Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 19 of 153
Found at i:6400669 original size:46 final size:46
Alignment explanation
Indices: 6400564--6400671 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 46
6400554 CCACTGTAGT
* * ** *
6400564 CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTGCTTCACTGCCAAATA
* *
6400610 CAGGAAGGCAAGATCTGCAATCTTCAATCTG-TTCCACTGCCAAATA
1 CAGGGAGGTAAGATCTGCAATCTTCAATCTGCTT-CACTGCCAAATA
*
6400656 CAGGGAGATAAGATCT
1 CAGGGAGGTAAGATCT
6400672 CTGGCTTCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 2 0.04
46 49 0.96
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (46 bp):
CAGGGAGGTAAGATCTGCAATCTTCAATCTGCTTCACTGCCAAATA
Found at i:6400763 original size:44 final size:45
Alignment explanation
Indices: 6400691--6401140 Score: 228
Period size: 44 Copynumber: 9.8 Consensus size: 45
6400681 ATCTGATGTG
*
6400691 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTATTTTA
** * ** * *
6400735 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTA-TTTTA
* * *
6400779 ATCTACTCCGCTGTAA-TCTGAGAGAGATAAGATCTCTGGCTTCAATCTGATGTG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC-CT-G-TT--AT-T--T-TA
*
6400833 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTATTTTA
** * ** * *
6400877 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTA-TTTTA
* * *
6400921 ATCTACTCCGCTGTAA-TCTGAGAGAGATAAGATCTCTGGCTTCAATCTGATGTG
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC-CT-G-TT--AT-T--T-TA
*
6400975 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTATTTTA
** * ** * *
6401019 ATCCGCTCCACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTA-TTTTA
* * ** *
6401063 ATCTACTCCGCTGTAA-TCTGAGAGAGATAAGATCTCTG--GCTTCA
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC-CTGTTATTTTA
* *
6401107 ATCTGCTCCACTGTAACCTCA-AGGAGATAAGATC
1 ATCTACTCCACTGTAACTTCAGA-GAGATAAGATC
6401141 TGAAATTCTT
Statistics
Matches: 308, Mismatches: 60, Indels: 76
0.69 0.14 0.17
Matches are distributed among these distances:
42 3 0.01
43 10 0.03
44 208 0.68
45 2 0.01
47 5 0.02
48 4 0.01
49 2 0.01
50 4 0.01
51 4 0.01
53 6 0.02
54 58 0.19
55 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTGTTATTTTA
Found at i:6400779 original size:98 final size:95
Alignment explanation
Indices: 6400660--6401067 Score: 234
Period size: 98 Copynumber: 4.3 Consensus size: 95
6400650 CAAATACAGG
*
6400660 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 GAGATAAGAT-TCTAGCTTCAATCT-ATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-
*
6400725 CTTTATTTTAATCCGCTCCACTGTAACTTCAGA
63 CTTTATTTTAATCCACTCCACTGTAACTTCAGA
* ** * * * ** * * **
6400758 GAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTGAGAGAGATAAGATCTCTG-G-CTT
1 GAGATAAGATT-CTAGCTTCAATCTA-TGTGATCTACTCT---ACTG-TAA-CT-TCAGAGAGAT
* * * * * *
6400821 CA-ATC-TGA-TGTGATCTACTCTACTGTAACTTCAGA
58 AAGATCTTTATTTTAATCCACTCCACTGTAACTTCAGA
* * ** * *
6400856 GAGATAAGA-TC---CTT-TAT-T-T-TAATCCGCTCCACTGTAACTTCAGAGAGATAGGAT-TA
1 GAGATAAGATTCTAGCTTCAATCTATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCT-
* * * * * *
6400912 CTAGCTTCAATCTACTCCGCTGTAA-TCTGAGA
65 TTA-TTTTAATCCACTCCACTGTAACT-TCAGA
*
6400944 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 GAGATAAGAT-TCTAGCTTCAATCT-ATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-
*
6401009 CTTTATTTTAATCCGCTCCACTGTAACTTCAGA
63 CTTTATTTTAATCCACTCCACTGTAACTTCAGA
*
6401042 GAGATAGGATTACTAGCTTCAATCTA
1 GAGATAAGATT-CTAGCTTCAATCTA
6401068 CTCCGCTGTA
Statistics
Matches: 219, Mismatches: 61, Indels: 61
0.64 0.18 0.18
Matches are distributed among these distances:
82 3 0.01
83 2 0.01
84 4 0.02
85 4 0.02
86 1 0.00
87 1 0.00
88 31 0.14
89 1 0.00
90 2 0.01
91 1 0.00
92 2 0.01
93 6 0.03
94 2 0.01
95 1 0.00
96 1 0.00
97 6 0.03
98 130 0.59
99 5 0.02
100 2 0.01
101 4 0.02
102 5 0.02
103 2 0.01
104 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (95 bp):
GAGATAAGATTCTAGCTTCAATCTATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTT
TATTTTAATCCACTCCACTGTAACTTCAGA
Found at i:6400835 original size:142 final size:142
Alignment explanation
Indices: 6400660--6401111 Score: 904
Period size: 142 Copynumber: 3.2 Consensus size: 142
6400650 CAAATACAGG
6400660 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
6400725 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
66 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
6400790 TGTAATCTGAGA
131 TGTAATCTGAGA
6400802 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
6400867 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
66 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
6400932 TGTAATCTGAGA
131 TGTAATCTGAGA
6400944 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
6401009 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
66 CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
6401074 TGTAATCTGAGA
131 TGTAATCTGAGA
6401086 GAGATAAGATCTCTGGCTTCAATCTG
1 GAGATAAGATCTCTGGCTTCAATCTG
6401112 CTCCACTGTA
Statistics
Matches: 310, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 310 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (142 bp):
GAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTTATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGC
TGTAATCTGAGA
Found at i:6401141 original size:44 final size:44
Alignment explanation
Indices: 6401018--6401715 Score: 471
Period size: 44 Copynumber: 15.8 Consensus size: 44
6401008 CCTTTATTTT
* * * *
6401018 AATCCGCTCCACTGTAACTTC-AGAGAGATAGGAT-TACTAGCTTC
1 AATCTGCTCCACTGTAACCTCAAG-GAGATAAGATCT-CTGGCTTC
* * * *
6401062 AATCTACTCCGCTGTAATCT-GAGAGAGATAAGATCTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAG-GAGATAAGATCTCTGGCTTC
* *
6401106 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT---CTGGCTTC
** * * * *
6401152 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
* *
6401196 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT---CTGGCTTC
** * * * *
6401242 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
* *
6401286 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT---CTGGCTTC
** * * * *
6401332 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
* *
6401376 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT---CTGGCTTC
** * * * *
6401422 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
* * * *
6401466 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-AGAATTCTCC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTG---GCTTC
** * * * *
6401512 GGTCTACTCCACTGTAACCTCAGGGAAATAAGA-C-CT-GATGT-
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCT-TC
* * * *
6401553 GATCTTCTCTACTGTAACTTC-AGAGAGATAAGATCT-T---TT-
1 AATCTGCTCCACTGTAACCTCAAG-GAGATAAGATCTCTGGCTTC
* * * * ** *
6401592 AATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTT
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT-CTGGCTTC
* * * * *
6401636 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGTTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
*
6401680 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCT
6401716 GAAATTTTTT
Statistics
Matches: 507, Mismatches: 112, Indels: 70
0.74 0.16 0.10
Matches are distributed among these distances:
38 1 0.00
39 24 0.05
40 5 0.01
41 26 0.05
42 2 0.00
43 7 0.01
44 265 0.52
45 5 0.01
46 168 0.33
47 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAACCTCAAGGAGATAAGATCTCTGGCTTC
Found at i:6401185 original size:90 final size:90
Alignment explanation
Indices: 6401073--6401544 Score: 847
Period size: 90 Copynumber: 5.2 Consensus size: 90
6401063 ATCTACTCCG
* * *
6401073 CTGTAATCTGAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
6401138 ATCTGAAATTCTTCGGTCTGTTCCA
66 ATCTGAAATTCTTCGGTCTGTTCCA
6401163 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
6401228 ATCTGAAATTCTTCGGTCTGTTCCA
66 ATCTGAAATTCTTCGGTCTGTTCCA
6401253 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
6401318 ATCTGAAATTCTTCGGTCTGTTCCA
66 ATCTGAAATTCTTCGGTCTGTTCCA
6401343 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
6401408 ATCTGAAATTCTTCGGTCTGTTCCA
66 ATCTGAAATTCTTCGGTCTGTTCCA
*
6401433 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
1 CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
* **
6401498 ATCT-AGAATTCTCCGGTCTACTCCA
66 ATCTGA-AATTCTTCGGTCTGTTCCA
* *
6401523 CTGTAACCTCAGGGAAATAAGA
1 CTGTAATCTCAGGGAGATAAGA
6401545 CCTGATGTGA
Statistics
Matches: 372, Mismatches: 9, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
89 1 0.00
90 371 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (90 bp):
CTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAG
ATCTGAAATTCTTCGGTCTGTTCCA
Found at i:6410737 original size:30 final size:30
Alignment explanation
Indices: 6410703--6410762 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6410693 TCTTGGCAAT
* **
6410703 CTAATAGACTCTTTCTTAAGGCGACTTCTC
1 CTAATAGACCCTTTCCCAAGGCGACTTCTC
6410733 CTAATAGACCCTTTCCCAAGGCGACTTCTC
1 CTAATAGACCCTTTCCCAAGGCGACTTCTC
6410763 GAGCTCGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (30 bp):
