Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 77 of 325
Found at i:21582369 original size:24 final size:22
Alignment explanation
Indices: 21582300--21582369 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 22
21582290 TTATTATTTT
* *
21582300 AAAATTAAAAAATATTTTTTAA
1 AAAATTAAAAAAAATTTTATAA
* * *
21582322 AAAATAAAAAATATAAATTAATAA
1 AAAATTAAAAA-A-AATTTTATAA
21582346 AAAATGTAAAAGAAAATTTTATAA
1 AAAAT-TAAAA-AAAATTTTATAA
21582370 CAAGAATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
22 10 0.28
23 1 0.03
24 19 0.53
25 5 0.14
26 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAATTAAAAAAAATTTTATAA
Found at i:21589504 original size:41 final size:40
Alignment explanation
Indices: 21589337--21589521 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
21589327 CTTGCACAAG
* * * * *
21589337 GCCTTCGGGTCTTAGCCCAGATGTGGTCACTAGCATAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
21589377 GCCTTCGGGA-CTTAGCCCTGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGATCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
21589417 GCTTTCGGGTCTTAGCCCGGATATA-ACAACTCGCACGAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
21589457 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCA-CTAGCACAAAT
21589498 GCCTTCGGCA-CTTAGCCCGGATAT
1 GCCTTCGG-ATCTTAGCCCGGATAT
21589522 CATTCGAATA
Statistics
Matches: 116, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 81 0.70
41 31 0.27
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:21597441 original size:40 final size:40
Alignment explanation
Indices: 21597395--21597579 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
21597385 CTTGCACAAG
* * *
21597395 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
21597435 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
21597475 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
21597515 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
21597556 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
21597580 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.76
41 29 0.24
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:21603863 original size:29 final size:28
Alignment explanation
Indices: 21603815--21603906 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
21603805 TGCATGACTG
21603815 TGAATGTGATTGGGCCTAATGGGCCATA
1 TGAATGTGATTGGGCCTAATGGGCCATA
21603843 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TGAATGTGA-TTGGGCCTAATGGGCCATA
* * *
21603872 TGAAAGAGATTGGGCCTAGTGGGCCATA
1 TGAATGTGATTGGGCCTAATGGGCCATA
*
21603900 TGCATGT
1 TGAATGT
21603907 ATGTAGACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 31 0.54
29 26 0.46
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
TGAATGTGATTGGGCCTAATGGGCCATA
Found at i:21603894 original size:28 final size:28
Alignment explanation
Indices: 21603822--21603901 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 28
21603812 CTGTGAATGT
* *
21603822 GATTGGGCCTAATGGGCCATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
21603850 GATTTGGGCCTAATGGGCCATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
*
21603879 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
21603902 CATGTATGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:21606633 original size:46 final size:46
Alignment explanation
Indices: 21606583--21606758 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21606573 TGGTTGAGCA
21606583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21606629 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21606674 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21606722 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21606759 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21606739 original size:93 final size:93
Alignment explanation
Indices: 21606580--21606751 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21606570 GGATGGTTGA
* *
21606580 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21606645 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21606673 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21606738 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21606752 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21614192 original size:46 final size:46
Alignment explanation
Indices: 21614142--21614317 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
21614132 TGGTTGAGCA
21614142 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
21614188 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
21614233 CATCCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21614281 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21614318 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.57
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21614298 original size:93 final size:93
Alignment explanation
Indices: 21614139--21614310 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
21614129 GGATGGTTGA
* * *
21614139 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
21614204 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
21614232 GCATCCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
21614296 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
21614311 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21617483 original size:22 final size:22
Alignment explanation
Indices: 21617455--21617498 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21617445 GTTCGTGTAC
21617455 CTCCTTGCTCAAAAGAAGGATT
1 CTCCTTGCTCAAAAGAAGGATT
21617477 CTCCTTGCTCAAAAGAAGGATT
1 CTCCTTGCTCAAAAGAAGGATT
21617499 TATTTTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (22 bp):
CTCCTTGCTCAAAAGAAGGATT
Found at i:21618749 original size:29 final size:28
Alignment explanation
Indices: 21618696--21618771 Score: 116
Period size: 29 Copynumber: 2.7 Consensus size: 28
21618686 ATTGCATGAC
*
21618696 TATGAATGTGATTGGGCTTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
21618724 TATGAATGTGATATGGGCCTAATGGGCCA
1 TATGAATGTGAT-TGGGCCTAATGGGCCA
* *
21618753 TATGAAAGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
21618772 GGCTATATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:21619998 original size:18 final size:18
Alignment explanation
Indices: 21619977--21620048 Score: 128
Period size: 18 Copynumber: 4.1 Consensus size: 18
21619967 ACTTTAAAGA
21619977 AGGGTTTTCAATGAAAAC
1 AGGGTTTTCAATGAAAAC
*
21619995 AGGGTTTTCAATGAAAAT
1 AGGGTTTTCAATGAAAAC
21620013 AGGGTTTTCAATGAAAAC
1 AGGGTTTTCAATGAAAAC
21620031 AGGGTTTTCAAT-AAAAC
1 AGGGTTTTCAATGAAAAC
21620048 A
1 A
21620049 CTTCAATGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
17 6 0.12
18 46 0.88
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (18 bp):
AGGGTTTTCAATGAAAAC
Found at i:21630164 original size:40 final size:40
Alignment explanation
Indices: 21630109--21630188 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
21630099 AAACATAAAC
21630109 CATCCAATACATGCCATAATTTAGGTTTAGCTAATAAGGT
1 CATCCAATACATGCCATAATTTAGGTTTAGCTAATAAGGT
*
21630149 CATCCTATACATGCCATAATTTAGGTTTAGCTAATAAGGT
1 CATCCAATACATGCCATAATTTAGGTTTAGCTAATAAGGT
21630189 ACCAAATAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (40 bp):
CATCCAATACATGCCATAATTTAGGTTTAGCTAATAAGGT
Found at i:21632863 original size:16 final size:16
Alignment explanation
Indices: 21632842--21632872 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21632832 TGGCAAATCC
21632842 CAAAATGCCGAAAAGT
1 CAAAATGCCGAAAAGT
21632858 CAAAATGCCGAAAAG
1 CAAAATGCCGAAAAG
21632873 CTGGAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (16 bp):
CAAAATGCCGAAAAGT
Found at i:21633138 original size:29 final size:29
Alignment explanation
Indices: 21633096--21633179 Score: 127
Period size: 28 Copynumber: 2.9 Consensus size: 29
21633086 ATGACTATGG
21633096 ATGTGATTGGGCCTAATGGGCCATAT-AA
1 ATGTGATTGGGCCTAATGGGCCATATGAA
21633124 ATGTGATTTGGGCCTAATGGGCCATATGAA
1 ATGTGA-TTGGGCCTAATGGGCCATATGAA
* *
21633154 A-GAGATTGGGCCTAGTGGGCCATATG
1 ATGTGATTGGGCCTAATGGGCCATATG
21633180 CATGTATGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 26 0.50
29 23 0.44
30 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATGTGATTGGGCCTAATGGGCCATATGAA
Found at i:21633172 original size:28 final size:29
Alignment explanation
Indices: 21633100--21633179 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
21633090 CTATGGATGT
*
21633100 GATTGGGCCTAATGGGCCATAT-AAATGT
1 GATTGGGCCTAATGGGCCATATGAAATGA
21633128 GATTTGGGCCTAATGGGCCATATGAAA-GA
1 GA-TTGGGCCTAATGGGCCATATGAAATGA
*
21633157 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
21633180 CATGTATGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.46
29 23 0.48
30 3 0.06
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
GATTGGGCCTAATGGGCCATATGAAATGA
Found at i:21634304 original size:17 final size:18
Alignment explanation
Indices: 21634271--21634304 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21634261 TTTAAAGAAG
21634271 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
21634289 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
