Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 71 of 255
Found at i:21015814 original size:14 final size:14
Alignment explanation
Indices: 21015785--21015813 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21015775 TGAATTTATC
21015785 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
21015799 TTCTTTTTTT-TTT
1 TTCTTTTTTTCTTT
21015812 TT
1 TT
21015814 TAAATTATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:21017376 original size:5 final size:5
Alignment explanation
Indices: 21017366--21017395 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
21017356 ATTATCACAA
21017366 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
21017396 TAAATATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:21019752 original size:6 final size:7
Alignment explanation
Indices: 21019733--21019758 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21019723 CCAATCTCAC
21019733 AGAAAAA
1 AGAAAAA
21019740 AGAAAAA
1 AGAAAAA
21019747 AGAAAAA
1 AGAAAAA
21019754 AGAAA
1 AGAAA
21019759 TCCATTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:21029641 original size:28 final size:27
Alignment explanation
Indices: 21029521--21029652 Score: 122
Period size: 28 Copynumber: 4.8 Consensus size: 27
21029511 CCCCTATTTT
* * * *
21029521 TTTTTCAGATTTTACAGTTTTACACATG
1 TTTTTCAAATTTTACAGTTTTCCTC-TA
* *
21029549 TTTTTCAGATTTTACAGTTTTGCTCT-
1 TTTTTCAAATTTTACAGTTTTCCTCTA
* **
21029575 TGTTTCTCAAATTTTATAGTTTTTTTCTA
1 T-TTT-TCAAATTTTACAGTTTTCCTCTA
*
21029604 TTTCTCAAATTTTACAGTTTTACCTCTA
1 TTTTTCAAATTTTACAGTTTT-CCTCTA
*
21029632 TTTTTAAAATTTTACAGTTTT
1 TTTTTCAAATTTTACAGTTTT
21029653 GACCCATATT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.01
27 20 0.23
28 66 0.75
29 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.08, T:0.56
Consensus pattern (27 bp):
TTTTTCAAATTTTACAGTTTTCCTCTA
Found at i:21030269 original size:84 final size:86
Alignment explanation
Indices: 21030151--21030308 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 86
21030141 CAAACAAGTG
* *
21030151 GTGGCTTATCCACCAAACCCAGTGGTAGTTTGTTTAATCTATG-AA-TATATTGTGCACTCACAA
1 GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAAT-T-TGCAACCATATTGTGCACTCACAA
*
21030214 TAAGTGGCAGTAACTGTAAATAT
64 CAAGTGGCAGTAACTGTAAATAT
* *
21030237 GTGGCTTGTCCA-AAAACCCAGT-GTAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACA
1 GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAATTTGCAACCATATTGTGCACTCACAACA
21030300 AGTGGCAGT
66 AGTGGCAGT
21030309 TTAACTACAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
82 2 0.03
83 3 0.05
84 40 0.62
85 9 0.14
86 11 0.17
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (86 bp):
GTGGCTTATCCACAAAACCCAGTGGTAGTTTGTTTAATTTGCAACCATATTGTGCACTCACAACA
AGTGGCAGTAACTGTAAATAT
Found at i:21031532 original size:116 final size:116
Alignment explanation
Indices: 21031328--21031562 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
21031318 TACGCATTTC
**
21031328 TGAATGGACATGAGTTGGTGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
1 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
*
21031393 GCATGAGTTTTGTTAAAAATGCCCGTTTGGACGTAGTAAACAATTAGGATA
66 GCATGAGTTTTGTTAAAAATGCCCATTTGGACGTAGTAAACAATTAGGATA
21031444 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
1 TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
21031509 GCATGAGTTTTGTTAAAAATGCCCATTTGGACGTAGTAAACAATTAGGATA
66 GCATGAGTTTTGTTAAAAATGCCCATTTGGACGTAGTAAACAATTAGGATA
21031560 TGA
1 TGA
21031563 TTGACATACC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (116 bp):
TGAATGGACATGAGTTCATGACAATATGTGTACGGATAAAATGGGAATGTTTTTATTTATAAGTG
GCATGAGTTTTGTTAAAAATGCCCATTTGGACGTAGTAAACAATTAGGATA
Found at i:21031628 original size:20 final size:20
Alignment explanation
Indices: 21031603--21031640 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21031593 TTGTATGGGG
*
21031603 TTGCACTTCGGTTCCTCTTT
1 TTGCACTTCGGTGCCTCTTT
*
21031623 TTGCACTTTGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
21031641 GATTGCACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.29, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTTT
Found at i:21031646 original size:20 final size:20
Alignment explanation
Indices: 21031603--21031661 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
21031593 TTGTATGGGG
* * **
21031603 TTGCACTTCGGTTCCTCTTT
1 TTGCACTTTGGTGCCTCTGA
21031623 TTGCACTTTGGTGCCTCTGA
1 TTGCACTTTGGTGCCTCTGA
*
21031643 TTGCACATTT-TTGCCTCTG
1 TTGCAC-TTTGGTGCCTCTG
21031662 TCTGTACTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.08, C:0.27, G:0.19, T:0.46
Consensus pattern (20 bp):
TTGCACTTTGGTGCCTCTGA
Found at i:21034705 original size:27 final size:28
Alignment explanation
Indices: 21034663--21034728 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
21034653 TTTTTTAAAA
*
21034663 TTTATAGTTTTGCCCCAATTTCTCATAT
1 TTTATAGTTTTGCCCCAATTTCTCAAAT
* *
21034691 TTTATAGTTTT-CCCCTATTTTTCAAAT
1 TTTATAGTTTTGCCCCAATTTCTCAAAT
21034718 TTTATAGTTTT
1 TTTATAGTTTT
21034729 TTCTCTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 24 0.69
28 11 0.31
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTATAGTTTTGCCCCAATTTCTCAAAT
Found at i:21034731 original size:29 final size:28
Alignment explanation
Indices: 21034645--21034757 Score: 102
Period size: 29 Copynumber: 4.0 Consensus size: 28
21034635 CAGTCGTGTG
* *
21034645 TCCCCTATTTTTTTAAAATTTATAGTTTT
1 TCCCCTA-TTTTTCAAATTTTATAGTTTT
* * * *
21034674 GCCCCAATTTCTCATATTTTATAG-TTT
1 TCCCCTATTTTTCAAATTTTATAGTTTT
21034701 TCCCCTATTTTTCAAATTTTATAGTTTTT
1 TCCCCTATTTTTCAAATTTTATAG-TTTT
* * * * *
21034730 TCTCTTACTTTACAAATTTTACAGTTTT
1 TCCCCTATTTTTCAAATTTTATAGTTTT
21034758 GACTTAGAAT
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 23 0.34
28 17 0.25
29 27 0.40
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (28 bp):
TCCCCTATTTTTCAAATTTTATAGTTTT
Found at i:21035627 original size:22 final size:20
Alignment explanation
Indices: 21035588--21035627 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
21035578 AAATCGTATG
*
21035588 TTTTGTTTGTTTTTTTGTTC
1 TTTTGTTTGTTTTCTTGTTC
21035608 TTTTGTTACTGTTTTCTTGT
1 TTTTGTT--TGTTTTCTTGT
21035628 GACTGAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.03, C:0.07, G:0.15, T:0.75
Consensus pattern (20 bp):
TTTTGTTTGTTTTCTTGTTC
Found at i:21052954 original size:40 final size:40
Alignment explanation
Indices: 21052902--21053085 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
21052892 TAACTCATAC
** *
21052902 AATGCCTTCGGGACTTAACCC-GAATTTTTAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAATTAAT-AACTCGCACA
* *
21052942 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
21052982 AAGGCCTTCGGGATTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
21053022 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
21053063 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21053086 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 5 0.04
40 100 0.82
41 17 0.14
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:21053045 original size:80 final size:81
Alignment explanation
Indices: 21052865--21053085 Score: 222
Period size: 80 Copynumber: 2.8 Consensus size: 81
21052855 CTCGTTCAAG
* * * * * * *
21052865 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCC-GAATT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATT
** *
21052928 TTTAAACTCGCACGAA
66 AATAAACTCGCACAAA
* *
21052944 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGATTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
21053006 ATTAAT-AACTCGCACAAA
63 ATTAATAAACTCGCACAAA
** *
21053024 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
21053086 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 30 0.26
80 67 0.57
81 16 0.14
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATT
AATAAACTCGCACAAA
Found at i:21060864 original size:39 final size:40
Alignment explanation
Indices: 21060821--21060988 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
21060811 CTCGTTCAAG
* * * *
21060821 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
21060860 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
21060900 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
21060940 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
21060980 TGCCTTCGG
1 TGCCTTCGG
21060989 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:21060972 original size:80 final size:80
Alignment explanation
Indices: 21060856--21061041 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
21060846 AGTAACTCAT
* * *
21060856 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
21060920 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
21060935 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
21060999 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
21061016 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
21061042 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:21061001 original size:40 final size:40
Alignment explanation
Indices: 21060858--21061041 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
21060848 TAACTCATAC
* *
21060858 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
21060898 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
21060938 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
21060978 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
21061019 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21061042 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:21063819 original size:40 final size:39
Alignment explanation
Indices: 21063764--21063990 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 39
21063754 CGGATGATAA
* *
21063764 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGT-ACTAATT
*
21063804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTAATT
* *
21063844 CCGGGCTAAGTCCCGAAGGCATTTGGGAGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTAATT
* *
21063884 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TACTAATT
* * *
21063923 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TACTAAT-T
*
21063963 CCGGGCTAAGTCCCGAAAGCATTTGAGC
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC
21063991 TAGTGGCTAT
Statistics
Matches: 167, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 36 0.22
40 128 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTACTAATT
Found at i:21064009 original size:79 final size:79
Alignment explanation
Indices: 21063764--21064010 Score: 242
Period size: 79 Copynumber: 3.1 Consensus size: 79
21063754 CGGATGATAA
* * *
21063764 CCGGGCTAAGTCCCG-AGAGCATTTGAGC-TAG-TGGCTAATTCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAG-GCATTTG-GCAGAGCT-ACTAATACCGGGCTAAGTCCCGAAGGCAT
*
21063826 TTGTGCGAGCTACTA-ATT
63 TTGAGCGAG-TACTATA-T
* *
21063844 CCGGGCTAAGTCCCGAAGGCATTTGGGAGAGCTACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGGCAGAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
