Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 57 of 211
Found at i:15321146 original size:44 final size:43
Alignment explanation
Indices: 15321004--15321146 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
15320994 GAATTTTATG
*
15321004 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATATTAATTATTTT
* ** * ** *
15321048 AAATTGTATAAATTCATATAAGAAAATT-TATTATTAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAATATTAATTATT-TT
*
15321095 AAATTATATATTATTATTAAATTATATGTAATATTTATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATATTAATTATTTT
15321139 AAATTATA
1 AAATTATA
15321147 CAAATTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 10 0.14
46 9 0.12
47 15 0.20
48 3 0.04
49 6 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.50
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATATTAATTATTTT
Found at i:15321234 original size:54 final size:55
Alignment explanation
Indices: 15321175--15321369 Score: 146
Period size: 59 Copynumber: 3.4 Consensus size: 55
15321165 TTTATTAGTT
15321175 ATAATTATTTTAAATTT-TATTAAATCATATATTTTAATTTAAATATATTTAATA
1 ATAATTATTTTAAATTTATATTAAATCATATATTTTAATTTAAATATATTTAATA
* * * * * * * * *
15321229 TTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGA
1 ATAATTATTTTAAA-TTTATATTA-A--ATCATATATTTTAATTT-AA-ATA-T-ATTTAATA
* *
15321292 ATAATAATTATTAAGAATTT-TATTAAATTATATATTTTAA-TTATAATATATTTAATA
1 ATAATTATT-TT-A-AATTTATATTAAATCATATATTTTAATTTA-AATATATTTAATA
*
15321349 ATAATTATGTT-AATTTATATT
1 ATAATTATTTTAAATTTATATT
15321370 TTACAGTATC
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
53 5 0.05
54 16 0.15
55 3 0.03
56 6 0.06
57 14 0.13
58 1 0.01
59 18 0.17
60 5 0.05
61 13 0.12
62 1 0.01
63 14 0.13
64 5 0.05
65 4 0.04
66 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (55 bp):
ATAATTATTTTAAATTTATATTAAATCATATATTTTAATTTAAATATATTTAATA
Found at i:15321315 original size:120 final size:120
Alignment explanation
Indices: 15321187--15321479 Score: 457
Period size: 120 Copynumber: 2.4 Consensus size: 120
15321177 AATTATTTTA
* * *
15321187 AATTTTATTAAATCATATATTTTAATT-TAAATATATTTAATATTAATTAT-TTCAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTAT-AATATATTTAATAATAATTATGTT--AATTTATAT
*
15321249 TTTATAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
15321307 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* * *
15321372 ACAGTATCATATATTATGATTTGAGTAAATTCATGTAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
* *
15321427 AATTTTATTAAATTATATAATTTAATTATAATATGTTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
15321480 TAAATATGAT
Statistics
Matches: 161, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
119 5 0.03
120 153 0.95
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAATAAATTCATATAAGAATAATAATTATTAAG
Found at i:15321347 original size:15 final size:15
Alignment explanation
Indices: 15321312--15321363 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15321302 TTAAGAATTT
*
15321312 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15321326 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15321340 TATTTAATAATAAT-
1 TATTTAATTATAATA
15321354 TATGTTAATT
1 TAT-TTAATT
15321364 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15321491 original size:16 final size:16
Alignment explanation
Indices: 15321447--15321482 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
15321437 AATTATATAA
*
15321447 TTTAATTATAA-TATG
1 TTTAATAATAATTATG
15321462 TTTAATAATAATTATG
1 TTTAATAATAATTATG
15321478 TTTAA
1 TTTAA
15321483 ATATGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAATAATAATTATG
Found at i:15321586 original size:155 final size:157
Alignment explanation
Indices: 15321416--15321730 Score: 535
Period size: 155 Copynumber: 2.0 Consensus size: 157
15321406 GTAAGAATAT
* *
15321416 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTATAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
15321481 AAATATGATTAACTTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAAC-A
66 AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15321545 -AATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
15321571 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
*
15321636 AAATATAATTAAATTGTTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15321701 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
15321728 TAA
1 TAA
15321731 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 121 0.81
156 1 0.01
157 27 0.18
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATAATTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATAATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:15321611 original size:18 final size:17
Alignment explanation
Indices: 15321583--15321617 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15321573 ATTATTAAGA
*
15321583 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15321600 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15321618 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15321871 original size:45 final size:44
Alignment explanation
Indices: 15321779--15321873 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 44
15321769 TTACACCTCT
*
15321779 ATTACATTCAACCAAATACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAATACAGGATTACTATTACACCTCTATTCC
* *
15321823 ATTACATTCAACC-AA-ACAGTTGATTTGCTATTACACCTCTATTTC
1 ATTACATTCAACCAAATACAG--GA-TTACTATTACACCTCTATTCC
15321868 ATTACA
1 ATTACA
15321874 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 15 0.33
45 24 0.53
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAATACAGGATTACTATTACACCTCTATTCC
Found at i:15325191 original size:6 final size:6
Alignment explanation
Indices: 15325174--15325210 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
15325164 GAGTGATGGT
15325174 TTTA-G TTT-TG TTTATG TTTATG TTTATG TTTATG TTT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTT
15325211 TTGGTGTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 7 0.23
6 23 0.77
ACGTcount: A:0.14, C:0.00, G:0.16, T:0.70
Consensus pattern (6 bp):
TTTATG
Found at i:15334486 original size:20 final size:19
Alignment explanation
Indices: 15334441--15334489 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
15334431 TAATACAAGT
15334441 TTAAAAT-ATTAAAAGAAA
1 TTAAAATAATTAAAAGAAA
*
15334459 TAAAAATAATTAATAA-ATAA
1 TTAAAATAATTAA-AAGA-AA
15334479 TTAAAATAATT
1 TTAAAATAATT
15334490 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 6 0.23
20 14 0.54
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAATAATTAAAAGAAA
Found at i:15339437 original size:45 final size:47
Alignment explanation
Indices: 15339386--15339481 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 47
15339376 CATATAGAAC
* * * *
15339386 TATACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAATCTTAT
1 TATACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTTAT
15339431 TATACTTCATCTATTTGATATTGATTAGAATAAGGTGTTTCAACCTTAT
1 TATACTTCATCTATTT-ATATT-ATTAGAATAAGGTGTTTCAACCTTAT
15339480 TA
1 TA
15339482 CACTCCTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 14 0.33
47 4 0.09
49 25 0.58
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (47 bp):
TATACTTCATCTATTTATATTATTAGAATAAGGTGTTTCAACCTTAT
Found at i:15345980 original size:13 final size:13
Alignment explanation
Indices: 15345964--15346029 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
15345954 TTTAAACCAA
15345964 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
15345977 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* **
15345990 ACTTCTCAAAAAT
1 ACTTTTCAAAAGC
*
15346003 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
15346016 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
15346029 A
1 A
15346030 TTGCCAAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:15346995 original size:25 final size:25
Alignment explanation
Indices: 15346961--15347012 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
15346951 CTTGATGATG
*
15346961 GAAGATTCCACTTATAATTTTTAAT
1 GAAGATTCCACTTATAATTGTTAAT
15346986 GAAGATTCCACTTATAATTGTTAAT
1 GAAGATTCCACTTATAATTGTTAAT
15347011 GA
1 GA
15347013 TGGATTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (25 bp):
GAAGATTCCACTTATAATTGTTAAT
Found at i:15348192 original size:30 final size:30
Alignment explanation
Indices: 15348150--15348267 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
15348140 ACGGACGGGT
* *
15348150 AACCTCGATATAATGTCATCTTGTGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
*
15348180 AACCTGGTTATAATGTCAGCTTGTGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
* * * * *
15348210 AACATTGAAATATTGTCAGCTTATGTGAGC
1 AACCTGGATATAATGTCAGCTTGTGTGAGC
* * * *