21634305 TTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:21637547 original size:28 final size:28
Alignment explanation
Indices: 21637493--21637554 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
21637483 ATTGCATGAC
*
21637493 TATGAATGTGATTGGGCTTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
21637521 TATGAATGTGATATGGGCCTAAT-GGCCA
1 TATGAATGTGAT-TGGGCCTAATGGGCCA
21637549 TATGAA
1 TATGAA
21637555 AAAGATTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 23 0.72
29 9 0.28
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.31
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:21638809 original size:17 final size:18
Alignment explanation
Indices: 21638776--21638809 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21638766 TTTAAAGAAG
21638776 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
21638794 GGTTTTCAAT-AAAACA
1 GGTTTTCAATGAAAACA
21638810 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:21642083 original size:14 final size:15
Alignment explanation
Indices: 21642064--21642092 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21642054 GTTTCCATTT
21642064 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
21642078 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
21642093 CTACAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:21643773 original size:30 final size:29
Alignment explanation
Indices: 21643679--21643780 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
21643669 TATAGTGAAT
* * *
21643679 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
21643708 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
21643736 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
21643766 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
21643781 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:21651655 original size:30 final size:29
Alignment explanation
Indices: 21651561--21651662 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
21651551 TATAGTGAAT
* * *
21651561 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
21651590 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
21651618 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
21651648 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
21651663 CAATCTAGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:21654734 original size:43 final size:42
Alignment explanation
Indices: 21654683--21654846 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
21654673 CATAGGATTT
21654683 TCGATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGTT-TCGTGTAAGACCACGTCTGGGACATTGGCA
* * * * *
21654726 TCGATATGTGATTTCGAGTAAGATCATGTCTGGGACATCGACA
1 TCGATATGTG-TTTCGTGTAAGACCACGTCTGGGACATTGGCA
* *
21654769 TCG-TAATTGTGATTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGAT-A-TGTGTTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
* * ** *
21654812 TCGACATGTGATTACAAGTAAGACCACATCTGGGA
1 TCGATATGTG-TTTCGTGTAAGACCACGTCTGGGA
21654847 TGTTGGAATT
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.05
43 84 0.88
44 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:21658761 original size:15 final size:15
Alignment explanation
Indices: 21658722--21658792 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
21658712 GTATCTTGGG
*
21658722 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
21658737 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
21658752 TTTCTTTATT-TCGGG
1 TTTCTTTATTCT-GGA
*
21658767 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
21658782 TTTCTTTATTC
1 TTTCTTTATTC
21658793 GCTTTTCTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.04
15 40 0.89
16 3 0.07
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:21660769 original size:46 final size:46
Alignment explanation
Indices: 21660719--21660894 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
21660709 TGGTTGAGCA
21660719 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21660765 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21660810 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21660858 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21660895 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21660875 original size:93 final size:93
Alignment explanation
Indices: 21660716--21660886 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
21660706 GGATGGTTGA
* *
21660716 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21660781 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21660809 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21660874 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21660887 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21664666 original size:46 final size:44
Alignment explanation
Indices: 21664541--21664666 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 44
21664531 TTATTATGGG
* *
21664541 CTAGTGTAAGACATGTTTGG-ACATGCATCGACCGCATTATGAGAGT
1 CTAGTGTAAGACATGTCTGGTACATGCATCG---GCATTATAAGAGT
21664587 C-AGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGA-AACGAGT
1 CTAGTGTAAGA-CATGTCTGGTACAT-GCATCGGCATT-ATAA-GAGT
21664633 CTTAGTGTAAGACATGTCTGGTACATGCATCGGC
1 C-TAGTGTAAGACATGTCTGGTACATGCATCGGC
21664667 CTCGAGATGT
Statistics
Matches: 71, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
45 15 0.21
46 23 0.32
47 18 0.25
48 15 0.21
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGTACATGCATCGGCATTATAAGAGT
Found at i:21664686 original size:46 final size:45
Alignment explanation
Indices: 21664543--21664708 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 45
21664533 ATTATGGGCT
* * * * *
21664543 AGTGTAAGACATGTTTGG-ACATGCATCGACCGC-ATTATGAGAGTC
1 AGTGTAAGACATGTCTGGTACATGCATCGGCCTCGA-AATGA-AGCC
* * * *
21664588 AGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGAAACG-AGTCTT
1 AGTGTAAGA-CATGTCTGGTACAT-GCATCGGCCTCGAAATGAAG-C-C
*
21664636 AGTGTAAGACATGTCTGGTACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGTACATGCATCGGCCTCGAAATG-AAGCC
* *
21664682 AGTGTAAGACATGTTTGGGACATGCAT
1 AGTGTAAGACATGTCTGGTACATGCAT
21664709 GGCTATGAGA
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
45 9 0.09
46 48 0.49
47 19 0.20
48 20 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGTACATGCATCGGCCTCGAAATGAAGCC
Found at i:21672316 original size:53 final size:55
Alignment explanation
Indices: 21672195--21672318 Score: 146
Period size: 53 Copynumber: 2.3 Consensus size: 55
21672185 ATTTAAGGAC
* * **
21672195 ACCATATAAGACCATGCCAAGGCATGATAATTGGTAAGGTTTCTAAGGCAAAGGT
1 ACCATGTAAGACCATGCCAAGGCATGAGAATTGGTAAGGTTAATAAGGCAAAGGT
* * *
21672250 CCCATGTAAGACCATGCCAAGGCATG-GCATTGGTGA-GTTAATAAGGC-AAGGAT
1 ACCATGTAAGACCATGCCAAGGCATGAGAATTGGTAAGGTTAATAAGGCAAAGG-T
*
21672303 ATCATGTAAGACCATG
1 ACCATGTAAGACCATG
21672319 TTGAGACATG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.07
53 24 0.41
54 7 0.12
55 24 0.41
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (55 bp):
ACCATGTAAGACCATGCCAAGGCATGAGAATTGGTAAGGTTAATAAGGCAAAGGT
Found at i:21672540 original size:18 final size:18
Alignment explanation
Indices: 21672517--21672553 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21672507 GAAAAAGGTA
21672517 AGTATATAATGTTCATGT
1 AGTATATAATGTTCATGT
21672535 AGTATATAATGTTCATGT
1 AGTATATAATGTTCATGT
21672553 A
1 A
21672554 TGCTTGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (18 bp):
AGTATATAATGTTCATGT
Found at i:21675755 original size:27 final size:28
Alignment explanation
Indices: 21675699--21675768 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
21675689 AAATTTGTAC
21675699 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
21675727 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
21675754 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
21675769 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:21678455 original size:46 final size:45
Alignment explanation
Indices: 21678311--21678477 Score: 149
Period size: 46 Copynumber: 3.6 Consensus size: 45
21678301 ATTGTGGGCT
* * * * *
21678311 AGTGTAAGACATGTTTAGGACATGCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGA-AGTC
* * * * * *
21678357 AATGTAACACCATGTTTGGGACGTGGCATCGGCATTGAGACG-AGTGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGAAGT-C
21678404 TAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTAAGTC
1 -AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-AAGTC
*
21678451 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTTTGGGACATGCAT
21678478 TGGCTATGAG
Statistics
Matches: 96, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
46 49 0.51
47 27 0.28
48 19 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGAAGTC
Found at i:21678489 original size:46 final size:44
Alignment explanation
Indices: 21678405--21678517 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 44
21678395 GACGAGTGCT
*
21678405 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT--GTC
* *
21678451 AGTGTAAGACATGTCTGGGACATGCATTGG-CTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTGTC
* *
21678495 GGTGTAAGACCATGTCCGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
21678518 CGGCATCGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 11 0.18
45 14 0.23
46 35 0.58
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTGTC
Found at i:21691818 original size:14 final size:14
Alignment explanation
Indices: 21691799--21691828 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
21691789 AGGGAAAGGA
21691799 AAAAGAAAAGTTCC
1 AAAAGAAAAGTTCC
21691813 AAAAGAAAAGTTCC
1 AAAAGAAAAGTTCC
21691827 AA
1 AA
21691829 GTTATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAAGAAAAGTTCC
Found at i:21693397 original size:27 final size:28
Alignment explanation
Indices: 21693366--21693454 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
21693356 TTGGGAAAAA
*
21693366 ATTAATAGGGTGTT-GGGTTAGAAATCG
1 ATTAATAGGGTGTTAGGGTTAGAAATTG
* *
21693393 ATTAACAAGGTTGATATAGGGTTAGAAATTTG
1 ATTAA-TAGGGTG-T-TAGGGTTAGAAA-TTG
*
21693425 ATTAATAGGGT-TTAGCGTTAGAAATTG
1 ATTAATAGGGTGTTAGGGTTAGAAATTG
21693452 ATT
1 ATT
21693455 GGTATATTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 11 0.22
28 16 0.31
29 2 0.04
30 1 0.02
31 14 0.27
32 7 0.14
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (28 bp):
ATTAATAGGGTGTTAGGGTTAGAAATTG
Found at i:21696657 original size:47 final size:45
Alignment explanation
Indices: 21696547--21696816 Score: 208
Period size: 47 Copynumber: 5.8 Consensus size: 45
21696537 TGATTTGTGC
* * * **
21696547 GCCAATGTAAGACATGTCTGGGATATGCTTCGGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGAT-AGA
*
21696593 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGAT-AGA
* *
21696641 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGACAGAGAT--A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C---ACAGAGATAGA
* * * * *
21696688 GCCAGTGTAAGACGTGTCTGGGATACGCATCGGCTA-AGAG-TTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATAGA
* * * *
21696732 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACACGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-G-AGAT-AGA
*
21696780 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
21696817 ATATATCCCA
Statistics
Matches: 178, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 30 0.17
45 1 0.01
46 20 0.11
47 60 0.34
48 33 0.19
49 12 0.07
50 16 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATAGA
Found at i:21696756 original size:91 final size:95
Alignment explanation
Indices: 21696592--21696816 Score: 257
Period size: 91 Copynumber: 2.4 Consensus size: 95
21696582 ACATTATGAG
*
21696592 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATAAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCACAGAGATAAGTGCTAGTGTAAGACATG
* *
21696657 TTTGGGACATGCATCGGCCTTGACAGAGAT
66 TCTAGGACATGCATCGGCCTTGACAGAGAT
* * *
21696687 AGCCAGTGTAAGA-CGTGTCTGGGATA-CGCATCGGCTA-AGAG-T-TGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGC-ACAGAGATAAGTGCTAGTGTAAGACAT
* ** *
21696747 GTCTAGGACATGCATCAGCACACGTATATGAG--
65 GTCTAGGACATGCATCGGC-CTTG-ACA-GAGAT
* *
21696779 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCA
21696817 ATATATCCCA
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
91 33 0.30
92 16 0.15
93 25 0.23
94 23 0.21
95 13 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCACAGAGATAAGTGCTAGTGTAAGACATG
TCTAGGACATGCATCGGCCTTGACAGAGAT
Found at i:21699090 original size:27 final size:26
Alignment explanation
Indices: 21699046--21699097 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21699036 CTCGCTGCAA
*
21699046 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
21699073 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
21699098 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:21699163 original size:70 final size:67
Alignment explanation
Indices: 21699027--21699167 Score: 185
Period size: 70 Copynumber: 2.1 Consensus size: 67
21699017 GAGGAAGCAT
* * *
21699027 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
21699092 TA
66 TA
* * *
21699094 TCTGGCAGCCTCGCTGCAATCT-GTGGCTTCGCCACATATATATATTTGTTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC----ATATATCTGTTCTGGTGACCTAGCC
21699158 ACAATA
62 ACAATA
21699164 TCTG
1 TCTG
21699168 TGTCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
66 12 0.19
67 22 0.34
70 30 0.47
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:21705264 original size:40 final size:40
Alignment explanation
Indices: 21705207--21705430 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
21705197 TCGAATGATG
* * *
21705207 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
21705247 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
21705287 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21705325 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21705365 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21705406 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21705431 AATGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 28 0.17
39 12 0.07
40 116 0.70
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21705328 original size:78 final size:79
Alignment explanation
Indices: 21705207--21705428 Score: 290
Period size: 78 Copynumber: 2.8 Consensus size: 79
21705197 TCGAATGATG
* * * *
21705207 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
*
21705271 CGTGCGAGTTACTAAT
64 CGTGCGAGTTACTAAA
* *
21705287 TCC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGT-CCGAAGGCATTC
21705350 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* *
21705365 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCC-GAAGGCATT
21705429 TGAATGAGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 54 0.43
79 22 0.17
80 47 0.37
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTCG
TGCGAGTTACTAAA
Found at i:21709730 original size:47 final size:46
Alignment explanation
Indices: 21709659--21709925 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 46
21709649 TGATTTGTGC
* **
21709659 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGA
*
21709705 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGA
* * * * *
21709753 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGA
* * * * * * * *
21709800 GCCAATGTAAGACGTGTCTAGGAAACGCATCAGCTA-AGAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGA
* * * * * *
21709844 GCTATTGCAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-AGATGAGA
* *
21709892 GCCAGTGTATGACCATGTTTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
21709926 ACAATATATC
Statistics
Matches: 167, Mismatches: 40, Indels: 24
0.72 0.17 0.10
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 4 0.02
46 20 0.12
47 62 0.37
48 35 0.21
49 13 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGA
Found at i:21712920 original size:33 final size:31
Alignment explanation
Indices: 21712878--21712957 Score: 99
Period size: 30 Copynumber: 2.5 Consensus size: 31
21712868 TAAATTATTT
21712878 TTGTATTGGTTATTGTCTATCATGTTGTATTAAA
1 TTGT-TTGGTTATTGTC-AT-ATGTTGTATTAAA
* *
21712912 TTGTTTGGTCATTG-CCTATGTTGTATTAAA
1 TTGTTTGGTTATTGTCATATGTTGTATTAAA
*
21712942 TTGTTTGGTTGTTGTC
1 TTGTTTGGTTATTGTC
21712958 CGCCTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 25 0.61
31 2 0.05
32 1 0.02
33 9 0.22
34 4 0.10
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.54
Consensus pattern (31 bp):
TTGTTTGGTTATTGTCATATGTTGTATTAAA
Found at i:21716020 original size:28 final size:28
Alignment explanation
Indices: 21715983--21716043 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
21715973 CAGTATCAAT
* *
21715983 ACAGTCTGGGCCTTAGCGCTATACAGTA
1 ACAGTCTGGGCCTAAGCGCAATACAGTA
* *
21716011 ACAGTGTGGGCCTAAGCTCAATACAGTA
1 ACAGTCTGGGCCTAAGCGCAATACAGTA
*
21716039 TCAGT
1 ACAGT
21716044 ACAGTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCGCAATACAGTA
Found at i:21716231 original size:27 final size:27
Alignment explanation
Indices: 21716199--21716280 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
21716189 AGCTGCCTGA
*
21716199 AATAGTAAATGTGGCAAAGCCACCAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
* *
21716226 ATTAGTAATTGTGGCATAGCCACCAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
* * * *
21716253 AACAGTGAATGTGACATAGTCACCAGT
1 AATAGTAAATGTGGCATAGCCACCAGT
21716280 A
1 A
21716281 CAGTACTTCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (27 bp):
AATAGTAAATGTGGCATAGCCACCAGT
Found at i:21717992 original size:105 final size:106
Alignment explanation
Indices: 21717826--21718035 Score: 298
Period size: 105 Copynumber: 2.0 Consensus size: 106
21717816 GCATGTGTAG
* *
21717826 TACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCAGGC
1 TACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCAGGC
* ** *
21717891 TACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
66 TACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACTAA
* * * *
21717933 TACTAAGTGCAAGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAGTGCAGGC
1 TACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCAGGC
*
21717996 TGCTACGTGTACCAGATAATTGGTCACATGTGTAGTACTA