*
21063909 TA-CGAGTTATTATA-
66 -AGCGAG-TACTATAT
* *
21063923 CCGGGCTAAGTCCCGAAGGCATTTGTGCA-AGTTACT-ATAACCGGGCTAAGTCCCGAAAGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-GCAGAGCTACTAAT-ACCGGGCTAAGTCCCGAAGGCATT
* *
21063986 TGAGCTAGTGGCTATAT
64 TGAGCGAGT-ACTATAT
21064003 CC-GGCTAA
1 CCGGGCTAA
21064011 ACTCCGAAGG
Statistics
Matches: 144, Mismatches: 13, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
78 4 0.03
79 69 0.48
80 67 0.47
81 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGGCAGAGCTACTAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTACTATAT
Found at i:21066159 original size:20 final size:20
Alignment explanation
Indices: 21066136--21066267 Score: 201
Period size: 20 Copynumber: 6.6 Consensus size: 20
21066126 TAGCGGCTTG
*
21066136 AAGCCATCAATAGCGGCACA
1 AAGCCATCAATAGTGGCACA
21066156 AAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGTGGCACA
* **
21066176 AAGCCATCAATAGTGTCATG
1 AAGCCATCAATAGTGGCACA
21066196 AAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGTGGCACA
*
21066216 AAGCCATCAATAGTGGTACA
1 AAGCCATCAATAGTGGCACA
*
21066236 AAGCCATCAATAGCGGCACA
1 AAGCCATCAATAGTGGCACA
*
21066256 AAGCCATAAATA
1 AAGCCATCAATA
21066268 TTGCAGCAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 101 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
AAGCCATCAATAGTGGCACA
Found at i:21066180 original size:40 final size:40
Alignment explanation
Indices: 21066109--21066267 Score: 201
Period size: 40 Copynumber: 4.0 Consensus size: 40
21066099 TATCAGTATA
* * * ***
21066109 TGGCACAAAGCCATGAGTAGCGGCTTGAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATAG
*
21066149 CGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATAG
* **
21066189 TGTCATGAAGCCATCAATAGTGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATAG
* * *
21066229 TGGTACAAAGCCATCAATAGCGGCACAAAGCCATAAATA
1 TGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATA
21066268 TTGCAGCAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.16
Consensus pattern (40 bp):
TGGCACAAAGCCATCAATAGTGGCACAAAGCCATCAATAG
Found at i:21066202 original size:60 final size:60
Alignment explanation
Indices: 21066109--21066267 Score: 228
Period size: 60 Copynumber: 2.6 Consensus size: 60
21066099 TATCAGTATA
* * *
21066109 TGGCACAAAGCCATGAGTAGCGGCTTGAAGCCATCAATAGCGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGCGGCATGAAGCCATCAATAGCGGCACAAAGCCATCAATAG
* * *
21066169 TGGCACAAAGCCATCAATAGTGTCATGAAGCCATCAATAGTGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAGCGGCATGAAGCCATCAATAGCGGCACAAAGCCATCAATAG
* ** *
21066229 TGGTACAAAGCCATCAATAGCGGCACAAAGCCATAAATA
1 TGGCACAAAGCCATCAATAGCGGCATGAAGCCATCAATA
21066268 TTGCAGCAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 87 1.00
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.16
Consensus pattern (60 bp):
TGGCACAAAGCCATCAATAGCGGCATGAAGCCATCAATAGCGGCACAAAGCCATCAATAG
Found at i:21074576 original size:42 final size:43
Alignment explanation
Indices: 21074475--21074611 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
21074465 TGAGATATTG
* * * * *
21074475 TGTAAGACCGTGTCTGGGACACAGGCTTC-A-ATTGATATTTACT
1 TGTAAGACCATATCTGGGACAGAGGCATCGATATTGA-A-TTACA
* * ** * *
21074518 TATAAGACCATGTCTGGGACATCGGCATCG-TATGTG-ATTTCG
1 TGTAAGACCATATCTGGGACAGAGGCATCGATAT-TGAATTACA
*
21074560 TGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATATCTGGGACAGAGGCATCGATATTGAATTACA
21074603 TGTAAGACC
1 TGTAAGACC
21074612 GCGTCAGGAA
Statistics
Matches: 75, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
42 30 0.40
43 41 0.55
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGAGGCATCGATATTGAATTACA
Found at i:21082141 original size:27 final size:27
Alignment explanation
Indices: 21082093--21082172 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
21082083 GGGAGGCTGC
* *
21082093 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
21082120 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
21082146 TATATATATGTGGCGAAGCCACCAGAT
1 CAGATAT-TGTGGCGAAGCCACCAGAT
21082173 TGCAGCGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
26 6 0.14
27 37 0.86
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:21082209 original size:67 final size:67
Alignment explanation
Indices: 21082120--21082257 Score: 186
Period size: 67 Copynumber: 2.1 Consensus size: 67
21082110 TCACCAGATA
* * * * * * *
21082120 CAGATATTGTGGCTAGGCCACCAGAATATATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
21082185 GC
66 GC
* * *
21082187 CAGATATTGTGACGAAGTCACCAGAACAGATAAATGTGGCGAGGCCACCAAATTGCAGTGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
21082252 GC
66 GC
21082254 CAGA
1 CAGA
21082258 ACGCTTCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATAAATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
GC
Found at i:21082922 original size:27 final size:27
Alignment explanation
Indices: 21082892--21083091 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
21082882 GGGGAAAAAT
* ** *
21082892 GGTAATTTTACCCTACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
21082919 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
21082946 AGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21082973 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21083000 GGTAATTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
21083027 AATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
21083054 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
21083081 GGTAATTCTAC
1 GGTAATTCTAC
21083092 AACTTATCCA
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:21084397 original size:42 final size:42
Alignment explanation
Indices: 21084298--21084438 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 42
21084288 ATCTGAGATA
* *
21084298 TCGTGTAAGACTATGTCTGGGA-AACAGGCCTCGATTGATATT
1 TCGTGTAAGACCATGTCTGGGACAACAGGCATCGATTGA-ATT
* *
21084340 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTG-ATT
1 T-CGTGTAAGACCATGTCTGGGACAACAGGCATCG-AT-TGAATT
* *
21084383 TCGTGTAAGACCATGTCTGGGAC-AGAGGAATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACAACAGGCATCG--ATTGAATT
* *
21084426 ACATGTAAGACCA
1 TCGTGTAAGACCA
21084439 CGTCAAGAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 30 0.37
43 46 0.56
44 4 0.05
45 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACAACAGGCATCGATTGAATT
Found at i:21089979 original size:24 final size:24
Alignment explanation
Indices: 21089947--21090022 Score: 152
Period size: 24 Copynumber: 3.2 Consensus size: 24
21089937 CTCGTCAAAA
21089947 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
21089971 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
21089995 TGATTACCTTATTAACCATCAGTT
1 TGATTACCTTATTAACCATCAGTT
21090019 TGAT
1 TGAT
21090023 ATTAAATTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (24 bp):
TGATTACCTTATTAACCATCAGTT
Found at i:21090422 original size:28 final size:28
Alignment explanation
Indices: 21090390--21090488 Score: 72
Period size: 28 Copynumber: 3.4 Consensus size: 28
21090380 ACAGTACATG
* *
21090390 CAGTAACAGTCTGGGCCTGAGCCTTATT
1 CAGTAACAGTCTGGGCCTGAGCCCTATA
*
21090418 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCCTGAGCCCTATA
* * * * *
21090451 CAGTAACAGTGTAGGCTTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCTATA
*
21090479 CAGTATCAGT
1 CAGTAACAGT
21090489 ATCGTGTAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 30 0.53
30 2 0.04
31 2 0.04
33 23 0.40
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATA
Found at i:21090432 original size:33 final size:34
Alignment explanation
Indices: 21090390--21090460 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
21090380 ACAGTACATG
* * *
21090390 CAGTAACAGTCTGGGCCTGAGCCTTATTCAGTAT
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
*
21090424 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
21090457 CAGT
1 CAGT
21090461 GTAGGCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAA
Found at i:21090868 original size:27 final size:27
Alignment explanation
Indices: 21090838--21091009 Score: 290
Period size: 27 Copynumber: 6.4 Consensus size: 27
21090828 GGGCATAATC
*
21090838 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
21090865 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
21090892 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* *
21090919 ATCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
21090946 GTCATTTTACCCTACAGGGGTACTACG
1 GTCATTTTACCCTACAGGGGTATTACG
21090973 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
21091000 GTCATTTTAC
1 GTCATTTTAC
21091010 AAATCGAGGA
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:21091109 original size:26 final size:27
Alignment explanation
Indices: 21090987--21091152 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
21090977 TTTTACCCTA
* *
21090987 CAGGGGTATTACGGTCATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
** * * *
21091014 C-GAGGAAATTTTGATTATTTTACAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAAT
*
21091041 CAGGGGTATTTCGGTAATTTCACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* *
21091068 CAGGGGTATTTTGGTAATTTTAC-AAC
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
21091094 CTGGGGTATTTCGGTAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
*
21091121 CAGGGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
21091148 CAGGG
1 CAGGG
21091153 TCTTAATGAC
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.21
27 91 0.78
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:21091119 original size:53 final size:53
Alignment explanation
Indices: 21090987--21091145 Score: 203
Period size: 53 Copynumber: 3.0 Consensus size: 53
21090977 TTTTACCCTA
* * ** * *
21090987 CAGGGGTATTACGGTCATTTTACAAATC-GAGGAAATTTTGATTATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAATCAG-GGGTATTTTGATAATTTTAC-AAC
* *
21091041 CAGGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAC
1 CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAC
* *
21091094 CTGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCGATAATTTTACAA
1 CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAA
21091146 ATCAGGGTCT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 50 0.54
54 41 0.45
55 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (53 bp):
CAGGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGATAATTTTACAAC
Found at i:21091371 original size:17 final size:17
Alignment explanation
Indices: 21091349--21091381 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21091339 TCGCAAATTT
21091349 ATCCGTGTGGGCCCACG
1 ATCCGTGTGGGCCCACG
21091366 ATCCGTGTGGGCCCAC
1 ATCCGTGTGGGCCCAC
21091382 ATAGCCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.33, T:0.18
Consensus pattern (17 bp):
ATCCGTGTGGGCCCACG
Found at i:21105968 original size:30 final size:30