15348240 AACCTTGAAATATTGTCAGCTTATGTGA
1 AACCTGGATATAATGTCAGCTTGTGTGA
15348268 ACATTTCATT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (30 bp):
AACCTGGATATAATGTCAGCTTGTGTGAGC
Found at i:15360352 original size:28 final size:28
Alignment explanation
Indices: 15360320--15360374 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
15360310 ATGGTTTGAA
*
15360320 TTATTTTTA-ACTAAGTTTTCTGGATTTT
1 TTATTTTTAGACTAAGCTTT-TGGATTTT
15360348 TTATTTTTAGACTAAGCTTTTGGATTT
1 TTATTTTTAGACTAAGCTTTTGGATTT
15360375 GATTTTGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.58
Consensus pattern (28 bp):
TTATTTTTAGACTAAGCTTTTGGATTTT
Found at i:15373840 original size:11 final size:11
Alignment explanation
Indices: 15373810--15373884 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
15373800 AAACTAATCC
15373810 TCTCTCAATTAT
1 TCTCTCAATT-T
*
15373822 TTTCTCAATTT
1 TCTCTCAATTT
15373833 TCTCTCAATTT
1 TCTCTCAATTT
* * *
15373844 GCTTTCAAGTT
1 TCTCTCAATTT
*
15373855 GCTCTCAATTT
1 TCTCTCAATTT
* *
15373866 CCT-TCCAAATT
1 TCTCT-CAATTT
15373877 TCTCTCAA
1 TCTCTCAA
15373885 ATCCATATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
10 1 0.02
11 40 0.78
12 10 0.20
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:15375109 original size:7 final size:7
Alignment explanation
Indices: 15375097--15375122 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15375087 TAGTCGATTG
15375097 GTATTTA
1 GTATTTA
15375104 GTATTTA
1 GTATTTA
15375111 GTATTTA
1 GTATTTA
15375118 GTATT
1 GTATT
15375123 ACGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:15376368 original size:8 final size:8
Alignment explanation
Indices: 15376355--15376398 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
15376345 ATTTATTAAA
15376355 AAATTTAT
1 AAATTTAT
15376363 AAATTTAT
1 AAATTTAT
15376371 AAATTATAATT
1 AAATT-T-A-T
15376382 AAATTTAT
1 AAATTTAT
15376390 -AATTTAT
1 AAATTTAT
15376397 AA
1 AA
15376399 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 15 0.47
9 2 0.06
10 2 0.06
11 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAATTTAT
Found at i:15376384 original size:19 final size:19
Alignment explanation
Indices: 15376362--15376415 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
15376352 AAAAAATTTA
*
15376362 TAAATTTATAAATTATAAT
1 TAAATTTATAATTTATAAT
15376381 TAAATTTATAATTTATAAT
1 TAAATTTATAATTTATAAT
15376400 TAAATTTATAATTTAT
1 TAAATTTATAATTTAT
15376416 TTGACAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTTATAATTTATAAT
Found at i:15376391 original size:12 final size:13
Alignment explanation
Indices: 15376359--15376412 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
15376349 ATTAAAAAAT
15376359 TTATAAATTTATAAA
1 TTAT-AATTTAT-AA
15376374 TTATAA-TTA-AA
1 TTATAATTTATAA
15376385 TTTATAATTTATAA
1 -TTATAATTTATAA
15376399 TTA-AATTTATAA
1 TTATAATTTATAA
15376411 TT
1 TT
15376413 TATTTGACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.06
12 17 0.47
13 9 0.25
14 4 0.11
15 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATAATTTATAA
Found at i:15376480 original size:22 final size:21
Alignment explanation
Indices: 15376446--15376531 Score: 120
Period size: 22 Copynumber: 4.0 Consensus size: 21
15376436 CCCTAACCTT
15376446 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
15376467 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
15376489 AACCCTAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
15376510 AACCCCATAA-CCTTAATCTTAA
1 AA-CCC-TAACCCTTAA-CTTAA
15376532 CAAAAACTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
21 22 0.37
22 30 0.51
23 7 0.12
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:15376500 original size:43 final size:44
Alignment explanation
Indices: 15376446--15376531 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
15376436 CCCTAACCTT
* *
15376446 AACCCTAACCCTTAACTTAAAAACCCTA-AACCCTTAA-CTTAAA
1 AACCCTAACCCTTAACATAAAAACCCCATAA-CCTTAATCTTAAA
15376489 AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAA
1 AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAA
15376532 CAAAAACTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (44 bp):
AACCCTAACCCTTAACATAAAAACCCCATAACCTTAATCTTAAA
Found at i:15379990 original size:124 final size:124
Alignment explanation
Indices: 15379629--15380061 Score: 688
Period size: 124 Copynumber: 3.5 Consensus size: 124
15379619 TAAACATGCT
* * * * * *
15379629 ACTGTAGGAAAAGCGTGTCCATGAGGGCGCGATTTCATAAATTCTTCTGATAAAGCATCATACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
* * * *
15379694 GAAGCGTTTTTATATTATTCGCTCAGAAACGTAAACTCGAAATTA-TTTTTCAGGACCT
66 GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
* * *
15379752 ACTGCAGCAAAAGCGCGTCCACGTAGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
*
15379817 GAAGCGTTTTTTATACTATTCGCTCAGAAATGTCAACTCAAAATTATTTTTTCAGGACCA
66 GAAGCG-TTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
*
15379877 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAGAAATTCTTCTGATAAAGCATCCTACTT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
**
15379942 GAAGCGTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
66 GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
*
15380001 ACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCT
15380062 GCTTTGATTT
Statistics
Matches: 285, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
123 62 0.22
124 144 0.51
125 79 0.28
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTACTT
GAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACCA
Found at i:15380225 original size:22 final size:22
Alignment explanation
Indices: 15380185--15380227 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15380175 TTATATCTAA
**
15380185 AACCCTAAAAACCTTAAACCTT
1 AACCCTAAAAACCCAAAACCTT
15380207 AACCCTAAAAACCCAAAACCT
1 AACCCTAAAAACCCAAAACCT
15380228 AATGTCGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (22 bp):
AACCCTAAAAACCCAAAACCTT
Found at i:15383237 original size:6 final size:6
Alignment explanation
Indices: 15383226--15383280 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
15383216 TTGGTACATT
* *
15383226 GATGTA GATGTA GATGTA GATGTA AATGTA AATGT- GATTCGTA GATGTA
1 GATGTA GATGTA GATGTA GATGTA GATGTA GATGTA GA-T-GTA GATGTA
15383275 -ATGTA G
1 GATGTA G
15383281 GGGATGGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 6 0.14
6 32 0.74
7 3 0.07
8 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.35
Consensus pattern (6 bp):
GATGTA
Found at i:15383373 original size:10 final size:10
Alignment explanation
Indices: 15383358--15383383 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
15383348 ATATTGTTAT
15383358 CATTTTATAC
1 CATTTTATAC
15383368 CATTTTATAC
1 CATTTTATAC
15383378 CATTTT
1 CATTTT
15383384 GTTAGTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (10 bp):
CATTTTATAC
Found at i:15385082 original size:2 final size:2
Alignment explanation
Indices: 15385075--15385099 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15385065 CGTAGTTACT
15385075 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15385100 ATAGCAGCCT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15405550 original size:49 final size:49
Alignment explanation
Indices: 15405477--15405580 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
15405467 TCATGTGTTA
* * *
15405477 TAATTTTATACAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
*
15405526 TAATTTTATAAAGTGTTCG-CCTTTTGATTCATGATGTTAAACTTAATTT
1 TAATTTTATAAAGTGTT-GACCTTTTGATTCATGATATTAAACTTAATTT
15405575 TAATTT
1 TAATTT
15405581 GTTTCTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 49 0.98
50 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:15407056 original size:24 final size:22
Alignment explanation
Indices: 15407004--15407056 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
15406994 ATTTTAAATT
*
15407004 ATATTTTATAGTATTATATAAT
1 ATATTTTATAGTATTATATAAA
15407026 ATGATTTTAGTA-TATTCATATAAGA
1 AT-ATTTTA-TAGTATT-ATATAA-A
15407051 ATATTT
1 ATATTT
15407057 AATATTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.08
23 10 0.38
24 12 0.46
25 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (22 bp):
ATATTTTATAGTATTATATAAA
Found at i:15407081 original size:61 final size:61
Alignment explanation
Indices: 15407016--15407206 Score: 212
Period size: 61 Copynumber: 3.2 Consensus size: 61
15407006 ATTTTATAGT
*
15407016 ATTATATAATATGATTTTAGTATATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTATATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * *
15407077 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTATATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
* *
