Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 46 of 187
Found at i:13886975 original size:28 final size:28
Alignment explanation
Indices: 13886943--13887000 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
13886933 AATAGTACAA
*
13886943 TGTGGGCCTTAGCCCGATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTAACAG
*
13886971 TGTGGGCCTTAGCCCAATACAGTAATAG
1 TGTGGGCCTTAGCCCAATACAGTAACAG
13886999 TG
1 TG
13887001 CAATAATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAACAG
Found at i:13887124 original size:26 final size:26
Alignment explanation
Indices: 13887095--13887171 Score: 127
Period size: 26 Copynumber: 3.0 Consensus size: 26
13887085 CCAACACACC
* *
13887095 AATATCGCAGCAAAACTGCCAGTAAT
1 AATATCGCAGCGAAGCTGCCAGTAAT
13887121 AATATCGCAGCGAAGCTGCCAGTAAT
1 AATATCGCAGCGAAGCTGCCAGTAAT
*
13887147 AATATCGCAGCGAAGCTGTCAGTAA
1 AATATCGCAGCGAAGCTGCCAGTAA
13887172 CAGTATATGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
AATATCGCAGCGAAGCTGCCAGTAAT
Found at i:13887463 original size:27 final size:27
Alignment explanation
Indices: 13887380--13887463 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
13887370 AATTTCAATC
* * *
13887380 ATTTTACTCTAT-GGCGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTT
* **
13887406 GTTTTACCCTATGGGGGTATTT-TTTT
1 ATTTTACCCTATGGGGGTATTTCGGTT
*
13887432 CATTTTACCTTATGGGGGTATTTCGGTT
1 -ATTTTACCCTATGGGGGTATTTCGGTT
13887460 ATTT
1 ATTT
13887464 ATTGACCTCT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 11 0.24
27 32 0.71
28 2 0.04
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTT
Found at i:13895519 original size:16 final size:16
Alignment explanation
Indices: 13895465--13895519 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
13895455 TCGAGTTTGG
* *
13895465 ATTTTTTCAGATTTAA
1 ATTTTTTCGGGTTTAA
* *
13895481 AATTTTT-GGGATTCAA
1 ATTTTTTCGGG-TTTAA
13895497 ATTTTTTCGGGTTTAA
1 ATTTTTTCGGGTTTAA
13895513 ATTTTTT
1 ATTTTTT
13895520 AGAATTGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 1 0.03
16 27 0.87
17 3 0.10
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.56
Consensus pattern (16 bp):
ATTTTTTCGGGTTTAA
Found at i:13896092 original size:13 final size:13
Alignment explanation
Indices: 13896074--13896098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13896064 TAAATTTTGA
13896074 AAAAAATGTATGT
1 AAAAAATGTATGT
13896087 AAAAAATGTATG
1 AAAAAATGTATG
13896099 AAATTATCAT
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:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
AAAAAATGTATGT
Found at i:13896415 original size:15 final size:16
Alignment explanation
Indices: 13896395--13896427 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13896385 AGGAAGTTGT
*
13896395 ATAAAATTTTAA-AAA
1 ATAAAATTATAATAAA
13896410 ATAAAATTATAATAAA
1 ATAAAATTATAATAAA
13896426 AT
1 AT
13896428 CTAATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATTATAATAAA
Found at i:13906386 original size:13 final size:13
Alignment explanation
Indices: 13906368--13906425 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
13906358 AACCCAAATT
13906368 TTATTTTTATTTA
1 TTATTTTTATTTA
*
13906381 TTATTTTTCTTTA
1 TTATTTTTATTTA
13906394 CTTTATTTATTACTTTA
1 --TTATTT-TTA-TTTA
*
13906411 TT-TTATTATTTA
1 TTATTTTTATTTA
13906423 TTA
1 TTA
13906426 CTTATTTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.16
13 15 0.41
14 2 0.05
15 8 0.22
16 2 0.05
17 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:13906398 original size:22 final size:21
Alignment explanation
Indices: 13906373--13906432 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
13906363 AAATTTTATT
*
13906373 TTTATTTATTA-TTTTTCTTTA
1 TTTATTTATTACTTTAT-TTTA
13906394 CTTTATTTATTACTTTATTTTA
1 -TTTATTTATTACTTTATTTTA
13906416 -TTATTTATTAC-TTATTT
1 TTTATTTATTACTTTATTT
13906433 GGATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
22 15 0.42
23 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTTATTACTTTATTTTA
Found at i:13906406 original size:12 final size:11
Alignment explanation
Indices: 13906367--13906424 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
13906357 CAACCCAAAT
13906367 TTTATT-TTTA
1 TTTATTATTTA
13906377 TTTATTATTT-
1 TTTATTATTTA
13906387 TTCT-TTACTTTA
1 TT-TATTA-TTTA
13906399 TTTATTACTTTA
1 TTTATTA-TTTA
13906411 TTTTATTATTTA
1 -TTTATTATTTA
13906423 TT
1 TT
13906425 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 11 0.26
11 10 0.24
12 14 0.33
13 7 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:13906412 original size:8 final size:7
Alignment explanation
Indices: 13906368--13906431 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
13906358 AACCCAAATT
13906368 TTATTT-
1 TTATTTA
13906374 TTATTTA
1 TTATTTA
13906381 TTATTT-
1 TTATTTA
*
13906387 TTCTTTA
1 TTATTTA
13906394 CTTTATTTA
1 --TTATTTA
13906403 TTACTTTA
1 TTA-TTTA
13906411 -T-TTTA
1 TTATTTA
13906416 TTATTTA
1 TTATTTA
*
13906423 TTACTTA
1 TTATTTA
13906430 TT
1 TT
13906432 TGGATATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.08
6 12 0.25
7 22 0.46
8 4 0.08
9 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:13907360 original size:6 final size:6
Alignment explanation
Indices: 13907328--13907373 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
13907318 CCTAAAGCAT
* *
13907328 AAAAA- AAAAGAG AGAAA- AAAAAC AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
13907374 AATTTTGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
5 8 0.23
6 24 0.69
7 3 0.09
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:13916689 original size:30 final size:30
Alignment explanation
Indices: 13916655--13916712 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13916645 AACAACGTTC
13916655 TTGATAATTCCTCTTTGGATT-GTAACTCTT
1 TTGATAATTCCT-TTTGGATTGGTAACTCTT
* * *
13916685 TTGATGATTTCTTTTGTATTGGTAACTC
1 TTGATAATTCCTTTTGGATTGGTAACTC
13916713 CCCTCATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.52
Consensus pattern (30 bp):
TTGATAATTCCTTTTGGATTGGTAACTCTT
Found at i:13927836 original size:38 final size:37
Alignment explanation
Indices: 13927774--13927852 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
13927764 AATCTATAAA
13927774 TTTTCCTCGCCAGCAATTTAATTGGTTCAACAA-ACGC
1 TTTTCCTCGCCAGCAATTTAATTGGTTCAACAAGA-GC
* * * *
13927811 TTTTCCTCATCCAGTAATTTGATTGGTTGAACAAGAGC
1 TTTTCCTC-GCCAGCAATTTAATTGGTTCAACAAGAGC
13927849 TTTT
1 TTTT
13927853 TGGAGAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 8 0.22
38 27 0.75
39 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (37 bp):
TTTTCCTCGCCAGCAATTTAATTGGTTCAACAAGAGC
Found at i:13929340 original size:17 final size:17
Alignment explanation
Indices: 13929302--13929357 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
13929292 ATATATTTTA
*
13929302 TTTTTTATAATTTT-AT
1 TTTTTTAAAATTTTGAT
13929318 AATTTTTTAAAATTTTGAT
1 --TTTTTTAAAATTTTGAT
* *
13929337 TTTTTTTAGATTTTGAT
1 TTTTTTAAAATTTTGAT
13929354 TTTT
1 TTTT
13929358 GTATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 19 0.56
18 13 0.38
19 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTTTAAAATTTTGAT
Found at i:13929341 original size:18 final size:18
Alignment explanation
Indices: 13929302--13929357 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
13929292 ATATATTTTA
* *
13929302 TTTTTTATAATTTT-ATAA
1 TTTTTTAAAATTTTGAT-T
13929320 TTTTTTAAAATTTTGATT
1 TTTTTTAAAATTTTGATT
*
13929338 TTTTTT-AGATTTTGATT
1 TTTTTTAAAATTTTGATT
13929355 TTT
1 TTT
13929358 GTATATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.38
18 19 0.56
19 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTTAAAATTTTGATT
Found at i:13930989 original size:23 final size:23
Alignment explanation
Indices: 13930959--13931249 Score: 278
Period size: 23 Copynumber: 12.4 Consensus size: 23
13930949 CAGTTTATAA
* *
13930959 AAGGGGTTCGCATATCGTTCACT
1 AAGGGGTTCGCATAACATTCACT
13930982 AAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * * *
13931005 AAGAGGCTCACACAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * * *
13931028 AAGAGGTTCACACAACATTTACT
1 AAGGGGTTCGCATAACATTCACT
* * *
13931051 AAGGGGTTCGCACAAATATTCATT
1 AAGGGGTTCGCA-TAACATTCACT
* *
13931075 AAGGGGTTCACATGAATATTCACT
1 AAGGGGTTCGCAT-AACATTCACT
*
13931099 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
13931122 AAGGGGTTCACAAAAATATTCACT
1 AAGGGGTTCGC-ATAACATTCACT
*
13931146 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * * *
13931169 GAGGGGTTCGTATAAATATTCATT
1 AAGGGGTTCGCAT-AACATTCACT
13931193 AAGGGGTT-GCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
13931215 AAGGGGGTTTGCAAAAATATTCACT
