Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 116 of 196
Found at i:35110403 original size:7 final size:7
Alignment explanation
Indices: 35110387--35110418 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
35110377 TGCAAATAGA
*
35110387 TATTTTG
1 TATTTAG
35110394 TATTTAG
1 TATTTAG
35110401 TATTTAG
1 TATTTAG
35110408 TATTTAG
1 TATTTAG
35110415 TATT
1 TATT
35110419 ATGTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:35110424 original size:14 final size:13
Alignment explanation
Indices: 35110390--35110424 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
35110380 AAATAGATAT
35110390 TTTGTATTTAGTA
1 TTTGTATTTAGTA
35110403 TTTAGTATTTAGTA
1 TTT-GTATTTAGTA
35110417 TTATGTAT
1 TT-TGTAT
35110425 ATAACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (13 bp):
TTTGTATTTAGTA
Found at i:35111077 original size:18 final size:18
Alignment explanation
Indices: 35111050--35111089 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
35111040 CAGGTGCGTT
*
35111050 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
35111068 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
35111086 TCCT
1 TCCT
35111090 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:35111600 original size:71 final size:71
Alignment explanation
Indices: 35111522--35111703 Score: 339
Period size: 71 Copynumber: 2.6 Consensus size: 71
35111512 TTGAAGTTTG
*
35111522 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAAAAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
35111587 ATATTA
66 ATATTA
35111593 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
35111658 ATATTA
66 ATATTA
35111664 TTTGATGTAATAAAATAGAAG-TTTATTTGATGTAATAAAA
1 TTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAA
35111704 TAGAAGTTTA
Statistics
Matches: 109, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
70 4 0.04
71 105 0.96
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (71 bp):
TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATTTTG
ATATTA
Found at i:35111625 original size:25 final size:25
Alignment explanation
Indices: 35111514--35111945 Score: 204
Period size: 25 Copynumber: 17.9 Consensus size: 25
35111504 TTAATATTTT
35111514 GAAGTTTGT-TTGATGTAATAAAATA
1 GAAGTTT-TATTGATGTAATAAAATA
* *
35111539 GAAGTTTTATTGATGTAAAAAAAATT
1 GAAGTTTTATTGATGT-AATAAAATA
* * * ** *
35111565 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTATTGATGTAATAAAATA
*
35111586 G-A-TATTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
*
35111610 GAAGTTTTATTGATGTAATAAAAATT
1 GAAGTTTTATTGATGTAAT-AAAATA
* * * ** *
35111636 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTATTGATGTAATAAAATA
*
35111657 G-A-TATTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
35111681 GAAG-TTTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
35111706 GAAG-TTTATATGATGTAATAAAATA
1 GAAGTTTTAT-TGATGTAATAAAATA
*
35111731 GAAGTTTTATTGATGTAATAAAAATT
1 GAAGTTTTATTGATGTAAT-AAAATA
* * * ** *
35111757 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTATTGATGTAATAAAATA
*
35111778 G-A-TATTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
*
35111802 GAAGTTTTATTGATGTAATAAAAATT
1 GAAGTTTTATTGATGTAAT-AAAATA
* * * ** *
35111828 TAAATTTTTTTGA-GT--T-ATTTT
1 GAAGTTTTATTGATGTAATAAAATA
*
35111849 G-A-TATTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
*
35111873 TAAG-TTTATTTGATGTAATAAAATA
1 GAAGTTTTA-TTGATGTAATAAAATA
*
35111898 GATG-TTTATATGATGTAATAAAATA
1 GAAGTTTTAT-TGATGTAATAAAATA
*
35111923 GAAG-TTTATTTGATGTGATAAAA
1 GAAGTTTTA-TTGATGTAATAAAA
35111946 ATTGAAAACC
Statistics
Matches: 311, Mismatches: 59, Indels: 74
0.70 0.13 0.17
Matches are distributed among these distances:
19 12 0.04
20 20 0.06
21 20 0.06
23 7 0.02
24 14 0.05
25 162 0.52
26 76 0.24
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
GAAGTTTTATTGATGTAATAAAATA
Found at i:35111730 original size:121 final size:121
Alignment explanation
Indices: 35111590--35111824 Score: 445
Period size: 121 Copynumber: 1.9 Consensus size: 121
35111580 TATTTTGATA
*
35111590 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
35111655 TTGATATTATTTGATGTAATAAAATAGAAG-TTTATTTGATGTAATAAAATAGAAGT
66 TTGATATTATTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAATAGAAGT
35111711 TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
35111776 TTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAA
66 TTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAA
35111825 ATTTAAATTT
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
121 108 0.96
122 4 0.04
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (121 bp):
TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
TTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAATAGAAGT
Found at i:35111801 original size:71 final size:71
Alignment explanation
Indices: 35111711--35111895 Score: 336
Period size: 71 Copynumber: 2.6 Consensus size: 71
35111701 AAATAGAAGT
*
35111711 TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
35111776 TTGATA
66 TTGATA
35111782 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
35111847 TTGATA
66 TTGATA
*
35111853 TTATTTGATGTAATAAAATATAAG-TTTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAA
35111896 TAGATGTTTA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
70 4 0.04
71 107 0.96
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (71 bp):
TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
TTGATA
Found at i:35111841 original size:192 final size:192
Alignment explanation
Indices: 35111514--35111948 Score: 800
Period size: 192 Copynumber: 2.3 Consensus size: 192
35111504 TTAATATTTT
* * *
35111514 GAAGTTTGTTTGATGTAATAAAATAGAAGTTTTATTGATGTAAAAAAAATTTAAATTTTTTTGAG
1 GAAGTTTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAG
35111579 TTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTT
66 TTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTT
35111644 TTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATA
131 TTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATA
35111706 GAAGTTTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAG
1 GAAGTTTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAG
35111771 TTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTT
66 TTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTT
*
35111836 TTTGAGTTATTTTGATATTATTTGATGTAATAAAATATAAGTTTATTTGATGTAATAAAATA
131 TTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATA
* *
35111898 GATGTTTATATGATGTAATAAAATAGAAG-TTTATTTGATGTGATAAAAATT
1 GAAGTTTATATGATGTAATAAAATAGAAGTTTTA-TTGATGTAATAAAAATT
35111949 GAAAACCGTA
Statistics
Matches: 236, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
191 4 0.02
192 232 0.98
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (192 bp):
GAAGTTTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAG
TTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTT
TTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATAAAATA
Found at i:35111977 original size:23 final size:23
Alignment explanation
Indices: 35111947--35112416 Score: 521
Period size: 23 Copynumber: 19.7 Consensus size: 23
35111937 GTGATAAAAA
*
35111947 TTGAAAACCGTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
* *
35111970 TTGAAAACCGTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
*
35111993 TTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112016 TTGAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
* * *
35112039 TTGAAAACCTTAACTTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
35112062 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112085 TTGAAAACCCAAAACCCTAACCTAATTAAA
1 TTG-------AAAACCCTAACCTAATTAAG
*
35112115 TTGAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112138 TTGAAAACCCTAACATAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
35112161 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112184 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
*
35112207 TTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112230 TTGAAAACCCTAACCTAATTCTAAC
1 TTGAAAACCCTAACCTAA-T-TAAG
* ** *
35112255 CT-AATTAA-GTTGAAAACCCTAACCTAATTAAC
1 TTGAA--AACCCT---AA-CCT-A----ATTAAG
* *
35112287 TTAAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
35112310 TTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
35112333 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
35112356 TTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
35112379 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
35112402 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
35112417 CTAAACTTAA
Statistics
Matches: 386, Mismatches: 39, Indels: 44
0.82 0.08 0.09
Matches are distributed among these distances:
23 330 0.85
24 3 0.01
25 5 0.01
26 2 0.01
27 1 0.00
28 5 0.01
29 5 0.01
30 23 0.06
31 2 0.01
32 6 0.02
33 3 0.01
34 1 0.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (23 bp):
TTGAAAACCCTAACCTAATTAAG
Found at i:35112000 original size:46 final size:46
Alignment explanation
Indices: 35111947--35112416 Score: 604
Period size: 46 Copynumber: 10.3 Consensus size: 46
35111937 GTGATAAAAA
* * *
35111947 TTGAAAACCGTAACCTAATTAAGTTGAAAACCGTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
35111993 TTAAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * *
35112039 TTGAAAACCTTAACTTATTTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
35112085 TTGAAAACCCAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTATTTAAG
1 TTG-------AAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
*
35112138 TTGAAAACCCTAACATAATTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
35112184 TTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
35112230 TTGAAAACCCTAACC----TAA-TT-------CTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * *
35112264 TTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * *
35112310 TTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
35112356 TTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
35112402 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
35112417 CTAAACTTAA
Statistics
Matches: 377, Mismatches: 28, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
34 29 0.08
38 3 0.01
39 2 0.01
41 2 0.01
42 3 0.01
46 297 0.79
53 41 0.11
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (46 bp):
TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
Found at i:35112069 original size:69 final size:69
Alignment explanation
Indices: 35111947--35112416 Score: 604
Period size: 69 Copynumber: 6.9 Consensus size: 69
35111937 GTGATAAAAA
* * * *
