Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 66 of 206
Found at i:18630569 original size:30 final size:29
Alignment explanation
Indices: 18630523--18630579 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
18630513 TGAAAGAATA
* *
18630523 ATAGAAATATTATAAAACTTTTAGAAATT
1 ATAGAAATATTATAAAAATTATAGAAATT
18630552 ATAGATAAT-TTATTAAAAATTATAGAAA
1 ATAGA-AATATTA-TAAAAATTATAGAAA
18630580 ACTATGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (29 bp):
ATAGAAATATTATAAAAATTATAGAAATT
Found at i:18631119 original size:25 final size:23
Alignment explanation
Indices: 18631082--18631127 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
18631072 TCTTTTATCA
18631082 TTTTAATTCTTTTTATATAATTTCT
1 TTTTAA-TCTTTTTA-ATAATTTCT
* *
18631107 TTTTTATTTTTTTAATAATTT
1 TTTTAATCTTTTTAATAATTT
18631128 TTATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 7 0.37
25 5 0.26
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTAATCTTTTTAATAATTTCT
Found at i:18631717 original size:41 final size:40
Alignment explanation
Indices: 18631657--18631892 Score: 328
Period size: 41 Copynumber: 5.8 Consensus size: 40
18631647 GAGTTTTTGG
* * *
18631657 GGCCTTTAGCAGCGTTTTTGAAAAAGCGTCGCTAATGCTTA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC-TC
* * *
18631698 GGTCTTTAGGGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
18631738 GGACCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTC
1 GG-CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
18631779 GGACCTTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTC
1 GG-CCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
18631820 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTGA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-C
* *
18631861 GGCCTTTAGCGGTGTTTTTGAAGAAGCGCCGC
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
18631893 AAAAACATTT
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 38 0.21
41 139 0.79
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (40 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:18635160 original size:22 final size:22
Alignment explanation
Indices: 18635135--18635195 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
18635125 AACACATGTA
18635135 GGGTTCGCATAAATA-ACATATT
1 GGGTTCGCATAAATATACATA-T
* * *
18635157 GGGTTTGCAT-GATATTCATAT
1 GGGTTCGCATAAATATACATAT
18635178 GGAGTTCGCATAAATATA
1 GG-GTTCGCATAAATATA
18635196 ATAAGGGATC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (22 bp):
GGGTTCGCATAAATATACATAT
Found at i:18636356 original size:22 final size:22
Alignment explanation
Indices: 18636296--18636353 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
18636286 AATCTTCAAG
18636296 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
18636315 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
18636337 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
18636354 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:18638387 original size:27 final size:29
Alignment explanation
Indices: 18638344--18638408 Score: 98
Period size: 27 Copynumber: 2.3 Consensus size: 29
18638334 AGGTGTTTGA
*
18638344 ATACAGGGGCTCACCTAT-AGGGGTTCGC
1 ATACAAGGGCTCACCTATAAGGGGTTCGC
*
18638372 A-ACAAGGGCTCACCTATAAGGGGTTTGC
1 ATACAAGGGCTCACCTATAAGGGGTTCGC
18638400 ATACAAGGG
1 ATACAAGGG
18638409 GGTTCGACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 15 0.45
28 11 0.33
29 7 0.21
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.20
Consensus pattern (29 bp):
ATACAAGGGCTCACCTATAAGGGGTTCGC
Found at i:18639090 original size:15 final size:15
Alignment explanation
Indices: 18639070--18639117 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
18639060 AAAAGAGTTC
*
18639070 TTATTTTTATAATTT
1 TTATTTTTAAAATTT
*
18639085 TTATTTTTAAAAATT
1 TTATTTTTAAAATTT
* *
18639100 ATAATTTTAAAATTT
1 TTATTTTTAAAATTT
18639115 TTA
1 TTA
18639118 CTTGTTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTTTTAAAATTT
Found at i:18642002 original size:15 final size:15
Alignment explanation
Indices: 18641984--18642015 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18641974 AAGTAAAAAA
18641984 AATCTTTTTAAATAG
1 AATCTTTTTAAATAG
18641999 AATCTTTTTAAATAG
1 AATCTTTTTAAATAG
18642014 AA
1 AA
18642016 ACTATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
AATCTTTTTAAATAG
Found at i:18647722 original size:11 final size:10
Alignment explanation
Indices: 18647692--18647736 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
18647682 TGCTGAGTTC
*
18647692 TTTCTCTTGT
1 TTTCTTTTGT
18647702 TTTCTTTTGT
1 TTTCTTTTGT
18647712 TTTCATTTTGT
1 TTTC-TTTTGT
*
18647723 TTTACTTTTCT
1 TTT-CTTTTGT
18647734 TTT
1 TTT
18647737 GTGTGCAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 13 0.42
11 17 0.55
12 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (10 bp):
TTTCTTTTGT
Found at i:18649457 original size:30 final size:30
Alignment explanation
Indices: 18649422--18649480 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
18649412 AAAAAATCTC
18649422 AAATTTCTCCCTAAATTTCTCAAAGCTCTT
1 AAATTTCTCCCTAAATTTCTCAAAGCTCTT
*
18649452 AAATTTCTCCTTAAATTTCTCAAAGCTCT
1 AAATTTCTCCCTAAATTTCTCAAAGCTCT
18649481 CTTTAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTTCTCCCTAAATTTCTCAAAGCTCTT
Found at i:18649864 original size:32 final size:33
Alignment explanation
Indices: 18649826--18649888 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
18649816 CCCGTTTTTT
*
18649826 AAATAAATACCAAAAAA-TTATTTTAAAAATTA
1 AAATAAAAACCAAAAAATTTATTTTAAAAATTA
**
18649858 AAATAAAAATTAAAAAATTTATTTTAAAAAT
1 AAATAAAAACCAAAAAATTTATTTTAAAAAT
18649889 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (33 bp):
AAATAAAAACCAAAAAATTTATTTTAAAAATTA
Found at i:18649921 original size:40 final size:40
Alignment explanation
Indices: 18649838--18649993 Score: 192
Period size: 40 Copynumber: 3.8 Consensus size: 40
18649828 ATAAATACCA
*
18649838 AAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAATTTATTTT
1 AAAAA-TATTTT-AAAATT-AAA-AAAAATTAAAAAA-GTATTTT
18649883 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATTTT
* * *
18649923 AAAAA-AATTTAAAATTTAAAAAATTTAATAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAAATTAA-AAAAGTATTTT
*
18649963 AAAAGTATTTTAAAATT-AAAAAAA-TAAAAAA
1 AAAAATATTTTAAAATTAAAAAAAATTAAAAAA
18649994 TAATAAAAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
38 4 0.04
39 23 0.23
40 32 0.31
41 23 0.23
42 3 0.03
43 6 0.06
44 6 0.06
45 5 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAAATTAAAAAAGTATTTT
Found at i:18651018 original size:7 final size:7
Alignment explanation
Indices: 18651006--18651037 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18650996 AGTCGTTTCA
18651006 TATTTAG
1 TATTTAG
18651013 TATTTAG
1 TATTTAG
18651020 TATTTAG
1 TATTTAG
18651027 TATTTAG
1 TATTTAG
18651034 TATT
1 TATT
18651038 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:18652082 original size:24 final size:22
Alignment explanation
Indices: 18652055--18652114 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
18652045 TATTGTTTCA
18652055 TTTAATAAAAGTTATTTTTAATAT
1 TTTAATAAAA-TTATTTTT-ATAT
18652079 TTTAATAGTAAATTATTTTTATAT
1 TTTAATA--AAATTATTTTTATAT
18652103 TTTAAATAAAAT
1 TTT-AATAAAAT
18652115 AGAAGTTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 4 0.12
24 14 0.42
25 12 0.36
26 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
TTTAATAAAATTATTTTTATAT
Found at i:18654725 original size:125 final size:124
Alignment explanation
Indices: 18654415--18654808 Score: 513
Period size: 126 Copynumber: 3.1 Consensus size: 124
18654405 GGCCAAAAAT
* * * *
18654415 GAACTATTGTAGAAAAAGAGCATCGACGTGGGAGCTTTTTTC-ATCAGTTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAT-AATTTTGCTGACAGTGCAT
* * * * * * *
18654479 CCTGCTTGAATCGTTTTTGACACTATTTTCTCATAATCGTTTTCTCAAAATTAATTTTTCAA
65 CCTACTTGAAGCGTTTTTCACACTATTTT-TCAGAAACGTATTCTCAAAATT-ATTTTTCAG
* * * * *
18654541 GAACTATTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTTATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
* **
18654606 CTACTTGAAGCATTTTTCACACTATTTATTCAGAAACGCCTTCTCAAAATTATTTTTCAG
66 CTACTTGAAGCGTTTTTCACACTATTT-TTCAGAAACGTATTCTCAAAATTATTTTTCAG
* *
18654666 GAACTACTGTAGAAAAAGAGTGTCCAAGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
*
18654731 CTACTTGAAGTGTTTTTCACACTATTTGTTCAG-AACAGTATTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCGTTTTTCACACTATTT-TTCAGAAAC-GTATTCTCAAAATTA-TTTTTCAG
18654792 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
18654809 AAAATAAAAT
Statistics
Matches: 236, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
124 3 0.01
125 109 0.46
126 122 0.52
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (124 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTGCATC
CTACTTGAAGCGTTTTTCACACTATTTTTCAGAAACGTATTCTCAAAATTATTTTTCAG
Found at i:18654873 original size:13 final size:14
Alignment explanation
Indices: 18654842--18654874 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18654832 ATAATTTTTC
18654842 CTAAACCCTAAACT
1 CTAAACCCTAAACT
18654856 CTAAACCCTAAA-T
1 CTAAACCCTAAACT
18654869 CTAAAC
1 CTAAAC
18654875 ACAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:18655050 original size:15 final size:14
Alignment explanation
Indices: 18655030--18655064 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
18655020 AATTATTTTA
*
18655030 AAAAACCCTAACCC
1 AAAAACCCTAAACC
18655044 TAAAAACCCTAAACC
1 -AAAAACCCTAAACC
18655059 AAAAAC
1 AAAAAC
18655065 TCTAGGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAACCCTAAACC
Found at i:18663533 original size:16 final size:16
Alignment explanation
Indices: 18663512--18663566 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
18663502 GTTTGGTTCA
18663512 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
18663528 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
* * *
18663544 TTGTAATGGAATAAAG
1 CTGTAATTGAATAGAG
18663560 CTGTAAT
1 CTGTAAT
18663567 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:18667444 original size:39 final size:39
Alignment explanation
Indices: 18667401--18667475 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
18667391 TAATTACTTG
18667401 TTGAAAATCCCTTAGCTCGCATCCAATCATCCAAGCCTA
1 TTGAAAATCCCTTAGCTCGCATCCAATCATCCAAGCCTA
*
18667440 TTGAAAATCCCTTAGCTCGCATCTAATCATCCAAGC
1 TTGAAAATCCCTTAGCTCGCATCCAATCATCCAAGC
18667476 AAATAGCGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.32, G:0.11, T:0.27
Consensus pattern (39 bp):
TTGAAAATCCCTTAGCTCGCATCCAATCATCCAAGCCTA
Found at i:18674956 original size:16 final size:17
Alignment explanation
Indices: 18674916--18674962 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
18674906 AGCGGAGTAA
*
18674916 TATATACATATAGTTTT
1 TATATATATATAGTTTT
*
18674933 TATTTATATATA-TTTT
1 TATATATATATAGTTTT
*
18674949 TCTATATATATAGT
1 TATATATATATAGT
18674963 CTCTCTCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (17 bp):
TATATATATATAGTTTT
Found at i:18674967 original size:2 final size:2
Alignment explanation
Indices: 18674962--18674988 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18674952 ATATATATAG
18674962 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
18674989 TACTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18675721 original size:14 final size:16
Alignment explanation
Indices: 18675690--18675724 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
18675680 TAAATTAAGC
18675690 TAAATTCAAAATTAAA
1 TAAATTCAAAATTAAA
18675706 TAAATT-AAAA-TAAA
1 TAAATTCAAAATTAAA
18675720 TAAAT
1 TAAAT
18675725 ATGGGTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 4 0.21
16 6 0.32
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAATTCAAAATTAAA
Found at i:18680244 original size:17 final size:17
Alignment explanation
Indices: 18680224--18680256 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18680214 TGATAAAGGT
18680224 TAAAAT-AATATAATGAA
1 TAAAATGAA-ATAATGAA
18680241 TAAAATGAAATAATGA
1 TAAAATGAAATAATGA
18680257 CACAATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
TAAAATGAAATAATGAA
Found at i:18681021 original size:12 final size:12
Alignment explanation
Indices: 18681004--18681028 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18680994 AATTGCTTTC
18681004 TAAAATCAAGTG
1 TAAAATCAAGTG
18681016 TAAAATCAAGTG
1 TAAAATCAAGTG
18681028 T
1 T
18681029 GCTTTCAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAAATCAAGTG
Found at i:18685144 original size:21 final size:20
Alignment explanation
Indices: 18685099--18685144 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
18685089 TTTTTTAATA
18685099 ATTTTATTTTTATGATACAT
