAATAAATATATATAT
8883814 GAATTAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
20 8 0.16
21 10 0.20
22 13 0.27
23 1 0.02
24 10 0.20
25 7 0.14
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (22 bp):
TAAATAAATATATATATATATG
Found at i:8883992 original size:15 final size:16
Alignment explanation
Indices: 8883972--8884004 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8883962 TTTGACATAG
8883972 ATAATAATATATA-AA
1 ATAATAATATATATAA
8883987 ATAATAATATATATAA
1 ATAATAATATATATAA
8884003 AT
1 AT
8884005 TTAAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:8884697 original size:11 final size:11
Alignment explanation
Indices: 8884673--8884708 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8884663 AAACAAAAGT
8884673 AAAAAT-AA-A
1 AAAAATGAACA
8884682 AAAAATGAACA
1 AAAAATGAACA
8884693 AAAAATGAACA
1 AAAAATGAACA
8884704 AAAAA
1 AAAAA
8884709 AAGGTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 17 0.68
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (11 bp):
AAAAATGAACA
Found at i:8889117 original size:23 final size:21
Alignment explanation
Indices: 8889076--8889133 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
8889066 ATCTGCCGAC
*
8889076 ATTTTTATAATTTAATTTTTTT
1 ATTTTTAAAATTT-ATTTTTTT
8889098 ATTTTTAAAATATTATTTTTTT
1 ATTTTTAAAAT-TTATTTTTTT
*
8889120 ATTTTTCAAATTTA
1 ATTTTTAAAATTTA
8889134 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTAAAATTTATTTTTTT
Found at i:8889195 original size:13 final size:12
Alignment explanation
Indices: 8889160--8889197 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8889150 TGGCATCATC
8889160 ATTAAA-TTTTT
1 ATTAAATTTTTT
8889171 ATTAAATTTTTT
1 ATTAAATTTTTT
8889183 ATTAAATTATTTT
1 ATTAAATT-TTTT
8889196 AT
1 AT
8889198 GCGATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
13 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTAAATTTTTT
Found at i:8889430 original size:46 final size:44
Alignment explanation
Indices: 8889373--8889465 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
8889363 ATAGGGTTGT
*
8889373 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTATTTGGTTGAATGG
***
8889419 AATGGAATAGAACTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
8889463 AAT
1 AAT
8889466 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
Found at i:8889639 original size:17 final size:17
Alignment explanation
Indices: 8889613--8889645 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8889603 CATAATTATT
*
8889613 AAATATAATTTAATAAA
1 AAATAAAATTTAATAAA
8889630 AAATAAAATTTAATAA
1 AAATAAAATTTAATAA
8889646 TATTCGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAAATTTAATAAA
Found at i:8890107 original size:152 final size:153
Alignment explanation
Indices: 8889786--8890107 Score: 610
Period size: 152 Copynumber: 2.1 Consensus size: 153
8889776 ATTATTCTAC
* *
8889786 AATAATTGAATTGGTAGTAAAATATAATAATTACATCTTTTAGCCCATTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
*
8889851 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
8889916 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
8889939 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
8890004 TAATAATTGAATTGGTAGT-AAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
8890068 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
8890091 AATAATTGAATTGGTAA
1 AATAATTGAATTGGTAA
8890108 CAATTATTTG
Statistics
Matches: 166, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
152 84 0.51
153 82 0.49
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (153 bp):
AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
ATTAATTATTTGTTAAGAAAAAT
Found at i:8891122 original size:20 final size:20
Alignment explanation
Indices: 8891097--8891135 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8891087 AAAACATGTC
*
8891097 GACTCATATGTTGGACTGTA
1 GACTCATATGTTAGACTGTA
8891117 GACTCATATGTTAGACTGT
1 GACTCATATGTTAGACTGT
8891136 TGTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GACTCATATGTTAGACTGTA
Found at i:8891274 original size:23 final size:24
Alignment explanation
Indices: 8891248--8891300 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
8891238 TGTAATTTTA
*
8891248 TAAAATTAA-AAA-TTATTTAAAAT
1 TAAAATTAATAAATTTA-TAAAAAT
*
8891271 TAAAA-AAATAAATTTATAAAAAT
1 TAAAATTAATAAATTTATAAAAAT
8891294 TAAAATT
1 TAAAATT
8891301 TTATAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.08
23 19 0.79
24 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAAATTAATAAATTTATAAAAAT
Found at i:8891303 original size:17 final size:17
Alignment explanation
Indices: 8891241--8891318 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 17
8891231 GCTGACATGT
*
8891241 AATTTTATAAAATTAAA
1 AATTTTATAAAAATAAA
*
8891258 AATTATT-TAAAATTAAAAA
1 AATT-TTATAAAA--ATAAA
*
8891277 AATAAATTTATAAAAATTAA
1 AAT---TTTATAAAAATAAA
*
8891297 AATTTTATAAAAGTAAA
1 AATTTTATAAAAATAAA
8891314 AATTT
1 AATTT
8891319 CTGAAAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
17 26 0.54
18 2 0.04
19 6 0.12
20 6 0.12
21 2 0.04
22 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AATTTTATAAAAATAAA
Found at i:8895248 original size:29 final size:29
Alignment explanation
Indices: 8895185--8895250 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
8895175 TGAATAGTAA
* *
8895185 AGTGACTATTTTGTAACTTTTTATAATTG
1 AGTGACAATTTTATAACTTTTTATAATTG
* *
8895214 AATGACAATTTTATAACTTTTTATAGTTG
1 AGTGACAATTTTATAACTTTTTATAATTG
*
8895243 GGTGACAA
1 AGTGACAA
8895251 AAAAAAAGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (29 bp):
AGTGACAATTTTATAACTTTTTATAATTG
Found at i:8898088 original size:9 final size:9
Alignment explanation
Indices: 8898072--8898132 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
8898062 GGTATTTTTC
8898072 GGTAATTCG
1 GGTAATTCG
*
8898081 GTTAATTCG
1 GGTAATTCG
*
8898090 GTTAATTCG
1 GGTAATTCG
*
8898099 AGTAATTCG
1 GGTAATTCG
8898108 GGTAATTCG
1 GGTAATTCG
8898117 GGTAATTCG
1 GGTAATTCG
8898126 GGTAATT
1 GGTAATT
8898133 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:8913355 original size:17 final size:17
Alignment explanation
Indices: 8913321--8913353 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8913311 AGTACCATTC
*
8913321 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
