Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 5 of 29
Found at i:682184 original size:52 final size:50
Alignment explanation
Indices: 682105--682266 Score: 150
Period size: 51 Copynumber: 3.2 Consensus size: 50
682095 TAAAAAATTC
* * *
682105 ATTATTTTTCAAATTGAT-TTTGAGATTTAATATAATATTATTTTAAATTTTT
1 ATTATTTTT-AAAATAATATTTG-GATTTAATATAA-ATTATTTTAATTTTTT
*
682157 ATTATTTTTAAAAATAATATTTGGATTTAATATGAAATT-TTTTTATTTTTT
1 ATTATTTTT-AAAATAATATTTGGATTTAATAT-AAATTATTTTAATTTTTT
* * * * *
682208 ATAATTTTT-AAATAGTAATTTAGATTCAATATAAAATATTTTGAATTTTTT
1 ATTATTTTTAAAATAAT-ATTTGGATTTAATATAAATTATTTT-AATTTTTT
*
682259 AATATTTT
1 ATTATTTT
682267 AAATATATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
49 10 0.11
50 17 0.18
51 31 0.34
52 28 0.30
53 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (50 bp):
ATTATTTTTAAAATAATATTTGGATTTAATATAAATTATTTTAATTTTTT
Found at i:682267 original size:50 final size:51
Alignment explanation
Indices: 682127--682271 Score: 136
Period size: 50 Copynumber: 2.8 Consensus size: 51
682117 ATTGATTTTG
* * *
682127 AGATTTAATATAATATTATTTTAAATTTTTATTATTTTTAAA-AATAATATTT
1 AGATTTAATATAA-AATATTTTAATTTTTTAATA-TTTTAAATAATAATATTT
* * * * *
682179 GGATTTAATATGAAATTTTTTTATTTTTT-ATAATTTTTAAATAGT-A-ATTT
1 AGATTTAATATAAAATATTTTAATTTTTTAAT-A-TTTTAAATAATAATATTT
*
682229 AGATTCAATATAAAATATTTTGAATTTTTTAATATTTTAAATA
1 AGATTTAATATAAAATATTTT-AATTTTTTAATATTTTAAATA
682272 TATTTTTAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
50 31 0.41
51 30 0.39
52 15 0.20
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (51 bp):
AGATTTAATATAAAATATTTTAATTTTTTAATATTTTAAATAATAATATTT
Found at i:682289 original size:28 final size:27
Alignment explanation
Indices: 682237--682302 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
682227 TTAGATTCAA
* *
682237 TATAAA-ATATTTTGAATTTTTTAATAT
1 TATAAATATATTTTGAATTATCTAAT-T
* *
682264 TTTAAATATATTTTTAATTATCTAATT
1 TATAAATATATTTTGAATTATCTAATT
682291 TATATAATATAT
1 TATA-AATATAT
682303 ATATGGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
TATAAATATATTTTGAATTATCTAATT
Found at i:685859 original size:8 final size:8
Alignment explanation
Indices: 685846--685896 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
685836 AAAGTAGGGG
685846 AAAAAAGA
1 AAAAAAGA
685854 AAAAAAG-
1 AAAAAAGA
685861 AAAAAAG-
1 AAAAAAGA
685868 AAAAAAGCA
1 AAAAAAG-A
* *
685877 AGAAATGA
1 AAAAAAGA
*
685885 AAGAAAGA
1 AAAAAAGA
685893 AAAA
1 AAAA
685897 GAAAGGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 14 0.40
8 16 0.46
9 5 0.14
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:685897 original size:23 final size:22
Alignment explanation
Indices: 685846--685896 Score: 50
Period size: 22 Copynumber: 2.2 Consensus size: 22
685836 AAAGTAGGGG
685846 AAAAAAGAAAAAAAGAAAAAAG-
1 AAAAAAG-AAAAAAGAAAAAAGA
*
685868 AAAAAAGCAAGAAATGAAAGAAAGA
1 AAAAAAG-AA-AAAAGAAA-AAAGA
685893 AAAA
1 AAAA
685897 GAAAGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 7 0.29
24 4 0.17
25 4 0.17
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAAAGAAAAAAGAAAAAAGA
Found at i:685909 original size:16 final size:16
Alignment explanation
Indices: 685888--685932 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
685878 GAAATGAAAG
685888 AAAGAAAAAGAAAGGA
1 AAAGAAAAAGAAAGGA
685904 AAAGAAAATAG-AAGGA
1 AAAGAAAA-AGAAAGGA
*
685920 AGAGAAAAAGAAA
1 AAAGAAAAAGAAA
685933 AAGAGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAAAGGA
Found at i:685911 original size:40 final size:38
Alignment explanation
Indices: 685847--685936 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 38
685837 AAGTAGGGGA
*
685847 AAAAAG-AAAA-AAAGAAAAAAGAAAAAAGCAAGAAATGA-
1 AAAAAGAAAAAGAAAG-GAAAAGAAAAAAG-AAGAAA-GAG
* *
685885 AAGAAAGAAAAAGAAAGGAAAAGAAAATAGAAGGAAGAG
1 AA-AAAGAAAAAGAAAGGAAAAGAAAAAAGAAGAAAGAG
685924 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
685937 GATAAAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
38 15 0.33
39 11 0.24
40 15 0.33
41 4 0.09
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.02
Consensus pattern (38 bp):
AAAAAGAAAAAGAAAGGAAAAGAAAAAAGAAGAAAGAG
Found at i:685916 original size:23 final size:22
Alignment explanation
Indices: 685847--685943 Score: 81
Period size: 23 Copynumber: 4.2 Consensus size: 22
685837 AAGTAGGGGA
685847 AAAAAGAAA-AAAAGAAAAAAG
1 AAAAAGAAAGAAAAGAAAAAAG
* *
685868 AAAAAAGCAAGAAATGAAAGAAAG
1 -AAAAAGAAAGAAAAGAAA-AAAG
*
685892 AAAAAGAAAGGAAAAGAAAATAG
1 AAAAAGAAA-GAAAAGAAAAAAG
* *
685915 AAGGAAGAGA-AAAAGAAAAAGAG
1 AA-AAAGAAAGAAAAGAAAAA-AG
685938 ATAAAA
1 A-AAAA
685944 TTCAAGCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 17 0.28
23 25 0.42
24 18 0.30
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAGAAAAGAAAAAAG
Found at i:690373 original size:58 final size:57
Alignment explanation
Indices: 690254--690477 Score: 249
Period size: 58 Copynumber: 3.9 Consensus size: 57
690244 AGTACGAGTA
* *
690254 ACACCTAGTCACTTCAATCCTGTTCCT-A---CCACCATGGCGCTATCACTATCAATG
1 ACACCAAGTCACTTCAATCCTATTCCTAATTGCCACCATGGCGCTATCACTATC-ATG
** * * * *
690308 ATGCCAAGTCACTTCAATCTTGTTCCTAATTGCCACCATGGCGCTATCACTTTCAGCG
1 ACACCAAGTCACTTCAATCCTATTCCTAATTGCCACCATGGCGCTATCACTATCA-TG
* * * * *
690366 ACACCAAGTCACTTTAATCCTATTCCTAATCGTCACCATGGCACCATCACTATCATG
1 ACACCAAGTCACTTCAATCCTATTCCTAATTGCCACCATGGCGCTATCACTATCATG
* **
690423 ACGCCAAGTCACTTCAATCCTAATTCCTAATTGCCACCATGGCGCCCTCACTATC
1 ACACCAAGTCACTTCAATCCT-ATTCCTAATTGCCACCATGGCGCTATCACTATC
690478 CGTGATACCA
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
54 23 0.16
55 1 0.01
57 21 0.15
58 96 0.68
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (57 bp):
ACACCAAGTCACTTCAATCCTATTCCTAATTGCCACCATGGCGCTATCACTATCATG
Found at i:690454 original size:116 final size:112
Alignment explanation
Indices: 690254--690467 Score: 304
Period size: 116 Copynumber: 1.9 Consensus size: 112
690244 AGTACGAGTA
* * * * *
690254 ACACCTAGTCACTTCAATCCTGTTCCTACCACCATGGCGCTATCACTATCAATGATGCCAAGTCA
1 ACACCAAGTCACTTCAATCCTATTCCTACCACCATGGCACCATCACTATCAATGACGCCAAGTCA
**
690319 CTTCAATCTTGTTCCTAATTGCCACCATGGCGCTATCACTTTCAGCG
66 CTTCAATCTAATTCCTAATTGCCACCATGGCGCTATCACTTTCAGCG
*
690366 ACACCAAGTCACTTTAATCCTATTCCTAATCGTCACCATGGCACCATCACTATC-ATGACGCCAA
1 ACACCAAGTCACTTCAATCCTATTCCT-A-C--CACCATGGCACCATCACTATCAATGACGCCAA
690430 GTCACTTCAATCCTAATTCCTAATTGCCACCATGGCGC
62 GTCACTTCAAT-CTAATTCCTAATTGCCACCATGGCGC
690468 CCTCACTATC
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
112 24 0.27
113 1 0.01
114 1 0.01
115 20 0.22
116 43 0.48
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (112 bp):
ACACCAAGTCACTTCAATCCTATTCCTACCACCATGGCACCATCACTATCAATGACGCCAAGTCA
CTTCAATCTAATTCCTAATTGCCACCATGGCGCTATCACTTTCAGCG
Found at i:695113 original size:20 final size:20
Alignment explanation
Indices: 695088--695135 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
695078 GTTCTATCAA
*
695088 TTATTAATTTACTTTAATT-T
1 TTATTAATTTA-TATAATTAT
695108 TTATTAAATTTATATAATTAT
1 TTATT-AATTTATATAATTAT
695129 TTATTAA
1 TTATTAA
695136 GTGTTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTAATTTATATAATTAT
Found at i:695119 original size:21 final size:21
Alignment explanation
Indices: 695088--695135 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
695078 GTTCTATCAA
*
695088 TTATT-AATTTACTTTAATT-T
1 TTATTAAATTTA-TATAATTAT
695108 TTATTAAATTTATATAATTAT
1 TTATTAAATTTATATAATTAT
695129 TTATTAA
1 TTATTAA
695136 GTGTTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTAAATTTATATAATTAT
Found at i:698873 original size:15 final size:15
Alignment explanation
Indices: 698849--698899 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
698839 TTACTATTTA
698849 AAAATT-TATAAAAT
1 AAAATTATATAAAAT
*
698863 AAAATTATATAAGAT
1 AAAATTATATAAAAT
698878 ACCAAATTATAGT-AAAT
1 A--AAATTATA-TAAAAT
698895 AAAAT
1 AAAAT
698900 ACTAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
17 12 0.39
18 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (15 bp):
AAAATTATATAAAAT
Found at i:698968 original size:18 final size:19
Alignment explanation
Indices: 698936--698972 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
698926 TGGAACTATG
698936 TTTAAAATAATAAATATAT
1 TTTAAAATAATAAATATAT
*
698955 TTTAAATTAA-AAATATAT
1 TTTAAAATAATAAATATAT
698973 ATAATGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAAAATAATAAATATAT
Found at i:699164 original size:52 final size:48
Alignment explanation
Indices: 699082--699265 Score: 202
Period size: 42 Copynumber: 3.8 Consensus size: 48
699072 TATTAAAAAC
*
699082 TATTTAAAATAATAAAAGATTAAA-ATTTTATATTAAATCTCAAATTTT
1 TATTTAAAATAATAAAA-ATTAAATATTTTATATTAAATCTCAAATTAT
* *
699130 TATTTGAAAATAATAAAAATTAAAAGGTATTTTATATTAAATCTCCAATAAT
1 TATTT-AAAATAATAAAAATT-AAA--TATTTTATATTAAATCTCAAATTAT
* *
699182 AATTT-AAA-AAT---AA-TAAATATTTTATATTAAATCCCAAATTAT
1 TATTTAAAATAATAAAAATTAAATATTTTATATTAAATCTCAAATTAT
699224 TATTTAAAAATAATAAAAATTAAAAATATTTTATATTAAATC
1 TATTT-AAAATAATAAAAATT--AAATATTTTATATTAAATC
699266 CTAGAATTAC
Statistics
Matches: 114, Mismatches: 8, Indels: 25
0.78 0.05 0.17
Matches are distributed among these distances:
42 26 0.23
44 6 0.05
45 4 0.04
46 2 0.02
48 10 0.09
49 19 0.17
50 3 0.03
51 19 0.17
52 25 0.22
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (48 bp):
TATTTAAAATAATAAAAATTAAATATTTTATATTAAATCTCAAATTAT
Found at i:699208 original size:94 final size:94
Alignment explanation
Indices: 699102--699292 Score: 278
Period size: 94 Copynumber: 2.0 Consensus size: 94
699092 AATAAAAGAT
* * * *
699102 TAAAATTTTATATTAAATCTCAAATTTTTATTTGAAAATAATAAAAATTAAAAGGTATTTTATAT
1 TAAAATTTTATATTAAATCCCAAATTATTATTTAAAAATAATAAAAATTAAAA-ATATTTTATAT
* *
699167 TAAAT-CTCCAATAATAATTTAAAA-ATAA
65 TAAATCCTACAATAACAATTTAAAACATAA
699195 TAAATATTTTATATTAAATCCCAAATTATTATTTAAAAATAATAAAAATTAAAAATATTTTATAT
1 TAAA-ATTTTATATTAAATCCCAAATTATTATTTAAAAATAATAAAAATTAAAAATATTTTATAT
* *
699260 TAAATCCTAGAATTACAATTTAAAACATAA
65 TAAATCCTACAATAACAATTTAAAACATAA
699290 TAA
1 TAA
699293 TTTTTTTACT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 19 0.22
94 61 0.70
95 7 0.08
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (94 bp):
TAAAATTTTATATTAAATCCCAAATTATTATTTAAAAATAATAAAAATTAAAAATATTTTATATT
AAATCCTACAATAACAATTTAAAACATAA
Found at i:699251 original size:51 final size:53
Alignment explanation
Indices: 699186--699292 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 53
699176 AATAATAATT
**
699186 TAAAAATAATAAATATTTTATATTAAATCCCA-AATTATTATTTAAAA-ATAA
1 TAAAAATAATAAATATTTTATATTAAATCCCAGAATTACAATTTAAAACATAA
*
699237 TAAAAATTAA-AAATATTTTATATTAAATCCTAGAATTACAATTTAAAACATAA