1 AA-GGGGTTCGC-ATAACATTCACT
13931240 AAGGGGTTCG
1 AAGGGGTTCG
13931250 GTTTATCCGA
Statistics
Matches: 223, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
22 10 0.04
23 120 0.54
24 81 0.36
25 12 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
AAGGGGTTCGCATAACATTCACT
Found at i:13931119 original size:47 final size:47
Alignment explanation
Indices: 13930959--13931249 Score: 311
Period size: 47 Copynumber: 6.2 Consensus size: 47
13930949 CAGTTTATAA
* * * *
13930959 AAGGGGTTCGCATATCGTTCACTAAGGGGTTCGCAT-AACATTCACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCACATAAATATTCACT
* * * * * *
13931005 AAGAGGCTCACACAACATTCACTAAGAGGTTCACACAACAT-TT-ACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCACATAA-ATATTCACT
* * * *
13931051 AAGGGGTTCGCACAAATATTCATTAAGGGGTTCACATGAATATTCACT
1 AAGGGGTTCGCA-TAACATTCACTAAGGGGTTCACATAAATATTCACT
* *
13931099 GAGGGGTTCGCATAACATTCACTAAGGGGTTCACAAAAATATTCACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCACATAAATATTCACT
* * ** *
13931146 GAGGGGTTCGCATAACATTCACTGAGGGGTTCGTATAAATATTCATT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCACATAAATATTCACT
** *
13931193 AAGGGGTT-GCATAACATTCACTAAGGGGGTTTGCAAAAATATTCACT
1 AAGGGGTTCGCATAACATTCACTAA-GGGGTTCACATAAATATTCACT
13931240 AAGGGGTTCG
1 AAGGGGTTCG
13931250 GTTTATCCGA
Statistics
Matches: 202, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
46 56 0.28
47 130 0.64
48 16 0.08
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (47 bp):
AAGGGGTTCGCATAACATTCACTAAGGGGTTCACATAAATATTCACT
Found at i:13931342 original size:42 final size:43
Alignment explanation
Indices: 13931270--13931439 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
13931260 TGATACATTG
*
13931270 TGTGTATGCCAATATAGTTGCTTTGATTTATTTGATGATGCAC
1 TGTGTATGCCAATATAGTTGCTTTGATTTATCTGATGATGCAC
* * * *
13931313 TGTGTGTG-CAATATAGTTGCTTTGGTTTATCCGATGATACAC
1 TGTGTATGCCAATATAGTTGCTTTGATTTATCTGATGATGCAC
* * *
13931355 TGTGTATGCCAATATAATTG-TTCTGATATATCTGGTGATGCAC
1 TGTGTATGCCAATATAGTTGCTT-TGATTTATCTGATGATGCAC
* * * ** * * * *
13931398 TATATGTGCCAGCATAGTTGCTTCGGTTTATCAGAAGATGCA
1 TGTGTATGCCAATATAGTTGCTTTGATTTATCTGATGATGCA
13931440 TTTTTGTGAT
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 39 0.39
43 59 0.59
44 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (43 bp):
TGTGTATGCCAATATAGTTGCTTTGATTTATCTGATGATGCAC
Found at i:13931396 original size:85 final size:87
Alignment explanation
Indices: 13931246--13931429 Score: 239
Period size: 85 Copynumber: 2.1 Consensus size: 87
13931236 CACTAAGGGG
* * * *
13931246 TTCGGTTTATCCGATGATACATTGTGTGTATGCCAATATAGTTGCTTTGATTTATTTGATGATGC
1 TTCGGTTTATCCGATGATACA-TCTGTGTATGCCAATATAATTGCTTTGATATATCTGATGATGC
* * *
13931311 ACTGTGTGTG-CAATATAGTTGC
65 ACTATATGTGCCAACATAGTTGC
* *
13931333 TTTGGTTTATCCGATGATACA-CTGTGTATGCCAATATAATTG-TTCTGATATATCTGGTGATGC
1 TTCGGTTTATCCGATGATACATCTGTGTATGCCAATATAATTGCTT-TGATATATCTGATGATGC
*
13931396 ACTATATGTGCCAGCATAGTTGC
65 ACTATATGTGCCAACATAGTTGC
13931419 TTCGGTTTATC
1 TTCGGTTTATC
13931430 AGAAGATGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.02
85 42 0.50
86 20 0.24
87 20 0.24
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (87 bp):
TTCGGTTTATCCGATGATACATCTGTGTATGCCAATATAATTGCTTTGATATATCTGATGATGCA
CTATATGTGCCAACATAGTTGC
Found at i:13931456 original size:85 final size:86
Alignment explanation
Indices: 13931367--13931527 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 86
13931357 TGTATGCCAA
* *
13931367 TATAATTG-TTCTGATATATCTGGTGATGCACTATATGTGCCAGCAT-AGTTGCTTCGG-TTTAT
1 TATAATTGTTTC-GATATATCCGATGATGCACTATATGTGCCAGCATGA-TTGCTTCGGTTTTAT
13931429 CAGAAGATGCATTTTTGTGATAG
64 CAGAAGATGCATTTTTGTGATAG
* * * * * *
13931452 TATAATTGTTTCGATATATCCGATGATGCATTGTATGTGCTAGTATGATTGTTTCGGTTTTATCT
1 TATAATTGTTTCGATATATCCGATGATGCACTATATGTGCCAGCATGATTGCTTCGGTTTTATCA
*
13931517 GATGATGCATT
66 GAAGATGCATT
13931528 ATGATGCTAG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 44 0.69
86 20 0.31
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (86 bp):
TATAATTGTTTCGATATATCCGATGATGCACTATATGTGCCAGCATGATTGCTTCGGTTTTATCA
GAAGATGCATTTTTGTGATAG
Found at i:13931503 original size:43 final size:43
Alignment explanation
Indices: 13931367--13931527 Score: 121
Period size: 43 Copynumber: 3.8 Consensus size: 43
13931357 TGTATGCCAA
* * * * **
13931367 TATAATTG-TTCTGATATATCTGGTGATGCACTATATGTGCCAG
1 TATAATTGTTTCGGATATATCCGATGATGCA-TTTATGTGATAG
* * * * * * *
13931410 CATAGTTGCTTCGG-TTTATCAGAAGATGCATTTTTGTGATAG
1 TATAATTGTTTCGGATATATCCGATGATGCATTTATGTGATAG
*
13931452 TATAATTGTTTC-GATATATCCGATGATGCATTGTATGTGCTAG
1 TATAATTGTTTCGGATATATCCGATGATGCATT-TATGTGATAG
* * * *
13931495 TATGATTGTTTCGGTTTTATCTGATGATGCATT
1 TATAATTGTTTCGGATATATCCGATGATGCATT
13931528 ATGATGCTAG
Statistics
Matches: 91, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 32 0.35
43 37 0.41
44 21 0.23
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (43 bp):
TATAATTGTTTCGGATATATCCGATGATGCATTTATGTGATAG
Found at i:13931536 original size:43 final size:42
Alignment explanation
Indices: 13931390--13931537 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 42
13931380 ATATATCTGG
* * * * *
13931390 TGATGCACTATATGTGCCAGCATAGTTGCTTCGGTTTATCAGA
1 TGATGCA-TTTATGTGCTAGTATAATTGTTTCGGTTTATCAGA
* * * * * *
13931433 AGATGCATTTTTGTGATAGTATAATTGTTTCGATATATCCGA
1 TGATGCATTTATGTGCTAGTATAATTGTTTCGGTTTATCAGA
* *
13931475 TGATGCATTGTATGTGCTAGTATGATTGTTTCGGTTTTATCTGA
1 TGATGCATT-TATGTGCTAGTATAATTGTTTCGG-TTTATCAGA
13931519 TGATGCA-TTATGATGCTAG
1 TGATGCATTTATG-TGCTAG
13931538 ATTGGGATAC
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
42 37 0.44
43 33 0.39
44 14 0.17
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (42 bp):
TGATGCATTTATGTGCTAGTATAATTGTTTCGGTTTATCAGA
Found at i:13942246 original size:43 final size:43
Alignment explanation
Indices: 13942179--13942301 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
13942169 TTTTCGAAAA
13942179 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
13942222 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATCT
1 GTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATCT
* * * *
13942265 GTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
13942302 TGTACGAGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 2 0.03
43 66 0.93
44 3 0.04
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:13953507 original size:25 final size:25
Alignment explanation
Indices: 13953432--13953530 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
13953422 CTTATGAGCG
* * *
13953432 TCCCGTTATATGGCTCTTTGGAGCT
1 TCCCGATATATGGCTCTTCGAAGCT
*
13953457 TTCCGATAT-TGGCTCGCTT-GAA-CT
1 TCCCGATATATGGCT--CTTCGAAGCT
*
13953481 TCCCGATATATGGCTATTCGAAGCT
1 TCCCGATATATGGCTCTTCGAAGCT
* *
13953506 TCTCGAT-TAATGGTTCTTCGAAGCT
1 TCCCGATAT-ATGGCTCTTCGAAGCT
13953531 ACCTAATATT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.03
24 19 0.32
25 36 0.60
26 3 0.05
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.37
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCGAAGCT
Found at i:13954261 original size:25 final size:25
Alignment explanation
Indices: 13954225--13954275 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
13954215 GAATGGCTTG
* *
13954225 TGAAAGATATATTTTGATGTGATTA
1 TGAAAGACATATTTTGATATGATTA
13954250 TGAAAGACATATTTTGATATGATTA
1 TGAAAGACATATTTTGATATGATTA
13954275 T
1 T
13954276 ATATGGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (25 bp):
TGAAAGACATATTTTGATATGATTA
Found at i:13958780 original size:17 final size:18
Alignment explanation
Indices: 13958748--13958782 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
13958738 GAAACCCTAA
13958748 CTTTTTCTCCTTTCTTTCC
1 CTTTTTCT-CTTTCTTTCC
13958767 CTTTTTCT-TTTCTTTC
1 CTTTTTCTCTTTCTTTC
13958783 TTTCCTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCC
Found at i:13958836 original size:12 final size:11
Alignment explanation
Indices: 13958811--13958841 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13958801 TTCAATTTTG
*
13958811 TTTTAATTACT
1 TTTTTATTACT
13958822 TTTTTATTACT
1 TTTTTATTACT
13958833 TTTTTATTA
1 TTTTTATTA
13958842 TTTCATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTTATTACT
Found at i:13963049 original size:47 final size:47
Alignment explanation
Indices: 13962997--13963140 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 47
13962987 ATTATTAAGA
*
13962997 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * * **
13963044 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATGAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