35111947 TTGAAAACCGTAACCTAATTAAGTTGAAAACCGTAACCTAATTAAATTAAAAACCCTAACCTAAT
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
35112012 TAAG
66 TAAG
* * * *
35112016 TTGAAAACCCTAACCTATTTAAGTTGAAAACCTTAACTTATTTAAGTTGAAAACCCTAACCTAAT
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
35112081 TAAG
66 TAAG
* *
35112085 TTGAAAACCCAAAACCCTAACCTAATTAAATTGAAAACCCTAACCTATTTAAGTTGAAAACCCTA
1 TTG-------AAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTA
*
35112150 ACATAATTAAG
59 ACCTAATTAAG
* *
35112161 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAAT
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
35112226 TAAG
66 TAAG
35112230 TTGAAAACCCTAACC----TAA-TT-------CTAACCTAATTAAGTTGAAAACCCTAACCTAAT
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
*
35112283 TAAC
66 TAAG
* * * *
35112287 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAAT
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
*
35112352 TAAA
66 TAAG
* *
35112356 TTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACC
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACC
35112417 CTAAACTTAA
Statistics
Matches: 355, Mismatches: 27, Indels: 38
0.85 0.06 0.09
Matches are distributed among these distances:
57 48 0.14
61 3 0.01
62 2 0.01
64 2 0.01
65 3 0.01
69 233 0.66
76 64 0.18
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (69 bp):
TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAAT
TAAG
Found at i:35112099 original size:30 final size:30
Alignment explanation
Indices: 35112065--35112124 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
35112055 ATTTAAGTTG
*
35112065 AAAACCCTAACCTAATTAAGTTGAAAACCC
1 AAAACCCTAACCTAATTAAATTGAAAACCC
35112095 AAAACCCTAACCTAATTAAATTGAAAACCC
1 AAAACCCTAACCTAATTAAATTGAAAACCC
35112125 TAACCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.27, G:0.05, T:0.20
Consensus pattern (30 bp):
AAAACCCTAACCTAATTAAATTGAAAACCC
Found at i:35112259 original size:34 final size:34
Alignment explanation
Indices: 35112216--35112283 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
35112206 ATTAAAAACC
35112216 CTAACCTAATTAAGTTGAAAACCCTAACCTAATT
1 CTAACCTAATTAAGTTGAAAACCCTAACCTAATT
35112250 CTAACCTAATTAAGTTGAAAACCCTAACCTAATT
1 CTAACCTAATTAAGTTGAAAACCCTAACCTAATT
35112284 AACTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (34 bp):
CTAACCTAATTAAGTTGAAAACCCTAACCTAATT
Found at i:35112294 original size:103 final size:103
Alignment explanation
Indices: 35112147--35112416 Score: 382
Period size: 103 Copynumber: 2.7 Consensus size: 103
35112137 GTTGAAAACC
* *
35112147 CTAACATAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAA
1 CTAACATAATTAAGTTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAA
35112212 AACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATT
66 AACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATT
*
35112250 CTAACCTAATTAAGTTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAA
1 CTAACATAATTAAGTTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAA
*
35112315 AACCCTAACCTATTTAAGTTGAAAACCCTAACCTAA-T
66 AACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATT
* * * * *
35112352 -T---A-AATT-A----AAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAGTTGAA
1 CTAACATAATTAAGTTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAA
35112407 AACCCTAACC
66 AACCCTAACC
35112417 CTAAACTTAA
Statistics
Matches: 157, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
92 53 0.34
96 1 0.01
97 4 0.03
101 1 0.01
102 1 0.01
103 97 0.62
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (103 bp):
CTAACATAATTAAGTTGAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAA
AACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATT
Found at i:35115894 original size:125 final size:124
Alignment explanation
Indices: 35115667--35115906 Score: 385
Period size: 125 Copynumber: 1.9 Consensus size: 124
35115657 CCCAAACAGG
* *
35115667 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
35115732 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCATCCATGAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTC--AAAAAAATTATTTCATCCATGAC
* *
35115793 CTACTGTAGCAAGAGCGCGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
* *
35115856 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAATTATTTC
65 GCTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTC
35115907 TTCCCAGACC
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
123 14 0.13
124 3 0.03
125 59 0.55
126 31 0.29
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCATCCATGAC
Found at i:35115945 original size:7 final size:7
Alignment explanation
Indices: 35115933--35115959 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35115923 CCTTAAAAAG
35115933 CCTAAAC
1 CCTAAAC
35115940 CCTAAAC
1 CCTAAAC
35115947 CCTAAAC
1 CCTAAAC
35115954 CCTAAA
1 CCTAAA
35115960 AGCCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:35116892 original size:13 final size:13
Alignment explanation
Indices: 35116874--35116898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35116864 TGAAAATCTG
35116874 TTGAAGATTTCTA
1 TTGAAGATTTCTA
35116887 TTGAAGATTTCT
1 TTGAAGATTTCT
35116899 TCTTCTCGTG
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:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGAAGATTTCTA
Found at i:35128038 original size:41 final size:42
Alignment explanation
Indices: 35127954--35128046 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
35127944 TTCTGTGGGA
* * * *
35127954 AAACGCCGCTATAAAACATGATCTTTAGCGGTGCTTTTATTAC
1 AAACGCTGCTAAAAAACACGATCTTTAGCGAT-CTTTTATTAC
* * *
35127997 AAATGCTGCTAAAAAACACGATTTTTAGCGAT-TTTTTTTAC
1 AAACGCTGCTAAAAAACACGATCTTTAGCGATCTTTTATTAC
35128038 AAACGCTGC
1 AAACGCTGC
35128047 AAGAGAGTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 16 0.38
43 26 0.62
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (42 bp):
AAACGCTGCTAAAAAACACGATCTTTAGCGATCTTTTATTAC
Found at i:35135678 original size:23 final size:23
Alignment explanation
Indices: 35135648--35135691 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
35135638 AACAATTTGC
35135648 AAATATAGGACAATGAAGGCTTT
1 AAATATAGGACAATGAAGGCTTT
35135671 AAATATAGGACAATGAAGGCT
1 AAATATAGGACAATGAAGGCT
35135692 ATAAGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (23 bp):
AAATATAGGACAATGAAGGCTTT
Found at i:35141074 original size:30 final size:31
Alignment explanation
Indices: 35141035--35141094 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
35141025 AGAGGTGGGA
*
35141035 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
35141066 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
35141095 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:35142249 original size:19 final size:21
Alignment explanation
Indices: 35142211--35142264 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 21
35142201 GTTGAAAATG
35142211 ATATTTATTTAATATAAATTT
1 ATATTTATTTAATATAAATTT
*
35142232 ATATTTA-TT-ATTTAAATTT
1 ATATTTATTTAATATAAATTT
*
35142251 -T-TTTATATAATATA
1 ATATTTATTTAATATA
35142265 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 2 0.07
19 13 0.46
20 2 0.07
21 7 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTATTTAATATAAATTT
Found at i:35142798 original size:5 final size:6
Alignment explanation
Indices: 35142781--35142805 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35142771 TAAATAACTT
35142781 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
35142806 CTCTATTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:35144713 original size:27 final size:24
Alignment explanation
Indices: 35144667--35144716 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
35144657 AGATGAAATT
*
35144667 TTTAATTAAAAAATTTATTTTTTA
1 TTTAATTAAAAAATTAATTTTTTA
*
35144691 TTTAATATATAAAAATTAAATTTTTA
1 TTTAAT-TA-AAAAATTAATTTTTTA
35144717 AATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAATTAAAAAATTAATTTTTTA
Found at i:35147382 original size:24 final size:24
Alignment explanation
Indices: 35147349--35147412 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
35147339 AAACCTAATT
* * *
35147349 CTAATCAATGTTAAATATATTATG
1 CTAATAAATGCTAAATATATTATA
35147373 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCTAAATATATTATA
* *
35147397 CCAATAAATACTAAAT
1 CTAATAAATGCTAAAT
35147413 CTTCTAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (24 bp):
CTAATAAATGCTAAATATATTATA
Found at i:35155760 original size:16 final size:17
Alignment explanation
Indices: 35155739--35155776 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
35155729 CCATTCCTTT
35155739 CACACCCTCGTCA-CCC
1 CACACCCTCGTCACCCC
35155755 CACACCCTCGTCACCCC
1 CACACCCTCGTCACCCC
35155772 CACAC
1 CACAC
35155777 AACCCTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.21, C:0.63, G:0.05, T:0.11
Consensus pattern (17 bp):
CACACCCTCGTCACCCC
Found at i:35156465 original size:23 final size:23
Alignment explanation
Indices: 35156438--35156484 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
35156428 ATTAGGGGAG
*
35156438 AAAATTAACGAATTTTGAGGGTT
1 AAAATTAAAGAATTTTGAGGGTT
*
35156461 AAAATTAAAGAATTTTGGGGGTT
1 AAAATTAAAGAATTTTGAGGGTT
35156484 A
1 A
35156485 TCGGGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (23 bp):
AAAATTAAAGAATTTTGAGGGTT
Found at i:35159438 original size:6 final size:6
Alignment explanation
Indices: 35159415--35159457 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
35159405 GAATTATTTT
* * *
35159415 TTTTAT TTTTAG ACTTTAG TTTTAG TTTTCG TTTTAG TTTTAG
1 TTTTAG TTTTAG -TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG
35159458 AATTTTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.65
Consensus pattern (6 bp):
TTTTAG
Found at i:35196178 original size:31 final size:32
Alignment explanation
Indices: 35196116--35196183 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
35196106 CTTTTTAGAT
* *
35196116 AAATTTGATCCTTGACCTTTTAAGAAAGAGTC
1 AAATTTGACCCTTGACCTTTCAAGAAAGAGTC
35196148 AAATTTGACCACTT-ACCTTTCAA-AAAGAGTC
1 AAATTTGACC-CTTGACCTTTCAAGAAAGAGTC
*
35196179 GAATT
1 AAATT
35196184 GTTGTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 12 0.38
32 17 0.53
33 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
AAATTTGACCCTTGACCTTTCAAGAAAGAGTC
Found at i:35196534 original size:32 final size:32
Alignment explanation
Indices: 35196496--35196562 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
35196486 CCCGTTTTTT
* *
35196496 AAATAAATACCAAAAA-ATTATTTTTAAAATTA
1 AAATAAAAACCAAAAACAGTA-TTTTAAAATTA
**
35196528 AAATAAAAATTAAAAACAGTATTTTAAAATTA