15407136 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTATATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
15407197 ATTATATATT
1 ATTATATATT
15407207 TTTATTAAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 31 0.31
60 14 0.14
61 42 0.42
62 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTATATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:15407109 original size:120 final size:120
Alignment explanation
Indices: 15406972--15407241 Score: 504
Period size: 120 Copynumber: 2.2 Consensus size: 120
15406962 AAGTAGATTA
15406972 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
* *
15407037 ATATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
15407092 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
15407157 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
66 AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
*
15407212 TAAATTATATTTAATAATAATTATGTTAAA
1 TAAATTATATTTAATAATAATTATTTTAAA
15407242 ATATGATTAA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 146 1.00
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (120 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGT
AAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTAT
Found at i:15407440 original size:44 final size:46
Alignment explanation
Indices: 15407386--15407479 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 46
15407376 ATTACAACAT
* *
15407386 CATTCTATTCAACCAAACACAA-GAATA-CTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
* *
15407430 CATTCCATTCAACCAAATAAAAGGATTACCTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
15407476 CATT
1 CATT
15407480 ACACCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAAAAGGAATACCTATTACGCCTCTATTC
Found at i:15407486 original size:16 final size:16
Alignment explanation
Indices: 15407461--15407498 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
15407451 AGGATTACCT
*
15407461 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
15407477 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
15407493 ATTACA
1 ATTACA
15407499 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:15408022 original size:27 final size:26
Alignment explanation
Indices: 15407955--15408046 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 26
15407945 GTATCAGTAT
15407955 ATTAATGTTT-TAAATATAATTTATTATTAG
1 ATTAAT-TTTATAAATAT--TTTA-TATT-G
*
15407985 ATTTAAGTTTTA-AAATTTTTTTATATATG
1 A-TTAA-TTTTATAAA-TATTTTATAT-TG
15408014 ATTAATTTTATAAATATTTTATATTG
1 ATTAATTTTATAAATATTTTATATTG
15408040 ATTAATT
1 ATTAATT
15408047 AAAAGGTATG
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
26 9 0.17
27 14 0.26
28 7 0.13
29 5 0.09
30 6 0.11
31 10 0.19
32 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTAATTTTATAAATATTTTATATTG
Found at i:15409840 original size:31 final size:30
Alignment explanation
Indices: 15409774--15409840 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
15409764 GTTCATTTTT
15409774 TTTTTATAATTTTTAAGAAGTTAGATTAAA
1 TTTTTATAATTTTTAAGAAGTTAGATTAAA
* *
15409804 ATTTTATCATTTTTAATGTAA-TTA-ATTTAAA
1 TTTTTATAATTTTTAA-G-AAGTTAGA-TTAAA
15409835 TTTTTA
1 TTTTTA
15409841 AAGGACCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 15 0.48
31 14 0.45
32 2 0.06
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (30 bp):
TTTTTATAATTTTTAAGAAGTTAGATTAAA
Found at i:15421346 original size:16 final size:16
Alignment explanation
Indices: 15421268--15421334 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
15421258 AAAAACAGGA
15421268 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
* * * *
15421284 AGATATATATCTATAT
1 AGAAAAAAATGTATAT
15421300 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
*
15421316 GGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
15421332 AGA
1 AGA
15421335 TATATATGTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.57, C:0.01, G:0.13, T:0.28
Consensus pattern (16 bp):
AGAAAAAAATGTATAT
Found at i:15421501 original size:17 final size:17
Alignment explanation
Indices: 15421479--15421511 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15421469 GAGTTTATAC
15421479 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
15421496 ATATAATATATTAAAA
1 ATATAATATATTAAAA
15421512 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:15423268 original size:44 final size:43
Alignment explanation
Indices: 15423077--15423660 Score: 219
Period size: 44 Copynumber: 13.8 Consensus size: 43
15423067 GTGGTTTTAG
* * *
15423077 TCTGTTCCACTGTAACTTCAGGGAGATAAGA--CTGGATGCAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
* ** * * * * * *
15423118 TCTGCTCTACTACATCTTCAGAGAGATAAGATCTTTGTTTTAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
* * * ** * *
15423161 TCCGCTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
**
15423204 TCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCCCTGGCTTCAA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-CCTGGCTTCAA
* * * **
15423248 TCTGCTCCACTATAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTG----GCTTCAA
* * * * * * *
15423294 TCTACTCTACCGTAACCTCAGGGAGATAAGA-CCT-GATGCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
* ** *
15423335 TCTACTCTGCTGTAACTTCAGAGAGATAAGA---T--C--C-A
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
* * ** * *
15423370 ----CTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
* * *
15423409 TCTGCTCCGCTGTAAAC-TCAGGAAGATAAGATTTCTGGCTTCAA
1 TCTGCTCCACTGT-AACTTCAGGGAGATAAGA-TCCTGGCTTCAA
* * **
15423453 TCTGCTCCACTGTAACCTCAGGGAGATAAGA-CCTGAAATTCTTCGG
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTG----GCTTCAA
* * * **
15423499 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGTATATTCAA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTG--GCTTCAA
* * * ** * *
15423543 CCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTCCGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAA-GATCCTGGCTTCAA
* * * * * *
15423587 TCTGCTCCTCTGT-AGTCTCAGGGAGATAAGA--CTTGATACGA
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATCCTGGCTTCAA
*
15423628 TCTGCTCCACCGTAA-TCTCAGGGAGATAAGATC
1 TCTGCTCCACTGTAACT-TCAGGGAGATAAGATC
15423661 TCTAATATTC
Statistics
Matches: 405, Mismatches: 103, Indels: 68
0.70 0.18 0.12
Matches are distributed among these distances:
31 22 0.05
34 1 0.00
35 1 0.00
36 2 0.00
38 1 0.00
39 2 0.00
41 88 0.22
42 8 0.02
43 83 0.20
44 124 0.31
45 1 0.00
46 72 0.18
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGATCCTGGCTTCAA
Found at i:15423517 original size:205 final size:205
Alignment explanation
Indices: 15423160--15423530 Score: 634
Period size: 205 Copynumber: 1.8 Consensus size: 205
15423150 CTTTGTTTTA
* * * * *
15423160 ATCCGCTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCAG
1 ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
* *
15423225 GGAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCT
66 GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
*
15423290 TCGGTCTACTCTACCGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCA
131 TCGGTCTACTCCACCGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCA
15423355 GAGAGATAAG
196 GAGAGATAAG
15423365 ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
1 ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
** *
15423430 GAAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCT
66 GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
*
15423495 TCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
131 TCGGTCTACTCCACCGTAACCTCAGGGAGATAAGAC
15423531 TTGTATATTC
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 154 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (205 bp):
ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
TCGGTCTACTCCACCGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCA
GAGAGATAAG
Found at i:15423526 original size:90 final size:90
Alignment explanation
Indices: 15423402--15423572 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 90
15423392 TAGGATAGTG
* * * * * * *
15423402 TCTTCGATCTGCTCCGCTGTAAACTCAGGAAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTA
1 TCTTCGATCTACTCCACTGTAAACTCAGGAAGATAAGACTTCTAGATTCAACCTGCCCCACTGTA
15423467 ACCTCAGGGAGATAAGACCTGAAAT
66 ACCTCAGGGAGATAAGACCTGAAAT
* * * * *
15423492 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAACCTGCCCCACTGTA
1 TCTTCGATCTACTCCACTGTAAACTCAGGAAGATAAGACTTCTAGATTCAACCTGCCCCACTGTA
*
15423557 ACTTCAGGGAGATAAG
66 ACCTCAGGGAGATAAG
15423573 GTTTGTGGCT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (90 bp):
TCTTCGATCTACTCCACTGTAAACTCAGGAAGATAAGACTTCTAGATTCAACCTGCCCCACTGTA
ACCTCAGGGAGATAAGACCTGAAAT
Found at i:15423608 original size:134 final size:133
Alignment explanation
Indices: 15423369--15423618 Score: 313