13963088 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
13963135 ATTTTA
1 ATTTTA
13963141 AATTATACAA
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.32
45 8 0.11
46 8 0.11
47 27 0.38
48 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:13963128 original size:91 final size:91
Alignment explanation
Indices: 13962967--13963172 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
13962957 ATCTTATATG
* *
13962967 AATTCATATAAGAATATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AATTCATATAAGAA-AATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
* * * *
13963032 TTAATATTAATTATTTTAAATTGTATA
65 GTAATAATAATTATTTTAAATTATACA
*
13963059 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATTATTATTAAATTATATG
1 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
13963124 TAATAATAATTATTTTAAATTATACA
66 TAATAATAATTATTTTAAATTATACA
*
13963150 AATTCATATAAGATAATTTATTA
1 AATTCATATAAGAAAATTTATTA
13963173 GTTATAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.87
92 14 0.13
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
TAATAATAATTATTTTAAATTATACA
Found at i:13963141 original size:26 final size:28
Alignment explanation
Indices: 13963087--13963147 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
13963077 TATTATGAAG
* *
13963087 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
13963115 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
13963141 AATTATA
1 AATTATA
13963148 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:13963147 original size:44 final size:43
Alignment explanation
Indices: 13963005--13963147 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
13962995 GAATTTTATG
* *
13963005 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
13963049 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATGAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
13963096 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
13963140 AAATTATA
1 AAATTATA
13963148 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:13963266 original size:59 final size:57
Alignment explanation
Indices: 13963177--13963389 Score: 152
Period size: 56 Copynumber: 3.6 Consensus size: 57
13963167 TTATTAGTTA
*
13963177 TAATTATTTTAAATT-TTATTA-AG--TCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
13963231 TAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTAT-TTTTATAGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
13963296 T
57 T
* * * * *
13963297 TAATTATTAAGAATT-TTATTA-AAT-TCATGATATTTTAATTATAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGTATCAT-ATATTTTAATTAAAATATATTTAATAT
*
13963353 TAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATTAT-TTAAATTAT-TTTTATAGTATCATATATT
13963390 ATGATTTGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
53 3 0.02
54 11 0.09
55 1 0.01
56 18 0.15
57 9 0.07
58 5 0.04
59 18 0.15
60 8 0.07
61 2 0.02
62 8 0.07
63 10 0.08
64 5 0.04
65 6 0.05
66 17 0.14
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (57 bp):
TAATTATTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:13963296 original size:66 final size:64
Alignment explanation
Indices: 13963226--13963426 Score: 188
Period size: 66 Copynumber: 3.2 Consensus size: 64
13963216 AAATATATTT
13963226 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
13963291 G
64 G
* * * * * *
13963292 AATATTAATTATTAAGAATT-TTATTA-AAT-TCATGATATT-TTAATT-A-T-AA-T-ATAT-T
1 AATATTAATTATTTA-AATTATTTTTATAGTATCAT-ATATTATGATTTGAGTAAATTCATATAA
*
13963347 T
64 G
* *
13963348 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
13963413 G
64 G
*
13963414 AATATTGATTATT
1 AATATTAATTATT
13963427 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
56 14 0.14
57 7 0.07
58 5 0.05
59 9 0.09
60 9 0.09
61 2 0.02
62 9 0.09
63 9 0.09
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:13963336 original size:15 final size:15
Alignment explanation
Indices: 13963326--13963366 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13963316 TAAATTCATG
13963326 ATAT-TTTAATTATA
1 ATATATTTAATTATA
*
13963340 ATATATTTAATAATA
1 ATATATTTAATTATA
13963355 AT-TATGTTAATT
1 ATATAT-TTAATT
13963367 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:13963347 original size:122 final size:121
Alignment explanation
Indices: 13963188--13963487 Score: 498
Period size: 122 Copynumber: 2.5 Consensus size: 121
13963178 AATTATTTTA
* * *
13963188 AATTTTATT-AAGTCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
13963251 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
13963308 AATTTTATTAAATTCATGATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTATTAAATTCAT-ATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATT
*
13963373 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
13963430 AATTTTATTAAATT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
13963488 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
120 43 0.26
121 13 0.08
122 110 0.65
123 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:13963459 original size:18 final size:17
Alignment explanation
Indices: 13963431--13963465 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13963421 ATTATTAAGA
*
13963431 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13963448 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13963466 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:13963719 original size:16 final size:16
Alignment explanation
Indices: 13963698--13963736 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13963688 TTGATTTGCT
*
13963698 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
13963714 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
13963730 ATTACAC
1 ATTACAC
13963737 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:13963737 original size:16 final size:16
Alignment explanation
Indices: 13963710--13963751 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
13963700 TACACAGCTT
13963710 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
13963726 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
* *
13963742 ATCCAATACA
1 TTCCATTACA
13963752 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:13970707 original size:22 final size:20
Alignment explanation
Indices: 13970662--13970699 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13970652 TCAAAATTTG
13970662 TTTTTATTTAATTTATAATTA
1 TTTTTATTT-ATTTATAATTA
13970683 TTTTTATTT-TTTATAAT
1 TTTTTATTTATTTATAAT
13970700 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTATTTATAATTA
Found at i:13973325 original size:63 final size:62
Alignment explanation
Indices: 13973230--13973394 Score: 152
Period size: 63 Copynumber: 2.6 Consensus size: 62
13973220 TGGTGGACTG
* * * * * *
13973230 TGTAACTCCCTGACTTCGAATTTGTAGTCACACAGGCAAACCACACGGGCCTGTGTCTAGGCCG
1 TGTAACGCACTGACTTCGAATTAG-AGGCACACAGGCAAA-CACACGGGCCTGTGTCCAGGCCA
* * * * * * * *
13973294 TGTAACTCGCTGAGTT-TATATTAGAGGCACACATGCGAGAGACACGGGCGTGTGTCCAGGCCA
1 TGTAACGCACTGACTTCGA-ATTAGAGGCACACAGGC-AAACACACGGGCCTGTGTCCAGGCCA
*
13973357 TGTAACGCACTGACTTCGAATTAGAGTCACACAGGCAA
1 TGTAACGCACTGACTTCGAATTAGAGGCACACAGGCAA
13973395 GTATCTAGGC
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
62 1 0.01
63 58 0.73
64 21 0.26
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (62 bp):
TGTAACGCACTGACTTCGAATTAGAGGCACACAGGCAAACACACGGGCCTGTGTCCAGGCCA
Found at i:13994041 original size:13 final size:13
Alignment explanation
Indices: 13994023--13994053 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13994013 TTCCAGCAAC
13994023 TATGAATTTATTT
1 TATGAATTTATTT
13994036 TATGAATTTATTT
1 TATGAATTTATTT
*
13994049 GATGA
1 TATGA
13994054 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:13994223 original size:50 final size:50
Alignment explanation
Indices: 13994148--13994390 Score: 414
Period size: 50 Copynumber: 4.8 Consensus size: 50
13994138 ATTTGGGTAA
13994148 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
13994198 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
13994248 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
13994298 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
13994348 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
13994391 TGTTATTATC
Statistics
Matches: 182, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 148 0.81
51 34 0.19
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:13998200 original size:29 final size:30
Alignment explanation
Indices: 13998146--13998202 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13998136 TTATAACTTT
13998146 ATTTTTAAAAATCTTGTTTATAATTTTATG
1 ATTTTTAAAAATCTTGTTTATAATTTTATG
*
13998176 ATTTTTAAATAAT-TTTTTTA-AATTTTA
