Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 17 of 204
Found at i:6428479 original size:41 final size:41
Alignment explanation
Indices: 6428417--6428692 Score: 365
Period size: 41 Copynumber: 6.7 Consensus size: 41
6428407 AAATGTTTTT
** *
6428417 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCATTA
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* * *
6428458 GCGGTGCTTTACTAAAAACGCCGCTAAAGCCTAGAGCATTA
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* * *
6428499 GTGGCGCTTTCCCAAAAATGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
6428540 GCGGCACTTTACAAAAAACGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* * *
6428581 GCGGCGCTTTTA-CAAAAATGTCGCTAAATCCCAGAGCATTA
1 GCGGCGC-TTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* * *
6428622 GCGGCGCTTTTCGAAAAACGCTGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
6428663 GCGGCGCTTTTCCAAAAACACCGCTAAAGC
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGC
6428693 GCCGAATGGT
Statistics
Matches: 203, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 196 0.97
42 4 0.02
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTACCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:6428779 original size:40 final size:40
Alignment explanation
Indices: 6428729--6428817 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
6428719 TGGGCATAGG
* *
6428729 TTTTT-GCGGTGTTTTCTCAAAAAACGCCGCTAATTC-TCA
1 TTTTTAGCGGTGCTTTC-CAAAAAACGCCGCTAATGCTTCA
** * *
6428768 TTTTTAGCGGTGCTTTCCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGTGCTTTCCAAAAAACGCCGCTAATGCTTCA
6428808 TTTTTAGCGG
1 TTTTTAGCGG
6428818 CGTATTTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 20 0.48
40 22 0.52
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGTGCTTTCCAAAAAACGCCGCTAATGCTTCA
Found at i:6428906 original size:2 final size:2
Alignment explanation
Indices: 6428899--6428933 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6428889 ATGTTCAAAG
6428899 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6428934 GTGATTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6431380 original size:11 final size:11
Alignment explanation
Indices: 6431364--6431388 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6431354 AATTCCCAGA
6431364 TTTCTTTTCTT
1 TTTCTTTTCTT
6431375 TTTCTTTTCTT
1 TTTCTTTTCTT
6431386 TTT
1 TTT
6431389 TTTGTATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:6438735 original size:90 final size:90
Alignment explanation
Indices: 6438630--6438803 Score: 294
Period size: 90 Copynumber: 1.9 Consensus size: 90
6438620 CTCACCCCTA
* *
6438630 GTTTAGGATTTAAGGTATCATTTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTGTATTTTT
1 GTTTAGGATTTAAGGTATCATTTTTATATTTTCATGTATTAATTTCTTAGAATGTTTGTATTTTT
6438695 TTATATCTGTAAATTTAATATAGTT
66 TTATATCTGTAAATTTAATATAGTT
* * *
6438720 GTTTGGGATTTAAGGTTTCATTTTTATATTTTCATGTATTAATTTCTTAGCATGTTTGTATTTTT
1 GTTTAGGATTTAAGGTATCATTTTTATATTTTCATGTATTAATTTCTTAGAATGTTTGTATTTTT
*
6438785 TTGTATCTGTAAATTTAAT
66 TTATATCTGTAAATTTAAT
6438804 TTAATTCGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (90 bp):
GTTTAGGATTTAAGGTATCATTTTTATATTTTCATGTATTAATTTCTTAGAATGTTTGTATTTTT
TTATATCTGTAAATTTAATATAGTT
Found at i:6438866 original size:90 final size:88
Alignment explanation
Indices: 6438657--6438896 Score: 207
Period size: 90 Copynumber: 2.7 Consensus size: 88
6438647 TCATTTTTAT
* * * *
6438657 ATTTTCGTGTATTAATTTTTTAGAATGTTTGTATTTTTTTATATCTGTAAATTTAATATAGTTGT
1 ATTTTCGTGTATTAATTTTTT--CATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAATTGT
* * * * *
6438722 TTGGGATTTAAGGTTTCATTTTTAT
64 TTGAGATGTAAGGTTTCAATTTAAA
* *
6438747 ATTTTCATGTATTAATTTCTTAGCATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAATTCG
1 ATTTTCGTGTATTAATTT-TT-TCATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAATT-G
* *
6438812 TATT-ATATGT-A-GTTTGAATTTAAA
63 T-TTGAGATGTAAGGTTTCAATTTAAA
* * ** * *
6438836 ATTTTCGTGTATTAATTTTTCTCATTTGTTTGTAGTTTGTTGGGTGTTTAAATTTAATTTA
1 ATTTTCGTGTATTAATTTTT-TCA--TGTTTGTATTTTTTTGTATCTGTAAATTTAATTTA
6438897 GTGTGTATTG
Statistics
Matches: 122, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
88 4 0.03
89 26 0.21
90 83 0.68
91 7 0.06
92 2 0.02
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (88 bp):
ATTTTCGTGTATTAATTTTTTCATGTTTGTATTTTTTTGTATCTGTAAATTTAATTTAATTGTTT
GAGATGTAAGGTTTCAATTTAAA
Found at i:6441634 original size:5 final size:5
Alignment explanation
Indices: 6441605--6441668 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
6441595 TCATTTAAAC
* * *
6441605 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTTA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA
6441652 TTTCA TTTCA TTTCA TT
1 TTTCA TTTCA TTTCA TT
6441669 ATTTTTTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
3 3 0.06
5 33 0.69
6 7 0.15
7 5 0.10
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.55
Consensus pattern (5 bp):
TTTCA
Found at i:6441696 original size:23 final size:23
Alignment explanation
Indices: 6441652--6441696 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6441642 TCATTTAACA
*
6441652 TTTCATTTCATTTCATTATTTTT
1 TTTCATTTAATTTCATTATTTTT
6441675 TTTCATTTAAATTT-ATT-TTTTT
1 TTTCATTT-AATTTCATTATTTTT
6441697 CCTAATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCATTTAATTTCATTATTTTT
Found at i:6442142 original size:21 final size:21
Alignment explanation
Indices: 6442117--6442156 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6442107 TTACGTTTGT
*
6442117 TTTGAATTTCTATTTCATTTA
1 TTTGAATTTCCATTTCATTTA
6442138 TTTGAATTTCCATTTCATT
1 TTTGAATTTCCATTTCATT
6442157 CCATTCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTGAATTTCCATTTCATTTA
Found at i:6442208 original size:21 final size:21
Alignment explanation
Indices: 6442183--6442516 Score: 116
Period size: 21 Copynumber: 14.4 Consensus size: 21
6442173 TTTATTTCTA
*
6442183 TTTCATTTAAATTATATATTT
1 TTTCATTTAAATTATATTTTT
*
6442204 TTTCATTTAAATTTAATTTTTTCT
1 TTTCATTTAAA-TT-ATATTTT-T
*
6442228 CATTTCATTTAAATTATCTTTTT
1 --TTTCATTTAAATTATATTTTT
* *
6442251 TTACATTTAAAATTAATTTTTTTCT
1 TTTCATTT-AAATT-A-TATTTT-T
* *
6442276 CATTTCATTTAAATTATCTTTGT
1 --TTTCATTTAAATTATATTTTT
* *
6442299 TTACATTTTAATTTAATATTTTTCT
1 TTTCA-TTTAAATT-ATA-TTTT-T
* * *
6442324 CATTTCATTTAAATTATCTATCT
1 --TTTCATTTAAATTATATTTTT
** **
6442347 TCCCATTTTCATT-TATTTATT
1 TTTCATTTAAATTATATTT-TT
* *
6442368 TCTCTCATTTCATTTATATTATTT
1 T-T-TCATTTAAATTATATT-TTT
* *
6442392 TTTCCATGTAAATTTAATTTTTTCT
1 TTT-CATTTAAA-TT-ATATTTT-T
*
6442417 TACTTCATTTAAATTATCTTTTT
1 T--TTCATTTAAATTATATTTTT
6442440 TTTCATTTAAATT-TAATTTCTTCCT
1 TTTCATTTAAATTAT-A-TT-TT--T
*
6442465 CATTTCATTTAAATTATATTTCT
1 --TTTCATTTAAATTATATTTTT
*
6442488 TTCCATTTAAATT-TAATTTTT
1 TTTCATTTAAATTAT-ATTTTT
*
6442509 TCTCATTT
1 TTTCATTT
6442517 CATTTAAATT
Statistics
Matches: 235, Mismatches: 41, Indels: 74
0.67 0.12 0.21
Matches are distributed among these distances:
20 5 0.02
21 68 0.29
22 17 0.07
23 29 0.12
24 38 0.16
25 18 0.08
26 32 0.14
27 27 0.11
28 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTCATTTAAATTATATTTTT
Found at i:6442283 original size:48 final size:48
Alignment explanation
Indices: 6442172--6442526 Score: 422
Period size: 48 Copynumber: 7.5 Consensus size: 48
6442162 CCATTTCCAT
*
6442172 TTTTATTTCT-ATTTCATTTAAATTATATATTTTTT-CATTTAAATTTAA
1 TTTT-TTTCTCATTTCATTTAAATTATCT-TTTTTTCCATTTAAATTTAA
* *
6442220 -TTTTTTCTCATTTCATTTAAATTATCTTTTTTTACATTTAAAATTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
* * *
6442267 TTTTTTTCTCATTTCATTTAAATTATCTTTGTTTACATTTTAATTTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
* * * * **
6442315 TATTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTT-A
1 TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
* *
6442362 TTTATTTCTCTCATTTCATTTATATTA---TTTTTTCCATGTAAATTTAA
1 TTT-TTT-TCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
* * *
6442409 -TTTTTTCTTACTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
* * * *
6442456 TTTCTTCCTCATTTCATTTAAATTATATTTCTTTCCATTTAAATTTAA
1 TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
6442504 -TTTTTTCTCATTTCATTTAAATT
1 TTTTTTTCTCATTTCATTTAAATT
6442527 TAATTTTTTT
Statistics
Matches: 264, Mismatches: 33, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
44 16 0.06
45 3 0.01
46 25 0.09
47 75 0.28
48 127 0.48
49 18 0.07
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (48 bp):
TTTTTTTCTCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAA
Found at i:6442406 original size:189 final size:186
Alignment explanation
Indices: 6442185--6442526 Score: 540
Period size: 189 Copynumber: 1.8 Consensus size: 186
6442175 TATTTCTATT
* *
6442185 TCATTTAAATTATATATTTTTTCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATCTTTT
1 TCATTTAAATTATATATTTTTTCATGTAAATTTAATTTTTTCTCACTTCATTTAAATTATCTTTT
* * * * *
6442250 TTTACATTTAAAATTAATTTTTTTCTCATTTCATTTAAATTATCTTTGTTTACATTTTAATTTAA
66 TTTACATTTAAAATTAATTTCTTCCTCATTTCATTTAAATTATATTTCTTTACATTTAAATTTAA
6442315 TATTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTATTTATTTCTC
131 T-TTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTATTTATTTCTC
* * *
6442372 TCATTTCATTTATATTATTTTTTCCATGTAAATTTAATTTTTTCTTACTTCATTTAAATTATCTT
1 TCATTTAAATTATA-TATTTTTT-CATGTAAATTTAATTTTTTCTCACTTCATTTAAATTATCTT
* * *
6442437 TTTTTTCATTTAAATTTAATTTCTTCCTCATTTCATTTAAATTATATTTCTTTCCATTTAAATTT
64 TTTTTACATTTAAAATTAATTTCTTCCTCATTTCATTTAAATTATATTTCTTTACATTTAAATTT
6442502 AATTTTTTCTCATTTCATTTAAATT
129 AATTTTTTCTCATTTCATTTAAATT
6442527 TAATTTTTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
187 12 0.09
188 30 0.21
189 98 0.70
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.60
Consensus pattern (186 bp):
TCATTTAAATTATATATTTTTTCATGTAAATTTAATTTTTTCTCACTTCATTTAAATTATCTTTT
TTTACATTTAAAATTAATTTCTTCCTCATTTCATTTAAATTATATTTCTTTACATTTAAATTTAA
TTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTCATTTATTTATTTCTC
Found at i:6442564 original size:27 final size:25
Alignment explanation
Indices: 6442203--6442564 Score: 141
Period size: 27 Copynumber: 14.9 Consensus size: 25
6442193 ATTATATATT
*
6442203 TTTTCATTTAAATTTAATTTTTTCTC
1 TTTTCATTTAAA-TTATTTTTTTCTC
* *
6442229 ATTTCATTTAAATTA--TCTTT-T-
1 TTTTCATTTAAATTATTTTTTTCTC
*
6442250 TTTACATTTAAAATTAATTTTTTTCTC
1 TTTTCATTT-AAATT-ATTTTTTTCTC
* *
6442277 ATTTCATTTAAATTATCTTTGTTTAC-A
1 TTTTCATTTAAATTAT-TTT-TTT-CTC
*
6442304 TTTTAATTT-AA-TA--TTTTTCTC
1 TTTTCATTTAAATTATTTTTTTCTC
* * * *
6442325 ATTTCATTTAAATTATCTATCTTCCC
1 TTTTCATTTAAATTAT-TTTTTTCTC
* *
6442351 ATTTTCATTT--ATT-TATTTCTCTC
1 -TTTTCATTTAAATTATTTTTTTCTC
* *
6442374 ATTTCATTTATATTA--TTTTT-TC
1 TTTTCATTTAAATTATTTTTTTCTC
* *
6442396 ----CATGTAAATTTAATTTTTTCT-
1 TTTTCATTTAAA-TTATTTTTTTCTC
* *
6442417 TACTTCATTTAAATTA--TCTTT-T-
1 T-TTTCATTTAAATTATTTTTTTCTC
* *
6442439 TTTTCATTTAAATTTAATTTCTTCCTC
1 TTTTCATTTAAA-TT-ATTTTTTTCTC
* *
6442466 ATTTCATTTAAATTA---TATT-TC
1 TTTTCATTTAAATTATTTTTTTCTC
* *
6442487 TTTCCATTTAAATTTAATTTTTTCTC
1 TTTTCATTTAAA-TTATTTTTTTCTC
*
6442513 ATTTCATTTAAATTTAATTTTTTTCTC
1 TTTTCATTTAAA-TT-ATTTTTTTCTC
6442540 TTTTCATTTAAATTATCTTTCTTTC
1 TTTTCATTTAAATTAT-TTT-TTTC
6442565 CATTTTAATT
Statistics
Matches: 253, Mismatches: 41, Indels: 83
0.67 0.11 0.22
Matches are distributed among these distances:
18 6 0.02
19 3 0.01
20 1 0.00
21 44 0.17
22 29 0.11
23 20 0.08
24 4 0.02
25 27 0.11
26 57 0.23
27 61 0.24
28 1 0.00
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (25 bp):
TTTTCATTTAAATTATTTTTTTCTC
Found at i:6442585 original size:74 final size:74
Alignment explanation
Indices: 6442182--6442575 Score: 271
Period size: 74 Copynumber: 5.5 Consensus size: 74
6442172 TTTTATTTCT
*
6442182 ATTTCATTTAAATTATATATT-TTTTCATTTAAATTTAATTTTTTCTCATTTCATTTAAA-TT-A
1 ATTTCATTTAAATTATAT-TTCTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTTAA
6442244 TCTT-TT--T-
65 T-TTCTTCCTC
* * * * * *
6442251 -TTACATTTAAAATTA-ATTTTTTTCTCATTT-CATTTAAATTATCTTTGT--TTACATTTTAAT
1 ATTTCATTT-AAATTATATTTCTTTC-CATTTAAATTT-AATT-T-TTTCTCATTTCATTTAAAT
*
6442311 TTAATATT-TTTCTC
61 TTAAT-TTCTTCCTC
* * * ** * *
6442325 ATTTCATTTAAATTATCTATCTTCCCATTTTCATTTATTTATTTCTCTCATTTCATTTATA-TT-
1 ATTTCATTTAAATTATATTTCTTTCCATTTAAATTTAATT-TTT-TCTCATTTCATTTAAATTTA
*
6442388 ATTT-TTTC-C
64 ATTTCTTCCTC
** * *
6442397 ATGTAAATTT-AATT-T-TTTCTTACTTCATTTAAA-TT-ATCTTTT-T--TTTCATTTAAATTT
1 AT-TTCATTTAAATTATATTTCTT--TCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTT
6442454 AATTTCTTCCTC
63 AATTTCTTCCTC
6442466 ATTTCATTTAAATTATATTTCTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTTAAT
1 ATTTCATTTAAATTATATTTCTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTTAAT
* *
6442531 TTTTTTCTC
66 TTCTTCCTC
* * *
6442540 TTTTCATTTAAATTATCTTTCTTTCCATTTTAATTT
1 ATTTCATTTAAATTATATTTCTTTCCATTTAAATTT
6442576 CCATTTTTCT
Statistics
Matches: 256, Mismatches: 37, Indels: 59
0.73 0.11 0.17
Matches are distributed among these distances:
65 10 0.04
66 2 0.01
67 7 0.03
68 25 0.10
69 43 0.17
70 12 0.05
71 25 0.10
72 14 0.05
73 14 0.05
74 77 0.30
75 19 0.07
76 8 0.03
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.61
Consensus pattern (74 bp):
ATTTCATTTAAATTATATTTCTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTTAAT
TTCTTCCTC
Found at i:6443654 original size:32 final size:32
Alignment explanation
Indices: 6443613--6443675 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
6443603 CTCCATCGAA
6443613 ATGAACATAAACAAACAAAATTTAGGAACTCC
1 ATGAACATAAACAAACAAAATTTAGGAACTCC
6443645 ATGAACATAAACAAACAAAATTTAGGAACTC
1 ATGAACATAAACAAACAAAATTTAGGAACTC
6443676 ATTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (32 bp):
ATGAACATAAACAAACAAAATTTAGGAACTCC
Found at i:6445502 original size:34 final size:33
Alignment explanation
Indices: 6445458--6445549 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 33
6445448 CTCTTTTTTA
6445458 AAAATTAATTAAATTAGGGTTTAGGGGTTCTAA-
1 AAAATTAATTAAATT-GGGTTTAGGGGTTCTAAG
* * *
6445491 ATAAATTAATTAAAATTGGGTTTAGTGTTTTTAAG
1 A-AAATTAATT-AAATTGGGTTTAGGGGTTCTAAG
6445526 AAAATTAATTAAATTTGGGTTTAG
1 AAAATTAATTAAA-TTGGGTTTAG
6445550 CTTTTTCTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.08
34 42 0.81
35 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.41
Consensus pattern (33 bp):
AAAATTAATTAAATTGGGTTTAGGGGTTCTAAG
Found at i:6445911 original size:126 final size:126
Alignment explanation
Indices: 6445624--6446142 Score: 708
Period size: 125 Copynumber: 4.1 Consensus size: 126
6445614 TTTTGGTTTT
* * *
6445624 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTTTGAACAAATAGTGTCAAAA
* * * * * **
6445689 ATGCTTCAAGCAGGATGCACTATC-ACCAAATTACTGAAAGAAGCTCCCA-GACAGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACG-TGGACGCTC
* *
6445749 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTTTGAACAAATAGTGTCAAAA
* *
6445814 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAGCTCTGACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAGCTCTCACGTGGACGCTC
* *
6445875 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGTTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTTTGAACAAATAGTGTCAAAA
** ** * *
6445940 ATACTTCAAATAGGATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCA-GTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAACAAAAT-TACTGAAAAAAGCTCTCACGTGGACGCTC
* * *
6446000 TTTTTCTACAATAGTTCCTGAAAAAATGATTTTGAGAATAC-GTTTCTGAATAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTT-TGAACAAATAGTGTCAAA
** *
6446064 AACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
6446126 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
6446143 ATGTTTGGCA
Statistics
Matches: 346, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
124 4 0.01
125 187 0.54
126 153 0.44
127 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTTTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
Found at i:6446067 original size:251 final size:251
Alignment explanation
Indices: 6445624--6446142 Score: 776
Period size: 251 Copynumber: 2.1 Consensus size: 251
6445614 TTTTGGTTTT
* *
6445624 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAATGTAAAAA
* * * * *
6445689 ATGCTTCAAGCAGGATGCACTATCACCAAATTACTGAAAGAAGCTCCCAGACAGACGCTCTTTTT
66 ATACTTCAAACAGGATGCACTATCACAAAATGACTGAAAAAAGCTCCCAGACAGACGCTCTTTTT
* *
6445754 CTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTCAAAAACGCT
131 CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTCAAAAACGCT
*
6445819 TCAAGCAGGATGCACTGTCAACAAAATTGA-TGAAAAAAGCTCTGACGTGGATGCTC
196 TCAAGCAGGATGCACTGTCAACAAAATT-ACTGAAAAAAGCTCTCACGTGGATGCTC
* * *
6445875 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGTTTTTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAATGTAAAAA
* * **
6445940 ATACTTCAAATAGGATGCACTGTCAACAAAATCGA-TGAAAAAAGCTCCCAG-TGGACGCTCTTT
66 ATACTTCAAACAGGATGCACTATC-ACAAAAT-GACTGAAAAAAGCTCCCAGACAGACGCTCTTT
* * *
6446003 TTCTACAATAGTTCCTGAAAAAATGATTTTGAGAATAC-GTTTCTGAATAAATAGTGTCAAAAAC
129 TTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTT-TGAACAAATAGTGTCAAAAAC
**
6446067 GCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
193 GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
6446126 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
6446143 ATGTTTGGCA
Statistics
Matches: 242, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
250 5 0.02
251 215 0.89
252 21 0.09
253 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (251 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAATGTAAAAA
ATACTTCAAACAGGATGCACTATCACAAAATGACTGAAAAAAGCTCCCAGACAGACGCTCTTTTT
CTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAACAAATAGTGTCAAAAACGCT
TCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGATGCTC
Found at i:6448232 original size:21 final size:21
Alignment explanation
Indices: 6448208--6448323 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
6448198 ACTCATATGA
6448208 GTTTCAGTTTAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
* * **
6448229 GTTTCAGTTCAACTCTTTTAA
1 GTTTCAGTTTAACCCTTTTGG
**
6448250 GTTTCAGTTTAACCCTAGTGG
1 GTTTCAGTTTAACCCTTTTGG
* * * * *
6448271 GTTTTAGTTTAGCTCTTCTGA
1 GTTTCAGTTTAACCCTTTTGG
* **
6448292 GCTTCAGTTTAACCCTAATGG
1 GTTTCAGTTTAACCCTTTTGG
6448313 GTTTCAGTTTA
1 GTTTCAGTTTA
6448324 GCTATTCTGA
Statistics
Matches: 71, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:6448241 original size:42 final size:42
Alignment explanation
Indices: 6448190--6448401 Score: 162
Period size: 42 Copynumber: 5.1 Consensus size: 42
6448180 TCTCATGAGC
*
6448190 TTCA-TTCAACTCATATGAGTTTCAGTTTAACCCTTTTGGGT
1 TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTATGGGT
* * *
6448231 TTCAGTTCAACTCTTTTAAGTTTCAGTTTAACCC-TAGTGGGT
1 TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTA-TGGGT
* * * * * * *
6448273 TTTAGTTTAGCTCTTCTGAGCTTCAGTTTAACCCTAATGGGT
1 TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTATGGGT
* * * * * * * *
6448315 TTCAGTTTAGCT-ATTCTGAGCTTCAGATTATCTCTTATGGAT
1 TTCAGTTCAACTCA-TATGAGTTTCAGTTTAACCCTTATGGGT
* * * *
6448357 TTCCGTTCAACTCCTATGAGCTTCCA-TTTAACCCTTACGGGT
1 TTCAGTTCAACTCATATGAG-TTTCAGTTTAACCCTTATGGGT
6448399 TTC
1 TTC
6448402 CGTTTAACAC
Statistics
Matches: 135, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
41 5 0.04
42 126 0.93
43 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTATGGGT
Found at i:6448339 original size:21 final size:21
Alignment explanation
Indices: 6448276--6448350 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
6448266 AGTGGGTTTT
6448276 AGTTTAGCTCTTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
* * ** * *
6448297 AGTTTAACCCTAATGGGTTTC
1 AGTTTAGCTCTTCTGAGCTTC
*
6448318 AGTTTAGCTATTCTGAGCTTC
1 AGTTTAGCTCTTCTGAGCTTC
* *
6448339 AGATTATCTCTT
1 AGTTTAGCTCTT