Period size: 134 Copynumber: 1.9 Consensus size: 133
15423359 GATAAGATCC
* * * * * * * *
15423369 ACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAGGAAG
1 ACTCCACTGTAACCTCAAGGAGATAAGATAGTATATTCAACCTGCCCCACTGTAAACTCAGGAAG
*
15423434 ATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
66 ATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
15423499 TCT
131 TCT
* * *
15423502 ACTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAACCTGCCCCACTGT-AACTTCAGGG
1 ACTCCACTGTAACCTCAAGGAGATAAGA-TAGTATATTCAACCTGCCCCACTGTAAAC-TCAGGA
* * * * **
15423566 AGATAAGGTTTGTGGCTCCGATCTGCTCCTCTGTAGTCTCAGGGAGATAAGAC
64 AGATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAC
15423619 TTGATACGAT
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
133 28 0.29
134 69 0.71
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (133 bp):
ACTCCACTGTAACCTCAAGGAGATAAGATAGTATATTCAACCTGCCCCACTGTAAACTCAGGAAG
ATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
TCT
Found at i:15435934 original size:16 final size:16
Alignment explanation
Indices: 15435856--15435922 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
15435846 AAAAACAGGA
15435856 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
* * * *
15435872 AGATATATATCTATAT
1 AGAAAAAAATGTATAT
15435888 AGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
*
15435904 GGAAAAAAATGTATAT
1 AGAAAAAAATGTATAT
15435920 AGA
1 AGA
15435923 TATATATGTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.57, C:0.01, G:0.13, T:0.28
Consensus pattern (16 bp):
AGAAAAAAATGTATAT
Found at i:15436087 original size:17 final size:17
Alignment explanation
Indices: 15436065--15436097 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15436055 GAGTTTATAC
15436065 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
15436082 ATATAATATATTAAAA
1 ATATAATATATTAAAA
15436098 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:15438483 original size:20 final size:19
Alignment explanation
Indices: 15438455--15438529 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
15438445 TTTTAAAATT
*
15438455 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTTAA-C
* *
15438475 AAGTCAAAATGATTTCCATC
1 AAGTCAAAATGATTT-TAAC
* *
15438495 AAGTTAAAATCATTTTAAC
1 AAGTCAAAATGATTTTAAC
15438514 ACA-TCAAAATGATTTT
1 A-AGTCAAAATGATTTT
15438530 CAAACAAGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
19 14 0.32
20 29 0.66
21 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (19 bp):
AAGTCAAAATGATTTTAAC
Found at i:15455471 original size:51 final size:52
Alignment explanation
Indices: 15455373--15455471 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 52
15455363 AATTATGTTT
** *
15455373 TTTTTTTAATTTAAACTAGTCTTATTTAGTTTTTTTATTTATCTTAGATACTC
1 TTTTTTTAA-TTAAACTAGTCTTATTTAGTTTTTTTAGCTATATTAGATACTC
* *
15455426 TTTTTTTAA-TAACCTAGTTTTATTTAGATTTTTTTAGCTA-ATTAGA
1 TTTTTTTAATTAAACTAGTCTTATTTAG-TTTTTTTAGCTATATTAGA
15455472 CTTTTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 21 0.52
52 10 0.25
53 9 0.22
ACGTcount: A:0.26, C:0.08, G:0.07, T:0.59
Consensus pattern (52 bp):
TTTTTTTAATTAAACTAGTCTTATTTAGTTTTTTTAGCTATATTAGATACTC
Found at i:15457270 original size:69 final size:69
Alignment explanation
Indices: 15457159--15457298 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
15457149 AGGAGGGGAG
15457159 CCCATGGACGTTCAATAATCATCTATTGATTTTCATAGATTAAAGCACGTGGAAGATCCGCTACA
1 CCCATGGACGTTCAATAATCATCTATTGATTTTCATAGATTAAAGCACGTGGAAGATCCGCTACA
15457224 AGTT
66 AGTT
15457228 CCCATGGACGTTCAATAATCATCTATTGATTTTCATAGATTAAAGCACGTGGAAGATCCGCTACA
1 CCCATGGACGTTCAATAATCATCTATTGATTTTCATAGATTAAAGCACGTGGAAGATCCGCTACA
15457293 AGTT
66 AGTT
15457297 CC
1 CC
15457299 TTTATTCCAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (69 bp):
CCCATGGACGTTCAATAATCATCTATTGATTTTCATAGATTAAAGCACGTGGAAGATCCGCTACA
AGTT
Found at i:15465940 original size:355 final size:355
Alignment explanation
Indices: 15465289--15465990 Score: 1172
Period size: 355 Copynumber: 2.0 Consensus size: 355
15465279 GTTCAGCAAA
**
15465289 TCACAATACAAAAGGGATTCTGGACTACGTTCACAGTGATGTGTGAGGACCTACTAAAGTGGCTT
1 TCACAATACAAAAGAAATTCTGGACTACGTTCACAGTGATGTGTGAGGACCTACTAAAGTGGCTT
* *
15465354 CTTTGGGAGGTATGCACTGTTTTGTTACTTTTGTTGATGATTATTCAAGAAAAGTATGGATGTAT
66 CTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTAT
*
15465419 CTAATGAAAAGAAAAAATGAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCCA
131 CTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCCA
* * * * * * *
15465484 TATTGGACGAAAGGTTAAACGACTTCGATCAGACAATGGTACTGAGTACCAGAATGATCTATTTC
196 AACTGGACAAAAAGTCAAACGACTTCGATCAGACAATGGTACTGAGTACAAGAATGATCCATTTC
*
15465549 TACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAATAAAAT
261 TACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAAT
* *
15465614 GGGGTGGCAGAACGTATGAATCGGAGTAAT
326 AGGGTGGCAGAACATATGAATCGGAGTAAT
*
15465644 TCACAATACAAAAGAAATTCTGGACTACGTTCACAGTGATGTGTG-GAGACCTATTAAAGTGGCT
1 TCACAATACAAAAGAAATTCTGGACTACGTTCACAGTGATGTGTGAG-GACCTACTAAAGTGGCT
* *
15465708 TCTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAATAAAAATATGGGTGTA
65 TCTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTA
* *
15465773 TCTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAGAAGATGGTGGAGACCC
130 TCTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCC
* * *
15465838 AAACTGGTCAAAAAGTCAAGCGACTTCGATCAGACAATGGTATTGAGTACAAGAATGATCCATTT
195 AAACTGGACAAAAAGTCAAACGACTTCGATCAGACAATGGTACTGAGTACAAGAATGATCCATTT
*
15465903 CTACAAGTATGTCAAGATGATGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAA
260 CTACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAA
15465968 TAGGGTGGCAGAACATATGAATC
325 TAGGGTGGCAGAACATATGAATC
15465991 AGACTATACT
Statistics
Matches: 322, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
354 1 0.00
355 321 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (355 bp):
TCACAATACAAAAGAAATTCTGGACTACGTTCACAGTGATGTGTGAGGACCTACTAAAGTGGCTT
CTTTGGGAGGTATGCACTATTTTGTTACTTTTGTTGATGATTATTCAAGAAAAATATGGATGTAT
CTAATGAAAAGAAAAAATAAAGTTTTGGATGCATTTCTGAAATGGAAAAAGATAGTGGAGACCCA
AACTGGACAAAAAGTCAAACGACTTCGATCAGACAATGGTACTGAGTACAAGAATGATCCATTTC
TACAAGTATGTCAAGATGAGGGCATTGTGCGACACTTCACTGTTCGAGATACACCACAACAAAAT
AGGGTGGCAGAACATATGAATCGGAGTAAT
Found at i:15467252 original size:17 final size:17
Alignment explanation
Indices: 15467230--15467262 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15467220 ATAGAAAGTC
15467230 AAAGATATGGGTATCAT
1 AAAGATATGGGTATCAT
15467247 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
15467263 AAATCTGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (17 bp):
AAAGATATGGGTATCAT
Found at i:15469950 original size:19 final size:19
Alignment explanation
Indices: 15469908--15469951 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
15469898 GCACCTTTTC
15469908 CTTTTTTTTCATCAAC-TT
1 CTTTTTTTTCATCAACATT
* *
15469926 TTTTTTTTTTATCAACCATT
1 CTTTTTTTTCATCAA-CATT
15469946 CTTTTT
1 CTTTTT
15469952 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (19 bp):
CTTTTTTTTCATCAACATT
Found at i:15484966 original size:22 final size:24
Alignment explanation
Indices: 15484941--15484985 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
15484931 ATATGACAAA
15484941 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
15484963 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
15484986 AACTTAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:15498393 original size:2 final size:2
Alignment explanation
Indices: 15498386--15498412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15498376 AATTGATGAC
15498386 AT 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 AT A
15498413 GTAAATGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15504301 original size:4 final size:4
Alignment explanation
Indices: 15504292--15504321 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
15504282 CCTACTTTCT
15504292 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
15504322 CTTCAGCTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:15508214 original size:25 final size:24
Alignment explanation
Indices: 15508183--15508255 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
15508173 CCACAGCTTG
15508183 TATGAGCTTACCGATTTGCAGCTCA
1 TATGAGCTTACCGATTT-CAGCTCA
* *
15508208 TGA-GAGCTTACCAATTCTCAGCTCG
1 T-ATGAGCTTACCGATT-TCAGCTCA
*
15508233 TATGAGCTTACCGTATTTTAGCT
1 TATGAGCTTACCG-ATTTCAGCT
15508256 TTGAAGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.03
25 34 0.85
26 5 0.12
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (24 bp):
TATGAGCTTACCGATTTCAGCTCA
Found at i:15510313 original size:24 final size:24
Alignment explanation