66 TACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTA
21718036 TGTGTAGGCT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 18 0.20
105 45 0.49
106 1 0.01
107 28 0.30
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (106 bp):
TACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAGTGCAGGC
TACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAA
Found at i:21718062 original size:49 final size:49
Alignment explanation
Indices: 21717819--21718049 Score: 255
Period size: 49 Copynumber: 4.5 Consensus size: 49
21717809 TGAGGTCGCA
* * * * *
21717819 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
21717870 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
21717920 TGTGTAGTACTAATACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAG------TACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
21717975 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCAGATAATTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* *
21718024 TGTGTAGTACTATGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
21718050 TGCATACCAG
Statistics
Matches: 153, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 62 0.41
50 14 0.09
51 33 0.22
55 14 0.09
56 30 0.20
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:21720814 original size:21 final size:21
Alignment explanation
Indices: 21720788--21720829 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21720778 CAGGTTGTCA
21720788 TGGTATCTTTCAACCATGGTC
1 TGGTATCTTTCAACCATGGTC
21720809 TGGTATCTTTCAACCATGGTC
1 TGGTATCTTTCAACCATGGTC
21720830 CTACACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (21 bp):
TGGTATCTTTCAACCATGGTC
Found at i:21720817 original size:67 final size:67
Alignment explanation
Indices: 21720742--21720872 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
21720732 CACGTTGCCA
* * *
21720742 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCAACCATGG
1 TGGTATCTTTCAACCATGGTCCTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
21720807 TC
66 TC
21720809 TGGTATCTTTCAACCATGGTCCTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATG
1 TGGTATCTTTCAACCATGGTCCTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATG
21720873 ATCTTACACA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (67 bp):
TGGTATCTTTCAACCATGGTCCTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCATGG
TC
Found at i:21720820 original size:46 final size:46
Alignment explanation
Indices: 21720595--21720809 Score: 288
Period size: 46 Copynumber: 4.6 Consensus size: 46
21720585 TTTGACATGA
* * * *
21720595 TGCCATAGTGTCTTTCAACTATGGTCTTCCTCATTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTCA-TTTCATATCACGT
* *
21720645 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
21720691 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
** *
21720737 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
*
21720783 TGTCATGGTATCTTTCAACCATGGTCT
1 TGCCATGGTATCTTTCAACCATGGTCT
21720810 GGTATCTTTC
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
45 4 0.03
46 123 0.81
47 1 0.01
49 1 0.01
50 23 0.15
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
Found at i:21723010 original size:2 final size:2
Alignment explanation
Indices: 21723003--21723028 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21722993 TGTTTTACTT
21723003 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21723029 ATAACAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21727305 original size:27 final size:26
Alignment explanation
Indices: 21727275--21727366 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
21727265 AACATAGCTG
21727275 CCAGAAATAGTAAATGTGGCAAAGCCA
1 CCAG-AATAGTAAATGTGGCAAAGCCA
* * *
21727302 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAAT-AGTAAATGTGGCAAAGCCA
* * * * *
21727329 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAG-AATAGTAAATGTGGCAAAGCCA
*
21727356 CCAGTATAGTA
1 CCAGAATAGTA
21727367 CTTCCTCCAT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
26 6 0.12
27 44 0.86
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGAATAGTAAATGTGGCAAAGCCA
Found at i:21727562 original size:27 final size:26
Alignment explanation
Indices: 21727501--21727567 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
21727491 AAGGCATAAT
* *
21727501 CGTCATTTTATCATACAGGGGTATTA
1 CGTCATTTTACCTTACAGGGGTATTA
* *
21727527 CGATTATTTTACCTTATAGGGGTATTA
1 CG-TCATTTTACCTTACAGGGGTATTA
21727554 CAGTCATTTTACCT
1 C-GTCATTTTACCT
21727568 ATTTTGGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (26 bp):
CGTCATTTTACCTTACAGGGGTATTA
Found at i:21733100 original size:15 final size:15
Alignment explanation
Indices: 21733076--21733110 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21733066 AACAATATTG
*
21733076 TTCATTCATATTCAA
1 TTCATACATATTCAA
21733091 TTCATACATATTCAA
1 TTCATACATATTCAA
*
21733106 ATCAT
1 TTCAT
21733111 GGGTCTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (15 bp):
TTCATACATATTCAA
Found at i:21734284 original size:5 final size:5
Alignment explanation
Indices: 21734274--21734357 Score: 168
Period size: 5 Copynumber: 16.8 Consensus size: 5
21734264 ATTTAAATGC
21734274 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
21734324 TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATA
21734358 TATTTTACTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 79 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:21734421 original size:37 final size:36
Alignment explanation
Indices: 21734349--21734418 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
21734339 TATAATATAA
* * *
21734349 TATAATATATATTTTACTTAAATTTTAAGATTTTAT
1 TATAATATATAATATACTTAAACTTTAAGATTTTAT
*
21734385 TATAATATTATAATATATTTAAACTTTAA-ATTTT
1 TATAATA-TATAATATACTTAAACTTTAAGATTTT
21734419 TATACTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.41
37 17 0.59
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (36 bp):
TATAATATATAATATACTTAAACTTTAAGATTTTAT
Found at i:21736781 original size:26 final size:26
Alignment explanation
Indices: 21736737--21736794 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
21736727 ATTTTCTCAG
* * *
21736737 AATTTTACTAGGGGCAAAATAGTTAA
1 AATTTTACCAAGGGCAAAATAGTCAA
* *
21736763 AATTTTACCAAGGGTAAAATCGTCAA
1 AATTTTACCAAGGGCAAAATAGTCAA
21736789 AATTTT
1 AATTTT
21736795 GTTAGGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (26 bp):
AATTTTACCAAGGGCAAAATAGTCAA
Found at i:21739400 original size:12 final size:11
Alignment explanation
Indices: 21739368--21739400 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
21739358 TATTTTAGGT
21739368 TTAGTTTTCTC
1 TTAGTTTTCTC
21739379 TTAGTTTTCTC
1 TTAGTTTTCTC
21739390 TTAGCTTTTCT
1 TTAG-TTTTCT
21739401 TTCTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (11 bp):
TTAGTTTTCTC
Found at i:21741894 original size:18 final size:18
Alignment explanation
Indices: 21741871--21741906 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21741861 ATCTGCATTG
* *
21741871 GTTTAAAGCCATTTCAAA
1 GTTTAAAACCAATTCAAA
21741889 GTTTAAAACCAATTCAAA
1 GTTTAAAACCAATTCAAA
21741907 ACAATCCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (18 bp):
GTTTAAAACCAATTCAAA
Found at i:21742752 original size:22 final size:22
Alignment explanation
Indices: 21742692--21742755 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
21742682 GCACTAATAT
21742692 AACAGTAGGCATCGAAGTGCAA
1 AACAGTAGGCATCGAAGTGCAA
* ** *
21742714 ATCACAAAGCATCGAAGTGCAA
1 AACAGTAGGCATCGAAGTGCAA
21742736 AACAGTAGGCA-CAGAAGTGC
1 AACAGTAGGCATC-GAAGTGC
21742756 GGAACGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (22 bp):
AACAGTAGGCATCGAAGTGCAA
Found at i:21742922 original size:21 final size:21
Alignment explanation
Indices: 21742892--21742936 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21742882 TATCATGCAC
*
21742892 ACATATCACTTTTACACTTTT
1 ACATAACACTTTTACACTTTT
* *
21742913 ACATAACACTTTTATATTTTT
1 ACATAACACTTTTACACTTTT
21742934 ACA
1 ACA
21742937 ATTTAGTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
ACATAACACTTTTACACTTTT
Found at i:21748640 original size:27 final size:26
Alignment explanation
Indices: 21748607--21748704 Score: 106
Period size: 27 Copynumber: 3.7 Consensus size: 26
21748597 AATAACCGAA
*
21748607 ATAGGGTAAAATGACTAAAATACCACC
1 ATAGGGTAAAATGACTAAAATACC-CT
* *
21748634 ATAGGGTAAAATGATTGAAATATCCCT
1 ATAGGGTAAAATGACTAAAATA-CCCT
* **
21748661 GTAGGGTAAAATGACTGTAATACCTCT
1 ATAGGGTAAAATGACTAAAATACC-CT
*
21748688 ATAAGGTAAAATGACTA
1 ATAGGGTAAAATGACTA
21748705 TTTTGCCCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 56 0.93
28 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (26 bp):
ATAGGGTAAAATGACTAAAATACCCT
Found at i:21748725 original size:54 final size:54
Alignment explanation
Indices: 21748667--21748769 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
21748657 CCCTGTAGGG
* *
21748667 TAAAATGACTGTAATA-CCTCTATAAGGTAAAATGACTATTTTGCCCTTACATGT
1 TAAAATAACAGTAATACCCT-TATAAGGTAAAATGACTATTTTGCCCTTACATGT
** *
21748721 TAAAATAACAGTTTTGCCCTTATAAGGTAAAATGACTATTTTGCCCTTA
1 TAAAATAACAGTAATACCCTTATAAGGTAAAATGACTATTTTGCCCTTA