1 ATTTTATTTTTATGATACAT
* *
18685119 TTTTTATTTTTATGTATATAT
1 ATTTTATTTTTATG-ATACAT
18685140 ATTTT
1 ATTTT
18685145 TGTNNNNNNN
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTATTTTTATGATACAT
Found at i:18691062 original size:7 final size:7
Alignment explanation
Indices: 18691050--18691104 Score: 60
Period size: 7 Copynumber: 7.6 Consensus size: 7
18691040 CAAAAAAATG
18691050 TGAAAAA
1 TGAAAAA
18691057 TGAAAAAA
1 TG-AAAAA
18691065 TGAAAAA
1 TGAAAAA
18691072 -GAAAAA
1 TGAAAAA
18691078 TGAAAAAAA
1 TG--AAAAA
18691087 TGAAAAA
1 TGAAAAA
18691094 -GTAAAAA
1 TG-AAAAA
18691101 TGAA
1 TGAA
18691105 GAGGCTAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
6 7 0.17
7 20 0.48
8 8 0.19
9 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
TGAAAAA
Found at i:18691064 original size:9 final size:8
Alignment explanation
Indices: 18691042--18691093 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 8
18691032 CTCTGAGTCA
18691042 AAAAAATG
1 AAAAAATG
*
18691050 TGAAAAATG
1 -AAAAAATG
18691059 AAAAAATG
1 AAAAAATG
18691067 -AAAAA-G
1 AAAAAATG
18691073 -AAAAATG
1 AAAAAATG
18691080 AAAAAAATG
1 -AAAAAATG
18691089 AAAAA
1 AAAAA
18691094 GTAAAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 12 0.32
9 14 0.37
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:18691084 original size:22 final size:22
Alignment explanation
Indices: 18691051--18691104 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
18691041 AAAAAAATGT
18691051 GAAAAATG-AAAAAATGAAAAA
1 GAAAAATGAAAAAAATGAAAAA
18691072 GAAAAATGAAAAAAATGAAAAA
1 GAAAAATGAAAAAAATGAAAAA
18691094 GTAAAAATGAA
1 G-AAAAATGAA
18691105 GAGGCTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 8 0.26
22 14 0.45
23 9 0.29
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (22 bp):
GAAAAATGAAAAAAATGAAAAA
Found at i:18692538 original size:128 final size:128
Alignment explanation
Indices: 18692310--18692738 Score: 684
Period size: 128 Copynumber: 3.4 Consensus size: 128
18692300 ATCAGTGAAT
18692310 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAA-AGCGGCAAATCTTATCTTCAA
1 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA-CGGCAAATCTTATCTTCAA
* * *
18692374 -TAGTAAGTAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAACAGGTTGGAA
65 GT-GTAAGGAAGCAAATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAA
*
18692438 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGAAGCAGATCGAAGACGGCAAATCTTATCTTCAAG
1 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAG
* * *
18692503 TGTAAGGAAGCAAATTTAAGCCACACGTCCTATGTCCCTGGTTAGCAATGGAATAGGTTGGAA
66 TGTAAGGAAGCAAATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAA
* * *
18692566 ATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAG
* * *
18692631 TGTAAGGAAG-AAGATTTAAGCCACAAGTCCTATCTCCTTGGTCAGCAGTGGAGTAGGTTGGAA
66 TGTAAGGAAGCAA-ATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAA
*
18692694 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGACCGAAGA
1 ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGA
18692739 ATTCCAAATT
Statistics
Matches: 278, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
127 2 0.01
128 274 0.99
129 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (128 bp):
ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAG
TGTAAGGAAGCAAATTTAAGCCACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGAA
Found at i:18692837 original size:44 final size:44
Alignment explanation
Indices: 18692789--18692950 Score: 209
Period size: 44 Copynumber: 3.7 Consensus size: 44
18692779 GAAAATGGTG
* * * *
18692789 AATCTTATCCCCCTGAGGTTACGGTGGAGCAAATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
18692833 AATCTTATCTCCCTGAGGTTATC-GTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTA-CAGTGGAGCAGATTGAAGCCAGA
* ** *
18692877 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATTCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
18692921 AATCCTATTTCCCTGAGATTACAGTGGAGC
1 AATCTTATCTCCCTGAGATTACAGTGGAGC
18692951 GTATTAAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
43 1 0.01
44 104 0.98
45 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:18693146 original size:50 final size:50
Alignment explanation
Indices: 18693081--18693348 Score: 198
Period size: 50 Copynumber: 5.3 Consensus size: 50
18693071 GTAGTGGAGC
* *
18693081 AGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * ** **
18693131 AGATTAAAGCTACAACAGTGAATCTTACTCTCCCATG-CAGTGCAATGGAGC
1 AGATTAAAGCCACAACAGTGAATCTTGCT-TCCC-CGACATTGCAGTTAAAA
* *
18693182 AGATTAAAGCCACAACAGTGAATTTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * ** * * ** **
18693232 GGATTAAAGTCACAA-TGACGAATCTTACTCTCCCAGGTAGTGTAGTGGAGC
1 AGATTAAAGCCACAACAG-TGAATCTTGCT-TCCCCGACATTGCAGTTAAAA
* * *
18693283 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCATTTAAAA
1 AGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
18693333 GGATTAAAGTCACAAC
1 AGATTAAAGCCACAAC
18693349 GACAAATCTT
Statistics
Matches: 156, Mismatches: 56, Indels: 12
0.70 0.25 0.05
Matches are distributed among these distances:
49 2 0.01
50 81 0.52
51 71 0.46
52 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:18693197 original size:51 final size:50
Alignment explanation
Indices: 18693065--18693308 Score: 181
Period size: 51 Copynumber: 4.8 Consensus size: 50
18693055 TTATCTTTCA
* * * *
18693065 AGCAGTGTAGTGGAGCAGATTAAAGCCACAACAGCGAATCATGCT-TCCC
1 AGCAGTGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTACTCTCCC
* * ** ** *
18693114 CGACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTCTCCC
1 AG-CAGTGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTACTCTCCC
* * * *
18693165 ATGCAGTGCAATGGAGCAGATTAAAGCCACAACAGTGAATTTTGCTTTCCC
1 A-GCAGTGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTACTCTCCC
* * ** * * *
18693216 -GACATTGCAGT-TAAAAGGATTAAAGTCACAA-TGACGAATCTTACTCTCCC
1 AG-CAGTGCAGTGGAGCA-GATTAAAGCCACAACAG-TGAATCTTACTCTCCC
* * *
18693266 AGGTAGTGTAGTGGAGCAGATTAAAGCCACAACGGTGAATCTT
1 A-GCAGTGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTT
18693309 GCTTTCCCGA
Statistics
Matches: 143, Mismatches: 42, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
49 5 0.03
50 65 0.45
51 68 0.48
52 5 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (50 bp):
AGCAGTGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTACTCTCCC
Found at i:18693255 original size:101 final size:100
Alignment explanation
Indices: 18693066--18693442 Score: 456
Period size: 101 Copynumber: 3.8 Consensus size: 100
18693056 TATCTTTCAA
* * *
18693066 GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTAAAA
1 GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
* * * *
18693131 AGATTAAAG-CTACAACAGTGAATCTTACTCTCCCAT
66 GGATTAAAGTC-ACAAGA-CGAATCTTACTCTCCCAG
* * *
18693167 GCAGTGCAATGGAGCAGATTAAAGCCACAACAGTGAATTTTGCTTTCCCGACATTGCAGTTAAAA
1 GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
18693232 GGATTAAAGTCACAATGACGAATCTTACTCTCCCAG
66 GGATTAAAGTCACAA-GACGAATCTTACTCTCCCAG
* * *
18693268 GTAGTGTAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCATTTAAAA
1 GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
*
18693333 GGATTAAAGTCACAACGACAAATCTTACT-TCCCAG
66 GGATTAAAGTCACAA-GACGAATCTTACTCTCCCAG
** * * * * * * **
18693368 GTGGTGTAGTGGAACAGATTGAAGCTACAACAGCGAGTCTTGC-TTCCTTGACATCACAGTTAAA
1 GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTTTCC-CGACATTGCAGTTAAA
18693432 CA-GATTAAAGT
65 -AGGATTAAAGT
18693443 TACGAGTTAC
Statistics
Matches: 243, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
99 4 0.02
100 63 0.26
101 174 0.72
102 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (100 bp):
GCAGTGTAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
GGATTAAAGTCACAAGACGAATCTTACTCTCCCAG
Found at i:18695060 original size:20 final size:20
Alignment explanation
Indices: 18695016--18695060 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
18695006 ATTTTTAATA
18695016 ATTTTATTTTATGTATACAT
1 ATTTTATTTTATGTATACAT
* *
18695036 TTTTTATTTTATGTATATAT
1 ATTTTATTTTATGTATACAT
18695056 ATTTT
1 ATTTT
18695061 GTGCTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTATTTTATGTATACAT
Found at i:18695112 original size:2 final size:2
Alignment explanation
Indices: 18695105--18695130 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18695095 TTATTTGTTG
18695105 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
18695131 GTTTGTATAA
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:18697882 original size:27 final size:27
Alignment explanation
Indices: 18697840--18697901 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
18697830 ATACCCTATG
* *
18697840 GGCGGCACCAAAGGTGTCTTTCCCATA
1 GGCGGCACCAAAGGTGCCATTCCCATA
* * *
18697867 GGCGGCACCGATGGTGCCATTCCCATG
1 GGCGGCACCAAAGGTGCCATTCCCATA
18697894 GGCGGCAC
1 GGCGGCAC
18697902 TACCCATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (27 bp):
GGCGGCACCAAAGGTGCCATTCCCATA
Found at i:18697970 original size:4 final size:4
Alignment explanation
Indices: 18697957--18698060 Score: 60
Period size: 4 Copynumber: 25.8 Consensus size: 4
18697947 GGAGAGGGAA
*
18697957 AAAG -AAG AAAG AAAG AAAG AAAATG AAATG AGAGG AAAG AAAG -AA-
1 AAAG AAAG AAAG AAAG AAAG -AAA-G AAA-G A-AAG AAAG AAAG AAAG
*
18698002 AAAG AAGG AAAG AAAAGG AAAGG AGAAG -AAG AAA- AAAG AAAG -AA-
1 AAAG AAAG AAAG -AAA-G AAA-G A-AAG AAAG AAAG AAAG AAAG AAAG
*
18698046 AAAG AAGG AAAG AAA
1 AAAG AAAG AAAG AAA
18698061 AGGAAAGGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
3 17 0.21
4 38 0.47
5 21 0.26
6 5 0.06
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:18698002 original size:18 final size:19
Alignment explanation
Indices: 18697964--18698016 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
18697954 GAAAAAGAAG
*
18697964 AAAGAAAGAAAGAAAATG-A
1 AAAGAAGGAAAG-AAATGAA
*
18697983 AATGAGAGGAAAGAAA-GAA
1 AAAGA-AGGAAAGAAATGAA
18698002 AAAGAAGGAAAGAAA
1 AAAGAAGGAAAGAAA
18698017 AGGAAAGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 11 0.38
19 12 0.41
20 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.04
Consensus pattern (19 bp):
AAAGAAGGAAAGAAATGAA
Found at i:18698005 original size:10 final size:10
Alignment explanation
Indices: 18697954--18698091 Score: 50
Period size: 10 Copynumber: 12.9 Consensus size: 10
18697944 GATGGAGAGG
18697954 GAAAAAG-AA
1 GAAAAAGAAA
18697963 GAAAGAAAGAAA
1 G-AA-AAAGAAA
*
18697975 GAAAATGAAA
1 GAAAAAGAAA
18697985 TGAGAGGAAAGAAA
1 -GA-A--AAAGAAA
*
18697999 GAAAAAGAAG
1 GAAAAAGAAA
*
18698009 GAAAGAA-AAG
1 GAAA-AAGAAA
*
18698019 GAAAGGAGAAGAA
1 GAAA-AAG-A-AA
18698032 GAAAAAAGAAA
1 G-AAAAAGAAA
*
18698043 GAAAAAGAAG
1 GAAAAAGAAA
*
18698053 GAAAGA-AAA
1 GAAAAAGAAA
* *
18698062 GGAAAGGAGAA
1 GAAAAAGA-AA
18698073 GAGAAAA-AAA
1 GA-AAAAGAAA
*
18698083 GAAGAAGAA
1 GAAAAAGAA
18698092 GAAGAAGAGG
Statistics
Matches: 98, Mismatches: 15, Indels: 31
0.68 0.10 0.22
Matches are distributed among these distances:
9 9 0.09
10 47 0.48
11 17 0.17
12 10 0.10
13 6 0.06
14 9 0.09
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:18698006 original size:38 final size:40
Alignment explanation
Indices: 18697957--18698092 Score: 168
Period size: 44 Copynumber: 3.3 Consensus size: 40
18697947 GGAGAGGGAA
* * *
18697957 AAAGAAGAAAGAAAGAAAGAAAATGAAATGAG-AG-GAAAG
1 AAAGAA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAG
18697996 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAAG
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AG---AAAG
*
18698040 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAG
*
18698080 AAAGAAGAAGAAG
1 AAAGAAAAAGAAG
18698093 AAGAAGAGGG
Statistics
Matches: 86, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
38 22 0.26
39 8 0.09
40 15 0.17
41 1 0.01
43 2 0.02
44 38 0.44
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.01
Consensus pattern (40 bp):
AAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAG
Found at i:18698048 original size:44 final size:43
Alignment explanation
Indices: 18697992--18698095 Score: 174
Period size: 44 Copynumber: 2.4 Consensus size: 43
18697982 AAATGAGAGG
18697992 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAA
18698036 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
1 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
*
18698079 AAA-AGAAGAAGAAGAAG
1 AAAGA-AAGAAAAAGAAG
18698096 AAGAGGGGAG
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
42 1 0.02
43 19 0.33
44 38 0.66
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (43 bp):
AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
Found at i:18698081 original size:20 final size:21