Indices: 15510281--15510335 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
15510271 TCTTCCAGTT
15510281 AAACTCTGTTTATTTATTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
* *
15510305 AAACTCTGTTTATTTGTTTTAATC
1 AAACTCTGTTTATTTATTTCAATC
15510329 AAACTCT
1 AAACTCT
15510336 AATTAGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:15531781 original size:3 final size:3
Alignment explanation
Indices: 15531773--15531805 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15531763 TTTCTCTTGG
15531773 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
15531806 TTACAGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:15532627 original size:15 final size:15
Alignment explanation
Indices: 15532607--15532635 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15532597 GTACCAGACA
15532607 TGGATAATGAAAAAT
1 TGGATAATGAAAAAT
15532622 TGGATAATGAAAAA
1 TGGATAATGAAAAA
15532636 CAAGTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (15 bp):
TGGATAATGAAAAAT
Found at i:15535730 original size:50 final size:50
Alignment explanation
Indices: 15535667--15535762 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
15535657 CAGCAAATAC
* * *
15535667 ATGGTCCAAAGAGCGAAACTTGGTTTCAAGTTACGGAAATAAGTCTCAAT
1 ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCTCAAT
* * *
15535717 ATGGTCCATAGAGCAAAATTTTGTTTCAAGTTACAGAAAGAAGTCT
1 ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCT
15535763 AAATTAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCCAAAGAGCAAAACTTGGTTTCAAGTTACAGAAAGAAGTCTCAAT
Found at i:15540804 original size:19 final size:19
Alignment explanation
Indices: 15540773--15540816 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
15540763 CAAGCTTAAT
15540773 ATTAAATTAATTAAGATTTA
1 ATTAAATTAATTAAG-TTTA
*
15540793 GTTAAA-TAATTAAGTTTA
1 ATTAAATTAATTAAGTTTA
15540811 ATTAAA
1 ATTAAA
15540817 CGTTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 8 0.36
20 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (19 bp):
ATTAAATTAATTAAGTTTA
Found at i:15542129 original size:16 final size:17
Alignment explanation
Indices: 15542086--15542131 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
15542076 GAGTATAGTT
15542086 TAATA-GTATATG-TTA
1 TAATATGTATATGATTA
*
15542101 TAATATG-AAATGATTA
1 TAATATGTATATGATTA
15542117 T-ATATGTATATGATT
1 TAATATGTATATGATT
15542132 TTGGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (17 bp):
TAATATGTATATGATTA
Found at i:15551807 original size:6 final size:6
Alignment explanation
Indices: 15551761--15551794 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
15551751 AGCAGTGGAG
15551761 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
15551795 AATAAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:15555665 original size:50 final size:50
Alignment explanation
Indices: 15555541--15555789 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
15555531 GATAATAACA
* * ** * *
15555541 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
15555592 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
15555642 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
15555692 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
15555747 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15555790 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15555719 original size:100 final size:104
Alignment explanation
Indices: 15555540--15555789 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
15555530 TGATAATAAC
**
15555540 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
15555605 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
15555642 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
15555705 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
15555747 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
15555790 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:15555905 original size:13 final size:13
Alignment explanation
Indices: 15555884--15555915 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15555874 GCTTGGATCA
*
15555884 TCATCAAATAAAT
1 TCATAAAATAAAT
15555897 TCATAAAATAAAT
1 TCATAAAATAAAT
15555910 TCATAA
1 TCATAA
15555916 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15556163 original size:30 final size:30
Alignment explanation
Indices: 15556127--15556184 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15556117 CCTCGACTCT
* *
15556127 AACTTTTTCAAAATTATAATTTTGCCCCTG
1 AACTTTTACAAAATTACAATTTTGCCCCTG
* *
15556157 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15556185 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTG
Found at i:15556953 original size:40 final size:40
Alignment explanation
Indices: 15556891--15556985 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
15556881 CTTTTCTTTC
* *
15556891 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
15556932 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
15556972 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
15556986 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:15557022 original size:5 final size:5
Alignment explanation
Indices: 15557006--15557040 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
15556996 TATATATATA
15557006 ATAAT AATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
15557041 AAACATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:15559843 original size:17 final size:17
Alignment explanation
Indices: 15559795--15559859 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
15559785 AAATTTTAGG
*
15559795 CTTAAGTGAATTTTTGAA
1 CTTAAGT-AAATTTTGAA
**
15559813 CTTAAGTATGTTTTGAA
1 CTTAAGTAAATTTTGAA
*
15559830 CTTAAGTAAATTTTTAA
1 CTTAAGTAAATTTTGAA
* *
15559847 TTTGAGTAAATTT
1 CTTAAGTAAATTT
15559860 CAAACTGCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 33 0.82
18 7 0.17
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (17 bp):
CTTAAGTAAATTTTGAA
Found at i:15560306 original size:124 final size:127
Alignment explanation
Indices: 15560025--15560312 Score: 332
Period size: 124 Copynumber: 2.3 Consensus size: 127
15560015 TTTAGAGTTG
* * * * * **
15560025 TTTTTAGAGGTTGCGATCATAAACCGACAAATCTTTATAACATTAGCTGGGATCGTAGGTCTGCT
1 TTTTTAGAGGTTGCGATCATAAACTGAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCACT
* * * * ** * *
15560090 AGTTTTGTTGGAGATGCGAGCAAGCTCTTAGAATATCATCTGGGAACATAGGTTTGCTAGTTG
66 AGCTGTGTT-GAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
* *
15560153 TTTTTAGAGGTTGCGATCATAAA-TCGAAAAACCTTTATTACATTAGTTGAGAGCGTAGGTCCAC
1 TTTTTAGAGGTTGCGATCATAAACT-GAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCAC
* * *
15560217 TAGCTGTGTT-AGA-GC-TGCGAGCTCTTAGAATATCAGCTGAGAATATAGGTCCGCTAGCTA
65 TAGCTGTGTTGAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
* *
15560277 TTTTTGGAGGTTGTGATCATAAACTGAAAAACCTTT
1 TTTTTAGAGGTTGCGATCATAAACTGAAAAACCTTT
15560313 GAATAATACT
Statistics
Matches: 136, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
124 68 0.50
125 3 0.02
126 3 0.02
128 62 0.46
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (127 bp):
TTTTTAGAGGTTGCGATCATAAACTGAAAAACCTTTATAACATTAGCTGAGAGCGTAGGTCCACT
AGCTGTGTTGAGATGCGAGCAAGCTCTTAGAATATCAGCTGAGAACATAGGTCCGCTAGCTA
Found at i:15564296 original size:10 final size:10
Alignment explanation
Indices: 15564269--15564313 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15564259 GACACACATC
15564269 AATCACATAT
1 AATCACATAT
*
15564279 AAGCACATAT
1 AATCACATAT
* *
15564289 AATTACATAC
1 AATCACATAT
*
15564299 AATCACATTT
1 AATCACATAT
15564309 AATCA
1 AATCA
15564314 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (10 bp):
AATCACATAT
Found at i:15572630 original size:196 final size:196
Alignment explanation
Indices: 15572276--15572647 Score: 573
Period size: 196 Copynumber: 1.9 Consensus size: 196
15572266 TTCCACAAGC
15572276 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
1 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
* ** * *
15572341 GAACCTTTTACAATGATACTTCTAAGTCAAAACCATCTCAGGAGCATACCGACAAAGGTGCACAA
66 GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
* *
15572406 GCTCTACCTCATAGTCAGCCACAGACAAGCTACCTTGCACAGGATCTAAAAATTACCACCATAAG
131 ACTCTACCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCTAAAAATTACCACCATAAG
15572471 T
196 T
*
15572472 TCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
1 TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
* * * * * * *
15572537 GAACCTCTTACAATGATCCTTCTCAGTCAAAACTATCTTAAAAGAATACTGACTAAGGCGCATAA
66 GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
* * * *
15572602 ACTCTGCCTCGTAGTTAGCCATAGACAAGCTACCTTGCACAAGATC
131 ACTCTACCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATC
15572648 CATATACTGC