6448351 ATGGATTTCC
Statistics
Matches: 38, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (21 bp):
AGTTTAGCTCTTCTGAGCTTC
Found at i:6452106 original size:24 final size:25
Alignment explanation
Indices: 6452066--6452113 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
6452056 ACTTCTATTT
*
6452066 TATTAAAAATATAAAAATAATTTAC
1 TATTAAAAATATAAAAAAAATTTAC
*
6452091 TATT-AAAATATTAAAAAAATTTA
1 TATTAAAAATATAAAAAAAATTTA
6452114 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TATTAAAAATATAAAAAAAATTTAC
Found at i:6452124 original size:25 final size:27
Alignment explanation
Indices: 6452061--6452124 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
6452051 AAAGGACTTC
*
6452061 TATTTTATTAAAAATATAAAAATAATT
1 TATTTTATTAAATATATAAAAATAATT
*
6452088 TA--CTATTAAA-ATATTAAAAA-AATT
1 TATTTTATTAAATATA-TAAAAATAATT
6452112 TATTTTATTAAAT
1 TATTTTATTAAAT
6452125 GAAACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 9 0.29
25 13 0.42
26 7 0.23
27 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TATTTTATTAAATATATAAAAATAATT
Found at i:6453606 original size:17 final size:17
Alignment explanation
Indices: 6453581--6453633 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
6453571 TTGTTGAAGA
*
6453581 ATCTATTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
*
6453598 ATCTGTTT-G--TTT-A
1 ATCTGTTTGGATTTTGC
6453611 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGATTTTGC
6453628 ATCTGT
1 ATCTGT
6453634 CTGTTGAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 8 0.28
14 4 0.14
16 4 0.14
17 13 0.45
ACGTcount: A:0.15, C:0.11, G:0.19, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGATTTTGC
Found at i:6453620 original size:30 final size:30
Alignment explanation
Indices: 6453580--6453638 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
6453570 TTTGTTGAAG
*
6453580 AATCTATTTGGATTTTGCATCTGTTTGTTT
1 AATCTATTTGGATTTTGCATCTGTCTGTTT
*
6453610 AATCTGTTTGGATTTTGCATCTGTCTGTT
1 AATCTATTTGGATTTTGCATCTGTCTGTT
6453639 GAAGAATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.12, G:0.19, T:0.54
Consensus pattern (30 bp):
AATCTATTTGGATTTTGCATCTGTCTGTTT
Found at i:6455263 original size:20 final size:20
Alignment explanation
Indices: 6455238--6455275 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6455228 ACAATTTAAA
*
6455238 ATATAAGTATATTAATATGT
1 ATATAAATATATTAATATGT
*
6455258 ATATAAATTTATTAATAT
1 ATATAAATATATTAATAT
6455276 ATGTAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAAATATATTAATATGT
Found at i:6455285 original size:20 final size:20
Alignment explanation
Indices: 6455247--6455285 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6455237 AATATAAGTA
* *
6455247 TATTAATATGTATATAAATT
1 TATTAATATATATAAAAATT
*
6455267 TATTAATATATGTAAAAAT
1 TATTAATATATATAAAAAT
6455286 AACTTTTTCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TATTAATATATATAAAAATT
Found at i:6455397 original size:19 final size:21
Alignment explanation
Indices: 6455362--6455403 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
6455352 CAAACACCAG
6455362 AAAGTAAATCATTTTTC-AGA
1 AAAGTAAATCATTTTTCTAGA
6455382 AAAGTAAATCA-TTTTCTAGA
1 AAAGTAAATCATTTTTCTAGA
6455402 AA
1 AA
6455404 TCATTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAGTAAATCATTTTTCTAGA
Found at i:6455406 original size:14 final size:14
Alignment explanation
Indices: 6455387--6455438 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
6455377 TCAGAAAAGT
6455387 AAATCATTTTCTAG
1 AAATCATTTTCTAG
6455401 AAATCATTTTCTAG
1 AAATCATTTTCTAG
* *
6455415 AAATTATTTTCCAG
1 AAATCATTTTCTAG
*
6455429 AAAACATTTT
1 AAATCATTTT
6455439 ACTGGCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:6455483 original size:7 final size:7
Alignment explanation
Indices: 6455473--6455504 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
6455463 TTATATACAT
6455473 AATACTA
1 AATACTA
6455480 AATACTA
1 AATACTA
6455487 AATACTA
1 AATACTA
6455494 AATACTA
1 AATACTA
6455501 AATA
1 AATA
6455505 TTTTATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6456676 original size:30 final size:30
Alignment explanation
Indices: 6456642--6456706 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
6456632 ATTAATTAAA
6456642 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
*
6456672 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
6456702 GAGAG
1 GAGAG
6456707 TTTTTTGCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:6475770 original size:36 final size:36
Alignment explanation
Indices: 6475730--6475799 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
6475720 AGGGATCTTA
*
6475730 ATGTCGCAACACTCTCAACAATGATACCATCTTGAC
1 ATGTCACAACACTCTCAACAATGATACCATCTTGAC
***
6475766 ATGTCATGGCACTCTCAACAATGATACCATCTTG
1 ATGTCACAACACTCTCAACAATGATACCATCTTG
6475800 GCTTTGGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (36 bp):
ATGTCACAACACTCTCAACAATGATACCATCTTGAC
Found at i:6478330 original size:37 final size:37
Alignment explanation
Indices: 6478289--6478362 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
6478279 ACTTTTTACT
6478289 TTAACTTATGATTATATAAAGGATATGGTTTAACATA
1 TTAACTTATGATTATATAAAGGATATGGTTTAACATA
6478326 TTAACTTATGATTATATAAAGGATATGGTTTAACATA
1 TTAACTTATGATTATATAAAGGATATGGTTTAACATA
6478363 AGTTTTTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (37 bp):
TTAACTTATGATTATATAAAGGATATGGTTTAACATA
Found at i:6479283 original size:27 final size:27
Alignment explanation
Indices: 6479244--6479296 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
6479234 AATAAACACC
*
6479244 AAAAATTTATTTAAAAAATAAAAAATAA
1 AAAAATATATTT-AAAAATAAAAAATAA
*
6479272 AAAAATAT-TTTAAAATTAAAAAATA
1 AAAAATATATTTAAAAATAAAAAATA
6479297 TTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 3 0.13
28 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAATATATTTAAAAATAAAAAATAA
Found at i:6479292 original size:18 final size:18
Alignment explanation
Indices: 6479265--6479299 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6479255 TAAAAAATAA
6479265 AAAATAAAAAAATATTTT
1 AAAATAAAAAAATATTTT
*
6479283 AAAATTAAAAAATATTT
1 AAAATAAAAAAATATTT
6479300 ATTTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATAAAAAAATATTTT
Found at i:6489179 original size:12 final size:12
Alignment explanation
Indices: 6489164--6489197 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
6489154 AAGTCGAACC
6489164 ATAAATATTTTT
1 ATAAATATTTTT
6489176 ATAAATATTTTT
1 ATAAATATTTTT
6489188 ATAAATATTT
1 ATAAATATTT
6489198 ATGGAGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:6490089 original size:46 final size:46
Alignment explanation
Indices: 6489869--6490087 Score: 348
Period size: 46 Copynumber: 4.8 Consensus size: 46
6489859 TGGAACGTAT
*
6489869 GTATGGTATTTCAGTAAAGAAAACCATATTGAGTTGTGAAAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
*
6489915 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* *
6489961 GTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* * *
6490007 GTATGGTATTTTAGTAATGAAAACCATACTGAGTTATGAAAAGTAG
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
* * *
6490053 GTATGGTATTTCAGTGAAGAAAATCATATTGAGTT
1 GTATGGTATTTCAGTAAAGAAAACCATACTGAGTT
6490088 ATAGCATTGT
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (46 bp):
GTATGGTATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAAGTAG
Found at i:6493577 original size:37 final size:37
Alignment explanation
Indices: 6493536--6493803 Score: 376
Period size: 37 Copynumber: 7.0 Consensus size: 37
6493526 GCTGAAGCTA
* *
6493536 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
6493573 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
6493610 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
6493647 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG
*
6493690 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTTTAG
1 ---CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
6493730 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
6493766 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
6493803 C
1 C
6493804 TAAAACAACC
Statistics
Matches: 210, Mismatches: 11, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
36 33 0.16
37 135 0.64
39 2 0.01
40 3 0.01
41 1 0.00
42 1 0.00
43 2 0.01
44 2 0.01
46 31 0.15
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:6493704 original size:157 final size:156
Alignment explanation
Indices: 6493490--6493803 Score: 538
Period size: 157 Copynumber: 2.0 Consensus size: 156
6493480 AGCTAGGCTA
*
6493490 CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCAC
1 CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
*
6493555 TTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTATCA
66 TTGATCAGATAAGTGTAG-CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCA
**
6493620 CTTTGTTTCTTGATCAGATAAGTGTAG
130 CTTTGTCACTTGATCAGATAAGTGTAG
* * * *
6493647 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
*
6493712 TTGATCAGATAAGTTTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCAC
66 TTGATCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCAC
6493777 TTTGTCACTTGATCAGATAAGTGTAG
131 TTTGTCACTTGATCAGATAAGTGTAG
6493803 C
1 C
6493804 TAAAACAACC
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
156 71 0.48
157 77 0.52
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (156 bp):
CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
TTGATCAGATAAGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCAC
TTTGTCACTTGATCAGATAAGTGTAG
Found at i:6493788 original size:119 final size:120
Alignment explanation
Indices: 6493573--6493839 Score: 446
Period size: 119 Copynumber: 2.2 Consensus size: 120
6493563 ATAAGTGTAG
**
6493573 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTCACTTGATCAGA
* * * *
6493638 TAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTA
66 TAAGTGTAACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACAA
* *
6493693 CCACTTATCACTTTGTCTCTTGATCAGATAAGT-TTAGCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTCACTTGATCAGA
6493757 TAAGTGTAACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACAA
66 TAAGTGTAACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACAA
*
6493812 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
6493840 AGTACTCAAA
Statistics
Matches: 138, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 105 0.76
120 33 0.24
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (120 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTCACTTGATCAGA
TAAGTGTAACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAACAA
Found at i:6493874 original size:156 final size:154
Alignment explanation
Indices: 6493490--6493803 Score: 436
Period size: 156 Copynumber: 2.0 Consensus size: 154
6493480 AGCTAGGCTA
* * *
6493490 CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTT--ATC
1 CCACTTATCACTTTGTCACTTGATCAGA-AAG-GTAGCT-AAACTACCACTTACCACTTTGAAT-
*
6493553 ACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAACCACTTAT
62 -CTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTAT
**
6493618 CACTTTGTTTCTTGATCAGATAAGTGTAG
126 CACTTTGTCACTTGATCAGATAAGTGTAG
* * **
6493647 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGA-AAG-GTAGCTAAA-CTACCACTTACCACTTTGAATC
*
6493712 TTGATCAGATAAGTTTAG-CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCA
63 TTGATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCA
6493776 CTTTGTCACTTGATCAGATAAGTGTAG
128 CTTTGTCACTTGATCAGATAAGTGTAG
6493803 C
1 C
6493804 TAAAACAACC
Statistics
Matches: 146, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
156 73 0.50
157 72 0.49
159 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (154 bp):
CCACTTATCACTTTGTCACTTGATCAGAAAGGTAGCTAAACTACCACTTACCACTTTGAATCTTG
ATCAGATAAGTGTAGCCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACCACTTATCACTT
TGTCACTTGATCAGATAAGTGTAG
Found at i:6502916 original size:20 final size:20
Alignment explanation
Indices: 6502888--6502936 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
6502878 ATATATCCTG
* *
6502888 ATTTTATTTTATTTCAATCA
1 ATTTGATTTGATTTCAATCA
*
6502908 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTTCAATCA
*
6502928 AATTGATTT
1 ATTTGATTT
6502937 AATTGCTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTGATTTGATTTCAATCA
Found at i:6503887 original size:8 final size:8
Alignment explanation
Indices: 6503868--6503921 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
6503858 GCCCATTTTT
6503868 ATTTTAAAA
1 ATTTT-AAA
6503877 ATTTTAAA
1 ATTTTAAA
6503885 ATTTTAAA
1 ATTTTAAA
* *
6503893 AATTAAAA
1 ATTTTAAA
6503901 TATTTTAAA
1 -ATTTTAAA
*
6503910 ATATTTTAA
1 AT-TTTAAA
6503919 ATT
1 ATT
6503922 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
8 20 0.53
9 18 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:6503906 original size:34 final size:35
Alignment explanation
Indices: 6503867--6503997 Score: 173
Period size: 34 Copynumber: 3.8 Consensus size: 35
6503857 GGCCCATTTT
6503867 TATTTTAAAA-ATTTTAAAATTTTAAAAATT-AAAA-
1 TATTTTAAAATATTTTAAAA--TTAAAAATTAAAAAG
6503901 TATTTTAAAATATTTT-AAATTAAAAATTAAAAAG
1 TATTTTAAAATATTTTAAAATTAAAAATTAAAAAG
6503935 TATTTTAAAATATTTT-AAATTAAAAATTTAAAAAG
1 TATTTTAAAATATTTTAAAATTAAAAA-TTAAAAAG
**
6503970 TATGTAAAAAATATTTTAAAATTAAAAA
1 TAT-TTTAAAATATTTTAAAATTAAAAA
6503998 AATATATTTA
Statistics
Matches: 89, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
32 9 0.10
33 4 0.04
34 39 0.44
35 16 0.18
36 11 0.12
37 10 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (35 bp):
TATTTTAAAATATTTTAAAATTAAAAATTAAAAAG
Found at i:6503910 original size:10 final size:10
Alignment explanation
Indices: 6503867--6503953 Score: 69
Period size: 10 Copynumber: 8.9 Consensus size: 10
6503857 GGCCCATTTT
6503867 TATTTTAAAA
1 TATTTTAAAA
6503877 -ATTTT-AAA
1 TATTTTAAAA
6503885 -ATTTTAAAA
1 TATTTTAAAA
6503894 -A--TTAAAA
1 TATTTTAAAA
6503901 TATTTTAAAA
1 TATTTTAAAA
6503911 TATTTTAAATTAA
1 TATTTT-AA--AA
* * *
6503924 AAATTAAAAA
1 TATTTTAAAA
6503934 GTATTTTAAAA
1 -TATTTTAAAA
6503945 TATTTTAAA
1 TATTTTAAA
6503954 TTAAAAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
7 6 0.10
8 9 0.14
9 9 0.14
10 23 0.37
11 9 0.14
12 2 0.03
13 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:6503911 original size:25 final size:24
Alignment explanation
Indices: 6503871--6503945 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 24
6503861 CATTTTTATT
6503871 TTAAAAATTTTAAAAT-TTTAAAAA
1 TTAAAAATTTTAAAATATTT-AAAA
*
6503895 TTAAAATATTTTAAAATATTTTAAA
1 TTAAAA-ATTTTAAAATATTTAAAA
*
6503920 TTAAAAA-TTAAAAAGTATTTTAAAA
1 TTAAAAATTTTAAAA-TA-TTTAAAA
6503945 T
1 T
6503946 ATTTTAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.14
24 9 0.20
25 26 0.59
26 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (24 bp):
TTAAAAATTTTAAAATATTTAAAA
Found at i:6504361 original size:28 final size:27
Alignment explanation
Indices: 6504330--6504402 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
6504320 AATTTTAGGA
6504330 ATTAAATGCATAGAAAAAACATTAAGAC
1 ATTAAATGCA-AGAAAAAACATTAAGAC
**
6504358 ATTAAATGCAAGGAAAAATTATTAAGAC
1 ATTAAATGCAA-GAAAAAACATTAAGAC
*
6504386 ATTAAATG-AAGAGAAAA
1 ATTAAATGCAAGAAAAAA
6504403 TGTTATTGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
27 3 0.08
28 32 0.80
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.22
Consensus pattern (27 bp):
ATTAAATGCAAGAAAAAACATTAAGAC
Found at i:6507189 original size:21 final size:21
Alignment explanation
Indices: 6507148--6507190 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6507138 AATAAAGTAG
*
6507148 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
6507169 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
6507190 A
1 A
6507191 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:6507264 original size:58 final size:58
Alignment explanation
Indices: 6507198--6507334 Score: 170
Period size: 58 Copynumber: 2.4 Consensus size: 58
6507188 GTAAATTCAT
*
6507198 ATAATAATTATATTAAGAATTTTATTAAATTATATACT-TTTCTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTATATACTATTTCTATTAAATTATATTTA
* * * * * * *
6507256 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTCTATTAAATTATATTTA
6507314 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
6507335 AATAACAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 16 0.24
58 50 0.75
59 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (58 bp):
ATAATAATTATATTAAAATTTGATTAAATTATATACTATTTCTATTAAATTATATTTA
Found at i:6507520 original size:16 final size:16
Alignment explanation
Indices: 6507499--6507537 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6507489 TTGATTACTG
*
6507499 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCA
*
6507515 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
6507531 ATTACAG
1 ATTACAG
6507538 TGAAGCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:6513454 original size:51 final size:51
Alignment explanation
Indices: 6513378--6513493 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 51
6513368 TACTTCTAAT
*
6513378 AAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGGC
1 AAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGAC
*
6513429 AAGTGGCAAGTGATAAGT-GATAGCTTCAGCTACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTAG-TAGCTTCAGCTACACTTATCTGATCAGTGAC
*
6513480 AAGTGATAAGTGAT
1 AAGTGACAAGTGAT
6513494 CATACGTAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
AAGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGAC
Found at i:6531021 original size:2 final size:2
Alignment explanation
Indices: 6531009--6531039 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6530999 GTGTTTTGCT
*
6531009 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6531040 GTGCACTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:6535209 original size:21 final size:21
Alignment explanation
Indices: 6535185--6535229 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6535175 AATTTTATGT
*
6535185 ATAAAATTATTATAAAGATAA
1 ATAAAATTATCATAAAGATAA
* *
6535206 ATAATATTATCATAAATATAA
1 ATAAAATTATCATAAAGATAA
6535227 ATA
1 ATA
6535230 TTTATCTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAAAATTATCATAAAGATAA
Found at i:6535287 original size:6 final size:6
Alignment explanation
Indices: 6535276--6535327 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
6535266 TTTTAAAAAA
*
6535276 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATA
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
6535324 ATTA
1 ATTA
6535328 AATTTAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATC
Found at i:6538604 original size:41 final size:41
Alignment explanation
Indices: 6538547--6538763 Score: 389
Period size: 41 Copynumber: 5.3 Consensus size: 41
6538537 GTTTGGAATT
6538547 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
6538588 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
6538629 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
6538670 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
6538711 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
6538752 GGTGATCTGAAT
1 GGTGATCTGAAT
6538764 ATGTTAAATT
Statistics
Matches: 168, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 168 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:6558591 original size:132 final size:132
Alignment explanation
Indices: 6558354--6559161 Score: 1346
Period size: 132 Copynumber: 6.1 Consensus size: 132
6558344 CCACTATAAA
6558354 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* *
6558419 GTTGTCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACGGGGAGGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
6558484 CG
131 CG
*
6558486 CCATCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * * *
6558551 GTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