8913338 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
8913354 ATAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:8918298 original size:15 final size:16
Alignment explanation
Indices: 8918278--8918309 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8918268 TCAACGGTTA
8918278 AATAAT-TAAAATATT
1 AATAATATAAAATATT
8918293 AATAATATAAAATATT
1 AATAATATAAAATATT
8918309 A
1 A
8918310 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATATAAAATATT
Found at i:8929932 original size:20 final size:21
Alignment explanation
Indices: 8929894--8929933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8929884 AAATGCATTC
8929894 ATGTTTAAATTGTTGTGATTT
1 ATGTTTAAATTGTTGTGATTT
*
8929915 ATGTTTGAATTG-TGTGATT
1 ATGTTTAAATTGTTGTGATT
8929934 AATGAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (21 bp):
ATGTTTAAATTGTTGTGATTT
Found at i:8930339 original size:21 final size:22
Alignment explanation
Indices: 8930313--8930362 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
8930303 TATGATTAGT
8930313 ATAAGTTAACTAT-CTATGTATG
1 ATAAGTTAACTATGCTAT-TATG
*
8930335 -TAAG-TAATTATGCTATTATG
1 ATAAGTTAACTATGCTATTATG
8930355 ATAAGTTA
1 ATAAGTTA
8930363 TAAGATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 10 0.42
21 12 0.50
22 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (22 bp):
ATAAGTTAACTATGCTATTATG
Found at i:8935204 original size:24 final size:26
Alignment explanation
Indices: 8935160--8935209 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
8935150 ATAATAGATC
8935160 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
8935186 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
8935210 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:8935255 original size:16 final size:16
Alignment explanation
Indices: 8935228--8935268 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
8935218 ATAATGGTTA
8935228 AAATAAATAAGA-GAAT
1 AAATAAA-AAGATGAAT
8935244 CAAATAAAAAGATGAAT
1 -AAATAAAAAGATGAAT
8935261 AAATAAAA
1 AAATAAAA
8935269 CCTATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (16 bp):
AAATAAAAAGATGAAT
Found at i:8949672 original size:13 final size:13
Alignment explanation
Indices: 8949633--8949673 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
8949623 AAGTGTTGTG
8949633 GAGAAGTGCTTTT
1 GAGAAGTGCTTTT
*
8949646 CAGAAGTGCTTTT
1 GAGAAGTGCTTTT
8949659 GAGAAGTGCTTTT
1 GAGAAGTGCTTTT
8949672 GA
1 GA
8949674 AAATTTTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (13 bp):
GAGAAGTGCTTTT
Found at i:8951078 original size:21 final size:22
Alignment explanation
Indices: 8951052--8951096 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8951042 TTCAACTTAA
*
8951052 AATT-AATTTAAAAT-TATAATT
1 AATTAAATTGAAAATATA-AATT
8951073 AATTAAATTGAAAATATAAATT
1 AATTAAATTGAAAATATAAATT
8951095 AA
1 AA
8951097 GTGATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 15 0.71
23 2 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAAATTGAAAATATAAATT
Found at i:8954443 original size:21 final size:21
Alignment explanation
Indices: 8954417--8954460 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8954407 CATTGCTTCT
* *
8954417 AAAAAACATTTTTGGGACAAA
1 AAAAAACACTTTTGAGACAAA
*
8954438 AAAAAACACTTTTGAGATAAA
1 AAAAAACACTTTTGAGACAAA
8954459 AA
1 AA
8954461 CATTGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAAAACACTTTTGAGACAAA
Found at i:8965881 original size:20 final size:20
Alignment explanation
Indices: 8965856--8965905 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
8965846 TGGCTTAAAA
8965856 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
8965876 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
8965893 GTGGTAGTGGATT
1 TTGGTAGTGGATT
8965906 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:8985994 original size:13 final size:13
Alignment explanation
Indices: 8985976--8986000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8985966 AGTTCTTTAT
8985976 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
8985989 TGCTTTTGAGAA
1 TGCTTTTGAGAA
8986001 ATTTGAGTCT
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:8987922 original size:72 final size:72
Alignment explanation
Indices: 8987760--8987896 Score: 238
Period size: 72 Copynumber: 1.9 Consensus size: 72
8987750 CTAATTTAGT
*
8987760 ATAAATAAGTAGAACATAAATTCAATATCCAAAGACCAAACATAAACAACTATTAATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
8987825 ATTACAC
66 ATTACAC
* * *
8987832 ATAAATAAGTAGAACATAAATTCAATGTCCAAAAACCAAACATAAATAACTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
8987897 TTTAGCATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
ATTACAC
Found at i:8989987 original size:62 final size:62
Alignment explanation
Indices: 8989911--8990030 Score: 188
Period size: 62 Copynumber: 1.9 Consensus size: 62
8989901 TCTTTTTTTT
*
8989911 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAACAA-AAAAACAAACAAAAACAA
1 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAA-AACAAAAAAAAACAAAAACAA
* * *
8989973 AAACATCAAATTGAACTATTATTTCGAAAACATGCGGCAAAAACAAAAAAAAACAAAA
1 AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAAAAAACAAAA
8990031 CCATGGCCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 2 0.04
62 51 0.96
ACGTcount: A:0.61, C:0.15, G:0.07, T:0.17
Consensus pattern (62 bp):
AAACATAAAATTGAACTATTATTTAGAAAACATACGGCAAAAACAAAAAAAAACAAAAACAA
Found at i:8995035 original size:22 final size:22
Alignment explanation
Indices: 8995002--8995167 Score: 323
Period size: 22 Copynumber: 7.5 Consensus size: 22
8994992 TTTTCACAAA
8995002 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
8995025 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995047 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995069 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995091 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995113 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995135 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
8995157 CAAAATTCTCT
1 CAAAATTCTCT
8995168 TAAACTCTCA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
22 139 0.97
23 4 0.03
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:8995279 original size:28 final size:29
Alignment explanation
