Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 46 of 438
Found at i:11605786 original size:46 final size:46
Alignment explanation
Indices: 11605729--11605956 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
11605719 AGTGTGCTCT
* * *
11605729 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
11605775 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
11605821 CTGATATGAAATGTGTAAGGCCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
*
11605867 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
11605913 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
11605957 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:11608296 original size:18 final size:18
Alignment explanation
Indices: 11608273--11608338 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
11608263 AAAAATATAT
11608273 TTTTTAATATTTTATTAA
1 TTTTTAATATTTTATTAA
* ** *
11608291 TTTTTAATAATAAAATAGA
1 TTTTTAATATTTTATTA-A
*
11608310 TTTTTAAAATATTTTATCAA
1 TTTTT--AATATTTTATTAA
11608330 TTTTTAATA
1 TTTTTAATA
11608339 ATAAAATAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
18 17 0.47
19 6 0.17
20 6 0.17
21 7 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTTTAATATTTTATTAA
Found at i:11608321 original size:39 final size:38
Alignment explanation
Indices: 11608264--11608353 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
11608254 ATATCAATTA
* * *
11608264 AAAATATATTTTTTAATATTTTATTAATTTTTAATAAT
1 AAAATAGATTTTTAAATATTTTATCAATTTTTAATAAT
11608302 AAAATAGATTTTTAAAATATTTTATCAATTTTTAATAAT
1 AAAATAGATTTTT-AAATATTTTATCAATTTTTAATAAT
11608341 AAAATAGATTTTT
1 AAAATAGATTTTT
11608354 TGATTAGACA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 12 0.25
39 36 0.75
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (38 bp):
AAAATAGATTTTTAAATATTTTATCAATTTTTAATAAT
Found at i:11608354 original size:20 final size:19
Alignment explanation
Indices: 11608290--11608353 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
11608280 TATTTTATTA
11608290 ATTTTTAATAATAAAATAG
1 ATTTTTAATAATAAAATAG
**
11608309 ATTTTTAA-AATATTTTATCA-
1 ATTTTTAATAATA--AAAT-AG
11608329 ATTTTTAATAATAAAATAG
1 ATTTTTAATAATAAAATAG
11608348 ATTTTT
1 ATTTTT
11608354 TGATTAGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 5 0.14
19 16 0.44
20 10 0.28
21 5 0.14
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTTTTAATAATAAAATAG
Found at i:11610013 original size:16 final size:16
Alignment explanation
Indices: 11609980--11610016 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11609970 TTATCAACTC
*
11609980 TTATTATTCTATTATT
1 TTATTATTCTAATATT
11609996 TTATTATTCTAA-ATT
1 TTATTATTCTAATATT
11610011 TT-TTAT
1 TTATTAT
11610017 AATTATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 5 0.25
16 11 0.55
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTCTAATATT
Found at i:11610666 original size:17 final size:18
Alignment explanation
Indices: 11610633--11610674 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11610623 TATTTAATAA
*
11610633 TTATAAAAAATTCAGAG-
1 TTATAAAAAATTAAGAGT
11610650 TTATAAAATAA-TAAGAGT
1 TTATAAAA-AATTAAGAGT
11610668 TTATAAA
1 TTATAAA
11610675 TACAATATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (18 bp):
TTATAAAAAATTAAGAGT
Found at i:11611417 original size:14 final size:14
Alignment explanation
Indices: 11611379--11611420 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
11611369 TTTTAAATTG
*
11611379 AAAAAAAAAAAG-T
1 AAAATAAAAAAGTT
*
11611392 AAAATATGAAAAGTT
1 AAAATA-AAAAAGTT
11611407 AAAATAAAAAAGTT
1 AAAATAAAAAAGTT
11611421 GACCGACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 7 0.29
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAAATAAAAAAGTT
Found at i:11620548 original size:18 final size:18
Alignment explanation
Indices: 11620525--11620560 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11620515 AGAAAATCTT
11620525 TTTACAATATGGTGTTTA
1 TTTACAATATGGTGTTTA
*
11620543 TTTACAGTATGGTGTTTA
1 TTTACAATATGGTGTTTA
11620561 CAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTACAATATGGTGTTTA
Found at i:11624588 original size:21 final size:22
Alignment explanation
Indices: 11624562--11624603 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11624552 CTCTTATCAC
*
11624562 AGGGGC-ATACGCCCGTGTGAG
1 AGGGGCAACACGCCCGTGTGAG
11624583 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCGTGTGA
11624604 CAATTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGAG
Found at i:11630732 original size:21 final size:21
Alignment explanation
Indices: 11630686--11630725 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11630676 TATAGGCAAC
*
11630686 CAAAACATGCCAATTCATATA
1 CAAATCATGCCAATTCATATA
*
11630707 CAAATCATGCCATTTCATA
1 CAAATCATGCCAATTCATA
11630726 AGTAAATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (21 bp):
CAAATCATGCCAATTCATATA
Found at i:11631816 original size:42 final size:43
Alignment explanation
Indices: 11631758--11631873 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
11631748 TCTATGCCAC
* * *
11631758 TGTCCCAGACAGGGTCTTACACG-AATCATAATACAATACCAA
1 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
*
11631800 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATTCCAA
1 TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
**
11631843 TGTCTCAGACATGGTCTTACGTGTAATCACA
1 TGTCTCAGACATGGTCTTACACGTAATCACA
11631874 TCTCAATAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
42 21 0.31
43 46 0.69
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
TGTCTCAGACATGGTCTTACACGTAATCACAATACAATACCAA
Found at i:11634609 original size:7 final size:7
Alignment explanation
Indices: 11634585--11634616 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
11634575 GGTTTTCTCA
11634585 AAATG-G
1 AAATGAG
11634591 AAATGA-
1 AAATGAG
11634597 AAATGAG
1 AAATGAG
11634604 AAATGAG
1 AAATGAG
11634611 AAATGA
1 AAATGA
11634617 TTCATTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.46
7 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:11636737 original size:47 final size:47
Alignment explanation
Indices: 11636668--11636843 Score: 194
Period size: 47 Copynumber: 3.7 Consensus size: 47
11636658 GGATGGTTGA
11636668 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
* *** ***
11636715 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTACT-TATGGATG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGA-TGTAACTA-G
* *
11636762 CGAATGTCCGAACTCGTTGAGTTGTGTCCGAGTTCGAGAGATGTAACTAG
1 -GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
* *
11636812 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
11636844 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
46 5 0.05
47 59 0.58
48 2 0.02
49 2 0.02
50 29 0.28
51 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:11636837 original size:97 final size:93
Alignment explanation
Indices: 11636671--11636889 Score: 357
Period size: 97 Copynumber: 2.3 Consensus size: 93
11636661 TGGTTGAGCA
11636671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
*
11636736 AGTCCGAGTTCACTTACTTATGGATGCGAATG
66 AGTCCGAGTT--C--ACTTATGGATGCGAACG
* *
11636768 TCCGAACTCGTTGAGTTGTGTCCGAGTTCGAGAGATGTAACTAGGCATCTGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
11636833 AGTCCGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* *
11636861 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
11636890 ACTTATGGGC
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
93 42 0.36
95 1 0.01
97 73 0.63
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:11637946 original size:22 final size:23
Alignment explanation
Indices: 11637901--11637946 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
11637891 AAAGCCTCAT
*
11637901 TTTTCTTTTGATTTTATTTGCCC
1 TTTTCTTTCGATTTTATTTGCCC
* *
11637924 TTTTC-TTCGATTTTTTTTTCCC
1 TTTTCTTTCGATTTTATTTGCCC
11637946 T
1 T
11637947 ATTGTACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTCTTTCGATTTTATTTGCCC
Found at i:11638480 original size:16 final size:17
Alignment explanation