1 AAATAAAAACCAAAAACAGTATTTTAAAATTA
35196560 AAA
1 AAA
35196563 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.90
33 3 0.10
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (32 bp):
AAATAAAAACCAAAAACAGTATTTTAAAATTA
Found at i:35196570 original size:27 final size:26
Alignment explanation
Indices: 35196525--35196634 Score: 88
Period size: 27 Copynumber: 4.2 Consensus size: 26
35196515 ATTTTTAAAA
*
35196525 TTAAAATAAAAATTAAAAACAGTATT
1 TTAAAATAAAAATTAAAAAAAGTATT
35196551 TTAAAATTAAAAAATT-AAAAAAGTATT
1 TTAAAA-T-AAAAATTAAAAAAAGTATT
* **
35196578 TT--AA-AAATATTTTAAAAA--ATT
1 TTAAAATAAAAATTAAAAAAAGTATT
35196599 TTAAAATTAAAAAAATTTAAAAAAAGTATT
1 TTAAAA-T--AAAAA-TTAAAAAAAGTATT
35196629 TTAAAA
1 TTAAAA
35196635 GTATTTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
21 5 0.08
22 6 0.09
23 7 0.11
25 2 0.03
26 6 0.09
27 17 0.26
28 14 0.21
30 9 0.14
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (26 bp):
TTAAAATAAAAATTAAAAAAAGTATT
Found at i:35196570 original size:28 final size:25
Alignment explanation
Indices: 35196525--35196634 Score: 93
Period size: 28 Copynumber: 4.2 Consensus size: 25
35196515 ATTTTTAAAA
35196525 TTAAAATAAAAATTAAAAACAGTATT
1 TTAAAATAAAAATTAAAAA-AGTATT
35196551 TTAAAATTAAAAAATTAAAAAAGTATT
1 TTAAAA-T-AAAAATTAAAAAAGTATT
* * *
35196578 TT-AAA-AATATTTTAAAAA--ATT
1 TTAAAATAAAAATTAAAAAAGTATT
35196599 TTAAAATTAAAAAAATTTAAAAAAAGTATT
1 TTAAAA-T--AAAAA-TT-AAAAAAGTATT
35196629 TTAAAA
1 TTAAAA
35196635 GTATTTTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
21 5 0.07
22 3 0.04
23 10 0.15
26 12 0.18
27 11 0.16
28 17 0.25
30 9 0.13
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (25 bp):
TTAAAATAAAAATTAAAAAAGTATT
Found at i:35196588 original size:11 final size:11
Alignment explanation
Indices: 35196568--35196645 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
35196558 TAAAAAATTA
35196568 AAAAAGTATTTT
1 AAAAA-TATTTT
35196580 AAAAATATTTT
1 AAAAATATTTT
35196591 AAAAA-ATTTT
1 AAAAATATTTT
35196601 --AAA-A--TT
1 AAAAATATTTT
* *
35196607 AAAAAAATTTAA
1 AAAAATATTT-T
35196619 AAAAAGTATTTT
1 AAAAA-TATTTT
*
35196631 AAAAGTATTTT
1 AAAAATATTTT
35196642 AAAA
1 AAAA
35196646 TTAAAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
6 2 0.04
8 7 0.13
9 1 0.02
10 5 0.09
11 22 0.40
12 14 0.25
13 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:35196610 original size:16 final size:16
Alignment explanation
Indices: 35196589--35196620 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35196579 TAAAAATATT
*
35196589 TTAAAAAATTTTAAAA
1 TTAAAAAAATTTAAAA
35196605 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
35196621 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:35196652 original size:40 final size:39
Alignment explanation
Indices: 35196517--35196655 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 39
35196507 AAAAAATTAT
* *
35196517 TTTTAAAATTAAAATAAAAATTAAAAACAGTATTTT-AAAA
1 TTTTAAAATT-AAA-AAAATTTAAAAAAAGTATTTTAAAAA
** *
35196557 TTAAAAAATTAAAAAAGTATTT-TAAAAA-TATTTTAAAAAA
1 TTTTAAAATTAAAAAA--ATTTAAAAAAAGTATTTT-AAAAA
35196597 TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAGTA
1 TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAA--A
35196638 TTTTAAAATTAAAAAAAT
1 TTTTAAAATTAAAAAAAT
35196656 ATTTATTATT
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
38 13 0.16
39 16 0.19
40 35 0.42
41 19 0.23
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (39 bp):
TTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
Found at i:35198658 original size:2 final size:2
Alignment explanation
Indices: 35198651--35198675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35198641 TCTGGACCGT
35198651 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35198676 GTGTGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35199833 original size:21 final size:21
Alignment explanation
Indices: 35199781--35199825 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
35199771 TTTAACCTTG
*
35199781 AACCCCAAACCATAAAACTCA
1 AACCTCAAACCATAAAACTCA
35199802 AACCTCAAACCATAAACACT-A
1 AACCTCAAACCATAAA-ACTCA
35199823 AAC
1 AAC
35199826 TTTAAACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.53, C:0.36, G:0.00, T:0.11
Consensus pattern (21 bp):
AACCTCAAACCATAAAACTCA
Found at i:35200031 original size:19 final size:20
Alignment explanation
Indices: 35200001--35200050 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
35199991 TAGGATTTGA
* *
35200001 GGTTTAAGGTTTGGGTTTAT
1 GGTTTAAGGTTTGAGTTCAT
35200021 GGTTT-AGGTTTGAGTTCAT
1 GGTTTAAGGTTTGAGTTCAT
*
35200040 GGTTCAAGGTT
1 GGTTTAAGGTT
35200051 CGGGATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (20 bp):
GGTTTAAGGTTTGAGTTCAT
Found at i:35200183 original size:13 final size:13
Alignment explanation
Indices: 35200165--35200192 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35200155 ATAAAATGAT
35200165 TTCTCCTAAACTA
1 TTCTCCTAAACTA
35200178 TTCTCCTAAACTA
1 TTCTCCTAAACTA
35200191 TT
1 TT
35200193 AAGGAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (13 bp):
TTCTCCTAAACTA
Found at i:35202446 original size:2 final size:2
Alignment explanation
Indices: 35202439--35202463 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35202429 TTCATACTTT
35202439 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35202464 TGTTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35218791 original size:26 final size:27
Alignment explanation
Indices: 35218738--35218801 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 27
35218728 ATAAAAAATA
35218738 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAC-TTTTTTTATTT
35218766 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
35218792 ACCAAAATAT
1 ACCAAAATAT
35218802 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:35218883 original size:27 final size:27
Alignment explanation
Indices: 35218852--35218911 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
35218842 CCCTGATCAG
*
35218852 GCCAATCACATTGGCGGCACCAAAGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*** *
35218879 GCCAAAGTGATTGGCGGCACCAATGGT
1 GCCAAACACATTGGCGGCACCAAAGGT
*
35218906 ACCAAA
1 GCCAAA
35218912 GGACTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.15
Consensus pattern (27 bp):
GCCAAACACATTGGCGGCACCAAAGGT
Found at i:35218912 original size:27 final size:27
Alignment explanation
Indices: 35218861--35218912 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
35218851 GGCCAATCAC
*
35218861 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTACCAAAGTG
*
35218888 ATTGGCGGCACCAATGGTACCAAAG
1 ATTGGCGGCACCAAAGGTACCAAAG
35218913 GACTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTACCAAAGTG
Found at i:35219047 original size:19 final size:19
Alignment explanation
Indices: 35219020--35219081 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
35219010 ACAGAATAGT
35219020 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * * *
35219039 TTGTTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
35219057 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
35219076 TTATTA
1 TTATTA
35219082 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:35219072 original size:18 final size:18
Alignment explanation
Indices: 35219014--35219073 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
35219004 TAGTTTACAG
35219014 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
* * * *
35219032 AATAGAGTTGTTAAATGAG
1 AATAG-TTTATTAAATTAA
35219051 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATTAA
35219069 AATAG
1 AATAG
35219074 AGTTATTACT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 19 0.58
19 14 0.42
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATTAA
Found at i:35219675 original size:27 final size:27
Alignment explanation
Indices: 35219634--35219685 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
35219624 CATTTTAGTC
35219634 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
35219661 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
35219686 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:35219693 original size:27 final size:27
Alignment explanation
Indices: 35219636--35219694 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
35219626 TTTTAGTCCT
*
35219636 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
35219663 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
35219690 TTGGC
1 TTGGC
35219695 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:35219778 original size:27 final size:28
Alignment explanation
Indices: 35219748--35219812 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
35219738 TGTTTTTGGT
35219748 ATATTTTGGTAAATAAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
*
35219775 ATATTTTGATAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
35219803 ATATTTTGGT
1 ATATTTTGGT
35219813 TCTTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:35222696 original size:3 final size:3
Alignment explanation
Indices: 35222688--35222749 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
35222678 ACCATAGCAA
35222688 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35222736 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
35222750 CAACTTCAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:35226804 original size:24 final size:24
Alignment explanation
Indices: 35226762--35226808 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
35226752 GTGATTCCCG
* *
35226762 TTAATTGCTCTTCGTAGCTACCCA
1 TTAATTGCACTTCGGAGCTACCCA
*
35226786 TTAATTGCACTTTGGAGCTACCC
1 TTAATTGCACTTCGGAGCTACCC
35226809 GTTATAGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (24 bp):
TTAATTGCACTTCGGAGCTACCCA
Found at i:35229325 original size:8 final size:8
Alignment explanation
Indices: 35229312--35229341 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
35229302 GTTGATTTCC
35229312 AAACATTT
1 AAACATTT
35229320 AAACATTT
1 AAACATTT
35229328 AAACATTT
1 AAACATTT
35229336 AAACAT
1 AAACAT
35229342 GCATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (8 bp):
AAACATTT
Found at i:35229729 original size:22 final size:21
Alignment explanation
Indices: 35229703--35229826 Score: 96
Period size: 22 Copynumber: 5.9 Consensus size: 21
35229693 TTCACAAACA
35229703 AATTCCTTTCAAAAATTCTCTC
1 AATTCC-TTCAAAAATTCTCTC
*
35229725 AATTCCCTTCAAAATTTCTCTC
1 AATT-CCTTCAAAAATTCTCTC
* *
35229747 AATTTCCTTCCAGAATTCTCTC
1 AA-TTCCTTCAAAAATTCTCTC
* *
35229769 AA--ACTCTC--AAATTCTC-A
1 AATTCCT-TCAAAAATTCTCTC
* *
35229786 AATTCCTTCCAAAATCCTCTC
1 AATTCCTTCAAAAATTCTCTC
*