Indices: 8995224--8995281 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
8995214 ATTCAATTTC
*
8995224 ATTTTTTTACGAAAATTTTAAATATTTTT
1 ATTTTTTTACAAAAATTTTAAATATTTTT
8995253 ATTTTTTTA-AAATAATTTTAAA-ATTTTT
1 ATTTTTTTACAAA-AATTTTAAATATTTTT
8995281 A
1 A
8995282 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTTTTTACAAAAATTTTAAATATTTTT
Found at i:8995408 original size:14 final size:15
Alignment explanation
Indices: 8995379--8995412 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8995369 AAATTTTAAA
8995379 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
8995394 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
8995408 TTTTA
1 TTTTA
8995413 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:8996178 original size:20 final size:20
Alignment explanation
Indices: 8996146--8996184 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8996136 TAACGAGGTA
8996146 AATTTTATATTAGATTTTAC
1 AATTTTATATTAGATTTTAC
8996166 AATTATTAT-TTAGATTTTA
1 AATT-TTATATTAGATTTTA
8996185 AAAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (20 bp):
AATTTTATATTAGATTTTAC
Found at i:8996367 original size:7 final size:7
Alignment explanation
Indices: 8996355--8996386 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8996345 AGTGGATTGA
8996355 TATTTAG
1 TATTTAG
8996362 TATTTAG
1 TATTTAG
8996369 TATTTAG
1 TATTTAG
8996376 TATTTAG
1 TATTTAG
8996383 TATT
1 TATT
8996387 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:8997273 original size:24 final size:24
Alignment explanation
Indices: 8997246--8997292 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8997236 TTCAAACTTC
* *
8997246 GTCGTCGTTTATGATGCAAACACT
1 GTCGCCGTTCATGATGCAAACACT
*
8997270 GTCGCCGTTCGTGATGCAAACAC
1 GTCGCCGTTCATGATGCAAACAC
8997293 CACCACATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (24 bp):
GTCGCCGTTCATGATGCAAACACT
Found at i:8997736 original size:29 final size:29
Alignment explanation
Indices: 8997544--8997730 Score: 286
Period size: 29 Copynumber: 6.5 Consensus size: 29
8997534 TTTTGATATT
*
8997544 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
8997572 ATTTAATTAAAAACCCAAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
8997601 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
8997630 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
8997659 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
8997688 ATTTAATTAAAAACACTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
8997717 ATTTAATTAAAAAC
1 ATTTAATTAAAAAC
8997731 TGTAACACCC
Statistics
Matches: 142, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 17 0.12
29 125 0.88
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:8999250 original size:29 final size:29
Alignment explanation
Indices: 8999217--8999571 Score: 471
Period size: 29 Copynumber: 12.3 Consensus size: 29
8999207 GGGCTATCAC
* * *
8999217 AAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
* *
8999246 AAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
*
8999275 AAAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
* * *
8999304 AAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
* *
8999333 AAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
*
8999362 AAAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
*
8999391 -AAAACCCTAACCCTAATTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
* * * *
8999419 AAAAATCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
* *
8999448 AAAAACCCTAACCCTAGTTTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
*
8999477 -AAAACCCTAAACCCTAACCTAATTTAATT
1 AAAAACCCT-AACCCTAATCTAATTTAATT
* * *
8999506 AAAAACCCTAACCCTAACCCATTTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
*
8999535 AAAAACCCTAACCCTAAACTAATTTAATT
1 AAAAACCCTAACCCTAATCTAATTTAATT
8999564 AAAAACCC
1 AAAAACCC
8999572 ATTTTAATTA
Statistics
Matches: 288, Mismatches: 35, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
28 36 0.12
29 244 0.85
30 8 0.03
ACGTcount: A:0.43, C:0.25, G:0.01, T:0.31
Consensus pattern (29 bp):
AAAAACCCTAACCCTAATCTAATTTAATT
Found at i:9012982 original size:21 final size:20
Alignment explanation
Indices: 9012958--9012996 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9012948 TGTTTTTAAC
9012958 TAAAACAAAATTTATTTTTAT
1 TAAAACAAAA-TTATTTTTAT
* *
9012979 TAAAGCACAATTATTTTT
1 TAAAACAAAATTATTTTT
9012997 TAAAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAAACAAAATTATTTTTAT
Found at i:9014686 original size:13 final size:13
Alignment explanation
Indices: 9014668--9014697 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9014658 AACTCCACCC
9014668 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
9014681 TTTCTCTCGTCCT
1 TTTCTCTCGTCCT
9014694 TTTC
1 TTTC
9014698 ATTTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.37, G:0.07, T:0.57
Consensus pattern (13 bp):
TTTCTCTCGTCCT
Found at i:9015008 original size:24 final size:24
Alignment explanation
Indices: 9014975--9015045 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 24
9014965 TCCTTTTCCA
*
9014975 GCACCCGAGCCTTCCAGTCCCTTT
1 GCACCAGAGCCTTCCAGTCCCTTT
* ** *
9014999 GCACCTGAGCCTGCTTCTGGTCCTTTT
1 GCACCAGAG-C--CTTCCAGTCCCTTT
9015026 GCACCAGAGCCTTCCAGTCC
1 GCACCAGAGCCTTCCAGTCC
9015046 ATCCGCACCT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
24 16 0.43
25 1 0.03
26 1 0.03
27 19 0.51
ACGTcount: A:0.13, C:0.41, G:0.20, T:0.27
Consensus pattern (24 bp):
GCACCAGAGCCTTCCAGTCCCTTT
Found at i:9027212 original size:206 final size:205
Alignment explanation
Indices: 9026856--9027258 Score: 716
Period size: 206 Copynumber: 2.0 Consensus size: 205
9026846 TAACCCTATT
*
9026856 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATGACGTT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
9026921 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
66 ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
* * * *
9026986 TTAGCCCGAGTTGTTCGGCAACTATGACTCAATGTGTACAATCTACCACCCAGGGTTATCCGAAA
131 TTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAAA
9027051 ACAGACTCAA
196 ACAGACTCAA
* * * *
9027061 AACGAGACACATACTCAAAATGGATACGTGGATCCGTCACCCGGGTTTTTCGGCAACGATAACGT
1 AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGG-TTTTCAGCAACGATAACGT
9027126 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