Alignment explanation
Indices: 21105932--21105991 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
21105922 TTCCCGAGCC
*
21105932 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
21105962 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
21105992 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:21111228 original size:40 final size:40
Alignment explanation
Indices: 21111133--21111390 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
21111123 TGGATGATAA
* *
21111133 CCGGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
21111174 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21111214 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21111254 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21111294 CCGGGCTATGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21111334 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21111373 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21111391 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 143 0.71
41 23 0.12
42 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21120502 original size:28 final size:28
Alignment explanation
Indices: 21120434--21120588 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
21120424 CATGAGATTG
* * * *
21120434 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
21120463 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21120491 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21120519 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21120547 GCACTAAGTGTGCGAGTTTGATTACATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21120575 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
21120589 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 103 0.85
29 18 0.15
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21128431 original size:28 final size:28
Alignment explanation
Indices: 21128366--21128516 Score: 239
Period size: 28 Copynumber: 5.4 Consensus size: 28
21128356 GAGATTGGCG
* * * *
21128366 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
21128395 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21128423 CTAAGTGTGTGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21128451 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
21128479 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
21128507 CTAAGTGTGC
1 CTAAGTGTGC
21128517 AGACTTAATA
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 100 0.87
29 15 0.13
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:21130214 original size:38 final size:40
Alignment explanation
Indices: 21130061--21130233 Score: 237
Period size: 40 Copynumber: 4.4 Consensus size: 40
21130051 GGGTGTTACA
* *
21130061 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
21130101 GGCTAAGTCCCGAAGGCATTTGTGCGATTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
21130141 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
21130181 GGCTATGT-CCGAGGGCA-TTGTGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
21130218 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
21130234 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 7 0.06
38 22 0.18
39 8 0.07
40 82 0.69
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:21135945 original size:20 final size:20
Alignment explanation
Indices: 21135904--21135945 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21135894 ACCCCTGCAG
* *
21135904 TTTGAAAATTTTCTTCTTTT
1 TTTGAAAATTTTCTTATGTT
21135924 TTTGAAAA-TTTCTATATGTT
1 TTTGAAAATTTTCT-TATGTT
21135944 TT
1 TT
21135946 CAGTTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTGAAAATTTTCTTATGTT
Found at i:21138808 original size:27 final size:27
Alignment explanation
Indices: 21138731--21138810 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
21138721 CTCAAATTGA
* *
21138731 TAAAATAACTATTTTACCCTTATATGG
1 TAAAATGACTATTTTACCCTTATGTGG
21138758 TAAAATGACTATTTTACCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGG
* *
21138785 TGAGATGACTCATTTT-CCCTTATGTG
1 TAAAATGACT-ATTTTACCCTTATGTG
21138811 AGGTATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 43 0.90
28 5 0.10
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTACCCTTATGTGG
Found at i:21139722 original size:21 final size:21
Alignment explanation
Indices: 21139698--21139747 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
21139688 TAGCATTTTG
*
21139698 CTAAACGACTTGAGTTTTAAA
1 CTAAACAACTTGAGTTTTAAA
21139719 CTAAACAACTTGAGTTTTAAA
1 CTAAACAACTTGAGTTTTAAA
21139740 CTAAACAA
1 CTAAACAA
21139748 ACCTCTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (21 bp):
CTAAACAACTTGAGTTTTAAA
Found at i:21154077 original size:29 final size:29
Alignment explanation
Indices: 21154038--21154116 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
21154028 CTTAATAATC
*
21154038 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
21154068 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21154097 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21154117 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:21158008 original size:16 final size:16
Alignment explanation
Indices: 21157987--21158032 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
21157977 GTGTAATGCC
*
21157987 CCAAAAATCTCAAAAA
1 CCAAAAATCCCAAAAA
*
21158003 CCAAAAATCCCAAAAT
1 CCAAAAATCCCAAAAA
*
21158019 CCCAAAATCCCAAA
1 CCAAAAATCCCAAA
21158033 CTTTCTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.57, C:0.33, G:0.00, T:0.11
Consensus pattern (16 bp):
CCAAAAATCCCAAAAA
Found at i:21158017 original size:8 final size:8
Alignment explanation
Indices: 21157990--21158032 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
21157980 TAATGCCCCA
*
21157990 AAAATCTC
1 AAAATCCC
* *
21157998 AAAAACCA
1 AAAATCCC
21158006 AAAATCCC
1 AAAATCCC
21158014 AAAATCCC
1 AAAATCCC
21158022 AAAATCCC
1 AAAATCCC
21158030 AAA
1 AAA
21158033 CTTTCTCTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATCCC
Found at i:21159279 original size:16 final size:15
Alignment explanation
Indices: 21159260--21159315 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
21159250 GCCGAAATGC
21159260 CGAAAAGCTATAAAGT
1 CGAAAAGCTA-AAAGT
* *
21159276 CGAAATGCCGAAAAGT
1 CGAAAAG-CTAAAAGT
*
21159292 TGAAAAGCTAAAATGT
1 CGAAAAGCTAAAA-GT
21159308 CGAAAAGC
1 CGAAAAGC
21159316 CGAAAGTTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 5 0.16
16 25 0.78
17 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.16
Consensus pattern (15 bp):
CGAAAAGCTAAAAGT
Found at i:21159297 original size:32 final size:31
Alignment explanation
Indices: 21159246--21159324 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
21159236 ATGAATCGAC
**
21159246 AAAAGCCGAAATGCCGAAAAGCTATAAA-GTCG
1 AAAAGCCGAAA-GTTGAAAAGCTA-AAATGTCG
*
21159278 AAATGCCGAAAAGTTGAAAAGCTAAAATGTCG
1 AAAAGCCG-AAAGTTGAAAAGCTAAAATGTCG
21159310 AAAAGCCGAAAGTTG
1 AAAAGCCGAAAGTTG
21159325 GGCTCCGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 10 0.24
32 28 0.68
33 3 0.07
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (31 bp):
AAAAGCCGAAAGTTGAAAAGCTAAAATGTCG
Found at i:21159298 original size:24 final size:23
Alignment explanation
Indices: 21159246--21159315 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 23
21159236 ATGAATCGAC
21159246 AAAAGCCGAAATGCCGAAAAGCT
1 AAAAGCCGAAATGCCGAAAAGCT
* *
21159269 ATAAAGTCGAAATGCCGAAAAGTT
1 A-AAAGCCGAAATGCCGAAAAGCT
** *
21159293 GAAAAGCTAAAATGTCGAAAAGC
1 -AAAAGCCGAAATGCCGAAAAGC
21159316 CGAAAGTTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (23 bp):
AAAAGCCGAAATGCCGAAAAGCT
Found at i:21159586 original size:29 final size:28
Alignment explanation
Indices: 21159544--21159650 Score: 99
Period size: 29 Copynumber: 3.8 Consensus size: 28
21159534 ATAATATGAT
*
21159544 TTGGGCCTAATGGGCCATATGAAGTTGAA
1 TTGGGCCTAGTGGGCCATATGAA-TTGAA
*
21159573 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAAT-TGAA
* * * * **
21159602 CTAGGAC-AGATGGGCCATTTGAATAAAA
1 TTGGGCCTAG-TGGGCCATATGAATTGAA
*
21159630 TTGGGCCTAGTGGGCTATATG
1 TTGGGCCTAGTGGGCCATATG
21159651 CATGTATGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
28 18 0.30
29 43 0.70
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAGTGGGCCATATGAATTGAA
Found at i:21163532 original size:32 final size:32
Alignment explanation
Indices: 21163491--21163554 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21163481 TATTGATTAA
21163491 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
1 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
21163523 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
1 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
21163555 GGCATATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (32 bp):
ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
Found at i:21171811 original size:26 final size:26
Alignment explanation
Indices: 21171781--21171832 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21171771 TTTGGAAATT
* *
21171781 AAATGTT-ATATTTATATACTGTTATG
1 AAATGTTAAAATTTAAATA-TGTTATG
21171807 AAATGTTAAAATTTAAATATGTTATG
1 AAATGTTAAAATTTAAATATGTTATG
21171833 CTCGAACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (26 bp):
AAATGTTAAAATTTAAATATGTTATG
Found at i:21173374 original size:32 final size:32
Alignment explanation
Indices: 21173333--21173396 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21173323 TATTGATTAA
21173333 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
1 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
21173365 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
1 ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
21173397 GGCATATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (32 bp):
ACAATGTGTTTTGTTTCGTTAAGTATGGCTTT
Found at i:21179054 original size:16 final size:17
Alignment explanation
Indices: 21179033--21179071 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
21179023 GTTGTAACGC
21179033 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
21179049 CCCAAAAATCTCGAAAT
1 CCCAAAAATCCCGAAAT
21179066 CCCAAA
1 CCCAAA
21179072 CTTTTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:21180484 original size:19 final size:19
Alignment explanation
Indices: 21180452--21180498 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
21180442 ACTTGGGTTG
* *
21180452 AGAATTGGCCAAATAGGCC
1 AGAATGGGCTAAATAGGCC
*
21180471 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATAGGCC
*
21180490 TG-ATGGGCT
1 AGAATGGGCT
21180499 GTTGGGCCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.30, C:0.17, G:0.34, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATAGGCC
Found at i:21180636 original size:29 final size:29
Alignment explanation
Indices: 21180582--21180685 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
21180572 ACATGATTTG
* **
21180582 GGCCTAATGGGCCATATGAAGGTGAATTA