35229807 AATTTCCTTCAAAAAATCTC
1 AA-TTCCTTCAAAAATTCTC
35229827 CAAATCCATA
Statistics
Matches: 80, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.03
18 9 0.11
19 4 0.05
20 9 0.11
21 2 0.03
22 50 0.62
23 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (21 bp):
AATTCCTTCAAAAATTCTCTC
Found at i:35229920 original size:29 final size:27
Alignment explanation
Indices: 35229856--35229920 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
35229846 TTTTTCCATT
* *
35229856 AAATTTCATTTTTTTAAGAAAATTTTA
1 AAATTTTATTTTTTTAAAAAAATTTTA
35229883 AAATTTTTTATTTTTTTAAAAAATAATTTTA
1 AAA--TTTTATTTTTTT-AAAAA-AATTTTA
35229914 AAATTTT
1 AAATTTT
35229921 TAATATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.09
29 15 0.47
30 4 0.12
31 10 0.31
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
AAATTTTATTTTTTTAAAAAAATTTTA
Found at i:35229922 original size:30 final size:29
Alignment explanation
Indices: 35229863--35229921 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
35229853 ATTAAATTTC
*
35229863 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAAAAAATTTTAAAATTTTTT
35229892 ATTTTTTTAAAAAATAATTTTAAAATTTTT
1 ATTTTTTT-AAAAA-AATTTTAAAATTTTT
35229922 AATATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 4 0.15
31 15 0.56
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTTTTTAAAAAAATTTTAAAATTTTTT
Found at i:35230074 original size:24 final size:23
Alignment explanation
Indices: 35230019--35230074 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
35230009 TATATTTTAA
*
35230019 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
35230042 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
35230068 ATTTTTT
1 ATTTTTT
35230075 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:35232064 original size:25 final size:25
Alignment explanation
Indices: 35232030--35232080 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35232020 AGAGAAAGGA
35232030 GGAATCCAGCGCGTAACCGTCGATG
1 GGAATCCAGCGCGTAACCGTCGATG
35232055 GGAATCCAGCGCGTAACCGTCGATG
1 GGAATCCAGCGCGTAACCGTCGATG
35232080 G
1 G
35232081 CCGCCATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.16
Consensus pattern (25 bp):
GGAATCCAGCGCGTAACCGTCGATG
Found at i:35232281 original size:24 final size:24
Alignment explanation
Indices: 35232217--35232291 Score: 91
Period size: 23 Copynumber: 3.2 Consensus size: 24
35232207 ACATTATTTG
*
35232217 ATTAAAATCCCTAACCCT-ACTTA
1 ATTAAAAACCCTAACCCTAACTTA
* *
35232240 ATTAAAAACCCTTA-CCTAATTTA
1 ATTAAAAACCCTAACCCTAACTTA
* *
35232263 ATTAAAAACCCAAACCCTAACCTA
1 ATTAAAAACCCTAACCCTAACTTA
35232287 ATTAA
1 ATTAA
35232292 TTAAATTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 3 0.07
23 28 0.65
24 12 0.28
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTAACTTA
Found at i:35232360 original size:61 final size:60
Alignment explanation
Indices: 35232274--35233264 Score: 1037
Period size: 61 Copynumber: 16.5 Consensus size: 60
35232264 TTAAAAACCC
* * *
35232274 AAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAATTAATTAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
** ****
35232333 AAACCCTAACACTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAA--AAACCC
1 AAACCCTAAC-CTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
* * * *
35232391 AAACCCTAACCTAA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAAATAATTAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
** ****
35232450 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAA--AAACCC
1 AAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
* * * *
35232508 AAACCCTAACCTGA-TTAATTAAATTAAAAACCCTAACCTAACTTAATTTAATTAAATTAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATT-AATTAA
* * * *
35232568 AAACCCCAACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCT-ATTTAAATAAATTAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTT-AATTAATTAA
35232629 AAACCCTAACCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTAACCTAA--T--TTAATTA
1 AAACCCTAACCTAACCTAA-TT---T-AATTAAAAACCCTAA-CCTAACCTAATTTAATTAATTA
35232690 A
60 A
* *
35232691 AAACCCTAACCTAACCTAATTTAATTAAAAACACTAACCTAACCTAATTTAATTAA-AAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
* * * * * *
35232750 CCCAAACCCAAACCTAA-TTAATTAAATTAAAAACCCTAATCTAACTTAATTTAAATAATTAA
1 ---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
*
35232812 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAA-AAA
1 AAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
* ** * *
35232872 CCCAAATCCTAACCT-ATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAACTAAATTAA
1 ---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAA-TTAATTAA
*
35232935 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAA-AAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
** * *
35232994 CCCAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAA-AAA
1 ---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
** * * *
35233055 CCCAAACCCTAACCT-ATTTAATTAAATTAAAAACTCTAACCTAACCTAATTTAACTAAATTAA
1 ---AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAA-TTAATTAA
*
35233118 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATCTAA--T--TTAATTAA
1 AAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
* *
35233175 AAACCCTAACCTAACCTAATTTAATTAAAAACTCAAACCCTAACCT-ATTTAATTAAATTAA
1 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATT-AATTAA
*
35233236 AAACCCTAACCTAACCTAATTTAACTAAA
1 AAACCCTAACCTAACCTAATTTAATTAAA
35233265 TTAAAAACCC
Statistics
Matches: 797, Mismatches: 86, Indels: 96
0.81 0.09 0.10
Matches are distributed among these distances:
56 95 0.12
57 53 0.07
58 26 0.03
59 33 0.04
60 68 0.09
61 383 0.48
62 102 0.13
63 12 0.02
65 2 0.00
66 22 0.03
67 1 0.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (60 bp):
AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAATTAA
Found at i:35232371 original size:23 final size:23
Alignment explanation
Indices: 35232344--35232395 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
35232334 AACCCTAACA
35232344 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
35232367 CTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAATTAAAAACC
*
35232390 CAAACC
1 CTAACC
35232396 CTAACCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
CTAACCTAATTTAATTAAAAACC
Found at i:35232417 original size:117 final size:116
Alignment explanation
Indices: 35232237--35233279 Score: 1221
Period size: 117 Copynumber: 8.6 Consensus size: 116
35232227 CTAACCCTAC
*
35232237 TTAATTAAAAACCCTTACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
35232302 AACCCTAACCTAACTTAATTTAATTAATTAAAAACCCTAACACTAACCTAAT
66 AACCCTAACCTAACTTAATTTAATTAATTAAAAACCCTAAC-CTAACCTAAT
35232354 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
*
35232419 AACCCTAACCTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAAT
66 AACCCTAACCTAACTTAATTTAATTAATTAAAAACCCTAA-CCTAACCTAAT
*
35232471 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTGATTAATTAAATTAAA
1 TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
*
35232536 AACCCTAACCTAACTTAATTTAATTAAATTAAAAACCCCAACCTAACCTAAT
66 AACCCTAACCTAACTTAATTTAATT-AATTAAAAACCCTAACCTAACCTAAT
* * *
35232588 TTAATTAAAAACCCAAACCCAAACCTATTTAAATAAATTAAAAACCCTAA-CCTAACCTAATTTA
1 TTAATT---AA---AAACCCTAACCTAATT---T-AATTAAAAACCCAAACCCTAACCTAA-TTA
* *
35232652 ACTAAATTAAAAACCCTAACCCTAACCTAA--T--TTAATTAAAAACCCTAACCTAACCTAAT
55 ATTAAATTAAAAACCCTAA-CCTAACTTAATTTAATTAATTAAAAACCCTAACCTAACCTAAT
*
35232711 TTAATTAAAAACACTAACCTAACCTAATTTAATTAAAAACCCAAACCCAAACCTAATTAATTAAA
1 TTAATT-AAAA-AC---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
* *
35232776 TTAAAAACCCTAATCTAACTTAATTTAAATAATTAAAAACCCTAACCCTAACCTAAT
61 TTAAAAACCCTAACCTAACTTAATTTAATTAATTAAAAACCCTAA-CCTAACCTAAT
* *
35232833 TTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCAAATCCTAACCTATTTAATTAAA
1 TTAATTAAAAA--C---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
* *
35232898 TTAAAAACCCTAACCTAACCTAATTTAACTAAATTAAAAACCCTAACCTAACCTAAT
61 TTAAAAACCCTAACCTAACTTAATTTAA-TTAATTAAAAACCCTAACCTAACCTAAT
*
35232955 TTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTATTTAATTAAA
1 TTAATTAAAAA--C---CCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAA
* * **
35233020 TTAAAAACCCTAACCTAACCTAATTTAATTAA-AAACCCAAACCCTAACCT-ATTTAAT
61 TTAAAAACCCTAACCTAACTTAATTTAATTAATTAA---AAACCCTAACCTAACCTAAT
* * ** *** * *
35233077 TAAATTAAAAACTCTAACCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTAACCTAATTTA
1 TTAATTAAAAACCCTAACCTAATTTAA-TTAA--AAA-CCCAAACCCTAA-CCTAA-TTAATTAA
35233142 ATTAAAAACCCTAACCTAA-TCTAA--T--TTAATTAAAAACCCTAACCTAACCTAAT
60 ATTAAAAACCCTAACCTAACT-TAATTTAATTAATTAAAAACCCTAACCTAACCTAAT
* *
35233195 TTAATTAAAAACTCAAACCCTAACCTATTTAATTAAATTAAAAACCCTAA-CCTAACCTAATTTA
1 TTAATT---AA---AAACCCTAACC----TAATTTAATTAAAAACCCAAACCCTAACCTAA-TTA
*
35233259 ACTAAATTAAAAACCCTAACC
55 ATTAAATTAAAAACCCTAACC
35233280 CTATTTAATT
Statistics
Matches: 818, Mismatches: 59, Indels: 93
0.84 0.06 0.10
Matches are distributed among these distances:
117 250 0.31
118 66 0.08
119 17 0.02
120 11 0.01
121 38 0.05
122 250 0.31
123 105 0.13
124 14 0.02
125 3 0.00
126 11 0.01
127 39 0.05
128 14 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (116 bp):
TTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAACCCTAACCTAATTAATTAAATTAAA
AACCCTAACCTAACTTAATTTAATTAATTAAAAACCCTAACCTAACCTAAT
Found at i:35232555 original size:23 final size:23
Alignment explanation
Indices: 35232457--35232512 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
35232447 TAAAAACCCT
35232457 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
35232480 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
35232503 AACCCAAACC
1 AACCCTAACC
35232513 CTAACCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:35232699 original size:23 final size:24
Alignment explanation
Indices: 35232672--35232750 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 24
35232662 AAACCCTAAC
35232672 CCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAA--C--A
35232700 CCTAACCTAATTTAATTAAAAACACTAA
1 CCTAACCTAATTTAATT-AAAA-AC--A
35232728 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
35232751 CCAAACCCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.04
27 4 0.08
28 38 0.78
29 4 0.08
30 1 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (24 bp):
CCTAACCTAATTTAATTAAAAACA
Found at i:35232757 original size:23 final size:23
Alignment explanation
Indices: 35232669--35232757 Score: 70
Period size: 28 Copynumber: 3.4 Consensus size: 23
35232659 TAAAAACCCT
*
35232669 AACCCTAACCTAATTTAATTAAA