CTAATAGACCCTTTCCCAAGGCGACTTCTC
Found at i:6416319 original size:23 final size:23
Alignment explanation
Indices: 6416279--6416323 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6416269 CCATATAACA
** *
6416279 GGAAGCTCATGAAGAGCCTATCG
1 GGAAGCTCACAAAAAGCCTATCG
6416302 GGAAGCTCACAAAAAGCCTATC
1 GGAAGCTCACAAAAAGCCTATC
6416324 AAGAAGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (23 bp):
GGAAGCTCACAAAAAGCCTATCG
Found at i:6416397 original size:26 final size:26
Alignment explanation
Indices: 6416368--6416422 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6416358 ATAAGAGCCA
* * *
6416368 TAATTAGAAAGTTCACAAAGAACTTT
1 TAATCAGAAAGCTCACAAAGAACCTT
* *
6416394 TAATCAGGAAGCTCACGAAGAACCTT
1 TAATCAGAAAGCTCACAAAGAACCTT
6416420 TAA
1 TAA
6416423 ACATGAGCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (26 bp):
TAATCAGAAAGCTCACAAAGAACCTT
Found at i:6416566 original size:64 final size:64
Alignment explanation
Indices: 6416488--6416610 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
6416478 TCCGGAGAGC
*
6416488 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCGCAACACATGCAGGATCACTATCGAT
1 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTATCGAT
* * **
6416552 CATATAACAGGACGCTCATAAAGAGCTGCGGTATGTGTACAACACATGCAGGATCACTA
1 CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTA
6416611 CTGATCGGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (64 bp):
CATATAACAAGACGCTCATAAAGAGCTGCGATATGTCCACAACACATGCAGGATCACTATCGAT
Found at i:6425105 original size:16 final size:16
Alignment explanation
Indices: 6425084--6425129 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6425074 TTATTAAATT
6425084 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6425100 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6425115 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
6425130 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6425271 original size:120 final size:120
Alignment explanation
Indices: 6425058--6425607 Score: 956
Period size: 120 Copynumber: 4.6 Consensus size: 120
6425048 NNNNNNNNNN
6425058 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
*
6425123 AAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
66 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
* * * *
6425178 TTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
* * * *
6425243 AATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATA
66 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
* * *
6425298 TTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATTTATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
* *
6425363 AATTTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
66 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
6425418 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6425483 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
66 AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
*
6425538 TTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-T
6425603 TAAAT
65 TAAAT
6425608 ATGATTAAAT
Statistics
Matches: 409, Mismatches: 20, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
120 403 0.99
121 6 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
AAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
Found at i:6425465 original size:16 final size:16
Alignment explanation
Indices: 6425444--6425490 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6425434 TTATTAAATT
6425444 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
6425460 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
6425475 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
6425491 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:6425585 original size:16 final size:16
Alignment explanation
Indices: 6425564--6425605 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6425554 TTATTAAATT
*
6425564 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6425580 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6425595 AT-TATGTTTAA
1 ATATAT-TTTAA
6425606 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6425590 original size:15 final size:15
Alignment explanation
Indices: 6425555--6425596 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6425545 TTAAGAATTT
*
6425555 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6425569 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6425583 TATTTAATAATAAT
1 TATTTAATTATAAT
6425597 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6425842 original size:16 final size:16
Alignment explanation
Indices: 6425821--6425872 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
6425811 GATTTGCAAT
*
6425821 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
6425837 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
6425853 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6425869 TACA
1 TACA
6425873 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6435259 original size:14 final size:14
Alignment explanation
Indices: 6435240--6435269 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6435230 GTATACTTTC
*
6435240 ATATATATGTGTAT
1 ATATATACGTGTAT
6435254 ATATATACGTGTAT
1 ATATATACGTGTAT
6435268 AT
1 AT
6435270 TATTGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (14 bp):
ATATATACGTGTAT
Found at i:6448179 original size:26 final size:26
Alignment explanation
Indices: 6448126--6448209 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
6448116 CAAAAGAAAT
6448126 AAAAATA--TACCAAAATATACCCCGAAA
1 AAAAATATTTACCAAAATATA--CC-AAA
** *
6448153 AAATTTATTTATCAAAATATACCAAA
1 AAAAATATTTACCAAAATATACCAAA
6448179 AAAAATATTTACCAAAATATACCAAA
1 AAAAATATTTACCAAAATATACCAAA
6448205 AAAAA
1 AAAAA
6448210 AAAGAGGGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 31 0.63
27 7 0.14
29 11 0.22
ACGTcount: A:0.61, C:0.15, G:0.01, T:0.23
Consensus pattern (26 bp):
AAAAATATTTACCAAAATATACCAAA
Found at i:6448489 original size:14 final size:13
Alignment explanation
Indices: 6448470--6448509 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
6448460 TTGATTGCCA
6448470 GTAAAATATTTTCT
1 GTAAAATATTTT-T
6448484 GTAAAATGATTTTT
1 GTAAAAT-ATTTTT
*
6448498 GGAAAATATTTT
1 GTAAAATATTTT
6448510 ACTTTTCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 14 0.58
15 5 0.21
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (13 bp):
GTAAAATATTTTT
Found at i:6448521 original size:34 final size:35
Alignment explanation
Indices: 6448478--6448544 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
6448468 CAGTAAAATA
*
6448478 TTTTCTGTAAAATGATTT-TTGGAAAATATTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
6448512 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
6448545 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:6464367 original size:24 final size:24
Alignment explanation
Indices: 6464335--6464382 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6464325 AAACTGATTT
** *
6464335 TTTTTCTTTCTCTCTTTCTCTCTG
1 TTTTTCTTTAGCTCTCTCTCTCTG
6464359 TTTTTCTTTAGCTCTCTCTCTCTG
1 TTTTTCTTTAGCTCTCTCTCTCTG
6464383 CCGAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.29, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTTTCTTTAGCTCTCTCTCTCTG
Found at i:6475129 original size:30 final size:30
Alignment explanation
Indices: 6475093--6475156 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
6475083 ACAAACATAC
*
6475093 ATTAACCCAATTTTGCCATGAACGCCTCTA
1 ATTAACCCAATTGTGCCATGAACGCCTCTA
6475123 ATTAACCCAATTGTGCCATGAACGCCTCTA
1 ATTAACCCAATTGTGCCATGAACGCCTCTA
6475153 ATTA
1 ATTA
6475157 TCTGTAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (30 bp):
ATTAACCCAATTGTGCCATGAACGCCTCTA
Found at i:6486814 original size:28 final size:29
Alignment explanation
Indices: 6486728--6486814 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 29
6486718 TTCTTTCACT
* *
6486728 AATTATT-AATTTGTTTTAATTTAATCACCT
1 AATTATTCAA-TT-TTTTAATTTGATCACCC
* *
6486758 AATTATTGTCACTTTTTCTTATTTG-TCACCC
1 AATTA-T-TCAATTTTT-TAATTTGATCACCC
6486789 AATTA-TCAATTTTTTAATTTGATCAC
1 AATTATTCAATTTTTTAATTTGATCAC
6486815 TTAATTAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
27 6 0.13
28 12 0.26
30 5 0.11
31 14 0.30
32 8 0.17
33 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.52
Consensus pattern (29 bp):
AATTATTCAATTTTTTAATTTGATCACCC
Found at i:6486820 original size:28 final size:28
Alignment explanation
Indices: 6486726--6486821 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 28
6486716 TTTTCTTTCA
* *
6486726 CTAATTATTAATTTGTTTTAATTTAATCAC
1 CTAATTATCAA-TT-TTTTAATTTGATCAC
* *
6486756 CTAATTATTGTCACTTTTTCTTATTTG-TCAC
1 CTAATTA---TCAATTTTT-TAATTTGATCAC
*
6486787 CCAATTATCAATTTTTTAATTTGATCAC
1 CTAATTATCAATTTTTTAATTTGATCAC
*
6486815 TTAATTA
1 CTAATTA
6486822 ATCGAGATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
27 6 0.12
28 17 0.33
30 7 0.13
31 13 0.25
32 7 0.13
33 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.52
Consensus pattern (28 bp):