*
6558616 TG
131 CG
* * * * *
6558618 CCATATTCAATCTGCTCCACTACTTCTTCGGGAGATAAGATCTGAAATCTTCAATTTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * * *
6558683 ATTGCCCATGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
6558748 CG
131 CG
* *
6558750 CCATCTTCAATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
*
6558815 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACGGGGAGGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
6558880 CG
131 CG
*
6558882 CCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* *
6558947 GTTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCTCTATAACCACAGGGAGGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
*
6559012 TG
131 CG
*
6559014 CCATCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
* * *
6559079 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATATACTCAACTATAACCACAGGGAAGTAAAATC
66 GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
*
6559144 TG
131 CG
*
6559146 TCATCTTCGATCTGCT
1 CCATCTTCGATCTGCT
6559162 TCGCTGTCAA
Statistics
Matches: 631, Mismatches: 45, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 631 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT
GTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
CG
Found at i:6563848 original size:28 final size:27
Alignment explanation
Indices: 6563786--6563841 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
6563776 TTAATTGAAA
* *
6563786 AAAAAATATAATATGTACATATATATAT
1 AAAAAA-ATAATATATACATATATAGAT
6563814 AAAAAAATAATTATATACATATATAGAT
1 AAAAAAATAA-TATATACATATATAGAT
6563842 TATAAAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAAAATAATATATACATATATAGAT
Found at i:6564036 original size:3 final size:3
Alignment explanation
Indices: 6564028--6564059 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6564018 TTGTATGTAC
6564028 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6564060 GATGATGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6564064 original size:3 final size:3
Alignment explanation
Indices: 6564058--6564082 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6564048 AATAATAATA
6564058 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
6564083 GGAAGATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:6564737 original size:20 final size:19
Alignment explanation
Indices: 6564712--6564776 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
6564702 CTTGTTTACA
6564712 TTGATTTTATTCTCAATCTT
1 TTGATTTTATTCTCAATC-T
* *
6564732 TTGATTTCT-TTC-CATTACA
1 TTGATTT-TATTCTCAAT-CT
*
6564751 TTGATTTGATTCTCAATCCT
1 TTGATTTTATTCTCAAT-CT
6564771 TTGATT
1 TTGATT
6564777 CCTTTCCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 13 0.37
20 21 0.60
21 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.55
Consensus pattern (19 bp):
TTGATTTTATTCTCAATCT
Found at i:6564763 original size:39 final size:39
Alignment explanation
Indices: 6564707--6564787 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
6564697 AAAATCTTGT
* * *
6564707 TTACATTGATTTTATTCTCAATCTTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
6564746 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
6564785 TTA
1 TTA
6564788 TTGTTTTGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCCTTTGATTCCTTTCCA
Found at i:6565147 original size:20 final size:20
Alignment explanation
Indices: 6565122--6565161 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6565112 CTTTGAATAC
6565122 TTATAAATAAATA-TAATTAA
1 TTATAAATAAA-AGTAATTAA
*
6565142 TTATAATTAAAAGTAATTAA
1 TTATAAATAAAAGTAATTAA
6565162 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TTATAAATAAAAGTAATTAA
Found at i:6568135 original size:2 final size:2
Alignment explanation
Indices: 6568130--6568154 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6568120 TAAAATTAAG
6568130 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
6568155 TTATTTATTG
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:6572820 original size:18 final size:19
Alignment explanation
Indices: 6572773--6572820 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
6572763 TAAAGTAAAT
*
6572773 ATAAAATTATATCCTTATA
1 ATAATATTATATCCTTATA
6572792 ATAATATTTATAT-CTT-TA
1 ATAATA-TTATATCCTTATA
6572810 ATATATATTAT
1 ATA-ATATTAT
6572821 TTTTGGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATATTATATCCTTATA
Found at i:6574836 original size:52 final size:52
Alignment explanation
Indices: 6574762--6574880 Score: 175
Period size: 52 Copynumber: 2.2 Consensus size: 52
6574752 CACTTGTAGC
* * * *
6574762 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTAT
*
6574815 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTAT
6574867 CACTTTGTCACTTG
1 CACTTT-TCACTTG
6574881 ATCAGAAGTA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 44 0.73
53 16 0.27
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTAT
Found at i:6583802 original size:22 final size:22
Alignment explanation
Indices: 6583777--6583818 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6583767 GCTTTCATGT
*
6583777 TGTTTCGTTGTTGTTTTGCTGC
1 TGTTTCGTTGTTATTTTGCTGC
*
6583799 TGTTTTGTTGTTATTTTGCT
1 TGTTTCGTTGTTATTTTGCT
6583819 ACCATATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.10, G:0.24, T:0.64
Consensus pattern (22 bp):
TGTTTCGTTGTTATTTTGCTGC
Found at i:6595258 original size:5 final size:5
Alignment explanation
Indices: 6595242--6595270 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
6595232 CTTTCGCATC
6595242 TCTTT T-TTT TCTTT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
6595271 CTAAATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TCTTT
Found at i:6612305 original size:3 final size:3
Alignment explanation
Indices: 6612299--6612348 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
6612289 ATAATAATAA
*
6612299 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG AAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
6612347 TA
1 TA
6612349 ACAGTGGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
TAG
Found at i:6619760 original size:26 final size:26
Alignment explanation
Indices: 6619719--6619771 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6619709 TAAATGAAAG
**
6619719 TGACACTTCGGAGCATTTTAGTGATT
1 TGACACTTCGGAGCATTACAGTGATT
6619745 TGACACTTC-GACGCATTACAGTGATT
1 TGACACTTCGGA-GCATTACAGTGATT
6619771 T
1 T
6619772 TGTACTTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (26 bp):
TGACACTTCGGAGCATTACAGTGATT
Found at i:6622444 original size:16 final size:16
Alignment explanation
Indices: 6622423--6622453 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6622413 GGTCCAACTA
*
6622423 TTGAATTTATTAGTTT
1 TTGAATTTATGAGTTT
6622439 TTGAATTTATGAGTT
1 TTGAATTTATGAGTT
6622454 ATTTTGTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (16 bp):
TTGAATTTATGAGTTT
Found at i:6623158 original size:24 final size:24
Alignment explanation
Indices: 6623131--6623205 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
6623121 ATGGCAAAGT
6623131 GTGAAAAGTAGGTATGGTGTTTCG
1 GTGAAAAGTAGGTATGGTGTTTCG
*** **
6623155 GTGAAGAA--AACCATACTGATTT--
1 GTGAA-AAGTAGGTATGGTG-TTTCG
6623177 GTGAAAAGTAGGTATGGTGTTTCG
1 GTGAAAAGTAGGTATGGTGTTTCG
6623201 GTGAA
1 GTGAA
6623206 GAAAACCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 2 0.06
22 8 0.23
23 10 0.29
24 13 0.37
25 2 0.06
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.31
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGTGTTTCG
Found at i:6623197 original size:46 final size:46
Alignment explanation
Indices: 6623130--6623323 Score: 352
Period size: 46 Copynumber: 4.2 Consensus size: 46
6623120 CATGGCAAAG
*
6623130 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGATT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
6623176 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
6623222 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
6623268 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
*
6623314 TGTGCAAAGT
1 TGTGAAAAGT
6623324 TTATATTATA
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 143 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:6623492 original size:501 final size:501
Alignment explanation
Indices: 6622816--6623824 Score: 1910
Period size: 501 Copynumber: 2.0 Consensus size: 501
6622806 CTAATGAATG
*
6622816 GAAAAATTTATATTATAGATCGGGAATCCGAAGATAAACGCGGTAAAGAGAAAGCATCGAGCTAG
1 GAAAAGTTTATATTATAGATCGGGAATCCGAAGATAAACGCGGTAAAGAGAAAGCATCGAGCTAG
*
6622881 GTTCTAAACTTTTATAACTTCTACGAATCGGCCCAGGTAAGTTCATATGGCTGAATTTTTATGAT
66 GTTCTAAACTTTTACAACTTCTACGAATCGGCCCAGGTAAGTTCATATGGCTGAATTTTTATGAT
6622946 TAATTGTTAATGTGGAAATGATATATTGTATAAATTCGTATATTGTTACTGAATTATGATTATGG
131 TAATTGTTAATGTGGAAATGATATATTGTATAAATTCGTATATTGTTACTGAATTATGATTATGG
6623011 TAAAAATGAGAAGAAGATGAGATTGTTAGTTCAAATTAAGGGATACGCAGAATTGAGTACACATG
196 TAAAAATGAGAAGAAGATGAGATTGTTAGTTCAAATTAAGGGATACGCAGAATTGAGTACACATG
6623076 TTTGGCAACCAACGGCGAATTGACGGATAAGTCCATAGTGGATCCATGGCAAAGTGTGAAAAGTA
261 TTTGGCAACCAACGGCGAATTGACGGATAAGTCCATAGTGGATCCATGGCAAAGTGTGAAAAGTA
6623141 GGTATGGTGTTTCGGTGAAGAAAACCATACTGATTTGTGAAAAGTAGGTATGGTGTTTCGGTGAA
326 GGTATGGTGTTTCGGTGAAGAAAACCATACTGATTTGTGAAAAGTAGGTATGGTGTTTCGGTGAA
* *
6623206 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTAT
391 GAAAACCATACTGAGTTATGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTAT
*
6623271 GAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGT
456 GAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTAT
* *
6623317 GCAAAGTTTATATTATAGATCGGGAATCCGAAGATAAACGCGGTAAAGAGAAAGTATCGAGCTAG
1 GAAAAGTTTATATTATAGATCGGGAATCCGAAGATAAACGCGGTAAAGAGAAAGCATCGAGCTAG
* *
6623382 TTTCTGAACTTTTACAACTTCTACGAATCGGCCCAGGTAAGTTCATATGGCTGAATTTTTATGAT
66 GTTCTAAACTTTTACAACTTCTACGAATCGGCCCAGGTAAGTTCATATGGCTGAATTTTTATGAT
6623447 TAATTGTTAATGTGGAAATGATATATTGTATAAATTCGTATATTGTTACTGAATTATGATTATGG