1 TAAAAA-TAATAAATATTTTATATTAAATCCCAGAATTACAATTTAAAACATAA
699290 TAA
1 TAA
699293 TTTTTTTACT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
51 27 0.54
52 16 0.32
53 7 0.14
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (53 bp):
TAAAAATAATAAATATTTTATATTAAATCCCAGAATTACAATTTAAAACATAA
Found at i:699596 original size:22 final size:22
Alignment explanation
Indices: 699571--699628 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
699561 TATCATTTTT
699571 ATCATATGCACATTTAATCAAA
1 ATCATATGCACATTTAATCAAA
* * * *
699593 ATCATATGGACATATAATTATA
1 ATCATATGCACATTTAATCAAA
* *
699615 GTCATATGTACATT
1 ATCATATGCACATT
699629 CAGTTATAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
ATCATATGCACATTTAATCAAA
Found at i:699757 original size:26 final size:26
Alignment explanation
Indices: 699708--699757 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
699698 TAGGCCAAAA
* **
699708 ATATTATTTTTTCTATATGTATATGT
1 ATATCATTTTTTCTATATACATATGT
*
699734 ATATCATTTTTTTTATATACATAT
1 ATATCATTTTTTCTATATACATAT
699758 TGTCTTCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
ATATCATTTTTTCTATATACATATGT
Found at i:700397 original size:51 final size:50
Alignment explanation
Indices: 700225--700399 Score: 199
Period size: 51 Copynumber: 3.4 Consensus size: 50
700215 ATAGTAAAAA
* * *
700225 TTTATTATTTTTCAAATTGTAATTTTGAGATTTAATATAATATATTTTTTATTT
1 TTTAATATTTTT-AAATAGTAA-TTTGAGATTTAATATAA-ATA-TTTTAATTT
* * * *
700279 TTTAAT-TTTTTAAATAATAATTTGAGATTTAATATAATTTTTTTAAAATT
1 TTTAATATTTTTAAATAGTAATTTGAGATTTAATATAAATATTTT-AATTT
* * *
700329 TTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAGCATTTTAATTT
1 TTTAATATTTTTAAATAGTAATTTGAGATTTAATATAAA-TATTTTAATTT
700380 TTTAATATTTTTAAATAGTA
1 TTTAATATTTTTAAATAGTA
700400 TTTTTAATAT
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.04
50 9 0.09
51 69 0.67
52 11 0.11
53 5 0.05
54 5 0.05
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (50 bp):
TTTAATATTTTTAAATAGTAATTTGAGATTTAATATAAATATTTTAATTT
Found at i:700748 original size:32 final size:30
Alignment explanation
Indices: 700691--700752 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
700681 AATTTTTATT
700691 ATTTTTAAATTATAATTTAAGTTTAATATAA
1 ATTTTTAAATTATAATTTAAGTTTAA-ATAA
* *
700722 ATTTTTAAAATTTTTAA-TTAATTTTAAATAA
1 ATTTTT-AAA-TTATAATTTAAGTTTAAATAA
700753 TAATTCGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 10 0.37
32 12 0.44
33 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTTTAAATTATAATTTAAGTTTAAATAA
Found at i:709575 original size:20 final size:20
Alignment explanation
Indices: 709550--709623 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
709540 ACCCAAAATG
*
709550 TATCGATACAATGAATAATA
1 TATCGATACAATAAATAATA
* *
709570 TATCGATACAATTTAAACAATG
1 TATCGATACAA--TAAATAATA
* * * *
709592 TATCGATACATTTACTTATA
1 TATCGATACAATAAATAATA
709612 TATCGATACAAT
1 TATCGATACAAT
709624 TTCTTTTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 26 0.62
22 16 0.38
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (20 bp):
TATCGATACAATAAATAATA
Found at i:709598 original size:22 final size:22
Alignment explanation
Indices: 709546--709605 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
709536 AAAAACCCAA
* *
709546 AATGTATCGATACAA--TGAAT
1 AATGTATCGATACAATTTAAAC
*
709566 AATATATCGATACAATTTAAAC
1 AATGTATCGATACAATTTAAAC
709588 AATGTATCGATAC-ATTTA
1 AATGTATCGATACAATTTA
709606 CTTATATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.41
21 5 0.15
22 15 0.44
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (22 bp):
AATGTATCGATACAATTTAAAC
Found at i:709613 original size:42 final size:42
Alignment explanation
Indices: 709546--709625 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
709536 AAAAACCCAA
709546 AATGTATCGATACAATGAATAATATATCGATACAATTTAAAC
1 AATGTATCGATACAATGAATAATATATCGATACAATTTAAAC
* * * *
709588 AATGTATCGATACATTTACTTATATATCGATACAATTT
1 AATGTATCGATACAATGAATAATATATCGATACAATTT
709626 CTTTTCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (42 bp):
AATGTATCGATACAATGAATAATATATCGATACAATTTAAAC
Found at i:709694 original size:20 final size:20
Alignment explanation
Indices: 709649--709722 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
709639 AGGGTGGTTT
*
709649 TGTATCGATACATTT-CAGGCA
1 TGTATCGATACATTTACA--TA
709670 TGTATCGATACATTTACATA
1 TGTATCGATACATTTACATA
* *
709690 TGTATCGATATATTTACTATT
1 TGTATCGATACATTTAC-ATA
*
709711 TATATCGATACA
1 TGTATCGATACA
709723 AATTGTAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 17 0.37
21 27 0.59
22 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTACATA
Found at i:710499 original size:61 final size:61
Alignment explanation
Indices: 710408--710929 Score: 404
Period size: 61 Copynumber: 8.9 Consensus size: 61
710398 GGATAACGAC
* * * * * *
710408 ATTGGACTT-AAGGATGCGAAGAATGATAAAGGTGCTAATATGTTGATTCATGGCTAGTGAT
1 ATTGGACTTGAA-AATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * *
710469 ATGGGGCTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGACTAGCGAT
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * * * * *
710530 ATTGGGC-T-----T-AG-AG-ATAACAAAGGTACCAATGTGCTGATTCAAGGCTAGTGAT
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * * *
710582 ATTGGACTTGAAGATGAGAAGAATGATAAAGGTGTCGATATGCTGATTCAAGGATAGCGAT
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * * * * * * *
710643 ATTGGACTTAAAAATGAGAAAAATGATAAAGGTGTCGATATACTAATTCAAGGCCAGTGAT
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * ** * * * * * *
710704 ATTAGG-C-T-----T-A-AAG-ATAACAAAGGTATCAATGTGCTAATTCAAGGCCAACTAC
1 ATT-GGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * * *
710756 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGAT
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
* * * * * *
710817 GTCGGACTT-AAAGATGATAAGAATGATAAAGGTGCCAATGTGTTGATTCACA-GCTAGCGAC
1 ATTGGACTTGAAA-ATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCA-AGGCTAGCGAT
* * *
710878 ATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGATATGCTGATTCAAG
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAG
710930 ACCAACGATG
Statistics
Matches: 364, Mismatches: 72, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
51 2 0.01
52 72 0.20
53 6 0.02
54 3 0.01
55 2 0.01
58 2 0.01
59 3 0.01
60 11 0.03
61 256 0.70
62 7 0.02
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (61 bp):
ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCTAGCGAT
Found at i:710671 original size:174 final size:172
Alignment explanation
Indices: 710406--710892 Score: 573
Period size: 174 Copynumber: 2.8 Consensus size: 172
710396 AAGGATAACG
* * * *
710406 ACATTGGACTT-AAGGATGCGAAGAATGATAAAGGTGCTAATATGTTGATTCATGGCTAGTGATA
1 ACATTGGACTTGAA-GATGAGAAGAATGATAAAGGTGC-GATATGCTGATTCAAGGCTAGTGATA
* * *
710470 TGGGGCTTGAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGACTAGCGATATTGG
64 TCGGACTTAAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAG-CTAGCGATATTGG
* * * *
710535 GCTTAGAGATAACAAAGGTACCAATGTGCTGATTCAAGG-CTAGT
128 GCTTAAAGATAACAAAGGTACCAATGTGCTAATTCAAGGCCAACT
* * *
710579 GATATTGGACTTGAAGATGAGAAGAATGATAAAGGTGTCGATATGCTGATTCAAGGATAGCGATA
1 -ACATTGGACTTGAAGATGAGAAGAATGATAAAGGTG-CGATATGCTGATTCAAGGCTAGTGATA
* * * * * * * * *
710644 TTGGACTTAAAAATGAGAAAAATGATAAAGGTGTCGATATACTAATTCAAGGCCAGTGATATTAG
64 TCGGACTTAAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAA-GCTAGCGATATTGG
*
710709 GCTTAAAGATAACAAAGGTATCAATGTGCTAATTCAAGGCCAACT
128 GCTTAAAGATAACAAAGGTACCAATGTGCTAATTCAAGGCCAACT
* * * *
710754 ACATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGT
1 ACATTGGACTTGAAGATGAGAAGAATGATAAAGGTG-CGATATGCTGATTCAAGGCTAGTGATAT
* * * * * *
710819 CGGACTTAAAGATGATAAGAATGATAAAGGTGCCAATGTGTTGATTCACAGCTAGCGACATTGGA
65 CGGACTTAAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCA-AGCTAGCGATATTGGG
*
710884 CTTGAAGAT
129 CTTAAAGAT
710893 GAGAAGAATG
Statistics
Matches: 261, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
174 253 0.97
175 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (172 bp):
ACATTGGACTTGAAGATGAGAAGAATGATAAAGGTGCGATATGCTGATTCAAGGCTAGTGATATC
GGACTTAAAAATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGCTAGCGATATTGGGCT
TAAAGATAACAAAGGTACCAATGTGCTAATTCAAGGCCAACT
Found at i:710726 original size:113 final size:113
Alignment explanation
Indices: 710609--710816 Score: 299
Period size: 113 Copynumber: 1.8 Consensus size: 113
710599 GAAGAATGAT
* * * * * *
710609 AAAGGTGTCGATATGCTGATTCAAGGATAGCGATATTGGACTTAAAAATGAGAAAAATGATAAAG
1 AAAGGTATCAATATGCTAATTCAAGGACAACGACATTGGACTTAAAAATGAGAAAAATGATAAAG
*
710674 GTGTCGATATACTAATTCAAGGCCAGTGATATTAGGCTTAAAGATAAC
66 GTGCCGATATACTAATTCAAGGCCAGTGATATTAGGCTTAAAGATAAC
* * * * *
710722 AAAGGTATCAATGTGCTAATTCAAGGCCAACTACATTGGACTTGAAAATGAGAAGAATGATAAAG
1 AAAGGTATCAATATGCTAATTCAAGGACAACGACATTGGACTTAAAAATGAGAAAAATGATAAAG
*
710787 GTGCCGATATGCTAATTCAAGGCCAGTGAT
66 GTGCCGATATACTAATTCAAGGCCAGTGAT
710817 GTCGGACTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 82 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (113 bp):
AAAGGTATCAATATGCTAATTCAAGGACAACGACATTGGACTTAAAAATGAGAAAAATGATAAAG
GTGCCGATATACTAATTCAAGGCCAGTGATATTAGGCTTAAAGATAAC
Found at i:710827 original size:113 final size:119
Alignment explanation
Indices: 710643--711025 Score: 381
Period size: 122 Copynumber: 3.2 Consensus size: 119
710633 GGATAGCGAT
* * * * * *
710643 ATTGGACTTAAAAATGAGAAAAATGATAAAGGTGTCGATATACTAATTCAAGGCCAGTGATATTA
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGAT-GTC
* *
710708 GG-CTTAAAGAT-A-ACA-AA-GGT-A-T-CAATGTGCTAATTCA-AGGCCAACTAC
65 GGACTTAAAGATGATA-AGAATGATAAGTCCAATGTGCTAATTCACA-GCCAACGAC
710756 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGTCG
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGTCG
* * * *
710821 GACTTAAAGATGATAAGAATGATAAAGGTGCCAATGTGTTGATTCACAGCTAGCGAC
66 GACTTAAAGATGATAAGAATGAT-AA-GT-CCAATGTGCTAATTCACAGCCAACGAC
* * * * ** *
710878 ATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGATATGCTGATTCAAGACCAACGATGTCA
1 ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGTCG
* *
710943 GACTTAAAGATGATAAGAATGATAGCAGTGCCAATGTGCTGAATTCACGGCC-ACTAAC
66 GACTTAAAGATGATAAGAATGATA--AGT-CCAATGTGCT-AATTCACAGCCAAC-GAC
* * *
711001 ATTAGACTTGAAGATGGGAAGAATG
1 ATTGGACTTGAAAATGAGAAGAATG
711026 CCAATGTACC
Statistics
Matches: 227, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
112 3 0.01
113 66 0.29
114 2 0.01
115 3 0.01
116 2 0.01
118 1 0.00
120 1 0.00
121 1 0.00
122 113 0.50
123 35 0.15
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (119 bp):
ATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGTCG
GACTTAAAGATGATAAGAATGATAAGTCCAATGTGCTAATTCACAGCCAACGAC
Found at i:710947 original size:61 final size:60
Alignment explanation
Indices: 710759--710966 Score: 238
Period size: 61 Copynumber: 3.4 Consensus size: 60
710749 CAACTACATT
* *
710759 GGACTTGAAA-ATGAGAAGAATGATAAAGGTGCCGATATGCTAATTCAAGGCCAGTGATGTC
1 GGACTT-AAAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAA-GCCAGCGATGTC
* * * * * ** *
710820 GGACTTAAAGATGATAAGAATGATAAAGGTGCCAATGTGTTGATTCACAGCTAGCGACATT
1 GGACTTAAAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCA-AGCCAGCGATGTC
* * *
710881 GGACTTGAAGATGAGAAGAATGATAAAGGTACCGATATGCTGATTCAAGACCAACGATGTC
1 GGACTTAAAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAG-CCAGCGATGTC
* *
710942 AGACTTAAAGATGATAAGAATGATA
1 GGACTTAAAGATGAGAAGAATGATA
710967 GCAGTGCCAA
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
60 5 0.04
61 114 0.95
62 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.24
Consensus pattern (60 bp):
GGACTTAAAGATGAGAAGAATGATAAAGGTGCCGATATGCTGATTCAAGCCAGCGATGTC
Found at i:711035 original size:122 final size:122
Alignment explanation
Indices: 710730--711025 Score: 400
Period size: 122 Copynumber: 2.4 Consensus size: 122
710720 ACAAAGGTAT
* * *
710730 CAATGTGCT-AATTCAAGGCCAACTACATTGGACTTGAAAATGAGAAGAATGATAAAGGTGCCGA
1 CAATGTGCTGAATTCACGGCC-ACTACATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGA
* ** *
710794 TATGCTAATTCAAGGCCAGTGATGTCGGACTTAAAGATGATAAGAATGATAAAGGTGC
65 TATGCTAATTCAAGACCAACGATGTCAGACTTAAAGATGATAAGAATGATAAAGGTGC
* * * *
710852 CAATGTGTTG-ATTCACAGCTAGCGACATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGA
1 CAATGTGCTGAATTCACGGCCA-CTACATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGA
* *
710916 TATGCTGATTCAAGACCAACGATGTCAGACTTAAAGATGATAAGAATGATAGCA-GTGC
65 TATGCTAATTCAAGACCAACGATGTCAGACTTAAAGATGATAAGAATGATA-AAGGTGC
* *
710974 CAATGTGCTGAATTCACGGCCACTAACATTAGACTTGAAGATGGGAAGAATG
1 CAATGTGCTGAATTCACGGCCACT-ACATTGGACTTGAAGATGAGAAGAATG
711026 CCAATGTACC
Statistics
Matches: 150, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
121 1 0.01
122 114 0.76
123 35 0.23
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (122 bp):
CAATGTGCTGAATTCACGGCCACTACATTGGACTTGAAGATGAGAAGAATGATAAAGGTACCGAT
ATGCTAATTCAAGACCAACGATGTCAGACTTAAAGATGATAAGAATGATAAAGGTGC
Found at i:711097 original size:52 final size:52
Alignment explanation
Indices: 711066--711166 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
711056 GGGCTTAGGA
* * * *
711066 ATGATAAAGATGCCAATATGTTGATTTAAGGCCAGCGATATCAGACTTAAAG
1 ATGAGAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTTAAAG
* *
711118 ATGAGAAAGATGCCAATATGCTGATTCAAGGCCAGCGGCATTAGACTTA
1 ATGAGAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTTA
711167 GAAAGAGATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
ATGAGAAAGATGCCAATATGCTGATTCAAGGCCAGCGACATCAGACTTAAAG
Found at i:711617 original size:32 final size:32
Alignment explanation
Indices: 711234--711645 Score: 406
Period size: 31 Copynumber: 12.9 Consensus size: 32
711224 TAAAAGGAGA
* *
711234 TGCCACTGACTTATGTGGGCTTTTGAGAA--GGT
1 TGCCACCGACTTGTGTGGGC-TTT-AGAAGGGGT
* * ** * *
711266 TACCACTGACTTGTGTAAGCTTTTGAAGGGGA
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
** * *
711298 TGCCACTAACTTCTGTGGGCTTTAGAA-GAGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* *
711329 TGACACCAACTTGTGTGGGCTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
711360 TGCCACCGACTTGTGTGGGCTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* *
711391 TGCCACTGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGA-AGGGGT
* * * *
711424 TGCCATCGACTTATGTGGGCTTTCAAAAGAGGT
1 TGCCACCGACTTGTGTGGGCTTT-AGAAGGGGT
* *
711457 TGCCACCGACTTATGTGGGCTTTCGAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAG-AAGGGGT
* * * *
711490 TGCCACCGATTTATGTGAGCTTTAGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* ** *
711522 TGTCACTAACTTGTTTGGGCTTTAGAA-GGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
** * *
711553 TGCCACTAACTTATATGGGCTTT-GAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
711584 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
* *
711616 TGCCACCGACTTGTGTAGGCTTTACAAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAAGGG
711646 AAAGGTGCCA
Statistics
Matches: 321, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
30 6 0.02
31 133 0.41
32 102 0.32
33 78 0.24
34 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTAGAAGGGGT
Found at i:711686 original size:27 final size:27
Alignment explanation
Indices: 711646--711700 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
711636 TTTACAAGGG
*
711646 AAAGGTGCCACAGAGTTATGGACTTAA
1 AAAGGTGCCACAGAATTATGGACTTAA
*
711673 AAAGGTGCCTCAGAATTATGGACTTAA
1 AAAGGTGCCACAGAATTATGGACTTAA
711700 A
1 A
711701 CAGAAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (27 bp):
AAAGGTGCCACAGAATTATGGACTTAA
Found at i:711766 original size:32 final size:34
Alignment explanation
Indices: 711694--711769 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 34
711684 AGAATTATGG
* *
711694 ACTTAAACAGAAAAAGGATACTACGGAGTTGTGGA
1 ACTTAAA-AGAAAAAGGATACCACGGAGTTGTGAA
*
711729 A-TTAAAA-AAAAAGGATGCCACGGAGTTGT-AA
1 ACTTAAAAGAAAAAGGATACCACGGAGTTGTGAA
711760 ACTTAAAAGA
1 ACTTAAAAGA
711770 TTGTGTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 2 0.06
32 26 0.72
33 2 0.06
34 5 0.14
35 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (34 bp):
ACTTAAAAGAAAAAGGATACCACGGAGTTGTGAA
Found at i:712857 original size:11 final size:11
Alignment explanation
Indices: 712826--712857 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
712816 CCTTTGCACA
*
712826 TTTTTTTCTCT
1 TTTTTTTCTTT
712837 TTTTTTTCTTT
1 TTTTTTTCTTT
712848 TTTTTTTCTT
1 TTTTTTTCTT
712858 ATCTCCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:715251 original size:193 final size:193
Alignment explanation
Indices: 714922--715311 Score: 771
Period size: 193 Copynumber: 2.0 Consensus size: 193
714912 GTCAGGGAAC
714922 ACAAACCTCCGTTCTACTTCTTATTGACATCAATTGAATATAACTGAGTTATTATACGAAAAGAG
1 ACAAACCTCCGTTCTACTTCTTATTGACATCAATTGAATATAACTGAGTTATTATACGAAAAGAG
*
714987 ACCCTGTCAACCACTAAAGGAAACAATATAAACATAAAAACAAAGGTTAGTTCTAAGCAAAAAGA
66 ACCCTGTCAACCACTAAAGGAAACAAAATAAACATAAAAACAAAGGTTAGTTCTAAGCAAAAAGA
715052 TGGAAGGGATCATATTCAAATAATTACTGAAAACTAAAGATAATCAAAATCGGATAGAAATGG
131 TGGAAGGGATCATATTCAAATAATTACTGAAAACTAAAGATAATCAAAATCGGATAGAAATGG
715115 ACAAACCTCCGTTCTACTTCTTATTGACATCAATTGAATATAACTGAGTTATTATACGAAAAGAG
1 ACAAACCTCCGTTCTACTTCTTATTGACATCAATTGAATATAACTGAGTTATTATACGAAAAGAG
715180 ACCCTGTCAACCACTAAAGGAAACAAAATAAACATAAAAACAAAGGTTAGTTCTAAGCAAAAAGA
66 ACCCTGTCAACCACTAAAGGAAACAAAATAAACATAAAAACAAAGGTTAGTTCTAAGCAAAAAGA
715245 TGGAAGGGATCATATTCAAATAATTACTGAAAACTAAAGATAATCAAAATCGGATAGAAATGG
131 TGGAAGGGATCATATTCAAATAATTACTGAAAACTAAAGATAATCAAAATCGGATAGAAATGG
715308 ACAA
1 ACAA
715312 GTCCTAGGCC
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 196 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (193 bp):
ACAAACCTCCGTTCTACTTCTTATTGACATCAATTGAATATAACTGAGTTATTATACGAAAAGAG
ACCCTGTCAACCACTAAAGGAAACAAAATAAACATAAAAACAAAGGTTAGTTCTAAGCAAAAAGA
TGGAAGGGATCATATTCAAATAATTACTGAAAACTAAAGATAATCAAAATCGGATAGAAATGG
Found at i:717517 original size:21 final size:20
Alignment explanation
Indices: 717488--717539 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
717478 TTTATAATTC
717488 GTATCGATACAAACAGTAAAT
1 GTATCGATACAAA-AGTAAAT
* * *
717509 GTATTGATACATAAGTGAAT
1 GTATCGATACAAAAGTAAAT
717529 GTATCGATACA
1 GTATCGATACA
717540 TGCCTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (20 bp):
GTATCGATACAAAAGTAAAT
Found at i:717610 original size:20 final size:20
Alignment explanation
Indices: 717585--717662 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
717575 ACTGCCAAGG
*
717585 AAATGTATCAATACATTAGT
1 AAATGTATCAATACATTACT
*
717605 AAATGTATCGATACATGCTTAC-
1 AAATGTATCAATACA---TTACT
* *
717627 AATTGTATCAATACATTTCT
1 AAATGTATCAATACATTACT
* *
717647 CATTGTATCAATACAT
1 AAATGTATCAATACAT
717663 CCTTTGCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.06
20 29 0.60
22 13 0.27
23 3 0.06
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
AAATGTATCAATACATTACT
Found at i:722299 original size:20 final size:21
Alignment explanation
Indices: 722255--722305 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
722245 TTCTATAATT
722255 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* * *
722276 TGTATTGATACATA-AGTGAA
1 TGTATCGATACAAACAGTAAA
722296 TGTATCGATA
1 TGTATCGATA
722306 TATGCCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:727204 original size:22 final size:21
Alignment explanation
Indices: 727156--727235 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
727146 AAAAACCCAG
* *
727156 AATGTATCGATACAA-TGAAT
1 AATGTATCGATACAATTTAAC
727176 AATGTATCGATACAATTTAAGC
1 AATGTATCGATACAATTTAA-C
727198 AATGTATCGATAC-ATTT-AC
1 AATGTATCGATACAATTTAAC
* *
727217 TTATGTATTGATACAATTT
1 -AATGTATCGATACAATTT
727236 TTTTCCAGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
20 27 0.52
21 11 0.21
22 13 0.25
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACAATTTAAC
Found at i:727223 original size:42 final size:42
Alignment explanation
Indices: 727156--727235 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
727146 AAAAACCCAG
727156 AATGTATCGATACAATGAATAATGTATCGATACAATTTAAGC
1 AATGTATCGATACAATGAATAATGTATCGATACAATTTAAGC
* * * * *
727198 AATGTATCGATACATTTACTTATGTATTGATACAATTT
1 AATGTATCGATACAATGAATAATGTATCGATACAATTT
727236 TTTTCCAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (42 bp):
AATGTATCGATACAATGAATAATGTATCGATACAATTTAAGC
Found at i:731082 original size:21 final size:21
Alignment explanation
Indices: 731038--731103 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
731028 AATTGTACAC
* * * *
731038 ATATAATCTTGTCATGTGTTA
1 ATATAATCCTGACATGTATCA
731059 ATATAATCCTGACATGTATCA
1 ATATAATCCTGACATGTATCA
** *
731080 ATACGATCCTAACATGTATCA
1 ATATAATCCTGACATGTATCA
731101 ATA
1 ATA
731104 CAATGGGCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATAATCCTGACATGTATCA
Found at i:731104 original size:21 final size:21
Alignment explanation
Indices: 731064--731104 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
731054 TGTTAATATA
*
731064 ATCCTGACATGTATCAATACG
1 ATCCTAACATGTATCAATACG
731085 ATCCTAACATGTATCAATAC
1 ATCCTAACATGTATCAATAC
731105 AATGGGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (21 bp):
ATCCTAACATGTATCAATACG