CTAATTATCAATTTTTTAATTTGATCAC
Found at i:6498372 original size:29 final size:30
Alignment explanation
Indices: 6498325--6498383 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
6498315 GAATGGGATC
6498325 AAATCAAAATTTCAAGTATAAAATTACACA
1 AAATCAAAATTTCAAGTATAAAATTACACA
* *
6498355 AAATCAAAA-TTCATGTATATAATTACACA
1 AAATCAAAATTTCAAGTATAAAATTACACA
6498384 TTAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCAAGTATAAAATTACACA
Found at i:6505783 original size:21 final size:19
Alignment explanation
Indices: 6505727--6505787 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
6505717 TAATTATTTA
6505727 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
6505746 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
6505765 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
6505786 TT
1 TT
6505788 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:6508610 original size:25 final size:25
Alignment explanation
Indices: 6508574--6508651 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 25
6508564 GCGGTGGAGA
**
6508574 AGAGGAACAAAGAACTGGCAGAGAGC
1 AGAGG-ACAAAGAACCAGCAGAGAGC
6508600 AGAGGACAAAGAACCAGCAGAGAGC
1 AGAGGACAAAGAACCAGCAGAGAGC
* *
6508625 AGA--ACAAAGAATCAGCAGAGGGC
1 AGAGGACAAAGAACCAGCAGAGAGC
6508648 AGAG
1 AGAG
6508652 ATCAGGGCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.45
25 21 0.45
26 5 0.11
ACGTcount: A:0.47, C:0.17, G:0.33, T:0.03
Consensus pattern (25 bp):
AGAGGACAAAGAACCAGCAGAGAGC
Found at i:6509525 original size:23 final size:24
Alignment explanation
Indices: 6509499--6509543 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6509489 TGAAATATTT
*
6509499 ATATTTATA-TTTTTTATTTTTGA
1 ATATTTAGACTTTTTTATTTTTGA
6509522 ATATTTAGACTTTTTTATTTTT
1 ATATTTAGACTTTTTTATTTTT
6509544 TAAAATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (24 bp):
ATATTTAGACTTTTTTATTTTTGA
Found at i:6509543 original size:30 final size:30
Alignment explanation
Indices: 6509478--6509545 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
6509468 TTAATTTGAT
*
6509478 TTTTTTATTTTTGAAATATTTATATTTATA
1 TTTTTTATTTTTGAAATATTTAGATTTATA
*
6509508 TTTTTTATTTTTG-AATATTTAGACTTTTTTA
1 TTTTTTATTTTTGAAATATTTAGA--TTTATA
6509539 TTTTTTA
1 TTTTTTA
6509546 AAATTCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 9 0.26
30 13 0.38
31 12 0.35
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (30 bp):
TTTTTTATTTTTGAAATATTTAGATTTATA
Found at i:6514365 original size:30 final size:31
Alignment explanation
Indices: 6514325--6514383 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
6514315 TTTGAAGGGC
* *
6514325 TTAATTAAAATTTT-AAAATTTTTAAAAGAA
1 TTAATGAAAATTTTCAAAAATTTTAAAAGAA
6514355 TTAATGAAAATTTTCAAAAATTTTAAAAG
1 TTAATGAAAATTTTCAAAAATTTTAAAAG
6514384 TTTAACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
TTAATGAAAATTTTCAAAAATTTTAAAAGAA
Found at i:6519556 original size:71 final size:71
Alignment explanation
Indices: 6519456--6519612 Score: 192
Period size: 71 Copynumber: 2.2 Consensus size: 71
6519446 CAACTCTTAA
* * * *
6519456 AACCGAATGTATATTCACTATAAATATGAATAGTCGAATGC-T-TATATACATATATGCTTAACA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATATACATATA--CTTAACA
*
6519519 GATATTAG
64 AATATTAG
** * *
6519527 CTCCAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATACTTAACAAA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATATACATATACTTAACAAA
*
6519592 TATTAT
66 TATTAG
6519598 AACCAAATGTATATA
1 AACCAAATGTATATA
6519613 TGTATTTATC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
71 59 0.82
72 1 0.01
73 12 0.17
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (71 bp):
AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCATATATATACATATACTTAACAAA
TATTAG
Found at i:6520105 original size:41 final size:41
Alignment explanation
Indices: 6520060--6520202 Score: 196
Period size: 41 Copynumber: 3.5 Consensus size: 41
6520050 ATCGGCAATT
* *
6520060 AGCCTGTTAGACGTAAAGTCCAAAATATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACTGGCATCA
* * ** * *
6520101 AGCCTGTTGGATATAAAGTCTGAAACATTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACTGGCATCA
* *
6520142 AGCCTGCTAGACGTAAAGCCCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCCGAAATATTTCACTGGCATCA
6520183 AGCCTGCTAGACGTAAAGTC
1 AGCCTGCTAGACGTAAAGTC
6520203 TGAATCATCT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCCGAAATATTTCACTGGCATCA
Found at i:6522537 original size:13 final size:11
Alignment explanation
Indices: 6522501--6522531 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6522491 CCGGGCGTAT
6522501 TAATTTTTATA
1 TAATTTTTATA
*
6522512 TTATTTTTATA
1 TAATTTTTATA
6522523 TAATTTTTA
1 TAATTTTTA
6522532 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:6525905 original size:22 final size:24
Alignment explanation
Indices: 6525879--6525922 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6525869 GAAAAATATT
6525879 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
6525901 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
6525923 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:6526064 original size:9 final size:9
Alignment explanation
Indices: 6526052--6526079 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6526042 TTTTATTACA
6526052 ACAATTAAT
1 ACAATTAAT
6526061 ACAATTAAT
1 ACAATTAAT
6526070 ACAATTAAT
1 ACAATTAAT
6526079 A
1 A
6526080 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:6526064 original size:68 final size:68
Alignment explanation
Indices: 6525955--6526129 Score: 332
Period size: 68 Copynumber: 2.6 Consensus size: 68
6525945 TTGACTAGTG
* *
6525955 TTACTAATCAAATGTTAGATTTTGTTACAACAATGAATACAATTAATACAATTAATAATTTGATA
1 TTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATA
6526020 AAT
66 AAT
6526023 TTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATA
1 TTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATA
6526088 AAT
66 AAT
6526091 TTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
1 TTACTAATCAAATGTTAGATTTTATTACAACAATTAATA
6526130 ATTTGATAAT
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 105 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (68 bp):
TTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGATA
AAT
Found at i:6526157 original size:16 final size:16
Alignment explanation
Indices: 6526136--6526177 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6526126 AATAATTTGA
*
6526136 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6526152 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6526168 TAGTTTTAAT
1 TAATTTTAAT
6526178 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6528404 original size:23 final size:24
Alignment explanation
Indices: 6528373--6528424 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
6528363 AAATGATAAT
6528373 AAAA-TAGTAAAACAA-A-AACAAA
1 AAAATTAGTAAAA-AAGACAACAAA
*
6528395 AAAATTAGTAAAAAAGACAGCAAA
1 AAAATTAGTAAAAAAGACAACAAA
6528419 AAAATT
1 AAAATT
6528425 CTTTTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 9 0.35
24 11 0.42
ACGTcount: A:0.71, C:0.08, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAATTAGTAAAAAAGACAACAAA
Found at i:6536013 original size:29 final size:28
Alignment explanation
Indices: 6535971--6536031 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
6535961 TATATCACAA
*
6535971 TTTTGACTTGTATAAAATTAATTTAAATT
1 TTTTGAATTGTATAAAA-TAATTTAAATT
* *
6536000 TTTTGAATTTTATAAAATAATTTTAATT
1 TTTTGAATTGTATAAAATAATTTAAATT
6536028 TTTT
1 TTTT
6536032 ATATTAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTTGAATTGTATAAAATAATTTAAATT
Found at i:6536654 original size:27 final size:27
Alignment explanation
Indices: 6536624--6536692 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
6536614 GTCGGGTGGC
6536624 GCCTCATAGGGAGGCACCATTAAAAGT
1 GCCTCATAGGGAGGCACCATTAAAAGT
* *
6536651 GCCTCATAAGGAGGCGCCATTAAAAGT
1 GCCTCATAGGGAGGCACCATTAAAAGT
*
6536678 GCCTCATAGGAAGGC
1 GCCTCATAGGGAGGC
6536693 GCCAATGGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (27 bp):
GCCTCATAGGGAGGCACCATTAAAAGT
Found at i:6536750 original size:19 final size:19
Alignment explanation
Indices: 6536701--6537038 Score: 170
Period size: 19 Copynumber: 17.3 Consensus size: 19
6536691 GCGCCAATGG
*
6536701 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
6536720 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
6536741 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
6536760 GTAATTATTTTAT-AATTCATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
6536783 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
6536803 GT-ATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
6536821 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
6536842 GTAATTTTTTATGAATATT
1 GTAATTTTGTATGAATATT
*
6536861 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
6536877 -TAATTTTGTAT--TTATA
1 GTAATTTTGTATGAATATT
* *
6536893 GT--TTTTG-ATTAGTATT
1 GTAATTTTGTATGAATATT
* *
6536909 -T--TGTATGAATATTGTAATTTT
1 GTAAT-TTTG--TA-TG-AATATT