Alignment explanation
Indices: 18698014--18698097 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 21
18698004 AGAAGGAAAG
18698014 AAAAGGAAAGGAGAAGAAGAA
1 AAAAGGAAAGGAGAAGAAGAA
* *
18698035 AAAA-GAAAGAAAAAGAAGGAAA
1 AAAAGGAAAGGAGAAGAA-G-AA
18698057 GAAAAGGAAAGGAGAAG-AGAA
1 -AAAAGGAAAGGAGAAGAAGAA
* *
18698078 AAAAAG-AAGAAGAAGAAGAA
1 AAAAGGAAAGGAGAAGAAGAA
18698098 GAGGGGAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.15
20 20 0.38
21 7 0.13
22 3 0.06
23 5 0.10
24 9 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAAGGAAAGGAGAAGAAGAA
Found at i:18700927 original size:15 final size:15
Alignment explanation
Indices: 18700907--18700938 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18700897 ATACAAGCTA
18700907 AGTCCATTTACAGAT
1 AGTCCATTTACAGAT
18700922 AGTCCATTTACAGAT
1 AGTCCATTTACAGAT
18700937 AG
1 AG
18700939 CCCAATAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (15 bp):
AGTCCATTTACAGAT
Found at i:18702108 original size:26 final size:26
Alignment explanation
Indices: 18702058--18702108 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18702048 TAATATCAAT
*
18702058 TTATTATTATCATTTGGTATTTTTTA
1 TTATTATTATCATTTGGTATATTTTA
*
18702084 TTATTGTTA-CATTTGGTTATATTTT
1 TTATTATTATCATTTGG-TATATTTT
18702109 CGGTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.65
Consensus pattern (26 bp):
TTATTATTATCATTTGGTATATTTTA
Found at i:18702524 original size:2 final size:2
Alignment explanation
Indices: 18702517--18702545 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18702507 AACTTTCATG
18702517 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 T
18702546 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18715123 original size:46 final size:47
Alignment explanation
Indices: 18715070--18715161 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 47
18715060 ATCGCATCAG
* *
18715070 GTCTTATCTCTCTGAGATTACAGTGGAATAAACCGAAG-AATTACAT
1 GTCTTATCCCCCTGAGATTACAGTGGAATAAACCGAAGAAATTACAT
* *
18715116 GTCTTATCCCCCTGAGATTATAGTGGAATAGACCGAAGAAATTACA
1 GTCTTATCCCCCTGAGATTACAGTGGAATAAACCGAAGAAATTACA
18715162 GACCTTATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 34 0.83
47 7 0.17
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCTTATCCCCCTGAGATTACAGTGGAATAAACCGAAGAAATTACAT
Found at i:18715749 original size:26 final size:27
Alignment explanation
Indices: 18715710--18715760 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
18715700 CAAACAGATC
*
18715710 CCAAATACCCAATTAACCTATCCCAAA
1 CCAAATACCCAATTAACCTAGCCCAAA
18715737 CCAAA-ACCCAATTAACCTAGCCCA
1 CCAAATACCCAATTAACCTAGCCCA
18715761 GCTAATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (27 bp):
CCAAATACCCAATTAACCTAGCCCAAA
Found at i:18716027 original size:5 final size:5
Alignment explanation
Indices: 18716017--18716044 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18716007 TGTATTTTGA
18716017 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
18716045 CAATTCGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:18717038 original size:28 final size:27
Alignment explanation
Indices: 18716973--18717038 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
18716963 GACGAATTAT
* * *
18716973 TTTTTATATAATATATTTTTAATAGCT
1 TTTTTATATAATATACTTTTAAAAGCA
*
18717000 TTTATTTTATAATATACTTTTAAAAGCCA
1 TTT-TTATATAATATACTTTTAAAAG-CA
18717029 TTTTTATATA
1 TTTTTATATA
18717039 TTTCATCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 3 0.09
28 25 0.78
29 4 0.12
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTTTATATAATATACTTTTAAAAGCA
Found at i:18720124 original size:44 final size:44
Alignment explanation
Indices: 18720031--18720415 Score: 125
Period size: 44 Copynumber: 8.3 Consensus size: 44
18720021 CCTTTATCTT
* * * * *
18720031 AATTCGCTTCACTGTAATCTCAGGGAGATAGGGTTACTAGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
*
18720075 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTTCTAGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * ** * * *
18720119 GATTTGATGCGATCTACTCTGCTGTAA-CTTCAGTTAGATAAGATCCT-TTA-TTTT
1 -AATT--T--G--CT-C-C-ACTATAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * * *
18720173 AATCTGCTTCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * ** *
18720217 AATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTTTTGGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
18720261 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATT-CTTTA-TTTT
1 AAT-T--T--G--CT-C-C-ACTATAATC-TCAGGGAGATAAGATTAC--TAGCTTC
** * * *
18720315 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
18720359 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
* *
18720403 GATCTGCTCCACT
1 AATTTGCTCCACT
18720416 GTTGCTTAGG
Statistics
Matches: 255, Mismatches: 54, Indels: 64
0.68 0.14 0.17
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 169 0.66
45 8 0.03
46 1 0.00
47 6 0.02
49 4 0.02
51 5 0.02
52 2 0.01
53 6 0.02
54 45 0.18
55 3 0.01
56 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (44 bp):
AATTTGCTCCACTATAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:18720242 original size:142 final size:142
Alignment explanation
Indices: 18719980--18720408 Score: 671
Period size: 142 Copynumber: 3.0 Consensus size: 142
18719970 GAGATAAGAC
* * *
18719980 CTGATGCGATCTTCTCTACTGTGACTTCAGAGAGATAAGATCCTTTATCTTAAT-TCGCTTCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCT-GCTTCACT
* * * *
18720044 GTAATCTCAGGGAGATAGGGTTACTAGCTTCAATTTGCTCCACTATAATCTCAGGGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
18720109 TTCTAGCTTCGAT
130 TTCTGGCTTCGAT
* * **
18720122 TTGATGCGATCTACTCTGCTGTAACTTCAGTTAGATAAGATCCTTTATTTTAATCTGCTTCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTTCACTG
*
18720187 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
* *
18720252 TTTGGCTTCAAT
131 TCTGGCTTCGAT
* * *
18720264 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTTCACTG
*
18720329 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
18720394 TCTGGCTTCGAT
131 TCTGGCTTCGAT
18720406 CTG
1 CTG
18720409 CTCCACTGTT
Statistics
Matches: 260, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
142 259 1.00
143 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTTCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCGAT
Found at i:18734456 original size:2 final size:2
Alignment explanation
Indices: 18734449--18734477 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18734439 ACTTACTATG
18734449 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 T
18734478 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18738617 original size:42 final size:40
Alignment explanation
Indices: 18738494--18738623 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 40
18738484 AATCCTGATA
*
18738494 ACTAACACAATAAAAATAATAATAGTTTTATACTCAAAATAAT
1 ACTAAC-C-ATAAAAATAATAATAGTTTTTTACT-AAAATAAT
* * **
18738537 AGTAA-C-TAACAATAATAATTAGGGTTTTACTAAAAATAAT
1 ACTAACCATAAAAATAATAA-TAGTTTTTTACT-AAAATAAT
* *
18738577 AACTAACCATAATAATAATACTAGTTTTTTACTAACAATAAT
1 -ACTAACCATAAAAATAATAATAGTTTTTTACTAA-AATAAT
18738619 ACTAA
1 ACTAA
18738624 GTAACATCTA
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
39 11 0.15
40 17 0.24
41 12 0.17
42 17 0.24
43 14 0.20
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.32
Consensus pattern (40 bp):
ACTAACCATAAAAATAATAATAGTTTTTTACTAAAATAAT
Found at i:18738926 original size:27 final size:27
Alignment explanation
Indices: 18738888--18738950 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
18738878 TAACACAAGT
* *
18738888 GGTGCTGCCCATTGGAATGGCACCATC
1 GGTGCCGCCCATGGGAATGGCACCATC
* *
18738915 GGTGCCGCCCATGGGAATGGCACCTTT
1 GGTGCCGCCCATGGGAATGGCACCATC
18738942 GGTGCCGCC
1 GGTGCCGCC
18738951 TATCAGTCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.14, C:0.32, G:0.33, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCCATGGGAATGGCACCATC
Found at i:18748083 original size:19 final size:19
Alignment explanation
Indices: 18748059--18748096 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18748049 TGGACCATGT
18748059 TGGGCTGAAATGGGC-CGTG
1 TGGGCT-AAATGGGCTCGTG
*
18748078 TGGGCTCAATGGGCTCGTG
1 TGGGCTAAATGGGCTCGTG
18748097 GGCCCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (19 bp):
TGGGCTAAATGGGCTCGTG
Found at i:18748400 original size:26 final size:27
Alignment explanation
Indices: 18748330--18748401 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
18748320 ACCTCAAAAT
*
18748330 AGGTAAAATAACTGAAATACCCCCATA
1 AGGTAAAATGACTGAAATACCCCCATA
*
18748357 GGGTAAAATGA-TCGAAATA-CCCCATA
1 AGGTAAAATGACT-GAAATACCCCCATA
*
18748383 AGGTAAAATGACTAAAATA
1 AGGTAAAATGACTGAAATA
18748402 ATGACTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACTGAAATACCCCCATA
Found at i:18748442 original size:27 final size:27
Alignment explanation
Indices: 18748408--18748513 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
18748398 AATAATGACT
* * *
18748408 GAAATACCCCCTTAGGGTAAAATAACC
1 GAAATACCCCCATAGGGTAAAATGATC
* *
18748435 GAAATACCCCCATAAGGTAGAATGATC
1 GAAATACCCCCATAGGGTAAAATGATC
*
18748462 GAAATACCCCTATAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGATC
*
18748489 GAAATACCCTCATAGGGTAAAATGA
1 GAAATACCCCCATAGGGTAAAATGA
18748514 CTGTTATACC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGATC
Found at i:18748523 original size:54 final size:54
Alignment explanation
Indices: 18748401--18748527 Score: 159
Period size: 54 Copynumber: 2.4 Consensus size: 54
18748391 TGACTAAAAT
*
18748401 AATGACTGAAATACCCCCT-TAGGGTAAAATAACCGAAATACCCCCATAAGGTAG
1 AATGACTGAAATA-CCCCTATAGGGTAAAATAACCGAAATACCCCCATAAGGTAA
* * * *
18748455 AATGA-TCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAA
1 AATGACT-GAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAAGGTAA
**
18748509 AATGACTGTTATACCCCTA
1 AATGACTGAAATACCCCTA
18748528 GGAGATGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
53 6 0.10
54 56 0.89
55 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (54 bp):
AATGACTGAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAAGGTAA
Found at i:18750908 original size:80 final size:80
Alignment explanation
Indices: 18750796--18751035 Score: 317
Period size: 80 Copynumber: 3.0 Consensus size: 80
18750786 AACGAGAAAT
** * *
18750796 TAAAATTAAA-T-AA-AATCTGTTTCGGGATTTATTTCTACCGTTTAACAGATTTTATTCGATTT
1 TAAAATTAAATTGAATAATCT-TTTTAGGATTTATTTCAACCGTTTAACATATTTTATTCGATTT
18750858 TAATTTTGTTTCCAAA
65 TAATTTTGTTTCCAAA
* * *
18750874 TAAAATTAAATTGAATAATCTTTTTAGGATTTATTCCAGCCGTTTAACATATTTTATTTGATTTT
1 TAAAATTAAATTGAATAATCTTTTTAGGATTTATTTCAACCGTTTAACATATTTTATTCGATTTT
18750939 AATTTTGTTTCCAAAA
66 AATTTTGTTTCC-AAA
* * *
18750955 TAGAATTAAATTGAATAAT-TTATTTCAGGATTTATTCCAATCGTTTAACATATTTTATTCGATT
1 TAAAATTAAATTGAATAATCTT-TTT-AGGATTTATTTCAACCGTTTAACATATTTTATTCGATT
*
18751019 TTGATTTTGTTTCCAAA
64 TTAATTTTGTTTCCAAA
18751036 CAAGAAGACT
Statistics
Matches: 144, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
78 10 0.07
79 1 0.01
80 53 0.37
81 32 0.22
82 48 0.33
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (80 bp):
TAAAATTAAATTGAATAATCTTTTTAGGATTTATTTCAACCGTTTAACATATTTTATTCGATTTT
AATTTTGTTTCCAAA
Found at i:18751011 original size:82 final size:82
Alignment explanation
Indices: 18750723--18751035 Score: 362
Period size: 82 Copynumber: 3.8 Consensus size: 82
18750713 TTTGAGTAAT
* * * * * * * *
18750723 ATCTATTTCGGGATTTATTCCCACCGATCAACATATTTGATTCCATTTTTTATTTTGTTTCCAAA
1 ATCTTTTTCAGGATTTATTCCAACCGTTTAACATATTTTATTCGA-TTTTAATTTTGTTTCCAAA
** *
18750788 CGAGAAATTAAAATTAAATAAA
65 ATA-AAATT-AAATTGAAT--A
* * * * *
18750810 ATCTGTTTCGGGATTTATTTCTACCGTTTAACAGATTTTATTCGATTTTAATTTTGTTTCC-AAA
1 ATCTTTTTCAGGATTTATTCCAACCGTTTAACATATTTTATTCGATTTTAATTTTGTTTCCAAAA
18750874 TAAAATTAAATTGAATA
66 TAAAATTAAATTGAATA
* *
18750891 ATCTTTTT-AGGATTTATTCCAGCCGTTTAACATATTTTATTTGATTTTAATTTTGTTTCCAAAA
1 ATCTTTTTCAGGATTTATTCCAACCGTTTAACATATTTTATTCGATTTTAATTTTGTTTCCAAAA
*
18750955 TAGAATTAAATTGAATA
66 TAAAATTAAATTGAATA
* *
18750972 AT-TTATTTCAGGATTTATTCCAATCGTTTAACATATTTTATTCGATTTTGATTTTGTTTCCAAA
1 ATCTT-TTTCAGGATTTATTCCAACCGTTTAACATATTTTATTCGATTTTAATTTTGTTTCCAAA
18751036 CAAGAAGACT
Statistics
Matches: 199, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
80 48 0.24
81 32 0.16
82 51 0.26
83 8 0.04
84 5 0.03
85 3 0.02
86 15 0.08
87 37 0.19
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (82 bp):
ATCTTTTTCAGGATTTATTCCAACCGTTTAACATATTTTATTCGATTTTAATTTTGTTTCCAAAA
TAAAATTAAATTGAATA
Found at i:18751012 original size:162 final size:166
Alignment explanation
Indices: 18750733--18751035 Score: 400
Period size: 162 Copynumber: 1.8 Consensus size: 166