Found at i:732329 original size:20 final size:20
Alignment explanation
Indices: 732304--732351 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
732294 ATCTTTTCTT
* *
732304 TTTCTTTTGCTTACTTTTTC
1 TTTCTTTTGCTTACCTTTAC
* *
732324 TTTCTTTTGGTTTCCTTTAC
1 TTTCTTTTGCTTACCTTTAC
732344 TTTCTTTT
1 TTTCTTTT
732352 TCTTCTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.71
Consensus pattern (20 bp):
TTTCTTTTGCTTACCTTTAC
Found at i:732337 original size:10 final size:10
Alignment explanation
Indices: 732304--732361 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
732294 ATCTTTTCTT
732304 TTTCTTTTGC
1 TTTCTTTTGC
* *
732314 TTACTTTTTC
1 TTTCTTTTGC
*
732324 TTTCTTTTGG
1 TTTCTTTTGC
* *
732334 TTTCCTTTAC
1 TTTCTTTTGC
*
732344 TTTCTTTTTC
1 TTTCTTTTGC
732354 TTCTCTTT
1 TT-TCTTT
732362 CCTCCATCAC
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
10 32 0.86
11 5 0.14
ACGTcount: A:0.03, C:0.21, G:0.05, T:0.71
Consensus pattern (10 bp):
TTTCTTTTGC
Found at i:733260 original size:20 final size:20
Alignment explanation
Indices: 733223--733275 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
733213 TTCTCCTTCC
*
733223 TTCTTTCCTTTCATTTTCTTT
1 TTCTTT-CTTTCACTTTCTTT
*
733244 TTCTTTCTTTTACTTTCTTT
1 TTCTTTCTTTCACTTTCTTT
*
733264 CTCTTCTCTTTC
1 TTCTT-TCTTTC
733276 CCATTTTATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTTTCTTTCACTTTCTTT
Found at i:736972 original size:33 final size:33
Alignment explanation
Indices: 736948--737028 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
736938 ACATAAAATG
*
736948 TTGTATCGATACAATGTATTGATACATATTTTT
1 TTGTATCGATACAATGTATCGATACATATTTTT
736981 TTGTATCGATACAATGTATCGATACATATTTTT
1 TTGTATCGATACAATGTATCGATACATATTTTT
737014 TTGTATCGATACAAT
1 TTGTATCGATACAAT
737029 TTAAGCTACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (33 bp):
TTGTATCGATACAATGTATCGATACATATTTTT
Found at i:736991 original size:20 final size:19
Alignment explanation
Indices: 736962--737030 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
736952 ATCGATACAA
*
736962 TGTATTGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
736982 TGTATCGATACAA------
1 TGTATCGATACAATTTTTT
736995 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
737015 TGTATCGATACAATTT
1 TGTATCGATACAATTT
737031 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 5 0.12
20 23 0.56
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (19 bp):
TGTATCGATACAATTTTTT
Found at i:737000 original size:13 final size:13
Alignment explanation
Indices: 736982--737006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
736972 CATATTTTTT
736982 TGTATCGATACAA
1 TGTATCGATACAA
736995 TGTATCGATACA
1 TGTATCGATACA
737007 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:737089 original size:13 final size:13
Alignment explanation
Indices: 737071--737095 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
737061 ATTACTCACA
737071 TGTATCGATACAT
1 TGTATCGATACAT
737084 TGTATCGATACA
1 TGTATCGATACA
737096 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:737160 original size:52 final size:52
Alignment explanation
Indices: 737104--737228 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
737094 CACTGATCTT
*
737104 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
737156 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
737208 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
737229 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:744106 original size:1 final size:1
Alignment explanation
Indices: 744102--744171 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
744092 AAAGGTGATG
* * * * * * * * * *
744102 AAAAAAAAAACAAACAAACAAAAAAAACACACAAAAAAAACAAAAAACAAAAAAAAAACACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
744167 AAAAA
1 AAAAA
744172 TGCAAAGGCA
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:744124 original size:13 final size:12
Alignment explanation
Indices: 744105--744171 Score: 61
Period size: 13 Copynumber: 5.6 Consensus size: 12
744095 GGTGATGAAA
744105 AAAAAAACAAAC
1 AAAAAAACAAAC
*
744117 AAACAAAAAAAAC
1 AAA-AAAACAAAC
744130 ACACAAAAA-AAAC
1 A-A-AAAAACAAAC
744143 -AAAAAACAAA-
1 AAAAAAACAAAC
744153 AAAAAAACACAA-
1 AAAAAAACA-AAC
744165 AAAAAAA
1 AAAAAAA
744172 TGCAAAGGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
10 5 0.10
11 12 0.25
12 12 0.25
13 13 0.27
14 5 0.10
15 1 0.02
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAC
Found at i:744124 original size:18 final size:17
Alignment explanation
Indices: 744102--744171 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
744092 AAAGGTGATG
744102 AAAAAAAAAACAAACAA
1 AAAAAAAAAACAAACAA
* *
744119 ACAAAAAAAACACACAA
1 AAAAAAAAAACAAACAA
*
744136 AAAAAACAAA-AAACAA
1 AAAAAAAAAACAAACAA
*
744152 AAAAAAAACACAAA-AA
1 AAAAAAAAAACAAACAA
744168 AAAA
1 AAAA
744172 TGCAAAGGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
16 19 0.42
17 26 0.58
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAACAA
Found at i:744138 original size:31 final size:30
Alignment explanation
Indices: 744103--744171 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
744093 AAGGTGATGA
*
744103 AAAAAAAAACAAACAAACAAAAAAAACACAC
1 AAAAAAAAACAAA-AAACAAAAAAAAAACAC
744134 -AAAAAAAACAAAAAACAAAAAAAAAACAC
1 AAAAAAAAACAAAAAACAAAAAAAAAACAC
744163 AAAAAAAAA
1 AAAAAAAAA
744172 TGCAAAGGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (30 bp):
AAAAAAAAACAAAAAACAAAAAAAAAACAC
Found at i:744139 original size:11 final size:10
Alignment explanation
Indices: 744103--744167 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 10
744093 AAGGTGATGA
*
744103 AAAAAAAAAC
1 AAAAAACAAC
744113 AAACAAACAA-
1 AAA-AAACAAC
744123 AAAAAACACAC
1 AAAAAACA-AC
744134 AAAAAA-AAC
1 AAAAAACAAC
744143 AAAAAACAA-
1 AAAAAACAAC
744152 AAAAAA-AAC
1 AAAAAACAAC
744161 ACAAAAA
1 A-AAAAA
744168 AAAATGCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
8 2 0.04
9 20 0.42
10 15 0.31
11 11 0.23
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAC
Found at i:744149 original size:29 final size:30
Alignment explanation
Indices: 744104--744170 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 30
744094 AGGTGATGAA
*
744104 AAAAAAAACAAACAAACAAAAAAAACACAC
1 AAAAAAAACAAACAAACAAAAAAAAAACAC
744134 AAAAAAAACAAA-AAACAAAAAAAAAACAC
1 AAAAAAAACAAACAAACAAAAAAAAAACAC
744163 AAAAAAAA
1 AAAAAAAA
744171 ATGCAAAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (30 bp):
AAAAAAAACAAACAAACAAAAAAAAAACAC
Found at i:744168 original size:11 final size:11
Alignment explanation
Indices: 744119--744170 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
744109 AAACAAACAA
744119 ACAAAAAAAAC
1 ACAAAAAAAAC
744130 ACACAAAAAAA-
1 ACA-AAAAAAAC
744141 AC--AAAAAAC
1 ACAAAAAAAAC
*
744150 AAAAAAAAAAC
1 ACAAAAAAAAC
744161 ACAAAAAAAA
1 ACAAAAAAAA
744171 ATGCAAAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.17
9 1 0.03
11 21 0.60
12 7 0.20
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAC
Found at i:744177 original size:12 final size:12
Alignment explanation
Indices: 744106--744171 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
744096 GTGATGAAAA
*
744106 AAAAAACAAACAA
1 AAAAAA-AAACAC
744119 ACAAAAAAAACAC
1 A-AAAAAAAACAC
*
744132 ACAAAAAAA-AC
1 AAAAAAAAACAC
744143 ---AAAAAACA-
1 AAAAAAAAACAC
744151 AAAAAAAAACAC
1 AAAAAAAAACAC
744163 AAAAAAAAA
1 AAAAAAAAA
744172 TGCAAAGGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
8 6 0.13
9 1 0.02
11 10 0.22
12 16 0.36
13 7 0.16
14 5 0.11
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAC
Found at i:744414 original size:1 final size:1
Alignment explanation
Indices: 744408--744460 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
744398 GTTCTTTTCC
* * * * *
744408 AAAAAAAAAACAAAACAAAAAAGAAAAAAAACAAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
744461 GAACAACCCC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.06, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:744428 original size:16 final size:15
Alignment explanation
Indices: 744407--744460 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
744397 TGTTCTTTTC
744407 CAAAAAAAAAACAAAA
1 CAAAAAAAAAA-AAAA
744423 CAAAAAAGAAAAAAAA
1 CAAAAAA-AAAAAAAA
744439 CAAAAAAAAAAAGAAA
1 CAAAAAAAAAAA-AAA
744455 -AAAAAA
1 CAAAAAA
744461 GAACAACCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.31
16 21 0.58
17 4 0.11
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:744436 original size:21 final size:21
Alignment explanation
Indices: 744410--744459 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
744400 TCTTTTCCAA
*
744410 AAAAAAAACAAAACAAAAAAG
1 AAAAAAAACAAAAAAAAAAAG
744431 AAAAAAAACAAAAAAAAAAAG
1 AAAAAAAACAAAAAAAAAAAG
744452 AAAAAAAA
1 AAAAAAAA
744460 AGAACAACCC
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:0.90, C:0.06, G:0.04, T:0.00
Consensus pattern (21 bp):
AAAAAAAACAAAAAAAAAAAG
Found at i:745424 original size:32 final size:32
Alignment explanation
Indices: 745374--745562 Score: 230
Period size: 32 Copynumber: 6.0 Consensus size: 32
745364 CAATTCTTCA
745374 AATCTCTTC-TCAAAGCCCACGACTCAGTGGC
1 AATCTCTTCTTCAAAGCCCACGACTCAGTGGC
745405 AATCTCTTCTTCAAAGCCCACGACTCAGTGGC
1 AATCTCTTCTTCAAAGCCCACGACTCAGTGGC
*
745437 AATCTCTTC-TCAAAGTCCACGACTCAGTGGC
1 AATCTCTTCTTCAAAGCCCACGACTCAGTGGC
* *
745468 -ATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 AAT-CTCTTCTTCAAAGCCCACGACTCAGTGGC
* *
745500 -AT-T-TTGTCTCAAAGTCCACGACTCAGTGGC
1 AATCTCTTCT-TCAAAGCCCACGACTCAGTGGC
* * *
745530 -ATCCTTTTCTTCAAAGCCCACAACTCCGTGGC
1 AAT-CTCTTCTTCAAAGCCCACGACTCAGTGGC
745562 A
1 A
745563 CCTTTTTCTT
Statistics
Matches: 143, Mismatches: 7, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
29 3 0.02
30 27 0.19
31 35 0.24
32 75 0.52
33 3 0.02
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (32 bp):
AATCTCTTCTTCAAAGCCCACGACTCAGTGGC
Found at i:745478 original size:63 final size:63
Alignment explanation
Indices: 745374--745562 Score: 285
Period size: 62 Copynumber: 3.0 Consensus size: 63
745364 CAATTCTTCA
* *
745374 AATCTCTTCTCAAAGCCCACGACTCAGTGGCAAT-CTCTTCTTCAAAGCCCACGACTCAGTGGC
1 AATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGCCCACGACTCAGTGGC
*
745437 AATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 AATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACGACTCAGTGGC
* * *
745500 -AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACAACTCCGTGGC
1 AATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACGACTCAGTGGC
745562 A
1 A
745563 CCTTTTTCTT
Statistics
Matches: 116, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