21748770 TGTGGTAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 40 0.93
55 3 0.07
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (54 bp):
TAAAATAACAGTAATACCCTTATAAGGTAAAATGACTATTTTGCCCTTACATGT
Found at i:21748770 original size:27 final size:27
Alignment explanation
Indices: 21748687--21748793 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
21748677 GTAATACCTC
21748687 TATAAGGTAAAATGACTATTTTGCCCT
1 TATAAGGTAAAATGACTATTTTGCCCT
* * * *
21748714 TACATGTTAAAATAAC-AGTTTTGCCCT
1 TATAAGGTAAAATGACTA-TTTTGCCCT
21748741 TATAAGGTAAAATGACTATTTTGCCCT
1 TATAAGGTAAAATGACTATTTTGCCCT
** ** *
21748768 TATGTGGTAGGATGACTGTTTTGCCC
1 TATAAGGTAAAATGACTATTTTGCCC
21748794 CTATGTGATG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 63 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (27 bp):
TATAAGGTAAAATGACTATTTTGCCCT
Found at i:21749155 original size:18 final size:18
Alignment explanation
Indices: 21749129--21749183 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
21749119 GGACTTGCAT
*
21749129 ACTGCTTACTATTACTAC
1 ACTGATTACTATTACTAC
*
21749147 ACTGATTACTATTACTGC
1 ACTGATTACTATTACTAC
*
21749165 ACTGTTTACTATTACTAC
1 ACTGATTACTATTACTAC
21749183 A
1 A
21749184 ATAGGCCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (18 bp):
ACTGATTACTATTACTAC
Found at i:21754357 original size:47 final size:44
Alignment explanation
Indices: 21754297--21754421 Score: 117
Period size: 48 Copynumber: 2.7 Consensus size: 44
21754287 GATGTGTGCT
* * *
21754297 AGTGCAAGACATGTTTGCGACATGCATCGGC-TACATTATGAGAGCC
1 AGTGTAAGACATGTTTG-GACATGCATCGGCATA-A-GACGAGAGCC
* * *
21754343 AGTGTAAGACCATGTTTGGAACTTGGCATTGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGG-ACAT-GCATCGGCA-TAAGACGAGAGCC
21754391 AGTGTAAGACATGTTTGGGACATGCATCGGC
1 AGTGTAAGACATGTTT-GGACATGCATCGGC
21754422 CTCGAGATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
46 16 0.25
47 21 0.32
48 25 0.38
49 1 0.02
50 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGACATGCATCGGCATAAGACGAGAGCC
Found at i:21754554 original size:92 final size:95
Alignment explanation
Indices: 21754294--21754564 Score: 247
Period size: 92 Copynumber: 2.9 Consensus size: 95
21754284 ATGGATGTGT
* * * * *
21754294 GCTAGTGCAAGACATGTTTGCGACATGCATCGG-CTAC-A-TTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACT-CGAGATATGCGAGCCAGTGTAAGACCAT
*
21754356 GTTTGGAACTTGGCATTGGCATTAAGACGAGA
65 GTTTGGAACATGGCATTGGCATT-AGACGAGA
* * * * *
21754388 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGCAAGCTAGTGTGAGACC-TG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATATGCGAGCCAGTGTAAGACCATG
* * *
21754452 TCTGGGACATGGCATTGGC-TT-GAC-ATGT
66 TTTGGAACATGGCATTGGCATTAGACGA-GA
* * * * *
21754480 G-TCAGTGTAAGACTTGTCTGGGACATGGCATC-GACT-TAGATGTGTGAGCCAGTGTAAAACCA
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGACTCGAGATATGCGAGCCAGTGTAAGACCA
*
21754542 TGTTTGGAACATGGCATCGGCAT
64 TGTTTGGAACATGGCATTGGCAT
21754565 CGTACCCTAT
Statistics
Matches: 145, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
91 20 0.14
92 47 0.32
93 6 0.04
94 34 0.23
95 21 0.14
96 17 0.12
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATATGCGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATTGGCATTAGACGAGA
Found at i:21761812 original size:45 final size:45
Alignment explanation
Indices: 21761626--21761813 Score: 241
Period size: 45 Copynumber: 4.2 Consensus size: 45
21761616 GGTACTAAGG
* ** * *
21761626 CATTTTGATCATGACACCATAGCATTTTTCAGTTATGGTCTTACT
1 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
* ** ** *
21761671 CATTTTGATCATGACACCATAGCATCTTTCAATTATAGTCTTACT
1 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
21761716 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
1 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
* * * *
21761761 TATTTTTATTATGATGCCATAGCATCTTTCACCTATGGTCATACT
1 CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
21761806 CATTTTTA
1 CATTTTTA
21761814 GGCATATAGC
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (45 bp):
CATTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACT
Found at i:21768059 original size:46 final size:46
Alignment explanation
Indices: 21768007--21768326 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
21767997 AGTGTGCTCT
21768007 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21768053 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21768099 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
21768145 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
21768191 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
21768237 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
21768283 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
21768327 TCATGTCAAA
Statistics
Matches: 258, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 257 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:21770093 original size:27 final size:27
Alignment explanation
Indices: 21770030--21770094 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
21770020 GTGTTTACAA
* * *
21770030 TCCCGGTGGACTATCTCCTATTTATTG
1 TCCCAGTGGACTATCTCATATTTAGTG
* *
21770057 T-CCTGTTGGACTATCTCATGTTTAGTG
1 TCCCAG-TGGACTATCTCATATTTAGTG
21770084 TCCCAGTGGAC
1 TCCCAGTGGAC
21770095 AATCAAAGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 3 0.10
27 25 0.81
28 3 0.10
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
TCCCAGTGGACTATCTCATATTTAGTG
Found at i:21770226 original size:45 final size:45
Alignment explanation
Indices: 21770168--21770342 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 45
21770158 TTAATTTGAT
* **
21770168 GCCATAACGTCTTTCAGTTATGGTCTTACTCATTTTTATCATGAC
1 GCCATAACATCTTTCAACTATGGTCTTACTCATTTTTATCATGAC
* *
21770213 GCCATAGCATCTTTCAA-TAATGGTCTTACTCATTTTTTTATCATGGC
1 GCCATAACATCTTTCAACT-ATGGTCTTACTCA--TTTTTATCATGAC
* * ** * * * *
21770260 TCAATGTCATCTTTTAGCTATGATCTTACTCATTTTTATCATCAC
1 GCCATAACATCTTTCAACTATGGTCTTACTCATTTTTATCATGAC
*
21770305 GCCAAAACATCTTTCAACTATGGTCTTACTCATTTTTA
1 GCCATAACATCTTTCAACTATGGTCTTACTCATTTTTA
21770343 GGGGTATAGC
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.01
45 68 0.65
47 35 0.33
48 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (45 bp):
GCCATAACATCTTTCAACTATGGTCTTACTCATTTTTATCATGAC
Found at i:21771751 original size:4 final size:4
Alignment explanation
Indices: 21771744--21771768 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21771734 ATCTAGTTAG
21771744 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
21771769 ATTTTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:21780200 original size:68 final size:68
Alignment explanation
Indices: 21780091--21780230 Score: 244
Period size: 68 Copynumber: 2.1 Consensus size: 68
21780081 GTTTATGACC
* *
21780091 AGAAGAAACCCGTCAGGACTATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCG
1 AGAAGAAACCCGTCAAGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCG
21780156 AAG
66 AAG
* *
21780159 AGAAGAAACCTGTCAAGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCT
1 AGAAGAAACCCGTCAAGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCG
21780224 AAG
66 AAG
21780227 AGAA
1 AGAA
21780231 ATAAGGCGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (68 bp):
AGAAGAAACCCGTCAAGACCATTACTGTTTGATAGTGAGATTGATCGCACAGTTCGCAGAAATCG
AAG
Found at i:21785548 original size:30 final size:28
Alignment explanation
Indices: 21785512--21785567 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
21785502 AAGCGAAAAA
* *
21785512 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
21785542 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
21785568 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:21791882 original size:13 final size:13
Alignment explanation
Indices: 21791864--21791889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21791854 CTCAACAGGG
21791864 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21791877 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21791890 CGATTACTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:21793804 original size:29 final size:29
Alignment explanation
Indices: 21793771--21793872 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
21793761 TGACGAGATC
21793771 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
21793800 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
21793829 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
21793858 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
21793873 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:21801824 original size:29 final size:29
Alignment explanation
Indices: 21801791--21801892 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
21801781 TGACGAGATC
21801791 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
21801820 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
21801849 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
21801878 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
21801893 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:21809488 original size:21 final size:20