65 TATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCT
9027191 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAA
130 GTTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAA
9027256 AAC
195 AAC
9027259 TATGGTTTTC
Statistics
Matches: 188, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
205 42 0.22
206 146 0.78
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (205 bp):
AACGAGACACAGACTCAAAACGGATACGTGGATCCGCCACCCGGGTTTTCAGCAACGATAACGTT
ATACAAGTACATACTACCACCCTGGGTTGCCTGATAACAATGGTTTTCTCAATCTAATTTATCTG
TTAGCCCAAGTTGCTCGGCAACTATGACTCAATGTGTACAATCTACCACACAGGGTTACCCGAAA
ACAGACTCAA
Found at i:9037287 original size:31 final size:31
Alignment explanation
Indices: 9037222--9037283 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
9037212 AATATTAAAA
*
9037222 TATTAAAATAAAATATTATATTTTTTAATAT
1 TATTAAAATAAAATATTATATTATTTAATAT
9037253 TATTAAACAT-AAATATT-TAATTATTT-ATAT
1 TATTAAA-ATAAAATATTAT-ATTATTTAATAT
9037283 T
1 T
9037284 TATTCATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 6 0.21
31 20 0.71
32 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TATTAAAATAAAATATTATATTATTTAATAT
Found at i:9037437 original size:15 final size:15
Alignment explanation
Indices: 9037417--9037487 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
9037407 ACTCGATATT
9037417 AATATTTTAATAATA
1 AATATTTTAATAATA
*
9037432 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
9037451 AATATATTAATAATA
1 AATATTTTAATAATA
9037466 AATATTTT-ATAGTATA
1 AATATTTTAATA--ATA
9037482 AATATT
1 AATATT
9037488 AAAATATGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.07
15 18 0.39
16 10 0.22
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:9037455 original size:34 final size:31
Alignment explanation
Indices: 9037417--9037487 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 31
9037407 ACTCGATATT
*
9037417 AATATTTTAATAATAAATATTTATTATAATTATA
1 AATATTTTAATAATAAATA-TT-TTAT-AGTATA
*
9037451 AATATATTAATAATAAATATTTTATAGTATA
1 AATATTTTAATAATAAATATTTTATAGTATA
9037482 AATATT
1 AATATT
9037488 AAAATATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 10 0.29
32 4 0.12
33 2 0.06
34 18 0.53
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATTTTAATAATAAATATTTTATAGTATA
Found at i:9038012 original size:26 final size:26
Alignment explanation
Indices: 9037977--9038034 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
9037967 GCTCCATTTG
*
9037977 ATTTTTGAAAGTAATTTCT-ATTTTC-
1 ATTTTTGAAAATAATTT-TAATTTTCT
9038002 ATTTTTAGAAAATAATTTTAATTTTCT
1 ATTTTT-GAAAATAATTTTAATTTTCT
9038029 ATTTTT
1 ATTTTT
9038035 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.24
26 16 0.55
27 6 0.21
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTTTTGAAAATAATTTTAATTTTCT
Found at i:9044182 original size:17 final size:17
Alignment explanation
Indices: 9044160--9044198 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9044150 TATAATTAAT
9044160 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
9044177 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
9044194 CTTAA
1 TTTAA
9044199 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:9044285 original size:17 final size:17
Alignment explanation
Indices: 9044236--9044302 Score: 80
Period size: 17 Copynumber: 3.8 Consensus size: 17
9044226 AAAGATTTTC
*
9044236 TAAATATATTTAAAATTT
1 TAAATATA-TTAAAAGTT
* **
9044254 TAAAAAGCTTAAAAAGTT
1 TAAATATATT-AAAAGTT
9044272 TAAATATATTAAAAGTT
1 TAAATATATTAAAAGTT
9044289 TAAATATATTAAAA
1 TAAATATATTAAAA
9044303 AATGTTAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
17 23 0.56
18 18 0.44
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (17 bp):
TAAATATATTAAAAGTT
Found at i:9044315 original size:19 final size:18
Alignment explanation
Indices: 9044236--9044303 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
9044226 AAAGATTTTC
* *
9044236 TAAATATATTTAAAATTT
1 TAAATATATTAAAAAGTT
* **
9044254 TAAAAAGCTTAAAAAGTT
1 TAAATATATTAAAAAGTT
9044272 TAAATATATT-AAAAGTT
1 TAAATATATTAAAAAGTT
9044289 TAAATATATTAAAAA
1 TAAATATATTAAAAA
9044304 ATGTTAAGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
17 17 0.41
18 24 0.59
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (18 bp):
TAAATATATTAAAAAGTT
Found at i:9044399 original size:178 final size:181
Alignment explanation
Indices: 9044195--9044528 Score: 462
Period size: 178 Copynumber: 1.9 Consensus size: 181
9044185 TTTAATATAC
9044195 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTA-AAA
1 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
** * * * *
9044259 AGCTT-AAAAAGTTTAAATATATTAAAAGTTTAAATATATT-AA-AAAATGTTAAGTATAACCAA
66 A-CTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAA
**
9044321 TTTTAAAATTTTAAAATTTTTAATATATATTTTTAAAAATATATTTTAAAATT
130 -TTTAAAATTTTAAAATACTTAATATATATTTTTAAAAATATATTTTAAAATT
** * * * *
9044374 TTAATATAT-TTTTTAATAGGTAAAGAGGAAAAATATTTTTTTAGTATATTTAAAATTTTAGAAA
1 TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
* *
9044438 ACTTAAAAAAACTTAAAAAAATTAAAATTTTAAATATGTTAAAGAAAAGGATAAGTATAACCAAT
66 ACTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAAT
*
9044503 TTAAAATTTTAATATACTTAATATAT
131 TTAAAATTTTAAAATACTTAATATAT
9044529 TTAAATATAT
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
178 48 0.36
179 42 0.31
180 26 0.19
181 18 0.13
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (181 bp):
TTAATATATATTTTTAATAGGTAAAGACAAAAAAGATTTTCTAAATATATTTAAAATTTTAGAAA
ACTTAAAAAAACTTAAAAAAATTAAAAGTTTAAATATATTAAAGAAAAGGATAAGTATAACCAAT
TTAAAATTTTAAAATACTTAATATATATTTTTAAAAATATATTTTAAAATT
Found at i:9044448 original size:10 final size:10
Alignment explanation
Indices: 9044435--9044464 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9044425 AAAATTTTAG
9044435 AAAACTTAAA
1 AAAACTTAAA
9044445 AAAACTTAAA
1 AAAACTTAAA
9044455 AAAA-TTAAA
1 AAAACTTAAA
9044464 A
1 A
9044465 TTTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAACTTAAA
Found at i:9044541 original size:18 final size:19
Alignment explanation
Indices: 9044503--9044547 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
9044493 TATAACCAAT
9044503 TTAAAAT-TTT-AATATAC
1 TTAAAATATTTAAATATAC
*
9044520 TTAATATATTTAAATATA-
1 TTAAAATATTTAAATATAC
9044538 TTAAAATATT