6536930 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
6536949 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
*
6536972 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
*
6536991 ATAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
6537014 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
6537033 GTAATT
1 GTAATT
6537039 ATTTTATAAT
Statistics
Matches: 251, Mismatches: 30, Indels: 76
0.70 0.08 0.21
Matches are distributed among these distances:
14 4 0.02
15 13 0.05
16 13 0.05
17 6 0.02
18 4 0.02
19 91 0.36
20 22 0.09
21 47 0.19
22 9 0.04
23 37 0.15
24 4 0.02
25 1 0.00
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.55
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:6536883 original size:101 final size:101
Alignment explanation
Indices: 6536704--6536977 Score: 395
Period size: 101 Copynumber: 2.6 Consensus size: 101
6536694 CCAATGGGTA
* * * *
6536704 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
6536769 TTATAATTCATTTTGTATTTATAGTTTTGGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
*
6536805 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
*
6536870 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
6536906 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTGTATGAATATTGTAA---T-T--TTTTGTATGAATATTGT-A-ATT-TTT-TATGAATAT
6536971 TGTAATT
56 TGTAATT
6536978 TTGTATGGAT
Statistics
Matches: 155, Mismatches: 8, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
101 113 0.73
104 1 0.01
105 1 0.01
107 17 0.11
108 1 0.01
109 3 0.02
110 3 0.02
111 16 0.10
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.56
Consensus pattern (101 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTATGAATATTGTAATTATT
TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
Found at i:6536936 original size:27 final size:27
Alignment explanation
Indices: 6536906--6536982 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
6536896 TTTGATTAGT
6536906 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
6536933 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
6536958 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
6536983 TGGATATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 22 0.48
27 24 0.52
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:6536978 original size:42 final size:42
Alignment explanation
Indices: 6536805--6537037 Score: 212
Period size: 42 Copynumber: 5.5 Consensus size: 42
6536795 TTGGATTAGT
*
6536805 ATTTTGTATGAATAGTGTAAT-TT-TTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
* * * *
6536845 ATTTTTTATGAATATTGTAATTATT-TTAT-AATTAATTTTGT-
1 ATTTTGTATGAATATTGTAA-TATTGTT-TGTATGAATATTGTA
* * * * *
6536886 ATTTATAGTTTTTG-AT-TAGT-ATTTTGTATGAATATTGTAATTTTGTA
1 ATTT-T-G--TATGAATATTGTAATATTGTTTG--TA-TG-AATATTGTA
6536933 ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
* *
6536975 ATTTTGTATGGATATTATAATATTGTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
6537017 ATTTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAAT
6537038 TATTTTATAA
Statistics
Matches: 155, Mismatches: 21, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
40 18 0.12
41 9 0.06
42 83 0.54
43 9 0.06
44 7 0.05
45 8 0.05
46 17 0.11
47 4 0.03
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (42 bp):
ATTTTGTATGAATATTGTAATATTGTTTGTATGAATATTGTA
Found at i:6537101 original size:60 final size:60
Alignment explanation
Indices: 6537031--6537152 Score: 183
Period size: 60 Copynumber: 2.0 Consensus size: 60
6537021 TGTATGAATA
* * * * *
6537031 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
6537091 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
6537151 TT
1 TT
6537153 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:6537306 original size:15 final size:16
Alignment explanation
Indices: 6537270--6537306 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
6537260 CTCATTTAAT
6537270 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
6537286 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
6537301 TTTTAT
1 TTTTAT
6537307 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:6543778 original size:15 final size:16
Alignment explanation
Indices: 6543747--6543786 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
6543737 ATAGTAAAAA
6543747 TATAATTTTATTATTTT
1 TATAA-TTTATTATTTT
6543764 TATAATTTA-TATTTT
1 TATAATTTATTATTTT
6543779 TATAATTT
1 TATAATTT
6543787 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.61
16 4 0.17
17 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATAATTTATTATTTT
Found at i:6543825 original size:24 final size:26
Alignment explanation
Indices: 6543785--6543832 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
6543775 TTTTTATAAT
*
6543785 TTTTAAAAAAATTAAAT-TAATTTAA
1 TTTTAAAAAAATAAAATATAATTTAA
6543810 TTTT-AAAAAATAAAATATAATTT
1 TTTTAAAAAAATAAAATATAATTT
6543833 TACCATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTAAAAAAATAAAATATAATTTAA
Found at i:6544688 original size:8 final size:8
Alignment explanation
Indices: 6544675--6544701 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6544665 ATCTTTTTAT
6544675 TTTTAAAA
1 TTTTAAAA
6544683 TTTTAAAA
1 TTTTAAAA
6544691 TTTTAAAA
1 TTTTAAAA
6544699 TTT
1 TTT
6544702 AGGTCGAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTAAAA
Found at i:6547944 original size:15 final size:15
Alignment explanation
Indices: 6547924--6547955 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6547914 CTATTAGTTG
*
6547924 TTTCTATTAATTCTT
1 TTTCTAATAATTCTT
6547939 TTTCTAATAATTCTT
1 TTTCTAATAATTCTT
6547954 TT
1 TT
6547956 ATTTGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTCTAATAATTCTT
Found at i:6559430 original size:103 final size:104
Alignment explanation
Indices: 6559219--6559431 Score: 340
Period size: 103 Copynumber: 2.1 Consensus size: 104
6559209 AGTATATAAT
6559219 AAAAACATATAGTAAATATATTTAAAATTAATAATTGGGTGACTATTACTGAAATTTACCCAATC
1 AAAAACATATAGTAAATATATTTAAAATTAATAATTGGGTGACTATTACTGAAATTTACCCAATC
*
6559284 CAGAAGACTTATCCAAAAACTCGCAACGTTTTTTTAAAG
66 CAGAAGACTTATCCAAAAACTCGCAACGTTTTCTTAAAG
* * *
6559323 -AAAACATATGGTAAATATATTTAAAATTAATATTTGGGTGACTATTATTGAAATTTACCCAATC
1 AAAAACATATAGTAAATATATTTAAAATTAATAATTGGGTGACTATTACTGAAATTTACCCAATC
* * **
6559387 CAGAAGACTTCTCCAAAGACTCGTGAC-TTTTCTTAAAG
66 CAGAAGACTTATCCAAAAACTCGCAACGTTTTCTTAAAG
6559425 AAAAACA
1 AAAAACA
6559432 GCTCAATTTG
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 10 0.10
103 90 0.90
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (104 bp):
AAAAACATATAGTAAATATATTTAAAATTAATAATTGGGTGACTATTACTGAAATTTACCCAATC
CAGAAGACTTATCCAAAAACTCGCAACGTTTTCTTAAAG
Found at i:6560664 original size:37 final size:37
Alignment explanation
Indices: 6560614--6560686 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
6560604 TTAATTAATT
*
6560614 TAAATGTTTATTTGATCAATTATTAATTTTGGATATC
1 TAAATGTTTATTTGATCAATTATCAATTTTGGATATC
*
6560651 TAAATGTTTATTTGATCAATTATCGATTTTGGATAT
1 TAAATGTTTATTTGATCAATTATCAATTTTGGATAT
6560687 TTAAGTCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (37 bp):
TAAATGTTTATTTGATCAATTATCAATTTTGGATATC
Found at i:6567787 original size:12 final size:12
Alignment explanation
Indices: 6567770--6567795 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6567760 TAAAAAAAAG
6567770 AATATATATATA
1 AATATATATATA
6567782 AATATATATATA
1 AATATATATATA
6567794 AA
1 AA
6567796 ATAATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATATA
Found at i:6582923 original size:18 final size:18
Alignment explanation
Indices: 6582887--6582923 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6582877 TACCTTTCAC
* *
6582887 TCTTTTTTTTTTTCTTTT
1 TCTTTTTTTTTTCCGTTT
6582905 TCTTTTTTTTTTCCGTTT
1 TCTTTTTTTTTTCCGTTT
6582923 T
1 T
6582924 ACATATCTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.84
Consensus pattern (18 bp):
TCTTTTTTTTTTCCGTTT
Found at i:6585983 original size:12 final size:11
Alignment explanation
Indices: 6585963--6585998 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
6585953 TCCAAACTCC
6585963 TTTTTTTTTCT
1 TTTTTTTTTCT
6585974 TTTCTTTTTTCCT
1 TTT-TTTTTT-CT
6585987 TTTTTTTTTCT
1 TTTTTTTTTCT
6585998 T
1 T
6585999 CTCAATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 12 0.52
13 5 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:6595114 original size:32 final size:32
Alignment explanation
Indices: 6595073--6595133 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6595063 CAACAATGAT
6595073 AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
1 AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
**
6595105 AAGGATGGTTGGTTTTGGTGATAGTAAAA
1 AAGGATGGTTGGTTTCAGTGATAGTAAAA
6595134 TGGATGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.36, T:0.31
Consensus pattern (32 bp):
AAGGATGGTTGGTTTCAGTGATAGTAAAAGGG
Found at i:6595141 original size:24 final size:24
Alignment explanation
Indices: 6595109--6595158 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6595099 AAAGGGAAGG
* * *
6595109 ATGGTTGGTTTTGGTGATAGTAAA
1 ATGGATGGTTTCGATGATAGTAAA