131 TAATTGTTAATGTGGAAATGATATATTGTATAAATTCGTATATTGTTACTGAATTATGATTATGG
6623512 TAAAAATGAGAAGAAGATGAGATTGTTAGTTCAAATTAAGGGATACGCAGAATTGAGTACACATG
196 TAAAAATGAGAAGAAGATGAGATTGTTAGTTCAAATTAAGGGATACGCAGAATTGAGTACACATG
*
6623577 TTTGGCAACCAATGGCGAATTGACGGATAAGTCCATAGTGGATCCATGGCAAAGTGTGAAAAGTA
261 TTTGGCAACCAACGGCGAATTGACGGATAAGTCCATAGTGGATCCATGGCAAAGTGTGAAAAGTA
6623642 GGTATGGTGTTTCGGTGAAGAAAACCATACTGATTTGTGAAAAGTAGGTATGGTGTTTCGGTGAA
326 GGTATGGTGTTTCGGTGAAGAAAACCATACTGATTTGTGAAAAGTAGGTATGGTGTTTCGGTGAA
*
6623707 GAAAACCATACTGAGTTATGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTGT
391 GAAAACCATACTGAGTTATGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTAT
*
6623772 GAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTAT
456 GAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTAT
6623818 GAAAAGT
1 GAAAAGT
6623825 AGGTATGGTG
Statistics
Matches: 495, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
501 495 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (501 bp):
GAAAAGTTTATATTATAGATCGGGAATCCGAAGATAAACGCGGTAAAGAGAAAGCATCGAGCTAG
GTTCTAAACTTTTACAACTTCTACGAATCGGCCCAGGTAAGTTCATATGGCTGAATTTTTATGAT
TAATTGTTAATGTGGAAATGATATATTGTATAAATTCGTATATTGTTACTGAATTATGATTATGG
TAAAAATGAGAAGAAGATGAGATTGTTAGTTCAAATTAAGGGATACGCAGAATTGAGTACACATG
TTTGGCAACCAACGGCGAATTGACGGATAAGTCCATAGTGGATCCATGGCAAAGTGTGAAAAGTA
GGTATGGTGTTTCGGTGAAGAAAACCATACTGATTTGTGAAAAGTAGGTATGGTGTTTCGGTGAA
GAAAACCATACTGAGTTATGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGTTAT
GAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTAT
Found at i:6623659 original size:24 final size:24
Alignment explanation
Indices: 6623632--6623706 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
6623622 ATGGCAAAGT
6623632 GTGAAAAGTAGGTATGGTGTTTCG
1 GTGAAAAGTAGGTATGGTGTTTCG
*** **
6623656 GTGAAGAA--AACCATACTGATTT--
1 GTGAA-AAGTAGGTATGGTG-TTTCG
6623678 GTGAAAAGTAGGTATGGTGTTTCG
1 GTGAAAAGTAGGTATGGTGTTTCG
6623702 GTGAA
1 GTGAA
6623707 GAAAACCATA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 2 0.06
22 8 0.23
23 10 0.29
24 13 0.37
25 2 0.06
ACGTcount: A:0.31, C:0.07, G:0.32, T:0.31
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGTGTTTCG
Found at i:6623698 original size:46 final size:46
Alignment explanation
Indices: 6623631--6623907 Score: 482
Period size: 46 Copynumber: 6.0 Consensus size: 46
6623621 CATGGCAAAG
*
6623631 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGATT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
6623677 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
6623723 TATGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
6623769 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
6623815 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * *
6623861 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
6623907 T
1 T
6623908 ATAGCAATGA
Statistics
Matches: 220, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 220 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:6626886 original size:31 final size:32
Alignment explanation
Indices: 6626843--6626902 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
6626833 TAGCGGCACT
*
6626843 TTTCCCACAAACGTCGCTAA-AGAATATGAGGC
1 TTTCCCACAAACGCCG-TAATAGAATATGAGGC
6626875 TTTCCC-CAAACGCCGTAATAGAATATGA
1 TTTCCCACAAACGCCGTAATAGAATATGA
6626903 CATTTAGCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 3 0.12
31 17 0.65
32 6 0.23
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (32 bp):
TTTCCCACAAACGCCGTAATAGAATATGAGGC
Found at i:6627309 original size:21 final size:21
Alignment explanation
Indices: 6627285--6627331 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6627275 TGCTTTGCTT
*
6627285 TGCTTCCCTCACTGTTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
*
6627306 TGCTTCCCTCGCTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
*
6627327 CGCTT
1 TGCTT
6627332 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.45, G:0.17, T:0.36
Consensus pattern (21 bp):
TGCTTCCCTCACTGCTGCCTC
Found at i:6634791 original size:26 final size:26
Alignment explanation
Indices: 6634735--6634795 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
6634725 AAGTATATAT
*
6634735 TTATGTATTACGTAAGTTATGATATG
1 TTATGTATTACGTAAGTTATGATAAG
* * *
6634761 ATATGTATTTATGTGAGTTATG-TAAG
1 TTATGTA-TTACGTAAGTTATGATAAG
6634787 TTATG-ATTA
1 TTATGTATTA
6634796 TCATCTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 3 0.10
25 1 0.03
26 13 0.45
27 12 0.41
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.48
Consensus pattern (26 bp):
TTATGTATTACGTAAGTTATGATAAG
Found at i:6635897 original size:2 final size:2
Alignment explanation
Indices: 6635890--6635914 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6635880 AAGCATAAGA
6635890 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6635915 ACCGTCCACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6636102 original size:24 final size:24
Alignment explanation
Indices: 6636070--6636122 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
6636060 AGTATTTTAT
*
6636070 AATACAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
**
6636094 AATATAATATTAATTTTTTATACA
1 AATATAATATTAATTTTAGATACA
6636118 AATAT
1 AATAT
6636123 TATACAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:6637809 original size:72 final size:73
Alignment explanation
Indices: 6637679--6637838 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 73
6637669 GCTCGATCTA
* * *
6637679 TTGCGGCGTTTTTCACCTAGCACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
1 TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
6637744 ATG-TTTT
66 ATGTTTTT
* * ** *
6637751 TTGCAGCGTTTTTTACCTAACGCCGCTAATGCCACTAAAAATGGCGCCGTTTTG-TTTAAAGTAA
1 TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAGCC-ATTTGATTTAAAGTAA
6637815 AATGTTTTT
65 AATGTTTTT
6637824 TTGCAGCGTTTTTTA
1 TTGCAGCGTTTTTTA
6637839 TTAAAAAGCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
72 55 0.71
73 23 0.29
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (73 bp):
TTGCAGCGTTTTTTACCTAACACCGCTAATGCCACTAAAAACGAAGCCATTTGATTTAAAGTAAA
ATGTTTTT
Found at i:6637993 original size:34 final size:35
Alignment explanation
Indices: 6637946--6638012 Score: 127
Period size: 34 Copynumber: 1.9 Consensus size: 35
6637936 ATTTAATTTG
6637946 TAATATTTTATAATTGTGTACGAAAATAATTTTTA
1 TAATATTTTATAATTGTGTACGAAAATAATTTTTA
6637981 TAATA-TTTATAATTGTGTACGAAAATAATTTT
1 TAATATTTTATAATTGTGTACGAAAATAATTTT
6638013 AAAAAATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (35 bp):
TAATATTTTATAATTGTGTACGAAAATAATTTTTA
Found at i:6638352 original size:7 final size:7
Alignment explanation
Indices: 6638334--6638401 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
6638324 CAAAAAAAAA
*
6638334 CTAAACA
1 CTAAACC
6638341 CTAAACC
1 CTAAACC
*
6638348 ATAAAACC
1 CT-AAACC
6638356 CTAAACC
1 CTAAACC
*
6638363 CTAGACC
1 CTAAACC
*
6638370 TTAAACC
1 CTAAACC
* *
6638377 TTAAATC
1 CTAAACC
*
6638384 TTAAACC
1 CTAAACC
6638391 CTAAACC
1 CTAAACC
6638398 CTAA
1 CTAA
6638402 TATAAAATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 45 0.88
8 6 0.12
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:6638481 original size:40 final size:40
Alignment explanation
Indices: 6638426--6638590 Score: 131
Period size: 41 Copynumber: 4.1 Consensus size: 40
6638416 TTGTGACGTT
* * *
6638426 TTTTTATCAAAAACGCCGATATTGCTTACTTTTTGCGGCG
1 TTTTTATCATAAACGCCGCTACTGCTTACTTTTTGCGGCG
* * *
6638466 TTTTTCTCATAAACGCCGCTACTGC-TAGATCTTTTGCAGCG
1 TTTTTATCATAAACGCCGCTACTGCTTA-CT-TTTTGCGGCG
* * * * *
6638507 TTTTTTTTATAAACGCCGCTACTGCTTGACCTTTTGTGGCA
1 TTTTTATCATAAACGCCGCTACTGCTT-ACTTTTTGCGGCG
* * *
6638548 TTTTTA--ACAAACACCGCTACTGCTTAACCTTTTG-GTGCG
1 TTTTTATCATAAACGCCGCTACTGCTT-ACTTTTTGCG-GCG
6638587 TTTT
1 TTTT
6638591 CCTATTAGCG
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.32
40 22 0.22
41 44 0.43
42 1 0.01
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (40 bp):
TTTTTATCATAAACGCCGCTACTGCTTACTTTTTGCGGCG
Found at i:6638501 original size:41 final size:41
Alignment explanation
Indices: 6638456--6638590 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
6638446 ATTGCTTACT
*
6638456 TTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTAGATC
1 TTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTAGACC
* * * *
6638497 TTTTGCAGCGTTTTTTTTATAAACGCCGCTACTGCTTGACC
1 TTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTAGACC
* * * * *
6638538 TTTTGTGGC-ATTTT-TAACAAACACCGCTACTGCTTA-ACC
1 TTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGC-TAGACC
6638577 TTTTG-GTGCGTTTT
1 TTTTGCG-GCGTTTT
6638591 CCTATTAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 26 0.33
40 8 0.10
41 43 0.55
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTCTCATAAACGCCGCTACTGCTAGACC
Found at i:6639188 original size:22 final size:22
Alignment explanation
Indices: 6639154--6639196 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6639144 TATCAAAACA
6639154 ATAATAACAAAAT-AGTAGCAAT
1 ATAATAACAAAATGA-TAGCAAT
* *
6639176 ATAATAGCGAAATGATAGCAA
1 ATAATAACAAAATGATAGCAA
6639197 AACAATGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATGATAGCAAT
Found at i:6644867 original size:18 final size:18
Alignment explanation
Indices: 6644844--6644878 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6644834 ATTAATTAAA
*
6644844 AATTTTAAAATATAAATT
1 AATTTTAAAACATAAATT
*
6644862 AATTTTGAAACATAAAT
1 AATTTTAAAACATAAAT
6644879 ATTATTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTTTAAAACATAAATT
Found at i:6648254 original size:6 final size:6
Alignment explanation
Indices: 6648245--6648272 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6648235 TCGCCCATCC
6648245 CCACCT CCACCT CCACCT CCACCT CCAC
1 CCACCT CCACCT CCACCT CCACCT CCAC
6648273 TTCTAAAAAG
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:0.18, C:0.68, G:0.00, T:0.14