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
196 157 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (196 bp):
TCATCAAACAACTCTGTATTTTGGGCCACTAAATAAACCTGAATCTCACGATTGAGCCCAAAGCG
GAACCTCTTACAATGATACTTCTAAGTCAAAACCATCTCAAAAGAATACCGACAAAGGCGCACAA
ACTCTACCTCATAGTCAGCCACAGACAAGCTACCTTGCACAAGATCTAAAAATTACCACCATAAG
T
Found at i:15573695 original size:20 final size:22
Alignment explanation
Indices: 15573670--15573722 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
15573660 GTGTTATGCA
15573670 GGTATCGATACTGCCTTT-A-T
1 GGTATCGATACTGCCTTTAAGT
* *
15573690 GGTATCGATATTTCCTTTAAGT
1 GGTATCGATACTGCCTTTAAGT
*
15573712 GGTATCTATAC
1 GGTATCGATAC
15573723 CATTTGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 1 0.04
22 10 0.37
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (22 bp):
GGTATCGATACTGCCTTTAAGT
Found at i:15574507 original size:10 final size:10
Alignment explanation
Indices: 15574480--15574524 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15574470 GACACACATC
15574480 AATCACATAT
1 AATCACATAT
*
15574490 AAGCACATAT
1 AATCACATAT
* *
15574500 AATTACATAC
1 AATCACATAT
*
15574510 AATCACATTT
1 AATCACATAT
15574520 AATCA
1 AATCA
15574525 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (10 bp):
AATCACATAT
Found at i:15575004 original size:8 final size:8
Alignment explanation
Indices: 15574993--15575017 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15574983 TGTTCATGAT
15574993 TTCACAAA
1 TTCACAAA
15575001 TTCACAAA
1 TTCACAAA
15575009 TTCACAAA
1 TTCACAAA
15575017 T
1 T
15575018 AAACTTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (8 bp):
TTCACAAA
Found at i:15579345 original size:15 final size:15
Alignment explanation
Indices: 15579325--15579373 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
15579315 TGTATATTAT
15579325 AATATTAATTAATAA
1 AATATTAATTAATAA
*
15579340 AATATTATTACTTATTAA
1 AATATTA--A-TTAATAA
15579358 AATATT-ATTAATAA
1 AATATTAATTAATAA
15579372 AA
1 AA
15579374 ATATCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
17 1 0.03
18 12 0.41
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTAATTAATAA
Found at i:15579358 original size:18 final size:18
Alignment explanation
Indices: 15579327--15579369 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
15579317 TATATTATAA
15579327 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
15579345 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
15579363 TATTAAT
1 TATTAAT
15579370 AAAAATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:15579945 original size:20 final size:20
Alignment explanation
Indices: 15579909--15579946 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15579899 ATGAAAACAA
*
15579909 TTAGAATTAAATCTTAAGGT
1 TTAGAATTAAATATTAAGGT
15579929 TTAGAAATTAAA-ATTAAG
1 TTAG-AATTAAATATTAAG
15579947 TGCATGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (20 bp):
TTAGAATTAAATATTAAGGT
Found at i:15588856 original size:41 final size:41
Alignment explanation
Indices: 15588811--15588955 Score: 200
Period size: 41 Copynumber: 3.5 Consensus size: 41
15588801 GACTTTAAGT
* *
15588811 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
15588852 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * * * *
15588893 CTAGCAAGCTACGTGCCGGTGATTTGAATCAGGCTATCAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
15588934 CTAGCAGGCTAAGTGTCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
15588956 ATATGTTAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:15589791 original size:39 final size:39
Alignment explanation
Indices: 15589737--15589836 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
15589727 CATGTTTTTA
* *
15589737 AGTATTGTGATATATGCTTGAATATTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
*
15589776 AGTATTGTGATATATGCTTAAATGTTAAGTGATTATATG
1 AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
* * *
15589815 TGAAATGTGATATATGCTTAAA
1 AGTATTGTGATATATGCTTAAA
15589837 AGTGAATATG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATATTAAGTGATTATATG
Found at i:15589841 original size:17 final size:17
Alignment explanation
Indices: 15589802--15589850 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
15589792 CTTAAATGTT
*
15589802 AAGTGATTATATG-TGAA
1 AAGTGA-TATATGCTTAA
*
15589819 ATGTGATATATGCTTAA
1 AAGTGATATATGCTTAA
15589836 AAGTGA-ATATGCTTA
1 AAGTGATATATGCTTA
15589851 CCTTATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (17 bp):
AAGTGATATATGCTTAA
Found at i:15592092 original size:22 final size:22
Alignment explanation
Indices: 15592051--15592100 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
15592041 CTCATCTTTA
*
15592051 GTGTTATTGTTTCTTTATTTTT
1 GTGTTATTGTTTCTTAATTTTT
*
15592073 GTGTTAGTTGTTT-TTAATTTAT
1 GTGTTA-TTGTTTCTTAATTTTT
15592095 GT-TTAT
1 GTGTTAT
15592101 CTAGTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 15 0.60
23 6 0.24
ACGTcount: A:0.14, C:0.02, G:0.16, T:0.68
Consensus pattern (22 bp):
GTGTTATTGTTTCTTAATTTTT
Found at i:15595328 original size:28 final size:28
Alignment explanation
Indices: 15595197--15595361 Score: 181
Period size: 28 Copynumber: 5.9 Consensus size: 28
15595187 CCATGGCATA
* * *
15595197 TTCAAGTAAGAGTCTGCATGGATTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* * *
15595225 ATCAAGTAAGAGTCAGCATGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* *
15595253 ATCAAGTAAGAGTCCGCATGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* *
15595281 TTCAAGAAAGAGTTCGCAAGGACTATCT
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
* * *
15595309 TTCAAGTAAGAGTCCACAAGGATTGT-T
1 TTCAAGTAAGAGTCCGCAAGGACTATCT
15595336 CTTCAAG-AAGGAGTCCGCAAGGACTA
1 -TTCAAGTAA-GAGTCCGCAAGGACTA
15595362 ACTAATGAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
27 3 0.03
28 116 0.97
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (28 bp):
TTCAAGTAAGAGTCCGCAAGGACTATCT
Found at i:15597081 original size:20 final size:20
Alignment explanation
Indices: 15597056--15597125 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 20
15597046 AAAGCCTGCT
15597056 GATCATCGTAACTACCATTG
1 GATCATCGTAACTACCATTG
* *
15597076 GATCATTTCCTTAAAT-CCATTG
1 GATCA--T-CGTAACTACCATTG
15597098 ATGATCATCGTAACTACCATTG
1 --GATCATCGTAACTACCATTG
15597120 GATCAT
1 GATCAT
15597126 TTCCTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 11 0.28
21 5 0.12
22 14 0.35
23 5 0.12
24 5 0.12
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (20 bp):
GATCATCGTAACTACCATTG
Found at i:15597097 original size:22 final size:23
Alignment explanation
Indices: 15597068--15597132 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
15597058 TCATCGTAAC
15597068 TACCATTGGATCATTTCCTTAAA
1 TACCATTGGATCATTTCCTTAAA
* *
15597091 T-CCATTGATGATCA--T-CGTAAC
1 TACCATTG--GATCATTTCCTTAAA
15597112 TACCATTGGATCATTTCCTTA
1 TACCATTGGATCATTTCCTTA
15597133 TTTTCCAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 14 0.42
23 4 0.12
24 5 0.15
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (23 bp):
TACCATTGGATCATTTCCTTAAA
Found at i:15604998 original size:3 final size:3
Alignment explanation
Indices: 15604990--15605016 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15604980 TTAGTTTCCG
15604990 GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA
15605017 TATCAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:15608624 original size:32 final size:32
Alignment explanation
Indices: 15608579--15608647 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
15608569 GGTGAGACGA
15608579 CTTAATTCCATTATATAAAAACCTAGTTAACT
1 CTTAATTCCATTATATAAAAACCTAGTTAACT
*
15608611 CTTAATTCTATTATATAAAAACCTAGTTAACT
1 CTTAATTCCATTATATAAAAACCTAGTTAACT
15608643 CTTAA
1 CTTAA
15608648 AAGCAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (32 bp):
CTTAATTCCATTATATAAAAACCTAGTTAACT
Found at i:15619918 original size:20 final size:20
Alignment explanation
Indices: 15619895--15619941 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
15619885 GGGTTAAGAT
*
15619895 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
15619915 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
15619935 TGAGCTG
1 TGAGCTG
15619942 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:15621146 original size:51 final size:53
Alignment explanation
Indices: 15621082--15621189 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 53
15621072 AGCAATTAAC
15621082 AAATCAACCGACCATTATTTTATCA-TTACATTGTCTAAAGCAATAGGGAA-G
1 AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
* * * *
15621133 AAATCAACTGACCATTGTTTTATCATTTATATTGTCTAAAGTAATAGGGAAGG
1 AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
15621186 AAAT
1 AAAT