18750723 ATCTATTTCG
* *
18750733 GGATTTATTCCCACCGATCAACATATTTGATTCCATTTTTTATTTTGTTTCCAAACGAGAAATTA
1 GGATTTATTCCCACCGATCAACATATTTGATTCCATTTTTAATTTTGTTTCCAAAAGAGAAATTA
* * * *
18750798 AAATTAAATAAAATCTGTTTCGGGATTTATTTCTACCGTTTAACAGATTTTATTCGATTTTAATT
66 AAATTAAAT-AAATCTATTTCAGGATTTATTCCAACCGTTTAACAGATTTTATTCGATTTTAATT
18750863 TTGTTTCCAAATAAAATTAAATTGAATAATCTTTTTA
130 TTGTTTCCAAATAAAATTAAATTGAATAATCTTTTTA
* * * ** *
18750900 GGATTTATT-CCAGCCGTTTAACATATTTTATTTGA-TTTTAATTTTGTTTCCAAAATAG-AATT
1 GGATTTATTCCCA-CCGATCAACATATTTGATTCCATTTTTAATTTTGTTTCCAAAAGAGAAATT
* * * * *
18750962 -AAATTGAAT-AATTTATTTCAGGATTTATTCCAATCGTTTAACATATTTTATTCGATTTTGATT
65 AAAATTAAATAAATCTATTTCAGGATTTATTCCAACCGTTTAACAGATTTTATTCGATTTTAATT
18751025 TTGTTTCCAAA
130 TTGTTTCCAAA
18751036 CAAGAAGACT
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
162 57 0.48
164 8 0.07
165 4 0.03
166 23 0.19
167 26 0.22
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (166 bp):
GGATTTATTCCCACCGATCAACATATTTGATTCCATTTTTAATTTTGTTTCCAAAAGAGAAATTA
AAATTAAATAAATCTATTTCAGGATTTATTCCAACCGTTTAACAGATTTTATTCGATTTTAATTT
TGTTTCCAAATAAAATTAAATTGAATAATCTTTTTA
Found at i:18754922 original size:12 final size:13
Alignment explanation
Indices: 18754899--18754931 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18754889 AGCAACGACA
*
18754899 AAGAAAACAAGAG
1 AAGAAAAAAAGAG
18754912 AA-AAAAAAAGAG
1 AAGAAAAAAAGAG
18754924 AAGAAAAA
1 AAGAAAAA
18754932 TAACAGAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAG
Found at i:18760781 original size:6 final size:6
Alignment explanation
Indices: 18760718--18760781 Score: 51
Period size: 6 Copynumber: 10.8 Consensus size: 6
18760708 GATCCAATTC
* * * * *
18760718 AAAAA- AAAAAT CAAAAG AAAAAG AAAAA- AAAGAAG AAAAAT CAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT
*
18760765 CAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAA
18760782 ATGATATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
5 8 0.16
6 39 0.78
7 3 0.06
ACGTcount: A:0.81, C:0.05, G:0.06, T:0.08
Consensus pattern (6 bp):
AAAAAT
Found at i:18761614 original size:8 final size:8
Alignment explanation
Indices: 18761601--18761642 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
18761591 CTTTCAGTCA
18761601 AAAAAATG
1 AAAAAATG
18761609 AAAAAATG
1 AAAAAATG
18761617 -AAAAAT-
1 AAAAAATG
18761623 -AAAAATG
1 AAAAAATG
18761630 AAAAAATG
1 AAAAAATG
18761638 AAAAA
1 AAAAA
18761643 GTAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 20 0.62
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:18761626 original size:21 final size:22
Alignment explanation
Indices: 18761602--18761650 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
18761592 TTTCAGTCAA
18761602 AAAAATGAAAAAATGAAAAA-T
1 AAAAATGAAAAAATGAAAAAGT
18761623 AAAAATGAAAAAATGAAAAAGT
1 AAAAATGAAAAAATGAAAAAGT
18761645 AAAAAT
1 AAAAAT
18761651 AGAGAGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAAAATGAAAAAGT
Found at i:18761628 original size:13 final size:13
Alignment explanation
Indices: 18761610--18761634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18761600 AAAAAAATGA
18761610 AAAAATGAAAAAT
1 AAAAATGAAAAAT
18761623 AAAAATGAAAAA
1 AAAAATGAAAAA
18761635 ATGAAAAAGT
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAATGAAAAAT
Found at i:18763109 original size:50 final size:50
Alignment explanation
Indices: 18763055--18763709 Score: 438
Period size: 50 Copynumber: 13.1 Consensus size: 50
18763045 GCAGTGGAGC
*
18763055 AGATTAAAGCCACATCGTTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * ** * ** **
18763105 AGATTAAAGCCACAGCGGTGAATCTTACTTATCTGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGAC-ATTGCAGTTAAAA
*
18763155 AGATTAAAGCCACATCGGTGAATCTCGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * * ** * * * * *** **
18763205 AGATTAAAGCTACAACTGCAAATCTTACTTCTCTGGCGA-TGCGGCGGAGC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGAC-ATTGCAGTTAAAA
*
18763255 AGATTAAAGCCACATCGGTGAATCTTGCTT-TCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAA
* ** * * * * *
18763305 AGATTAAAGCCACAACGACGAATCTTACTTCTCTGGCGA-TGCAG-CAGAGA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGAC-ATTGCAGTTA-AAA
* *
18763355 AGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTT-AAAA
* * * * * ** *
18763406 AGATTAAAGCCACAGCGGCGAATCTTACTTCTCTGGCGA-TGCAGTGGAGA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGAC-ATTGCAGTTAAAA
* *
18763456 AGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
* * *** * * * ** *
18763506 AGATTAAAGCTACAACAACGAATCTT-ATTCCCCAGGCGA-TGCA-ACAGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTT-CCCTGAC-ATTGCAGTTA-AAA
*
18763556 AGATTAAAGCCACATCGGTGAATCTTGCTT-CCTCGACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAA
* * * * * * * * * *
18763606 AGATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA-TGCAG-CAGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGAC-ATTGCAGTTA-AAA
* * *
18763656 AGATTAAAGCCACGA-CGATGTATCTTGCGT-CCTCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAA
18763706 AGAT
1 AGAT
18763710 AGAAGCTACA
Statistics
Matches: 446, Mismatches: 132, Indels: 54
0.71 0.21 0.09
Matches are distributed among these distances:
49 18 0.04
50 373 0.84
51 53 0.12
52 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
Found at i:18763199 original size:100 final size:100
Alignment explanation
Indices: 18763044--18763709 Score: 874
Period size: 100 Copynumber: 6.7 Consensus size: 100
18763034 TCCCAAGAGG
* *
18763044 TGCAGTGGAGCAGATTAAAGCCACATCGTTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
* * *
18763109 TAAAGCCACAGCGGTGAATCTTACTTATCTGGCGA
66 TAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
* *
18763144 TGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCTGACATTGCAGTTAAAAAGAT
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
* * *
18763209 TAAAGCTACAACTGCAAATCTTACTTCTCTGGCGA
66 TAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
* *
18763244 TGCGGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTT-TCTCGACATTGCAGTTAAAAAGA
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAAAGA
*
18763308 TTAAAGCCACAACGACGAATCTTACTTCTCTGGCGA
65 TTAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
* * * *
18763344 TGCAGCAGAGAAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAAGA
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTT-AAAAAGA
*
18763409 TTAAAGCCACAGCGGCGAATCTTACTTCTCTGGCGA
65 TTAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
* * * *
18763445 TGCAGTGGAGAAGATTAAAGCCAAATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
* ** * *
18763510 TAAAGCTACAACAACGAATCTTA-TTCCCCAGGCGA
66 TAAAGCCACAACGGCGAATCTTACTT-CTCTGGCGA
* * * *
18763545 TGCAACAGAACAGATTAAAGCCACATCGGTGAATCTTGCTT-CCTCGACATTGTAGTTAAAAAGA
1 TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAAAGA
* * * * *
18763609 TTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
65 TTAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
* * * * *
18763645 TGCAGCAGAACAGATTAAAGCCACGA-CGATGTATCTTGCGT-CCTCGACATTGCAGTTAAAAAG
1 TGCAGCGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCT-GACATTGCAGTTAAAAAG
18763708 AT
64 AT
18763710 AGAAGCTACA
Statistics
Matches: 510, Mismatches: 49, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
99 6 0.01
100 407 0.80
101 97 0.19
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
TGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAAAGAT
TAAAGCCACAACGGCGAATCTTACTTCTCTGGCGA
Found at i:18763596 original size:301 final size:301
Alignment explanation
Indices: 18763054--18763706 Score: 983
Period size: 301 Copynumber: 2.2 Consensus size: 301
18763044 TGCAGTGGAG
* *
18763054 CAGATTAAAGCCACATCGTTGAATCTTGCTTCCCTGACATTGCAGTT-AAAAAGATTAAAGCCAC
1 CAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAAGATTAAAGCCAC
* * *
18763118 AGCGGTGAATCTTACTTATCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGC
66 AGCGGCGAATCTTACTTATCTGGCGATGCAGTGGAGAAGATTAAAGCCAAATCGGTGAATCTCGC
* ** * * *
18763183 TTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAACTGCAAATCTTACTTCTCTGGCGATGCG
131 TTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAACAAATCTTACTTCCCAGGCGATGCA
* * * *
18763248 GCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTTCTCGACATTGCAGTTAAAAAGATTAAA
196 ACAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAAA
* * *
18763313 GCCACAAC-GACGAATCTTACTTCTCTGGCGATGCAGCAGAGA
261 GCCACAACAG-CGAATCTTACTCCCCAGGCGATGCAGCAGA-A
* *
18763355 -AGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAAGATTAAAGCCAC
1 CAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAAGATTAAAGCCAC
* *
18763419 AGCGGCGAATCTTACTTCTCTGGCGATGCAGTGGAGAAGATTAAAGCCAAATCGGTGAATCTTGC
66 AGCGGCGAATCTTACTTATCTGGCGATGCAGTGGAGAAGATTAAAGCCAAATCGGTGAATCTCGC
*
18763484 TTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAACGAATCTTA-TTCCCCAGGCGATGC
131 TTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAACAAATCTTACTT-CCCAGGCGATGC
*
18763548 AACAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGTAGTTAAAAAGATTAA
195 AACAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAA
*
18763613 AGCTACAACAGCGAATCTTACTCCCCAGGCGATGCAGCAGAA
260 AGCCACAACAGCGAATCTTACTCCCCAGGCGATGCAGCAGAA
* * *
18763655 CAGATTAAAGCCACGA-CGATGTATCTTGCGTCCTCGACATTGCAGTTAAAAA
1 CAGATTAAAGCCAC-ATCGATGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
18763707 GATAGAAGCT
Statistics
Matches: 318, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
300 46 0.14
301 270 0.85
302 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (301 bp):
CAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAAGATTAAAGCCAC
AGCGGCGAATCTTACTTATCTGGCGATGCAGTGGAGAAGATTAAAGCCAAATCGGTGAATCTCGC
TTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAACAAATCTTACTTCCCAGGCGATGCA
ACAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAAA
GCCACAACAGCGAATCTTACTCCCCAGGCGATGCAGCAGAA
Found at i:18766748 original size:22 final size:22
Alignment explanation
Indices: 18766700--18766740 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
18766690 CACAAACAAA
18766700 AAATAAACCAAATAAAAAAAAC
1 AAATAAACCAAATAAAAAAAAC
18766722 AAATAAA-CAAATAAAAAAA
1 AAATAAACCAAATAAAAAAA
18766741 CAACAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (22 bp):
AAATAAACCAAATAAAAAAAAC
Found at i:18768019 original size:2 final size:2
Alignment explanation
Indices: 18768012--18768070 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
18768002 AGTATTTTTG
18768012 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
18768054 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
18768071 CAGTTAACCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18768487 original size:18 final size:18
Alignment explanation
Indices: 18768464--18768502 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
18768454 TATTTATATA
18768464 AATCAAAATGTAGGTATT
1 AATCAAAATGTAGGTATT
18768482 AATCAAAATGTAGGTATT
1 AATCAAAATGTAGGTATT
18768500 AAT
1 AAT
18768503 TTTAAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (18 bp):
AATCAAAATGTAGGTATT
Found at i:18768535 original size:13 final size:13
Alignment explanation
Indices: 18768517--18768551 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
18768507 AGTTATTCAC
18768517 TTTTATTTTATTT
1 TTTTATTTTATTT
18768530 TTTTA-TTTATTT
1 TTTTATTTTATTT
18768542 TATTTATTTT
1 T-TTTATTTT
18768552 TTTATAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.40
13 9 0.45
14 3 0.15
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:18768540 original size:17 final size:17
Alignment explanation
Indices: 18768517--18768556 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
18768507 AGTTATTCAC
18768517 TTTTATTTTATTT-TTT
1 TTTTATTTTATTTATTT
18768533 TATTTATTTTATTTATTT
1 T-TTTATTTTATTTATTT
18768551 TTTTAT
1 TTTTAT
18768557 AAATCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTATTTATTT
Found at i:18768544 original size:9 final size:9
Alignment explanation
Indices: 18768518--18768556 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
18768508 GTTATTCACT
18768518 TTTATTTTA
1 TTTATTTTA
18768527 TTT-TTTTA
1 TTTATTTTA
18768535 TTTATTTTA
1 TTTATTTTA
18768544 TTTATTTT-
1 TTTATTTTA
18768552 TTTAT
1 TTTAT
18768557 AAATCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTATTTTA
Found at i:18773280 original size:10 final size:10
Alignment explanation
Indices: 18773265--18773289 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18773255 CTGCCTTCAA
18773265 GAAAGTAGTT
1 GAAAGTAGTT
18773275 GAAAGTAGTT
1 GAAAGTAGTT
18773285 GAAAG
1 GAAAG