Consensus pattern (6 bp):
CCACCT
Found at i:6649288 original size:7 final size:7
Alignment explanation
Indices: 6649278--6649324 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
6649268 CATTTTACTT
6649278 TTTTATA
1 TTTTATA
6649285 TTTTATA
1 TTTTATA
*
6649292 TTTTTTA
1 TTTTATA
6649299 GTTTTAT-
1 -TTTTATA
*
6649306 GTTTATA
1 TTTTATA
6649313 TTTTA-A
1 TTTTATA
6649319 TTTTAT
1 TTTTAT
6649325 TAATAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 11 0.33
7 17 0.52
8 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (7 bp):
TTTTATA
Found at i:6649802 original size:25 final size:27
Alignment explanation
Indices: 6649775--6649830 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
6649765 TTATTATTCT
6649775 AAATA-TTAAAAAAAATTATAATTATA
1 AAATATTTAAAAAAAATTATAATTATA
* * *
6649801 AAATATTTTAAAAAAACTATAA-AATA
1 AAATATTTAAAAAAAATTATAATTATA
6649827 AAAT
1 AAAT
6649831 GATTCAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
AAATATTTAAAAAAAATTATAATTATA
Found at i:6660757 original size:17 final size:18
Alignment explanation
Indices: 6660725--6660765 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
6660715 TCCTAAACTA
6660725 CAATAATTCAATTTTCAC
1 CAATAATTCAATTTTCAC
*
6660743 CAATCATTC-ATTTTCAC
1 CAATAATTCAATTTTCAC
*
6660760 TAATAA
1 CAATAA
6660766 AACTGCACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
CAATAATTCAATTTTCAC
Found at i:6684904 original size:26 final size:27
Alignment explanation
Indices: 6684858--6684910 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6684848 TCAATTTTAA
* *
6684858 AAAAATAAATATTATTATTT-GAAAAT
1 AAAAATAAAAATGATTATTTGGAAAAT
6684884 AAAAATAGAAAATGATT-TTTGGAAAAT
1 AAAAATA-AAAATGATTATTTGGAAAAT
6684911 TTATTGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAAATAAAAATGATTATTTGGAAAAT
Found at i:6685020 original size:15 final size:14
Alignment explanation
Indices: 6684987--6685020 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6684977 CTAGTTGACA
6684987 ATTTTTTAAAAACT
1 ATTTTTTAAAAACT
* *
6685001 ATTTTTTGAAAATT
1 ATTTTTTAAAAACT
6685015 ATTTTT
1 ATTTTT
6685021 AATAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
ATTTTTTAAAAACT
Found at i:6685815 original size:7 final size:7
Alignment explanation
Indices: 6685803--6685853 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
6685793 TTATAATATT
6685803 TTAAAAA
1 TTAAAAA
6685810 TTAAAAA
1 TTAAAAA
6685817 TTAAAAA
1 TTAAAAA
6685824 TTAAAAA
1 TTAAAAA
6685831 TTAAAAA
1 TTAAAAA
6685838 TTAAAAA
1 TTAAAAA
6685845 TTAAAAA
1 TTAAAAA
6685852 TT
1 TT
6685854 TAGTATATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:6692912 original size:16 final size:17
Alignment explanation
Indices: 6692884--6692917 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6692874 TTAAACAAGT
*
6692884 ATAAAAGACAAAATAAA
1 ATAAAAGACAAAACAAA
6692901 ATAAAA-ACAAAACAAA
1 ATAAAAGACAAAACAAA
6692917 A
1 A
6692918 CATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (17 bp):
ATAAAAGACAAAACAAA
Found at i:6693934 original size:22 final size:22
Alignment explanation
Indices: 6693909--6693950 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6693899 TGATTCATAA
* *
6693909 ATGTTAGCTTGTGTGAGCAAAT
1 ATGTCAGCTTGTATGAGCAAAT
6693931 ATGTCAGCTTGTATGAGCAA
1 ATGTCAGCTTGTATGAGCAA
6693951 TTCTAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (22 bp):
ATGTCAGCTTGTATGAGCAAAT
Found at i:6714654 original size:24 final size:24
Alignment explanation
Indices: 6714622--6714674 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
6714612 GAATCTGTTG
*
6714622 CCAGAACAGGGTTACAGAGCGTTA
1 CCAGAACAGGGTTACAGAGCATTA
6714646 CCAGAACAGGGTTACAGAGCATTA
1 CCAGAACAGGGTTACAGAGCATTA
6714670 CCAGA
1 CCAGA
6714675 GTTTACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (24 bp):
CCAGAACAGGGTTACAGAGCATTA
Found at i:6723607 original size:2 final size:2
Alignment explanation
Indices: 6723595--6723631 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6723585 TCTTTTATTG
6723595 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6723632 GATGATAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6734628 original size:109 final size:102
Alignment explanation
Indices: 6734474--6734843 Score: 318
Period size: 109 Copynumber: 3.5 Consensus size: 102
6734464 TGACCATGTA
* * * *
6734474 ATGGCCGGCACC-AGATACATTTTTCCGGC-CCAAAGGCACTTTTTTTACTTTTGGACATTGATG
1 ATGGCC-GCACCAAG-TACATTTTTTCGACTCCCAAGGCAC--TTTTT--TTTTGGACACTGATG
* *
6734537 GTCGGTACTAGTGTCATTTTAAAAAAAATCGAGTGTTGGCCAA-TAG
60 G-CGG-ACTAGTGTCA-TTTAAAAAAAATTGAGTGCTGG-CAAGTAG
* * * * *
6734583 ATGGCCAGCACCAAGTACATTTTTTTGGCTCCTAGGGCACCTTTTTTTTTGGGGACACTGATGAC
1 ATGGCC-GCACCAAGTACATTTTTTCGACTCCCAAGGCA-CTTTTTTTTT--GGACACTGATG-G
*
6734648 CGGCACCAGTGTCATTTAAGAAAAAATTGAGTGCTGGCAAGTAG
61 CGG-ACTAGTGTCATTTAA-AAAAAATTGAGTGCTGGCAAGTAG
* * * * * *
6734692 ATAGTCGGCACCAAGTATA-TTTTTCGACTCCCAATGCACTTTTTTTTGGGACACTGATGGCCGA
1 AT-GGCCGCACCAAGTACATTTTTTCGACTCCCAAGGCACTTTTTTTTTGGACACTGATGGCGGA
* *
6734756 CATCAGTGTCATTTAAAAAAATTTGTGTGCTGGCAAGTAG
65 C-T-AGTGTCATTTAAAAAAAATTGAGTGCTGGCAAGTAG
* *
6734796 ATGGCCGACACCAAGTACATTTTTTC-ACTCCTAATGCACTTTTTTTTT
1 ATGGCCG-CACCAAGTACATTTTTTCGACTCCCAAGGCACTTTTTTTTT
6734844 TTACTTTAGG
Statistics
Matches: 218, Mismatches: 30, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
103 5 0.02
104 56 0.26
105 29 0.13
107 13 0.06
108 22 0.10
109 81 0.37
110 11 0.05
111 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (102 bp):
ATGGCCGCACCAAGTACATTTTTTCGACTCCCAAGGCACTTTTTTTTTGGACACTGATGGCGGAC
TAGTGTCATTTAAAAAAAATTGAGTGCTGGCAAGTAG
Found at i:6734808 original size:104 final size:106
Alignment explanation
Indices: 6734546--6734842 Score: 361
Period size: 104 Copynumber: 2.8 Consensus size: 106
6734536 GGTCGGTACT
* * *
6734546 AGTGTCATTTTAAAAAAAATCGAGTGTTGGCCAA-TAGATGGCC-AGCACCAAGTACATTTTTTT
1 AGTGTCA-TTTAAAAAAAATTGAGTGCTGG-CAAGTAGATGGCCGA-CACCAAGTACATTTTTTC
* ** *
6734609 GGCTCCTAGGGCACCTTTTTTTTTGGGGACACTGATGACCGGCACC
63 GACTCCTAATGCA-C-TTTTTTTTGGGGACACTGATGACCGACACC
* * * *
6734655 AGTGTCATTTAAGAAAAAATTGAGTGCTGGCAAGTAGATAGTCGGCACCAAGTATA-TTTTTCGA
1 AGTGTCATTTAA-AAAAAATTGAGTGCTGGCAAGTAGATGGCCGACACCAAGTACATTTTTTCGA
* * *
6734719 CTCCCAATGCACTTTTTTTT-GGGACACTGATGGCCGACATC
65 CTCCTAATGCACTTTTTTTTGGGGACACTGATGACCGACACC
* *
6734760 AGTGTCATTTAAAAAAATTTGTGTGCTGGCAAGTAGATGGCCGACACCAAGTACATTTTTTC-AC
1 AGTGTCATTTAAAAAAAATTGAGTGCTGGCAAGTAGATGGCCGACACCAAGTACATTTTTTCGAC
6734824 TCCTAATGCACTTTTTTTT
66 TCCTAATGCACTTTTTTTT
6734843 TTTACTTTAG
Statistics
Matches: 163, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
104 57 0.35
105 36 0.22
106 8 0.05
107 1 0.01
108 22 0.13
109 39 0.24
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (106 bp):
AGTGTCATTTAAAAAAAATTGAGTGCTGGCAAGTAGATGGCCGACACCAAGTACATTTTTTCGAC
TCCTAATGCACTTTTTTTTGGGGACACTGATGACCGACACC
Found at i:6735664 original size:90 final size:90
Alignment explanation
Indices: 6735544--6735784 Score: 367
Period size: 90 Copynumber: 2.7 Consensus size: 90
6735534 ATTTTTATAT
* *
6735544 TTTCGTGTATTAATTTTACCTATCTATTTGTAGTTTGTTAGGTGTTTAAATTTAATTTAGTCTGT
1 TTTCGTGCATTAATTTTACCTATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGT
* *
6735609 GTTATATATAGTTTGAATTTAAAAA
66 ATAATATATAGTTTGAATTTAAAAA
* * *
6735634 TTTCGTGCACTAATTTTATCC-ATCTGTTTGTAGTTTGTTGGGTATTTAAATTTAATTTAGTCTG
1 TTTCGTGCATTAATTTTA-CCTATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTG
* *
6735698 TATAATATGTAGTTTGAATTTAAAAT
65 TATAATATATAGTTTGAATTTAAAAA
* *
6735724 TTTCGTACATTAATTTAACCTATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGT
1 TTTCGTGCATTAATTTTACCTATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGT
6735785 GCGTATTATT
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
89 2 0.01
90 131 0.97
91 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (90 bp):
TTTCGTGCATTAATTTTACCTATCTATTTGTAGTTTGTTGGGTGTTTAAATTTAATTTAGTCTGT
ATAATATATAGTTTGAATTTAAAAA
Found at i:6740372 original size:21 final size:20
Alignment explanation
Indices: 6740347--6740407 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 20
6740337 TTTTCATTTC
6740347 ATTTCCATTTAAATTTAATA
1 ATTTCCATTTAAATTTAATA
* *
6740367 ATTTTCCATTTAAATTTATTTC
1 A-TTTCCATTTAAATTTA-ATA
6740389 ATTTCCATTTAAATTTAAT
1 ATTTCCATTTAAATTTAAT
6740408 TTTCCTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTCCATTTAAATTTAATA
Found at i:6740478 original size:79 final size:79
Alignment explanation
Indices: 6740373--6740546 Score: 178
Period size: 79 Copynumber: 2.2 Consensus size: 79
6740363 AATAATTTTC
*
6740373 CATTTAAATTTATTTCATTTCCATTTAAATTTAATTTTCCTAA-T-A-TACA-ATTTTTTTTCAT
1 CATTTAAATTTATTTCATTTCCATTTAAAATT--TTTT-C-AATTCATTACATATTTTTTTTCAT
6740434 ATTAATCACAAGTAGTCT
62 ATTAATCACAAGTAGTCT
* * * *
6740452 CATTTCAATTTATCTT-TTTTCGATTTAAAATTTTTTCAATTCATTTCATATTTTTTTTCATATT
1 CATTTAAATTTAT-TTCATTTCCATTTAAAATTTTTTCAATTCATTACATATTTTTTTTCATATT
* *
6740516 AATTAGAAGTAGTCT
65 AATCACAAGTAGTCT
* *
6740531 CAATTACATTTTATTT
1 CATTTA-AATTTATTT
6740547 AAAATTTTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
75 2 0.03
76 2 0.03
77 5 0.06
78 3 0.04
79 59 0.75
80 8 0.10
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (79 bp):
CATTTAAATTTATTTCATTTCCATTTAAAATTTTTTCAATTCATTACATATTTTTTTTCATATTA
ATCACAAGTAGTCT
Found at i:6740564 original size:21 final size:21
Alignment explanation
Indices: 6740538--6740577 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6740528 TCTCAATTAC
6740538 ATTTTATTTAAAATTTTTCAT
1 ATTTTATTTAAAATTTTTCAT
*
6740559 ATTTTATTTAAATTTTTTC
1 ATTTTATTTAAAATTTTTC
6740578 TCAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTATTTAAAATTTTTCAT
Found at i:6740585 original size:21 final size:21
Alignment explanation
Indices: 6740540--6740585 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6740530 TCAATTACAT
*
6740540 TTTATTTAAAATTTTTCATAT
1 TTTATTTAAAATTTTTCATAA
*