1 GGCCTAGTGGGCCATATGAATATGAATTA
* * *
21180611 GGCCTAGTGGGCCATAAGAATATGAACTG
1 GGCCTAGTGGGCCATATGAATATGAATTA
* * *
21180640 GGCC-AGATGGGCCATTTGAATAAG-ATTC
1 GGCCTAG-TGGGCCATATGAATATGAATTA
*
21180668 GGCCTAGTGGGCTATATG
1 GGCCTAGTGGGCCATATG
21180686 CATGTATGCA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 17 0.28
29 43 0.72
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCCTAGTGGGCCATATGAATATGAATTA
Found at i:21182958 original size:27 final size:28
Alignment explanation
Indices: 21182874--21182971 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
21182864 CATGAGATTG
* * *
21182874 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
21182903 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
21182931 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21182958 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21182972 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21182985 original size:29 final size:27
Alignment explanation
Indices: 21182902--21182986 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
21182892 TAAATTGTTC
* *
21182902 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
21182930 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
21182957 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
21182986 A
1 A
21182987 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:21185557 original size:20 final size:20
Alignment explanation
Indices: 21185534--21185625 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
21185524 TAGCGACTTG
* *
21185534 AAGCCATCAGTAGCGACACA
1 AAGCCATCAATAGCGGCACA
*
21185554 AAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGCGGCACA
*
21185574 AAGCCATCAATAGTGGCACA
1 AAGCCATCAATAGCGGCACA
21185594 AAGCCATCAATAGCGGCACA
1 AAGCCATCAATAGCGGCACA
*
21185614 AAGCCATAAATA
1 AAGCCATCAATA
21185626 TCGCAGCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.13
Consensus pattern (20 bp):
AAGCCATCAATAGCGGCACA
Found at i:21185761 original size:36 final size:36
Alignment explanation
Indices: 21185691--21185761 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
21185681 AAGCCATTAG
* *
21185691 TAGGTCCACAGTTGTCTTGTGCGACCTGTTCAACCT
1 TAGGTCCACAGTCGTCTTGTGCGACCTGTGCAACCT
21185727 TAGGTCCACAGTCGTCTTGTGCGATCC-GTGCAACC
1 TAGGTCCACAGTCGTCTTGTGCGA-CCTGTGCAACC
21185762 ATATCAGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.94
37 2 0.06
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (36 bp):
TAGGTCCACAGTCGTCTTGTGCGACCTGTGCAACCT
Found at i:21190828 original size:25 final size:24
Alignment explanation
Indices: 21190785--21190836 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
21190775 AAAATTTAAT
*
21190785 TAATATGAAATATTAATAATTCAA
1 TAATATGAAAAATTAATAATTCAA
* *
21190809 TAATTTGAAAAATTAGATAATTGAA
1 TAATATGAAAAATTA-ATAATTCAA
21190834 TAA
1 TAA
21190837 AATTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (24 bp):
TAATATGAAAAATTAATAATTCAA
Found at i:21196083 original size:27 final size:27
Alignment explanation
Indices: 21196052--21196229 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21196042 TAAATTGTAC
21196052 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21196079 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21196105 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21196133 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21196161 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21196188 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21196215 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21196230 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21196166 original size:82 final size:81
Alignment explanation
Indices: 21196053--21196208 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21196043 AAATTGTACA
* *
21196053 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21196117 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21196134 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21196199 TGCGAGTTGA
65 TGCGAATTGA
21196209 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21196220 original size:82 final size:81
Alignment explanation
Indices: 21196049--21196229 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21196039 GATTAAATTG
* *
21196049 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21196114 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21196130 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21196194 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21196212 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21196230 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21202478 original size:40 final size:39
Alignment explanation
Indices: 21202434--21202658 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
21202424 GCCACTAGCT
* * *
21202434 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAAATTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
21202474 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
21202513 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
21202553 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* ** * *
21202593 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
21202633 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
21202659 TATCATCCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.23
40 129 0.77
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:21202532 original size:79 final size:80
Alignment explanation
Indices: 21202434--21202657 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 80
21202424 GCCACTAGCT
* *
21202434 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAAATTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAAATCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21202499 TA-TAATAACTCGCA
66 AATTAATAACTCGCA
**
21202513 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAAATCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
21202578 AATTAGTAGCTCGCA
66 AATTAATAACTCGCA
* ** * * *
21202593 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCTTTGGGACTTAGCCCGGATA-TAGTAAATCGCACAAATGCCT-TCGGGACTTAGCCC
21202656 GG
64 GG
21202658 TTATCATCCG
Statistics
Matches: 129, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 65 0.50
80 64 0.50
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTTGGGACTTAGCCCGGATATAGTAAATCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAATAACTCGCA
Found at i:21209129 original size:44 final size:45
Alignment explanation
Indices: 21209045--21209131 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 45
21209035 CTATGTAATC
*
21209045 TGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACATT
1 TGAACTCATTGAGTTGTGGTCTAAGTTCATGATGTATGTGACATT
21209090 TGAACTCATTGAGTTGT-GTCTAAGTTCATGATGTATGTGACA
1 TGAACTCATTGAGTTGTGGTCTAAGTTCATGATGTATGTGACA
21209132 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 24 0.59
45 17 0.41
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.39
Consensus pattern (45 bp):
TGAACTCATTGAGTTGTGGTCTAAGTTCATGATGTATGTGACATT
Found at i:21212197 original size:27 final size:27
Alignment explanation
Indices: 21212163--21212339 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
21212153 TAAATTGTAC
21212163 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21212190 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21212216 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21212244 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21212272 AGCACTAAGTGTG-GATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21212298 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21212325 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21212340 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.67
28 20 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21212311 original size:81 final size:81
Alignment explanation
Indices: 21212164--21212318 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
21212154 AAATTGTACA
* *
21212164 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
21212229 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
21212245 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG-GATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
21212308 GTGCGAGTTGA
64 GTGCGAATTGA
21212319 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 42 0.64
82 23 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21212330 original size:81 final size:81
Alignment explanation
Indices: 21212160--21212339 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
21212150 AATTAAATTG
* *
21212160 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21212225 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21212241 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG-GATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21212304 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21212322 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21212340 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 59 0.71
82 23 0.28
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21220273 original size:27 final size:27
Alignment explanation
Indices: 21220239--21220416 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21220229 TAAATTGTAC
21220239 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21220266 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21220292 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21220320 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21220348 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21220375 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21220402 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21220417 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21220353 original size:82 final size:81
Alignment explanation
Indices: 21220240--21220395 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21220230 AAATTGTACA
* *
21220240 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21220304 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21220321 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21220386 TGCGAGTTGA
65 TGCGAATTGA
21220396 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21220407 original size:82 final size:81
Alignment explanation
Indices: 21220236--21220416 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21220226 AATTAAATTG
* *
21220236 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21220301 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21220317 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21220381 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21220399 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21220417 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21225965 original size:19 final size:20
Alignment explanation