15621190 TAGATTAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 23 0.45
52 23 0.45
53 5 0.10
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (53 bp):
AAATCAACCGACCATTATTTTATCATTTACATTGTCTAAAGCAATAGGGAAGG
Found at i:15622238 original size:37 final size:37
Alignment explanation
Indices: 15622175--15622261 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
15622165 AAAATGAATA
* *
15622175 ATTCCCTGGCAAAAGAAGATAGAGATGAATAGGAGTG
1 ATTCCCTGCCAAAAGAAGATAGAGATGAACAGGAGTG
* * *
15622212 ATTCTCTGCCAAAAGAA-ATCGAAGATGAACATGAGTG
1 ATTCCCTGCCAAAAGAAGATAG-AGATGAACAGGAGTG
15622249 ATTCCCTGCCAAA
1 ATTCCCTGCCAAA
15622262 TGCGGACGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 3 0.07
37 40 0.93
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (37 bp):
ATTCCCTGCCAAAAGAAGATAGAGATGAACAGGAGTG
Found at i:15622501 original size:22 final size:23
Alignment explanation
Indices: 15622470--15622521 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
15622460 CACATCGACC
15622470 AACAAATCAAATTTAA-ATTCAA
1 AACAAATCAAATTTAACATTCAA
* *
15622492 AACAATTCAAATTTAACTTTCAA
1 AACAAATCAAATTTAACATTCAA
*
15622515 AAAAAAT
1 AACAAAT
15622522 AATTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (23 bp):
AACAAATCAAATTTAACATTCAA
Found at i:15622567 original size:37 final size:37
Alignment explanation
Indices: 15622492--15622571 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
15622482 TTAAATTCAA
* *
15622492 AACAATTCAAATTTAACTTTCAAAAAAAATAATTTTC
1 AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
* ** **
15622529 AACAAATCAAATTTAATTTTTTAAAAATTTAATGTTC
1 AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
15622566 AA-AAAT
1 AACAAAT
15622572 TTTCTTAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (37 bp):
AACAAATCAAATTTAACTTTCAAAAAAAATAATGTTC
Found at i:15624003 original size:58 final size:58
Alignment explanation
Indices: 15623940--15624065 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
15623930 TTTTAATAAG
* *
15623940 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
15623998 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
15624056 ATTATTATTA
1 ATTATTATTA
15624066 TATGAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.36
58 39 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:15624086 original size:58 final size:56
Alignment explanation
Indices: 15623927--15624093 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 56
15623917 TATTGTTATT
* * * *
15623927 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAA-AAAAATAATATATAATTTAACA
* * *
15623985 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATTTAACA
*
15624042 AAATTCTTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT
15624094 ACTATAAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
56 11 0.12
57 24 0.26
58 58 0.62
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATTTAACA
Found at i:15628050 original size:47 final size:47
Alignment explanation
Indices: 15627999--15628094 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
15627989 TATTGTAATG
* *
15627999 TTAATTACAATTTTTAATCAAACAATATAAGTAATGTAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
*
15628046 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
15628093 TT
1 TT
15628095 GAAGATCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (47 bp):
TTAATTACAATTTTCAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:15630225 original size:25 final size:25
Alignment explanation
Indices: 15630196--15630246 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15630186 TTACATCAAG
15630196 AAAGCTTAAATGCATCCAAAATCTA
1 AAAGCTTAAATGCATCCAAAATCTA
15630221 AAAGCTTAAATGCATCCAAAATCTA
1 AAAGCTTAAATGCATCCAAAATCTA
15630246 A
1 A
15630247 CAATATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.24
Consensus pattern (25 bp):
AAAGCTTAAATGCATCCAAAATCTA
Found at i:15633484 original size:21 final size:22
Alignment explanation
Indices: 15633455--15633501 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15633445 CAGAAGGAGT
*
15633455 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15633477 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
15633498 GAGT
1 GAGT
15633502 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:15634661 original size:21 final size:21
Alignment explanation
Indices: 15634635--15634678 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
15634625 AAAAAAAAGA
15634635 TTAAAAAATCTTTATTCTAGG
1 TTAAAAAATCTTTATTCTAGG
*
15634656 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTAGG
15634677 TT
1 TT
15634679 TTCGTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTAGG
Found at i:15635521 original size:16 final size:15
Alignment explanation
Indices: 15635487--15635529 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
15635477 AAAAGAATGG
15635487 AAAATAAAAGAAAAA
1 AAAATAAAAGAAAAA
* *
15635502 AAAATTAAAAGAACAT
1 AAAA-TAAAAGAAAAA
*
15635518 AAAAGAAAAGAA
1 AAAATAAAAGAA
15635530 TTAAATTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAATAAAAGAAAAA
Found at i:15636680 original size:16 final size:18
Alignment explanation
Indices: 15636647--15636684 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15636637 ATCCTTATTT
15636647 AAATAAAATATAATAGTA
1 AAATAAAATATAATAGTA
15636665 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
15636681 AAAT
1 AAAT
15636685 CCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:15640966 original size:20 final size:20
Alignment explanation
Indices: 15640941--15641007 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
15640931 GGAGCACCAA
*
15640941 ACCAAAATTTATGAGAGAAT
1 ACCAAAAATTATGAGAGAAT
*
15640961 ACCAAAAAAATATGAGA-AAGT
1 ACC-AAAAATTATGAGAGAA-T
* * *
15640982 ACCAAAAATTATAAAAGATT
1 ACCAAAAATTATGAGAGAAT
15641002 ACCAAA
1 ACCAAA
15641008 CCAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.19
Consensus pattern (20 bp):
ACCAAAAATTATGAGAGAAT
Found at i:15640974 original size:21 final size:21
Alignment explanation
Indices: 15640950--15640989 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15640940 AACCAAAATT
15640950 TATGAGAGAA-TACCAAAAAAA
1 TATGAGA-AAGTACCAAAAAAA
15640971 TATGAGAAAGTACCAAAAA
1 TATGAGAAAGTACCAAAAA
15640990 TTATAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (21 bp):
TATGAGAAAGTACCAAAAAAA
Found at i:15641341 original size:3 final size:3
Alignment explanation
Indices: 15641333--15641359 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15641323 CACCCTTTTT
15641333 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
15641360 CTCCATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15648454 original size:17 final size:17
Alignment explanation
Indices: 15648432--15648495 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
15648422 AATCTTAGAG
15648432 TTCTAATTGTACACAGC
1 TTCTAATTGTACACAGC
* *
15648449 TTCTAATTGTGTCTTAGAG-
1 TTCTAATTGT-AC--ACAGC
*
15648468 TTCTAATTGTATACAGC
1 TTCTAATTGTACACAGC
*
15648485 TTTTAATTGTA
1 TTCTAATTGTA
15648496 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
18 1 0.03
19 10 0.27
20 3 0.08
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
TTCTAATTGTACACAGC
Found at i:15648471 original size:36 final size:36
Alignment explanation
Indices: 15648424--15648494 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
15648414 GATTATGTAA
15648424 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
* *
15648460 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGT
15648495 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
Found at i:15648473 original size:19 final size:18
Alignment explanation
Indices: 15648424--15648477 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
15648414 GATTATGTAA
15648424 TCTTAGAGTTCTAATTGT
1 TCTTAGAGTTCTAATTGT
* *
15648442 AC--ACAGCTTCTAATTGT
1 TCTTAGAG-TTCTAATTGT
15648459 GTCTTAGAGTTCTAATTGT
1 -TCTTAGAGTTCTAATTGT
15648478 ATACAGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
18 2 0.07
19 10 0.36
20 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTGT
Found at i:15653124 original size:13 final size:13
Alignment explanation
Indices: 15653106--15653130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15653096 AATTTTAATA
15653106 TTATTTTGTGTGT
1 TTATTTTGTGTGT
15653119 TTATTTTGTGTG
1 TTATTTTGTGTG
15653131 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:15654347 original size:115 final size:114
Alignment explanation
Indices: 15654106--15654438 Score: 551
Period size: 114 Copynumber: 2.9 Consensus size: 114
15654096 TTAAATCAGC
* * * * * * **
15654106 ATATATATATTTATTTTATATTTGATGAGCTATAATTAAAAATATATGAATTTTTAATTAGTTAA
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATAT-AAATTGAAATTAGTTAA