18773290 ACTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (10 bp):
GAAAGTAGTT
Found at i:18779080 original size:42 final size:42
Alignment explanation
Indices: 18779021--18779116 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
18779011 AAAAGGGGGG
* *
18779021 TCAAATATTGATCAGAATGGGGCATGAGATGATCTGAGCGGC
1 TCAAATATTGATCAGAATGAGGCATGAGATGATCTAAGCGGC
* * *
18779063 TCAAATATTGATCAGAATGAGGCATGAGGTGATCTAAGCTGT
1 TCAAATATTGATCAGAATGAGGCATGAGATGATCTAAGCGGC
*
18779105 TCAAATTTTGAT
1 TCAAATATTGAT
18779117 TTGGGTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (42 bp):
TCAAATATTGATCAGAATGAGGCATGAGATGATCTAAGCGGC
Found at i:18780301 original size:44 final size:44
Alignment explanation
Indices: 18780244--18780538 Score: 208
Period size: 44 Copynumber: 6.8 Consensus size: 44
18780234 TTGAAAAATT
*
18780244 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATA
* * * * **
18780288 GCGGATCTTATCTCCATAAGCAGTAGTGGAGCAGATTGAAGCCA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATA
** * * ** * *
18780332 GTA-ATCCTATCTTCCTAAAGTTGTAGTGGAGC-GAAT-TAAAATA
1 ACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG-ATCGAAGATA
* * ** * * * *
18780375 AAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCG--CAT-
1 ACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATA
* ** * * *
18780417 -CAGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGAATT
1 ACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAG-ATA
* * *
18780462 ACAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATA
18780506 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
1 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
18780539 AATTGAAACC
Statistics
Matches: 196, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
41 30 0.15
43 17 0.09
44 113 0.58
45 22 0.11
46 14 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATA
Found at i:18780605 original size:44 final size:44
Alignment explanation
Indices: 18780238--18780616 Score: 197
Period size: 44 Copynumber: 8.7 Consensus size: 44
18780228 AATAGGTTGA
* ** *
18780238 AAAATTACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCG
1 AAAATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT-T
* ** * * **
18780282 AAGATGGCGGATCTTATCTCCAT-AAGCAGTAGTGGAGCAGATT
1 AAAATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
* ** * * *
18780325 -GAA-GCCAGTAATCCTATCTTCCTAAAGTTGTAGTGGAGC-GAATT
1 AAAATAACAG--ATCTTATCTCCCTGAAGTTGTAGTGGAGCAG-ATT
* * * * *
18780369 AAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T
1 AAAATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
*** * * *
18780412 CGCAT--CAGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCA
1 AAAATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT-T
* * ** *
18780455 AAGAATTACAGATCTTATTTCCCT-AAGCAGTAGTGGAGCAGATC
1 AA-AATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
* ** *
18780499 AAAGATGACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAAATT
1 AAA-ATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
* * * * *
18780543 -GAA-ACCAGTAATCCTATCTCCCTGAAGTTGTGGTGGAGCGGATT
1 AAAATAACAG--ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
* *
18780587 AAAATAAAAGATCTTATCTCTCTGAAGTTG
1 AAAATAACAGATCTTATCTCCCTGAAGTTG
18780617 CAGTAGAGTA
Statistics
Matches: 253, Mismatches: 64, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
41 34 0.13
42 2 0.01
43 28 0.11
44 149 0.59
45 21 0.08
46 19 0.08
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAATAACAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
Found at i:18780618 original size:218 final size:218
Alignment explanation
Indices: 18780240--18780729 Score: 836
Period size: 218 Copynumber: 2.2 Consensus size: 218
18780230 TAGGTTGAAA
* *
18780240 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATCTTATCTCCAT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATCTTATCTCCAT
* * *
18780305 AAGCAGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTTCCTAAAGTTGTAGTGGAGCGAATTA
66 AAGCAGTAGTGGAGCAAATTGAAACCAGTAATCCTATCTCCCTAAAGTTGTAGTGGAGCGAATTA
*
18780370 AAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGA
131 AAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATGA
* *
18780435 AGTTGTAGCGGAGCAGATCAAAG
196 AGTTGCAGCGGAGCAGACCAAAG
* * *
18780458 AATTACAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACAGATCTTATCTCCCT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATCTTATCTCCAT
* * *
18780523 AAGCAGTAGTGGAGCAAATTGAAACCAGTAATCCTATCTCCCTGAAGTTGTGGTGGAGCGGATTA
66 AAGCAGTAGTGGAGCAAATTGAAACCAGTAATCCTATCTCCCTAAAGTTGTAGTGGAGCGAATTA
*
18780588 AAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTATATCGCATCAGGTCTTATCTCCATGA
131 AAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATGA
18780653 AGTTGCAGCGGAGCAGACCAAAG
196 AGTTGCAGCGGAGCAGACCAAAG
*
18780676 AATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGAT
1 AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGAT
18780730 TGAAGCCAGT
Statistics
Matches: 254, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 254 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (218 bp):
AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATCTTATCTCCAT
AAGCAGTAGTGGAGCAAATTGAAACCAGTAATCCTATCTCCCTAAAGTTGTAGTGGAGCGAATTA
AAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATGA
AGTTGCAGCGGAGCAGACCAAAG
Found at i:18780688 original size:174 final size:172
Alignment explanation
Indices: 18780489--18781113 Score: 770
Period size: 188 Copynumber: 3.5 Consensus size: 172
18780479 AAGCAGTAGT
* *
18780489 GGAGCAGATCAAAGATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAACCAGTAA
1 GGAGCAGACCAAAGATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGCCAGTAA
**
18780554 TCCTATCTCCCTGAAGTTGTGGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCA
66 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCA
* *
18780619 GTAGAGTATATCGCATCAGGTCTTATCTCCATGAAGTTGCAGC
131 GTAGAGTAGATCGCATCAGGTCTTATCTCC-TAAAGTTGCAGC
* *
18780662 GGAGCAGACCAAAGAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCA
1 GGAGCAGACCAAAG-ATGACAGATCTTATCTCCCTAAGCAGTAGT-G-G-AG--C----A----A
* *
18780727 GATTGAAGCCAGTAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATAAGAGATCTTAT
52 -ATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTAT
* *
18780792 CTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCATATCTCCCTAAAGTTGCAAC
116 CTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCT-CCTAAAGTTGCAGC
* * *
18780850 GGAGCAGACCGAATA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGCTAGT
1 GGAGCAGACC-AA-AGATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGCCAGT
*
18780914 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
64 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTG
* * * * * *
18780979 CGGTAGAGTAGATCACATCAGGTCTTATCTCCTTAA-TCAGTAGT
129 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCTAAAGT-TGCAGC
* * * * *
18781023 GGGGCAGATCAAAGATGACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGCC-GATA
1 GGAGCAGACCAAAGATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGCCAG-TA
** *
18781087 ATATTATCTTCCTGAAGTTGCAGTGGA
65 ATCCTATCTCCCTGAAGTTGCAGTGGA
18781114 CTAGGTTGAA
Statistics
Matches: 396, Mismatches: 35, Indels: 43
0.84 0.07 0.09
Matches are distributed among these distances:
171 2 0.01
172 71 0.18
173 28 0.07
174 128 0.32
175 1 0.00
176 1 0.00
177 2 0.01
179 2 0.01
183 2 0.01
185 2 0.01
186 1 0.00
187 2 0.01
188 149 0.38
189 4 0.01
190 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (172 bp):
GGAGCAGACCAAAGATGACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGCCAGTAA
TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCA
GTAGAGTAGATCGCATCAGGTCTTATCTCCTAAAGTTGCAGC
Found at i:18780808 original size:44 final size:44
Alignment explanation
Indices: 18780745--18780979 Score: 151
Period size: 44 Copynumber: 5.4 Consensus size: 44
18780735 CCAGTAATCC
* *
18780745 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATAAGAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAGAGATCT
* * * *** * *
18780789 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATCAG-G-TCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAGAGATCT
* ** ** * *
18780830 TATCTCCCTAAAGTTGCAACGGAGCAGACCGAATAATTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATAAGAGATCT
** * ** *
18780876 TATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGCT-AGTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATAAG-AGATCT
*
18780919 TATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAATAAAAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAATAAGAGATCT
*
18780963 TATCTCTCTGAAGTTGC
1 TATCTCCCTGAAGTTGC
18780980 GGTAGAGTAG
Statistics
Matches: 138, Mismatches: 42, Indels: 22
0.68 0.21 0.11
Matches are distributed among these distances:
41 24 0.17
42 1 0.01
43 23 0.17
44 63 0.46
45 16 0.12
46 11 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAAGAGATCT
Found at i:18780876 original size:188 final size:174
Alignment explanation
Indices: 18780724--18781113 Score: 529
Period size: 174 Copynumber: 2.3 Consensus size: 174
18780714 ATCAAAGATG
* *
18780724 GCAGATTGAAGCCAGTAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATAAGAGATCT
1 GCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
* *
18780789 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCATATCTCCCTAAAGTTGCAACGGAG
66 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATAAAGTTGCAACGGAG
* *
18780854 CAGACCGAATAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
131 CAGACCAAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* *
18780898 GCAGATTGAAGCTAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATAAAAGATCT
1 GCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
* * * **
18780963 TATCTCTCTGAAGTTGCGGTAGAGTAGATCACATCAGGTCTTATCTCCTTAATCAG-T--AGTGG
66 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATAA--AGTTGCAACGG
* * * *
18781025 GGCAGATCAAAG-ATGACAGATCTTATCTCCCTAAGTAGTAGTGGA
129 AGCAGACCAAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* ** *
18781070 GTAGATTGAAGCC-GATAATATTATCTTCCTGAAGTTGCAGTGGA
1 GCAGATTGAAGCCAG-TAATCCTATCTCCCTGAAGTTGCAGTGGA
18781114 CTAGGTTGAA
Statistics
Matches: 192, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
171 1 0.01
172 68 0.35
173 11 0.06
174 109 0.57
175 1 0.01
176 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (174 bp):
GCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCATAAAGTTGCAACGGAG
CAGACCAAAGAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
Found at i:18781335 original size:18 final size:17
Alignment explanation
Indices: 18781312--18781352 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
18781302 AAACACAAAC
18781312 AAAAAATAAACCAAATAA
1 AAAAAATAAA-CAAATAA
18781330 AAAAAATAAACAAATAA
1 AAAAAATAAACAAATAA
18781347 ATAAAA
1 A-AAAA
18781353 CAACAATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAACAAATAA
Found at i:18781837 original size:148 final size:149
Alignment explanation
Indices: 18781568--18781859 Score: 478
Period size: 148 Copynumber: 2.0 Consensus size: 149
18781558 CGAATCAGTA
* * * *
18781568 GAGTACCCTAAAAGCTTTTAGGGTTTTGTTGGTGCCACACCAGTAGATCCGAACTCGCGCCTTGC
1 GAGTACCCTAAAAGCTTTTAGGGTTTCGCTGGCGCCACACCAGTAGATCCGAACTCGCGCCGTGC
* *
18781633 ATCACCACCAAGCGCGTGCATCTTCTCTACACGGGTGCACCTCCAGGCTGGCTGAGTACCTGTAA
66 ATCACCACCAAGCGCGTGCATCTTCTCTACACGAGTGCACCTCCAGGCTGGCTGAGTACCTGCAA
18781698 AAAGCACACGAAAATAGTG
131 AAAGCACACGAAAATAGTG
* *
18781717 GAGTACCCTAGAAGCTTTTAGGGTTTCGCTGGCGCCACACCAGTAGATCCGGACTCGCG-CGTGC
1 GAGTACCCTAAAAGCTTTTAGGGTTTCGCTGGCGCCACACCAGTAGATCCGAACTCGCGCCGTGC
* *
18781781 ATCACCACTAAGCGCGTGCATCTTCTTTACACGAGTGCACCTCCAGGCTGGCTGAGTACCTGCAA
66 ATCACCACCAAGCGCGTGCATCTTCTCTACACGAGTGCACCTCCAGGCTGGCTGAGTACCTGCAA
*
18781846 AATGCACACGAAAA
131 AAAGCACACGAAAA
18781860 CAAGCAGTAA
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
148 78 0.59
149 54 0.41
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (149 bp):
GAGTACCCTAAAAGCTTTTAGGGTTTCGCTGGCGCCACACCAGTAGATCCGAACTCGCGCCGTGC
ATCACCACCAAGCGCGTGCATCTTCTCTACACGAGTGCACCTCCAGGCTGGCTGAGTACCTGCAA
AAAGCACACGAAAATAGTG
Found at i:18784192 original size:20 final size:20
Alignment explanation
Indices: 18784163--18784206 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
18784153 TATTATTTGG
*
18784163 ATTTGGGTTTAGT-ATAATAT
1 ATTTGAGTTTAGTAATAA-AT
*
18784183 ATTTGAGTTTTGTAATAAAT
1 ATTTGAGTTTAGTAATAAAT
18784203 ATTT
1 ATTT
18784207 TAGAATATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (20 bp):
ATTTGAGTTTAGTAATAAAT
Found at i:18786245 original size:17 final size:17
Alignment explanation