Indices: 21225936--21225973 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21225926 TAGGAATCAA
21225936 AAAGTAAGACCCAAAATCTG
1 AAAGTAAGACCCAAAATCTG
21225956 AAAG-AAGACCCAAAATCT
1 AAAGTAAGACCCAAAATCT
21225974 TCAAGTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.21, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAGTAAGACCCAAAATCTG
Found at i:21228182 original size:46 final size:48
Alignment explanation
Indices: 21228033--21228303 Score: 267
Period size: 46 Copynumber: 5.8 Consensus size: 48
21228023 ATTTGTTTGT
* * * * *
21228033 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGACCAC-ATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGA
* ** *
21228079 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA
*
21228127 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-A
21228174 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGA
* * * * * * * *
21228219 TAGTCAATGTAATACCGTGTCTAGGACATGGCAT-GGACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA
21228265 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
21228304 ACCTTACCCA
Statistics
Matches: 187, Mismatches: 27, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 77 0.41
47 75 0.40
48 31 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGA
Found at i:21228183 original size:94 final size:95
Alignment explanation
Indices: 21228033--21228304 Score: 308
Period size: 94 Copynumber: 2.9 Consensus size: 95
21228023 ATTTGTTTGT
* * *
21228033 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATG-AGAGCCAGTGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTGTAAGACCA
**
21228096 TGTCTGGGACATGGCATCGGCAT-TTAGACGA
64 TGTCTGGGACATGGCATCGGCATACGAGACGA
*
21228127 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGA-CATG
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCATG
*
21228191 TCTGGGACAT-GCATCGGC-TACGAGATGA
66 TCTGGGACATGGCATCGGCATACGAGACGA
* * * * * * * *
21228219 TAG-TCAATGTAATACCGTGTCTAGGACATGGCAT-GGACTTGAGATATGAGCCAGTGTAAGACC
1 GAGCT-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTGTAAGACC
21228282 ATGTCTGGGACATGGCATCGGCA
63 ATGTCTGGGACATGGCATCGGCA
21228305 CCTTACCCAC
Statistics
Matches: 153, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
91 2 0.01
92 22 0.14
93 49 0.32
94 70 0.46
95 10 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATACGAGACGA
Found at i:21228290 original size:140 final size:141
Alignment explanation
Indices: 21228038--21228303 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 141
21228028 TTTGTGAGCT
* * *
21228038 AGTGTAAGACATGTCTAGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGACCACATGATGAGAGCCAATGTAAGACCATGTCTAG
* *
21228103 GACATGGCATCGGCATTTAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
21228167 AGATGTAAGCC
131 AGATGTAAGCC
* * * * * * *
21228178 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAATGTAATACCGTGTCTA
1 AGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATGATGAGAGCCAATGTAAGACCATGTCTA
*
21228242 GGACATGGCAT-GG-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
65 GGACATGGCATCGGCA-TTGAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
21228304 ACCTTACCCA
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 2 0.02
139 20 0.19
140 77 0.71
141 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACCACATGATGAGAGCCAATGTAAGACCATGTCTAG
GACATGGCATCGGCATTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGATGTAAGCC
Found at i:21229991 original size:79 final size:82
Alignment explanation
Indices: 21229880--21230064 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21229870 GCTACTCGTT
* * *
21229880 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21229943 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21229960 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21230023 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21230040 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21230065 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21230064 original size:40 final size:40
Alignment explanation
Indices: 21229861--21230064 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
21229851 CGGAATTTAA
** *
21229861 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21229901 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21229941 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21229980 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21230020 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21230060 CCGGA
1 CCGGA
21230065 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21246258 original size:28 final size:28
Alignment explanation
Indices: 21246227--21246287 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
21246217 CAAAGGCATT
21246227 CTTTAAGGGGTTCGCCACAAAAGCTCAC
1 CTTTAAGGGGTTCGCCACAAAAGCTCAC
* * * * *
21246255 CTTTTTAGGGTTTTGCCAGAAAGGCTCAC
1 C-TTTAAGGGGTTCGCCACAAAAGCTCAC
21246284 CTTT
1 CTTT
21246288 CTAGAGTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (28 bp):
CTTTAAGGGGTTCGCCACAAAAGCTCAC
Found at i:21246281 original size:29 final size:29
Alignment explanation
Indices: 21246240--21246421 Score: 104
Period size: 29 Copynumber: 6.3 Consensus size: 29
21246230 TAAGGGGTTC
* * *
21246240 GCCACAAAAGCTCACCTTTTTAGGGTTTT
1 GCCACAAAGGCTCACCTTTCTAGAGTTTT
*
21246269 GCCAGAAAGGCTCACCTTTCTAGAGTTTT
1 GCCACAAAGGCTCACCTTTCTAGAGTTTT
* ** * * *
21246298 GCCACAAAGGTTGTCCTGT-AACAGTTTT
1 GCCACAAAGGCTCACCTTTCTAGAGTTTT
* * * * *
21246326 TCCACAATGGCTTACCTTTCCAAAGTTTT
1 GCCACAAAGGCTCACCTTTCTAGAGTTTT
* * * * *
21246355 TCCATAAAGGCT-ATCCTTT-AACAG-GTT
1 GCCACAAAGGCTCA-CCTTTCTAGAGTTTT
* *
21246382 -CCTAGCAAAGGCTTACCTTTCTAGATTTTT
1 GCC-A-CAAAGGCTCACCTTTCTAGAGTTTT
21246412 GCCACAAAGG
1 GCCACAAAGG
21246422 TTATCCTTTA
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
26 2 0.02
27 3 0.03
28 36 0.31
29 70 0.60
30 3 0.03
31 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (29 bp):
GCCACAAAGGCTCACCTTTCTAGAGTTTT
Found at i:21246343 original size:57 final size:57
Alignment explanation
Indices: 21246274--21246523 Score: 267
Period size: 57 Copynumber: 4.4 Consensus size: 57
21246264 GTTTTGCCAG
* * * * **
21246274 AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTGTCCTGTAACAGTTTTTCCAC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
* * * * * * *
21246331 AATGGCTTACCTTTCCAAAGTTTTTCCATAAAGGCTATCCTTTAACAGGTTC-CTAGC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCA-C
*
21246388 AAAGGCTTACCTTTCTAGATTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
1 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
* * * * *
21246445 AAAGGCTTACCTTTCCA-AGGTTTTACAAAAAAGGTTGTCCTTTAACAGGTTCACCAC
1 AAAGGCTTACCTTTCTAGA-GTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
*
21246502 AATGGCTT---TTTCTAGAGTTTTG
1 AAAGGCTTACCTTTCTAGAGTTTTG
21246524 TAAAACCCCA
Statistics
Matches: 160, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
54 10 0.06
55 1 0.01
56 3 0.02
57 144 0.90
58 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (57 bp):
AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
Found at i:21246457 original size:28 final size:28
Alignment explanation
Indices: 21246360--21246509 Score: 85
Period size: 28 Copynumber: 5.3 Consensus size: 28
21246350 GTTTTTCCAT
*
21246360 AAAGGC-TATCCTTTAACAGGTTC-CTAGC
1 AAAGGCTTA-CCTTTAACAGGTTCACCA-C
* * ** **
21246388 AAAGGCTTACCTTTCTAGATTTTTGCCAC
1 AAAGGCTTACCTTT-AACAGGTTCACCAC
21246417 AAAGG-TTATCCTTTAACAGGTTCACCAC
1 AAAGGCTTA-CCTTTAACAGGTTCACCAC
* * * *
21246445 AAAGGCTTACCTTT-CCAAGGTTTTACAAA
1 AAAGGCTTACCTTTAAC-AGG-TTCACCAC
*
21246474 AAAGG-TTGTCCTTTAACAGGTTCACCAC
1 AAAGGCTT-ACCTTTAACAGGTTCACCAC
*
21246502 AATGGCTT
1 AAAGGCTT
21246510 TTTCTAGAGT
Statistics
Matches: 90, Mismatches: 22, Indels: 19
0.69 0.17 0.15
Matches are distributed among these distances:
27 1 0.01
28 46 0.51
29 40 0.44
30 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (28 bp):
AAAGGCTTACCTTTAACAGGTTCACCAC
Found at i:21246509 original size:114 final size:114
Alignment explanation
Indices: 21246270--21246523 Score: 320
Period size: 114 Copynumber: 2.3 Consensus size: 114
21246260 TAGGGTTTTG
* * * ** *
21246270 CCAG-AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTGTCCTGTAACAGTTTTTCCACAAT
1 CCAGCAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAA
* * *
21246334 GGCTTACCTTTCCAAAGTTTTTCCATAAAGGCTATCCTTTAACAGGTTC
66 GGCTTACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTC
* * *
21246383 CTAGCAAAGGCTTACCTTTCTAGATTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCACAAA
1 CCAGCAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAA
* * *
21246448 GGCTTACCTTTCCAAGGTTTTACAAAAAAGGTTGTCCTTTAACAGGTTC
66 GGCTTACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTC
*
21246497 ACCA-CAATGGCTT---TTTCTAGAGTTTTG
1 -CCAGCAAAGGCTTACCTTTCTAGAGTTTTG
21246524 TAAAACCCCA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
111 13 0.11
113 3 0.02
114 103 0.85
115 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (114 bp):
CCAGCAAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAA
GGCTTACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTC
Found at i:21247646 original size:34 final size:30
Alignment explanation
Indices: 21247607--21247665 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
21247597 ACGGTATTAA
21247607 TTAATTAATTAAGTTTTATGTAGTCATCAG
1 TTAATTAATTAAGTTTTATGTAGTCATCAG
21247637 TTAATTAATTAAGTTTTATGTAGTCATCA
1 TTAATTAATTAAGTTTTATGTAGTCATCA
21247666 TATATTAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (30 bp):
TTAATTAATTAAGTTTTATGTAGTCATCAG
Found at i:21247776 original size:29 final size:30
Alignment explanation
Indices: 21247697--21247810 Score: 96
Period size: 29 Copynumber: 3.9 Consensus size: 30
21247687 ACATACATGC
* *
21247697 ATATGGCCCACTGGGCCCAA-TC-TCATTC-
1 ATATGGCCCAATAGGCCCAATTCAT-ATTCT
* *
21247725 ATATGGCCC-ATCTGGCCCGATTCATATTCT
1 ATATGGCCCAAT-AGGCCCAATTCATATTCT
* *
21247755 -TATGGCCCAATAGTCCCAATTCACA-TCT
1 ATATGGCCCAATAGGCCCAATTCATATTCT
* *
21247783 ATATGGCCCATTAGGCCCAAATCATATT
1 ATATGGCCCAATAGGCCCAATTCATATT
21247811 ATACTCATGC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 45 0.66
30 4 0.06
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (30 bp):
ATATGGCCCAATAGGCCCAATTCATATTCT
Found at i:21248007 original size:16 final size:15
Alignment explanation
Indices: 21247980--21248016 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
21247970 CCGTAGCCCA
*
21247980 ACTTTCAGCTTTTCG
1 ACTTTTAGCTTTTCG
21247995 ACATTTTAGCTTTTCG
1 AC-TTTTAGCTTTTCG
21248011 ACTTTT
1 ACTTTT
21248017 TGGCATTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (15 bp):
ACTTTTAGCTTTTCG
Found at i:21249340 original size:28 final size:27
Alignment explanation
Indices: 21249290--21249357 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
21249280 ATTACAAGTT
* *
21249290 TTTCCACAAAGGTTTTCCCTTAATAGG