1 AACCCAAACCTAATTTAATTAAA
35232692 AACCCTAACCTAACCTAATTTAATTAAAA
1 AACCC--A---AACCTAATTTAATT-AAA
*
35232721 ACACTAACCTAACCTAATTTAATTAAA
1 A-AC---CCAAACCTAATTTAATTAAA
35232748 AACCCAAACC
1 AACCCAAACC
35232758 CAAACCTAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
23 11 0.21
26 2 0.04
27 4 0.08
28 28 0.53
29 4 0.08
30 2 0.04
33 2 0.04
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (23 bp):
AACCCAAACCTAATTTAATTAAA
Found at i:35232949 original size:23 final size:24
Alignment explanation
Indices: 35232926--35233009 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 24
35232916 CCTAATTTAA
35232926 CTAAATTAAAAACCCTAACCTAAC
1 CTAAATTAAAAACCCTAACCTAAC
35232950 CTAATTTAATTAAAAACCCTAACCTAAC
1 CT-A---AATTAAAAACCCTAACCTAAC
*
35232978 CTAATTTAATTAAAAACCCAAACCCTAAC
1 CT-A---AATTAAAAACCCTAA-CCTAAC
35233007 CTA
1 CTA
35233010 TTTAATTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
24 2 0.04
25 1 0.02
28 43 0.80
29 8 0.15
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (24 bp):
CTAAATTAAAAACCCTAACCTAAC
Found at i:35233155 original size:23 final size:23
Alignment explanation
Indices: 35233125--35233188 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 23
35233115 TAAAAACCCT
35233125 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
35233148 AACCCTAACCTAATCTAATTTAATTAAA
1 AACCCTAA-C----CTAATTTAATTAAA
35233176 AACCCTAACCTAA
1 AACCCTAACCTAA
35233189 CCTAATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
23 12 0.33
24 1 0.03
27 1 0.03
28 22 0.61
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:35233289 original size:33 final size:31
Alignment explanation
Indices: 35232262--35233279 Score: 1022
Period size: 33 Copynumber: 33.5 Consensus size: 31
35232252 TACCTAATTT
*
35232262 AATTAAAAACCCAAACCCTAACCTAATTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
* *
35232295 AATTAAAAACCCTAACCTAACTTAATTTAATT
1 AATTAAAAACCCTAACCTAACCTAA-TTAATA
35232327 AATTAAAAACCCTAACACTAACCTAATT--T-
1 AATTAAAAACCCTAAC-CTAACCTAATTAATA
35232356 AATTAAAAA--C---CCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
*
35232379 AATTAAAAACCCAAACCCTAACCTAATTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
*
35232412 AATTAAAAACCCTAACCTAACTTAATTTAA-A
1 AATTAAAAACCCTAACCTAACCTAA-TTAATA
35232443 TAATTAAAAACCCTAACCCTAACCTAATT--T-
1 -AATTAAAAACCCTAA-CCTAACCTAATTAATA
35232473 AATTAAAAA--C---CCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* *
35232496 AATTAAAAACCCAAACCCTAACCTGATTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
*
35232529 AATTAAAAACCCTAACCTAACTTAATTTAATTA
1 AATTAAAAACCCTAACCTAACCTAA-TTAA-TA
*
35232562 AATTAAAAACCCCAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* * *
35232590 AATTAAAAACCCAAACCCAAACCTATTTAAATA
1 AATTAAAAACCCTAA-CCTAACCTAATT-AATA
35232623 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAA-TTAA-TA
35232656 AATTAAAAACCCTAACCCTAACCTAATT--T-
1 AATTAAAAACCCTAA-CCTAACCTAATTAATA
35232685 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
*
35232713 AATTAAAAACACTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* *
35232741 AATTAAAAACCCAAACCCAAACCTAATTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
* *
35232774 AATTAAAAACCCTAATCTAACTTAATTTAA-A
1 AATTAAAAACCCTAACCTAACCTAA-TTAATA
35232805 TAATTAAAAACCCTAACCCTAACCTAATT--T-
1 -AATTAAAAACCCTAA-CCTAACCTAATTAATA
35232835 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* *
35232863 AATTAAAAACCCAAATCCTAACCTATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
35232896 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAA-TTAA-TA
35232929 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
35232957 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* *
35232985 AATTAAAAACCCAAACCCTAACCTATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
35233018 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* *
35233046 AATTAAAAACCCAAACCCTAACCTATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
*
35233079 AATTAAAAACTCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAA-TTAA-TA
35233112 AATTAAAAACCCTAACCCTAACCTAATT--T-
1 AATTAAAAACCCTAA-CCTAACCTAATTAATA
*
35233141 AATTAAAAACCCTAACCTAATCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
35233169 AATTAAAAACCCTAACCTAACCTAATT--T-
1 AATTAAAAACCCTAACCTAACCTAATTAATA
* * *
35233197 AATTAAAAACTCAAACCCTAACCTATTTAATTA
1 AATTAAAAACCCTAA-CCTAACCTAATTAA-TA
35233230 AATTAAAAACCCTAACCTAACCTAATTTAACTA
1 AATTAAAAACCCTAACCTAACCTAA-TTAA-TA
35233263 AATTAAAAACCCTAACC
1 AATTAAAAACCCTAACC
35233280 CTATTTAATT
Statistics
Matches: 863, Mismatches: 54, Indels: 136
0.82 0.05 0.13
Matches are distributed among these distances:
23 43 0.05
24 1 0.00
25 2 0.00
27 2 0.00
28 202 0.23
29 154 0.18
30 3 0.00
31 2 0.00
32 146 0.17
33 288 0.33
34 20 0.02
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (31 bp):
AATTAAAAACCCTAACCTAACCTAATTAATA
Found at i:35233298 original size:56 final size:55
Alignment explanation
Indices: 35233112--35233300 Score: 185
Period size: 61 Copynumber: 3.3 Consensus size: 55
35233102 AATTTAACTA
35233112 AATTAAAAACCCTAACCCTAACCTAA-TT--T-AATTAAAAACCCTAACCTAATCTAATTT
1 AATTAAAAACCCTAA-CCTAACCTAATTTAATAAATTAAAAACCCTAACC----CT-ATTT
35233169 AATTAAAAACCCTAACCTAACCTAATTTAATTAAA--AACTCAAACCCTAA-CCTATTTAATT
1 AATTAAAAACCCTAACCTAACCTAATTTAA-TAAATTAA---AAACCCTAACCCTA--T--TT
35233229 AAATTAAAAACCCTAACCTAACCTAATTTAACTAAATTAAAAACCCTAACCCTATTT
1 -AATTAAAAACCCTAACCTAACCTAATTTAA-TAAATTAAAAACCCTAACCCTATTT
35233286 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
35233301 TTAAATTGTA
Statistics
Matches: 115, Mismatches: 1, Indels: 33
0.77 0.01 0.22
Matches are distributed among these distances:
56 26 0.23
57 21 0.18
58 1 0.01
59 3 0.03
60 12 0.10
61 41 0.36
62 9 0.08
63 2 0.02
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (55 bp):
AATTAAAAACCCTAACCTAACCTAATTTAATAAATTAAAAACCCTAACCCTATTT
Found at i:35236688 original size:124 final size:125
Alignment explanation
Indices: 35236466--35236747 Score: 340
Period size: 124 Copynumber: 2.3 Consensus size: 125
35236456 CCACGAGGGC
* *
35236466 GCGATTTGACACTGTTTGCTCAGAAACGTCAAAAAAAAAAATATTTCCTACATGACCAACTGTAG
1 GCGATTTGACACTATTTCCTCAGAAACGTC-AAAAAAAAAATATTTCCTACATGACCAACTGTAG
* * *
35236531 CGAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
65 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
* * *
35236592 GCGATTTTATACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAAATATTTCCT-ACATGACCAACTGTA
** * * *
35236654 GCGAAATCGCGTCCACGAGGCCATTATTTCACAATTTCTTCTTAAATAGCATCCTAGTA-GA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
** *
35236715 TGCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 -GCGATTTGACACTATTT-CCTCAGAAACGTCAA
35236748 CTCAAAAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
123 8 0.06
124 78 0.58
125 22 0.16
126 19 0.14
127 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAAATATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCA
Found at i:35238644 original size:13 final size:13
Alignment explanation
Indices: 35238620--35238658 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
35238610 TATTAGAATG
35238620 ATAAAT-AAATAA
1 ATAAATAAAATAA
35238632 ATAAATAAAATAA
1 ATAAATAAAATAA
35238645 A-AAGATAAAATAA
1 ATAA-ATAAAATAA
35238658 A
1 A
35238659 AATGCTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:35240592 original size:94 final size:94
Alignment explanation
Indices: 35240470--35241219 Score: 964
Period size: 94 Copynumber: 8.0 Consensus size: 94
35240460 TTTCATGTTA
* * * * * * * * *
35240470 CTCCATTGCAACTTTAAGAAGATAAGATTTGTTATTGTAGTTTCAATCCAACCCACCGCAACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
*
35240535 AGGGGTATAGGGTTTGTAGCTTCAATCTG
66 AGGGGTATAGGATTTGTAGCTTCAATCTG
* * * *
35240564 TTCCACTGCAACTTTAGGGAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGAAACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
* *
35240629 AGAGGTATAGGATTTGTAGTTTCAATCTG
66 AGGGGTATAGGATTTGTAGCTTCAATCTG
* * * *
35240658 CTCCACTACAATTTTAGGGAGATAAGATTCGCCATGGTAGATTTAATCCGACCCACTGCAACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
35240723 AGGGGTATAGGATTTGTAGCTTCAATCTG
66 AGGGGTATAGGATTTGTAGCTTCAATCTG
* * * * * * *
35240752 CTCTACTGCAACTTTAGGGAGATAATATTCGTTATAGTAGAATCAATCCAACCCATTGCAACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
*
35240817 AGGGGTATAAGATTTGTAGCTTCAATCTG
66 AGGGGTATAGGATTTGTAGCTTCAATCTG
* * * * * *
35240846 TTTCACTGCAA-TTTCAAGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCCACAGCAATTT
1 CTCCACTGCAACTTT-AGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTT
*
35240910 CAGGGGTATAGGATTTGTAGCTTCAATCTA
65 CAGGGGTATAGGATTTGTAGCTTCAATCTG
* *
35240940 CTCCACTGTAACTTTAGGGAGATAAGATTC-CTTATGGTAGATTCAATCCGACCCACTGTAACTT
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGC-TATGGTAGATTCAATCCGACCCACTGCAACTT
* *
35241004 CAGGGGTATAAGATTTGTAGCTTCAATCTA
65 CAGGGGTATAGGATTTGTAGCTTCAATCTG
* * * * *
35241034 CTCCATTGCAACTTTAGGGTGACAAGATTCGCTATGGTAGATTCAATTCGACCCACTGCGACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
*
35241099 AGGGGTATAGGATTTGTAGCTTCAACCTG
66 AGGGGTATAGGATTTGTAGCTTCAATCTG
** ** * * * * *
35241128 CTCCACTGCAACTTTAGGGAGATAAGATTCGCCCTTATAGTTTTATTCTGACCCAATGCAACTTC
1 CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
* *
35241193 AGGGGTATAGGAATTGTAGCTTTAATC
66 AGGGGTATAGGATTTGTAGCTTCAATC
35241220 CGAAGATTTG
Statistics
Matches: 564, Mismatches: 88, Indels: 8
0.85 0.13 0.01
Matches are distributed among these distances:
93 4 0.01
94 556 0.99
95 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (94 bp):
CTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTC
AGGGGTATAGGATTTGTAGCTTCAATCTG
Found at i:35243510 original size:25 final size:26
Alignment explanation
Indices: 35243482--35243551 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
35243472 GCATGTAAAT
35243482 GGGAAGCTCTAT-CGAGCCATATAAC
1 GGGAAGCTCTATGCGAGCCATATAAC
* * **
35243507 GGGAAACTC-ATGTGAGCTGTATAAC
1 GGGAAGCTCTATGCGAGCCATATAAC
35243532 GGGAAGCTCT-TGCGAGCCAT
1 GGGAAGCTCTATGCGAGCCAT
35243552 TTATTGGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (26 bp):
GGGAAGCTCTATGCGAGCCATATAAC
Found at i:35243588 original size:25 final size:25
Alignment explanation
Indices: 35243560--35243629 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
35243550 ATTTATTGGA
*
35243560 AAGCTCAAGAGAGCCAAATATCAGG
1 AAGCTCAAGAGAGCTAAATATCAGG
*** *
35243585 AAGCTTGTGAGAGCTAAATATCGGG
1 AAGCTCAAGAGAGCTAAATATCAGG
*
35243610 ATGCTCATA-AGAGCTAAATA
1 AAGCTCA-AGAGAGCTAAATA