Alignment explanation
Indices: 21809464--21809502 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21809454 CCGTGTTGAT
*
21809464 TTCGTACTTTGGTCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
21809485 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
21809503 CTCATTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:21815243 original size:2 final size:2
Alignment explanation
Indices: 21815236--21815268 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
21815226 GCATTAACAC
*
21815236 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21815269 CATCACCATC
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:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:21819883 original size:56 final size:56
Alignment explanation
Indices: 21819817--21819980 Score: 211
Period size: 56 Copynumber: 2.9 Consensus size: 56
21819807 CATGGCATCA
21819817 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCCG
* * * * **
21819873 ATATAAGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTAAATTTTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGT-GACTCCG
* * * ** *
21819930 ATATATGTGTGAGAGTAAGACCATGTCTAGCACGTTGGCATTGATATGTGA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA
21819981 TTACATGTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 48 0.52
57 44 0.48
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTCCG
Found at i:21821482 original size:168 final size:168
Alignment explanation
Indices: 21821192--21821530 Score: 615
Period size: 168 Copynumber: 2.0 Consensus size: 168
21821182 TGAGAACTAT
*
21821192 ATGGTTTAAATTAATATGGTCTTATGCATATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
1 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
* * *
21821257 GATTTGGATTGGTTTTTGATCATTCAGATTAGGTATGCTATGAAATGTCTTTGATGTTCAAAAAT
66 GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAACGTCTGTGATGTTCAAAAAT
21821322 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
131 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
21821360 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
1 ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
* *
21821425 GATTTGGATTGGTTTTTGATCATTCGGATCAGGTATGCTATGAAACGTCTGTGATGTTCGAAAAT
66 GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAACGTCTGTGATGTTCAAAAAT
*
21821490 GATTAAAGATATTATAGTGGATTACAGATGAATTAGTA
131 GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
21821528 ATG
1 ATG
21821531 CACATGATTA
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
168 164 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (168 bp):
ATGGTTTAAATTAATATGGTCTTATGCACATAGTCTTGAGATGGGTTAAAATGGCTAGGCATATT
GATTTGGATTGGTTTTTGATCATTCAGATCAGGTATGCTATGAAACGTCTGTGATGTTCAAAAAT
GATTAAAGATATTATAGTGGATTACACATGAATTAGTA
Found at i:21834656 original size:39 final size:39
Alignment explanation
Indices: 21834613--21834756 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
21834603 GAATGTTCGA
*
21834613 GTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
21834652 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
21834691 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
21834730 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
21834757 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:21834703 original size:78 final size:79
Alignment explanation
Indices: 21834614--21834784 Score: 263
Period size: 78 Copynumber: 2.2 Consensus size: 79
21834604 AATGTTCGAG
21834614 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
21834678 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
21834692 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
21834757 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** *
21834771 CCATAACCGGGCTA
1 TGATATCCGGGCTA
21834785 TGTCCCGAAG
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 53 0.63
79 31 0.37
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:21841051 original size:23 final size:23
Alignment explanation
Indices: 21841017--21841072 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
21841007 TAGGGAGGCC
*
21841017 TTGTGGACTTGCAACGGCTAGGG
1 TTGTGGATTTGCAACGGCTAGGG
21841040 TTGTGGATTTGCAACGGCTAGGG
1 TTGTGGATTTGCAACGGCTAGGG
21841063 TTAG-GGATTT
1 TT-GTGGATTT
21841073 TGGGTGAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 30 0.97
24 1 0.03
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (23 bp):
TTGTGGATTTGCAACGGCTAGGG
Found at i:21846563 original size:40 final size:40
Alignment explanation
Indices: 21846471--21846620 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
21846461 AATTGAATGA
* * * *
21846471 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
21846510 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
21846551 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
21846590 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
21846621 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:21846634 original size:40 final size:40
Alignment explanation
Indices: 21846510--21846636 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
21846500 GCTGGAAATT
* * * * *
21846510 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
21846550 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
21846590 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
21846630 TATCCGG
1 TATCCGG
21846637 TTATATTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:21854494 original size:40 final size:40
Alignment explanation
Indices: 21854428--21854594 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
21854418 AAATTGAATG
* * *
21854428 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
21854467 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
21854507 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
21854547 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
21854587 ATATCCGG
1 ATATCCGG
21854595 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:21854860 original size:72 final size:72
Alignment explanation
Indices: 21854757--21854901 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
21854747 TCAGTTATTG
21854757 AATTGATTGATACTTTGTGAAATTATATAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGAA
1 AATTGATTGATACTTTGTGAAATTATATAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGAA
21854822 ATGATGC
66 ATGATGC
21854829 AATTGATTGATACTTTGTGAAATTATATAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGAA
1 AATTGATTGATACTTTGTGAAATTATATAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGAA
21854894 ATGATGC
66 ATGATGC
21854901 A
1 A
21854902 TTTGGCTATG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (72 bp):
AATTGATTGATACTTTGTGAAATTATATAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGAA
ATGATGC
Found at i:21854861 original size:36 final size:35
Alignment explanation
Indices: 21854755--21854865 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 35
21854745 TTTCAGTTAT
21854755 TGAATTGATTGATACTTTGTGAAATTATATAATGA
1 TGAATTGATTGATACTTTGTGAAATTATATAATGA
* *** *
21854790 TGAAGTG--TGAAGTAAGAATGTG-TATTA-ATGAAATGA
1 TGAATTGATTG-A-T-ACTTTGTGAAATTATAT--AATGA
21854826 TGCAATTGATTGATACTTTGTGAAATTATATAATGA
1 TG-AATTGATTGATACTTTGTGAAATTATATAATGA
21854862 TGAA
1 TGAA
21854866 GTGTGAAGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 20
0.65 0.12 0.23
Matches are distributed among these distances:
33 2 0.04
34 3 0.05
35 13 0.23
36 24 0.43
37 9 0.16
38 3 0.05
39 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.21, T:0.38
Consensus pattern (35 bp):
TGAATTGATTGATACTTTGTGAAATTATATAATGA
Found at i:21854897 original size:36 final size:36
Alignment explanation
Indices: 21854785--21854899 Score: 105
Period size: 36 Copynumber: 3.2 Consensus size: 36
21854775 GAAATTATAT
21854785 AATGATGAAGTGTGAAGTAAGAATGTGTATTAATGA
1 AATGATGAAGTGTGAAGTAAGAATGTGTATTAATGA
* *** *
21854821 AATGATGCAA-T-TG-ATTGATACTTTGTGAAATT-AT-A
1 AATGATG-AAGTGTGAAGT-A-AGAATGTG-TATTAATGA
21854856 TAATGATGAAGTGTGAAGTAAGAATGTGTATTAATGA
1 -AATGATGAAGTGTGAAGTAAGAATGTGTATTAATGA
21854893 AATGATG
1 AATGATG
21854900 CATTTGGCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
34 2 0.03
35 9 0.15
36 37 0.63
37 9 0.15
38 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (36 bp):
AATGATGAAGTGTGAAGTAAGAATGTGTATTAATGA
Found at i:21856042 original size:14 final size:13
Alignment explanation
Indices: 21856019--21856050 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21856009 GGGATATCAA
21856019 AACAATAATTAAG
1 AACAATAATTAAG
21856032 AACACATAATTAAG
1 AACA-ATAATTAAG
21856046 AACAA
1 AACAA
21856051 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:21857532 original size:13 final size:13
Alignment explanation
Indices: 21857516--21857548 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21857506 TTTAATTAAA
*
21857516 TTAGTTAATTAGT
1 TTAGATAATTAGT
21857529 TTAGATAATTAGT
1 TTAGATAATTAGT
21857542 TTA-ATAA
1 TTAGATAA
21857549 ACAAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21862942 original size:6 final size:6
Alignment explanation