1 TTTCCACAAAGGTTGTCCCTTAACAGG
* *
21249317 TTCTCCACAATGGTTGTCCTTTAACAGG
1 TT-TCCACAAAGGTTGTCCCTTAACAGG
21249345 TTTGCCACAAAGG
1 TTT-CCACAAAGG
21249358 CTTTCCTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
TTTCCACAAAGGTTGTCCCTTAACAGG
Found at i:21249364 original size:28 final size:27
Alignment explanation
Indices: 21249292--21249365 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 27
21249282 TACAAGTTTT
* *
21249292 TCCACAAAGGTTTTCCCTTAATAGGTTC
1 TCCACAAAGG-TTTCCTTTAACAGGTTC
*
21249320 TCCACAATGGTTGTCCTTTAACAGGTT-
1 TCCACAAAGGTT-TCCTTTAACAGGTTC
21249347 TGCCACAAAGGCTTTCCTT
1 T-CCACAAAGG-TTTCCTT
21249366 AATGGTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 34 0.87
29 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (27 bp):
TCCACAAAGGTTTCCTTTAACAGGTTC
Found at i:21249736 original size:15 final size:15
Alignment explanation
Indices: 21249718--21249762 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
21249708 CTTTCATAAA
*
21249718 AGACTTATTCATATT
1 AGACTCATTCATATT
* * *
21249733 AGACTCCTTTATGTT
1 AGACTCATTCATATT
21249748 AGACTCATTCATATT
1 AGACTCATTCATATT
21249763 TTCTAAACAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (15 bp):
AGACTCATTCATATT
Found at i:21256341 original size:26 final size:26
Alignment explanation
Indices: 21256303--21256363 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
21256293 CTTCTTACCA
21256303 AAAATATATGGAAACCCTGAGAAAAAG
1 AAAATA-ATGGAAACCCTGAGAAAAAG
* *
21256330 AAAATAATGGAAACTCTGAGAAAGAG
1 AAAATAATGGAAACCCTGAGAAAAAG
21256356 AAAATAAT
1 AAAATAAT
21256364 CTTTCTTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.16
Consensus pattern (26 bp):
AAAATAATGGAAACCCTGAGAAAAAG
Found at i:21257299 original size:58 final size:57
Alignment explanation
Indices: 21257195--21257341 Score: 147
Period size: 58 Copynumber: 2.6 Consensus size: 57
21257185 ATTGACCTCA
* * * * *
21257195 TTACAGATAGGATTTAGCCTGGAC-AGGTAATCCTGTTATAATTCTTCTCGAGCATATG
1 TTACAGATAGGATTTAGCCTGGACTA-GTAATCCTATTAGAACTCTTCT-GAACACATG
* * *
21257253 TTATA-ATTAGGATTTAGCCTGGACTAGTAATCCTAATT-GAGCTCTTCTTAACACATG
1 TTACAGA-TAGGATTTAGCCTGGACTAGTAATCCT-ATTAGAACTCTTCTGAACACATG
* *
21257310 TTACAGAAAGGATTTAGCCTGGACTGGTAATC
1 TTACAGATAGGATTTAGCCTGGACTAGTAATC
21257342 GTTATATATG
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
57 34 0.46
58 37 0.50
59 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (57 bp):
TTACAGATAGGATTTAGCCTGGACTAGTAATCCTATTAGAACTCTTCTGAACACATG
Found at i:21261432 original size:12 final size:12
Alignment explanation
Indices: 21261415--21261440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21261405 CATTCCGAAG
21261415 TATATATATACA
1 TATATATATACA
21261427 TATATATATACA
1 TATATATATACA
21261439 TA
1 TA
21261441 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:21261931 original size:29 final size:28
Alignment explanation
Indices: 21261889--21261986 Score: 108
Period size: 27 Copynumber: 3.5 Consensus size: 28
21261879 CATGAGATTG
* * *
21261889 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTAT-AATTATACA
* *
21261918 GCACTAAGTGTGCGAGTATGATTATATA
1 GCACTAAGTGTGCGAGTATAATTATACA
* *
21261946 GCACTAAGTGTGCGAGT-TGATTATATA
1 GCACTAAGTGTGCGAGTATAATTATACA
*
21261973 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21261987 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 23 0.37
28 23 0.37
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTATAATTATACA
Found at i:21261974 original size:27 final size:27
Alignment explanation
Indices: 21261889--21261986 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
21261879 CATGAGATTG
* * * *
21261889 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAG-TT-GATTATATA
21261918 GCACTAAGTGTGCGAGTATGATTATATA
1 GCACTAAGTGTGCGAGT-TGATTATATA
21261946 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTATATA
*
21261973 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
21261987 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 23 0.37
28 24 0.38
29 16 0.25
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTATATA
Found at i:21261997 original size:27 final size:27
Alignment explanation
Indices: 21261917--21261999 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
21261907 TAAATTGTAC
* *
21261917 AGCACTAAGTGTGCGAGTATGATTATAT
1 AGCACTAAGTGTGCGACT-TGAATATAT
* *
21261945 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
21261972 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
21261999 A
1 A
21262000 CTTTTGAATC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 29 0.57
28 22 0.43
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:21269248 original size:25 final size:25
Alignment explanation
Indices: 21269213--21269374 Score: 218
Period size: 25 Copynumber: 6.5 Consensus size: 25
21269203 TAAGCTTGTT
*
21269213 AATTTGTTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
21269238 AATTTACTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
*
21269263 AATTTGCTCTTAATAATTTTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
21269288 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
21269313 AATTTTCTCTTAAT-ATTTTCGGTTA
1 AATTTGCTCTTAATAATTCT-GGTTA
*
21269338 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
*
21269363 AATTTGCCCTTA
1 AATTTGCTCTTA
21269375 TTATTTCCGA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.03
25 112 0.95
26 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCTGGTTA
Found at i:21269295 original size:75 final size:75
Alignment explanation
Indices: 21269213--21269368 Score: 260
Period size: 75 Copynumber: 2.1 Consensus size: 75
21269203 TAAGCTTGTT
*
21269213 AATTTGTTCTTAATAATTCTGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
1 AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAAT-
21269278 ATTT-TGGTTA
65 ATTTCTGGTTA
* * *
21269288 AATTTGTTCTTAATAATTCCGGTTAAATTTTCTCTTAATATTTTCGGTTAAATTTGCTCTTAATA
1 AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
21269353 TTTCTGGTTA
66 TTTCTGGTTA
21269363 AATTTG
1 AATTTG
21269369 CCCTTATTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
74 4 0.05
75 72 0.95
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (75 bp):
AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
TTTCTGGTTA
Found at i:21270269 original size:45 final size:45
Alignment explanation
Indices: 21270201--21270464 Score: 403
Period size: 45 Copynumber: 6.0 Consensus size: 45
21270191 TATCGTACAG
*
21270201 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
21270246 TACCATTCGGGCCTTTGAGCCTAG-AGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
21270290 TACGATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
21270335 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21270380 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
** *
21270425 TGA-TATT-GGG-CTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
21270465 ATGAATTCGG
Statistics
Matches: 207, Mismatches: 10, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
42 11 0.05
43 17 0.08
44 44 0.21
45 134 0.65
46 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:21270421 original size:90 final size:90
Alignment explanation
Indices: 21270201--21270464 Score: 403
Period size: 89 Copynumber: 3.0 Consensus size: 90
21270191 TATCGTACAG
* *
21270201 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATATACCATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
21270266 CTAG-AGGCTATAATGCCGGTGAGA
66 CTAGCAGGCTATAATGCCGGTGAGA
* *
21270290 TACGATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
21270355 CTAGCAGGCTATAATGCCGGTGAGA
66 CTAGCAGGCTATAATGCCGGTGAGA
* * **
21270380 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TATT-GGG-CTTCAAG
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCCTTTGAG
*
21270442 CCTAGCAGGCGA-AATGCCGGTGA
65 CCTAGCAGGCTATAATGCCGGTGA
21270465 ATGAATTCGG
Statistics
Matches: 163, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
87 11 0.07
88 16 0.10
89 69 0.42
90 66 0.40
91 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (90 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
CTAGCAGGCTATAATGCCGGTGAGA
Found at i:21270487 original size:41 final size:42
Alignment explanation
Indices: 21270399--21270501 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
21270389 GGCCTTCGAG
* * *
21270399 CCTAGCAGGCTATAATGCCGGTGAAATGATATTGGGCTTCAAG
1 CCTAGCAGGCGA-AATGCCGGTGAAATGATATTGGGCTTAAAA
*
21270442 CCTAGCAGGCGAAATGCCGGTG-AATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCGAAATGCCGGTGAAATGATATT-GGGCTTAAAA
21270483 CCTAGCAGGCTG-AATGCCG
1 CCTAGCAGGC-GAAATGCCG
21270502 ATGATTTGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
40 3 0.06
41 29 0.54
42 11 0.20
43 11 0.20
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (42 bp):
CCTAGCAGGCGAAATGCCGGTGAAATGATATTGGGCTTAAAA
Found at i:21273847 original size:39 final size:39
Alignment explanation
Indices: 21273804--21273879 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 39
21273794 ATAAAATCTT
21273804 ATTCAGTATAATCAATGGATAA-TGCTCGTTTGAGCAAGC
1 ATTCAGTATAATCAATGGA-AATTGCTCGTTTGAGCAAGC
*
21273843 ATTCAGTATAATCAATGGAAATTTCTCGTTTGAGCAA
1 ATTCAGTATAATCAATGGAAATTGCTCGTTTGAGCAA
21273880 CTATTGAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (39 bp):
ATTCAGTATAATCAATGGAAATTGCTCGTTTGAGCAAGC
Found at i:21273935 original size:36 final size:36
Alignment explanation
Indices: 21273821--21274111 Score: 255
Period size: 36 Copynumber: 7.9 Consensus size: 36
21273811 ATAATCAATG
* * * * *
21273821 GATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAATG
1 GATATTGCTCGTTTGAGC-A-C-TTTAGTAGAATCAGTA
* * *
21273860 GAAATTTCTCGTTTGAGCAACTATTGAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGC-ACT-TT-AGTAGAATCAGTA
* *
21273899 GATATTTCTCATTTGAGCACTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * *
21273935 GACATTGGTCATTTGAGCACGTTAAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
21273972 GATATTGCTCG-TTGAGCACTTTCAG-AGAATCAATA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
*
21274007 GATATTGCTCGTTTGAGCACTTTAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * * *
21274043 GACATTTCTCGTTTGAGCACATTCAATAGGATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
* * *
21274080 GATATTCCTCG-TTGAACACTTAAAGTAGAATC
1 GATATTGCTCGTTTGAGCACTT-TAGTAGAATC
21274112 GGTATTCCAT
Statistics
Matches: 210, Mismatches: 34, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
35 26 0.12
36 90 0.43
37 47 0.22
38 5 0.02
39 42 0.20
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (36 bp):
GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
Found at i:21274012 original size:108 final size:108
Alignment explanation
Indices: 21273897--21274100 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 108
21273887 GTAGAATTAG
* * *
21273897 TAGATATTTCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGGTCATTTGAGCACGTT-AAG
1 TAGATATTGCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAA-
* *
21273961 TAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGAGAATCAA
65 TAGAATCAGTAGATATTCCTCGTTGAACACTTTCAGAGAATCAA
* * * *
21274005 TAGATATTGCTCGTTTGAGCACTTTAGTAGAATTAGTAGACATTTCTCGTTTGAGCACATTCAAT
1 TAGATATTGCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAAT
*
21274070 AGGATCAGTAGATATTCCTCGTTGAACACTT
66 AGAATCAGTAGATATTCCTCGTTGAACACTT
21274101 AAAGTAGAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 83 0.98
109 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (108 bp):
TAGATATTGCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAAT
AGAATCAGTAGATATTCCTCGTTGAACACTTTCAGAGAATCAA
Found at i:21276091 original size:40 final size:40
Alignment explanation
Indices: 21276029--21276286 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
21276019 AAGCCAAGTA
* * * * *
21276029 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCTCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21276068 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21276108 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21276148 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
21276188 CCTTCGGGACTTAACCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21276228 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21276268 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21276287 TTATCATCCA
Statistics
Matches: 201, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.06
40 188 0.94
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21302468 original size:42 final size:43
Alignment explanation
Indices: 21302388--21302473 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
21302378 TCACTAGGAA
* *
21302388 TTATGTGATCTGAACTCTTTGAGTTGTGGTATGAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
* *
21302431 TTATGTGATTTGAACTCATT-AGTTGTGGTCTAAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
21302473 T
1 T
21302474 ATGAGACACA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 21 0.54
43 18 0.46
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (43 bp):
TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
Found at i:21303828 original size:47 final size:46
Alignment explanation
Indices: 21303718--21303841 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 46
21303708 GTTATTGTGG
* * *
21303718 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAGATTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAGATGACGAGA
* * *
21303764 GCCAGTGTAAGACCATGTCTAGTACATGGCATCGG-CATTGA-GACGAGT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA--GATGACGAGA
*
21303812 GCTAGTGTAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTAGGACATGCAT
21303842 TGGCTACGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
46 15 0.23
47 26 0.40
48 22 0.34
49 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAGATGACGAGA
Found at i:21305336 original size:49 final size:49
Alignment explanation
Indices: 21305264--21305455 Score: 197
Period size: 49 Copynumber: 3.9 Consensus size: 49
21305254 TAGCTAAAGC
*
21305264 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCAAT
* ** *
21305313 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACC-AAT
* ** * * * *
21305363 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACA--TGCAACCAA-T
* * * *
21305414 TATCGGGTACGCATAGTAGCCTGCAGTTAGTACTACACATGC
1 TATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGC
21305456 GACCTCACAA
Statistics
Matches: 116, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
49 44 0.38
50 38 0.33
51 33 0.28
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTACACTTAGTACTACACATGCAACCAAT
Found at i:21305395 original size:50 final size:49
Alignment explanation
Indices: 21305275--21305406 Score: 174
Period size: 50 Copynumber: 2.7 Consensus size: 49
21305265 ATCTGGTACG
* ** ** **
21305275 CATAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCAACCATCTAATACA
21305324 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACC-AACCATCTAATACA
* *
21305374 CGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CATAGTAGCCTACACTTAGTACTACACACGTGA
21305407 TCGAAGTTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 32 0.44
50 41 0.56
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACCAACCATCTAATACA
Found at i:21305460 original size:101 final size:99
Alignment explanation
Indices: 21305277--21305460 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 99
21305267 CTGGTACGCA
*
21305277 TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCTGGTACACATAGTAGCCTACACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCGGGTACACATAGTAGCCTACACTTA
*
21305342 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCTAATACACG
* * * * * *
21305376 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGCATAGTAGCCTGCAG
1 TAGTAGCCTACACTTAGTACTACACA--TGCAACCAA-TTATCGGGTACACATAGTAGCCTACAC
*
21305440 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
21305461 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 25 0.34
100 4 0.05
101 44 0.60
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTAATACACG
Found at i:21311617 original size:15 final size:15
Alignment explanation
Indices: 21311597--21311637 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
21311587 GTATCGTATT
21311597 TTGGATTTCTTTATC
1 TTGGATTTCTTTATC
*
21311612 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
21311627 TTGG-TTTCTTT
1 TTGGATTTCTTT
21311638 GTCATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:21314500 original size:140 final size:140
Alignment explanation
Indices: 21314248--21315060 Score: 858
Period size: 140 Copynumber: 6.0 Consensus size: 140
21314238 TACAACAAAA
* * * *
21314248 TAGTCCTAAGACGACACTTTTGTGGCAACACTTTCCTAAGTGTTGGGATAGACTGGCCAATATAC
1 TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * *
21314313 GCTTTAGCCAACTATTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAAAGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
21314378 TGGCTTTGTC
131 TGGCTTTGTC
* * *
21314388 TAGTCCTAAGGCGACACTTTTGGGGTGACACTTTCGTAAGTGTTGGGATAGACTTGCCAACATAC
1 TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* ** * * * *
21314453 ACTTTCGCCAACTCTTTAAATAAAGGTTGGGATATGTATGCCTAAGGCAACACTTGAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
21314518 TGGCTTTTGTG
131 TGGC-TTTGTC
** *
21314529 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * * * *
21314594 GCTTTGGCCAACTCTTTGCATAAGGGTTGCGATATGTATTCCTAAGACAACGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
21314659 TGGCTTTGTC
131 TGGCTTTGTC
* * * *
21314669 CAGTCCTAAGACGACA---------T-----TTTCCTAAGTGTTAGGATAGACTTGTCGACATAC
1 TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
** ** * *
21314720 TTTTTGGTGAACTTTTTGTATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
21314785 CGGCTTTGTC
131 TGGCTTTGTC
* * * * * *
21314795 GA-ACACTATGCCTACACATTT-GGGTCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACAT
1 TAGTC-CTAAGACGACACTTTTGGGGT-AACACTTTCCTAAGTGTTGGGATAGACTTGCCAACAT
**
21314858 ACACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGA
64 ACACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGA
*
21314923 GTCGG--TT-T-
129 GTTGGCTTTGTC
* ** * *
21314931 T-GTCC--A-A-G--AC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * * *
21314986 GCTTTGGCCAACTCTTTGTATAAGAGATGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
21315051 TAGCTTTGTC
131 TGGCTTTGTC
21315061 CAATAGTATG
Statistics
Matches: 567, Mismatches: 85, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
125 1 0.00
126 199 0.35
127 1 0.00
128 4 0.01
129 3 0.01
134 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
138 2 0.00
140 228 0.40
141 125 0.22
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (140 bp):
TAGTCCTAAGACGACACTTTTGGGGTAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
TGGCTTTGTC
Found at i:21314779 original size:126 final size:126
Alignment explanation
Indices: 21314556--21315062 Score: 559
Period size: 126 Copynumber: 3.9 Consensus size: 126
21314546 TTTTGGGGCG
*
21314556 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGGGT
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
* * * * * *
21314621 TGCGATATGTATTCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAAGACG
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACA
* * * * * ** *
21314682 ACATTTTCCTAAGTGTTAGGATAGACTTGTCGACATACT-TTTTGGTGAACTTTTTGTATAAGGG
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA-TGCTTTGGCCAACTCTTTGTATAAGGG
* *
21314746 TTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCGAACACTATGCCTACA
65 TTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTC---CA--GT-CCT--A
*
21314811 CATTTGGGTCA
122 -A-----GACA
**
21314822 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCTTTGTATAAGGGT
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
** * * * *
21314887 TGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGGTTTTGTCCAAG-ACTATGCCA
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC-AGTCCTAAGACA
* * *
21314948 ACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGAGA
1 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
* * **
21315013 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTTAGCTTTGTCCA
66 TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCA
21315063 ATAGTATGTC
Statistics
Matches: 318, Mismatches: 46, Indels: 35
0.80 0.12 0.09
Matches are distributed among these distances:
125 1 0.00
126 202 0.64
127 1 0.00
129 2 0.01
131 1 0.00
132 4 0.01
134 3 0.01
135 1 0.00
137 1 0.00
138 1 0.00
140 101 0.32
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (126 bp):
ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
TGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGACA
Found at i:21314919 original size:266 final size:267
Alignment explanation
Indices: 21314415--21315060 Score: 798
Period size: 266 Copynumber: 2.4 Consensus size: 267
21314405 TTTTGGGGTG
* * * ** * ** *
21314415 ACACTTTCGTAAGTGTTGGGATAGACTTGCCAACATACACTTTCGCCAACTCTTTAAATAAAGGT
1 ACACTTTCCTAAGTGTTAGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
* * *
21314480 TGGGATATGTATGCCTAAGGCAACACTTGAATAAGAGTTGGCTTTTGT-GTAGTCCTAAGACGAC
66 TGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGC-TTTGTCGTAGACCTAAGACGAC
* * **
21314544 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCT
130 ACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCT
* * *
21314609 TTGCATAAGGGTTGCGATATGTATTCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGTCC-AGT
195 TTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAAG-
* *
21314673 CCTAAGACG
259 ACTAAGACA
* * * ** *
21314682 ACATTTTCCTAAGTGTTAGGATAGACTTGTCGACATACT-TTTTGGTGAACTTTTTGTATAAGGG
1 ACACTTTCCTAAGTGTTAGGATAGACTTGTCAACATA-TGCTTTGGCCAACTCTTTGTATAAGGG