1 ATTTTTAAA-AATCTTGTTTATAATTTTA
13998203 AGAGGGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 15 0.60
31 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTTTTAAAAATCTTGTTTATAATTTTATG
Found at i:14008350 original size:43 final size:42
Alignment explanation
Indices: 14008289--14008453 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
14008279 TACTCTGATA
** *
14008289 TGTGTTTTTGTGTAAGACCACGTCTGGGACGTCGGCATCGACT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
* * *
14008332 TGTGTTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-AT
*
14008375 T-TGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 TGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * * *
14008415 ATGAG-ATAGCATGTAAGACCACATCTGGGACGTTGGCAT
1 -TGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
14008454 TGTTCGATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 29 0.29
42 6 0.06
43 60 0.61
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:14029258 original size:26 final size:25
Alignment explanation
Indices: 14029222--14029274 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
14029212 AACATCGTAC
*
14029222 CAAGATAGTGTTAGCAATCCTAATTA
1 CAAGATAGTGTTAGCAA-CCTAAATA
*
14029248 CAAGCTAGTGTTAGCAACCTAAATA
1 CAAGATAGTGTTAGCAACCTAAATA
14029273 CA
1 CA
14029275 TCAGCTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (25 bp):
CAAGATAGTGTTAGCAACCTAAATA
Found at i:14029274 original size:25 final size:25
Alignment explanation
Indices: 14029198--14029274 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
14029188 GGATTCTCTG
* **
14029198 AAGCTAGTGTTAGCAACAT-CGTACC
1 AAGCTAGTGTTAGCAACCTAAATA-C
* *
14029223 AAGATAGTGTTAGCAATCCTAATTAC
1 AAGCTAGTGTTAGCAA-CCTAAATAC
14029249 AAGCTAGTGTTAGCAACCTAAATAC
1 AAGCTAGTGTTAGCAACCTAAATAC
14029274 A
1 A
14029275 TCAGCTTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
25 24 0.55
26 18 0.41
27 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (25 bp):
AAGCTAGTGTTAGCAACCTAAATAC
Found at i:14036116 original size:19 final size:19
Alignment explanation
Indices: 14036088--14036135 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
14036078 CTCAACCAAA
*
14036088 ATTTAAAAAAATT-AAAAT
1 ATTTATAAAAATTCAAAAT
*
14036106 AATTT-TTAAAATTCAAAAT
1 -ATTTATAAAAATTCAAAAT
14036125 ATTTATAAAAA
1 ATTTATAAAAA
14036136 AAATTCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTTATAAAAATTCAAAAT
Found at i:14036118 original size:18 final size:18
Alignment explanation
Indices: 14036095--14036134 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14036085 AAAATTTAAA
*
14036095 AAAATT-AAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
14036113 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
14036131 AAAA
1 AAAA
14036135 AAAATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:14036150 original size:38 final size:37
Alignment explanation
Indices: 14036092--14036193 Score: 89
Period size: 38 Copynumber: 2.6 Consensus size: 37
14036082 ACCAAAATTT
*
14036092 AAAAAAATTAAAATAATTTTTAAAATTC-AAAATATTTATA
1 AAAAAAATT-AAAT--TTTTTAAAATTCTAAAA-ATATATA
* **
14036132 AAAAAAATTCTAATTTTTTTTAATTCTAAAAATATATA
1 AAAAAAATT-AAATTTTTTAAAATTCTAAAAATATATA
* * *
14036170 AAGAAAGTTAAATTTTTAAAAATT
1 AAAAAAATTAAATTTTTTAAAATT
14036194 TTCTAAAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
37 11 0.22
38 23 0.46
39 4 0.08
40 12 0.24
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (37 bp):
AAAAAAATTAAATTTTTTAAAATTCTAAAAATATATA
Found at i:14036953 original size:46 final size:46
Alignment explanation
Indices: 14036895--14037100 Score: 255
Period size: 46 Copynumber: 4.5 Consensus size: 46
14036885 AACAATTAAT
*
14036895 ACAATT-A-ACAATTAATAATTTGATATAATTTGATAATTTTACTA
1 ACAATTAATACAATTAATAATTTGATATAATTTGATAATTTTAGTA
* * * *
14036939 ATAATTAATACAATTAACAA-TT-A-ATAATTTTACTAACAAAATGTTAGTA
1 ACAATTAATACAATTAATAATTTGATATAATTTGA-T-----AATTTTAGTA
14036988 ACAATTAAT--AATTAATAATTTGATATAATTTGATAATTTTAGTA
1 ACAATTAATACAATTAATAATTTGATATAATTTGATAATTTTAGTA
*
14037032 ACAATTAATATAATTAATAATTTGATATAATTTGATAATTTTAGTA
1 ACAATTAATACAATTAATAATTTGATATAATTTGATAATTTTAGTA
14037078 ACAATTAATACAATTAATAATTT
1 ACAATTAATACAATTAATAATTT
14037101 TACTAACAAA
Statistics
Matches: 139, Mismatches: 10, Indels: 24
0.80 0.06 0.14
Matches are distributed among these distances:
43 8 0.06
44 25 0.18
45 3 0.02
46 67 0.48
47 8 0.06
48 2 0.01
49 18 0.13
50 8 0.06
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (46 bp):
ACAATTAATACAATTAATAATTTGATATAATTTGATAATTTTAGTA
Found at i:14036975 original size:19 final size:19
Alignment explanation
Indices: 14036900--14036977 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
14036890 TTAATACAAT
*
14036900 TAACAATTAATAATTTGA-
1 TAACAATTAATAATTTTAC
* *
14036918 TATA-ATTTGATAATTTTAC
1 TA-ACAATTAATAATTTTAC
* *
14036937 TAATAATTAATACA----AT
1 TAACAATTAATA-ATTTTAC
14036953 TAACAATTAATAATTTTAC
1 TAACAATTAATAATTTTAC
14036972 TAACAA
1 TAACAA
14036978 AATGTTAGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
15 1 0.02
16 12 0.27
18 14 0.32
19 16 0.36
20 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (19 bp):
TAACAATTAATAATTTTAC
Found at i:14037142 original size:17 final size:17
Alignment explanation
Indices: 14037106--14037145 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14037096 AATTTTACTA
*
14037106 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
14037123 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
14037140 ACAAAA
1 ACAAAA
14037146 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:14037182 original size:16 final size:16
Alignment explanation
Indices: 14037163--14037219 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
14037153 AATTTGATAC
*
14037163 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
14037179 AATTTTGATAACAATT
1 AATTTTAATAACAATT
14037195 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
14037211 AGTTTTAAT
1 AATTTTAAT
14037220 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:14037203 original size:22 final size:23
Alignment explanation
Indices: 14037193--14037254 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
14037183 TTGATAACAA
* *
14037193 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
14037215 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
14037238 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
14037255 ACGAGCCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:14037269 original size:5 final size:5
Alignment explanation
Indices: 14037259--14037290 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
14037249 TAAAAAACGA
14037259 GCCGG GCCGG GCCGG GCCGG GCCGG GCTCGG G
1 GCCGG GCCGG GCCGG GCCGG GCCGG GC-CGG G
14037291 TTCCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.38, G:0.59, T:0.03
Consensus pattern (5 bp):
GCCGG
Found at i:14037317 original size:36 final size:36
Alignment explanation
Indices: 14037270--14037358 Score: 169
Period size: 36 Copynumber: 2.4 Consensus size: 36
14037260 CCGGGCCGGG
14037270 CCGGGCCGGGCCGGGCTCGGGTTCCATATTTTTTTC
1 CCGGGCCGGGCCGGGCTCGGGTTCCATATTTTTTTC
14037306 CCGGGCCGGGCCGGGCTCGGGTTCCATATTTTTTTC
1 CCGGGCCGGGCCGGGCTCGGGTTCCATATTTTTTTC
14037342 CCGGGCCGGGCCTGGGC
1 CCGGGCCGGGCC-GGGC
14037359 AAAATCTCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 48 0.92
37 4 0.08
ACGTcount: A:0.04, C:0.33, G:0.37, T:0.26
Consensus pattern (36 bp):
CCGGGCCGGGCCGGGCTCGGGTTCCATATTTTTTTC
Found at i:14051378 original size:45 final size:45
Alignment explanation
Indices: 14051323--14051706 Score: 269
Period size: 45 Copynumber: 8.6 Consensus size: 45
14051313 GTCATCATGT
* *
14051323 CAAGTCTTGTCTTCCTGTATTGGGAGCGAAATAGA-CTGAAGATTG
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAATAGATC-GAAGATAG
*
14051368 C-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAAG-TCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
*** ** * *
14051413 C-AGATCTTGTC-TCCT-TGAGCAGCAATGGAGTAGATCGAAGATAG
1 CAAG-TCTTGTCTTCCTGT-ATTGGCAGCGAAATAGATCGAAGATAG
* * * *
14051457 CAAGTCTTGTCTTCCTGTATGGGC--CTTAAAGTAGA-CTGAATATAT
1 CAAGTCTTGTCTTCCTGTATTGGCAGC-GAAA-TAGATC-GAAGATAG
* * *
14051502 CAAGTCTTGTCTTCCTATATTGGCAGCGAAGTAGA-CTGAAGATAA
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAATAGATC-GAAGATAG
*
14051547 CAAGTCTTGTCTTCCTGTATTGGAAGC-AAAGTAGATCGAAGATAG
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAA-TAGATCGAAGATAG
* * * *** * * *
14051592 C-AGATCTTATCTCCCT-AAGCAGCAGTGGAGTAGATCGAAGATAG
1 CAAG-TCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
*
14051636 CAAGTCTTGTCTTCTTGTATTGGCAGC-AAAGTAGA-CTGAAGATAG