Indices: 21862931--21863012 Score: 91
Period size: 6 Copynumber: 14.3 Consensus size: 6
21862921 AATCCTCCTA
21862931 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTTA- -TTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * *
21862975 TTTTAT TCTTAT TTTTCT TTTGAA TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
21863013 CAATTTTCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 51 0.80
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:21863017 original size:17 final size:17
Alignment explanation
Indices: 21862930--21863019 Score: 71
Period size: 17 Copynumber: 5.3 Consensus size: 17
21862920 GAATCCTCCT
*
21862930 ATTTTATTTTTATTTTTA
1 ATTTTATTTTCA-TTTTA
* *
21862948 TTTTTATTTTTATTTTA
1 ATTTTATTTTCATTTTA
*
21862965 TTTTTA-TTT-ATTTT-
1 ATTTTATTTTCATTTTA
21862979 ATTCTTATTTTTC-TTTTGA
1 ATT-TTA-TTTTCATTTT-A
*
21862998 ATTTTATTTTCATTTCA
1 ATTTTATTTTCATTTTA
21863015 ATTTT
1 ATTTT
21863020 CTTATTTTGA
Statistics
Matches: 62, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
14 2 0.03
15 8 0.13
16 3 0.05
17 29 0.47
18 17 0.27
19 3 0.05
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (17 bp):
ATTTTATTTTCATTTTA
Found at i:21863022 original size:38 final size:38
Alignment explanation
Indices: 21862939--21863027 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
21862929 TATTTTATTT
* * * *
21862939 TTATTTTTATTTTTATTTTTATTTTATTTTTATTTATT
1 TTATTCTTATTTTTATTTTAATTTTATTTTCATTTATA
*
21862977 TTATTCTTATTTTTCTTTTGAATTTTATTTTCATTTCA-A
1 TTATTCTTATTTTTATTTT-AATTTTATTTTCATTT-ATA
21863016 TT-TTCTTATTTT
1 TTATTCTTATTTT
21863028 GAAAGACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 27 0.61
39 16 0.36
40 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (38 bp):
TTATTCTTATTTTTATTTTAATTTTATTTTCATTTATA
Found at i:21863025 original size:44 final size:44
Alignment explanation
Indices: 21862933--21863025 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
21862923 TCCTCCTATT
* * * ** *
21862933 TTATTTTTATTTTTATTTTTATTTTTATTTTATTTTTATTTATT
1 TTATTCTTATTTTTATTTTGAATTTTATTTTATTTCAATTTATC
*
21862977 TTATTCTTATTTTTCTTTTGAATTTTATTTTCATTTCAATTT-TC
1 TTATTCTTATTTTTATTTTGAATTTTATTTT-ATTTCAATTTATC
21863021 TTATT
1 TTATT
21863026 TTGAAAGACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 33 0.80
45 8 0.20
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (44 bp):
TTATTCTTATTTTTATTTTGAATTTTATTTTATTTCAATTTATC
Found at i:21865929 original size:13 final size:13
Alignment explanation
Indices: 21865913--21865945 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21865903 TTTAATTAAA
*
21865913 TTAGTTAATTAGT
1 TTAGATAATTAGT
21865926 TTAGATAATTAGT
1 TTAGATAATTAGT
21865939 TTA-ATAA
1 TTAGATAA
21865946 ACAAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:21870398 original size:55 final size:55
Alignment explanation
Indices: 21870293--21870400 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
21870283 ACCATGGGTG
* * * * *
21870293 TTCCACACGGGCGTGTCGAACGCCCGTGTTGTTTTAATAGGTTCGCCCACGATTC
1 TTCCACACGGGCGTGTCGAACACCAGTGTTGTTTTAACAGGCTCGACCACGATTC
* * **
21870348 TTCCACATGGGCGTGTCGCACACCAGTGTTGTTTTGGCAGGCTCGACCACGAT
1 TTCCACACGGGCGTGTCGAACACCAGTGTTGTTTTAACAGGCTCGACCACGAT
21870401 CTTATCGCAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.28
Consensus pattern (55 bp):
TTCCACACGGGCGTGTCGAACACCAGTGTTGTTTTAACAGGCTCGACCACGATTC
Found at i:21875709 original size:14 final size:13
Alignment explanation
Indices: 21875686--21875717 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21875676 GGGATATCAA
21875686 AACAATAATTAAG
1 AACAATAATTAAG
21875699 AACACATAATTAAG
1 AACA-ATAATTAAG
21875713 AACAA
1 AACAA
21875718 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:21892077 original size:6 final size:6
Alignment explanation
Indices: 21892025--21892107 Score: 67
Period size: 6 Copynumber: 12.3 Consensus size: 6
21892015 TTTAAAAATA
**
21892025 TTTATT TATTATT TTATATT TTTAATT TTTATT AAAACTACTT TTTATT
1 TTTATT T-TTATT TT-TATT TTT-ATT TTTATT ---TTTA-TT TTTATT
21892074 TTTATTTT TTTATT TTTATT TTTATT TTTATT TT
1 TTTA--TT TTTATT TTTATT TTTATT TTTATT TT
21892108 AGTATATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
6 34 0.53
7 20 0.31
8 6 0.09
9 2 0.03
10 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:21902185 original size:21 final size:22
Alignment explanation
Indices: 21902146--21902191 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21902136 GTACTTTTTA
* *
21902146 TTTAATTTTCCTTTATTATTAT
1 TTTAATTTTACTTTATTATAAT
*
21902168 TTTAATTTTAGTTT-TTATAAT
1 TTTAATTTTACTTTATTATAAT
21902189 TTT
1 TTT
21902192 TATTGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTAATTTTACTTTATTATAAT
Found at i:21907636 original size:44 final size:44
Alignment explanation
Indices: 21907586--21907676 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
21907576 TCCCCCAATT
21907586 GAACTTTAGACTCCTTACTAGATACATCAGAAATGTTATCTTTG
1 GAACTTTAGACTCCTTACTAGATACATCAGAAATGTTATCTTTG
21907630 GAACTTTAGACTCCTTACTAGATACATCAGAAATGTTATCTTTG
1 GAACTTTAGACTCCTTACTAGATACATCAGAAATGTTATCTTTG
21907674 GAA
1 GAA
21907677 GTGAATGCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (44 bp):
GAACTTTAGACTCCTTACTAGATACATCAGAAATGTTATCTTTG
Found at i:21909865 original size:42 final size:42
Alignment explanation
Indices: 21909816--21909923 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
21909806 TAAGATCCCA
* * * *
21909816 TATAAGACCATATCTGGGATATGGCGTTGACATGAGATTTCG
1 TATAAGACCATATCTGGGACATGGCGTCGAAATGAGAATTCG
* ** *
21909858 TGTAAGACCACGTCTGAGACATGGCGTCGAAATGAGAATTCG
1 TATAAGACCATATCTGGGACATGGCGTCGAAATGAGAATTCG
* *
21909900 TATAAGACTATATATGGGACATGG
1 TATAAGACCATATCTGGGACATGG
21909924 AATTAATGTG
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (42 bp):
TATAAGACCATATCTGGGACATGGCGTCGAAATGAGAATTCG
Found at i:21914929 original size:27 final size:27
Alignment explanation
Indices: 21914886--21915091 Score: 220
Period size: 27 Copynumber: 7.7 Consensus size: 27
21914876 TACTGAAATG
* *
21914886 CCCTC-ATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21914912 CCCTCGATTTATAAAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * * *
21914939 CCCAC-ATTTACAAAATTATCGTTTCA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
21914965 CCCACGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21914992 CCTTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
21915019 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21915046 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
21915073 CCTTCGA-TTGTAAAATTAC
1 CCCTCGATTTATAAAATTAC
21915092 TGAAATACCC
Statistics
Matches: 156, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 39 0.25
27 117 0.75
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:21915063 original size:81 final size:80
Alignment explanation
Indices: 21914899--21915091 Score: 244
Period size: 80 Copynumber: 2.4 Consensus size: 80
21914889 TCATTTGTAG
* * * *
21914899 AATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCACATTTACAAAATTATCGTTTC
1 AATTACCATTTTACCTTCGATTTATAAAATTACCATTTCACCCACATTTACAAAATTACCATTTC
*
21914964 ACCCACGATTTACAA
66 ACCCACAATTTACAA
* * * * * *
21914979 AATTATCGTTTTACCTTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTT
1 AATTACCATTTTACCTTCGATTTATAAAATTACCATTTCACCCAC-ATTTACAAAATTACCATTT
* *
21915044 TACCCTCAATTTACAA
65 CACCCACAATTTACAA
*
21915060 AATTACCATTTTACCTTCGA-TTGTAAAATTAC
1 AATTACCATTTTACCTTCGATTTATAAAATTAC
21915092 TGAAATACCC
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 48 0.51
81 47 0.49
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (80 bp):
AATTACCATTTTACCTTCGATTTATAAAATTACCATTTCACCCACATTTACAAAATTACCATTTC
ACCCACAATTTACAA
Found at i:21915113 original size:107 final size:106
Alignment explanation
Indices: 21914896--21915120 Score: 242
Period size: 107 Copynumber: 2.1 Consensus size: 106
21914886 CCCTCATTTG
* * *
21914896 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTCACCCACATTTACAAAATTATCGT
1 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCACATTTACAAAATTACCAT
*** * **
21914961 TTCACCCACGATTTACAAAATTATCGTTTTACCTTCGATTTA
66 TTCACCCACGATTTA-AAAATTATCGAAATACCCTCGATGGA
* *
21915003 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAAAATTACCA
1 TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCAC-ATTTACAAAATTACCA
* **
21915068 TTTTACCTTCGATTGT-AAAATTA-CTGAAATACCC-CTG-TAGGA
65 TTTCACCCACGATT-TAAAAATTATC-GAAATACCCTC-GAT-GGA
21915110 TAGAATTACCA
1 TAGAATTACCA
21915121 AAATACCCCT
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
106 3 0.03
107 70 0.71
108 25 0.25
109 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (106 bp):
TAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTCACCCACATTTACAAAATTACCAT
TTCACCCACGATTTAAAAATTATCGAAATACCCTCGATGGA
Found at i:21915151 original size:54 final size:54
Alignment explanation
Indices: 21915080--21915209 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
21915070 TTACCTTCGA
*
21915080 TTGTAAAATTACTGAAATACCCCT-GTAGGAT-AGAATTACCAAAATACCC-CTAAT