35243630 ATGGGAAACT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCAAGAGAGCTAAATATCAGG
Found at i:35243635 original size:25 final size:25
Alignment explanation
Indices: 35243594--35243647 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
35243584 GAAGCTTGTG
**
35243594 AGAGCTAAATATCGGGATGCTCATA
1 AGAGCTAAATATCGGGAAACTCATA
35243619 AGAGCTAAATAAT-GGGAAACTCATA
1 AGAGCTAAAT-ATCGGGAAACTCATA
35243644 AGAG
1 AGAG
35243648 TTGTGGTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAGCTAAATATCGGGAAACTCATA
Found at i:35255394 original size:21 final size:21
Alignment explanation
Indices: 35255369--35255410 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35255359 TTTTCTAAAG
*
35255369 ATGTGTATTGGACTAAATTGA
1 ATGTGAATTGGACTAAATTGA
* *
35255390 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGACTAAATTGA
35255411 GCTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTGAATTGGACTAAATTGA
Found at i:35258630 original size:25 final size:25
Alignment explanation
Indices: 35258597--35258735 Score: 99
Period size: 25 Copynumber: 5.5 Consensus size: 25
35258587 TGAGCATCCC
*
35258597 ATTATATGGCTCTCACGAGCTTCTAG
1 ATTA-ATGGCTCTCACGAGCTTCTCG
***
35258623 ATTAATGGCTCTCTTAAGCTTCTCG
1 ATTAATGGCTCTCACGAGCTTCTCG
* *
35258648 -TTTATGGCTCGT-ATGAGCTTC-CTG
1 ATTAATGGCTC-TCACGAGCTTCTC-G
** *
35258672 A-TAATTTGGCTCTCTGGAGCTTTTCG
1 ATTAA--TGGCTCTCACGAGCTTCTCG
*
35258698 A-TAATTGGCTCTCACGAACTTCTCG
1 ATTAA-TGGCTCTCACGAGCTTCTCG
35258723 ATTAATGGCTCTC
1 ATTAATGGCTCTC
35258736 CGAAACTTCC
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.01
24 19 0.21
25 45 0.50
26 24 0.27
27 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
ATTAATGGCTCTCACGAGCTTCTCG
Found at i:35258839 original size:25 final size:25
Alignment explanation
Indices: 35258783--35258844 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
35258773 TTACGACTCT
*
35258783 TATGAGCTTCCCGTTATATAGCACG
1 TATGAGCTTCCCGTTACATAGCACG
* * *
35258808 AAAGAGCTTCCCGTTTACAT-GCTCG
1 TATGAGCTTCCCG-TTACATAGCACG
35258833 TATGAGCATTCC
1 TATGAGC-TTCC
35258845 TGAATATGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (25 bp):
TATGAGCTTCCCGTTACATAGCACG
Found at i:35263804 original size:13 final size:13
Alignment explanation
Indices: 35263772--35263805 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
35263762 TCCTAATACT
35263772 AATATTA-TATTA
1 AATATTATTATTA
35263784 AA-ATTATTATTA
1 AATATTATTATTA
35263796 AATATTATTA
1 AATATTATTA
35263806 AGAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:35263816 original size:22 final size:22
Alignment explanation
Indices: 35263779--35263843 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
35263769 ACTAATATTA
35263779 TATTAAAATTATTATTAAATA-T
1 TATTAAAATTA-TATTAAATAGT
*
35263801 TATTAAGAATTATATTAAGAAAGT
1 TATTAA-AATTATATTAA-ATAGT
*
35263825 TATT-AAATTATATTTAATA
1 TATTAAAATTATATTAAATA
35263844 ATAATTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 22 0.59
23 8 0.22
24 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TATTAAAATTATATTAAATAGT
Found at i:35263821 original size:12 final size:12
Alignment explanation
Indices: 35263775--35263818 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
35263765 TAATACTAAT
35263775 ATTA-TATTAAA
1 ATTATTATTAAA
35263786 ATTATTATT-AA
1 ATTATTATTAAA
35263797 A-TATTATTAAGA
1 ATTATTATTAA-A
35263809 ATTA-TATTAA
1 ATTATTATTAA
35263819 GAAAGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.24
11 8 0.28
12 12 0.41
13 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:35264981 original size:2 final size:2
Alignment explanation
Indices: 35264974--35264999 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35264964 GTGTCATGTA
35264974 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35265000 GCTTGATGAA
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):
AT
Found at i:35286266 original size:22 final size:23
Alignment explanation
Indices: 35286225--35286267 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
35286215 AATAACATAC
* *
35286225 TTAATATTACTTTAACTTTATGA
1 TTAATATCACTTTAAATTTATGA
35286248 TTAATATCA-TTTAAATTTAT
1 TTAATATCACTTTAAATTTAT
35286268 TGCTTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATCACTTTAAATTTATGA
Found at i:35290819 original size:15 final size:15
Alignment explanation
Indices: 35290801--35290871 Score: 57
Period size: 15 Copynumber: 5.2 Consensus size: 15
35290791 AAAAAAAATC
*
35290801 AAAATCAAAGTCAAA
1 AAAATCAAAATCAAA
* *
35290816 AAAATGAAAATGAAA
1 AAAATCAAAATCAAA
35290831 AAAATC--AATC---
1 AAAATCAAAATCAAA
35290841 AAAATCAAAATC-AA
1 AAAATCAAAATCAAA
*
35290855 AAAATGAAAAT-AAA
1 AAAATCAAAATCAAA
35290869 AAA
1 AAA
35290872 GAAAGATGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
10 6 0.13
12 4 0.09
13 3 0.07
14 15 0.33
15 17 0.38
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (15 bp):
AAAATCAAAATCAAA
Found at i:35290841 original size:40 final size:38
Alignment explanation
Indices: 35290797--35290871 Score: 123
Period size: 40 Copynumber: 1.9 Consensus size: 38
35290787 AAAGAAAAAA
*
35290797 AATCAAAATCAAAGTCAAAAAAATGAAAATGAAAAAAATC
1 AATCAAAATCAAAATC-AAAAAATGAAAAT-AAAAAAATC
35290837 AATCAAAATCAAAATCAAAAAATGAAAATAAAAAA
1 AATCAAAATCAAAATCAAAAAATGAAAATAAAAAA
35290872 GAAAGATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 6 0.18
39 13 0.38
40 15 0.44
ACGTcount: A:0.71, C:0.09, G:0.05, T:0.15
Consensus pattern (38 bp):
AATCAAAATCAAAATCAAAAAATGAAAATAAAAAAATC
Found at i:35290869 original size:19 final size:18
Alignment explanation
Indices: 35290768--35290890 Score: 81
Period size: 19 Copynumber: 6.4 Consensus size: 18
35290758 CAGATTTGAT
*
35290768 TCAAAAAAAAAAGGAAGAA
1 TCAAAAAAAAAATGAA-AA
* *
35290787 -AAAGAAAAAAAATCAAAA
1 TCAA-AAAAAAAATGAAAA
35290805 TCAAAGTCAAAAAAATGAAAA
1 TCAAA---AAAAAAATGAAAA
* * *
35290826 TGAAAAAAATCAATCAAAA
1 TCAAAAAAA-AAATGAAAA
35290845 TCAAAATCAAAAAATGAAAA
1 TCAAAA--AAAAAATGAAAA
35290865 T-AAAAAAGAAAGATGAAAA
1 TCAAAAAA-AAA-ATGAAAA
35290884 T-AAAAAA
1 TCAAAAAA
35290891 GGAGAGGCCA
Statistics
Matches: 83, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
17 2 0.02
18 12 0.14
19 42 0.51
20 8 0.10
21 19 0.23
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (18 bp):
TCAAAAAAAAAATGAAAA
Found at i:35290884 original size:39 final size:40
Alignment explanation
Indices: 35290791--35290871 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 40
35290781 GAAGAAAAAG
*
35290791 AAAAA-AAATCAAAATCAAAGTCAAAAAAATGAAAATGAA
1 AAAAATAAATCAAAATCAAAATCAAAAAAATGAAAATGAA
*
35290830 AAAAATCAATCAAAATCAAAATC-AAAAAATGAAAAT-AA
1 AAAAATAAATCAAAATCAAAATCAAAAAAATGAAAATGAA
35290868 AAAA
1 AAAA
35290872 GAAAGATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 6 0.15
39 18 0.46
40 15 0.38
ACGTcount: A:0.73, C:0.09, G:0.05, T:0.14
Consensus pattern (40 bp):
AAAAATAAATCAAAATCAAAATCAAAAAAATGAAAATGAA
Found at i:35293255 original size:120 final size:120
Alignment explanation
Indices: 35293039--35293277 Score: 399
Period size: 120 Copynumber: 2.0 Consensus size: 120
35293029 GAAGACGGTG
*
35293039 AATCTTATCTTCACGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAGCAGTG
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAGCAGTG
* * * **
35293104 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCA
66 GAATAGGTTGGGAAAATACAGATCTTATCTCCCTAAGAAATAACGGAGCAGATCA
*
35293159 AATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCT-GATCAGCAGT
1 AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAG-TCAGCAGT
35293223 GGAATAGGTTGGGAAAATACAGATCTTATCTCCCTAAGAAATAACGGAGCAGATC
65 GGAATAGGTTGGGAAAATACAGATCTTATCTCCCTAAGAAATAACGGAGCAGATC
35293278 GAAGACGTCG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
119 1 0.01
120 110 0.99
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (120 bp):
AATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTAGTCAGCAGTG
GAATAGGTTGGGAAAATACAGATCTTATCTCCCTAAGAAATAACGGAGCAGATCA
Found at i:35293552 original size:44 final size:44
Alignment explanation
Indices: 35293504--35293898 Score: 154
Period size: 44 Copynumber: 8.7 Consensus size: 44
35293494 GAAAATGGTG
* *
35293504 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCTAGA
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
** * * * *
35293548 AATCTTATCTCCCCAAGGTTACAGCGGAGTAGATCGAAGCCAGT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* * * * * ***
35293592 AATCCTATTTCCCTGAGATTACAGTGGAGCAGAT-TAAAATA-A
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* ** * * * * *
35293634 AGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGTA-CCAG-
1 A--ATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* **
35293678 -GTCTTATCTCCCTGAGGTTACAGTGGAATAGAA-CGAAGAATTCCTAATCGAA
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCA-AATCGAAG----CC--A--G-A
* * * * *
35293730 AATGGTGAATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGA
1 AAT-CT-TATC-----TCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* * * * *
35293781 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* * * * * *
35293825 AATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
* * * *
35293869 AATCCTATTTCCCTGAGATTATAGTGGAGC
1 AATCTTATCTCCCTGAGGTTACAGTGGAGC
35293899 GGATTAAAAT
Statistics
Matches: 268, Mismatches: 58, Indels: 50
0.71 0.15 0.13
Matches are distributed among these distances:
41 26 0.10
42 2 0.01
43 3 0.01
44 191 0.71
45 1 0.00
46 2 0.01
48 1 0.00
49 3 0.01
50 2 0.01
51 4 0.01
52 1 0.00
53 1 0.00
54 2 0.01
55 3 0.01
56 2 0.01
59 1 0.00
60 23 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAGA
Found at i:35293886 original size:88 final size:88
Alignment explanation
Indices: 35293737--35293903 Score: 244
Period size: 88 Copynumber: 1.9 Consensus size: 88
35293727 GAAAATGGTG
* * *
35293737 AATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
35293802 CAGCGGAGCAGATTGAAGCCAGT
66 CAGCGGAGCAGATTGAAGCCAGT
* * * *
35293825 AATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
* * *
35293890 TAGTGGAGCGGATT
66 CAGCGGAGCAGATT
35293904 AAAATAAAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
CAGCGGAGCAGATTGAAGCCAGT
Found at i:35293918 original size:88 final size:88
Alignment explanation
Indices: 35293737--35293946 Score: 233
Period size: 88 Copynumber: 2.4 Consensus size: 88
35293727 GAAAATGGTG
* * *
35293737 AATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
* **
35293802 CAGCGGAGCAGATTGAAGCCAGT
66 CAGCGGAGCAGATTAAAGAAAGT
* * * *
35293825 AATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
* * * *
35293890 TAGTGGAGCGGATTAAAATAAAG-