Indices: 18786201--18786247 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
18786191 CTACGTCAGC
*
18786201 AAATGAATTTAAACTTAA
1 AAAT-AATTTAAAATTAA
18786219 AAATAA-TTAAAATTAA
1 AAATAATTTAAAATTAA
18786235 AAA-ACATTTAAAA
1 AAATA-ATTTAAAA
18786248 CCCTTAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.50
17 8 0.31
18 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATAATTTAAAATTAA
Found at i:18786651 original size:9 final size:9
Alignment explanation
Indices: 18786637--18786671 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
18786627 GAAATTGATT
18786637 TTTTTTTAA
1 TTTTTTTAA
18786646 TTTTTTTAA
1 TTTTTTTAA
18786655 TTTTTTTAA
1 TTTTTTTAA
18786664 TTTTTTTA
1 TTTTTTTA
18786672 TTATTGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:18786953 original size:114 final size:113
Alignment explanation
Indices: 18786746--18786956 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 113
18786736 TAGTCACTGT
*
18786746 ATATTTAGCCAATTTGTTTTAGGGTTCATAAGAAATTGTGTGATTTTTTTTATTTTTTAATTGAA
1 ATATTTAGCCAATTTGTTTTAGGGTTCATAAGAAATTGTGGGATTTTTTTTATTTTTTAATTGAA
*
18786811 TATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGGTAAGC
66 TATTAATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGGTAAGC
*
18786859 ATATTTAGCCGATTTGTTTTAGGGTTCATAAGAAATTG-GGGATTTTTTTATTATTTTTTAATTG
1 ATATTTAGCCAATTTGTTTTAGGGTTCATAAGAAATTGTGGGA-TTTTTT-TTATTTTTTAATTG
*
18786923 AATATTAATGAAACATTTCTTTCCTATGCGTGAA
64 AATATTAATGAAACATTTCTTTCCCATGCGTGAA
18786957 TATTAGTGTA
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 3 0.03
113 43 0.47
114 46 0.50
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (113 bp):
ATATTTAGCCAATTTGTTTTAGGGTTCATAAGAAATTGTGGGATTTTTTTTATTTTTTAATTGAA
TATTAATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGGGTAAGC
Found at i:18787301 original size:18 final size:18
Alignment explanation
Indices: 18787262--18787302 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18787252 CGTTCGTTTC
18787262 CAAAACATTATTCATTTA
1 CAAAACATTATTCATTTA
*
18787280 CAAATCATTATTCAATTT-
1 CAAAACATTATTC-ATTTA
18787298 CAAAA
1 CAAAA
18787303 TGTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (18 bp):
CAAAACATTATTCATTTA
Found at i:18793301 original size:45 final size:45
Alignment explanation
Indices: 18793252--18793346 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
18793242 ACTCTTACCT
* *
18793252 TCACCCTCACCCTCAGCACCA-TTATTGCCAACAACCTCACCACCC
1 TCACCCTCACCCTCACCA-CATTTACTGCCAACAACCTCACCACCC
*
18793297 TCACCCTCACCCTCACCATATTTACTGCCAACAACCTCACCACCC
1 TCACCCTCACCCTCACCACATTTACTGCCAACAACCTCACCACCC
18793342 TCACC
1 TCACC
18793347 ACGTCTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.26, C:0.52, G:0.03, T:0.19
Consensus pattern (45 bp):
TCACCCTCACCCTCACCACATTTACTGCCAACAACCTCACCACCC
Found at i:18793992 original size:15 final size:15
Alignment explanation
Indices: 18793972--18794001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18793962 TCATCACCAG
18793972 CCAAAGCAACCATCC
1 CCAAAGCAACCATCC
*
18793987 CCAAAGCAATCATCC
1 CCAAAGCAACCATCC
18794002 AATTTTCCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.43, G:0.07, T:0.10
Consensus pattern (15 bp):
CCAAAGCAACCATCC
Found at i:18799231 original size:22 final size:22
Alignment explanation
Indices: 18799192--18799236 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18799182 AAGAAAAGAG
* *
18799192 ACGTGCCAAAGAGCAGAGGAAA
1 ACGTGCCAAAAAGCAGAGAAAA
*
18799214 ACGTGCCAAAAAGTAGAGAAAA
1 ACGTGCCAAAAAGCAGAGAAAA
18799236 A
1 A
18799237 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.16, G:0.27, T:0.07
Consensus pattern (22 bp):
ACGTGCCAAAAAGCAGAGAAAA
Found at i:18799882 original size:30 final size:30
Alignment explanation
Indices: 18799846--18799908 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
18799836 AATTTAGGTC
*
18799846 TTTTAACCTTTGATTAAATAA-AA-AAATTAA
1 TTTTAACCTTT--TTAAAAAATAATAAATTAA
18799876 TTTTAACCTTTTTAAAAAATAATAAATTAA
1 TTTTAACCTTTTTAAAAAATAATAAATTAA
18799906 TTT
1 TTT
18799909 AAGCATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.07
30 21 0.70
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTTAACCTTTTTAAAAAATAATAAATTAA
Found at i:18832833 original size:26 final size:25
Alignment explanation
Indices: 18832804--18832865 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
18832794 TTACCTTAGT
**
18832804 TAAAATTTTGATAATTTTATTCTTGG
1 TAAAATTTTGATAA-TTTACCCTTGG
* *
18832830 TAAAATTTTAATGATTTACCCTTGG
1 TAAAATTTTGATAATTTACCCTTGG
18832855 TAAAATTTTGA
1 TAAAATTTTGA
18832866 GAAAATTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (25 bp):
TAAAATTTTGATAATTTACCCTTGG
Found at i:18838997 original size:316 final size:306
Alignment explanation
Indices: 18838396--18838998 Score: 728
Period size: 316 Copynumber: 1.9 Consensus size: 306
18838386 ATATCTATAG
* * * * * * *
18838396 TATTATTTAAGCCCCTAATTGAGTTAGCCATGAGTTAACCGGGCACCAATTTGATTAGAAAATTA
1 TATTATTTAAGACCCTAATTGAGTTAGCCACGAGTCAACCGGACACCAACTCGATTAAAAAATTA
* ** * * *
18838461 CAAAAATGTTCTTTTGTAATTAAAATAAATTATATTATTTGAGGGTACTTTAGTCTTTTTCTTTT
66 CAAAAATGTCCTTCCGTAACTAAAATAAATTATATTATTTAAGAGTACTTTAGTCTTTTTCTTTT
** * * * *
18838526 AACATAAACCAATAAAAATATGTATATGATAGGATTTGAACCTATACTAATTAGATCAATAAAAC
131 AACATAAAAAAATAAAAATATGCATATGATAGGATTTAAACCTACACCAATTAGATCAATAAAAC
* * * *
18838591 CTTAAATTTACCACTCAATCAAAACTTCATTTTAATGTAATTTATACATTTTTATTTTATTGTGC
196 CTAAAATTTACCACTCAACCAAAACTTCATTTTAATGTAATTTATACATTTTTATTTTAATATGC
18838656 ACAATTTATTATCTCCAATCAATTGTACATATGTATCTATATTTAC
261 ACAATTTATTATCTCCAATCAATTGTACATATGTATCTATATTTAC
* * *
18838702 TATTATTTAAGACCCTAATTGAGTTGTTGTCACGAGTCAACCGGACACTAACTCGATTAAAAAAA
1 TATTATTTAAGACCCTAATTGAG-T-TAGCCACGAGTCAACCGGACACCAACTCGATT-AAAAAA
* *
18838767 TTACGAAAATGTCCTTCCGTAACTAAAATAAGTTATATTATTTAAGAGTACTTTAGTCTTTTTTC
63 TTACAAAAATGTCCTTCCGTAACTAAAATAAATTATATTATTTAAGAGTACTTTAGTC-TTTTTC
18838832 TTTTAACAAAAAATAATAAAAATAAAAATATGCATATGATAGGATTTAAACAC-ACACCAATT-G
127 TTTTAAC-----ATAA-AAAAATAAAAATATGCATATGATAGGATTTAAAC-CTACACCAATTAG
* *** * * *
18838895 TGTTGGTAAATCCTAAAATTTACCACTCAACCAAAAATTTCATTTTGATG-AATTTTATACATTT
185 -ATCAATAAAACCTAAAATTTACCACTCAACC-AAAACTTCATTTTAATGTAA-TTTATACATTT
*
18838959 TTATTTTAATATGCACAATTTATTATCT-CTATCAATTGTA
247 TTATTTTAATATGCACAATTTATTATCTCCAATCAATTGTA
18838999 TATTTATACT
Statistics
Matches: 247, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
306 22 0.09
307 1 0.00
308 24 0.10
309 55 0.22
310 13 0.05
315 5 0.02
316 74 0.30
317 53 0.21
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (306 bp):
TATTATTTAAGACCCTAATTGAGTTAGCCACGAGTCAACCGGACACCAACTCGATTAAAAAATTA
CAAAAATGTCCTTCCGTAACTAAAATAAATTATATTATTTAAGAGTACTTTAGTCTTTTTCTTTT
AACATAAAAAAATAAAAATATGCATATGATAGGATTTAAACCTACACCAATTAGATCAATAAAAC
CTAAAATTTACCACTCAACCAAAACTTCATTTTAATGTAATTTATACATTTTTATTTTAATATGC
ACAATTTATTATCTCCAATCAATTGTACATATGTATCTATATTTAC
Found at i:18839810 original size:18 final size:19
Alignment explanation
Indices: 18839774--18839813 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18839764 GTATGAATTC
**
18839774 AATTATAAAATTATCAAAA
1 AATTATAAAATTAAAAAAA
18839793 AATTA-AAAATTAAAAAAA
1 AATTATAAAATTAAAAAAA
18839811 AAT
1 AAT
18839814 ATTAGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTATAAAATTAAAAAAA
Found at i:18851284 original size:45 final size:46
Alignment explanation
Indices: 18851230--18851327 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 46
18851220 CTTAGTCACA
* *
18851230 TGCATTGATAGTCTACATCCTGACCACAGTT-CTGAGGACATACTGT
1 TGCATTGATAATCTACATCCTGACCACAGTTCCAG-GGACATACTGT
*
18851276 TGCA-TGATAATCTACATTCTGACCACAGTTCCAGGGACATACTGT
1 TGCATTGATAATCTACATCCTGACCACAGTTCCAGGGACATACTGT
*
18851321 TTCATTG
1 TGCATTG
18851328 TTGTCGTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 38 0.83
46 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (46 bp):
TGCATTGATAATCTACATCCTGACCACAGTTCCAGGGACATACTGT
Found at i:18870088 original size:16 final size:16
Alignment explanation
Indices: 18870067--18870105 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18870057 ATAAATAAAG
18870067 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
18870083 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
18870099 ATATATA
1 ATATATA
18870106 TAAATTAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:18871863 original size:50 final size:45
Alignment explanation
Indices: 18871799--18872107 Score: 273
Period size: 50 Copynumber: 6.6 Consensus size: 45
18871789 TTAGGGGGTG
* *
18871799 AGATCTGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAA---C--TGTCAGGGAAGCA
* ** *
18871849 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTG-CAACGCTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTC-A-G---GG-AAGCA
*
18871899 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCGGGGAAGCA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCAGGGAAGCA
* * ** * * **
18871944 AGATCCGCTGTTATAGCTTCAATCTGTTCCACTGCAACACTAGGAATATA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTG--TCA--GGGAA-GCA
18871994 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACT-TCCAGGGAAGCA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGT-CAGGGAAGCA
* * *
18872039 AG-TTCGCTGTTGTAGCTTCAATCTTTTTAACTGCCGGGGAAGCA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCAGGGAAGCA
*
18872083 AGATCTGCTGTTGTAGCTTCAATCT
1 AGATCCGCTGTTGTAGCTTCAATCT
18872108 GTTCCACTGC
Statistics
Matches: 213, Mismatches: 31, Indels: 35
0.76 0.11 0.13
Matches are distributed among these distances:
44 41 0.19
45 60 0.28
46 7 0.03
47 2 0.01
48 2 0.01
49 7 0.03
50 93 0.44
51 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCAGGGAAGCA
Found at i:18871967 original size:95 final size:95
Alignment explanation
Indices: 18871799--18872107 Score: 391
Period size: 95 Copynumber: 3.3 Consensus size: 95
18871789 TTAGGGGGTG
* *
18871799 AGATCTGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAA---C--TGTCAGGGAAGCAAGATCCGCTGTTGTA
18871864 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
61 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
* *
18871899 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCGGGGAAGCAAGATCCGCTGTTATAGCTTC
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCAGGGAAGCAAGATCCGCTGTTGTAGCTTC
*
18871964 AATCTGTTCCACTGCAACACTAGGAATA-TA
66 AATCTGTTCCACTGCAACGCTAGGAA-AGTA
*
18871994 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACT-TCCAGGGAAGCAAG-TTCGCTGTTGTAGCTT
1 AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGT-CAGGGAAGCAAGATCCGCTGTTGTAGCTT
* ** * *
18872057 CAATCTTTTTAACTGC--CG---GGGAAGCA
65 CAATCTGTTCCACTGCAACGCTAGGAAAGTA
*
18872083 AGATCTGCTGTTGTAGCTTCAATCT
1 AGATCCGCTGTTGTAGCTTCAATCT
18872108 GTTCCACTGC
Statistics
Matches: 191, Mismatches: 15, Indels: 17
0.86 0.07 0.08
Matches are distributed among these distances:
88 1 0.01
89 28 0.15
92 1 0.01
94 28 0.15
95 101 0.53
96 1 0.01
97 1 0.01
100 30 0.16
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (95 bp):
AGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGTCAGGGAAGCAAGATCCGCTGTTGTAGCTTC
AATCTGTTCCACTGCAACGCTAGGAAAGTA
Found at i:18872094 original size:139 final size:139
Alignment explanation
Indices: 18871904--18872160 Score: 417
Period size: 139 Copynumber: 1.8 Consensus size: 139
18871894 AAGTAAGATC
*
18871904 CGCTGTTGTAGCTTCAATCTTTTTAACTGTCGGGGAAGCAAGATCCGCTGTTATAGCTTCAATCT
1 CGCTGTTGTAGCTTCAATCTTTTTAACTGCCGGGGAAGCAAGATCCGCTGTTATAGCTTCAATCT
* **
18871969 GTTCCACTGCAACACTAGGAATA-TAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTTCCAGG
66 GTTCCACTGCAACACTA-GAAAAGTAAGATCCGCCATTGTAGCTTCAATCTTTTTAACTTCCAGG
18872033 GAAGCAAGTT
130 GAAGCAAGTT
* *
18872043 CGCTGTTGTAGCTTCAATCTTTTTAACTGCCGGGGAAGCAAGATCTGCTGTTGTAGCTTCAATCT
1 CGCTGTTGTAGCTTCAATCTTTTTAACTGCCGGGGAAGCAAGATCCGCTGTTATAGCTTCAATCT
* * *
18872108 GTTCCACTGCAACGCTAGAAAAGTAAGATTCGCCATTGTGGCTTCAATCTTTT
66 GTTCCACTGCAACACTAGAAAAGTAAGATCCGCCATTGTAGCTTCAATCTTTT
18872161 AAATTACAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
138 4 0.04
139 104 0.96
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (139 bp):
CGCTGTTGTAGCTTCAATCTTTTTAACTGCCGGGGAAGCAAGATCCGCTGTTATAGCTTCAATCT
GTTCCACTGCAACACTAGAAAAGTAAGATCCGCCATTGTAGCTTCAATCTTTTTAACTTCCAGGG
AAGCAAGTT
Found at i:18872336 original size:88 final size:88
Alignment explanation
Indices: 18872187--18873934 Score: 2662
Period size: 88 Copynumber: 19.9 Consensus size: 88
18872177 TTTCCTCTAT
*
18872187 CTGCTTCGCTGTCATTACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18872252 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
18872275 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