* * * * * *
21314746 TTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCG-A-ACACTATGCCTA
65 TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCGTAGAC-CTAAGACGA
*
21314809 CACATTTGGGTCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTC
129 CACATTTGGGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTC
* * * ** *
21314874 TTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGGTTTTGTCCAAG
194 TTTGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAAG
* *
21314939 ACTATGCCA
259 ACTAAGACA
* * *
21314948 ACACTTTCCTAAGTGTTGGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGAGA
1 ACACTTTCCTAAGTGTTAGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
* *
21315013 TGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTTAGCTTTGTC
66 TGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTC
21315061 CAATAGTATG
Statistics
Matches: 319, Mismatches: 55, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
265 2 0.01
266 227 0.71
267 90 0.28
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (267 bp):
ACACTTTCCTAAGTGTTAGGATAGACTTGTCAACATATGCTTTGGCCAACTCTTTGTATAAGGGT
TGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCGTAGACCTAAGACGACA
CATTTGGGGCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCTT
TGCATAAGGGTTGCGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAAGAC
TAAGACA
Found at i:21317389 original size:40 final size:40
Alignment explanation
Indices: 21317185--21317389 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
21317175 CGGAATTTAA
** *
21317185 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21317225 CCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21317265 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21317305 CCGGATTTAGTAACTCGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
21317345 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACATAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21317385 CCGGA
1 CCGGA
21317390 CATCATTCAA
Statistics
Matches: 142, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 128 0.90
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21325139 original size:40 final size:40
Alignment explanation
Indices: 21325102--21325287 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
21325092 GCTACTCGTT
* *
21325102 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21325142 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21325182 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
21325222 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
21325263 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21325288 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21327465 original size:35 final size:35
Alignment explanation
Indices: 21327416--21327498 Score: 139
Period size: 35 Copynumber: 2.4 Consensus size: 35
21327406 TCTGCCTTAT
* *
21327416 TCCAGCCACTGGTGCATCTGCTGTCGACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
*
21327451 TCTAGCCACTGGTGCATCTGCCGTCCACCACCTGC
1 TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
21327486 TCCAGCCACTGGT
1 TCCAGCCACTGGT
21327499 ATGTCACGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.14, C:0.41, G:0.22, T:0.23
Consensus pattern (35 bp):
TCCAGCCACTGGTGCATCTGCCGTCCACCACCTGC
Found at i:21339406 original size:27 final size:27
Alignment explanation
Indices: 21339375--21339552 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
21339365 TAAATTGTAC
21339375 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21339402 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
21339428 ATGCACTAAGTGTGCTAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
21339456 GGCACTAAGTTTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21339484 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21339511 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21339538 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21339553 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21339543 original size:82 final size:81
Alignment explanation
Indices: 21339372--21339552 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
21339362 GATTAAATTG
* *
21339372 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
21339437 GTGTGCTAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
21339453 TGCGGCACTAAGTTTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21339517 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21339535 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21339553 GACTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21342504 original size:36 final size:36
Alignment explanation
Indices: 21342395--21343095 Score: 341
Period size: 37 Copynumber: 19.2 Consensus size: 36
21342385 TATCCCGACC
* ** *
21342395 TTTTTAAGTTTGCCTTAGACGGGTTTATCCTAAC-T
1 TTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACTT
* * * *
21342430 TTTTTAAGGTTGCCTTAGACAGGTTTATCCCAATTT
1 TTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACTT
* *
21342466 TTTTTAA-GTTGCCTTGGAAAAGGTCTATCTTAAC-T
1 TTTTTAAGGTTGCCTTAG-AAAGGTCTATCCTAACTT
* *
21342501 TTTTTAAGGTTG--TT-GTAAATGGGTCTATCCCAAC-A
1 TTTTTAAGGTTGCCTTAG-AAA--GGTCTATCCTAACTT
* * * * *
21342536 TTTTTAACGTTGTCTTAGATAGGTCAATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAA-CTT
* * * * * *
21342573 TTCTAAAAGTTGCTTTAGACAAGATCTATTCC-AAC-C
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTA-TCCTAACTT
** * * *
21342609 TTTTGGAGGTTACCTTAGACGAA--TCTATCCCAAC-C
1 TTTTTAAGGTTGCCTTAGA--AAGGTCTATCCTAACTT
* *
21342644 TTTTTAAGGTTGCTTTAGACAA-GTCTATCGTAACCTT
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATCCTAA-CTT
* * *
21342681 TTTTTAAGGTTGCCTTA-AACAAGTCTATCCCAACCCT
1 TTTTTAAGGTTGCCTTAGAA-AGGTCTATCCTAA-CTT
* * *
21342718 TTTTTAAGGTTGCCTTAAACAAGATCTATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATCCTAA-CTT
* * *
21342756 TTTTAAATGTTGCCTTAGACAAGGTCTAT-CTCAACAT
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATCCT-AACTT
** *
21342793 TTTAAAAGGTTGCCTTAGATAAGGTCTATCCCAACCTT
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATCCTAA-CTT
* * * *
21342831 TTTTAAAGGTTGCCCTAGACAAGGTCTA-CACCAAC-C
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATC-CTAACTT
* * * * *
21342867 TATTTAAGGTTGCTTTAG-ACGATTCTATCCCAATCTT
1 TTTTTAAGGTTGCCTTAGAAAG-GTCTATCCTAA-CTT
* *
21342904 TTTTAAAGGTTGCCTTAGACAAGGTTTATCGC-AACTT
1 TTTTTAAGGTTGCCTTAGA-AAGGTCTATC-CTAACTT
* * *
21342941 TTTTTAAATGTTGCCTTAGATATGGTCTATCCCAACTT
1 TTTTT-AAGGTTGCCTTAGA-AAGGTCTATCCTAACTT
** ** * *
21342979 TTTTTAAAGGTTATCTTAGACTGGTCTATCCCAAC-C
1 TTTTT-AAGGTTGCCTTAGAAAGGTCTATCCTAACTT
*
21343015 TTTTTAAGGTTGCCTTAGACAGGTCTATCAC-AACCTT
1 TTTTTAAGGTTGCCTTAGAAAGGTCTATC-CTAA-CTT
** * *
21343052 TTTCAAAGGTTGGCCTT-GACTAGGTCTATCGC-AACCT
1 TTTTTAAGGTT-GCCTTAGA-AAGGTCTATC-CTAACTT
21343089 TTTTTAA
1 TTTTTAA
21343096 AGGTCGGCAT
Statistics
Matches: 529, Mismatches: 98, Indels: 76
0.75 0.14 0.11
Matches are distributed among these distances:
33 4 0.01
34 9 0.02
35 143 0.27
36 63 0.12
37 154 0.29
38 149 0.28
39 7 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (36 bp):
TTTTTAAGGTTGCCTTAGAAAGGTCTATCCTAACTT
Found at i:21342607 original size:73 final size:70
Alignment explanation
Indices: 21342523--21342757 Score: 159
Period size: 73 Copynumber: 3.2 Consensus size: 70
21342513 TTGTAAATGG
* ** *
21342523 GTCTATCCCAACATTTTTAACGTTGTCTTAGATAG-GTCAATCCCAACCTTTTCTAAAAGTTGCT
1 GTCTATCCCAACATTTTGAACGTTACCTTAGA-AGAATCAATCCCAACCTTTT-T-AAAGTTGCT
21342587 TTAGACAA
63 TTAGACAA
* * * * * * *
21342595 GATCTATTCCAACCTTTTGGAGGTTACCTTAGACGAATCTATCCCAACCTTTTTAAGGTTGCTTT
1 G-TCTATCCCAACATTTTGAACGTTACCTTAGAAGAATCAATCCCAACCTTTTTAAAGTTGCTTT
21342660 AGACAA
65 AGACAA
** * * * * * * *
21342666 GTCTATCGTAACCTTTTTTTAAGGTTGCCTTA-AACAAGTCTATCCCAACCCTTTTTTAAGGTTG
1 GTCTATCCCAA-C-ATTTTGAACGTTACCTTAGAAGAA-TCAATCCCAA-CC-TTTTTAAAGTTG
* *
21342730 CCTTAAACAA
61 CTTTAGACAA
*
21342740 GATCTATCCCAACCTTTT
1 G-TCTATCCCAACATTTT
21342758 TTAAATGTTG
Statistics
Matches: 130, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
70 7 0.05
71 21 0.16
72 27 0.21
73 45 0.35
74 22 0.17
75 8 0.06
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (70 bp):
GTCTATCCCAACATTTTGAACGTTACCTTAGAAGAATCAATCCCAACCTTTTTAAAGTTGCTTTA
GACAA
Found at i:21342917 original size:148 final size:148
Alignment explanation
Indices: 21342383--21343099 Score: 650
Period size: 148 Copynumber: 4.9 Consensus size: 148
21342373 GAGACAAATA
* * * * * *
21342383 TCTATCCCGACC-TTTTT-AAGTTTGCCTTAGAC-GGGTTTATCCTAACTTTTTTAAGGTTGCCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
* * * * * * ** *
21342445 TAGACAGGTTTATCCCAA-TTTTTTTTAA-GTTGCCTTGGAAAAGGTCTATCTTAA-CTTTTTTA
66 TAGACAGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCGCAACCTTTTTAA
* * *
21342507 AGGTTG-TTGTAAAT-GGG
131 AGGTTGCCT-TAGATAAGG
* * * * * *
21342524 TCTATCCCAA-CATTTTT-AACGTTGTCTTAGA-TAGGTCAATCCCAACCTTTTCTAAAAGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT-T-AAGGTTGC
* * ** * *
21342586 TTTAGACAAGATCTATTCCAACC--TTTTGGAGGTTACCTTAGACGAA--TCTATCCCAACCTTT
64 CTTAGAC-AGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGAC-AAGGTCTATCGCAACCTTT
* *
21342647 TT-AAGGTTGCTTTAGACAA-G
127 TTAAAGGTTGCCTTAGATAAGG
** * *
21342667 TCTATCGTAACCTTTTTTTAAGGTTGCCTTAAACAA-GTCTATCCCAACCCTTTTTTAAGGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAA-CC-TTTTTAAGGTTGC
* * * *
21342731 CTTAAACAAGATCTATCCCAACCTTTTTTAAATGTTGCCTTAGACAAGGTCTATCTCAACATTTT
64 CTTAGAC-AGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCGCAACCTTTT
*
21342796 AAAAGGTTGCCTTAGATAAGG
128 TAAAGGTTGCCTTAGATAAGG
* * *
21342817 TCTATCCCAACCTTTTTTAAAGGTTGCCCTAGACAAGGTCTA-CACCAACCTATTTAAGGTTGCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATC-CCAACCTTTTTAAGGTTGCC
* * *
21342881 TTAGAC-GATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAGGTTTATCGCAACTTTTTT
65 TTAGACAGA-TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCGCAAC-CTTTT
* *
21342945 TAAATGTTGCCTTAGATATGG
128 TAAAGGTTGCCTTAGATAAGG
* ** *
21342966 TCTATCCCAACTTTTTTTAAAGGTTATCTTAGAC-TGGTCTATCCCAACCTTTTTAAGGTTGCCT
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
* * * *
21343030 TAGACAGGTCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTCTATCGCAACCTTTTTT
66 TAGACAGATCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCGCAACC-TTTTT
21343094 AAAGGT
129 AAAGGT
21343100 CGGCATTGAC
Statistics
Matches: 469, Mismatches: 77, Indels: 53
0.78 0.13 0.09
Matches are distributed among these distances:
140 1 0.00
141 39 0.08
142 1 0.00
143 45 0.10
144 33 0.07
145 50 0.11
146 6 0.01
147 22 0.05
148 137 0.29
149 91 0.19
150 35 0.07
151 9 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (148 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCT
TAGACAGATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCGCAACCTTTTTAA
AGGTTGCCTTAGATAAGG
Done.