15654171 GTATGAATGTTATATATAT-CATAAATGAAGTTCGAATATATGTAAATAT
65 GTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
*
15654220 ATATGCATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAT
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAA-
*
15654285 GTGTGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
65 GTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
15654335 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
1 ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
15654400 TATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
15654439 GTATATATGA
Statistics
Matches: 205, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
113 14 0.07
114 98 0.48
115 93 0.45
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.42
Consensus pattern (114 bp):
ATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGTTAAG
TATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAAATAT
Found at i:15654977 original size:41 final size:41
Alignment explanation
Indices: 15654922--15655030 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
15654912 TTTCGGACTT
* *
15654922 TAAGTTTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCTTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
15654963 TAAAGC-TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
1 T-AAGCTTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
* *
15655004 TAATCTTAGCAGGTTAAGTGCCGGTGA
1 TAAGCTTAGCAGGCTAAGTGCCGGTGA
15655031 ATATGTTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
40 3 0.05
41 56 0.90
42 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (41 bp):
TAAGCTTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
Found at i:15656394 original size:17 final size:17
Alignment explanation
Indices: 15656372--15656435 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
15656362 AATCTTAGAG
15656372 TTCTAATTGTACACAGC
1 TTCTAATTGTACACAGC
* *
15656389 TTCTAATTGTGTCTTAGAG-
1 TTCTAATTGT-AC--ACAGC
*
15656408 TTCTAATTGTATACAGC
1 TTCTAATTGTACACAGC
*
15656425 TTTTAATTGTA
1 TTCTAATTGTA
15656436 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
18 1 0.03
19 10 0.27
20 3 0.08
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
TTCTAATTGTACACAGC
Found at i:15656411 original size:36 final size:36
Alignment explanation
Indices: 15656364--15656434 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
15656354 GATTATGTAA
15656364 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
* *
15656400 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGT
15656435 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTACACAGCTTCTAATTGTG
Found at i:15656413 original size:19 final size:18
Alignment explanation
Indices: 15656364--15656417 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
15656354 GATTATGTAA
15656364 TCTTAGAGTTCTAATTGT
1 TCTTAGAGTTCTAATTGT
* *
15656382 AC--ACAGCTTCTAATTGT
1 TCTTAGAG-TTCTAATTGT
15656399 GTCTTAGAGTTCTAATTGT
1 -TCTTAGAGTTCTAATTGT
15656418 ATACAGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.11
17 10 0.36
18 2 0.07
19 10 0.36
20 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTTAGAGTTCTAATTGT
Found at i:15657256 original size:37 final size:37
Alignment explanation
Indices: 15657214--15657284 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
15657204 TTGTACTTTC
*
15657214 AAATTTAACAATATT-TACAATTTAGTCCTTAAAATCT
1 AAATTT-ACAATATTCTACAATTTAATCCTTAAAATCT
* * *
15657251 AAATTTTCACTATTCTATAATTTAATCCTTAAAA
1 AAATTTACAATATTCTACAATTTAATCCTTAAAA
15657285 ATAGAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 6 0.21
37 23 0.79
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.42
Consensus pattern (37 bp):
AAATTTACAATATTCTACAATTTAATCCTTAAAATCT
Found at i:15657760 original size:24 final size:25
Alignment explanation
Indices: 15657718--15657767 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15657708 TCTTACTTTC
15657718 AATTATTCACATAAAATCATCCACCA
1 AATTATT-ACATAAAATCATCCACCA
* *
15657744 AATTATT-CATAATATCATTCACCA
1 AATTATTACATAAAATCATCCACCA
15657768 TTCACTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (25 bp):
AATTATTACATAAAATCATCCACCA
Found at i:15659536 original size:9 final size:9
Alignment explanation
Indices: 15659522--15659547 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15659512 TTTATTTTTA
15659522 AAAATATTT
1 AAAATATTT
15659531 AAAATATTT
1 AAAATATTT
15659540 AAAATATT
1 AAAATATT
15659548 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:15659709 original size:16 final size:17
Alignment explanation
Indices: 15659673--15659709 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
15659663 CAATTTTATT
15659673 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
15659690 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
15659705 TAATA
1 TAATA
15659710 TTCATCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:15664241 original size:21 final size:21
Alignment explanation
Indices: 15664213--15664263 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
15664203 TTCTTTTGAA
*
15664213 CATCTGCTTCTCTCGCTGCAG
1 CATCTGCTTCCCTCGCTGCAG
* *
15664234 CCTCTGCTTCCCTCGCTGCCG
1 CATCTGCTTCCCTCGCTGCAG
15664255 CATCTGCTT
1 CATCTGCTT
15664264 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.43, G:0.18, T:0.33
Consensus pattern (21 bp):
CATCTGCTTCCCTCGCTGCAG
Found at i:15667113 original size:9 final size:9
Alignment explanation
Indices: 15667087--15667310 Score: 196
Period size: 9 Copynumber: 24.3 Consensus size: 9
15667077 ATTTGCACGG
15667087 GTAAGTTAT
1 GTAAGTTAT
* *
15667096 TTAATTTAT
1 GTAAGTTAT
15667105 GTAAGTTAT
1 GTAAGTTAT
15667114 GTAAGTTAT
1 GTAAGTTAT
* *
15667123 TTAATTTAT
1 GTAAGTTAT
*
15667132 GTAGGTTAT
1 GTAAGTTAT
*
15667141 GTAAGTCCAT
1 GTAAGT-TAT
* *
15667151 GAAATTTAT
1 GTAAGTTAT
*
15667160 GTAAGTTGT
1 GTAAGTTAT
15667169 GTAAGTTAT
1 GTAAGTTAT
* *
15667178 TTAATTTAT
1 GTAAGTTAT
15667187 GTAAGTTAT
1 GTAAGTTAT
15667196 GTAAGTTAT
1 GTAAGTTAT
* *
15667205 TTAATTTAT
1 GTAAGTTAT
*
15667214 GTAGGTTAT
1 GTAAGTTAT
15667223 GTAAGTTAT
1 GTAAGTTAT
*
15667232 GTATGTTAT
1 GTAAGTTAT
* **
15667241 TTATTTTAT
1 GTAAGTTAT
*
15667250 GCAAGTTTAT
1 GTAAG-TTAT
15667260 GTAAGTTAT
1 GTAAGTTAT
* *
15667269 TTAATTTAT
1 GTAAGTTAT
15667278 GTAAGTTAT
1 GTAAGTTAT
*
15667287 GCAAGCTTAT
1 GTAAG-TTAT
*
15667297 ATACAAGTTAT
1 GT--AAGTTAT
15667308 GTA
1 GTA
15667311 TTATAACATA
Statistics
Matches: 166, Mismatches: 44, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
9 140 0.84
10 18 0.11
11 5 0.03
12 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:15667125 original size:27 final size:27
Alignment explanation
Indices: 15667087--15667286 Score: 231
Period size: 27 Copynumber: 7.3 Consensus size: 27
15667077 ATTTGCACGG
15667087 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
15667114 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* ** *
15667141 GTAAGTCCATGAAATTTATGTAAGTTGT
1 GTAAGT-TATTTAATTTATGTAAGTTAT
15667169 GTAAGTTATTTAATTTATGTAAGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
*
15667196 GTAAGTTATTTAATTTATGTAGGTTAT
1 GTAAGTTATTTAATTTATGTAAGTTAT
* * **
15667223 GTAAGTTATGT-ATGTTATTTATTTTAT
1 GTAAGTTATTTAAT-TTATGTAAGTTAT
* * * * *
15667250 GCAAGTTTATGTAAGTTATTTAATTTAT
1 GTAAG-TTATTTAATTTATGTAAGTTAT
15667278 GTAAGTTAT
1 GTAAGTTAT
15667287 GCAAGCTTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 103 0.69
28 44 0.29
29 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (27 bp):
GTAAGTTATTTAATTTATGTAAGTTAT
Found at i:15667540 original size:16 final size:16
Alignment explanation
Indices: 15667515--15667552 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15667505 GAAAACGAAG
*
15667515 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
15667530 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
15667546 TAAATTT
1 TAAATTT
15667553 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:15667567 original size:13 final size:13
Alignment explanation
Indices: 15667549--15667576 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15667539 ATACAAATAA
15667549 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15667562 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15667575 AT
1 AT
15667577 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:15667584 original size:17 final size:17
Alignment explanation
Indices: 15667545--15667594 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
15667535 TTTAATACAA
15667545 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
15667561 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
15667575 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
15667592 ATA
1 ATA
15667595 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Done.