66 CAGCGGAGCAGATT-AAAGAAAGT
* * * * *
35293913 GATCTTATCTCTCTGAAATTACAGTAGAGTAGAT
1 AATCTTATCTCCCTGAGATTACAGCAGAGCAGAT
35293947 CGCATCAGGT
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 96 0.96
89 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTA
CAGCGGAGCAGATTAAAGAAAGT
Found at i:35294124 original size:217 final size:217
Alignment explanation
Indices: 35293825--35294440 Score: 1054
Period size: 217 Copynumber: 2.8 Consensus size: 217
35293815 TGAAGCCAGT
* * *
35293825 AATCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
*
35293890 TAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
35293955 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
35294020 TAGTGGAGCTAATCGAAAATGG
196 TAGTGGAGCTAATCGAAAATGG
* * *
35294042 AATCTTATCTCTCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCACTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * *
35294107 CAGTGGGGCGAATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
*
35294172 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTAAGCAG
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
35294237 TAGTGGAGCTAATCGAAAATGG
196 TAGTGGAGCTAATCGAAAATGG
*
35294259 AATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
*
35294324 CAGTAGAGCGGATTAAAATAAAGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCA
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAA-TTACAGTAGAGTAGATCGCATCA
* * * * *
35294388 GGTCTTATCTCCCCGAGATTACAGTAGAATAGACTGAAGAATTACGAATCTTA
130 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTA
35294441 CTTCCTTGGC
Statistics
Matches: 373, Mismatches: 25, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
216 3 0.01
217 370 0.99
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (217 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTAAGCAG
TAGTGGAGCTAATCGAAAATGG
Found at i:35296027 original size:22 final size:23
Alignment explanation
Indices: 35295986--35296028 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
35295976 AATAACATAC
* *
35295986 TTAATATTACTTTAACTTTATGA
1 TTAATATCACTTTAAATTTATGA
35296009 TTAATATCA-TTTAAATTTAT
1 TTAATATCACTTTAAATTTAT
35296029 TGCTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAATATCACTTTAAATTTATGA
Found at i:35306030 original size:29 final size:29
Alignment explanation
Indices: 35305996--35306061 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
35305986 ACGATAACGT
35305996 AAGTGACTAAAACGTAACATTTCAAACAA
1 AAGTGACTAAAACGTAACATTTCAAACAA
35306025 AAGTGACTAAAACGTAACATTTCAAACAA
1 AAGTGACTAAAACGTAACATTTCAAACAA
35306054 AAGTGACT
1 AAGTGACT
35306062 TGAGACAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATTTCAAACAA
Found at i:35311604 original size:106 final size:106
Alignment explanation
Indices: 35311419--35311619 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
35311409 AAGCTTTAAG
35311419 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
*
35311484 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
*
35311525 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
35311590 TTTTCCAAACGCGAAATATTACCTTATTTA
66 TTTTCCAAACGCGAAATATTACCTTATTTA
35311620 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
Found at i:35312139 original size:38 final size:38
Alignment explanation
Indices: 35312080--35312185 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
35312070 TATTTTTAAG
*
35312080 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
35312117 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
35312155 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
35312186 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:35312528 original size:22 final size:23
Alignment explanation
Indices: 35312472--35312528 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
35312462 AGTTTAAAAT
35312472 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
35312495 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
35312516 AAAATATATAAAA
1 AAAATATATAAAA
35312529 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:35313258 original size:13 final size:13
Alignment explanation
Indices: 35313240--35313264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35313230 AAATGCGTAG
35313240 ATAAATAAATGAA
1 ATAAATAAATGAA
35313253 ATAAATAAATGA
1 ATAAATAAATGA
35313265 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:35314266 original size:132 final size:132
Alignment explanation
Indices: 35314025--35314765 Score: 1017
Period size: 132 Copynumber: 5.6 Consensus size: 132
35314015 CTGTTTTTCA
* *
35314025 ATCCACTTCCTACCAATATTGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
35314090 GAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
35314155 GG
131 CG
* * * *
35314157 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGTTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
35314222 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
35314287 CG
131 CG
* *
35314289 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
35314354 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGATAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
35314419 CG
131 CG
* * * * * * * * **
35314421 ATCCACTTCATGCCAATACATG-AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACA
* * *** *** *
35314485 GGAAGACAAGATCTGC-ATCTTCGAT-TCACTTC-ATGCCAATACATG-AGACAAGATCTGCTTT
65 TGAAGACAAGATCTGCTTTCTTCGATCT-ACTTCGCCACCAATATGGGAAGACAAGATCTGC-AT
35314546 CTTCG
128 CTTCG
* * * * *
35314551 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCACGCCAATACA
1 ATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACA
*
35314615 TGAAGACAAGATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
65 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT
35314680 TCG
130 TCG
* * * *
35314683 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCCTCGATCTACTTCATGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
35314748 GAAGACAAGATCTGCTTT
66 GAAGACAAGATCTGCTTT
35314766 AATGACTTCA
Statistics
Matches: 527, Mismatches: 72, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
129 12 0.02
130 43 0.08
131 95 0.18
132 364 0.69
133 13 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
ATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CG
Found at i:35314473 original size:87 final size:88
Alignment explanation
Indices: 35314012--35314735 Score: 840
Period size: 88 Copynumber: 8.3 Consensus size: 88
35314002 AGGGAGATAG
* * * * * * *
35314012 GATCTG-TTT-TTCAATCCACTTC-CTACCAATATTGGAAGGCAGGATCTGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
35314074 CTTCACGCCAATACATGAAGACAA
65 CTTCACGCCAATACATGAAGACAA
* * * *
35314098 GATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
** * * * *
35314163 TTC-CTATCAATATAGGAAGATAG
66 TTCAC-GCCAATACATGAAGACAA
* * * *** * * *
35314186 GACCTG-TTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCT
1 GATCTGCTT-TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCC
* * ***
35314249 ACTTCGCCACCAATATGGGAAGACAA
64 ACTTC-ACGCCAATACATGAAGACAA
* * * * * * * *
35314275 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
35314338 CTTCACGCCAATACATGAAGACAA
65 CTTCACGCCAATACATGAAGACAA
*
35314362 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGATAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
35314427 TTCATGCCAATACATG-AGACAA
66 TTCACGCCAATACATGAAGACAA
*
35314449 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATTCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
35314514 TTCATGCCAATACATG-AGACAA
66 TTCACGCCAATACATGAAGACAA
35314536 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
35314601 TTCACGCCAATACATGAAGACAA
66 TTCACGCCAATACATGAAGACAA
*
35314624 GATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * *
35314689 TTC-CTACCAATATAGGAAGATAG
66 TTCAC-GCCAATACATGAAGACAA
* * *
35314712 GACCTGCTATCCTCGATCTACTTC
1 GATCTGCTTTCTTCGATCTACTTC
35314736 ATGCCAATAC
Statistics
Matches: 553, Mismatches: 72, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
86 5 0.01
87 220 0.40
88 262 0.47
89 65 0.12
90 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (88 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCACGCCAATACATGAAGACAA
Found at i:35326277 original size:106 final size:106
Alignment explanation
Indices: 35326092--35326292 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
35326082 AAGCTTTAAG
35326092 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
*
35326157 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
*
35326198 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
35326263 TTTTCCAAACGCGAAATATTACCTTATTTA
66 TTTTCCAAACGCGAAATATTACCTTATTTA
35326293 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
TTTTCCAAACGCGAAATATTACCTTATTTAAAAGTTTAAAA
Found at i:35326812 original size:38 final size:38
Alignment explanation
Indices: 35326753--35326858 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
35326743 TATTTTTAAG
*
35326753 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
35326790 AATATGTATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
35326828 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
35326859 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:35327200 original size:22 final size:23
Alignment explanation
Indices: 35327144--35327200 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
35327134 AGTTTAAAAT
35327144 AAAATATATAAAAGAAAGTCTTA
1 AAAATATATAAAAGAAAGTCTTA
*
35327167 AATAATA-A-AAAAGACAGT-TTA
1 AA-AATATATAAAAGAAAGTCTTA
35327188 AAAATATATAAAA
1 AAAATATATAAAA
35327201 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATATATAAAAGAAAGTCTTA
Found at i:35327931 original size:13 final size:13
Alignment explanation
Indices: 35327913--35327937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35327903 AAATGCGTAG
35327913 ATAAATAAATGAA
1 ATAAATAAATGAA
35327926 ATAAATAAATGA
1 ATAAATAAATGA
35327938 TAGATGATAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATAAATAAATGAA
Found at i:35331013 original size:44 final size:43
Alignment explanation
Indices: 35330964--35331065 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
35330954 CCTACTGCAA
*
35330964 CTTCAGGG-GTATAGGAATTGTAGCTTCAATATGCTCCACTGTAG
1 CTTCAGGGAG-ATAAGAATTG-AGCTTCAATATGCTCCACTGTAG
* * * ** *
35331008 CTTCAGGGAGATAAGATTTGAGCTTTAATCTGCTCCACTACAA
1 CTTCAGGGAGATAAGAATTGAGCTTCAATATGCTCCACTGTAG
*
35331051 CTTCAGAGAGATAAG
1 CTTCAGGGAGATAAG
35331066 GTTTGTAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 32 0.65
44 16 0.33
45 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
CTTCAGGGAGATAAGAATTGAGCTTCAATATGCTCCACTGTAG