18872340 GAGGCAAGGTTTGTGTCTTCAAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
18872363 CTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGATA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
18872428 GAGACAAGGTTTGTGTCTTCAAC
66 GAGGCAAGGTTTGTGTCTTCGAC
18872451 CTGCTTCGCTGTCAATAC---AAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
18872513 GAGGCAAGGTTTGTGTCTTCAAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * *
18872536 TTGCTTCGCTAT-AATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18872600 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * * *
18872623 CTGTTTCGCTGTCAATACAGAAAGGTAAGATCTTTTGTCTTCAACCAGTTCCATCACAATCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18872688 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
18872711 CTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18872776 GAGGCAAGGTTTGTGTTCTTCGAAC
66 GAGGCAAGGTTTGTG-TCTTCG-AC
*
18872801 CTGCTTCGCTGTAAATACAGGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAG
1 CTGCTTCGCTGTCAATACAGG-AAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAG
18872866 AGAGGCAAGGATTTGTGTCTTCGAC
65 AGAGGCAAGG-TTTGTGTCTTCGAC
* *
18872891 CTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* * *
18872956 GAGACAATGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
18872979 CTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18873044 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * *
18873067 CTGCTTCGCTATCAATACAGAAAGGCAAGATCTTTTGTGTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18873132 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * **
18873155 CTGCTTCGCTGTCAATGCAGGAAGGTAAGATCTGCTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
18873220 GAGGCAAGGTTTGTGTCTTCTAT
66 GAGGCAAGGTTTGTGTCTTCGAC
* * *
18873243 CTGATTCGCTGTCAATGCTGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* * *
18873308 TAGGCAAGGTTTGTGTTTTTGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * *
18873331 CTGCTTCGCTATCAATACAGGAAGGCAGGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGG
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* *
18873396 GAGGCAAAGTTTGTGTCCTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* *
18873419 CTGCTTCGCTGTCAATGCAGGAACGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
18873484 GAGG-ATAGGTTTGTGTATTCGAC
66 GAGGCA-AGGTTTGTGTCTTCGAC
* * * *
18873507 CTGCCTCGCTGTCAATGCAGGAAGGTAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
18873572 GAGGCAAGGTTTGTGTCTTCAAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * * * * *
18873595 CTGCTTCGCAGTTAATGCAGGAAGGTAAGATCTGTTGTCTTCAACGAGCTCAATCACAACCGAGA
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
*
18873660 GAGGCAAGGTTTGTGTCTTTGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * *
18873683 CTGCTTCGCTGTCAATACAGGACGGCAAGATCTGTTGTCTTCAACCAGCTCCATTACAACCGAGG
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
* * *
18873748 GAGGCAGGGCTTGTGTCTTCGAT
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * * *
18873771 CTGATTCGCTGTCAATGCAGGAAGGTAAGATTTTTTGTCTTCAACCAGCTCCATCACAACCGAGG
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
18873836 GAGGCAAGGTTTGTGTCTTCGAC
66 GAGGCAAGGTTTGTGTCTTCGAC
* * * *
18873859 CGGCATCGCTGTCAATACAGGAAGACAAGATCTGCTT-TCTTCAACCAGCTCCATCACAACCGAG
1 CTGCTTCGCTGTCAATACAGGAAGGCAAGATCT-TTTGTCTTCAACCAGCTCCATCACAACCGAG
*
18873923 AGACGCAAGGTT
65 AGAGGCAAGGTT
18873935 GNNNNNNNNN
Statistics
Matches: 1518, Mismatches: 131, Indels: 22
0.91 0.08 0.01
Matches are distributed among these distances:
84 4 0.00
85 75 0.05
87 75 0.05
88 1199 0.79
89 59 0.04
90 42 0.03
91 58 0.04
92 6 0.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
CTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGA
GAGGCAAGGTTTGTGTCTTCGAC
Found at i:18874966 original size:45 final size:44
Alignment explanation
Indices: 18874917--18876119 Score: 330
Period size: 44 Copynumber: 27.1 Consensus size: 44
18874907 AGAGAGGGCA
18874917 AAGATTTGTGTTCTTCGACCTGCTTCGCTGTCAATG-CAAGCAGGC
1 AAGATTTGTG-TCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * ** * *
18874962 AAGATCTTTTGTCTTCAACCAGCTTC-CATCACAACCGAGAAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGACAAGAGGC
* *
18875008 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * ** * *
18875052 AAGATCTTTTGTCTTCAACCAGC-TC-CATCACAATCGA-GAGAGAC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAAT-GACAAGAGGC
* *
18875096 AAAGGTTTGTGTCTTTCGACCTGCTTCGCTGTCAAT-ACAGAAAGGC
1 -AAGATTTGTGTC-TTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * ** *
18875142 AAGATCTTTTGTCTTCAACCAGC-TC-CATCACAATCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAAT-GACAAGAGGC
* * *
18875186 AAGGTTTGTGTCTTCGACCTGCTTCGCTATCAAT-ACAGAAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * * ** * *
18875230 AAGATCTTTTGTGTTCAACCAGC-TC-CATCACAACCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGACAAGAGGC
* * *
18875274 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-CAGGAAGGT
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * ** * * * * *
18875318 AAGATCTTTTATCTTCAACAAGCTCCACT-ACAACCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGCTGTCAA-TGACAAGAGGC
* * *
18875362 AAGGTTTGTGTCTTCGACCTGCTTCACTGTCAAT-ACAGGAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * ** * *
18875406 AAGACCTTT-TGTCTTCAACCAGC-TC-CATCACAACCGA-GAGAGGC
1 AAGA--TTTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGACAAGAGGC
* * * *
18875450 AAGGTTTGTGTCTTCGATCTGCTTCGCTGTCGATG-CAGGAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * ** * *
18875494 AAGATCTTTTGTCTTCAACCAGC-TC-CATCACAACCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGACAAGAGGC
* * *
18875538 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-CAGGTAGAC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * ** * *
18875582 AAGATCTTTTGGTCTTCAAACCAGC-TC-CATCACAACCGA-GAGAGGC
1 AAGAT-TTGT-GTCTTC-GACCTGCTTCGC-TGTCAA-TGACAAGAGGC
* *
18875628 AAGGTTTGTGTCTTTCGACCTGCTTCGCTGTCAATG-CAGAAAGGC
1 AAGATTTGTGTC-TTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * ** * *
18875673 AAGATCATTTTGTCTTCAACCAGC-TC-CATCACAATCGA-GAGATGC
1 AAGAT--TTGTGTCTTCGACCTGCTTCGC-TGTCAAT-GACAAGAGGC
* *
18875718 AAGGTTTGGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGAAAGGC
1 AAGATTT-GTGTCTTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * * ** *
18875763 AAGATCTTTTGTCTTCAATCAGC-TC-CATCACAATCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAAT-GACAAGAGGC
* * *
18875807 AATG-TTTGTGTGTTCAACCTGCTTCGCTGTCAAT-ACAGAAAGGC
1 AA-GATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACA-AGAGGC
* * * * ** * *
18875851 AAGATCTTTTGTCTT-TAACTAGC-TCCCTCACAACCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCT-GCTTCGCTGTCAA-TGACAAGAGGC
* *
18875895 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAAT-ACAGGAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * * * ** * *
18875939 AAGATCTTTTGTCTTCAACCAGCTCCAC-CACAACCGA-GAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGCTGTCAA-TGACAAGAGGC
* * * *
18875983 AAGGTTTGTGTATTTGACCTGCTTCGCTGTCAATG-CAGGAAGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAG-AGGC
* * * ** *
18876027 AAGATCTTTTGTCTTCAACCAGC-TC-CATCACAATCGA-TAGAGGC
1 AAGAT-TTGTGTCTTCGACCTGCTTCGC-TGTCAAT-GACAAGAGGC
* *
18876071 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATG-CAGGATGGC
1 AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAGA-GGC
18876115 AAGAT
1 AAGAT
18876120 CTACTATCTT
Statistics
Matches: 798, Mismatches: 251, Indels: 219
0.63 0.20 0.17
Matches are distributed among these distances:
42 7 0.01
43 147 0.18
44 300 0.38
45 254 0.32
46 73 0.09
47 17 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
AAGATTTGTGTCTTCGACCTGCTTCGCTGTCAATGACAAGAGGC
Found at i:18876109 original size:621 final size:625
Alignment explanation
Indices: 18874845--18876121 Score: 2142
Period size: 621 Copynumber: 2.0 Consensus size: 625
18874835 NNNNNNNNNN
* *
18874845 CTTCGCTGTCAATGCAGAAAGGCAAGATTCTTTTGTCTTCAATCAGCTCCATTCACAATCCGAGA
1 CTTCGCTGTCAATGCAGGAAGGCAAGA-TCTTTTGTCTTCAACCAGCTCCATTCACAATCCGAGA
*
18874910 GAGGGCAAAGATTTGTGTTCTTCGACCTGCTTCGCTGTCAATGCAAGCAGGCAAGATCTTTTGTC
65 GAGGGCAAAGATTTGTGTTCTTCGACCTGCTTCGCTGTCAATGCAAGCAGACAAGATCTTTTGTC
18874975 TTCAACCAGCTTCCATCACAACCGAGAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCA
130 TTCAACCAGCTTCCATCACAACCGAGAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCA
18875040 ATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAGACAAAGGTTTG
195 ATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAGACAAAGGTTTG
18875105 TGTCTTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCAT
260 TGTCTTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCAT
*
18875170 CACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTATCAATACAGAAAGGCAAGAT
325 CACAATCGAGAGAGGCAAGGTTTGTGTCTTCAACCTGCTTCGCTATCAATACAGAAAGGCAAGAT
*
18875235 CTTTTGTGTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
390 CTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
* * *
18875300 CTGTCAATGCAGGAAGGTAAGATCTTTTATCTTCAACAAGCTCCACTACAACCGAGAGAGGCAAG
455 CTGTCAATACAGGAAGGCAAGATCTTTTATCTTCAACAAGCTCCACCACAACCGAGAGAGGCAAG
*
18875365 GTTTGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAGGCAAGACCTTTTGTCTTCAACCAGCT
520 GTTTGTGTATTCGACCTGCTTCACTGTCAATACAGGAAGGCAAGACCTTTTGTCTTCAACCAGCT
*
18875430 CCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTG
585 CCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTG
*
18875471 CTTCGCTGTCGATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAA-CCGAGAG
1 CTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATTCACAATCCGAGAG
* * *
18875534 A-GGC-AAGGTTTGTG-TCTTCGACCTGCTTCGCTGTCAATGCAGGTAGACAAGATCTTTTGGTC
66 AGGGCAAAGATTTGTGTTCTTCGACCTGCTTCGCTGTCAATGCAAGCAGACAAGATCTTTT-GTC
18875596 TTCAAACCAGC-TCCATCACAACCGAG-AGAGGCAAGGTTTGTGTCTTTCGACCTGCTTCGCTGT
130 TTC-AACCAGCTTCCATCACAACCGAGAAGAGGCAAGGTTTGTGTC-TTCGACCTGCTTCGCTGT
*
18875659 CAATGCAGAAAGGCAAGATCATTTTGTCTTCAACCAGCTCCATCACAATCGAGAGATG-C-AAGG
193 CAATACAGAAAGGCAAGATC-TTTTGTCTTCAACCAGCTCCATCACAATCGAGAGA-GACAAAGG
*
18875722 TTTGGTGTC-TTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAATCAGC
256 TTT-GTGTCTTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGC
* * *
18875786 TCCATCACAATCGAGAGAGGCAATGTTTGTGTGTTCAACCTGCTTCGCTGTCAATACAGAAAGGC
320 TCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCAACCTGCTTCGCTATCAATACAGAAAGGC
* * *
18875851 AAGATCTTTTGTCTTTAACTAGCTCCCTCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTG
385 AAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTG
* *
18875916 CTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACCACAACCGAGAGAG
450 CTTCGCTGTCAATACAGGAAGGCAAGATCTTTTATCTTCAACAAGCTCCACCACAACCGAGAGAG
* * * *
18875981 GCAAGGTTTGTGTATTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAAC
515 GCAAGGTTTGTGTATTCGACCTGCTTCACTGTCAATACAGGAAGGCAAGACCTTTTGTCTTCAAC
* *
18876046 CAGCTCCATCACAATCGATAGAGGCAAGGTTTGTGTCTTCGACCTG
580 CAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTG
*
18876092 CTTCGCTGTCAATGCAGGATGGCAAGATCT
1 CTTCGCTGTCAATGCAGGAAGGCAAGATCT
18876122 ACTATCTTCG
Statistics
Matches: 613, Mismatches: 32, Indels: 17
0.93 0.05 0.03
Matches are distributed among these distances:
620 59 0.10
621 441 0.72
622 51 0.08
623 9 0.01
624 6 0.01
625 22 0.04
626 25 0.04
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (625 bp):
CTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATTCACAATCCGAGAG
AGGGCAAAGATTTGTGTTCTTCGACCTGCTTCGCTGTCAATGCAAGCAGACAAGATCTTTTGTCT
TCAACCAGCTTCCATCACAACCGAGAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAA
TACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAGACAAAGGTTTGT
GTCTTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC
ACAATCGAGAGAGGCAAGGTTTGTGTCTTCAACCTGCTTCGCTATCAATACAGAAAGGCAAGATC
TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGC
TGTCAATACAGGAAGGCAAGATCTTTTATCTTCAACAAGCTCCACCACAACCGAGAGAGGCAAGG
TTTGTGTATTCGACCTGCTTCACTGTCAATACAGGAAGGCAAGACCTTTTGTCTTCAACCAGCTC
CATCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTG
Found at i:18876130 original size:88 final size:88
Alignment explanation
Indices: 18874845--18876121 Score: 1964
Period size: 88 Copynumber: 14.3 Consensus size: 88
18874835 NNNNNNNNNN
*
18874845 CTTCGCTGTCAATGCAGAAAGGCAAGATTCTTTTGTCTTCAATCAGCTCCATTCACAATCCGAGA
1 CTTCGCTGTCAATGCAGAAAGGCAAGA-TCTTTTGTCTTCAACCAGCTCCA-TCACAA-CCGAGA
*
18874910 GAGGGCAAAGATTTGTGTTCTTCGACCTG
63 GA-GGC-AAGGTTTGTG-TCTTCGACCTG
*
18874939 CTTCGCTGTCAATGCA-AGCAGGCAAGATCTTTTGTCTTCAACCAGCTTCCATCACAACCGAGAA