Indices: 11638461--11638501 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11638451 TAATTGTCCC
*
11638461 TTTTATTTTATTT-TTA
1 TTTTATATTATTTGTTA
11638477 TTTTA-ATTATTTGTTA
1 TTTTATATTATTTGTTA
11638493 TTATTATAT
1 TT-TTATAT
11638502 GTATAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 3 0.14
18 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATATTATTTGTTA
Found at i:11638593 original size:3 final size:3
Alignment explanation
Indices: 11638585--11638638 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
11638575 CTTCATTGTG
11638585 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
11638631 ATT -TT ATT
1 ATT ATT ATT
11638639 TATTTGTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:11651805 original size:43 final size:44
Alignment explanation
Indices: 11651516--11651899 Score: 192
Period size: 44 Copynumber: 8.6 Consensus size: 44
11651506 AGATCCTATT
* * * ***
11651516 TCCCTAAGCAATAGTGGAGCAGATCGAAAATGGTAAG-CTTTATC
1 TCCCTAAGTAGTAGTGGAGCAGATCGAAGATTACAAGTC-TTATC
* * * *
11651560 TCCCTGAGCAGCAGTGGAGCA-AGCTGAAGATTAC-AGATCTTATC
1 TCCCTAAGTAGTAGTGGAGCAGATC-GAAGATTACAAG-TCTTATC
* * * *
11651604 TCCCTAAGCAGCAGTGGAGCAGATCGAAGATGATGAGC-AGGCTTTAAC
1 TCCCTAAGTAGTAGTGGAGCAGATCGAAGAT--T-A-CAAGTC-TTATC
** * * * *
11651652 TCCCTAAGTAGTAG-GGTAAAAAGCTGGAGGATTACAAGATCTTGTC
1 TCCCTAAGTAGTAGTGG--AGCAGATCGAAGATTACAAG-TCTTATC
* ** **
11651698 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATC
1 TCCCTAAGTAGTAGTGGAGCAGATCGAAGATTACAAGTCTTATC
* * * * * *
11651742 TCTCTGAAGTTGCAG-AGAGCAGGTTGAAG-TTACAAGTCTTATC
1 TCCCT-AAGTAGTAGTGGAGCAGATCGAAGATTACAAGTCTTATC
** **
11651785 TCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATC
1 TCCCTAAGTAGTAGTGGAGCAGATCGAAGATTACAAGTCTTATC
* * * ** * * *
11651829 TCTCTGAAGTTGCA-AAGAGCAGGTTGAAG-TTTCAAGTCTTATC
1 TCCCT-AAGTAGTAGTGGAGCAGATCGAAGATTACAAGTCTTATC
*
11651872 TCCCTAAGCAGTAGTGGAGCAGATCGAA
1 TCCCTAAGTAGTAGTGGAGCAGATCGAA
11651900 AATACCAAAA
Statistics
Matches: 248, Mismatches: 73, Indels: 39
0.69 0.20 0.11
Matches are distributed among these distances:
42 12 0.05
43 53 0.21
44 99 0.40
45 28 0.11
46 20 0.08
47 8 0.03
48 19 0.08
49 9 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (44 bp):
TCCCTAAGTAGTAGTGGAGCAGATCGAAGATTACAAGTCTTATC
Found at i:11651842 original size:87 final size:87
Alignment explanation
Indices: 11651683--11651976 Score: 435
Period size: 87 Copynumber: 3.4 Consensus size: 87
11651673 AGCTGGAGGA
*
11651683 TTACAAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTG
1 TTACAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTG
11651748 AAGTTGCAGAGAGCAGGTTGAAG
65 AAGTTGCAGAGAGCAGGTTGAAG
*
11651771 TTACAAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTGA
1 TTACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTGA
*
11651836 AGTTGCAAAGAGCAGGTTGAAG
66 AGTTGCAGAGAGCAGGTTGAAG
* * ** * * *
11651858 TTTCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATACCAAAACTTGTTTCTCTGA
1 TTACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTGA
*
11651923 AGTTGCAGAGAGCAAGTTGAAG
66 AGTTGCAGAGAGCAGGTTGAAG
* ** * *
11651945 ATACAAACCTTGTGTCCCTAAGCAGTAGTGGA
1 TTACAAGTCTTATCTCCCTAAGCAGTAGTGGA
11651977 ACAGGTTGAA
Statistics
Matches: 187, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
87 180 0.96
88 7 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (87 bp):
TTACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTGA
AGTTGCAGAGAGCAGGTTGAAG
Found at i:11653458 original size:3 final size:3
Alignment explanation
Indices: 11653450--11653488 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
11653440 CTTCATTGTG
11653450 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
11653489 TATTTGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:11656923 original size:31 final size:26
Alignment explanation
Indices: 11656856--11656965 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
11656846 TGATACAAAT
11656856 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11656882 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11656908 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
* *
11656934 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11656960 TGATAA
1 TGATAA
11656966 GAATTTCATG
Statistics
Matches: 81, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
25 1 0.01
26 79 0.98
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11659764 original size:20 final size:20
Alignment explanation
Indices: 11659739--11659777 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11659729 GACGCCTCAA
11659739 TTGCAATCAACC-ACAAACTC
1 TTGCAA-CAACCAACAAACTC
*
11659759 TTGCAAGAACCAACAAACT
1 TTGCAACAACCAACAAACT
11659778 TCACTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.18
Consensus pattern (20 bp):
TTGCAACAACCAACAAACTC
Found at i:11663588 original size:2 final size:2
Alignment explanation
Indices: 11663576--11663617 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11663566 ATAATTTTAA
11663576 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11663617 A
1 A
11663618 AAGGTTTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11663999 original size:26 final size:27
Alignment explanation
Indices: 11663955--11664029 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
11663945 GATCATATAT
* *
11663955 ATATAAAAAATAGTTTAAAGTAAATAAC
1 ATAT-AAAAATAGTCTAAAATAAATAAC
*
11663983 ATATAAAAATA-TCTAAAATAAATAAT
1 ATATAAAAATAGTCTAAAATAAATAAC
* * *
11664009 ATGT-AAAAGAGTTTAAAATAA
1 ATATAAAAATAGTCTAAAATAA
11664030 CTAATACAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.12
26 24 0.60
27 7 0.17
28 4 0.10
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (27 bp):
ATATAAAAATAGTCTAAAATAAATAAC
Found at i:11664164 original size:26 final size:26
Alignment explanation
Indices: 11664117--11664216 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 26
11664107 ACAAAGCAAT
*
11664117 TTTAAAATAAATAATACATAAAATAG
1 TTTAAAATAAATAATATATAAAATAG
* * * * *
11664143 TTTAAAAGAACTAATATGTAAAAAAA
1 TTTAAAATAAATAATATATAAAATAG
** *
11664169 CCTAAAATAAATAATATATAAAATTG
1 TTTAAAATAAATAATATATAAAATAG
11664195 TTTAAAATAATATATATATATA
1 TTTAAAATAA-ATA-ATATATA
11664217 TATATATAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
26 46 0.82
27 3 0.05
28 7 0.12
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
TTTAAAATAAATAATATATAAAATAG
Found at i:11667109 original size:30 final size:29
Alignment explanation
Indices: 11667075--11667134 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
11667065 TAAAATCTAA
*
11667075 AATATGTTTAAAATATAAAATATACTTTTT
1 AATATGTTTAAAATATAAAA-ATAATTTTT
* * *
11667105 AATATTTTTAAATTTTAAAAATAATTTTT
1 AATATGTTTAAAATATAAAAATAATTTTT
11667134 A
1 A
11667135 CAACACCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
AATATGTTTAAAATATAAAAATAATTTTT
Found at i:11669904 original size:12 final size:12
Alignment explanation
Indices: 11669885--11669914 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11669875 TTTATTAACT
11669885 TAATAATAATTA
1 TAATAATAATTA
*
11669897 TTATAATAATTA
1 TAATAATAATTA
11669909 TAATAA
1 TAATAA
11669915 ATATCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATTA
Found at i:11670181 original size:20 final size:20
Alignment explanation
Indices: 11670156--11670198 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11670146 TTTAATTTAT
11670156 TTTAATAATA-ATAATCATAA
1 TTTAATAATATA-AATCATAA
*
11670176 TTTAATAATATAAATTATAA
1 TTTAATAATATAAATCATAA
11670196 TTT
1 TTT
11670199 GATAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATAATATAAATCATAA
Found at i:11670369 original size:25 final size:27
Alignment explanation
Indices: 11670340--11670396 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
11670330 TTAATTTTAT
*
11670340 TTAATTCATAATATGATATTTATAATTAA
1 TTAATTAATAATAT-AT-TTTATAATTAA
11670369 TTAATTTAATAATATATTTTATAATTAA
1 TTAA-TTAATAATATATTTTATAATTAA
11670397 ATTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
29 6 0.23
30 9 0.35
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAATTAATAATATATTTTATAATTAA
Found at i:11670403 original size:20 final size:21
Alignment explanation
Indices: 11670370--11670410 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11670360 TATAATTAAT
*
11670370 TAATTTAATAATATAT-TTTA
1 TAATTAAATAATATATATTTA
*
11670390 TAATTAAATTATATATATTTA
1 TAATTAAATAATATATATTTA
11670411 CATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAAATAATATATATTTA
Found at i:11674637 original size:2 final size:2
Alignment explanation
Indices: 11674630--11674754 Score: 51
Period size: 2 Copynumber: 64.0 Consensus size: 2
11674620 ACAATGCATG
* * * *
11674630 TA TA TA TA TA TA TA TA TA TA T- TA TA TT TT TA -A TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * * *
11674670 TA TA CA TA GA TA TA T- TA TG TA CA TA T- TA TCA TG TG TT TG TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * * * *
11674711 TT TA TA TA TA TG TA TA TA GA TA TA TG TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11674753 TA
1 TA
11674755 GTAATTTTTA
Statistics
Matches: 91, Mismatches: 27, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
1 4 0.04
2 85 0.93
3 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11674937 original size:23 final size:22
Alignment explanation
Indices: 11674896--11674943 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
11674886 TTGTTACACC
11674896 TTTTACTATTATTACTATTGTAT
1 TTTTACTATTATTACTATT-TAT
**
11674919 TTTTACTATTATTGTTATTTAT
1 TTTTACTATTATTACTATTTAT
11674941 TTT
1 TTT
11674944 CCTCTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTACTATTATTACTATTTAT
Found at i:11675158 original size:3 final size:3
Alignment explanation
Indices: 11675150--11675274 Score: 53
Period size: 3 Copynumber: 42.7 Consensus size: 3
11675140 TGTATTTACC
* * * *
11675150 ATT ATT ATT ACT ATT ATT -TT CATT -TT -TT ATT ACT ATT ACT AAT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
11675193 ATC ATT CCT -TT ATT ATT TTCT ATT ATT ATT ATC ACT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
11675238 ATA AAT ATT AAT ACT CTT ATT ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11675275 CATCAATATT
Statistics
Matches: 87, Mismatches: 29, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
2 9 0.10
3 74 0.85
4 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:11678405 original size:21 final size:21
Alignment explanation
Indices: 11678381--11678421 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11678371 AATATTTTTT
* *
11678381 ATAATTTTTATACTTTTTAAA
1 ATAACTTTAATACTTTTTAAA
*
11678402 ATAACTTTAATAGTTTTTAA
1 ATAACTTTAATACTTTTTAA
11678422 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAACTTTAATACTTTTTAAA
Found at i:11678418 original size:29 final size:30
Alignment explanation
Indices: 11678386--11678456 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
11678376 TTTTTATAAT
*
11678386 TTTTATACTTTTT-AAAATAACTTTAATAG
1 TTTTATAATTTTTAAAAATAACTTTAATAG
* * *
11678415 TTTT-TAATTTTTAAAAATAATTTTTATAT
1 TTTTATAATTTTTAAAAATAACTTTAATAG
*
11678444 TTTTAAAATTTTT
1 TTTTATAATTTTT
11678457 TAAATTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 7 0.20
29 21 0.60
30 7 0.20
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTTATAATTTTTAAAAATAACTTTAATAG
Found at i:11678433 original size:20 final size:21
Alignment explanation
Indices: 11678410--11678451 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
11678400 AAATAACTTT
*
11678410 AATAGTTTTTA-ATTTTTAAA
1 AATAATTTTTATATTTTTAAA
11678430 AATAATTTTTATATTTTTAAA
1 AATAATTTTTATATTTTTAAA
11678451 A
1 A
11678452 TTTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATAATTTTTATATTTTTAAA
Found at i:11678456 original size:30 final size:29
Alignment explanation
Indices: 11678354--11678461 Score: 103
Period size: 30 Copynumber: 3.7 Consensus size: 29
11678344 ACCCTTAATT
* *
11678354 TTTTTAAAAAATTTTAAAATATTTTTTATAA
1 TTTTT-AAAATTTTTAAAATAATTTTTAT-A
* * * *
11678385 TTTTTATACTTTTTAAAATAACTTTAATA
1 TTTTTAAAATTTTTAAAATAATTTTTATA
11678414 GTTTTT--AATTTTTAAAAATAATTTTTATA
1 -TTTTTAAAATTTTT-AAAATAATTTTTATA
*
11678443 TTTTTAAAATTTTTTAAAT
1 TTTTTAAAATTTTTAAAAT
11678462 TAAAAAATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
28 11 0.17
29 18 0.29
30 29 0.46
31 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTTTAAAATTTTTAAAATAATTTTTATA
Found at i:11683443 original size:3 final size:3
Alignment explanation
Indices: 11683437--11683674 Score: 118
Period size: 3 Copynumber: 79.3 Consensus size: 3
11683427 TTATCCAAAA
*
11683437 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * * *
11683484 TAA TAT T-T GCTGC TAT TAT TAG TAT TAT TACT T-T TAT TAC TAC CAC
1 TAT TAT TAT --TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * *
11683530 TAT TAT CAT TA- TAT TTT TAT GTTT TAT TCCT TTT CTAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT TAT -TAT TAT TA-T TAT
* *
11683578 TAT T-T T-T TA- TAT TAT TAT TAT TAT TAT TA- GAT TAT TAT T-T TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
11683621 TAT TAAT GCAT TAT TAT TTT CTAC T-T TAT TAT TAT TAG TAT TAT CAT
1 TAT T-AT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
11683668 TAC TAT T
1 TAT TAT T
11683675 TTCCTTTTTA
Statistics
Matches: 181, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
2 17 0.09
3 147 0.81
4 17 0.09
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:11683615 original size:28 final size:28
Alignment explanation
Indices: 11683565--11683625 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
11683555 ATTCCTTTTC
* *
11683565 TATTATTATTTATTATTTTTTATATTAT
1 TATTATTATTTATTAATTATTATATTAT
* *
11683593 TATTATTA-TTATTAGATTATTATTTTCT
1 TATTATTATTTATTA-ATTATTATATTAT
11683621 TATTA
1 TATTA
11683626 ATGCATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (28 bp):
TATTATTATTTATTAATTATTATATTAT
Found at i:11683633 original size:22 final size:19
Alignment explanation
Indices: 11683588--11683642 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
11683578 TATTTTTTAT
*
11683588 ATTATTATTATTATTATTAG
1 ATTATTATT-TTCTTATTAG
11683608 ATTATTATTTTCTTATTAATG
1 ATTATTATTTTCTTATT-A-G
11683629 CATTATTATTTTCT
1 -ATTATTATTTTCT
11683643 ACTTTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.23
20 10 0.32
21 1 0.03
22 13 0.42
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (19 bp):
ATTATTATTTTCTTATTAG
Found at i:11683846 original size:3 final size:3
Alignment explanation
Indices: 11683838--11683885 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
11683828 ATTTTCATAA
* * ** *
11683838 ATT ATT ATT ATT ATC ATT ATT ATT GTT GGT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11683886 GTGTTTACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11683897 original size:27 final size:27
Alignment explanation
Indices: 11683840--11683899 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
11683830 TTTCATAAAT
**
11683840 TATTATTATTATCATTATTATTGTTGG
1 TATTATTATTATCATTATTATTGTTAC
*
11683867 TATTATTATTATCATTATT-GTGTTTAC
1 TATTATTATTATCATTATTATTG-TTAC
11683894 TATTAT
1 TATTAT
11683900 CCTCTTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (27 bp):
TATTATTATTATCATTATTATTGTTAC
Found at i:11683943 original size:21 final size:21
Alignment explanation
Indices: 11683919--11683979 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
11683909 CTCTTGTATT
*
11683919 TATTAGTATTGTTAATATTAA
1 TATTAGTATTGTTATTATTAA
** * *
11683940 TATTTTTAATGTTATTATTAT
1 TATTAGTATTGTTATTATTAA
* *
11683961 TATAAGTATTATTATTATT
1 TATTAGTATTGTTATTATT
11683980 TTCAACTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATTAGTATTGTTATTATTAA
Found at i:11685353 original size:14 final size:14
Alignment explanation
Indices: 11685336--11685363 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11685326 CTTGGTGGAT
11685336 AGATTCTGGTGCTA
1 AGATTCTGGTGCTA
11685350 AGATTCTGGTGCTA
1 AGATTCTGGTGCTA
11685364 TTAATAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
AGATTCTGGTGCTA
Found at i:11687910 original size:26 final size:26
Alignment explanation
Indices: 11687881--11687964 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