1 CAAGTCTTGTCTTCCTGTATTGGCAGCGAAA-TAGATC-GAAGATAG
*
14051681 -TAGAT-TTCGTCTTCCTGTATTGGCAG
1 CAAG-TCTT-GTCTTCCTGTATTGGCAG
14051707 TGAAGTGGAT
Statistics
Matches: 268, Mismatches: 50, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 75 0.28
45 186 0.69
46 5 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
CAAGTCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
Found at i:14051695 original size:179 final size:179
Alignment explanation
Indices: 14051322--14051712 Score: 556
Period size: 179 Copynumber: 2.2 Consensus size: 179
14051312 AGTCATCATG
* * **
14051322 TCAAGTCTTGTCTTCCTGTATTGGGAGCGAAATAGACTGAAGATTGCAGATCTTGTCTTCCTGTA
1 TCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
* * * * *
14051387 TTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTCCTTGAGCAGCAATGGAGTAGATCGAA
66 TTGGAAGCAAAGTAGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGCAATGGAGTAGATCGAA
*** *
14051452 GATAGCAAGTCTTGTCTTCCTGTATGGGCCTTAAAGTAGACTGAATATA
131 GATAGCAAGTCTTGTCTTCCTGTATGGGCAGCAAAGTAGACTGAAGATA
*
14051501 TCAAGTCTTGTCTTCCTATATTGGCAGCGAAGTAGACTGAAGATAACA-AGTCTTGTCTTCCTGT
1 TCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAACAGA-TCTTGTCTTCCTGT
*
14051565 ATTGGAAGCAAAGTAGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCGA
65 ATTGGAAGCAAAGTAGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGCAATGGAGTAGATCGA
* *
14051630 AGATAGCAAGTCTTGTCTTCTTGTATTGGCAGCAAAGTAGACTGAAGATA
130 AGATAGCAAGTCTTGTCTTCCTGTATGGGCAGCAAAGTAGACTGAAGATA
*
14051680 GT--AGAT-TTCGTCTTCCTGTATTGGCAGTGAAGT
1 -TCAAG-TCTT-GTCTTCCTGTATTGGCAGCGAAGT
14051713 GGATAAAAAA
Statistics
Matches: 189, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
178 5 0.03
179 183 0.97
180 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (179 bp):
TCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
TTGGAAGCAAAGTAGATCGAAGATAGCAGATCTTATCTCCCTAAGCAGCAATGGAGTAGATCGAA
GATAGCAAGTCTTGTCTTCCTGTATGGGCAGCAAAGTAGACTGAAGATA
Found at i:14051791 original size:44 final size:44
Alignment explanation
Indices: 14051734--14051935 Score: 155
Period size: 44 Copynumber: 4.7 Consensus size: 44
14051724 AAACCAATCC
* ** *
14051734 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* ***
14051778 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * *
14051819 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAA--ACAAATCA
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AATCACAGATCT
* * * **
14051863 TATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAATGATGGATCT
1 TATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* **
14051907 TATTTCTCTGAAGTTGCAGTACAGCAGAT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGAT
14051936 CACATCAGAC
Statistics
Matches: 121, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
41 28 0.23
42 6 0.05
43 7 0.06
44 79 0.65
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
Found at i:14053350 original size:43 final size:43
Alignment explanation
Indices: 14053302--14053387 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
14053292 GGCCGCAAAT
*
14053302 TTTGCCTCTGTTTCAATTCGGTCCTTGGACCATGTGCAGCTTC
1 TTTGCCTCTGTTTCAATTCGGTCCTTGGACCATGCGCAGCTTC
14053345 TTTGCCTCTGTTTCAATTCGGTCCTTGGACCATGCGCAGCTTC
1 TTTGCCTCTGTTTCAATTCGGTCCTTGGACCATGCGCAGCTTC
14053388 CCCGGTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.38
Consensus pattern (43 bp):
TTTGCCTCTGTTTCAATTCGGTCCTTGGACCATGCGCAGCTTC
Found at i:14056000 original size:20 final size:19
Alignment explanation
Indices: 14055962--14056021 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
14055952 AACATTTTTT
* *
14055962 TCTTAACAATGATTCTAAAA
1 TCTTAAAAAT-ATTATAAAA
*
14055982 TCTTAAAAATAATTATAAAT
1 TCTTAAAAAT-ATTATAAAA
* *
14056002 TATTAAAAATATTTTAAAA
1 TCTTAAAAATATTATAAAA
14056021 T
1 T
14056022 AACTTTCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
TCTTAAAAATATTATAAAA
Found at i:14057127 original size:23 final size:23
Alignment explanation
Indices: 14057101--14057167 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
14057091 TGGGTTTAGG
* *
14057101 TTTGGTACGAAATGGTAATGTAA
1 TTTGGTACGAAATGGAAATGGAA
14057124 TTTGGTACGAAATGGAAATGGAA
1 TTTGGTACGAAATGGAAATGGAA
*
14057147 TTTGGTACAAAATGGAAATGG
1 TTTGGTACGAAATGGAAATGG
14057168 TTCAAAAAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.30
Consensus pattern (23 bp):
TTTGGTACGAAATGGAAATGGAA
Found at i:14058011 original size:31 final size:31
Alignment explanation
Indices: 14057953--14058018 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
14057943 TCATGCATGC
* *
14057953 ACCTTGCTAAATGAATCTCCACATTCGGCTA
1 ACCTTGCTAAATGAATCCCCACATTCGGCCA
*
14057984 ACCTTGCTAAATGAA-CCCCAACTTTCGGCCA
1 ACCTTGCTAAATGAATCCCC-ACATTCGGCCA
14058015 ACCT
1 ACCT
14058019 ACATAAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (31 bp):
ACCTTGCTAAATGAATCCCCACATTCGGCCA
Found at i:14059394 original size:22 final size:22
Alignment explanation
Indices: 14059355--14059417 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
14059345 TTTCCTATTA
* *
14059355 TTAGCACCTTAGTACTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
* **
14059377 TTAGCACATTCGTGCTCTTTGT
1 TTAGCACATTAGTGCTCTCCGT
* *
14059399 ATAGCACTTTAGTGCTCTC
1 TTAGCACATTAGTGCTCTC
14059418 TGTTCAATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:14062188 original size:20 final size:20
Alignment explanation
Indices: 14062165--14062206 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14062155 ATAGTTTATA
* * *
14062165 TTTATTTTTTAAGATTTTTG
1 TTTAGTTTTTAAAATTATTG
14062185 TTTAGTTTTTAAAATTATTG
1 TTTAGTTTTTAAAATTATTG
14062205 TT
1 TT
14062207 AAGAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTTAAAATTATTG
Found at i:14074672 original size:27 final size:22
Alignment explanation
Indices: 14074622--14074664 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
14074612 AAACATCCAA
14074622 AATACAATATAATCGAAAAAAG
1 AATACAATATAATCGAAAAAAG
14074644 AATACAATATAATCGAAAAAA
1 AATACAATATAATCGAAAAAA
14074665 ACTAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
AATACAATATAATCGAAAAAAG
Found at i:14084001 original size:9 final size:9
Alignment explanation
Indices: 14083987--14084023 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14083977 TATAGTTTGA
14083987 TATTCGAAT
1 TATTCGAAT
14083996 TATTCGAAT
1 TATTCGAAT
*
14084005 TATTCGAGT
1 TATTCGAAT
14084014 TATTCGAAT
1 TATTCGAAT
14084023 T
1 T
14084024 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14084671 original size:25 final size:22
Alignment explanation
Indices: 14084625--14084671 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
14084615 TTGAAAGTTA
*
14084625 AAAATATTTTTATAAAATATTT
1 AAAATATTTTTATAAAAAATTT
14084647 AAAATATGTTTTAGATAAAAAATTT
1 AAAATAT-TTTT--ATAAAAAATTT
14084672 CAATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
25 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATATTTTTATAAAAAATTT
Found at i:14097057 original size:15 final size:15
Alignment explanation
Indices: 14097037--14097067 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14097027 AACCTTTTGG
14097037 CAGCCGTCGATATAT
1 CAGCCGTCGATATAT
14097052 CAGCCGTCGATATAT
1 CAGCCGTCGATATAT
14097067 C
1 C
14097068 CCCAAACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (15 bp):
CAGCCGTCGATATAT
Found at i:14102445 original size:3 final size:3
Alignment explanation
Indices: 14102439--14102500 Score: 81
Period size: 3 Copynumber: 20.3 Consensus size: 3
14102429 ACGGCAAAAA
* *
14102439 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAAG AA- AAA AAG AAA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG
14102484 AAG AAG AAAG AAG AAG A
1 AAG AAG -AAG AAG AAG A
14102501 GGTCTCACTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14105968 original size:36 final size:37
Alignment explanation
Indices: 14105914--14105987 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
14105904 ATCCTGCAGA
*
14105914 CTAGATAAAACCACTAAAATGCGAGT-AAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
** *
14105950 CTAGATAAAAGTATTAAAAAGCGAGTAAAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
14105987 C
1 C
14105988 AGAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
Found at i:14111903 original size:32 final size:32
Alignment explanation
Indices: 14111837--14111904 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
14111827 CAGAATTAGA
* *
14111837 AACTTATGTTTAGATTTCATATTACATAATAG
1 AACTTATGTTTAGATTTCATAGTACATAAAAG
14111869 AACTTATGTTTCAGATTTCA-AGTAGC-TAAAAG
1 AACTTATGTTT-AGATTTCATAGTA-CATAAAAG
14111901 AACT
1 AACT
14111905 ATTATCTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