6595133 ATGGATGGTTTCGATGATAGTAAA
1 ATGGATGGTTTCGATGATAGTAAA
6595157 AT
1 AT
6595159 CTGTTGATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (24 bp):
ATGGATGGTTTCGATGATAGTAAA
Found at i:6599228 original size:23 final size:23
Alignment explanation
Indices: 6599174--6599228 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
6599164 TTCTATTTTA
*
6599174 ATTTTTCAAGAATATGACCGTCT
1 ATTTTTCAGGAATATGACCGTCT
*
6599197 ATTTTTCAGGAATATGATCGTCT
1 ATTTTTCAGGAATATGACCGTCT
6599220 ATTTTTCAG
1 ATTTTTCAG
6599229 ATTTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (23 bp):
ATTTTTCAGGAATATGACCGTCT
Found at i:6607563 original size:44 final size:45
Alignment explanation
Indices: 6607510--6607612 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
6607500 TGTCTTTGAC
* * *
6607510 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** * *
6607554 ATGGACTTACATGGCTCAATCTTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
6607600 ATGGACTTACATG
1 ATGGACTTACATG
6607613 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:6607611 original size:46 final size:44
Alignment explanation
Indices: 6607532--6607617 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
6607522 GAATTATTCC
*
6607532 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCT
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCT
*
6607576 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
6607618 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCT
Found at i:6607991 original size:30 final size:30
Alignment explanation
Indices: 6607957--6608014 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6607947 CCTCGACTCT
*
6607957 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
6607987 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
6608015 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:6608598 original size:9 final size:9
Alignment explanation
Indices: 6608584--6608617 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6608574 TTCTATTCTG
6608584 TTTCTTTTC
1 TTTCTTTTC
6608593 TTTCTTTT-
1 TTTCTTTTC
*
6608601 TTTCTATTC
1 TTTCTTTTC
6608610 TTTCTTTT
1 TTTCTTTT
6608618 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:6608610 original size:17 final size:17
Alignment explanation
Indices: 6608584--6608617 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6608574 TTCTATTCTG
*
6608584 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
6608601 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
6608618 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:6608639 original size:5 final size:5
Alignment explanation
Indices: 6608626--6608698 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
6608616 TTGTTTTATG
6608626 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
6608674 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
6608699 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:6608651 original size:19 final size:19
Alignment explanation
Indices: 6608627--6608669 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
6608617 TGTTTTATGT
6608627 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
6608646 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
6608665 ATATA
1 ATATA
6608670 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:6608679 original size:24 final size:24
Alignment explanation
Indices: 6608633--6608697 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
6608623 ATGTATATAT
* * *
6608633 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
6608657 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
6608681 ATTACTATAATATAATA
1 A-TAATATAATATAATA
6608698 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:6609176 original size:19 final size:20
Alignment explanation
Indices: 6609142--6609179 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6609132 TCAAAAAAAT
6609142 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
*
6609162 AAAATTCTAAA-ATTTATA
1 AAAATTCAAAATATTTATA
6609180 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:6611220 original size:34 final size:35
Alignment explanation
Indices: 6611182--6611254 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
6611172 CATACATTTT
* **
6611182 TTTTAAAATTAT-AATCTTTTTATAATTTTTTGAA
1 TTTTAAAATTATAAATATTTTTATAATTTTTAAAA
* *
6611216 TTTT-AATTTTTAAATATTTTTATAATTTTTAAAA
1 TTTTAAAATTATAAATATTTTTATAATTTTTAAAA
6611250 TTTTA
1 TTTTA
6611255 TTATTGTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
33 5 0.16
34 27 0.84
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (35 bp):
TTTTAAAATTATAAATATTTTTATAATTTTTAAAA
Found at i:6611234 original size:25 final size:24
Alignment explanation
Indices: 6611198--6611244 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
6611188 AATTATAATC
*
6611198 TTTTTATAATTTTT-TGAATTTTAA
1 TTTTTAAAATTTTTAT-AATTTTAA
6611222 TTTTTAAATATTTTTATAATTTT
1 TTTTTAAA-ATTTTTATAATTTT
6611245 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 12 0.60
26 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTTAAAATTTTTATAATTTTAA
Found at i:6617700 original size:43 final size:43
Alignment explanation
Indices: 6617643--6617730 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 43
6617633 TTTATTTATT
* *
6617643 ATATGTATATTTTTTTCTTTGTACAATGTAACATTTTAAGAGAG
1 ATATGTATATTTTTTTCTATGTACAATGTAACA-CTTAAGAGAG
6617687 ATATGTATATTTTTTTCTATGTACAATGTAACACTTAAGAGAG
1 ATATGTATATTTTTTTCTATGTACAATGTAACACTTAAGAGAG
6617730 A
1 A
6617731 GATTCTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 10 0.24
44 32 0.76
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (43 bp):
ATATGTATATTTTTTTCTATGTACAATGTAACACTTAAGAGAG
Found at i:6625604 original size:23 final size:23
Alignment explanation
Indices: 6625572--6625618 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6625562 ATACATAATT
* *
6625572 ATTTTCAAAAAATATAATAATAA
1 ATTTTAAAAAAATATAAAAATAA
*
6625595 ATTTTAAAAATATATAAAAATAA
1 ATTTTAAAAAAATATAAAAATAA
6625618 A
1 A
6625619 ATAATATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTTTAAAAAAATATAAAAATAA
Found at i:6625607 original size:52 final size:52
Alignment explanation
Indices: 6625550--6625714 Score: 156
Period size: 52 Copynumber: 3.1 Consensus size: 52
6625540 AAATTCAAAG
6625550 AAATATATAAAAATACATAATTATTTTCAAAAAATATAATAATAAATTTTAA-
1 AAATATATAAAAATACATAA-TATTTTCAAAAAATATAATAATAAATTTTAAT
* * * *
6625602 AAATATATAAAAATAAAATAATATCGTTGACAATAAATAATAAT-ATAATTTTTAAT
1 AAATATATAAAAAT-ACATAATAT--TT-TCAAAAAAT-ATAATAATAAATTTTAAT
* * * *
6625658 ATATATATAATAACACATAAATATTTT-TAAAAATATAATAATAAATTATTTAAT
1 AAATATATAAAAATACAT-AATATTTTCAAAAAATATAATAATAAA-T-TTTAAT
6625712 AAA
1 AAA
6625715 AAAATTATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
51 5 0.06
52 26 0.29
53 6 0.07
54 12 0.13
55 20 0.22
56 21 0.23
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (52 bp):
AAATATATAAAAATACATAATATTTTCAAAAAATATAATAATAAATTTTAAT
Found at i:6625696 original size:54 final size:52
Alignment explanation
Indices: 6625552--6625712 Score: 148
Period size: 54 Copynumber: 3.0 Consensus size: 52
6625542 ATTCAAAGAA
* * * *
6625552 ATATATAAAAATACATAATTATTTTCAAAAAATATAATAATAAATTTTAAAAAT
1 ATATATAATAA-ACATAAATATTTT-AAAAAATATAATAATAAATTTTTAATAT
* * *
6625606 ATATAAAAATAAA-AT-AATATCGTTGACAATAA-ATAATAATATAATTTTTAATAT
1 ATAT-ATAATAAACATAAATAT--TTTA-AAAAATATAATAATA-AATTTTTAATAT
*
6625660 ATATATAATAACACATAAATATTTTTAAAAATATAATAATAAATTATTTAATA
1 ATATATAATAA-ACATAAATATTTTAAAAAATATAATAATAAATT-TTTAATA
6625713 AAAAAATTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
52 4 0.05
53 26 0.30
54 44 0.51
55 7 0.08
56 5 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (52 bp):
ATATATAATAAACATAAATATTTTAAAAAATATAATAATAAATTTTTAATAT
Found at i:6630684 original size:31 final size:31
Alignment explanation
Indices: 6630649--6630917 Score: 362
Period size: 31 Copynumber: 8.7 Consensus size: 31
6630639 ATATATGTTT
6630649 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * * *
6630680 TATACATTGGCAAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
6630711 TATACATTGTCGAATTTGATTTGCATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
6630742 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
6630773 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
6630804 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
6630835 TATACATTGCC-AAATTAATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
6630865 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
6630896 TATATATTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
6630918 AGCATTGGAT
Statistics
Matches: 207, Mismatches: 30, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
30 33 0.16
31 174 0.84
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:6631103 original size:43 final size:43
Alignment explanation
Indices: 6631035--6631182 Score: 217
Period size: 43 Copynumber: 3.4 Consensus size: 43
6631025 TCCGAGGTGT
*
6631035 GATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATTTGA
1 GATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATTTGA
*
6631078 GATTCTC-TGTAAGACCATAGCTAGGCTATTGGCATCAATTTGA
1 GATT-TCATGTAAGACCATAGCTAGGCTATTGGCATCGATTTGA
* * **
6631121 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGA
1 GATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATTTGA
6631164 GATTTTCATGTAAGACCAT
1 GA-TTTCATGTAAGACCAT
6631183 GTCTGGGACA
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
42 2 0.02
43 77 0.80
44 17 0.18
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATTTGA
Found at i:6647683 original size:38 final size:38
Alignment explanation
Indices: 6647636--6647712 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
6647626 TTTTAAAAAA
* *
6647636 AAAAACAGTTACAATTAAACATGATCATGGGCTTGATT
1 AAAAACAGTTACAATTAAACATGATCACGAGCTTGATT
* *
6647674 AAAAGCAGTTACAATTAGACATGATCACGAGCTTGATT
1 AAAAACAGTTACAATTAAACATGATCACGAGCTTGATT
6647712 A
1 A
6647713 TCTATTGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (38 bp):
AAAAACAGTTACAATTAAACATGATCACGAGCTTGATT
Found at i:6651584 original size:37 final size:37
Alignment explanation
Indices: 6651523--6651668 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6651513 TACGTATGAT
* *
6651523 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6651558 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6651595 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6651632 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6651669 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6651685 original size:46 final size:46
Alignment explanation
Indices: 6651632--6651900 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
6651622 TAAGTGTAGC
* **
6651632 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6651678 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6651724 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6651776 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
6651822 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6651874 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6651901 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6651751 original size:52 final size:52
Alignment explanation
Indices: 6651675--6651894 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
6651665 TAGCTAAAGC
* *
6651675 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6651728 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6651780 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6651826 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6651878 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6651895 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6651797 original size:98 final size:98
Alignment explanation
Indices: 6651632--6651900 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
6651622 TAAGTGTAGC
* * *
6651632 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
6651697 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
6651731 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
6651796 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
6651829 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
6651894 GATCAGA
66 GATCAGA
6651901 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:6655081 original size:49 final size:49
Alignment explanation
Indices: 6655026--6655171 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
6655016 TTCGTTTTCT
* *
6655026 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
6655075 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
6655124 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
6655172 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:6656485 original size:37 final size:37
Alignment explanation
Indices: 6656424--6656569 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6656414 TACGTATGAT
* *
6656424 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6656459 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6656496 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6656533 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6656570 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6656586 original size:46 final size:46
Alignment explanation
Indices: 6656533--6656801 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
6656523 TAAGTGTAGC
* **
6656533 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6656579 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6656625 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6656677 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
6656723 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6656775 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6656802 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6656652 original size:52 final size:52
Alignment explanation
Indices: 6656576--6656795 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
6656566 TAGCTAAAGC
* *
6656576 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6656629 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6656681 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6656727 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6656779 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6656796 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6656698 original size:98 final size:98
Alignment explanation
Indices: 6656533--6656801 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
6656523 TAAGTGTAGC
* * *
6656533 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
6656598 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
6656632 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
6656697 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
6656730 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
6656795 GATCAGA
66 GATCAGA
6656802 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:6679554 original size:31 final size:31
Alignment explanation
Indices: 6679497--6679555 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
6679487 GTGTAATTTA
*
6679497 TATTCAAGTTAAACCGAAAATTTTGATTTTT
1 TATTCAAGTTAAACCGAAAATCTTGATTTTT
* *
6679528 TATTCAAGTTGATCCGAATAA-CTTGATT
1 TATTCAAGTTAAACCGAA-AATCTTGATT
6679556 AACTCGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (31 bp):
TATTCAAGTTAAACCGAAAATCTTGATTTTT
Found at i:6679717 original size:112 final size:111
Alignment explanation
Indices: 6679585--6679806 Score: 381
Period size: 112 Copynumber: 2.0 Consensus size: 111
6679575 AAATTTTGAA
* *
6679585 TTTTTTATCGAGTTTTTTGAATCGAATCAGATTTTACTCACCTCTAATTTTAGGTTAAATTACAC
1 TTTTTTATCAAGTTTTTTGAATCAAATCAGATTTTACTCACCTCTAATTTTAGGTTAAATTACAC
* *
6679650 AATTAGTCCCCATGTTTTTTTGTTTTGAGCTATTTAATTTTTTTTC
66 AATTAGGCCCCATGTTTTTTTGTTTTGAGCTATTGAATTTTTTTTC
*
6679696 TTTTTTAATCAAGTTTTTTGAATCAAATCAGATTTTGCTCACCTCTAATTTTAGGTTAAATTACA
1 TTTTTT-ATCAAGTTTTTTGAATCAAATCAGATTTTACTCACCTCTAATTTTAGGTTAAATTACA
*
6679761 CAATTAGGCCCCATGTTTTTTTGTTTTGAGTTATTGAATTTTTTTT
65 CAATTAGGCCCCATGTTTTTTTGTTTTGAGCTATTGAATTTTTTTT
6679807 TCATTCTCTT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
111 6 0.06
112 98 0.94
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (111 bp):
TTTTTTATCAAGTTTTTTGAATCAAATCAGATTTTACTCACCTCTAATTTTAGGTTAAATTACAC
AATTAGGCCCCATGTTTTTTTGTTTTGAGCTATTGAATTTTTTTTC
Found at i:6684409 original size:20 final size:20
Alignment explanation
Indices: 6684364--6684411 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
6684354 GAAGGTATGG
* *
6684364 GAGGAGGATAGGTGATGATT
1 GAGGAGGATAGGAGAAGATT
**
6684384 TTGGAGGATAGGAGAAGATT
1 GAGGAGGATAGGAGAAGATT
6684404 GAGGAGGA
1 GAGGAGGA
6684412 GAAAGGATAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (20 bp):
GAGGAGGATAGGAGAAGATT
Found at i:6685028 original size:13 final size:12
Alignment explanation
Indices: 6685010--6685046 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
6685000 GTCTCTTAAT
6685010 AAAAATTGCAAAA
1 AAAAATT-CAAAA
*
6685023 AAAAATCCAAAA
1 AAAAATTCAAAA
6685035 AAAAATTCAAAA
1 AAAAATTCAAAA
6685047 TAATTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.73, C:0.11, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAATTCAAAA
Found at i:6685077 original size:19 final size:20
Alignment explanation
Indices: 6685034--6685084 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
6685024 AAAATCCAAA
*
6685034 AAAAAATTCAAAATAATTGT
1 AAAAAATTCAAAATAATTAT
* *
6685054 TAAAAA-TCAAAATACTTAT
1 AAAAAATTCAAAATAATTAT
*
6685073 AAAAATTTCAAA
1 AAAAAATTCAAA
6685085 TTTTATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTAT
Found at i:6703704 original size:31 final size:31
Alignment explanation
Indices: 6703668--6703736 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
6703658 TACACAAATG
*
6703668 GTCATTAAATTATTCAAAAATGTTCATTTGA
1 GTCATTAAATTATTCAAAAATGTTCATTTAA
** * * *
6703699 GTCATTGTATTATTCAAAAGTTTTTATTTAA
1 GTCATTAAATTATTCAAAAATGTTCATTTAA
6703730 GTCATTA
1 GTCATTA
6703737 GACTGTTAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (31 bp):