1 TTAAAATATT
9044548 GAACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 12 0.50
19 6 0.25
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATATTTAAATATAC
Found at i:9046411 original size:20 final size:20
Alignment explanation
Indices: 9046363--9046403 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9046353 AAAGAAAAAA
9046363 TAGGACAAGGCTCCAAGGCG
1 TAGGACAAGGCTCCAAGGCG
9046383 TAGGACAAGGCTCCAAGGCG
1 TAGGACAAGGCTCCAAGGCG
9046403 T
1 T
9046404 GTATCAAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.34, T:0.12
Consensus pattern (20 bp):
TAGGACAAGGCTCCAAGGCG
Found at i:9046513 original size:59 final size:60
Alignment explanation
Indices: 9046419--9046539 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
9046409 AAGCCACTAT
9046419 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
1 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
*
9046479 CTTTAATGTTATATTCCC-CACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
1 CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
9046538 CT
1 CT
9046540 CGAGGATACA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 43 0.72
60 17 0.28
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (60 bp):
CTTTAAGGTTATATTCCCGCACTTATCTTCGGTGTGCAAATGAGTTTCAAGCAAATTAAC
Found at i:9049114 original size:494 final size:494
Alignment explanation
Indices: 9048187--9049180 Score: 1954
Period size: 494 Copynumber: 2.0 Consensus size: 494
9048177 CATAAGACAA
**
9048187 CCAATTAGACTTGCATATTTCAATTTCCATTTTCTTTTTGAAGATCCATTTACAACCTGTTGGTT
1 CCAATTAGACTTGCATATTTCAAGATCCATTTTCTTTTTGAAGATCCATTTACAACCTGTTGGTT
9048252 TGGAACCTGGTGGAAGATCAACTAAGATCCAAGTTTGATTTTCCATTATTGAATCTATCTTATCA
66 TGGAACCTGGTGGAAGATCAACTAAGATCCAAGTTTGATTTTCCATTATTGAATCTATCTTATCA
9048317 TTTATTGCTTCTTCCCAAAAAGCAAAGTCTTGAGATTTTATTGCCTTTTCAAATGTAATAGGATC
131 TTTATTGCTTCTTCCCAAAAAGCAAAGTCTTGAGATTTTATTGCCTTTTCAAATGTAATAGGATC
9048382 AGATTCCGTATTATAACAATAAGGTATCTTATTACATATACTTTCACATTTTCCTTCTACAAGAA
196 AGATTCCGTATTATAACAATAAGGTATCTTATTACATATACTTTCACATTTTCCTTCTACAAGAA
9048447 ACATAATGAAATCTGGTCCAAAATCTTTGACATTTTTAATCCTCTTACTTCTTCTTAATTCTTGA
261 ACATAATGAAATCTGGTCCAAAATCTTTGACATTTTTAATCCTCTTACTTCTTCTTAATTCTTGA
9048512 CAAGATTCATCATTATTATCAATTTGTTTCAATGACATCTCATTCTTATTTGAAGAATGAATCAA
326 CAAGATTCATCATTATTATCAATTTGTTTCAATGACATCTCATTCTTATTTGAAGAATGAATCAA
9048577 TTGTTATGGCTATAATTGTTTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTG
391 TTGTTATGGCTATAATTGTTTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTG
9048642 ATTCAATAACAGTATTAATTGAAATTGAATCATTTGGTT
456 ATTCAATAACAGTATTAATTGAAATTGAATCATTTGGTT
9048681 CCAATTAGACTTGCATATTTCAAGATCCATTTTCTTTTTGAAGATCCATTTACAACCTGTTGGTT
1 CCAATTAGACTTGCATATTTCAAGATCCATTTTCTTTTTGAAGATCCATTTACAACCTGTTGGTT
9048746 TGGAACCTGGTGGAAGATCAACTAAGATCCAAGTTTGATTTTCCATTATTGAATCTATCTTATCA
66 TGGAACCTGGTGGAAGATCAACTAAGATCCAAGTTTGATTTTCCATTATTGAATCTATCTTATCA
9048811 TTTATTGCTTCTTCCCAAAAAGCAAAGTCTTGAGATTTTATTGCCTTTTCAAATGTAATAGGATC
131 TTTATTGCTTCTTCCCAAAAAGCAAAGTCTTGAGATTTTATTGCCTTTTCAAATGTAATAGGATC
9048876 AGATTCCGTATTATAACAATAAGGTATCTTATTACATATACTTTCACATTTTCCTTCTACAAGAA
196 AGATTCCGTATTATAACAATAAGGTATCTTATTACATATACTTTCACATTTTCCTTCTACAAGAA
*
9048941 ACATAATGAAATCTGGTCCAAAATCTTTGACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGA
261 ACATAATGAAATCTGGTCCAAAATCTTTGACATTTTTAATCCTCTTACTTCTTCTTAATTCTTGA
9049006 CAAGATTCATCATTATTATCAATTTGTTTCAATGACATCTCATTCTTATTTGAAGAATGAATCAA
326 CAAGATTCATCATTATTATCAATTTGTTTCAATGACATCTCATTCTTATTTGAAGAATGAATCAA
9049071 TTGTTATGGCTATAATTGTTTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTG
391 TTGTTATGGCTATAATTGTTTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTG
9049136 ATTCAATAACAGTATTAATTGAAATTGAATCATTTGGTT
456 ATTCAATAACAGTATTAATTGAAATTGAATCATTTGGTT
9049175 -CAATTA
1 CCAATTA
9049181 CCATGAACCT
Statistics
Matches: 497, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
493 6 0.01
494 491 0.99
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (494 bp):
CCAATTAGACTTGCATATTTCAAGATCCATTTTCTTTTTGAAGATCCATTTACAACCTGTTGGTT
TGGAACCTGGTGGAAGATCAACTAAGATCCAAGTTTGATTTTCCATTATTGAATCTATCTTATCA
TTTATTGCTTCTTCCCAAAAAGCAAAGTCTTGAGATTTTATTGCCTTTTCAAATGTAATAGGATC
AGATTCCGTATTATAACAATAAGGTATCTTATTACATATACTTTCACATTTTCCTTCTACAAGAA
ACATAATGAAATCTGGTCCAAAATCTTTGACATTTTTAATCCTCTTACTTCTTCTTAATTCTTGA
CAAGATTCATCATTATTATCAATTTGTTTCAATGACATCTCATTCTTATTTGAAGAATGAATCAA
TTGTTATGGCTATAATTGTTTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTG
ATTCAATAACAGTATTAATTGAAATTGAATCATTTGGTT
Found at i:9051768 original size:32 final size:32
Alignment explanation
Indices: 9051732--9051792 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
9051722 AAATAAACAC
9051732 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
9051764 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
9051793 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:9052180 original size:13 final size:13
Alignment explanation
Indices: 9052141--9052190 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
9052131 TCTTCATTGG
9052141 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* * *
9052154 TGTGGAAAAATGC
1 TTTTGAAAAGTGC
*
9052167 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
9052180 TTTTGAAAAGT
1 TTTTGAAAAGT
9052191 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:9054764 original size:22 final size:22
Alignment explanation
Indices: 9054736--9054804 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
9054726 TATGTACTAT
9054736 TAAATAGAGAGCACTAAAGTGC
1 TAAATAGAGAGCACTAAAGTGC
*
9054758 TATATAGAGAGCAC-AAATGTGC
1 TAAATAGAGAGCACTAAA-GTGC
** *
9054780 TAAACGGAGAGCACTAACGTGC
1 TAAATAGAGAGCACTAAAGTGC
9054802 TAA
1 TAA
9054805 TAATCAGAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.08
22 35 0.88
23 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (22 bp):
TAAATAGAGAGCACTAAAGTGC
Found at i:9062972 original size:2 final size:2
Alignment explanation
Indices: 9062967--9063002 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9062957 CACACACACG
9062967 CT CT CT CT CT CT CT CT 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
9063003 AAAGTAGGGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9071949 original size:15 final size:16