11687871 TGGTACAAAT
* *
11687881 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11687907 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
11687933 TGATGATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11687959 TGATAA
1 TGATAA
11687965 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11689483 original size:25 final size:26
Alignment explanation
Indices: 11689442--11689493 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11689432 TTTACAGTTT
11689442 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
11689467 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
11689493 T
1 T
11689494 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:11694912 original size:26 final size:26
Alignment explanation
Indices: 11694875--11694958 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11694865 TGATACAAAT
* *
11694875 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11694901 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11694927 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11694953 TGATAA
1 TGATAA
11694959 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11696470 original size:25 final size:26
Alignment explanation
Indices: 11696429--11696480 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11696419 AAATTACATT
11696429 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
11696454 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
11696480 T
1 T
11696481 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:11701351 original size:21 final size:20
Alignment explanation
Indices: 11701327--11701365 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11701317 TATTGAAACT
*
11701327 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
11701348 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
11701366 TAGTACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:11701436 original size:24 final size:26
Alignment explanation
Indices: 11701409--11701456 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
11701399 TATGAATACG
11701409 TACATATA-ATATA-ATAT-TAAAATA
1 TACATA-ACATATACATATATAAAATA
11701433 TACATAACATATACATATATAAAA
1 TACATAACATATACATATATAAAA
11701457 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (26 bp):
TACATAACATATACATATATAAAATA
Found at i:11701918 original size:3 final size:3
Alignment explanation
Indices: 11701912--11701951 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11701902 GAAGTAGTAG
11701912 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11701952 TAATGAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:11702385 original size:11 final size:11
Alignment explanation
Indices: 11702352--11702394 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
11702342 AAATCATTTT
11702352 GAAGAGAGAAA
1 GAAGAGAGAAA
* * *
11702363 GAAAAAAAAAA
1 GAAGAGAGAAA
*
11702374 GAAGGGAGAAA
1 GAAGAGAGAAA
11702385 GAAGAGAGAA
1 GAAGAGAGAA
11702395 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:11702766 original size:26 final size:26
Alignment explanation
Indices: 11702737--11702844 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11702727 TGGTACAAAT
11702737 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11702763 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11702789 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11702815 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11702841 TGAT
1 TGAT
11702845 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11704707 original size:33 final size:34
Alignment explanation
Indices: 11704642--11704716 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
11704632 CCATACTGTT
*
11704642 ATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTA
1 ATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTA
** *
11704676 ATCTGAA-AA-GGGCTCTGGCCCAGTATCATTGTT
1 ATCTGAATAAGGGGCTAAGGCCCAGT-TCATTGTA
*
11704709 ACCTGAAT
1 ATCTGAAT
11704717 GGGCTTAGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 13 0.38
33 14 0.41
34 7 0.21
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTA
Found at i:11705645 original size:41 final size:41
Alignment explanation
Indices: 11705585--11705702 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
11705575 GTTTGCAATA
*
11705585 AAACGCCGC-AAAAACTGAGCAATAGCGGCGTTTTTGGTCT
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
11705625 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
11705666 AAGCGCCGCTAAAAACTGAACAATAGCGGCGCTTTTG
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTG
11705703 CAAAAACGCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 9 0.12
41 64 0.88
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:11705734 original size:41 final size:41
Alignment explanation
Indices: 11705689--11705836 Score: 262
Period size: 41 Copynumber: 3.6 Consensus size: 41
11705679 AACTGAACAA
*
11705689 TAGCGGCGCTTTTGCAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
11705730 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
11705771 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATTGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
11705812 TAGCGGCGCTTTT-TAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
11705837 AAAAAAAGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 11 0.11
41 93 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:11705734 original size:82 final size:82
Alignment explanation
Indices: 11705648--11705842 Score: 218
Period size: 82 Copynumber: 2.4 Consensus size: 82
11705638 AACTGAGCAA
** *
11705648 TAGCGGCGTTTTTGGTCCAAGCGCCGCTAAAAA-CTGA-ACAATAGCGGCGCTTTTGCAAAAACG
1 TAGCGGCGTTTTTGG-AAAAACGCCGCTAAAAATC-GAGACAATAGCGGCGCTTTTGCAAAAACG
11705711 CCGCTATAGATCGAGGTTT
64 CCGCTATAGATCGAGGTTT
* * * **** *
11705730 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACGCC
1 TAGCGGCGTTTTTGGAAAAACGCCGCTAAAAATCGAGACAATAGCGGCGCTTTTGCAAAAACGCC
*
11705795 GCTATAGATTGAGGTTT
66 GCTATAGATCGAGGTTT
*
11705812 TAGCGGCGCTTTTT--AAAAACGCCGCAAAAAA
1 TAGCGGCG-TTTTTGGAAAAACGCCGCTAAAAA
11705843 AGTAATTTAG
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
81 28 0.30
82 62 0.66
83 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (82 bp):
TAGCGGCGTTTTTGGAAAAACGCCGCTAAAAATCGAGACAATAGCGGCGCTTTTGCAAAAACGCC
GCTATAGATCGAGGTTT
Found at i:11706541 original size:43 final size:43
Alignment explanation
Indices: 11706427--11706543 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
11706417 GGGATAGAGG
* * *
11706427 TTATGATATAATGTTTATTATTTTGGGGTTT-AGGATTTATGAT
1 TTATGATATAATGTTTATTGTTTT-TGGTTTAAGGATTTAAGAT
* * * * *** * *
11706470 TTAAGATTTAAGGTTTAATGTCCATGGTTTAAGGGTTTAAGGT
1 TTATGATATAATGTTTATTGTTTTTGGTTTAAGGATTTAAGAT
11706513 TTATGATATAATGTTTATTGTTTTTGGTTTA
1 TTATGATATAATGTTTATTGTTTTTGGTTTA
11706544 GAGTTTTTGG
Statistics
Matches: 54, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
42 5 0.09
43 49 0.91
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (43 bp):
TTATGATATAATGTTTATTGTTTTTGGTTTAAGGATTTAAGAT
Found at i:11706542 original size:14 final size:14
Alignment explanation
Indices: 11706532--11706584 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
11706522 AATGTTTATT
11706532 GTTTTTGGTTTAGA
1 GTTTTTGGTTTAGA
* *
11706546 GTTTTTGGTTTGGG
1 GTTTTTGGTTTAGA
* *
11706560 GTTTATGATTTAGA
1 GTTTTTGGTTTAGA
*
11706574 GTTTATGGTTT
1 GTTTTTGGTTT
11706585 TTTGTTTTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (14 bp):
GTTTTTGGTTTAGA
Found at i:11706556 original size:28 final size:28
Alignment explanation
Indices: 11706525--11706592 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
11706515 ATGATATAAT
* *
11706525 GTTTATTGTTTTTGGTTTAGAGTTTTTG
1 GTTTATTGTTTTTGATTTAGAGTTTATG
*** *
11706553 GTTTGGGGTTTATGATTTAGAGTTTATG
1 GTTTATTGTTTTTGATTTAGAGTTTATG
*
11706581 GTTTTTTGTTTT
1 GTTTATTGTTTT
11706593 ACGGTTAGGA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.12, C:0.00, G:0.26, T:0.62
Consensus pattern (28 bp):
GTTTATTGTTTTTGATTTAGAGTTTATG