AACTTATGTTTAGATTTCATAGTACATAAAAG
Found at i:14120677 original size:48 final size:48
Alignment explanation
Indices: 14120606--14120700 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
14120596 TTCTTTGCTT
* *
14120606 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAGC
* * *
14120654 AAAAATGCCTAAGTCAGCCTAACTTGCAACGATAAATAATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAG
14120701 AATTCCCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAACGATAAAGAATTCAACAGC
Found at i:14120946 original size:19 final size:19
Alignment explanation
Indices: 14120922--14120975 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
14120912 AAAGCTGTAT
14120922 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
14120941 ACAATTAGAAGT-T--GTAT
1 ACAATTAGAACTCTAAG-AC
14120958 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
14120976 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
18 2 0.07
19 12 0.43
20 1 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:14120957 original size:36 final size:36
Alignment explanation
Indices: 14120905--14120975 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
14120895 ATCAAAGGCT
14120905 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
* *
14120941 ACAATTAGAAGTTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
14120976 TTACATAATC
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:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:14120963 original size:17 final size:17
Alignment explanation
Indices: 14120904--14120967 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
14120894 CATCAAAGGC
* *
14120904 TACAATTAAAAGCTGTA
1 TACAATTAGAAGTTGTA
*
14120921 TACAATTAGAACTCTAAG-A
1 TACAATTAGAAGT-T--GTA
*
14120940 CACAATTAGAAGTTGTA
1 TACAATTAGAAGTTGTA
14120957 TACAATTAGAA
1 TACAATTAGAA
14120968 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGTTGTA
Found at i:14126059 original size:17 final size:17
Alignment explanation
Indices: 14126037--14126100 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
14126027 CATCAAAGGC
*
14126037 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
14126054 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
14126073 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
14126090 TACAATTAGAA
1 TACAATTAGAA
14126101 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:14126079 original size:19 final size:19
Alignment explanation
Indices: 14126055--14126108 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
14126045 AAAGCTGTAT
14126055 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
14126074 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
14126091 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
14126109 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:14126086 original size:36 final size:36
Alignment explanation
Indices: 14126038--14126108 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
14126028 ATCAAAGGCT
14126038 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
14126074 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
14126109 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:14126952 original size:28 final size:28
Alignment explanation
Indices: 14126920--14126975 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
14126910 TTATAGCAGC
14126920 CCATAC-A-TTTCACAATTTCACACATTTA
1 CCATACAATTTTCAC-ATTTCACA-ATTTA
*
14126948 CCATACAATTTTCACATTTCTCAATTTA
1 CCATACAATTTTCACATTTCACAATTTA
14126976 ATCCCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (28 bp):
CCATACAATTTTCACATTTCACAATTTA
Found at i:14144547 original size:13 final size:13
Alignment explanation
Indices: 14144529--14144553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14144519 CACCCCAATC
14144529 ACAGATACAGAAT
1 ACAGATACAGAAT
14144542 ACAGATACAGAA
1 ACAGATACAGAA
14144554 AAACAAATAC
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:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (13 bp):
ACAGATACAGAAT
Found at i:14144881 original size:17 final size:18
Alignment explanation
Indices: 14144843--14144886 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
14144833 TGGCCCAAAA
*
14144843 CCCACAGGCCTGTGTGGG
1 CCCACACGCCTGTGTGGG
14144861 CCCACACGCCTGTGT-GG
1 CCCACACGCCTGTGTGGG
*
14144878 CCCAAACGC
1 CCCACACGC
14144887 ACAACTTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.16, C:0.41, G:0.30, T:0.14
Consensus pattern (18 bp):
CCCACACGCCTGTGTGGG
Found at i:14145814 original size:15 final size:15
Alignment explanation
Indices: 14145794--14145849 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
14145784 TCAGACAACC
14145794 GTGTCTGATAGTGAT
1 GTGTCTGATAGTGAT
14145809 GTGTCT-AGTAGTGAT
1 GTGTCTGA-TAGTGAT
** *
14145824 GCATCTGAAAGTGAT
1 GTGTCTGATAGTGAT
*
14145839 GTGTCTAATAG
1 GTGTCTGATAG
14145850 GATAAGAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (15 bp):
GTGTCTGATAGTGAT
Found at i:14150517 original size:28 final size:28
Alignment explanation
Indices: 14150481--14150534 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
14150471 TGACTATTTT
*
14150481 TAATATGCATGCAATGAGTATTTTTTAA
1 TAATATGCATGCAATGACTATTTTTTAA
* *
14150509 TAATATGCATGTAGTGACTATTTTTT
1 TAATATGCATGCAATGACTATTTTTT
14150535 TAGGTGTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (28 bp):
TAATATGCATGCAATGACTATTTTTTAA
Found at i:14152395 original size:17 final size:16
Alignment explanation
Indices: 14152369--14152402 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14152359 CTTCTCCTCC
*
14152369 TTCTTTTTCTTTTATTT
1 TTCTTCTTCTTTT-TTT
14152386 TTCTTCTTCTTTTTTT
1 TTCTTCTTCTTTTTTT
14152402 T
1 T
14152403 CTCTAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCTTCTTCTTTTTTT
Found at i:14157433 original size:46 final size:45
Alignment explanation
Indices: 14157366--14157618 Score: 420
Period size: 46 Copynumber: 5.6 Consensus size: 45
14157356 TTTGAGTACT
14157366 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
14157412 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
14157458 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
14157503 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
**
14157549 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
14157594 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
14157619 ATCATACGTA
Statistics
Matches: 198, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 62 0.31
46 119 0.60
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Found at i:14157522 original size:91 final size:91
Alignment explanation
Indices: 14157366--14157618 Score: 456
Period size: 91 Copynumber: 2.8 Consensus size: 91
14157356 TTTGAGTACT
**
14157366 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATCAAGTGACAAAGT
14157431 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
14157458 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
14157523 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
*
14157549 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
14157612 ATAAGTG
66 ATAAGTG
14157619 ATCATACGTA
Statistics
Matches: 158, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
89 12 0.08
90 5 0.03
91 110 0.70
92 31 0.20
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:14157569 original size:137 final size:134
Alignment explanation
Indices: 14157366--14157618 Score: 452
Period size: 137 Copynumber: 1.9 Consensus size: 134
14157356 TTTGAGTACT
*
14157366 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
14157431 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCT
66 GATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGGTAGCCTAGCT
14157496 ACACTTA
128 ACACTTA
14157503 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
14157568 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
14157619 ATCATACGTA
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
134 12 0.11
135 5 0.04
136 19 0.17
137 77 0.68
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (134 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTGGTAGCCTAGCTACA
CTTA
Found at i:14158425 original size:110 final size:110
Alignment explanation
Indices: 14158232--14158558 Score: 573
Period size: 110 Copynumber: 3.0 Consensus size: 110
14158222 GAAATTCAAG
* * * *
14158232 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
14158297 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
* * * *
14158342 AGGATATTTAGCCATTTGGTTGGATGAGAAAAATCGATACCCAGCAACTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
14158407 GAATTTCTCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
14158452 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