61 2 0.02
62 57 0.49
63 57 0.49
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (63 bp):
AATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGCCCACGACTCAGTGGC
Found at i:745648 original size:33 final size:34
Alignment explanation
Indices: 745542--746321 Score: 709
Period size: 33 Copynumber: 23.3 Consensus size: 34
745532 CCTTTTCTTC
*
745542 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
745576 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
745612 -AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
745645 -AAGTCCACGACTCCGTGGCACC---TT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
745674 CAAAGCCCACAATTTCGTGGCAACCTTTTT-CTTCTC
1 -AAAGCCCACAACTCCGTGGC-ACCTTTTTCCTT-TT
*
745710 AAAGCCCACCACTCCGTGGCA-CTTTTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
745742 CAAAGCCCACAATTTCGTGGCAACCTTTTT-CTTCTC
1 -AAAGCCCACAACTCCGTGGC-ACCTTTTTCCTT-TT
*
745778 AAAGCCCACCACTCCGTGGCA-CTTTTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * * *
745810 CAAAGCCCATAATTTCGTGGTAACCTTTTT-CTTCTC
1 -AAAGCCCACAACTCCGTGG-CACCTTTTTCCTT-TT
*
745846 AAAGCCCACCACTCCGTGGCA-CTTTTT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
745878 CAAAGCTCACAATTTCGTGGCAACCTTTTT-CTTCTC
1 -AAAGCCCACAACTCCGTGGC-ACCTTTTTCCTT-TT
* *
745914 AAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
745947 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
745983 CAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
*
746017 AAAGCCCACAACTCCGTGGCACTCTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* *
746052 CAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
746086 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
746122 CAAAGCCCACAACTCCGTGGCACTATTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
746159 AAAGTCCACGACTCCGTGGCACC---TT-CTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
746189 CAAAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
746218 -AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCT-TTT
*
746252 -AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
746279 -AAGCCCACAACTCCATGGCACCTTTCTCCTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
746312 AAAGCCCACA
1 AAAGCCCACA
746322 CAAGTCGGTG
Statistics
Matches: 627, Mismatches: 70, Indels: 98
0.79 0.09 0.12
Matches are distributed among these distances:
27 41 0.07
28 3 0.00
29 10 0.02
30 8 0.01
31 34 0.05
32 8 0.01
33 176 0.28
34 82 0.13
35 151 0.24
36 59 0.09
37 55 0.09
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:745747 original size:68 final size:67
Alignment explanation
Indices: 745378--746320 Score: 860
Period size: 68 Copynumber: 14.2 Consensus size: 67
745368 TCTTCAAATC
* * * * * *
745378 TCTTCTCAAAGCCCACGACTCAGTGGCA--ATCTCTTCTTCAAAGCCCACGACTCAGTGGCA---
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTT-TTCAAAGCCCACAACTCCGTGGCACCT
* *
745438 ATC
65 TTT
* * * * * * *
745441 TCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTC--TTCAAAGTCCACGACTCAGTGGCA---
1 TCTTCTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCT
745501 TTT
65 TTT
* * * * *
745504 T-GTCTCAAAGTCCACGACTCAGTGGCATCCTTTTC--TTCAAAGCCCACAACTCCGTGGCACCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCA-CTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCT
745566 TTT
65 TTT
* * * *
745569 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGGCA
1 TCTTCTCAAAGCCCACCACTCCGTGGCA--CTTTTT--CTTTTCAAAGCCCACAACTCCGTGGCA
745632 CCTTGTT
62 CCTT-TT
* * * * * * *
745639 CCTT-T-TAAGTCCACGACTCCGTGGCAC--CTTCTTTTCAAAGCCCACAATTTCGTGGCAACCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGC-ACCT
745700 TTT
65 TTT
* *
745703 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAATTTCGTGGCAACCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGC-ACCT
745768 TTT
65 TTT
* * * *
745771 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCATAATTTCGTGGTAACCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGG-CACCT
745836 TTT
65 TTT
* * *
745839 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCTCACAATTTCGTGGCAACCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGC-ACCT
745904 TTT
65 TTT
*
745907 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CT
745972 TTT
65 TTT
* *
745975 TCCCTTTTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
1 T--CTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-
746040 CTTTTT
63 C-TTTT
* *
746046 TCTTTTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CT
746111 TTT
65 TTT
* * * *
746114 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTATTTTTCCCTTTT-AAAGTCCACGACTCCGTGG
1 T--CTTCTCAAAGCCCACCACTCCGTGGCAC--TTTTT--CTTTTCAAAGCCCACAACTCCGTGG
746178 CACC---T
60 CACCTTTT
* * * *
746183 TCTTTTCAAAGCCCACAACTCCGTGGCAC----CCTTTT--AAGCCCACAACTCCGTGGCACTTT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
746242 TT
66 TT
* ** * * * *
746244 TCATCTTTAAGTCCACAACTCCGTGGCAC----CCTTTT--AAGCCCACAACTCCATGGCACCTT
1 TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
746303 TCT
66 T-T
*
746306 CCTTCT-AAAGCCCAC
1 TCTTCTCAAAGCCCAC
746321 ACAAGTCGGT
Statistics
Matches: 785, Mismatches: 59, Indels: 74
0.86 0.06 0.08
Matches are distributed among these distances:
58 19 0.02
59 5 0.01
61 61 0.08
62 64 0.08
63 52 0.07
64 23 0.03
65 10 0.01
66 43 0.05
67 36 0.05
68 250 0.32
69 90 0.11
70 94 0.12
71 7 0.01
72 6 0.01
73 20 0.03
74 5 0.01
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (67 bp):
TCTTCTCAAAGCCCACCACTCCGTGGCACTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
TT
Found at i:746224 original size:27 final size:27
Alignment explanation
Indices: 746152--746300 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
746142 CACTATTTTT
* *
746152 CCCTTTTAAAGTCCACGACTCCGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCA
746180 CCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CC--CTTTT--AAGCCCACAACTCCGTGGCA
746211 CCCTTTTAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
* *
746238 CTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA
1 C------CCT-TTTAAGCCCACAACTCCGTGGCA
*
746272 CCCTTTTAAGCCCACAACTCCATGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
746299 CC
1 CC
746301 TTTCTCCTTC
Statistics
Matches: 104, Mismatches: 7, Indels: 21
0.79 0.05 0.16
Matches are distributed among these distances:
27 44 0.42
28 4 0.04
29 5 0.05
30 5 0.05
31 21 0.20
33 2 0.02
34 23 0.22
ACGTcount: A:0.22, C:0.38, G:0.13, T:0.27
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:746321 original size:61 final size:61
Alignment explanation
Indices: 746152--746349 Score: 217
Period size: 61 Copynumber: 3.2 Consensus size: 61
746142 CACTATTTTT
* * *
746152 CCCTTTTAAAGTCCACGACTCCGTGGCACC-TTCT-TTTC-AAAGCCCACAACTCCGTGGCA
1 CCCTTTT-AAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAAGCCCACAACTCCGTGGCA
* * *
746211 CCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTT-T-AAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTC--CTTCTAAAGCCCACAACTCCGTGGCA
* * *
746272 CCCTTTTAAGCCCACAACTCCATGGCACCTTTCTCCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAAG-CC-CACAACTCCGTGGC-A
*
746336 CCCTTCTAAGCCCA
1 CCCTTTTAAGCCCA
746350 ATATAGCTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
58 19 0.16
59 13 0.11
60 1 0.01
61 54 0.47
62 3 0.03
63 12 0.10
64 14 0.12
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.26
Consensus pattern (61 bp):
CCCTTTTAAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAAGCCCACAACTCCGTGGCA
Found at i:746406 original size:49 final size:49
Alignment explanation
Indices: 746342--747000 Score: 712
Period size: 49 Copynumber: 13.9 Consensus size: 49
746332 GCAACCCTTC
* *
746342 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
746391 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
746434 TAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
746483 TAGGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
746532 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
746581 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
746624 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
746673 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
746716 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
746765 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
746808 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
746851 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * *
746903 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT-C----T-TCATCTT
* * * * * *
746958 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTT
747001 TATCACTTTT
Statistics
Matches: 529, Mismatches: 48, Indels: 66
0.82 0.07 0.10
Matches are distributed among these distances:
43 198 0.37
45 4 0.01
47 3 0.01
49 243 0.46
50 3 0.01
52 38 0.07
54 1 0.00
55 38 0.07
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:746504 original size:92 final size:92
Alignment explanation
Indices: 746337--746894 Score: 840
Period size: 92 Copynumber: 6.1 Consensus size: 92
746327 CGGTGGCAAC
*
746337 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
746402 TAGCTGGCCTTGAATCAACACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
746430 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAGATTGGCACCTTCTTCTTTAGGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
746495 AGCTGGCCTTGACTCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
746522 CCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTC
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTC
746587 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
746620 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
746685 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
746712 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
746777 AGCTGGCCTTGAATCAGCACATTAGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
746804 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
746863 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
746890 CCTTT
1 CCTTT
746895 TCCATCTTTA
Statistics
Matches: 431, Mismatches: 28, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
86 44 0.10
88 1 0.00
92 297 0.69
93 4 0.01
94 1 0.00
96 1 0.00
98 83 0.19
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:746807 original size:21 final size:21
Alignment explanation
Indices: 746783--746850 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
746773 ATGTAGCTGG
746783 CCTTGAATCAGCACATTAGCA
1 CCTTGAATCAGCACATTAGCA
* *
746804 CCTTTAAGTC--CA-ATATAGCTGG
1 CCTTGAA-TCAGCACAT-TAGC--A
*
746826 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTAGCA
746847 CCTT
1 CCTT
746851 TAAGTCCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 12 0.34
22 8 0.23
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTAGCA
Found at i:746829 original size:22 final size:21
Alignment explanation
Indices: 746762--746872 Score: 54
Period size: 22 Copynumber: 5.1 Consensus size: 21
746752 GCATCTTCAT
746762 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
* *
746784 CTTGAA-TCAGCACATTAGC--AC
1 CTTTAAGTC--CA-ATTAGCTGGC
746805 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
* * *
746827 CTTGAA-TCAGCACATTGGC--AC
1 CTTTAAGTC--CA-ATTAGCTGGC
746848 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAAT-TAGCTGGC
746870 CTT
1 CTT
746873 GAATCAGCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 28
0.63 0.10 0.27
Matches are distributed among these distances:
19 4 0.06
20 11 0.17
21 16 0.25
22 19 0.29
23 11 0.17
24 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (21 bp):
CTTTAAGTCCAATTAGCTGGC
Found at i:746926 original size:52 final size:53
Alignment explanation
Indices: 746848--747001 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
746838 ACATTGGCAC
746848 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
746900 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
746955 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
747002 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:747848 original size:33 final size:33
Alignment explanation
Indices: 747811--747910 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
747801 TTCAACGATT
*** *
747811 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
*
747844 TGTATTGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
747877 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATATTTTTTTGTATCGATACAA
747910 T
1 T
747911 TTAAGCTACT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATATTTTTTTGTATCGATACAA
Found at i:747873 original size:20 final size:19
Alignment explanation
Indices: 747844--747912 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
747834 ATCGATACAA
*
747844 TGTATTGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
747864 TGTATCGATACAA------
1 TGTATCGATACAATTTTTT
747877 TGTATCGATACATATTTTTT
1 TGTATCGATACA-ATTTTTT
747897 TGTATCGATACAATTT
1 TGTATCGATACAATTT
747913 AAGCTACTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 5 0.12
20 23 0.56
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (19 bp):
TGTATCGATACAATTTTTT
Found at i:747882 original size:13 final size:13
Alignment explanation
Indices: 747864--747888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747854 CATATTTTTT
747864 TGTATCGATACAA
1 TGTATCGATACAA
747877 TGTATCGATACA
1 TGTATCGATACA
747889 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:747971 original size:13 final size:13
Alignment explanation
Indices: 747953--747977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747943 ATTACTCACA
747953 TGTATCGATACAT
1 TGTATCGATACAT
747966 TGTATCGATACA
1 TGTATCGATACA
747978 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:748042 original size:52 final size:52
Alignment explanation
Indices: 747986--748110 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
747976 CACTGATCTT
*
747986 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
748038 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
748090 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
748111 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:751317 original size:27 final size:27
Alignment explanation
Indices: 751276--751842 Score: 506
Period size: 27 Copynumber: 20.6 Consensus size: 27
751266 CAATGGCATT
751276 TCTTTTTAAAGTCCACAACTCCGTGGCA
1 TCTTTTT-AAGTCCACAACTCCGTGGCA
*
751304 TCTTTTTAAGTCCACAACTCCGTGGTA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
*
751331 TCCTTTTAAAGTCCACAACTCCGTGGCA
1 T-CTTTTTAAGTCCACAACTCCGTGGCA
* * *
751359 CCTTTTGAAAGTTCACAACTCCGTGGCA
1 TCTTTT-TAAGTCCACAACTCCGTGGCA
* *
751387 TCCTTTTAAGTCCACAACTACGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* * *
751414 CCCTTTAAAGTCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* * * *
751441 CCCTTTTAAAGTCCACCACTCTGTGGCA
1 -TCTTTTTAAGTCCACAACTCCGTGGCA
* * * *
751469 TCCTTTTAAGTCCACAATTCTGTGACA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* * * *
751496 CCCTTTAAAATCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* * *
751523 CCCTTTTAAAGTCCACCACTCCGTGGCA
1 -TCTTTTTAAGTCCACAACTCCGTGGCA
* * * * *
751551 CCCTTTTAAGTTCACAACTCTGTAGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* *
751578 TCCTTTTAAGTCCACAACTCCATGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* *
751605 CCCTTTTAAGTCCACAACTCCGTGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* *
751632 TTCGTTTCAAGTCCACAACTCCGTGGCA
1 -TCTTTTTAAGTCCACAACTCCGTGGCA
* *
751660 TCCGTTTCAAGTCCACAACTCCGTGGCA
1 T-CTTTTTAAGTCCACAACTCCGTGGCA
* * * * *
751688 CCTTTTTAAGTCAACAATTTCATGGCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
*
751715 -CTCTTTGAAGTCCACAACTCCGTGGCA
1 TCT-TTTTAAGTCCACAACTCCGTGGCA
* * *
751742 TCCTTTTAAGTCCACAACTTCGTGCCA
1 TCTTTTTAAGTCCACAACTCCGTGGCA
* * *
751769 TCCTTTTTAAGCCCACAAGTCAGTGGCA
1 T-CTTTTTAAGTCCACAACTCCGTGGCA
* *** * **
751797 CCCTTCCAAAGCCCACAACTTTGTGGCA
1 -TCTTTTTAAGTCCACAACTCCGTGGCA
*
751825 TCCTTTTTAAGCCCACAA
1 T-CTTTTTAAGTCCACAA
751843 GTCAGTGGTA
Statistics
Matches: 448, Mismatches: 80, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.00
27 239 0.53
28 207 0.46
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
TCTTTTTAAGTCCACAACTCCGTGGCA
Found at i:751471 original size:82 final size:82
Alignment explanation
Indices: 751279--751801 Score: 622
Period size: 82 Copynumber: 6.4 Consensus size: 82
751269 TGGCATTTCT
* * *
751279 TTTTAAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGTATCCTTTTAAAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTC
751344 CACAACTCCGTGGCA-CC
65 CACAACTCCGTGGCACCC
* *
751361 TTTTGAAAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAACTACGTGGCACCCTTTAAAGTC
1 TTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTC
751426 CACAACTCCGTGGCACCC
65 CACAACTCCGTGGCACCC
* * * * * *
751444 TTTTAAAGTCCACCACTCTGTGGCATCCTTTTAAGTCCACAATTCTGTGACACCCTTTAAAATCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCC
751509 ACAACTCCGTGGCACCC
66 ACAACTCCGTGGCACCC
* * * * * * *
751526 TTTTAAAGTCCACCACTCCGTGGCACCCTTTTAAGTTCACAACTCTGTAGCATCCTTTTAAGTCC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCC
*
751591 ACAACTCCATGGCACCC
66 ACAACTCCGTGGCACCC
* * * *
751608 TTTT-AAGTCCACAACTCCGTGGCATTCGTTTCAAGTCCACAACTCCGTGGCATCCGTTTCAAGT
1 TTTTAAAGTCCACAACTCCGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTAAAGT
751672 CCACAACTCCGTGGCA-CC
64 CCACAACTCCGTGGCACCC
* * * * * * * *
751690 TTTTTAAGTCAACAATTTCATGGCA-CTCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTC
* * *
751754 CACAACTTCGTGCCATCC
65 CACAACTCCGTGGCACCC
* * * * *
751772 TTTTTAAGCCCACAAGTCAGTGGCACCCTT
1 TTTTAAAGTCCACAACTCCGTGGCATCCTT
751802 CCAAAGCCCA
Statistics
Matches: 382, Mismatches: 51, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
81 42 0.11
82 250 0.65
83 90 0.24
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.29
Consensus pattern (82 bp):
TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCC
ACAACTCCGTGGCACCC
Found at i:751535 original size:137 final size:137
Alignment explanation
Indices: 751279--751857 Score: 642
Period size: 137 Copynumber: 4.2 Consensus size: 137
751269 TGGCATTTCT
* * *
751279 TTTTAAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCCGTGGTATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTC
* * *
751344 CACAACTCCGTGGCA-CCTTTTGAAAGTTCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTA
64 CACAACTCCGTGGCATCCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTC
751407 CGTGGCACCC
128 CGTGGCACCC
* * *
751417 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACCACTCTGTGGCATCCTTTTAAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCC
* * * * * *
751482 ACAATTCTGTGACA-CCCTTTAAAATCCACAACTCCGTGGCACCCTTTTAAAGTCCACCACTCCG
65 ACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCG
751546 TGGCACCC
130 TGGCACCC
* * * * * *
751554 TTTTAAGTTCACAACTCTGTAGCATCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
* * * * * *
751619 CAACTCCGTGGCATTCGTTTCAAGTCCACAACTCCGTGGCATCCGTTTCAAGTCCACAACTCCGT
66 CAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGT
*
751684 GGCACCT
131 GGCACCC
* * * * * *
751691 TTTTAAGTCAACAATTTCATGGCACTCTTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
* * * * * * ** * **
751756 CAACTTCGTGCCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAACTTTGT
66 CAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGT
*
751821 GGCATCCT
131 GGCA-CCC
* * * *
751829 TTTTAAGCCCACAAGTCAGTGGTACCCTT
1 TTTTAAGTCCACAACTCCGTGGCACCCTT
751858 CCGAAGCCCA
Statistics
Matches: 365, Mismatches: 72, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
136 65 0.18
137 249 0.68
138 51 0.14
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (137 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
CAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGT
GGCACCC
Found at i:752897 original size:28 final size:28
Alignment explanation
Indices: 751279--752908 Score: 929
Period size: 28 Copynumber: 56.8 Consensus size: 28
751269 TGGCATTTCT
* * *
751279 TTTTAAAGTCCACAACTCCGTGGCAT-C
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * * *
751306 TTTTTAAGTCCACAACTCCGTGGTATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
751334 TTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
** * *
751361 TTTTGAAAGTTCACAACTCCGTGGCATCC
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
* *
751390 TTTT-AAGTCCACAACT-ACGTGGCA-CC
1 TTTTAAAGCCCACAAGTCA-GTGGCATCC
* * * * *
751416 CTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * *
751444 TTTTAAAGTCCACCACTCTGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * *
751472 TTTT-AAGTCCACAATTCTGTGACA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* ** * * *
751498 CTTTAAAATCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * * *
751526 TTTTAAAGTCCACCACTCCGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
** * * *
751554 TTTT-AAGTTCACAACTCTGTAGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
751581 TTTT-AAGTCCACAACTCCA-TGGCACCC
1 TTTTAAAGCCCACAAGT-CAGTGGCATCC
* * * *
751608 TTTT-AAGTCCACAACTCCGTGGCATTC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * * *
751635 GTTTCAAGTCCACAACTCCGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * * *
751663 GTTTCAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * *
751690 TTTTTAAGTCAACAATTTCA-TGGCA--C
1 TTTTAAAGCCCACAA-GTCAGTGGCATCC
* * * *
751716 TCTTTGAAGTCCACAACTCCGTGGCATCC
1 T-TTTAAAGCCCACAAGTCAGTGGCATCC
* * *
751745 TTTT-AAGTCCACAACTTC-GTGCCATCC
1 TTTTAAAGCCCACAA-GTCAGTGGCATCC
* *
751772 TTTTTAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
** * **
751800 TTCCAAAGCCCACAACTTTGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
751828 TTTTTAAGCCCACAAGTCAGTGGTACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
*** *
751856 TTCCGAAGCCCACAAGTCAGTGGCACCCC
1 TTTTAAAGCCCACAAGTCAGTGGCA-TCC
* * **
751885 TTTTTAAGCCAACAAGTCAGTGGCATTA
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * *
751913 TTTCAAAGCCCACACAAGTCGGTAGCAACC
1 TTTTAAAG-CC-CACAAGTCAGTGGCATCC
* * *
751943 TATTTCAAAGCCCACACAAGTCGGTGGTAACCC
1 T-TTT-AAAG-CC-CACAAGTCAGTGG-CATCC
* * *
751976 ATTTCAAAGCCTACACAAGTCGGTGGCAACCC
1 -TTTTAAAGCC--CACAAGTCAGTGGC-ATCC
* *
752008 ATTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTTAAAGCCCACAAGTCAGTGGCATCC
*
752037 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752065 TTTTCAAAGCCCACACAAGTCGGTGGCAACC
1 TTTT-AAAG-CC-CACAAGTCAGTGGCATCC
*
752096 TATTTCAAAGCCCACAAGTCAGTGGCATCA
1 T-TTT-AAAGCCCACAAGTCAGTGGCATCC
* * *
752126 TTTCAAAGTCGACACAAGTC-GATGGCA-AC
1 TTTTAAAG-C-CCACAAGTCAG-TGGCATCC
* *
752155 TAATTTGAAAGCCCATACAAGTTAGTGGCAACC
1 T--TTT-AAAGCCC--ACAAGTCAGTGGCATCC
** *
752188 TATTTCAAAGCCCATACAAGTTGGTGGCAACC
1 T-TTT-AAAGCCC--ACAAGTCAGTGGCATCC
* *
752220 TATTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 T-TTT-AAAG-CC-CACAAGTCAGTGGC-ATCC
* * * *
752253 ATTTCAAAGCCCACAAATCAGTAGCATCA
1 -TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
752282 TTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 TTTTAAAG-CC-CACAAGTCAGTGGCATC-C
** *
752313 TTTTGAAAGCCCATACAAGTTGGTGGCAACCC
1 TTTT-AAAGCCC--ACAAGTCAGTGGC-ATCC
* *
752345 ATTTCAAAGCCCACACAAGTC-GATGGCAACCC
1 -TTTTAAAG-CC-CACAAGTCAG-TGGC-ATCC
* * * *
752377 ATTTCAAA-CCTCATAAATCAGTGGCACCC
1 -TTTTAAAGCC-CACAAGTCAGTGGCATCC
* * *
752406 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
*
752434 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * *
752462 TTTCAAAGTCCACAAGTCGGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752490 TTTTAAAGCCCACAAGTCGGTGGCATCT
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752518 TTTTAAAGCCCACAAATCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752546 TTTCAAAGCCCACAAGTCAGTGGCATTC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752574 TTTTAAAGTCCACAAGTCGGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
*
752602 TTTTCAAAGCCCACAAGTCGGTGGCAT-C
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
* *
752630 TTTTCAAAGCCCACAAGTTAATGGCAT-C
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
* *
752658 TTTTCCAAGCCCACAAATCAGTGGCA-CTC
1 TTTT-AAAGCCCACAAGTCAGTGGCATC-C
* * *
752687 TTTCAAAGCCCACAAGTCATTAGCA-CC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752714 ATTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTTAAAGCCCACAAGTCAGTGGCATCC
*
752743 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* * * *
752771 TTTCAAAGTCCATAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAAGTCAGTGGCATCC
* *
752799 TTTTCAAAGCCCATAAGTCGGTGGCAT-C
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
* *
752827 TTTTCAAAGCCCATAAGTCAGAGGCAT-C
1 TTTT-AAAGCCCACAAGTCAGTGGCATCC
* **
752855 TTCTCAAAATCCACAAGTCAGTGGCATCC
1 TT-TTAAAGCCCACAAGTCAGTGGCATCC
*
752884 TTTTAAAGCTCACACAAGTCGGTGG
1 TTTTAAAGC-C-CACAAGTCAGTGG
752909 TAACTTTCTC
Statistics
Matches: 1342, Mismatches: 191, Indels: 137
0.80 0.11 0.08
Matches are distributed among these distances:
26 15 0.01
27 223 0.17
28 655 0.49
29 107 0.08
30 106 0.08
31 35 0.03
32 175 0.13
33 22 0.02
34 4 0.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTTAAAGCCCACAAGTCAGTGGCATCC
Found at i:753711 original size:20 final size:20
Alignment explanation
Indices: 753682--753757 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
753672 TTCTTACCTA
*
753682 AATGTATCGAAACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
753702 AATATATCGATACATGTATG
1 AATGTATCGATACATTTTTC
*
753722 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
753742 AATGTATCGATACATT
1 AATGTATCGATACATT
753758 CTGTCTTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:756203 original size:97 final size:97
Alignment explanation
Indices: 755964--756203 Score: 363
Period size: 97 Copynumber: 2.5 Consensus size: 97
755954 AATTCTATTT
* * * * ** *
755964 ATCGAGGATACTCTAACCCTATTCCTCCTAGGGGATACTCCAACCATGCTTTTAAATACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCTAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
756029 GTTTAAATCTTATTCTCACTTAAATTGTCATC
66 GTTTAAATCTTATTCTCACTCAAATTGTCATC
* * *
756061 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACACATCACA
1 ATCGGGGACACTCCAACCCCATTCCTCCTAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
756126 GTTTAAATCTTTTTCTCACTCAAATTGTCATC
66 GTTTAAATCTTATTCTCACTCAAATTGTCATC
*
756158 ATCGGGGACACTCCAACCCCATTCCTTCTAGGGGATACTCCAACCC
1 ATCGGGGACACTCCAACCCCATTCCTCCTAGGGGATACTCCAACCC
756204 TTTTTTCAAT
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 128 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.29
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTCCTAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTCAAATTGTCATC
Found at i:757537 original size:26 final size:26
Alignment explanation
Indices: 757510--757559 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
757500 TAATATTTAT
*
757510 ATATT-TTTATAATT-AAAAATAAAA
1 ATATTGTTTTTAATTAAAAAATAAAA
*
757534 ATATTGTTTTTACTTAAAAAATAAAA
1 ATATTGTTTTTAATTAAAAAATAAAA
757560 TAATTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 7 0.32
26 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATTGTTTTTAATTAAAAAATAAAA
Found at i:763152 original size:15 final size:15
Alignment explanation
Indices: 763134--763167 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
763124 ATTAAACTCA
763134 AAATAAT-TATAATCT
1 AAATAATCTA-AATCT
763149 AAATAATCTAAATCT
1 AAATAATCTAAATCT
763164 AAAT
1 AAAT
763168 TATCAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATAATCTAAATCT
Found at i:766562 original size:20 final size:20
Alignment explanation
Indices: 766537--766576 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
766527 TAGTTTAATT
766537 CATCTGCTTTTCTATGGCAA
1 CATCTGCTTTTCTATGGCAA
766557 CATCTGCTTTTCTATGGCAA
1 CATCTGCTTTTCTATGGCAA
766577 GACAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (20 bp):
CATCTGCTTTTCTATGGCAA
Found at i:768246 original size:11 final size:11
Alignment explanation
Indices: 768230--768255 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
768220 ATTAATATAA
768230 AATATTTTTTT
1 AATATTTTTTT
768241 AATATTTTTTT
1 AATATTTTTTT
768252 AATA
1 AATA
768256 ATAGTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:769664 original size:16 final size:18
Alignment explanation
Indices: 769643--769678 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
769633 ATTTATATAA
769643 AAAAATTAT-T-AATATT
1 AAAAATTATATAAATATT
769659 AAAAATTATATAAATATT
1 AAAAATTATATAAATATT
769677 AA
1 AA
769679 TAACTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTATATAAATATT
Found at i:769903 original size:19 final size:19
Alignment explanation
Indices: 769876--769942 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
769866 TACATAATAA
*
769876 AATAAAATAAAATAATATT
1 AATATAATAAAATAATATT
* *
769895 AATATAATACAAAT-TTATG
1 AATATAATA-AAATAATATT
*
769914 AATATATTAAAATATATATAAT
1 AATATAATAAAATA-ATAT--T
769936 AATATAA
1 AATATAA
769943 AAATAACACA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
18 4 0.11
19 19 0.53
20 7 0.19
22 6 0.17
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
AATATAATAAAATAATATT
Found at i:772706 original size:16 final size:16
Alignment explanation
Indices: 772687--772717 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
772677 AAAAAATAAA
*
772687 TTTTTTATCTTTTATT
1 TTTTTTAACTTTTATT
772703 TTTTTTAACTTTTAT
1 TTTTTTAACTTTTAT
772718 AACTTTTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTAACTTTTATT
Found at i:772844 original size:2 final size:2
Alignment explanation
Indices: 772837--772861 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
772827 GCTCTAAAAC
772837 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
772862 TGATATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:773289 original size:105 final size:103
Alignment explanation
Indices: 773167--773369 Score: 327
Period size: 105 Copynumber: 2.0 Consensus size: 103
773157 ATCAAAAAAT
* *
773167 AATATAGAGTATTTTGGGTTTTTAA-TATTTTATATAAATTTAAAAAATAAATTACTTATTTTTT
1 AATATAAAGTATTTTGGGTTTTTAACT-TTTTATATAAATTTAAAAAATAAATTACTTA--TTTA
*
773231 AAAAAAATCTATTTTTTAAAAATTATCATAAAACTATAAAG
63 AAAAAAATCTATTTTTTAAAAACTATCATAAAACTATAAAG
* *
773272 AATATAAAGTATTTTGGGTTTTTAACTTTTTATATAAATTTAGAAATTAAATTACTTATTTAAAA
1 AATATAAAGTATTTTGGGTTTTTAACTTTTTATATAAATTTAAAAAATAAATTACTTATTTAAAA
773337 AAAATCTATTTTTTAAAAACTATCATAAAACTA
66 AAAATCTATTTTTTAAAAACTATCATAAAACTA
773370 CATATTTCTT
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
103 38 0.41
105 53 0.58
106 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (103 bp):
AATATAAAGTATTTTGGGTTTTTAACTTTTTATATAAATTTAAAAAATAAATTACTTATTTAAAA
AAAATCTATTTTTTAAAAACTATCATAAAACTATAAAG
Found at i:774793 original size:4 final size:4
Alignment explanation
Indices: 774784--774809 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
774774 TTCTAAAATA
774784 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
774810 TACTTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:775967 original size:21 final size:20
Alignment explanation
Indices: 775917--775976 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
775907 AATTTATAAA
* *
775917 ATATAAATATTTTAAATTTT
1 ATATAAATATTTTTATTTTT
775937 ATCATAAATATTTTTATTTATT
1 AT-ATAAATATTTTTATTT-TT
* *
775959 ATATTAATATTTGTATTT
1 ATATAAATATTTTTATTT
775977 CAAAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.06
21 28 0.82
22 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATAAATATTTTTATTTTT
Found at i:777212 original size:3 final size:3
Alignment explanation
Indices: 777204--777228 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
777194 CTCTTTTCCT
777204 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
777229 GCTCTTTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:782524 original size:11 final size:11