Found at i:11707014 original size:17 final size:18
Alignment explanation
Indices: 11706992--11707028 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11706982 AATATTTATT
11706992 TTAATATA-TTAAAATTA
1 TTAATATAGTTAAAATTA
*
11707009 TTAATATAGTTTAAATTA
1 TTAATATAGTTAAAATTA
11707027 TT
1 TT
11707029 TAAGAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAATATAGTTAAAATTA
Found at i:11707031 original size:19 final size:18
Alignment explanation
Indices: 11706991--11707031 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
11706981 TAATATTTAT
11706991 TTTAATATATTAAAATTA
1 TTTAATATATTAAAATTA
*
11707009 -TTAATATAGTTTAAATTA
1 TTTAATATA-TTAAAATTA
11707027 TTTAA
1 TTTAA
11707032 GAGATAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATATATTAAAATTA
Found at i:11709784 original size:26 final size:26
Alignment explanation
Indices: 11709755--11709861 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
11709745 TGATACAAAT
11709755 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11709781 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11709807 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11709833 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
11709858 TGAT
1 TGAT
11709862 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 6 0.08
26 70 0.92
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11711387 original size:25 final size:25
Alignment explanation
Indices: 11711339--11711387 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11711329 ACAGTTTTAC
11711339 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
11711364 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
11711388 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:11711880 original size:136 final size:137
Alignment explanation
Indices: 11711635--11711920 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
11711625 GAGTAGTCTC
11711635 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11711700 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11711765 ACTGTTA
131 ACTGTTA
*
11711772 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11711836 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11711901 ACTGTTA
131 ACTGTTA
**
11711908 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11711921 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 126 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:11713176 original size:12 final size:12
Alignment explanation
Indices: 11713159--11713187 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11713149 ACTCGGGGAA
11713159 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11713171 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11713183 GAGGC
1 GAGGC
11713188 TGAGGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:11718079 original size:26 final size:25
Alignment explanation
Indices: 11718049--11718155 Score: 151
Period size: 26 Copynumber: 4.2 Consensus size: 25
11718039 TGATACAAAT
11718049 TGATAATGGGATAGGTAAATGTTCCA
1 TGATAAT-GGATAGGTAAATGTTCCA
*
11718075 TGATAATGGACTAGGTAAATATTCCA
1 TGATAATGGA-TAGGTAAATGTTCCA
*
11718101 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGATAGGTAAATGTTCCA
**
11718127 TGATAATGTTTAGGTAAATGTTCCA
1 TGATAATGGATAGGTAAATGTTCCA
11718152 TGAT
1 TGAT
11718156 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
25 24 0.32
26 49 0.65
27 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (25 bp):
TGATAATGGATAGGTAAATGTTCCA
Found at i:11718106 original size:52 final size:51
Alignment explanation
Indices: 11718049--11718155 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 51
11718039 TGATACAAAT
11718049 TGATAATGGGATAGGTAAATGTTCCATGATAATGGACTAGGTAAATATTCCA
1 TGATAATGGGATAGGTAAATGTTCCATGATAAT-GACTAGGTAAATATTCCA
* ** *
11718101 TGATAATGGGTTAGGTAAATGTTCCATGATAATGTTTAGGTAAATGTTCCA
1 TGATAATGGGATAGGTAAATGTTCCATGATAATGACTAGGTAAATATTCCA
11718152 TGAT
1 TGAT
11718156 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 19 0.37
52 32 0.63
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (51 bp):
TGATAATGGGATAGGTAAATGTTCCATGATAATGACTAGGTAAATATTCCA
Found at i:11719681 original size:25 final size:25
Alignment explanation
Indices: 11719633--11719681 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11719623 ACAGTTTTAC
11719633 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
11719658 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
11719682 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:11720172 original size:136 final size:137
Alignment explanation
Indices: 11719927--11720212 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
11719917 GAGTAGTCTC
11719927 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATGGGCCTATGGGCCATAC
11719992 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11720057 ACTGTTA
131 ACTGTTA
* *
11720064 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATGGGCCTATGGGCCATAC
*
11720128 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11720193 ACTGTTA
131 ACTGTTA
**
11720200 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11720213 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATATATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:11723115 original size:31 final size:30
Alignment explanation
Indices: 11723077--11723155 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 30
11723067 TTGTTGTATT
11723077 TTATTTATATTTATATTTAATCTA-ATTTTTA
1 TTATTTAT-TTTAT-TTTAATCTATATTTTTA
*
11723108 TTATTTATTTTAGTTTTGATTCTATATTTTTA
1 TTATTTATTTTA-TTTT-AATCTATATTTTTA
11723140 TT-TTTATTTTTATTTT
1 TTATTTA-TTTTATTTT
11723156 TATTTTAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
30 7 0.16
31 22 0.51
32 14 0.33
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (30 bp):
TTATTTATTTTATTTTAATCTATATTTTTA
Found at i:11723161 original size:6 final size:6
Alignment explanation
Indices: 11723101--11723161 Score: 70
Period size: 6 Copynumber: 9.8 Consensus size: 6
11723091 ATTTAATCTA
* *
11723101 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
11723151 ATTTTT ATTTT
1 ATTTTT ATTTT
11723162 AAAGGCCATG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
5 4 0.09
6 31 0.66
7 12 0.26
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:11723306 original size:86 final size:86
Alignment explanation
Indices: 11723161--11723355 Score: 311
Period size: 86 Copynumber: 2.3 Consensus size: 86
11723151 ATTTTTATTT
*
11723161 TAAAGGCCATGTTCTTTAGCAGCGTTTGTGATAAAAGCGTCGCTAAAAGCCATGACCTTTAGCAG
1 TAAAGGCCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAAGCCATGACCTTTAGCAG
*
11723226 CGTTTTTGGGAAAAGCGCCGC
66 CGTTTGTGGGAAAAGCGCCGC
*
11723247 TAAAGGCCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCT-AAAGACCATGACCTTTAGCG
1 TAAAGGCCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAAG-CCATGACCTTTAGCA
* *
11723311 GTGTTTGTGGGGAAAGCGCCGC
65 GCGTTTGTGGGAAAAGCGCCGC
**
11723333 TAAAGGCCATGACCTTTAGCGGC
1 TAAAGGCCATGTTCTTTAGCGGC
11723356 ATTTTTTTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 4 0.04
86 97 0.96
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (86 bp):
TAAAGGCCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCTAAAAGCCATGACCTTTAGCAG
CGTTTGTGGGAAAAGCGCCGC
Found at i:11723353 original size:43 final size:43
Alignment explanation
Indices: 11723161--11723355 Score: 237
Period size: 43 Copynumber: 4.5 Consensus size: 43
11723151 ATTTTTATTT
** * * *
11723161 TAAAGGCCATGTTCTTTAGCAGCGTTTGTGATAAAAGCGTCGC
1 TAAAGGCCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
11723204 TAAAAGCCATGACCTTTAGCAGCGTTTTTGGGAAAAGCGCCGC
1 TAAAGGCCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
** * *
11723247 TAAAGGCCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
1 TAAAGGCCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
* * * *
11723290 TAAAGACCATGACCTTTAGCGGTGTTTGTGGGGAAAGCGCCGC
1 TAAAGGCCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
11723333 TAAAGGCCATGACCTTTAGCGGC
1 TAAAGGCCATGACCTTTAGCGGC
11723356 ATTTTTTTAA
Statistics