Alignment explanation
Indices: 9071931--9071963 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9071921 ATTTAAAAAT
9071931 AATTAAT-AAATTAAA
1 AATTAATGAAATTAAA
*
9071946 AATTAATGTAATTAAA
1 AATTAATGAAATTAAA
9071962 AA
1 AA
9071964 ATATTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATTAATGAAATTAAA
Found at i:9081345 original size:28 final size:29
Alignment explanation
Indices: 9081303--9081359 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
9081293 TAAATATTTT
9081303 TTTTATTTTTATTTTTAAATTTTAAAATA
1 TTTTATTTTTATTTTTAAATTTTAAAATA
* *
9081332 TTTT-TTTTTATTTTTTATTTTTAAAATA
1 TTTTATTTTTATTTTTAAATTTTAAAATA
9081360 ACTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTATTTTTATTTTTAAATTTTAAAATA
Found at i:9081365 original size:28 final size:28
Alignment explanation
Indices: 9081308--9081366 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
9081298 ATTTTTTTTA
**
9081308 TTTTTATTTTTAAATTTTAAAATATTTT
1 TTTTTATTTTTAAATTTTAAAATAACTT
* *
9081336 TTTTTATTTTTTATTTTTAAAATAACTT
1 TTTTTATTTTTAAATTTTAAAATAACTT
9081364 TTT
1 TTT
9081367 AATGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATTTTTAAATTTTAAAATAACTT
Found at i:9081374 original size:26 final size:26
Alignment explanation
Indices: 9081336--9081385 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9081326 AAAATATTTT
* * *
9081336 TTTTTATTTTTTATTTTTAAAATAAC
1 TTTTTAATGTTTATTTTAAAAATAAC
9081362 TTTTTAATGTTTATTTTAAAAATA
1 TTTTTAATGTTTATTTTAAAAATA
9081386 GGCCGGACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTAATGTTTATTTTAAAAATAAC
Found at i:9084386 original size:9 final size:9
Alignment explanation
Indices: 9084369--9084413 Score: 72
Period size: 9 Copynumber: 5.0 Consensus size: 9
9084359 GTTAAAAATG
9084369 AACCGAATT
1 AACCGAATT
*
9084378 AATCGAATT
1 AACCGAATT
*
9084387 ACCCGAATT
1 AACCGAATT
9084396 AACCGAATT
1 AACCGAATT
9084405 AACCGAATT
1 AACCGAATT
9084414 GAGTCCCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (9 bp):
AACCGAATT
Found at i:9084563 original size:18 final size:18
Alignment explanation
Indices: 9084523--9084566 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9084513 AATTTTTATG
**
9084523 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
9084541 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
9084559 CTTGGGTT
1 ATTGGGTT
9084567 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:9086198 original size:23 final size:24
Alignment explanation
Indices: 9086137--9086198 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
9086127 CATTAACAGT
*
9086137 AAGCTCCAGATAGCCATATATCGGG
1 AAGCTCCAGAGAG-CATATATCGGG
* * *
9086162 AAGTTCAAGCGAGC-TATATCGGG
1 AAGCTCCAGAGAGCATATATCGGG
9086185 AAGCTCCAGAGAGC
1 AAGCTCCAGAGAGC
9086199 CATTAATCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 20 0.67
24 1 0.03
25 9 0.30
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (24 bp):
AAGCTCCAGAGAGCATATATCGGG
Found at i:9086225 original size:26 final size:26
Alignment explanation
Indices: 9086185--9086253 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
9086175 CTATATCGGG
*
9086185 AAGCTC-CAGAGAGCCATTAATC-AA
1 AAGCTCACAAAGAGCCATTAATCGAA
* *
9086209 TAAGCTCACAAAGAGCCTTTAATCGGA
1 -AAGCTCACAAAGAGCCATTAATCGAA
*
9086236 AAGCTCACGAAGAGCCAT
1 AAGCTCACAAAGAGCCAT
9086254 ATATCGGGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.16
26 30 0.81
27 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCATTAATCGAA
Found at i:9086259 original size:26 final size:26
Alignment explanation
Indices: 9086210--9086260 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9086200 ATTAATCAAT
*
9086210 AAGCTCACAAAGAGCCTTTAATCGGA
1 AAGCTCACAAAGAGCCTATAATCGGA
*
9086236 AAGCTCACGAAGAGCC-ATATATCGG
1 AAGCTCACAAAGAGCCTATA-ATCGG
9086261 GACACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCTATAATCGGA
Found at i:9089934 original size:2 final size:2
Alignment explanation
Indices: 9089927--9089953 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9089917 TAGGTCCGCT
9089927 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
9089954 TCTAAAAAAT
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9090082 original size:77 final size:77
Alignment explanation
Indices: 9089970--9090140 Score: 213
Period size: 77 Copynumber: 2.2 Consensus size: 77
9089960 AAATAATCAA
* * * * **
9089970 TGCATGCATATT-AAAAATAGTCAATAGCATATGACCATCTCCACTGACAATCATACACAGAA-A
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACA-AACA
9090033 AATTA-AAAAACAC
65 AATTAGAAAAA-AC
* * * *
9090046 TGCATGCATGTTAAAAAATAGTCAACAACATGTGACCAGCCCCACCAACAATCATACATAAACAG
1 TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
9090111 ATTAGAAAAAAC
66 ATTAGAAAAAAC
9090123 TGCATGCATATTAAAAAA
1 TGCATGCATATTAAAAAA
9090141 CACTCACTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
76 13 0.16
77 63 0.78
78 5 0.06
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (77 bp):
TGCATGCATATTAAAAAATAGTCAACAACATATGACCAGCCCCACCAACAATCATACACAAACAA
ATTAGAAAAAAC
Found at i:9092044 original size:23 final size:24
Alignment explanation
Indices: 9092000--9092045 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
9091990 TTTCTCACAT
* **
9092000 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
9092024 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
9092046 AATTCACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:9092205 original size:3 final size:3
Alignment explanation
Indices: 9092190--9092228 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
9092180 CCACTCATCT
* *
9092190 TAA TAA -AA AAA TAA TAG TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9092229 TATCTCACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:9093243 original size:28 final size:25
Alignment explanation
Indices: 9093205--9093261 Score: 60
Period size: 28 Copynumber: 2.2 Consensus size: 25
9093195 AAAGCCTTTT
*
9093205 TTTTTAAATTTTCCGAAATAGGCCA
1 TTTTTAAATTTACCGAAATAGGCCA
* *
9093230 GTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTAA--ATTTACCGAAATAGGCCA
9093258 TTTT
1 TTTT
9093262 CCCCGAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 4 0.15
28 15 0.58
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (25 bp):
TTTTTAAATTTACCGAAATAGGCCA