14158517 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTT
14158559 GTTTTTGATA
Statistics
Matches: 203, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 203 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTGAAAATTTTTAAA
Found at i:14158697 original size:18 final size:17
Alignment explanation
Indices: 14158666--14158701 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14158656 ATATATAATG
*
14158666 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
14158683 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
14158701 A
1 A
14158702 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:14160234 original size:22 final size:22
Alignment explanation
Indices: 14160209--14160250 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14160199 TTTAGGCTAG
14160209 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
* *
14160231 TTGGGTTTGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
14160251 GTAGCTAAGG
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:0.05, G:0.40, T:0.52
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:14160767 original size:46 final size:46
Alignment explanation
Indices: 14160717--14161918 Score: 1769
Period size: 46 Copynumber: 26.2 Consensus size: 46
14160707 AAGATTCACC
* * * *
14160717 ATCTTCGATCTACTCCACTGCCAAATACAGGAA-AGTAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGA-CAAGATCTGCT
* *
14160763 ATCTTCGATCTCCTCCGTTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14160809 ATCTTCGATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCC
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
14160855 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTTCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
14160901 ATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
14160947 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14160993 ATCTTCAATCTCCTCCGCTGCTAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161039 ATCTTCGATCTTCTCCG-AGCCAAATACAGGAAGACAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161084 ATCTTCGATCTCCTCCGCTGCCAAATACAGAAAGACAAGATCTGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** * *
14161130 ATCTTCGATCTTTTCTGCTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161176 ATCTTCGATCTTCTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161222 ATCTTCGATCTCCTCTGCTGCTAAATACAGGAAGACGAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161268 ATCTTCGATCTCCTTCGCTGCCAAATATAGAAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161314 GTCTTCGATCTCCTCCGCTGCCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161360 ATCTTCGATCTTCTTCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161406 ATCTTCGATCTCCTCTGCTGTCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161452 ATCTTCGATCTCCTCCACTGCCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** * *
14161498 ATCTTATATCTTCTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** * * *
14161544 ATCTTATATCTTCTCCACTGCCAAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161590 ATCTTCGATCTCCTCCGTTGCCAAATACAGGAAGACAAGATATGTT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
14161636 ATCTTCGATCTCCTCCGCTGCCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
14161682 ATCTTCAATCTTCTCCTCTGCCAAATACAGGAAGACAAGATTTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161728 ATCTTCGATCTCCTCTGCTGCCAAATACAGAAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
14161774 ATATTCGATCTCCTCCGCTGCCCAATACAGAAAGACAAGATCTACT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
14161820 ATCTTTGATCTTCTCCACTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
14161866 ATCTTTGATCTCCTCCGCTGCCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
14161912 ATCTTCG
1 ATCTTCG
14161919 TCGATTTGTT
Statistics
Matches: 1043, Mismatches: 111, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
45 41 0.04
46 1001 0.96
47 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:14163032 original size:21 final size:21
Alignment explanation
Indices: 14163006--14163052 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14162996 GGTATAGCAA
*
14163006 GATCACCACATGCCTCAATCT
1 GATCACCACATGCCCCAATCT
** *
14163027 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
14163048 GATCA
1 GATCA
14163053 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:14163162 original size:15 final size:14
Alignment explanation
Indices: 14163135--14163190 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 14
14163125 TTAGCCTCTC
*
14163135 CATTTTTACTTTTT
1 CATTTTTTCTTTTT
14163149 CATTTTTTCATTTTT
1 CATTTTTTC-TTTTT
**
14163164 CATTTTTT-TAATT
1 CATTTTTTCTTTTT
*
14163177 CATTTTTTATTTTT
1 CATTTTTTCTTTTT
14163191 TTTGTTTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 11 0.31
14 11 0.31
15 13 0.37
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (14 bp):
CATTTTTTCTTTTT
Found at i:14163180 original size:20 final size:20
Alignment explanation
Indices: 14163155--14163192 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14163145 TTTTCATTTT
14163155 TTCATTTTTCATTTTTTTAA
1 TTCATTTTTCATTTTTTTAA
*
14163175 TTCATTTTTTATTTTTTT
1 TTCATTTTTCATTTTTTT
14163193 TGTTTGACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (20 bp):
TTCATTTTTCATTTTTTTAA
Found at i:14165923 original size:21 final size:20
Alignment explanation
Indices: 14165899--14165941 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14165889 TGCATTTGCA
14165899 TTCGCTCTAATTTTTCTAACC
1 TTCGCTC-AATTTTTCTAACC
* *
14165920 TTCGTTCCATTTTTCTAACC
1 TTCGCTCAATTTTTCTAACC
14165940 TT
1 TT
14165942 TGTTTGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.16, C:0.28, G:0.05, T:0.51
Consensus pattern (20 bp):
TTCGCTCAATTTTTCTAACC
Found at i:14167641 original size:110 final size:111
Alignment explanation
Indices: 14167448--14167664 Score: 373
Period size: 110 Copynumber: 2.0 Consensus size: 111
14167438 GAAATTCAAG
* * * *
14167448 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGAGCACGTTTTCTA
14167513 GAATTTCCCAAACGCAAAACATTGCCTTATTTGA-AAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGACAAATTTTTAAA
* *
14167558 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGAGCACGTTTTCTA
1 AGGATATTTAGCCATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGAGCACGTTTTCTA
14167623 GAATTTCCCAAACGCAAAACATTGCCTTATTTGACAAATTTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTGACAAATTTT
14167665 GTTTTCGATA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 93 0.93
111 7 0.07
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (111 bp):
AGGATATTTAGCCATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGAGCACGTTTTCTA
GAATTTCCCAAACGCAAAACATTGCCTTATTTGACAAATTTTTAAA
Found at i:14167803 original size:18 final size:17
Alignment explanation
Indices: 14167772--14167807 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14167762 ATATATAATG
*
14167772 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
14167789 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
14167807 A
1 A
14167808 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.08, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:14168118 original size:26 final size:24
Alignment explanation
Indices: 14168089--14168157 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
14168079 GAATATGTAA
*
14168089 GTGTATATATATATTACAAAAAGTAT
1 GTGTATATATATA-TA-AAAAAATAT
*
14168115 GTGTGTA-AGTATATAAAAAAATAT
1 GTGTATATA-TATATAAAAAAATAT
*
14168139 ATGTATATATATA-AAAAAA
1 GTGTATATATATATAAAAAA
14168158 CGTATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
25 4 0.11
26 10 0.27
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.35
Consensus pattern (24 bp):
GTGTATATATATATAAAAAAATAT
Found at i:14168167 original size:22 final size:22
Alignment explanation
Indices: 14168124--14168169 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
14168114 TGTGTGTAAG
* *
14168124 TATATAAAAAAATATATGTATA
1 TATATAAAAAAACATATATATA
*
14168146 TATATAAAAAAACGTATATATA
1 TATATAAAAAAACATATATATA
14168168 TA
1 TA
14168170 AGGGCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TATATAAAAAAACATATATATA
Found at i:14168187 original size:3 final size:3
Alignment explanation
Indices: 14168179--14168217 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
14168169 AAGGGCAATT
* *
14168179 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14168218 TTATTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14169340 original size:22 final size:22
Alignment explanation
Indices: 14169315--14169356 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14169305 TTTAGGCTAG