Matches: 127, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
TAAAGGCCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
Found at i:11723882 original size:22 final size:23
Alignment explanation
Indices: 11723828--11723887 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
11723818 GCTCGAGCCT
* *
11723828 AACAAGCCCAAATCAAATACAAA
1 AACAAACCCAAATCAAAGACAAA
* *
11723851 ACCAAA-CCAAATC-AAGCCAAA
1 AACAAACCCAAATCAAAGACAAA
11723872 AACAAACCCAAA-CAAA
1 AACAAACCCAAATCAAA
11723888 ACAGTCCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 12 0.40
22 14 0.47
23 4 0.13
ACGTcount: A:0.62, C:0.30, G:0.03, T:0.05
Consensus pattern (23 bp):
AACAAACCCAAATCAAAGACAAA
Found at i:11724806 original size:5 final size:5
Alignment explanation
Indices: 11724796--11724820 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11724786 CAATCTTATA
11724796 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
11724821 TTCCAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:11725283 original size:3 final size:3
Alignment explanation
Indices: 11725270--11725364 Score: 120
Period size: 3 Copynumber: 30.7 Consensus size: 3
11725260 ACTAGTGTAT
* * *
11725270 TTA TTA TTTA TTA TCA ATA TTA TTA TTA TCA TT- TGCTA TTTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA -TTA TTA TTA
11725318 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11725365 TACATATGTT
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 1 0.01
3 73 0.90
4 6 0.07
6 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11726587 original size:2 final size:2
Alignment explanation
Indices: 11726580--11726612 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11726570 AATTGAGCAA
11726580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11726613 ATGTTTTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11726914 original size:32 final size:32
Alignment explanation
Indices: 11726872--11726934 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
11726862 TAATAAAGAG
*
11726872 TATAATTATATTTCGAA-ATTAATTTTAAATTA
1 TATAAATATATTT-GAATATTAATTTTAAATTA
* *
11726904 TATAAATATATTTTAATTTTAATTTTAAATT
1 TATAAATATATTTGAATATTAATTTTAAATT
11726935 TAATTCTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (32 bp):
TATAAATATATTTGAATATTAATTTTAAATTA
Found at i:11731124 original size:27 final size:28
Alignment explanation
Indices: 11731087--11731222 Score: 167
Period size: 27 Copynumber: 5.0 Consensus size: 28
11731077 AGCATGGCTG
* *
11731087 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11731113 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
11731141 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
11731168 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
11731195 CTAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
11731222 C
1 C
11731223 TAGAACGCTT
Statistics
Matches: 101, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
26 5 0.05
27 79 0.78
28 17 0.17
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:11732877 original size:26 final size:26
Alignment explanation
Indices: 11732846--11732953 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11732836 TGAAATGCCC
* *
11732846 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11732872 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11732898 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11732924 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11732950 ATCA
1 ATCA
11732954 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11732903 original size:52 final size:52
Alignment explanation
Indices: 11732846--11732953 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
11732836 TGAAATGCCC
11732846 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
11732898 ATCATGGAATATTTACCTAATCCATTATTATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
11732950 ATCA
1 ATCA
11732954 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:11735713 original size:26 final size:26
Alignment explanation
Indices: 11735676--11735785 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
11735666 TGATACAAAT
11735676 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
11735702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11735728 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11735754 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11735780 TGATAA
1 TGATAA
11735786 GAATATCATA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11739603 original size:16 final size:17
Alignment explanation
Indices: 11739560--11739608 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
11739550 AGTTTAATAA
*
11739560 TTAAAAATATATATATTT
1 TTAAAAAT-TTTATATTT
* *
11739578 TCAAAGATTTTA-ATTT
1 TTAAAAATTTTATATTT
11739594 TTAAAAATTTTATAT
1 TTAAAAATTTTATAT
11739609 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 14 0.56
17 5 0.20
18 6 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAAAATTTTATATTT
Found at i:11742017 original size:37 final size:37
Alignment explanation
Indices: 11741967--11742040 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11741957 TTTTTTTTAT
11741967 TGAATTTTCTATTCAATTTAAATTTAAAATAACTTGA
1 TGAATTTTCTATTCAATTTAAATTTAAAATAACTTGA
11742004 TGAATTTTCTATTCAATTTAAATTTAAAATAACTTGA
1 TGAATTTTCTATTCAATTTAAATTTAAAATAACTTGA
11742041 AGGCTAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (37 bp):
TGAATTTTCTATTCAATTTAAATTTAAAATAACTTGA
Found at i:11742349 original size:13 final size:13
Alignment explanation
Indices: 11742328--11742365 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
11742318 ATTGAGTGGT
11742328 AAAAATTAATT-A
1 AAAAATTAATTGA
11742340 AAAAATTTAATTGAA
1 AAAAA-TTAATTG-A
11742355 AAAAATTAATT
1 AAAAATTAATT
11742366 TGGTGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 6 0.26
15 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAAATTAATTGA
Found at i:11746059 original size:25 final size:27
Alignment explanation
Indices: 11746022--11746074 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11746012 TCAAACATGC
11746022 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11746048 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11746074 A
1 A
11746075 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11747612 original size:26 final size:24
Alignment explanation
Indices: 11747547--11747665 Score: 100
Period size: 22 Copynumber: 5.2 Consensus size: 24
11747537 CATGAAATTC
11747547 TTATCATGAAACATTTACCTAACCA
1 TTATCATG-AACATTTACCTAACCA
11747572 TTATCA--AACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAA-CCA
11747595 TTATCATGGAACATTTACCT----A
1 TTATCAT-GAACATTTACCTAACCA
*
11747616 TTATCAT--ACA-TTACCT-C--A
1 TTATCATGAACATTTACCTAACCA
11747634 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACC-A
11747660 TTATCA
1 TTATCA
11747666 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 25
0.75 0.01 0.24
Matches are distributed among these distances:
17 6 0.08
18 11 0.14
21 11 0.14
22 19 0.24
23 9 0.11
25 6 0.08
26 18 0.22
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.35
Consensus pattern (24 bp):
TTATCATGAACATTTACCTAACCA
Found at i:11747620 original size:21 final size:21
Alignment explanation
Indices: 11747594--11747654 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
11747584 TACCTAACCC
11747594 ATTATCATGGAACATTTACCT
1 ATTATCATGGAACATTTACCT
11747615 ATTATCAT---ACA-TTACCT
1 ATTATCATGGAACATTTACCT
11747632 CATTATCATGGAACATTTACCT
1 -ATTATCATGGAACATTTACCT
11747654 A
1 A
11747655 ACCTATTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
21 12 0.34
22 6 0.17
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTATCATGGAACATTTACCT
Found at i:11751461 original size:46 final size:47
Alignment explanation
Indices: 11751302--11751479 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 47
11751292 AACTAGGCAT
* *
11751302 CCGAGCTCGTTGAGTTGAGTCCGAGTTCCTTACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTT-C-TACTTATGGATGCGAACGC
* * * *** * * * *
11751351 CCGAACTCGTTGAGTTGTGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCTACTTATGGATGCGAACGC
*
11751396 ATCTGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCTACTTATGGATGCGAACGC
11751444 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCTACTTATGG
11751480 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 41 0.40
47 31 0.30
48 4 0.04
49 25 0.24
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (47 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCTACTTATGGATGCGAACGC
Found at i:11752530 original size:22 final size:23
Alignment explanation
Indices: 11752485--11752530 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
11752475 AAAGCCTCAT
*
11752485 TTTTCTTTTGATTTTATTTGCCC
1 TTTTCTTTCGATTTTATTTGCCC
* *
11752508 TTTTC-TTCGATTTTTTTTTCCC
1 TTTTCTTTCGATTTTATTTGCCC
11752530 T
1 T
11752531 ATTGTACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTTCTTTCGATTTTATTTGCCC
Found at i:11753050 original size:3 final size:3
Alignment explanation
Indices: 11753031--11753085 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
11753021 GTGCTTCCTT
* * *
11753031 TTA TT- TTA TTT TTA TTA TTAA TTT TTT TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
*
11753075 TTA TTA GTA TT
1 TTA TTA TTA TT
11753086 TCTTTCTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.09
3 36 0.84
4 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11753062 original size:22 final size:23
Alignment explanation
Indices: 11753029--11753072 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
11753019 TTGTGCTTCC
*
11753029 TTTTATTTTATTTTTATTATTAA
1 TTTTATTTTATTATTATTATTAA
11753052 TTTT-TTTTATTATTATTATTA
1 TTTTATTTTATTATTATTATTA
11753073 TATTATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTTATTATTATTATTAA
Found at i:11753064 original size:19 final size:18
Alignment explanation
Indices: 11753033--11753069 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11753023 GCTTCCTTTT
11753033 ATTTTATTTTTATTATTA
1 ATTTTATTTTTATTATTA
*
11753051 ATTTTTTTTATTATTATTA
1 ATTTTATTT-TTATTATTA
11753070 TTATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATTTTTATTATTA
Found at i:11753166 original size:3 final size:3
Alignment explanation
Indices: 11753158--11753207 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
11753148 CTTCATTGTG
11753158 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11753205 ATT
1 ATT
11753208 TATTTGTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:11763260 original size:25 final size:25
Alignment explanation
Indices: 11763226--11763277 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11763216 GAGAGAGATA
11763226 GCCATCCTTGGTATCATGACATTCT
1 GCCATCCTTGGTATCATGACATTCT
11763251 GCCATCCTTGGTATCATGACATTCT
1 GCCATCCTTGGTATCATGACATTCT
11763276 GC
1 GC
11763278 GATATGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (25 bp):
GCCATCCTTGGTATCATGACATTCT
Found at i:11766195 original size:44 final size:44
Alignment explanation
Indices: 11766065--11766374 Score: 177
Period size: 44 Copynumber: 6.9 Consensus size: 44
11766055 TGACTGAAAA
* * * * * *
11766065 TACAGATCCTATTTCCCTCAGCAATAGTGGAGCGGATCGAAAAT
1 TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * * *
11766109 GGTA-AGCT-TTATCTCCCTGAGCAGCAGTGGAGCA-AGCTGAAGAT
1 --TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGAT
*
11766153 TACAGATCTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGAT
1 TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
* * ** * * *
11766197 GATGAGCAG-GCTTTAACTCCCTAAGCAGTAG-GGTAAAAAGCTGGAGGAT
1 --T-A-CAGATC-TTATCTCCCTAAGCAGTAGTGG--AGCAGATCGAAGAT
*
11766246 TACAAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 TAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
** * * * ** * * * *
11766291 GGCAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTTGAAG-T
1 TACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGAT
11766334 TACA-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 TACAGA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
11766375 AATACCAAAA
Statistics
Matches: 197, Mismatches: 50, Indels: 37
0.69 0.18 0.13
Matches are distributed among these distances:
42 9 0.05
43 28 0.14
44 78 0.40
45 22 0.11
46 23 0.12
47 8 0.04
48 20 0.10
49 9 0.05
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (44 bp):
TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
Found at i:11766404 original size:87 final size:87
Alignment explanation
Indices: 11766245--11766451 Score: 288
Period size: 87 Copynumber: 2.4 Consensus size: 87
11766235 AGCTGGAGGA
* ** *
11766245 TTACAAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAACCTTATCTCTCTG
1 TTACAAG-TCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATACCAAAACTTATCTCTCTG
*
11766310 AAGTTGCAGAGAGCAGGTTGAAG
65 AAGTTGCAGAGAGCAAGTTGAAG
* * *
11766333 TTACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATACCAAAACTTGTTTCTCTGA
1 TTACAAGTCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATACCAAAACTTATCTCTCTGA
11766398 AGTTGCAGAGAGCAAGTTGAAG
66 AGTTGCAGAGAGCAAGTTGAAG
* ** * *
11766420 ATACAAACCTTGTGTCCTTAAGCAGTAGTGGA
1 TTACAAGTCTTGTCTCCCTAAGCAGTAGTGGA
11766452 ACAGGTTGAA
Statistics
Matches: 105, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
87 98 0.93
88 7 0.07
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (87 bp):
TTACAAGTCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATACCAAAACTTATCTCTCTGA
AGTTGCAGAGAGCAAGTTGAAG
Found at i:11769554 original size:27 final size:27
Alignment explanation
Indices: 11769506--11769664 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
11769496 GCGAGGCTGC
* *
11769506 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
11769533 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
11769559 TAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11769586 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11769613 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11769640 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11769665 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11769599 original size:54 final size:54
Alignment explanation
Indices: 11769524--11769664 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
11769514 GTGACGAAGT
* *
11769524 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
11769578 TACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
11769632 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
11769665 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:11769804 original size:26 final size:27
Alignment explanation
Indices: 11769768--11769842 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
11769758 CAAAAATAAC
* * *
11769768 CCTAGAGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCTA
*
11769794 CCTAGGGGTATAACAGTAATTTTCCTA
1 CCTAGGGGTATAATAGTAATTTTCCTA
* *
11769821 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
11769843 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCTA
Found at i:11769838 original size:27 final size:26
Alignment explanation
Indices: 11769774--11769842 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
11769764 TAACCCTAGA
* * *
11769774 GGTATAATGGTAATTTTGCACCTAGG
1 GGTATAATAGTAATTTTCCACATAGG
*
11769800 GGTATAACAGTAATTTTCCTACATAGG
1 GGTATAATAGTAATTTTCC-ACATAGG
*
11769827 GGTATTATAGTAATTT
1 GGTATAATAGTAATTT
11769843 AGCTGCTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (26 bp):
GGTATAATAGTAATTTTCCACATAGG
Found at i:11771313 original size:26 final size:26
Alignment explanation
Indices: 11771282--11771389 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11771272 TGAAATGCCC
*
11771282 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11771308 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11771334 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11771360 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11771386 ATCA
1 ATCA
11771390 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11780947 original size:12 final size:12
Alignment explanation
Indices: 11780932--11780961 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