Found at i:35331042 original size:43 final size:44
Alignment explanation
Indices: 35330957--35331112 Score: 156
Period size: 44 Copynumber: 3.6 Consensus size: 44
35330947 ATTCTAACCT
* * * *
35330957 ACTGCAACTTCAGGG-GTATAGGAATTGTAGCTTCAATATGCTCC
1 ACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCTGCTCC
* *
35331001 ACTGTAGCTTCAGGGAGATAAGATTTG-AGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * *
35331044 ACTACAACTTCAGAGAGATAAGGTTTGTAGC-TTCATCTTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATC-TGCTCC
* *
35331088 ACTGCAATTTCAGGGAGATACGATT
1 ACTGCAACTTCAGGGAGATAAGATT
35331113 CGCCATGGTA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 41 0.45
44 49 0.54
45 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
Found at i:35339814 original size:18 final size:18
Alignment explanation
Indices: 35339754--35339814 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
35339744 TGTACCAATT
35339754 TCTGCCATGTCGTCCAGA
1 TCTGCCATGTCGTCCAGA
* * * **
35339772 TCTACTCTTGTTCTATCCATT
1 TCTGC-CATG-TC-GTCCAGA
35339793 TCTGCCATGTCGTCCAGA
1 TCTGCCATGTCGTCCAGA
35339811 TCTG
1 TCTG
35339815 GAACAATGGG
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
18 12 0.40
19 5 0.17
20 5 0.17
21 8 0.27
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.38
Consensus pattern (18 bp):
TCTGCCATGTCGTCCAGA
Found at i:35340333 original size:19 final size:18
Alignment explanation
Indices: 35340311--35340346 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
35340301 AAGGCCTTTT
*
35340311 ATGAAATTTAATGCATGAG
1 ATGAAATGTAATG-ATGAG
35340330 ATGAAATGTAATGATGA
1 ATGAAATGTAATGATGA
35340347 TGAATGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (18 bp):
ATGAAATGTAATGATGAG
Found at i:35343562 original size:5 final size:5
Alignment explanation
Indices: 35343552--35343596 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
35343542 ATTACTTGAC
35343552 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
35343597 GGAAAATGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:35348245 original size:26 final size:26
Alignment explanation
Indices: 35348210--35348261 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
35348200 GCATTTTAAA
*
35348210 AAAAATCGCCGCTAA-TGCTCAGATCT
1 AAAAAGCGCCGCTAACT-CTCAGATCT
35348236 AAAAAGCGCCGCTAACTCTCAGATCT
1 AAAAAGCGCCGCTAACTCTCAGATCT
35348262 TTAGCGGCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (26 bp):
AAAAAGCGCCGCTAACTCTCAGATCT
Found at i:35348297 original size:41 final size:41
Alignment explanation
Indices: 35348236--35348452 Score: 244
Period size: 41 Copynumber: 5.3 Consensus size: 41
35348226 GCTCAGATCT
35348236 AAAAAGCGCCGCTAACT-CTCAGATCTTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAA-TGCTCAGATCTTTAGCGGCGTTTTTG
* * *
35348277 AAAAGGCGCCGCTAATTCTCAGATCTTTAGCAGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
** *
35348318 GGAAAGCGCCGCTAATGCTTAGATCTTTAGCGGCGTTTTTG
1 AAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
* * *
35348359 GAAAAGCGCCGTTAATGCTCGGGGAT-TTT-GCGGCGTTTTCT-
1 AAAAAGCGCCGCTAATGCTC--AGATCTTTAGCGGCGTTTT-TG
* * ** *
35348400 AAAAAGCGCCGCCAATGCTCGGGGCTTTAGCGGCATTTTTG
1 AAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
35348441 AAAAAGCGCCGC
1 AAAAAGCGCCGC
35348453 AAAAACATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 137 0.91
42 4 0.03
43 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTG
Found at i:35348890 original size:14 final size:15
Alignment explanation
Indices: 35348857--35348890 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35348847 TAAGGTTTAT
35348857 AGATTATGGAATTAG
1 AGATTATGGAATTAG
35348872 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
35348886 GGATT
1 AGATT
35348891 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:35349037 original size:82 final size:82
Alignment explanation
Indices: 35348938--35349108 Score: 247
Period size: 82 Copynumber: 2.1 Consensus size: 82
35348928 GAGTTAGGGA
* * * *
35348938 TTTAGGGTTTATGGATTCAGTGTCAGG-TTAGGCTTTAGGGTTTAGACTAATTAGTGTATTT-TA
1 TTTAGGGGTTAGGGATTCAGGGTC-GGTTTAGGCTTTAGGATTTAGACTAATTAGTGT-TTTCTA
35349001 ATTTATATATTAAATAATG
64 ATTTATATATTAAATAATG
* * *
35349020 TTTAGGGGTTAGGGATTCGGGGTCGGTTTAGGGTTTATGATTTAGACTAATTAGTGTTTTCTAAT
1 TTTAGGGGTTAGGGATTCAGGGTCGGTTTAGGCTTTAGGATTTAGACTAATTAGTGTTTTCTAAT
35349085 TTATATATTAAATAATG
66 TTATATATTAAATAATG
35349102 TTTAGGG
1 TTTAGGG
35349109 TTTGGGGTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 5 0.06
82 75 0.94
ACGTcount: A:0.26, C:0.05, G:0.25, T:0.44
Consensus pattern (82 bp):
TTTAGGGGTTAGGGATTCAGGGTCGGTTTAGGCTTTAGGATTTAGACTAATTAGTGTTTTCTAAT
TTATATATTAAATAATG
Found at i:35349905 original size:15 final size:16
Alignment explanation
Indices: 35349872--35349912 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
35349862 ACTTGATTTT
*
35349872 TTTTATAAAAATTAAA
1 TTTTATAAAAATAAAA
35349888 -TTTATAAAAA-AAATA
1 TTTTATAAAAATAAA-A
35349903 TTTTATAAAA
1 TTTTATAAAA
35349913 CCACTTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTTATAAAAATAAAA
Found at i:35350234 original size:22 final size:22
Alignment explanation
Indices: 35350209--35350266 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
35350199 CTCCTCCCCC
35350209 AAAATCCCCAACTTTCCCGCC-T
1 AAAATCCCCAACTTTCCC-CCTT
*
35350231 AAAATCCCTAA-TTTCCCCCTT
1 AAAATCCCCAACTTTCCCCCTT
* *
35350252 GAAACCCCCAACTTT
1 AAAATCCCCAACTTT
35350267 ACAAACATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 13 0.43
ACGTcount: A:0.29, C:0.41, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATCCCCAACTTTCCCCCTT
Found at i:35354065 original size:24 final size:23
Alignment explanation
Indices: 35354037--35354084 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
35354027 AATTTAAAAA
35354037 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
35354061 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
35354084 A
1 A
35354085 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:35354156 original size:42 final size:43
Alignment explanation
Indices: 35354096--35354334 Score: 261
Period size: 43 Copynumber: 5.6 Consensus size: 43
35354086 AATAATTTTT
* * * * *
35354096 TAAAGATTAT-GTTTTTAGCGGCGTTTTTGCTAGAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
35354138 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * *
35354180 TAAAGGTCATGGTCTATAGCGGCGTTTGTGATAAAAGCGCCAC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* ** *
35354223 TAAAGGTCT-TGGTCTTTAGCGGCATTTGTGGGAAAAGTGCCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * **
35354266 TAAAGGTTGTGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
35354309 TAAAGATTAT-GTTTTTAGCGGCGTTT
1 TAAAGGTTATGGTCTTTAGCGGCGTTT
35354335 TTTCCGGCAC
Statistics
Matches: 169, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 55 0.33
43 113 0.67
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (43 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
Found at i:35355658 original size:21 final size:22
Alignment explanation
Indices: 35355617--35355660 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
35355607 TATGATATGC
*
35355617 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
35355639 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
35355660 A
1 A
35355661 GATATCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:35355894 original size:23 final size:23
Alignment explanation
Indices: 35355850--35355894 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
35355840 TCTTATTTTG
* *
35355850 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
35355873 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
35355895 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:35361108 original size:42 final size:43
Alignment explanation
Indices: 35361062--35361298 Score: 252
Period size: 43 Copynumber: 5.6 Consensus size: 43
35361052 AATAATTTTT
* * * * *
35361062 TAAAGATTAT-GTTTTTAGCGGCGTTTTTGCTAGAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
35361104 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTGATAAAAGCGTCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * *
35361146 TAAAGGTCATGGTCTATAGCGGCGTTTGTGATAAAAGCG-CAC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* ** *
35361188 TAAAGGTCT-TGGTCTTTAGCGGCATTTGTGGGAAAAGTGCCGC
1 TAAAGGT-TATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * **
35361231 TAAAGGTTGTGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
*
35361274 TAAAGATTAT-GT-TTTAGCGGCGTTT
1 TAAAGGTTATGGTCTTTAGCGGCGTTT
35361299 TTTCCGGCAC
Statistics
Matches: 168, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
41 13 0.08
42 77 0.46
43 78 0.46
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (43 bp):
TAAAGGTTATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
Found at i:35361204 original size:85 final size:84
Alignment explanation
Indices: 35361077--35361270 Score: 226
Period size: 85 Copynumber: 2.3 Consensus size: 84
35361067 ATTATGTTTT
* * * * * * *
35361077 TAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAGCG
1 TAGCGGCGTTTGTGATAAAAGCG-CACTAAAGGTTTGGTCTTTAGCGGCATTTGTGAGAAAAGCG
*
35361142 TCGCTAAAGGTCATGGTCTA
65 CCGCTAAAGGTCATGGTCTA
* *
35361162 TAGCGGCGTTTGTGATAAAAGCGCACTAAAGGTCTTGGTCTTTAGCGGCATTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGATAAAAGCGCACTAAAGGT-TTGGTCTTTAGCGGCATTTGTGAGAAAAGCG
** *
35361227 CCGCTAAAGGTTGTGGTCTT
65 CCGCTAAAGGTCATGGTCTA
* **
35361247 TAGCGGCATTTGTGGGAAAAGCGC
1 TAGCGGCGTTTGTGATAAAAGCGC
35361271 CGCTAAAGAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
84 9 0.10
85 83 0.90
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (84 bp):
TAGCGGCGTTTGTGATAAAAGCGCACTAAAGGTTTGGTCTTTAGCGGCATTTGTGAGAAAAGCGC
CGCTAAAGGTCATGGTCTA
Found at i:35362619 original size:21 final size:22
Alignment explanation
Indices: 35362578--35362621 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
35362568 TATGATATGC
*
35362578 AATCTTAGAAGATATATTTTGT
1 AATCTTAGAAGATATAATTTGT
*
35362600 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
35362621 A
1 A
35362622 GATATCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:35362854 original size:23 final size:23
Alignment explanation
Indices: 35362805--35362854 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
35362795 GCTTGTTCTT
* * *
35362805 ATTTGTTGATTTGTGTATAATTT
1 ATTTATTGATTTGTATATAATTG
**
35362828 ATTTATTGATTTGTATATTGTTG
1 ATTTATTGATTTGTATATAATTG
35362851 ATTT
1 ATTT
35362855 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
ATTTATTGATTTGTATATAATTG
Done.