1 CTTCGCTGTCAATGCAGA-AAGGCAAGATCTTTTGTCTTCAACCAGC-TCCATCACAACCGAG-A
18875003 GAGGCAAGGTTTGTGTCTTCGACCTG
63 GAGGCAAGGTTTGTGTCTTCGACCTG
* *
18875029 CTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
*
18875094 ACAAAGGTTTGTGTCTTTCGACCTG
66 GC-AAGGTTTGTGTC-TTCGACCTG
* *
18875119 CTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
18875184 GCAAGGTTTGTGTCTTCGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* * *
18875207 CTTCGCTATCAATACAGAAAGGCAAGATCTTTTGTGTTCAACCAGCTCCATCACAACCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
18875272 GCAAGGTTTGTGTCTTCGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* * * *
18875295 CTTCGCTGTCAATGCAGGAAGGTAAGATCTTTTATCTTCAACAAGCTCCA-CTACAACCGAGAGA
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-ACAACCGAGAGA
18875359 GGCAAGGTTTGTGTCTTCGACCTG
65 GGCAAGGTTTGTGTCTTCGACCTG
* * * *
18875383 CTTCACTGTCAATACAGGAAGGCAAGACCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
*
18875448 GCAAGGTTTGTGTCTTCGATCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* *
18875471 CTTCGCTGTCGATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
18875536 GCAAGGTTTGTGTCTTCGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
** *
18875559 CTTCGCTGTCAATGCAGGTAGACAAGATCTTTTGGTCTTCAAACCAGCTCCATCACAACCGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTT-GTCTTC-AACCAGCTCCATCACAACCGAGAG
18875624 AGGCAAGGTTTGTGTCTTTCGACCTG
64 AGGCAAGGTTTGTGTC-TTCGACCTG
*
18875650 CTTCGCTGTCAATGCAGAAAGGCAAGATCATTTTGTCTTCAACCAGCTCCATCACAATCGAGAGA
1 CTTCGCTGTCAATGCAGAAAGGCAAGATC-TTTTGTCTTCAACCAGCTCCATCACAACCGAGAGA
*
18875715 TGCAAGGTTTGGTGTCTTCGACCTG
65 GGCAAGGTTT-GTGTCTTCGACCTG
* * *
18875740 CTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTCAATCAGCTCCATCACAATCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
* * *
18875805 GCAATGTTTGTGTGTTCAACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* * * *
18875828 CTTCGCTGTCAATACAGAAAGGCAAGATCTTTTGTCTTTAACTAGCTCCCTCACAACCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
18875893 GCAAGGTTTGTGTCTTCGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* * *
18875916 CTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCACCACAACCGAGAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
* *
18875981 GCAAGGTTTGTGTATTTGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* * *
18876004 CTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAATCGATAGAG
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
18876069 GCAAGGTTTGTGTCTTCGACCTG
66 GCAAGGTTTGTGTCTTCGACCTG
* *
18876092 CTTCGCTGTCAATGCAGGATGGCAAGATCT
1 CTTCGCTGTCAATGCAGAAAGGCAAGATCT
18876122 ACTATCTTCG
Statistics
Matches: 1104, Mismatches: 66, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
87 1 0.00
88 654 0.59
89 87 0.08
90 238 0.22
91 56 0.05
92 12 0.01
93 28 0.03
94 28 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (88 bp):
CTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAG
GCAAGGTTTGTGTCTTCGACCTG
Found at i:18876164 original size:46 final size:46
Alignment explanation
Indices: 18876114--18876634 Score: 731
Period size: 46 Copynumber: 11.4 Consensus size: 46
18876104 TGCAGGATGG
* *
18876114 CAAGATCTACTATCTTCGATCCCCTCCGTTGCCAAATACAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
18876160 CAAGATCTGCTATCTTCGATCCCC-CCGCTGCCAAATACAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
*
18876205 CAAGATTTGCTATCTTCGATCCCC-CCGCTGCCAAATACAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* * * *
18876250 CAAGATTTGCTATCTTCGATCCCCTCCGTTGCCAATTATAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* * *
18876296 CAAGATCTGTTATCTTCGATCCTCTCCACTGCCAAATACAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* * * * *
18876342 TAAAATCTGCTATCCTCGATCCCCTCCGCTGCCAAATATAGGAAGG
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* * **
18876388 CAAGATCTGCTATCTTCAATCCCCTCCGCTGCCAATTTTAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* *
18876434 CAAGATCTACTATCTTCGATCCTCTCCGCTGCCAAATACAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* *
18876480 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAATTATAGGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* * ** *
18876526 CAAGATCTGCTATCCTCGTTCTTCTCCGCTGCCAAATACATGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
* ** * *
18876572 TAAGATCTGCTATCTTCGATCTTCTCTGCTGCCAAATACAAGAAGA
1 CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
18876618 CAAGATCTGCTATCTTC
1 CAAGATCTGCTATCTTC
18876635 ATTGATCTGT
Statistics
Matches: 423, Mismatches: 51, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
45 88 0.21
46 335 0.79
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (46 bp):
CAAGATCTGCTATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGA
Found at i:18877729 original size:21 final size:21
Alignment explanation
Indices: 18877703--18877749 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18877693 GGTATAGCAA
18877703 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** * *
18877724 GATCACTTCATGCCCCATTTT
1 GATCACCACATGCCCCAATCT
18877745 GATCA
1 GATCA
18877750 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:18877857 original size:18 final size:18
Alignment explanation
Indices: 18877834--18877887 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
18877824 AGCCTCTCCA
18877834 TTTTTTC-TTTTGCATTTT
1 TTTTTTCATTTT-CATTTT
18877852 TTTTTTCATTTTCATTTT
1 TTTTTTCATTTTCATTTT
*
18877870 TTCTTTCA--TTCATTTT
1 TTTTTTCATTTTCATTTT
18877886 TT
1 TT
18877888 ATATATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.29
18 20 0.59
19 4 0.12
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTCATTTTCATTTT
Found at i:18878760 original size:18 final size:18
Alignment explanation
Indices: 18878737--18878774 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18878727 TTTGACTTTG
18878737 ATTTTTTTGATTTTTTTA
1 ATTTTTTTGATTTTTTTA
*
18878755 ATTTTTTTGTTTTTTTTA
1 ATTTTTTTGATTTTTTTA
18878773 AT
1 AT
18878775 ATGAACTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
ATTTTTTTGATTTTTTTA
Found at i:18878771 original size:9 final size:9
Alignment explanation
Indices: 18878733--18878770 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
18878723 AATTTTTGAC
18878733 TTTGATTTT
1 TTTGATTTT
18878742 TTTGATTTT
1 TTTGATTTT
*
18878751 TTTAATTTT
1 TTTGATTTT
18878760 TTTG-TTTT
1 TTTGATTTT
18878768 TTT
1 TTT
18878771 TAATATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTGATTTT
Found at i:18882208 original size:16 final size:16
Alignment explanation
Indices: 18882187--18882225 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18882177 AATAATGGAA
18882187 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
18882203 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
18882219 ATATATA
1 ATATATA
18882226 TAAATTAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:18883189 original size:16 final size:17
Alignment explanation
Indices: 18883158--18883190 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18883148 CCCCAGTGAG
*
18883158 TCTTTTTTTTATTTTTC
1 TCTTTTTTTTAGTTTTC
18883175 TCTTTTTTTT-GTTTTC
1 TCTTTTTTTTAGTTTTC
18883191 GTATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (17 bp):
TCTTTTTTTTAGTTTTC
Found at i:18888490 original size:28 final size:27
Alignment explanation
Indices: 18888458--18888514 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
18888448 TAATTCAAAT
*
18888458 AACAAGATTAATAAACAGAGTTCCTGTC
1 AACAAGATT-ATAAACAGAATTCCTGTC
* * *
18888486 AACAAGGTTATTAACAGAATTCTTGTC
1 AACAAGATTATAAACAGAATTCCTGTC
18888513 AA
1 AA
18888515 TCACAGCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (27 bp):
AACAAGATTATAAACAGAATTCCTGTC
Found at i:18890493 original size:311 final size:312
Alignment explanation
Indices: 18889905--18890526 Score: 1036
Period size: 311 Copynumber: 2.0 Consensus size: 312
18889895 GATACCACTA
* * * *
18889905 GAAAACAGACTGTTACAACTCTCCACCCTTAGGAAATTTCGTCCTCGAAATTTTTACTTGTGAAG
1 GAAAACAGACTGCTACAACTCTCCACCCTTAGGAAATTTCATCCACGAAATTTTTACTTGAGAAG
18889970 ACAATTGAGTATTGTGACTTCTTCAATTCCTCAGTTCCCCATGTAGCTTATCTAATACGGAATAT
66 ACAATTGAGTATTGTGACTTCTTCAATTCCTCAGTTCCCCATGTAGCTTATCTAATACGGAATAT
* * **
18890035 GAAAGATAATCATCTACTGACAATCTCGAATAATTTAAAATTTACCCTCAGTTTCACTAATCAAA
131 AAAAGATAATCATCAACTGACAATCTCGAATAATGCAAAATTTACCCTCAGTTTCACTAATCAAA
*
18890100 TCTATCCCAAAGCCTCATAGAGTTTCCCTCAGATCTCGAGGTGAATCCCAGATCTTGTTCAAAAA
196 TCTATCCCAAAGCCTCATAGAGTTTCCCTCAAATCTCGAGGTGAATCCCAGATCTTGTTCAAAAA
* *
18890165 TAATAGACAATGATACTCTGTTTAATCTGACAGTCTCTAATACATATAACTG
261 TAATAGACAATGATACTCTATTTAATCTGACAATCTCTAATACATATAACTG
*
18890217 GAAAACAGATTGCTACAACTCTCC-CCCTTAGGAAATTTCATCCACGAAATTTTTACTTGAGAAG
1 GAAAACAGACTGCTACAACTCTCCACCCTTAGGAAATTTCATCCACGAAATTTTTACTTGAGAAG
*
18890281 ACAATATG-GTATTGTGACTTCTTCAATTCCTCAGTTCCCCATGTAGCTTATGTAATACGGAATA
66 ACAAT-TGAGTATTGTGACTTCTTCAATTCCTCAGTTCCCCATGTAGCTTATCTAATACGGAATA
* * *
18890345 TAAAAGATAATGATCAACTGATAATCTCGAATAATGCAAAATTTATCCTCAGTTTCACTAATCAA
130 TAAAAGATAATCATCAACTGACAATCTCGAATAATGCAAAATTTACCCTCAGTTTCACTAATCAA
*
18890410 ATCTA-CCCTAAAGCCTCATAGAGTTTCCC-CAAAATCTCGAGGTGAATCCCAGATCTTGTTCGA
195 ATCTATCCC-AAAGCCTCATAGAGTTTCCCTC-AAATCTCGAGGTGAATCCCAGATCTTGTTCAA
18890473 AAATAATAGACAATGATACTCTATTTAATCTGACAATCTCTAATACATATAACT
258 AAATAATAGACAATGATACTCTATTTAATCTGACAATCTCTAATACATATAACT
18890527 CAGCTACTTT
Statistics
Matches: 290, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
310 4 0.01
311 262 0.90
312 24 0.08
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (312 bp):
GAAAACAGACTGCTACAACTCTCCACCCTTAGGAAATTTCATCCACGAAATTTTTACTTGAGAAG
ACAATTGAGTATTGTGACTTCTTCAATTCCTCAGTTCCCCATGTAGCTTATCTAATACGGAATAT
AAAAGATAATCATCAACTGACAATCTCGAATAATGCAAAATTTACCCTCAGTTTCACTAATCAAA
TCTATCCCAAAGCCTCATAGAGTTTCCCTCAAATCTCGAGGTGAATCCCAGATCTTGTTCAAAAA
TAATAGACAATGATACTCTATTTAATCTGACAATCTCTAATACATATAACTG
Found at i:18891458 original size:50 final size:50
Alignment explanation
Indices: 18891383--18891483 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
18891373 TCGAGTTTGA
18891383 ACAATAGTTTTTAGTATATCACAATCTTTAACTAGCAACTGATAATAACC
1 ACAATAGTTTTTAGTATATCACAATCTTTAACTAGCAACTGATAATAACC
18891433 ACAATAGTTTTTAGTATATCACAATCTTTAACTAGCAACTGATAATAACC
1 ACAATAGTTTTTAGTATATCACAATCTTTAACTAGCAACTGATAATAACC
18891483 A
1 A
18891484 AGTATGCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.34
Consensus pattern (50 bp):
ACAATAGTTTTTAGTATATCACAATCTTTAACTAGCAACTGATAATAACC
Found at i:18893755 original size:28 final size:27
Alignment explanation
Indices: 18893724--18893822 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
18893714 TCTGTGACAT
*
18893724 TTTTTCTTTGTTCATTTTTC-CTCACTTC
1 TTTTTCTTTCTT-ATTTTTCTCT-ACTTC
* *
18893752 TTTTCCTTTCTTATTTTTCTCTTCTTC
1 TTTTTCTTTCTTATTTTTCTCTACTTC
* *
18893779 TTTTTC-TTCTTCTTCTTCT-T-CTTC
1 TTTTTCTTTCTTATTTTTCTCTACTTC
* * *
18893803 TTCTTCTTTTTTCTTTTTCT
1 TTTTTCTTTCTTATTTTTCT
18893823 TTCCTTGTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.15
25 12 0.20
26 11 0.18
27 16 0.27
28 12 0.20
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.71
Consensus pattern (27 bp):
TTTTTCTTTCTTATTTTTCTCTACTTC
Found at i:18893769 original size:14 final size:15
Alignment explanation
Indices: 18893752--18893813 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 15
18893742 TCCTCACTTC
18893752 TTTTCCT-TTCTTAT
1 TTTTCCTCTTCTTAT
*
18893766 TTTT-CTCTTCTTCT
1 TTTTCCTCTTCTTAT
* *
18893780 TTTTCTTCTTCTTCT
1 TTTTCCTCTTCTTAT
* * *
18893795 TCTTCTTCTTCTTCT
1 TTTTCCTCTTCTTAT
18893810 TTTT
1 TTTT
18893814 TCTTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
13 2 0.05
14 14 0.33
15 26 0.62
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCCTCTTCTTAT
Found at i:18893779 original size:3 final size:3
Alignment explanation
Indices: 18893771--18893823 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
18893761 CTTATTTTTC
*
18893771 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
18893817 TTT TCT T
1 TCT TCT T
18893824 TCCTTGTGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:18893785 original size:6 final size:6
Alignment explanation
Indices: 18893749--18893824 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
18893739 TTTTCCTCAC
* * * * *
18893749 TTCTTT TCCTTT CTTATTT TTCTCTT CTTCTTT TTCTTC TTCTTC TTCTTC
1 TTCTTT TTCTTT -TTCTTT TTCT-TT -TTCTTT TTCTTT TTCTTT TTCTTT
*
18893800 TTCTTC TTCTTTT TTCTTT TTCTTT
1 TTCTTT TTC-TTT TTCTTT TTCTTT
18893825 CCTTGTGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 43 0.72
7 13 0.22
8 4 0.07
ACGTcount: A:0.01, C:0.25, G:0.00, T:0.74
Consensus pattern (6 bp):
TTCTTT
Done.