Found at i:9093725 original size:126 final size:126
Alignment explanation
Indices: 9093500--9093775 Score: 373
Period size: 126 Copynumber: 2.2 Consensus size: 126
9093490 CGAGTTAACG
*
9093500 TTTCTG-GTCAAATAGTATAAAATCGCTTCTATTAGGATGCTATCAGAGAAGAAATTGTGAAATC
1 TTTCTGAG-CAAATAGTATAAAATCGCTTCTACTAGGATGCTATCAGAGAAGAAATTGTGAAATC
** * * *
9093564 GTGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTTTTTTTTGACGT
65 ACGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
9093626 TTTCTGAGCAAATAGTATAAAATCGC-TCATACTAGGATGCTAT-ATGAGAAGAAATTGTGAAAT
1 TTTCTGAGCAAATAGTATAAAATCGCTTC-TACTAGGATGCTATCA-GAGAAGAAATTGTGAAAT
** * *
9093689 CACGCCCTCGTGGACGGGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATATTTTGACAT
64 CACGCCCTCGTGGACGCCATTTCGGC-ACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
* *
9093752 TTT-TGAGCAAATAGTGTCAAATCG
1 TTTCTGAGCAAATAGTATAAAATCG
9093776 TGCCCTCGTG
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
125 24 0.18
126 109 0.81
127 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (126 bp):
TTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATCAGAGAAGAAATTGTGAAATCA
CGCCCTCGTGGACGCCATTTCGGCACAGTTGGTCATGGAAGAAATAATTATATTTTGACAT
Found at i:9095988 original size:108 final size:108
Alignment explanation
Indices: 9095799--9096012 Score: 410
Period size: 108 Copynumber: 2.0 Consensus size: 108
9095789 ATGTGTGCCC
9095799 CCAACCTGATATCTGTGTTATTTCAGATCGGGGCGCCGGTATACTAGCTGCATTTGATCGAGAGG
1 CCAACCTGATATCTGTGTTATTTCAGATCGGGGCGCCGGTATACTAGCTGCATTTGATCGAGAGG
* *
9095864 GAAGCTTGTGGCAGCGTACACACCATAGATATTGCCTGAGACA
66 GAAGCCTGTGGCAGCGTACACACCATAGACATTGCCTGAGACA
9095907 CCAACCTGATATCTGTGTTATTTCAGATCGGGGCGCCGGTATACTAGCTGCATTTGATCGAGAGG
1 CCAACCTGATATCTGTGTTATTTCAGATCGGGGCGCCGGTATACTAGCTGCATTTGATCGAGAGG
9095972 GAAGCCTGTGGCAGCGTACACACCATAGACATTGCCTGAGA
66 GAAGCCTGTGGCAGCGTACACACCATAGACATTGCCTGAGA
9096013 TACGTTGCTC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 104 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (108 bp):
CCAACCTGATATCTGTGTTATTTCAGATCGGGGCGCCGGTATACTAGCTGCATTTGATCGAGAGG
GAAGCCTGTGGCAGCGTACACACCATAGACATTGCCTGAGACA
Found at i:9096874 original size:29 final size:29
Alignment explanation
Indices: 9096826--9097124 Score: 405
Period size: 29 Copynumber: 10.3 Consensus size: 29
9096816 TTTTTAATTA
*
9096826 AATTAAATTAGGTTA-GGTTAGGATTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
9096854 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
9096883 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
9096912 AATTAAATTAGGTTAGGGTTAAGGG-TTTT
1 AATTAAATTAGGTTAGGGTT-AGGGTTTTT
*
9096941 AATTAAATTAGATTA-GGTTAGGG---TT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
9096966 AATTAGATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AATTAAATTAGGTTAGGG-TTAGGG--TTT--TT
*
9097000 AAATTAAATTAGGTTAGGGTTTAGGGTTTTA
1 -AATTAAATTAGGTTAGGG-TTAGGGTTTTT
*
9097031 AATTAAATTAGGTTAGGCTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
9097060 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
**
9097089 AATTAAATTAAATTA-GGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGTTAGGGTTTTT
*
9097117 AATCAAAT
1 AATTAAAT
9097125 AATATCAAAA
Statistics
Matches: 247, Mismatches: 12, Indels: 24
0.87 0.04 0.08
Matches are distributed among these distances:
25 15 0.06
26 2 0.01
27 10 0.04
28 39 0.16
29 130 0.53
30 21 0.09
31 1 0.00
33 3 0.01
34 2 0.01
35 24 0.10
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (29 bp):
AATTAAATTAGGTTAGGGTTAGGGTTTTT
Found at i:9096971 original size:20 final size:20
Alignment explanation
Indices: 9096946--9096985 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9096936 GTTTTAATTA
9096946 AATTAGATTAGGTTAGGGTT
1 AATTAGATTAGGTTAGGGTT
9096966 AATTAGATTAGGTTAGGGTT
1 AATTAGATTAGGTTAGGGTT
9096986 TAGGGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (20 bp):
AATTAGATTAGGTTAGGGTT
Found at i:9099278 original size:22 final size:22
Alignment explanation
Indices: 9099237--9099278 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9099227 CAGACTTTTA
*
9099237 TAACAAAAAATAAATTAATATT
1 TAACAAAAAATAAATAAATATT
* *
9099259 TAACTAAAAATACATAAATA
1 TAACAAAAAATAAATAAATA
9099279 AAAATATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
TAACAAAAAATAAATAAATATT
Found at i:9099280 original size:14 final size:15
Alignment explanation
Indices: 9099263--9099296 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9099253 AATATTTAAC
9099263 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
9099277 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
9099292 TAAAA
1 TAAAA
9099297 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:9099291 original size:15 final size:15
Alignment explanation
Indices: 9099253--9099296 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
9099243 AAAATAAATT
*
9099253 AATAT-TTAACTAAA
1 AATATCTTAAATAAA
*
9099267 AATA-CATAAATAAA
1 AATATCTTAAATAAA
9099281 AATATCTTAAATAAA
1 AATATCTTAAATAAA
9099296 A
1 A
9099297 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATCTTAAATAAA
Found at i:9099417 original size:18 final size:17
Alignment explanation
Indices: 9099387--9099439 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
9099377 ACCATTGTTG
*
9099387 AAAATATTAAAAATTTT
1 AAAATATTTAAAATTTT
** *
9099404 AAAATTATTTAAAAAAATA
1 AAAA-TATTT-AAAATTTT
9099423 AAAATATTTAAAATTTT
1 AAAATATTTAAAATTTT
9099440 CTTAAAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTTAAAATTTT
Found at i:9099432 original size:28 final size:28
Alignment explanation
Indices: 9099394--9099449 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
9099384 TTGAAAATAT
9099394 TAAAAATTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAA
*
9099421 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTAAAAAAA
9099450 ATGAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 10 0.38
29 9 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATCTTAAAAAAA
Found at i:9099565 original size:22 final size:22
Alignment explanation
Indices: 9099540--9099586 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9099530 TGAGAGTTTA
9099540 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
* *
9099562 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
9099584 AGA
1 AGA