11780922 AACATATAAT
11780932 TGAACATATTTA
1 TGAACATATTTA
11780944 TGAACATATTTA
1 TGAACATATTTA
11780956 TGAACA
1 TGAACA
11780962 ATCTCTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (12 bp):
TGAACATATTTA
Found at i:11781737 original size:30 final size:29
Alignment explanation
Indices: 11781701--11781769 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 29
11781691 TCTAAATTAT
*
11781701 CCTTATTAATTTTTATACTACCAAAAATA
1 CCTTATTAATTTTTATACCACCAAAAATA
*
11781730 GCCTTATTAATTTTTATACCACCTAAAATA
1 -CCTTATTAATTTTTATACCACCAAAAATA
11781760 CCTATATTAA
1 CCT-TATTAA
11781770 CTCTTCATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.41
Consensus pattern (29 bp):
CCTTATTAATTTTTATACCACCAAAAATA
Found at i:11784406 original size:19 final size:19
Alignment explanation
Indices: 11784360--11784406 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
11784350 TTCCTTTCTT
*
11784360 TTTCTTTCTTATTTTTTTCC
1 TTTCTTT-TTATTTTTTTCA
*
11784380 TTTATTTTTATTTCTTTT-A
1 TTTCTTTTTATTT-TTTTCA
11784399 TTTCTTTT
1 TTTCTTTT
11784407 ATGTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTATTTTTTTCA
Found at i:11784458 original size:18 final size:17
Alignment explanation
Indices: 11784428--11784470 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
11784418 AATTAATAAT
11784428 TAATATAATAATATATTA
1 TAAT-TAATAATATATTA
*
11784446 TAATTAATAAATATCTTA
1 TAATTAAT-AATATATTA
*
11784464 TACTTAA
1 TAATTAA
11784471 AGTACAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTAATAATATATTA
Found at i:11788308 original size:28 final size:28
Alignment explanation
Indices: 11788272--11788326 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11788262 CAACATAAAT
11788272 AATAAAATAA-AATGACAATAAT-ATAATG
1 AATAAAATAATAA-GA-AATAATAATAATG
*
11788300 AATACAATAATAAGAAATAATAATAAT
1 AATAAAATAATAAGAAATAATAATAAT
11788327 AATTCAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
28 16 0.67
29 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.25
Consensus pattern (28 bp):
AATAAAATAATAAGAAATAATAATAATG
Found at i:11792559 original size:16 final size:16
Alignment explanation
Indices: 11792538--11792590 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
11792528 TTTGCAAAAA
11792538 TTTTAAAGGTTTAGGT
1 TTTTAAAGGTTTAGGT
*
11792554 TTTTAAA---TT-GAT
1 TTTTAAAGGTTTAGGT
11792566 TAATTTAAAGGTTTAGGT
1 T--TTTAAAGGTTTAGGT
11792584 TTTTAAA
1 TTTTAAA
11792591 TTGATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 3 0.10
13 2 0.07
14 6 0.21
16 13 0.45
17 2 0.07
18 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TTTTAAAGGTTTAGGT
Found at i:11792573 original size:30 final size:30
Alignment explanation
Indices: 11792539--11792599 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11792529 TTGCAAAAAT
11792539 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
1 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
11792569 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
1 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
11792599 T
1 T
11792600 ATAGGTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (30 bp):
TTTAAAGGTTTAGGTTTTTAAATTGATTAA
Found at i:11795053 original size:18 final size:18
Alignment explanation
Indices: 11795030--11795066 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11795020 TAATGAAGTG
11795030 TGTATAATAAA-ATTAAAA
1 TGTATAA-AAATATTAAAA
11795048 TGTATAAAAATATTAAAA
1 TGTATAAAAATATTAAAA
11795066 T
1 T
11795067 AGAATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTAAAA
Found at i:11795674 original size:9 final size:9
Alignment explanation
Indices: 11795660--11795737 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
11795650 ATAAGTATAA
*
11795660 AATTAACAG
1 AATTAACCG
11795669 AATTAACCG
1 AATTAACCG
**
11795678 AATTAGTCG
1 AATTAACCG
11795687 AATTAACCG
1 AATTAACCG
11795696 AATT-ACTCG
1 AATTAAC-CG
*
11795705 AATTACCCG
1 AATTAACCG
* *
11795714 AATTACCCA
1 AATTAACCG
11795723 AATTAACCG
1 AATTAACCG
11795732 AATTAA
1 AATTAA
11795738 ACAAATTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
8 2 0.03
9 55 0.95
10 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:11795689 original size:18 final size:18
Alignment explanation
Indices: 11795668--11795736 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
11795658 AAAATTAACA
*
11795668 GAATTAACCGAATTAGTC
1 GAATTAACCGAATTACTC
11795686 GAATTAACCGAATTACTC
1 GAATTAACCGAATTACTC
* *
11795704 GAATTACCCGAATTACCC
1 GAATTAACCGAATTACTC
*
11795722 AAATTAACCGAATTA
1 GAATTAACCGAATTA
11795737 AACAAATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTACTC
Found at i:11795776 original size:6 final size:6
Alignment explanation
Indices: 11795765--11795823 Score: 91
Period size: 6 Copynumber: 9.5 Consensus size: 6
11795755 AATTATATGT
*
11795765 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA GTTTTAAA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA
11795815 TTTTTA TTT
1 TTTTTA TTT
11795824 ATTAAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 40 0.82
7 8 0.16
8 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11797371 original size:31 final size:28
Alignment explanation
Indices: 11797336--11797394 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
11797326 TTGTGTTGAG
*
11797336 AAATTTATTTAATTAGAAAAATAATTTATTT
1 AAATTAATTTAA-TA-AAAAAT-ATTTATTT
*
11797367 AAATTAATTTAATAAATAATATTTATTT
1 AAATTAATTTAATAAAAAATATTTATTT
11797395 TGAGAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 5 0.19
30 2 0.08
31 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
AAATTAATTTAATAAAAAATATTTATTT
Found at i:11805009 original size:16 final size:17
Alignment explanation
Indices: 11804949--11805009 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
11804939 TAAAAAATAT
* *
11804949 AAAATGGAAAATTTTATA
1 AAAATAGAAAAGTTT-TA
*
11804967 AAAATAAAAAAGTATTTA
1 AAAATAGAAAAGT-TTTA
*
11804985 AATATTAGAAAA-TTTTA
1 AA-AATAGAAAAGTTTTA
11805002 AAAATAGA
1 AAAATAGA
11805010 TTTTCAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 15 0.43
19 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AAAATAGAAAAGTTTTA
Found at i:11811463 original size:5 final size:6
Alignment explanation
Indices: 11811446--11811471 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11811436 TTTAACATCA
11811446 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
11811472 AATTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:11814534 original size:26 final size:26
Alignment explanation
Indices: 11814496--11814553 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11814486 CCTGTTATAT
*
11814496 GGCTCTTCGTGAG-TTTCCCGATTAAA
1 GGCTCTTCATGAGCTTT-CCGATTAAA
* * *
11814522 GGCTCTTTATGAGCTTTCTGATTAAT
1 GGCTCTTCATGAGCTTTCCGATTAAA
11814548 GGCTCT
1 GGCTCT
11814554 CCGAAGCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTTCCGATTAAA
Found at i:11814670 original size:73 final size:73
Alignment explanation
Indices: 11814532--11814670 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 73
11814522 GGCTCTTTAT
* * * *
11814532 GAGCTTTCTGATTAATGGCTCTCCGAAGCTTCCCGATATGACTCACTTGAATTTCCCGATATATG
1 GAGCTTCCTGATTAATGGCTCTCCGAAGATTCCCGATATGACTCACATGAACTTCCCGATATATG
11814597 GTTATCCG
66 GTTATCCG
* * * * *
11814605 GAGCTTCCTGATTAATGGCTCTTCGAA-ATTACCCGTTATTGGCTCACATGAGCTTCCTGAT-TA
1 GAGCTTCCTGATTAATGGCTCTCCGAAGATT-CCCGATA-TGACTCACATGAACTTCCCGATATA
11814668 TGG
64 TGG
11814671 CTCTTATAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 2 0.04
73 36 0.65
74 17 0.31
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTGATTAATGGCTCTCCGAAGATTCCCGATATGACTCACATGAACTTCCCGATATATG
GTTATCCG
Found at i:11818479 original size:18 final size:18
Alignment explanation
Indices: 11818446--11818483 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
11818436 AAGGGAGATC
11818446 TCCAGTCTTGATGATGAA
1 TCCAGTCTTGATGATGAA
11818464 TCCAGCTCTTGA-GATGAA
1 TCCAG-TCTTGATGATGAA
11818482 TC
1 TC
11818484 AATCGGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (18 bp):
TCCAGTCTTGATGATGAA
Done.