6740561 TTTATTTAAATTTTTTC-TCAA
1 TTTATTTAAAATTTTTCAT-AA
6740582 TTTA
1 TTTA
6740586 AATACCATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTATTTAAAATTTTTCATAA
Found at i:6740809 original size:17 final size:16
Alignment explanation
Indices: 6740784--6740828 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
6740774 TTTTTTTTTG
*
6740784 ATTTCATTTCTATTTCC
1 ATTTTATTTC-ATTTCC
*
6740801 ATTTTATTTCATTTTC
1 ATTTTATTTCATTTCC
6740817 ATTTTCATTTCA
1 ATTTT-ATTTCA
6740829 ATTTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTATTTCATTTCC
Found at i:6740849 original size:28 final size:26
Alignment explanation
Indices: 6740764--6740849 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 26
6740754 GCCTGACCTA
* * *
6740764 TCATTTCAACTTTTTTTTTGATTTCATT
1 TCATTTCAA--TTTTATTTAATTTCTTT
* *
6740792 TCTATTTCCATTTTATTTCATTTTCATTT
1 TC-ATTTCAATTTTATTT-AATTTC-TTT
6740821 TCATTTCAATTTTATTTAAATTATCTTT
1 TCATTTCAATTTTATTT-AATT-TCTTT
6740849 T
1 T
6740850 TATCCATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
27 7 0.15
28 27 0.59
29 12 0.26
ACGTcount: A:0.21, C:0.14, G:0.01, T:0.64
Consensus pattern (26 bp):
TCATTTCAATTTTATTTAATTTCTTT
Found at i:6740858 original size:21 final size:22
Alignment explanation
Indices: 6740834--6740880 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6740824 TTTCAATTTT
6740834 ATTTAAA-TTATCTTTTTATC-C
1 ATTTAAATTTAT-TTTTTATCTC
*
6740855 ATTTAAATTTATTTTTTTTCTC
1 ATTTAAATTTATTTTTTATCTC
6740877 ATTT
1 ATTT
6740881 CATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTAAATTTATTTTTTATCTC
Found at i:6740865 original size:27 final size:25
Alignment explanation
Indices: 6740824--6740913 Score: 73
Period size: 27 Copynumber: 3.6 Consensus size: 25
6740814 TTCATTTTCA
* *
6740824 TTTCAATTTTATTTAAATTATCTTT
1 TTTCCATTTAATTTAAATTATCTTT
6740849 TTATCCATTTAAATTT--A-T-T-TTT
1 TT-TCCATTT-AATTTAAATTATCTTT
*
6740871 TTTCTCATTTCATTTAAATTATCTTT
1 TTTC-CATTTAATTTAAATTATCTTT
6740897 CTTTCCATTTTAATTTA
1 -TTTCCA-TTTAATTTA
6740914 CGTTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
21 6 0.12
22 10 0.20
23 2 0.04
24 2 0.04
25 4 0.08
26 11 0.22
27 16 0.31
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTCCATTTAATTTAAATTATCTTT
Found at i:6740871 original size:22 final size:21
Alignment explanation
Indices: 6740834--6740880 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
6740824 TTTCAATTTT
6740834 ATTTAAATTATCTTTTTATC-C
1 ATTTAAATTATCTTTTT-TCTC
*
6740855 ATTTAAATTTATTTTTTTTCTC
1 ATTTAAA-TTATCTTTTTTCTC
6740877 ATTT
1 ATTT
6740881 CATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTAAATTATCTTTTTTCTC
Found at i:6740886 original size:48 final size:49
Alignment explanation
Indices: 6740829--6740924 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 49
6740819 TTTCATTTCA
*
6740829 ATTTTATTTAAATTATCTTT-TTATCCATTTAAATTTA-TTTTTTTTCTC
1 ATTTCATTTAAATTATCTTTCTT-TCCATTTAAATTTACTTTTTTTTCTC
*
6740877 ATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTACGTTTTTTTTC
1 ATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAC-TTTTTTTTC
6740925 ATATTAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
48 32 0.74
49 2 0.05
50 9 0.21
ACGTcount: A:0.23, C:0.12, G:0.01, T:0.64
Consensus pattern (49 bp):
ATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTACTTTTTTTTCTC
Found at i:6740905 original size:21 final size:21
Alignment explanation
Indices: 6740834--6740911 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 21
6740824 TTTCAATTTT
6740834 ATTTAAATTATCTTT-TTATCC
1 ATTTAAATTATCTTTCTT-TCC
* *
6740855 ATTTAAATTTATTTTTTTTCTCATTTC
1 ATTTAAA-TTA---TCTTTCT--TTCC
6740882 ATTTAAATTATCTTTCTTTCC
1 ATTTAAATTATCTTTCTTTCC
*
6740903 ATTTTAATT
1 ATTTAAATT
6740912 TACGTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 18 0.40
22 3 0.07
23 6 0.13
25 4 0.09
26 4 0.09
27 9 0.20
28 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAAATTATCTTTCTTTCC
Found at i:6740905 original size:26 final size:27
Alignment explanation
Indices: 6740854--6740906 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6740844 TCTTTTTATC
*
6740854 CATTTAAATTTATTTTTTTTCTCATTT
1 CATTTAAATTTATTTTCTTTCTCATTT
6740881 CATTTAAA-TTATCTTTCTTTC-CATTT
1 CATTTAAATTTAT-TTTCTTTCTCATTT
6740907 TAATTTACGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (27 bp):
CATTTAAATTTATTTTCTTTCTCATTT
Found at i:6741013 original size:44 final size:44
Alignment explanation
Indices: 6740957--6741195 Score: 356
Period size: 44 Copynumber: 5.5 Consensus size: 44
6740947 AATTTATTTC
*
6740957 ATTTAATGTGTTTTAAATTAAATATGTTTGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* * *
6741001 ATTTAATCTGTTTTAAAATAAATTTGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
6741045 ATTTAATGTG-TTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
* * *
6741088 ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
6741132 ATTTAATGTGCTTTAAATTAAATAT-TCATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGT-ATGTATATTGTATTATA
**
6741176 ATTTAACATGTTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
6741196 GGAATAAGAA
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.22
44 138 0.78
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
Found at i:6741076 original size:87 final size:87
Alignment explanation
Indices: 6740957--6741192 Score: 357
Period size: 87 Copynumber: 2.7 Consensus size: 87
6740947 AATTTATTTC
* **
6740957 ATTTAATGTGTTTTAAATTAAATATGTTTGTATATTGTATTATAATTTAATCTGTTTTAAAATAA
1 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATAATTTAA-CTGTTTTAAAATAA
* *
6741022 ATTTGTATGTATATTGTATTATA
65 ATATGCATGTATATTGTATTATA
* * *
6741045 ATTTAATGTG-TTTAAATTAAATATGCATGTATATTGTATTATAATTTAAGGTATTTTAAATTAA
1 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATAATTTAA-CTGTTTTAAAATAA
6741109 ATATGCATGTATATTGTATTATA
65 ATATGCATGTATATTGTATTATA
*
6741132 ATTTAATGTGCTTTAAATTAAATATTCATGTATATTGTATTATAATTTAACATGTTTTAAA
1 ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATAATTTAAC-TGTTTTAAA
6741193 TTAGGAATAA
Statistics
Matches: 135, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
87 79 0.59
88 56 0.41
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (87 bp):
ATTTAATGTGCTTTAAATTAAATATGCATGTATATTGTATTATAATTTAACTGTTTTAAAATAAA
TATGCATGTATATTGTATTATA
Found at i:6741085 original size:22 final size:22
Alignment explanation
Indices: 6741028--6741173 Score: 86
Period size: 22 Copynumber: 6.7 Consensus size: 22
6741018 ATAAATTTGT
*
6741028 ATGTATATTGTATTATAAT-TTA
1 ATGTATATTGTATTA-AATATTC
* ** *
6741050 ATGTGT-TTAAATTAAATATGC
1 ATGTATATTGTATTAAATATTC
*
6741071 ATGTATATTGTATTATAAT-TTA
1 ATGTATATTGTATTA-AATATTC
* * ** *
6741093 AGGTATTTTAAATTAAATATGC
1 ATGTATATTGTATTAAATATTC
*
6741115 ATGTATATTGTATTATAAT-TTA
1 ATGTATATTGTATTA-AATATTC
* **
6741137 ATGTGCT-TTAAATTAAATATTC
1 ATGT-ATATTGTATTAAATATTC
6741159 ATGTATATTGTATTA
1 ATGTATATTGTATTA
6741174 TAATTTAACA
Statistics
Matches: 87, Mismatches: 29, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
20 3 0.03
21 19 0.22
22 58 0.67
23 7 0.08
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (22 bp):
ATGTATATTGTATTAAATATTC
Found at i:6741105 original size:131 final size:132
Alignment explanation
Indices: 6740957--6741195 Score: 367
Period size: 131 Copynumber: 1.8 Consensus size: 132
6740947 AATTTATTTC
* * ** *
6740957 ATTTAATGTGTTTTAAATTAAATATGTTTGTATATTGTATTATAATTTAATCTGTTTTAAAATAA
1 ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATTATAATTTAATCTGCTTTAAAATAA
*
6741022 AT-TTGTATGTATATTGTATTATAATTT-A-ATGTGTTTAAATTAAATATGCATGTATATTGTAT
66 ATATT-CATGTATATTGTATTATAATTTAACATGT-TTTAAATTAAATATGCATGTATATTGTAT
6741084 TATA
129 TATA
* *
6741088 ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATTATAATTTAATGTGCTTTAAATTAA
1 ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATTATAATTTAATCTGCTTTAAAATAA
6741153 ATATTCATGTATATTGTATTATAATTTAACATGTTTTAAATTA
66 ATATTCATGTATATTGTATTATAATTTAACATGTTTTAAATTA
6741196 GGAATAAGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
131 81 0.84
132 12 0.12
133 4 0.04
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (132 bp):
ATTTAAGGTATTTTAAATTAAATATGCATGTATATTGTATTATAATTTAATCTGCTTTAAAATAA
ATATTCATGTATATTGTATTATAATTTAACATGTTTTAAATTAAATATGCATGTATATTGTATTA
TA
Found at i:6748221 original size:41 final size:40
Alignment explanation
Indices: 6748163--6748248 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
6748153 CGTTACCCTG
* * *
6748163 AAAACGCGTCCTATAAGACACATTTTTATTTCTCTCTCCTA
1 AAAACGCGTCATATAAGACACATTTTCACTTCTCTCTCC-A
* **
6748204 AAAACGCGTCATGTAAGACGTATTTTCACTTCTCTCTCCA
1 AAAACGCGTCATATAAGACACATTTTCACTTCTCTCTCCA
6748244 AAAAC
1 AAAAC
6748249 AACATATCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 6 0.15
41 33 0.85
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (40 bp):
AAAACGCGTCATATAAGACACATTTTCACTTCTCTCTCCA
Found at i:6753349 original size:20 final size:19
Alignment explanation
Indices: 6753314--6753363 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
6753304 TCAACAAAAA
6753314 TTACAAAAACATTCAAAATAAT
1 TTAC-AAAA-ATTCAAAAT-AT
*
6753336 TTTCAAAAATTCAAAATAT
1 TTACAAAAATTCAAAATAT
6753355 TTACAAAAA
1 TTACAAAAA
6753364 CTACAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 9 0.35
21 4 0.15
22 3 0.12
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (19 bp):
TTACAAAAATTCAAAATAT
Found at i:6753370 original size:20 final size:21
Alignment explanation
Indices: 6753314--6753371 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
6753304 TCAACAAAAA
6753314 TTACAAAAACATTCAAAATAAT
1 TTACAAAAAC-TTCAAAATAAT
*
6753336 TTTCAAAAA-TTCAAAAT-AT
1 TTACAAAAACTTCAAAATAAT
*
6753355 TTACAAAAACTACAAAA
1 TTACAAAAACTTCAAAA
6753372 ATTATAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 10 0.31
20 14 0.44
22 8 0.25
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (21 bp):
TTACAAAAACTTCAAAATAAT
Done.