9099587 TGAGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:9099585 original size:52 final size:52
Alignment explanation
Indices: 9099488--9099586 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 52
9099478 TATGGAGTTG
* * * * **
9099488 AGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAGTTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
* *
9099540 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGA
9099587 TGAGATTTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:9100105 original size:21 final size:21
Alignment explanation
Indices: 9100081--9100123 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9100071 AATAATAACT
9100081 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
9100102 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
9100123 A
1 A
9100124 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:9100255 original size:25 final size:23
Alignment explanation
Indices: 9100211--9100271 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
9100201 ATTTTGATTT
*
9100211 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
9100235 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
9100259 ATATAAATTATAT
1 AT-TTAATTATAT
9100272 TTAAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:9100274 original size:35 final size:35
Alignment explanation
Indices: 9100219--9100298 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
9100209 TTATTTAATA
* *
9100219 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
* *
9100253 CATATAATATAAATTAT-ATTTAAATATTATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
9100288 ATATAAT-TAAA
1 ATATAATATAAA
9100299 CAAATAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:9102100 original size:23 final size:23
Alignment explanation
Indices: 9102073--9102117 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9102063 AAAATGAAAC
* *
9102073 CAAAATTGAAATAACCCTAAATT
1 CAAAATTAAAATAACCCAAAATT
9102096 CAAAATTAAAATAACCCAAAAT
1 CAAAATTAAAATAACCCAAAAT
9102118 AACCTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.18, G:0.02, T:0.22
Consensus pattern (23 bp):
CAAAATTAAAATAACCCAAAATT
Found at i:9102601 original size:21 final size:21
Alignment explanation
Indices: 9102575--9102614 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9102565 CAACGTGGCA
9102575 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
9102596 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
9102615 TGGTCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:9102693 original size:31 final size:30
Alignment explanation
Indices: 9102658--9102718 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
9102648 CCAGTGATTA
* *
9102658 TTTTGACACTTTTTTATAATGTT-AGTGACTG
1 TTTTGACA-TTTTTCA-AAAGTTGAGTGACTG
*
9102689 TTTTGTCATTTTTCAAAAGTTGAGTGACTG
1 TTTTGACATTTTTCAAAAGTTGAGTGACTG
9102719 AAATAAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
31 7 0.27
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (30 bp):
TTTTGACATTTTTCAAAAGTTGAGTGACTG
Found at i:9103438 original size:15 final size:15
Alignment explanation
Indices: 9103418--9103525 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
9103408 TTTATGGAAA
9103418 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
9103433 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
*
9103447 AGTCAAAGATGTGGGT
1 A-TCAAAGATATGGGT
* * **
9103463 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
9103477 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
9103493 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
9103507 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
9103523 ATC
1 ATC
9103526 GAGATATTGG
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.67
16 10 0.16
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:9103455 original size:30 final size:30
Alignment explanation
Indices: 9103414--9103525 Score: 188
Period size: 30 Copynumber: 3.7 Consensus size: 30
9103404 CATATTTATG
* *
9103414 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
9103444 GAAAGTCAAAGATGTGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
9103474 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
9103504 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
9103526 GAGATATTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:9108131 original size:15 final size:15
Alignment explanation
Indices: 9108111--9108218 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
9108101 TTTATGGAAA
9108111 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
9108126 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
9108140 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
9108156 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
9108170 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
9108186 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
9108200 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
9108216 ATC
1 ATC
9108219 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:9108140 original size:30 final size:30
Alignment explanation
Indices: 9108104--9108218 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
9108094 ATCCATATTT
*
9108104 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
9108134 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
9108164 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
9108194 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
9108219 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:9118031 original size:3 final size:3
Alignment explanation
Indices: 9118023--9118059 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9118013 TTTGTAGGCT
9118023 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9118060 GAAATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9127577 original size:13 final size:13
Alignment explanation
Indices: 9127535--9127577 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9127525 TTGCTTTTGG
9127535 AAAGTGC-TGTGA
1 AAAGTGCTTGTGA
9127547 AAATGTGCTTGTGA
1 AAA-GTGCTTGTGA
* *
9127561 AAAGTGTTTTTGA
1 AAAGTGCTTGTGA
9127574 AAAG
1 AAAG
9127578 CTTGGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 3 0.11
13 16 0.59
14 8 0.30
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (13 bp):
AAAGTGCTTGTGA
Done.