GTCATTAAATTATTCAAAAATGTTCATTTAA
Found at i:6711658 original size:29 final size:29
Alignment explanation
Indices: 6711624--6711727 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 29
6711614 TGATTACTAC
6711624 TGTTTACTCAACTAAGTTGCTATTAACAT
1 TGTTTACTCAACTAAGTTGCTATTAACAT
** * * *
6711653 TGTTTACTCAACTAAGAAAG-GAATAATA-
1 TGTTTACTCAACTAAG-TTGCTATTAACAT
* * *
6711681 TATTTA-GCAA-AATAGTTGCTATTAACAT
1 TGTTTACTCAACTA-AGTTGCTATTAACAT
6711709 TGTTTACTCAACTAAGTTG
1 TGTTTACTCAACTAAGTTG
6711728 ATGCGGGTTT
Statistics
Matches: 53, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
26 2 0.04
27 10 0.19
28 10 0.19
29 29 0.55
30 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (29 bp):
TGTTTACTCAACTAAGTTGCTATTAACAT
Found at i:6713523 original size:22 final size:23
Alignment explanation
Indices: 6713470--6713525 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
6713460 TTTAATTAAA
* * *
6713470 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
6713493 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
6713515 ATTAAAATTAA
1 ATTAAAATTAA
6713526 TTGTTAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:6713538 original size:16 final size:16
Alignment explanation
Indices: 6713501--6713540 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6713491 TTAATAAAAT
* *
6713501 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAA
6713517 TAAAATTAATTGTTAA
1 TAAAATTAATTGTTAA
6713533 TAAAATTA
1 TAAAATTA
6713541 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAA
Found at i:6713625 original size:9 final size:9
Alignment explanation
Indices: 6713613--6713665 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
6713603 ATTATCAAAT
6713613 TATTAATTG
1 TATTAATTG
*
6713622 TATTGATTG
1 TATTAATTG
6713631 TATTAATTG
1 TATTAATTG
6713640 --TTAATTG
1 TATTAATTG
*
6713647 AATTAATTG
1 TATTAATTG
*
6713656 AATTAATTG
1 TATTAATTG
6713665 T
1 T
6713666 TGAAACAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
9 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (9 bp):
TATTAATTG
Found at i:6713644 original size:25 final size:25
Alignment explanation
Indices: 6713610--6713666 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
6713600 AAAATTATCA
* * * *
6713610 AATTATTAATTGTATTGATTGTATT
1 AATTGTTAATTGAATTAATTGAATT
6713635 AATTGTTAATTGAATTAATTGAATT
1 AATTGTTAATTGAATTAATTGAATT
6713660 AATTGTT
1 AATTGTT
6713667 GAAACAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (25 bp):
AATTGTTAATTGAATTAATTGAATT
Found at i:6713774 original size:68 final size:68
Alignment explanation
Indices: 6713657--6713788 Score: 228
Period size: 68 Copynumber: 1.9 Consensus size: 68
6713647 AATTAATTGA
*
6713657 ATTAATTGTTGAAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATGTTTTATTATTATTT
1 ATTAATTGTTGAAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATTATTT
6713722 TGT
66 TGT
* * *
6713725 ATTAATTGTTGTAACAAAATTTAACATTTGATTAGTAAAACAAATTTGATGTTTTATTATTATT
1 ATTAATTGTTGAAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATTATT
6713789 ATTTTGTAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (68 bp):
ATTAATTGTTGAAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATTATTT
TGT
Found at i:6717755 original size:17 final size:16
Alignment explanation
Indices: 6717733--6717767 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6717723 TTGATGAAAG
*
6717733 ATTATATATTATTATAT
1 ATTATAGATTATT-TAT
6717750 ATTATAGATTATTTAT
1 ATTATAGATTATTTAT
6717766 AT
1 AT
6717768 GATAACCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTATAGATTATTTAT
Found at i:6719626 original size:31 final size:31
Alignment explanation
Indices: 6719558--6719627 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
6719548 AGTTATTAAA
* * * * *
6719558 TATTCAAAATTTTTTATTTAAATTATTGGGC
1 TATTAAAAAATTTTCATTTAAATTACTGAGC
* *
6719589 TGTTAAAAAATTTTCATTTAAGTTACTGAGC
1 TATTAAAAAATTTTCATTTAAATTACTGAGC
6719620 TATTAAAA
1 TATTAAAA
6719628 TCACATCTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (31 bp):
TATTAAAAAATTTTCATTTAAATTACTGAGC
Found at i:6719908 original size:31 final size:30
Alignment explanation
Indices: 6719873--6719940 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
6719863 ACTTAACAAC
6719873 TCAATACTTTAAATAAAAACTTTCA-AATAGT
1 TCAATA-TTTAAATAAAAACTTT-AGAATAGT
*
6719904 TCAATGATTTAAATAAAAAGTTTAGAATAGT
1 TCAAT-ATTTAAATAAAAACTTTAGAATAGT
6719935 TCAATA
1 TCAATA
6719941 ATCATTTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 2 0.06
31 31 0.91
32 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (30 bp):
TCAATATTTAAATAAAAACTTTAGAATAGT
Found at i:6728016 original size:4 final size:4
Alignment explanation
Indices: 6728007--6728033 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6727997 TGGACTAAGA
6728007 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
6728034 TGGGGGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:6730272 original size:21 final size:20
Alignment explanation
Indices: 6730247--6730292 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
6730237 ATAGGCATAA
*
6730247 ATATAATTTTATATT-AA-TT
1 ATATAATTATA-ATTAAATTT
6730266 ATATATATTATAATTAAATTT
1 ATATA-ATTATAATTAAATTT
6730287 ATATAA
1 ATATAA
6730293 AAATATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATAATTATAATTAAATTT
Found at i:6731592 original size:25 final size:25
Alignment explanation
Indices: 6731558--6731609 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
6731548 TTAAGTCTTT
6731558 AAAAAGGGCTTTTAAAACACATATC
1 AAAAAGGGCTTTTAAAACACATATC
6731583 AAAAAGGGCTTTTAAAACACATATC
1 AAAAAGGGCTTTTAAAACACATATC
6731608 AA
1 AA
6731610 CCCAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAAAGGGCTTTTAAAACACATATC
Found at i:6731705 original size:41 final size:42
Alignment explanation
Indices: 6731619--6731709 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 42
6731609 ACCCAATTAA
* *
6731619 AATTCAATTTCATTTGATTAAATCATAAAATATGTCCCTTCT
1 AATTCAATTTCATTTGATTAAATCATAAAATATCTCACTTCT
* *
6731661 AATTCGATTT-ATTTGATTAAATTATAAAATATCTACACTT-T
1 AATTCAATTTCATTTGATTAAATCATAAAATATCT-CACTTCT
6731702 AATTCAAT
1 AATTCAAT
6731710 ACAGTTGAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 30 0.70
42 13 0.30
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (42 bp):
AATTCAATTTCATTTGATTAAATCATAAAATATCTCACTTCT
Found at i:6732822 original size:31 final size:31
Alignment explanation
Indices: 6732781--6732857 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
6732771 ATTATAAAAT
*
6732781 AGTCACTAAACTATTTAAA-AGTTTTCATTTA
1 AGTCACTAAACTATTCAAATA-TTTTCATTTA
* * *
6732812 AGTTAGTAAACTATTCAAATATTTTTATTTA
1 AGTCACTAAACTATTCAAATATTTTCATTTA
6732843 AGTCACTAAACTATT
1 AGTCACTAAACTATT
6732858 AAGTGTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
AGTCACTAAACTATTCAAATATTTTCATTTA
Found at i:6734146 original size:24 final size:22
Alignment explanation
Indices: 6734106--6734156 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
6734096 AAAAAAAAGT
*
6734106 TATTTTTTTACTGTTTTGCTAC
1 TATTTTTTTACTGTTTTACTAC
* *
6734128 TATTTTTTCTCACTTTTTTACTAT
1 TATTTTTT-T-ACTGTTTTACTAC
6734152 TATTT
1 TATTT
6734157 CACTATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 15 0.62
ACGTcount: A:0.16, C:0.14, G:0.04, T:0.67
Consensus pattern (22 bp):
TATTTTTTTACTGTTTTACTAC
Found at i:6735157 original size:13 final size:13
Alignment explanation
Indices: 6735139--6735167 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6735129 ATTTAGTATT
6735139 TATATAATAAATA
1 TATATAATAAATA
6735152 TATATAATAAATA
1 TATATAATAAATA
6735165 TAT
1 TAT
6735168 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:6742187 original size:6 final size:6
Alignment explanation
Indices: 6742176--6742203 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6742166 TATATTTGAT
6742176 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
6742204 TTTTAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:6742187 original size:42 final size:40
Alignment explanation
Indices: 6742082--6742195 Score: 115
Period size: 42 Copynumber: 2.8 Consensus size: 40
6742072 AACCCGGCCC
*
6742082 ATATTTGATTAAAAATAAAAAATAAAAATATTTAATATAT
1 ATATTTGATTAAAAATAAAAAATAAAAATATTTAATAAAT
* * * *
6742122 A-ATTCGGATTAAAAGTCCAAAAAATATATATATTTAATAAAAAGT
1 ATATT-TGATTAAAAAT--AAAAAATAAAAATATTTAAT--AAA-T
6742167 ATATTTGATTAAAAAT-AAAAATAAAAATA
1 ATATTTGATTAAAAATAAAAAATAAAAATA
6742196 AAAATAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
39 3 0.05
40 10 0.17
42 29 0.50
44 2 0.03
45 11 0.19
46 3 0.05
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (40 bp):
ATATTTGATTAAAAATAAAAAATAAAAATATTTAATAAAT
Found at i:6743768 original size:15 final size:17
Alignment explanation
Indices: 6743736--6743772 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
6743726 ATGGTTTATC
6743736 TTGTACTAATTATATTT
1 TTGTACTAATTATATTT
6743753 TTGTA-TAATT-TA-TT
1 TTGTACTAATTATATTT
6743767 TTGTAC
1 TTGTAC
6743773 AGTTTCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.37
15 2 0.11
16 5 0.26
17 5 0.26