1 TTGTAAAATTACCGAAATACCCCTGGTAGG-TGA-AATTACCAAAATACCCTC-AAT
* ** * *
21915134 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAAT
*
21915188 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCGAAATACCC
21915210 TGATTTACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
54 60 0.92
55 5 0.08
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCTGGTAGGTGAAATTACCAAAATACCCTCAAT
Found at i:21915222 original size:26 final size:26
Alignment explanation
Indices: 21915113--21915236 Score: 131
Period size: 27 Copynumber: 4.7 Consensus size: 26
21915103 TGTAGGATAG
21915113 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATA-CCCTAATTTGTAA
* ** *
21915140 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAATTTGTAA
* *
21915167 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AATTTGTAA
* **
21915194 AATTACCAAAATACCCTGATTTACAA
1 AATTACCAAAATACCCTAATTTGTAA
*
21915220 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
21915237 CAACTTTCTA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.32
27 55 0.68
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (26 bp):
AATTACCAAAATACCCTAATTTGTAA
Found at i:21915249 original size:54 final size:53
Alignment explanation
Indices: 21915113--21915281 Score: 155
Period size: 54 Copynumber: 3.1 Consensus size: 53
21915103 TGTAGGATAG
* * ***
21915113 AATTACCAAAATACCC-CTAATTTGTAAAATTACCGAAATACCACTGGTTTGTGA
1 AATTA-CAAAATACCCTC-AATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
21915167 AATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACC-CTGATTTACAA
1 AATTA-CAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
* * * * *
21915220 AATTACAAAAATACCCTCAACTTTCTAAAAATTA-TAGAAATACCATTGGTTTATAA
1 AATTAC-AAAATACCCTCAA-TTTGT-AAAATTACCA-AAATACCACTGATTTACAA
21915276 AATTAC
1 AATTAC
21915282 TGAAACACCC
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 24 0.25
54 42 0.44
55 15 0.16
56 14 0.15
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (53 bp):
AATTACAAAATACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:21915286 original size:27 final size:27
Alignment explanation
Indices: 21915247--21915298 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21915237 CAACTTTCTA
*
21915247 AAAATTATAGAAATACCATTGGTTTAT
1 AAAATTATAGAAACACCATTGGTTTAT
*
21915274 AAAATTACT-GAAACACCCTTGGTTT
1 AAAATTA-TAGAAACACCATTGGTTT
21915299 GTATATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAACACCATTGGTTTAT
Found at i:21915292 original size:109 final size:107
Alignment explanation
Indices: 21915113--21915319 Score: 238
Period size: 109 Copynumber: 1.9 Consensus size: 107
21915103 TGTAGGATAG
* * * * *
21915113 AATTACCAAAATACCCCTAATTTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATCGAAA
1 AATTACAAAAATACCCCTAATTTCTAAAATTACAGAAATACCACTGGTTTATAAAATTATCGAAA
* *
21915178 TACCCTCAATTTGTAAAATTACCAAAATACCCTGATTTACAA
66 CACCCTCAATTTGTAAAATTACCAAAACACCCTGATTTACAA
* *
21915220 AATTACAAAAATA-CCCTCAACTTTCTAAAAATTATAGAAATACCATTGGTTTATAAAATTA-CT
1 AATTACAAAAATACCCCT-AA-TTTCT-AAAATTACAGAAATACCACTGGTTTATAAAATTATC-
*** * *
21915283 GAAACACCCTTGGTTTGTATATTTACCAAAACACCCT
62 GAAACACCCTCAATTTGTAAAATTACCAAAACACCCT
21915320 TCTAGGATGA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
106 4 0.05
107 14 0.17
108 5 0.06
109 59 0.72
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (107 bp):
AATTACAAAAATACCCCTAATTTCTAAAATTACAGAAATACCACTGGTTTATAAAATTATCGAAA
CACCCTCAATTTGTAAAATTACCAAAACACCCTGATTTACAA
Found at i:21916264 original size:25 final size:24
Alignment explanation
Indices: 21916226--21916295 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
21916216 AGGAAGTGCT
* * *
21916226 AAAAGGGATCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
21916250 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
21916275 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
21916296 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:21916308 original size:24 final size:23
Alignment explanation
Indices: 21916251--21916322 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
21916241 TAGTTTACCG
21916251 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAG-TTATC
*
21916275 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
21916299 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
21916323 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:21916504 original size:42 final size:42
Alignment explanation
Indices: 21916443--21916660 Score: 400
Period size: 42 Copynumber: 5.2 Consensus size: 42
21916433 TAGTCTCCCC
*
21916443 AAATGGCCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
21916485 AAATGGGCTTGCATTCATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
21916527 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
21916569 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
21916611 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
21916653 AAATGGGC
1 AAATGGGC
21916661 CTAAGGGCCA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 172 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:21916767 original size:30 final size:31
Alignment explanation
Indices: 21916684--21916767 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
21916674 CATTTAGAGT
21916684 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21916715 AAAAGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
21916746 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21916768 TCAAGACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21919136 original size:81 final size:81
Alignment explanation
Indices: 21919022--21919188 Score: 282
Period size: 81 Copynumber: 2.1 Consensus size: 81
21919012 TACTGAAATG
* *
21919022 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTC-GATTT
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAG-TTT
21919086 ACAAAATTATCGTTTTA
65 ACAAAATTATCGTTTTA
*
21919103 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTA
1 CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAGTTTA
*
21919168 CAAAATTATTGTTTTA
66 CAAAATTATCGTTTTA
21919184 CCCTC
1 CCCTC
21919189 GATTGTGAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 80 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
CCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAGTTTA
CAAAATTATCGTTTTA
Found at i:21919167 original size:27 final size:27
Alignment explanation
Indices: 21919022--21919192 Score: 218
Period size: 27 Copynumber: 6.3 Consensus size: 27
21919012 TACTGAAATG
21919022 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
21919049 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
21919076 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
21919103 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
21919130 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * ***
21919157 CCCTC-AGTTTACAAAATTATTGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
21919184 CCCTCGATT
1 CCCTCGATT
21919193 GTGAAATTAC
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 123 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:21919254 original size:27 final size:27
Alignment explanation
Indices: 21919224--21919374 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
21919214 TGTAGGATAG
21919224 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
21919251 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
21919278 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
21919305 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
21919332 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
21919359 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
21919375 TCGACTTTCA
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.05
27 99 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:21919265 original size:54 final size:53
Alignment explanation
Indices: 21919191--21919374 Score: 167
Period size: 54 Copynumber: 3.4 Consensus size: 53
21919181 TTACCCTCGA
* ** * *
21919191 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGT-TGATAAAATTACCAAAATACCCCTAGT
* * * *
21919245 TTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-GTTGATAAAATTACCAAAATACCCCTAGT
* * *
21919299 TTGTGAAATTACCGAAATACCCTCAAT-TTG-TAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCC-C--TGTTGATAAAATTACCAAAATACCCCTAGT
**
21919353 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
21919375 TCGACTTTCA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 98 0.93
55 5 0.05
57 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGTTGATAAAATTACCAAAATACCCCTAGT
Found at i:21919311 original size:81 final size:81
Alignment explanation
Indices: 21919224--21919373 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
21919214 TGTAGGATAG
* * * *
21919224 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACCGAA
1 AATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
21919288 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
21919305 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
21919370 TACC
66 TACC
21919374 CTCGACTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Done.