Alignment explanation
Indices: 782510--782569 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 11
782500 AGACATGACT
*
782510 TAAACATAATA
1 TAAAAATAATA
782521 TAAAAAATAA-A
1 T-AAAAATAATA
782532 TAAAAATAATA
1 TAAAAATAATA
* *
782543 TGAAAATTAACA
1 T-AAAAATAATA
*
782555 TAAATATAATA
1 TAAAAATAATA
782566 -AAAA
1 TAAAA
782570 TACACAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 11 0.28
11 12 0.31
12 16 0.41
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:782540 original size:22 final size:23
Alignment explanation
Indices: 782510--782569 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
782500 AGACATGACT
*
782510 TAAACATAATATAAAAAATAA-A
1 TAAAAATAATATAAAAAATAACA
* *
782532 TAAAAATAATATGAAAATTAACA
1 TAAAAATAATATAAAAAATAACA
*
782555 TAAATATAATA-AAAA
1 TAAAAATAATATAAAA
782570 TACACAATCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAAAATAATATAAAAAATAACA
Found at i:782569 original size:21 final size:20
Alignment explanation
Indices: 782520--782570 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
782510 TAAACATAAT
*
782520 ATAAAAAATAAATAAAAATA
1 ATAAAAATTAAATAAAAATA
*
782540 ATATGAAAATTAACATAAATATA
1 ATA--AAAATTAA-ATAAAAATA
782563 ATAAAAAT
1 ATAAAAAT
782571 ACACAATCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.12
21 5 0.19
22 7 0.27
23 11 0.42
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
ATAAAAATTAAATAAAAATA
Found at i:790359 original size:2 final size:2
Alignment explanation
Indices: 790352--790384 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
790342 ATAAAATTAA
*
790352 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
790385 AGATCATACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:790976 original size:12 final size:12
Alignment explanation
Indices: 790959--791012 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
790949 TTTATTAAAA
*
790959 ATTTATTTTATT
1 ATTTATTATATT
790971 ATTTATTATATT
1 ATTTATTATATT
**
790983 A-TTAAAATATT
1 ATTTATTATATT
790994 ATTT-TTATA-T
1 ATTTATTATATT
791004 ATTT-TTATA
1 ATTTATTATA
791013 ATATAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 10 0.28
11 12 0.33
12 14 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:790986 original size:31 final size:31
Alignment explanation
Indices: 790950--791026 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
790940 TCGATGAAAT
790950 TTATTAAAAATTTATTTTAT-TATTTATTATA
1 TTATTAAAAATTTATTTTATATATTT-TTATA
790981 TTATT-AAAATATTATTTTTATATATTTTTATA
1 TTATTAAAAAT-TTA-TTTTATATATTTTTATA
* *
791013 ATA-TAAATATTTAT
1 TTATTAAAAATTTAT
791027 AATTAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
30 6 0.15
31 12 0.30
32 17 0.43
33 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTATTAAAAATTTATTTTATATATTTTTATA
Found at i:791015 original size:24 final size:26
Alignment explanation
Indices: 790966--791051 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 26
790956 AAAATTTATT
790966 TTATTATTTATTATATTATTAAAATA
1 TTATTATTTATTATATTATTAAAATA
* *
790992 TTATT-TTTA-TATATTTTTATAATA
1 TTATTATTTATTATATTATTAAAATA
* * *
791016 TAAATATTTA-TA-ATTAATTAAATAAAA
1 TTATTATTTATTATATT-ATT-AA-AATA
791043 TTATTATTT
1 TTATTATTT
791052 TAATATAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
24 19 0.40
25 12 0.26
26 6 0.13
27 10 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATTATTTATTATATTATTAAAATA
Found at i:791717 original size:29 final size:31
Alignment explanation
Indices: 791675--791736 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 31
791665 GTGAAAAAAG
791675 TATTTTAATTTTTATA-TTATAAAATT-TAA
1 TATTTTAATTTTTATATTTATAAAATTATAA
*
791704 TATTTTAATTTTTATATTTTTAAAATTATAA
1 TATTTTAATTTTTATATTTATAAAATTATAA
791735 TA
1 TA
791737 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.53
30 9 0.30
31 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TATTTTAATTTTTATATTTATAAAATTATAA
Found at i:791722 original size:14 final size:14
Alignment explanation
Indices: 791675--791723 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
791665 GTGAAAAAAG
791675 TATTTTAATTTTTA
1 TATTTTAATTTTTA
* * *
791689 TATTATAAAATTTAA
1 TATT-TTAATTTTTA
791704 TATTTTAATTTTTA
1 TATTTTAATTTTTA
791718 TATTTT
1 TATTTT
791724 TAAAATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTAATTTTTA
Found at i:791724 original size:15 final size:15
Alignment explanation
Indices: 791677--791726 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
791667 GAAAAAAGTA
791677 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
* * * *
791692 TATAAAATTTAATA-
1 TTTTAATTTTTATAT
791706 TTTTAATTTTTATAT
1 TTTTAATTTTTATAT
791721 TTTTAA
1 TTTTAA
791727 AATTATAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAATTTTTATAT
Found at i:792463 original size:16 final size:16
Alignment explanation
Indices: 792442--792481 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
792432 GAAGTTAAGC
*
792442 TTTAAATTT-AATTTAA
1 TTTAAATTTAAAATT-A
792458 TTTAAATTTAAAATTA
1 TTTAAATTTAAAATTA
792474 TTTAAATT
1 TTTAAATT
792482 CGAATTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATTTAAAATTA
Found at i:794155 original size:6 final size:6
Alignment explanation
Indices: 794144--794218 Score: 50
Period size: 6 Copynumber: 12.2 Consensus size: 6
794134 TAAATAATTT
*
794144 ATTTAA ATTT-A A-TT-A ATTTAA TTTTAAA ATTAATAA A-TTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATT--TAA ATTTAA ATTTAA
*
794191 ATTACTTAA ATTTAA ATCTAA ATTTAA A
1 A-T--TTAA ATTTAA ATTTAA ATTTAA A
794219 ATTACTCTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
4 4 0.07
5 8 0.14
6 28 0.50
7 6 0.11
8 4 0.07
9 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:794171 original size:21 final size:21
Alignment explanation
Indices: 794144--794217 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
794134 TAAATAATTT
794144 ATTTAAATTTAATTAATTTAA
1 ATTTAAATTTAATTAATTTAA
* * *
794165 TTTTAAAATTAA-TAAATTAA
1 ATTTAAATTTAATTAATTTAA
*
794185 ATTTAAA-TTACTTAAATTTAA
1 ATTTAAATTTAATT-AATTTAA
*
794206 ATCTAAATTTAA
1 ATTTAAATTTAA
794218 AATTACTCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 22 0.52
22 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAATTTAATTAATTTAA
Found at i:794201 original size:15 final size:15
Alignment explanation
Indices: 794181--794224 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
794171 AATTAATAAA
794181 TTAAATTTAAATTAC
1 TTAAATTTAAATTAC
794196 TTAAATTTAAA-T-C
1 TTAAATTTAAATTAC
794209 -TAAATTTAAAATTAC
1 TTAAATTT-AAATTAC
794224 T
1 T
794225 CTACTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 7 0.28
13 4 0.16
14 2 0.08
15 12 0.48
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATTTAAATTAC
Found at i:794374 original size:34 final size:34
Alignment explanation
Indices: 794296--794375 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
794286 GTGCTGTGTT
* * *
794296 TTTAATGTGCCTAATTAATAGATCCAGTTGTAGG
1 TTTAATGTGCTTAATTAACAGATCCAGATGTAGG
* * *
794330 TTTAAGGTGCTTAATTAACAGGTCTAGATGT-GG
1 TTTAATGTGCTTAATTAACAGATCCAGATGTAGG
794363 CTTTAATGTGCTT
1 -TTTAATGTGCTT
794376 TTAATGTGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 2 0.05
34 36 0.95
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (34 bp):
TTTAATGTGCTTAATTAACAGATCCAGATGTAGG
Found at i:794906 original size:19 final size:18
Alignment explanation
Indices: 794879--794932 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
794869 ATATTATGAA
794879 TTTACTATTTTAAATATTT
1 TTTA-TATTTTAAATATTT
794898 TTTATTATTATTAAA-ATTT
1 TTTA-TATT-TTAAATATTT
*
794917 ATTATATTTATAAATA
1 TTTATATTT-TAAATA
794933 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 8 0.27
19 16 0.53
20 5 0.17
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATATTTTAAATATTT
Found at i:794972 original size:17 final size:18
Alignment explanation
Indices: 794952--794992 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
794942 TTTAAAAGAT
794952 TTTGTTAAATAA-ATTTA
1 TTTGTTAAATAATATTTA
*
794969 TTTG-AAAATAATATTTA
1 TTTGTTAAATAATATTTA
794986 TTATGTT
1 TT-TGTT
794993 TATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
16 6 0.32
17 11 0.58
18 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (18 bp):
TTTGTTAAATAATATTTA
Found at i:796017 original size:22 final size:23
Alignment explanation
Indices: 795989--796043 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
795979 TTTTAATGTT
795989 AATAAAATTTATTTAA-TTTA-TA
1 AATAAAATTT-TTTAATTTTATTA
*
796011 AATAAAA-ATTTTAATTTTATTA
1 AATAAAATTTTTTAATTTTATTA
796033 AA-AAAATTTTT
1 AATAAAATTTTT
796044 ATTCGATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 5 0.18
21 9 0.32
22 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATAAAATTTTTTAATTTTATTA
Found at i:796044 original size:21 final size:20
Alignment explanation
Indices: 796000--796042 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
795990 ATAAAATTTA
796000 TTTAATTTATAAATAAAAAT
1 TTTAATTTATAAATAAAAAT
*
796020 TTTAATTTTATTAA-AAAAAT
1 TTTAA-TTTATAAATAAAAAT
796040 TTT
1 TTT
796043 TATTCGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATTTATAAATAAAAAT
Found at i:797784 original size:18 final size:20
Alignment explanation
Indices: 797761--797808 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
797751 TTGTAAAAAA
797761 TAAAATAATTTTAT-ATT-T
1 TAAAATAATTTTATAATTGT
*
797779 TAAAATTAAATTTATAATTGT
1 TAAAA-TAATTTTATAATTGT
797800 TAAAA-AATT
1 TAAAATAATT
797809 ATTTTATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 3 0.12
21 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAAATAATTTTATAATTGT
Found at i:800782 original size:2 final size:2
Alignment explanation
Indices: 800730--800766 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
800720 TGAATATCTT
800730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
800767 GATACGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:800806 original size:13 final size:12
Alignment explanation
Indices: 800784--800815 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
800774 GTATATATAC
800784 TTAATTTTTTTT
1 TTAATTTTTTTT
800796 TTAATTTTTTTT
1 TTAATTTTTTTT
800808 TTACATTT
1 TTA-ATTT
800816 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTAATTTTTTTT
Found at i:804704 original size:17 final size:17
Alignment explanation
Indices: 804684--804733 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
804674 ATTGTAAAAT
804684 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
*
804701 ATTTTA-ATATAT-TATA
1 ATTTTATATTTATATA-A
804717 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
804732 AT
1 AT
804734 GTTAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Done.