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.59
Consensus pattern (17 bp):
TTGTACTAATTATATTT
Found at i:6743770 original size:14 final size:15
Alignment explanation
Indices: 6743730--6743772 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
6743720 GTTACTATGG
*
6743730 TTTATCTTGTACTAA
1 TTTATTTTGTACTAA
6743745 TTATATTTTTGTA-TAA
1 TT-TA-TTTTGTACTAA
6743761 TTTATTTTGTAC
1 TTTATTTTGTAC
6743773 AGTTTCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 7 0.29
17 6 0.25
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTATTTTGTACTAA
Found at i:6751807 original size:174 final size:174
Alignment explanation
Indices: 6751322--6751844 Score: 976
Period size: 173 Copynumber: 3.0 Consensus size: 174
6751312 ATAATACGTA
*
6751322 TTGATTTGCTTTCTTTTAGCTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
1 TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
6751387 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
66 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
*
6751452 AATTGACTCCAGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
131 AATTGACTCCTGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
6751496 TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTA-TGCTGTATTCCATATCATCAC
1 TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
6751560 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
66 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
6751625 AATTGACTCCTGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
131 AATTGACTCCTGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
6751669 TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
1 TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
*
6751734 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAAGGAGGATATTGCAA
66 TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
*** *
6751799 AATTGACTCCTGCTTTTGGACCCAAAAAGGAGACTTCTTCGGTG
131 AATTGACTCCTGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
6751843 TT
1 TT
6751845 TACCGACTTC
Statistics
Matches: 341, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 172 0.50
174 169 0.50
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (174 bp):
TTGATTTGCTTTCTTTTAACTTTTCTCTATTTTCTTTTCTTTACTGCTGTATTCCATATCATCAC
TACATATGAACAAAATAATCAAAGCATTTCTTTTTCCACGGAATCAAATAGGGAGGATATTGCAA
AATTGACTCCTGCGCATGGACCCAAAAAGGAGACTTCTTCAGTG
Found at i:6756123 original size:36 final size:36
Alignment explanation
Indices: 6756076--6756145 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
6756066 TCTTGCATAT
6756076 AAATTTCATGCTCACAAACACGAATTCAGTTTTAAC
1 AAATTTCATGCTCACAAACACGAATTCAGTTTTAAC
6756112 AAATTTCATGCTCACAAACACGAATTCAGTTTTA
1 AAATTTCATGCTCACAAACACGAATTCAGTTTTA
6756146 CCATTATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (36 bp):
AAATTTCATGCTCACAAACACGAATTCAGTTTTAAC
Found at i:6756137 original size:21 final size:21
Alignment explanation
Indices: 6756077--6756137 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
6756067 CTTGCATATA
6756077 AATTTCATGCTCACAAACACG
1 AATTTCATGCTCACAAACACG
***
6756098 AA-TTCA-G-T-TTTAACA--
1 AATTTCATGCTCACAAACACG
6756113 AATTTCATGCTCACAAACACG
1 AATTTCATGCTCACAAACACG
6756134 AATT
1 AATT
6756138 CAGTTTTACC
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
15 2 0.07
16 4 0.14
17 5 0.18
18 2 0.07
19 5 0.18
20 4 0.14
21 6 0.21
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (21 bp):
AATTTCATGCTCACAAACACG
Found at i:6762682 original size:19 final size:20
Alignment explanation
Indices: 6762638--6762702 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 20
6762628 ACTCTCGAAT
6762638 CTCGAACCCTAAACTCTAAC
1 CTCGAACCCTAAACTCTAAC
* * *
6762658 CT-GAACCCTTAACT-TGAG
1 CTCGAACCCTAAACTCTAAC
* * *
6762676 CTCGAACCTTGAAC-CCAAC
1 CTCGAACCCTAAACTCTAAC
6762695 CTCGAACC
1 CTCGAACC
6762703 TCGATCTCCA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 4 0.11
19 29 0.83
20 2 0.06
ACGTcount: A:0.31, C:0.38, G:0.11, T:0.20
Consensus pattern (20 bp):
CTCGAACCCTAAACTCTAAC
Found at i:6771805 original size:125 final size:125
Alignment explanation
Indices: 6771630--6771872 Score: 364
Period size: 125 Copynumber: 1.9 Consensus size: 125
6771620 TGCTTCTACT
* * *
6771630 AGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTAC-AGTGGT
1 AGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAAGTGGT
* *
6771694 CATGT-GAGAAATAATTTTTTTTTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACC
66 CATGTAG-GAAATAATTTTTTTTTGACG-TTTCTGAGCAAACAGTATAAAATCGCTGATACC
* * *
6771755 AGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGT
1 AGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAAGTGGT
* *
6771820 CATGTAGGAAATAATTTTTTTTTGACGTTTCTGAGCAAACAGTGTCAAATCGC
66 CATGTAGGAAATAATTTTTTTTTGACGTTTCTGAGCAAACAGTATAAAATCGC
6771873 GCCCTCGTGG
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
125 75 0.71
126 30 0.28
127 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (125 bp):
AGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAAGTGGT
CATGTAGGAAATAATTTTTTTTTGACGTTTCTGAGCAAACAGTATAAAATCGCTGATACC
Found at i:6772922 original size:23 final size:23
Alignment explanation
Indices: 6772891--6773060 Score: 124
Period size: 23 Copynumber: 6.4 Consensus size: 23
6772881 ATTAGGTTAG
*
6772891 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
6772914 GGTTAGGGTTTTTAATTAAGTTAGGTTA
1 GGTTAGGGTTTTTAATTAA---A--TTA
6772942 GGGTTAGGGTTTTTAATTTAATTAAATTA
1 -GGTTAGGGTTTTT-A----ATTAAATTA
6772971 GGTTAGGGTTTTTAATTAAGTTAGGTTA
1 GGTTAGGGTTTTTAATTAA---A--TTA
6772999 GGGTTAGGGTTTTTAATTTAATTAAATTA
1 -GGTTAGGGTTTTT-A----ATTAAATTA
*
6773028 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
6773051 GGTTAGGGTT
1 GGTTAGGGTT
6773061 AGGGTTTTTA
Statistics
Matches: 123, Mismatches: 2, Indels: 44
0.73 0.01 0.26
Matches are distributed among these distances:
23 41 0.33
26 2 0.02
27 2 0.02
28 32 0.26
29 32 0.26
30 2 0.02
31 2 0.02
34 10 0.08
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:6772970 original size:57 final size:57
Alignment explanation
Indices: 6772901--6773173 Score: 405
Period size: 57 Copynumber: 4.7 Consensus size: 57
6772891 GGTTTGGGTT
6772901 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAA
6772958 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAA
6773015 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTA
1 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTT-A--A
* *
6773075 TTTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA-TTA-ATTA-GGTTAGGGTTTGGGTT--
1 TTT-AATTAAATTAGGTTAGGGTTTTTAA-TTAAGTTAGGTTAGGGTTAGGGTTT---TTAA
6773132 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAG-TAGGGTTAG
1 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA-GGTTAG
6773174 AGATTTTAAT
Statistics
Matches: 200, Mismatches: 4, Indels: 23
0.88 0.02 0.10
Matches are distributed among these distances:
55 6 0.03
56 24 0.12
57 118 0.59
58 1 0.00
59 11 0.05
60 7 0.04
61 27 0.14
62 6 0.03
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (57 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAA
Found at i:6773155 original size:29 final size:29
Alignment explanation
Indices: 6772873--6773154 Score: 314
Period size: 29 Copynumber: 9.8 Consensus size: 29
6772863 GAGTTTCCAA
*
6772873 TTTAATT-AATTAGGTTAGGGTTTGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
6772901 TTTAATT-AA--A--TTA-GGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
*
6772924 TTTAATTAAGTTAGGTTAGGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
* **
6772953 TTTAATTTAATTAAATTA-GGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
*
6772981 TTTAATTAAGTTAGGTTAGGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
* **
6773010 TTTAATTTAATTAAATTA-GGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
*
6773038 TTTAATTAAGTTAGGTTAGGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTTAGGGTT
*
6773067 TTTAATTATTTAAATTAAGTTA-GGTTAGGGTT
1 TTT-A--A-TTAAATTAGGTTAGGGTTAGGGTT
*
6773099 TTTAATTTAATTAATTAGGTTAGGGTTTGGGTT
1 TTTAA-TT-A--AATTAGGTTAGGGTTAGGGTT
6773132 TTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT
6773155 TTTAATTAAG
Statistics
Matches: 216, Mismatches: 22, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
23 16 0.07
24 4 0.02
26 2 0.01
28 60 0.28
29 80 0.37
30 2 0.01
31 2 0.01
32 25 0.12
33 25 0.12
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.48
Consensus pattern (29 bp):
TTTAATTAAATTAGGTTAGGGTTAGGGTT
Found at i:6773171 original size:23 final size:23
Alignment explanation
Indices: 6773109--6773183 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
6773099 TTTAATTTAA
* *
6773109 TTAATTAGGTTAGGGTTTGGGTTT
1 TTAATTAAG-TAGGGTTAGGGTTT
*
6773133 TTAATTAAATTA-GGTTAGGGTTT
1 TTAATT-AAGTAGGGTTAGGGTTT
* *
6773156 TTAATTAAGTAGGGTTAGAGATT
1 TTAATTAAGTAGGGTTAGGGTTT
6773179 TTAAT
1 TTAAT
6773184 CAAATAATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.09
23 30 0.70
24 8 0.19
25 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (23 bp):
TTAATTAAGTAGGGTTAGGGTTT
Done.