14169315 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
* *
14169337 TTGGGTTTGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
14169357 GTAGCTGAGG
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:0.05, G:0.40, T:0.52
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:14175499 original size:18 final size:19
Alignment explanation
Indices: 14175466--14175501 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14175456 CGAAATGATA
*
14175466 GCAAAACAATTAAAAAATG
1 GCAAAACAAGTAAAAAATG
14175485 GCAAAAC-AGTAAAAAAT
1 GCAAAACAAGTAAAAAAT
14175502 AGCAGCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (19 bp):
GCAAAACAAGTAAAAAATG
Found at i:14178168 original size:32 final size:32
Alignment explanation
Indices: 14178130--14178192 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
14178120 ATTAATCGGT
* *
14178130 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATAAATTTATC
* *
14178162 ATGAGTTATTAAATTCAAGTAATAAATTTAT
1 ATGAGTTATCAAATTAAAGTAATAAATTTAT
14178193 AAGATTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATAAATTTATC
Found at i:14179830 original size:27 final size:25
Alignment explanation
Indices: 14179780--14179831 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
14179770 ATTGCATATT
*
14179780 TAAAAATTAATTAAAATAAAAAATC
1 TAAAAATTAATAAAAATAAAAAATC
*
14179805 TAAATAATTGAATAAAAATAAGAAATC
1 TAAA-AATT-AATAAAAATAAAAAATC
14179832 ACCATTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAATTAATAAAAATAAAAAATC
Found at i:14188005 original size:2 final size:2
Alignment explanation
Indices: 14187998--14188022 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14187988 AATGTAAGTT
14187998 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
14188023 TGATATTTCA
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:14189209 original size:2 final size:2
Alignment explanation
Indices: 14189204--14189233 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14189194 AATCATATTC
14189204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14189234 GGGAGGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14194874 original size:12 final size:12
Alignment explanation
Indices: 14194857--14194882 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14194847 CAAAATAGAC
14194857 TTTTAGCGGCGT
1 TTTTAGCGGCGT
14194869 TTTTAGCGGCGT
1 TTTTAGCGGCGT
14194881 TT
1 TT
14194883 GTATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:14195087 original size:73 final size:72
Alignment explanation
Indices: 14194951--14195119 Score: 230
Period size: 73 Copynumber: 2.3 Consensus size: 72
14194941 AATATAAGCA
* * *
14194951 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACTTAAGCCCAACGACACCGTTTCCCAAGCTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCCAACGACAACGTTTCCCAAGCTTT
14195016 CGGGGAT
66 CGGGGAT
* ****
14195023 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACATAAGCCCAACGACAACGTTTCCCAAGCTT
*
14195088 TCGGGGGT
65 TCGGGGAT
* *
14195096 TTTGCGGCGTTTTTAAGGAAGCGC
1 TTAGCGGCGTTTTTAAGAAAGCGC
14195120 TGCTAATGCT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 25 0.30
73 59 0.70
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCCAACGACAACGTTTCCCAAGCTTT
CGGGGAT
Found at i:14195168 original size:114 final size:114
Alignment explanation
Indices: 14195018--14195350 Score: 368
Period size: 114 Copynumber: 2.9 Consensus size: 114
14195008 CAAGCTTTCG
14195018 GGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTGTG
1 GGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTGTG
* * * *
14195083 AGCTTTCGGGGGTTTTGCGGCGTTTTTAAG-GAAGCGCTGCTAATGCTCA
66 AGCTTTCGGGGATTTAGCGGCGTTTTT-AGTAAAGCGCCGCTAATGCTCA
* * * * * * * *
14195132 GGGCTTTAGTGGCGTTTTTGAGAAAGCGCCGTAAAAAAACTTAAGCCCAACGACACCGTTTTTTG
1 GGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTGTG
* *
14195197 AGCTTTTGGGGATTTAGCGGTGTTTTTAGTAAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCA
* * * * * *** *
14195246 GGGATTTAGCGGCGCTTCCTCAA-AAA-CGCCGCAAGAAAGCCTAAACCCAACGATGCCGTTTTT
1 GGGATTTAGCGGCG-TTTCT-AAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTG
* * *
14195309 TTAGCTTTTGTGGATTTAGCGGCGTTTTTGAG-AAAGCGCCGC
64 TGAGCTTTCGGGGATTTAGCGGCGTTTTT-AGTAAAGCGCCGC
14195351 AAAAAACCTA
Statistics
Matches: 186, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
113 2 0.01
114 175 0.94
115 8 0.04
116 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (114 bp):
GGGATTTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACAACGTTTTGTG
AGCTTTCGGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCTCA
Found at i:14195396 original size:72 final size:72
Alignment explanation
Indices: 14195246--14195476 Score: 277
Period size: 73 Copynumber: 3.2 Consensus size: 72
14195236 CTAATGCTCA
* * * * * *
14195246 GGGATTTAGCGGCGCTTCCTCAA-AAA-CGCCGCAAGAAAGCCTAAACCCAACGATGCCGTTTTT
1 GGGATTTAGCGGCG-TT-TTTAAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTTC
* *
14195309 TTAGCTTTTG
63 TGAGCTTTCG
* * *
14195319 TGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGA
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
14195384 GCTTTCG
66 GCTTTCG
* *
14195391 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAATCTAAGCCCAACGACGTCGTTTTCTG
1 GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTG
*
14195456 AGCTTTCA
65 AGCTTTCG
*
14195464 GAGATTTAGCGGC
1 GGGATTTAGCGGC
14195477 CAAAAACACT
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
71 2 0.01
72 66 0.48
73 69 0.50
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (72 bp):
GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGA
GCTTTCG
Found at i:14195470 original size:73 final size:72
Alignment explanation
Indices: 14195272--14195476 Score: 250
Period size: 72 Copynumber: 2.8 Consensus size: 72
14195262 TCCTCAAAAA
* * * * * * * *
14195272 CGCCGCAAGAAAGCCTAAACCCAACGATGCCGTTTTTTTAGCTTT-TGTGGATTTAGCGGCGTTT
1 CGCCGCAA-AAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCAG-AGATTTAGCGGCGTTT
*
14195336 TTGAGAAAG
64 TTAAGAAAG
* *
14195345 CGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTT
1 CGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCAGAGATTTAGCGGCGTTTTT
14195410 AAGAAAG
66 AAGAAAG
* * *
14195417 CGCCGCAAAAAAATCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCAGAGATTTAGCGGC
1 CGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCAGAGATTTAGCGGC
14195477 CAAAAACACT
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
72 60 0.51
73 57 0.49
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (72 bp):
CGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCAGAGATTTAGCGGCGTTTTT
AAGAAAG
Found at i:14196244 original size:18 final size:18
Alignment explanation
Indices: 14196221--14196263 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
14196211 CGTCGCAATC
14196221 GGAGGCCGGGACGTCGTT
1 GGAGGCCGGGACGTCGTT
14196239 GGAGGCCGGGACGTCGTT
1 GGAGGCCGGGACGTCGTT
14196257 GGAGGCC
1 GGAGGCC
14196264 AAAGGACGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.12, C:0.23, G:0.51, T:0.14
Consensus pattern (18 bp):
GGAGGCCGGGACGTCGTT
Found at i:14198109 original size:21 final size:23
Alignment explanation
Indices: 14198080--14198137 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
14198070 TAAGCTTTAT
*
14198080 GGGTTTAGGGA-TTATGGATTAG
1 GGGTTTAGGGATTTAAGGATTAG
*
14198102 GGG-TTA-GGATTTAAGGTTTAG
1 GGGTTTAGGGATTTAAGGATTAG
*
14198123 GGGTTTAGGGGTTTA
1 GGGTTTAGGGATTTA
14198138 GGGGTTAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 6 0.20
23 6 0.20
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (23 bp):
GGGTTTAGGGATTTAAGGATTAG
Found at i:14198129 original size:8 final size:8
Alignment explanation
Indices: 14198116--14198143 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14198106 TAGGATTTAA
14198116 GGTTTAGG
1 GGTTTAGG
14198124 GGTTTAGG
1 GGTTTAGG
14198132 GGTTTAGG
1 GGTTTAGG
14198140 GGTT
1 GGTT
14198144 AGACGTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39
Consensus pattern (8 bp):
GGTTTAGG
Found at i:14198429 original size:14 final size:14
Alignment explanation
Indices: 14198410--14198443 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
14198400 GGTTGGGGGT
14198410 TTAGGGGTT-AGATG
1 TTAGGGGTTAAGA-G
14198424 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
14198438 TTAGGG
1 TTAGGG
14198444 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:14198456 original size:15 final size:15
Alignment explanation
Indices: 14198374--14198461 Score: 53
Period size: 15 Copynumber: 6.1 Consensus size: 15
14198364 GGGGTTATGG
14198374 TTTAAGG-TT-GGGA
1 TTTAAGGTTTAGGGA
*
14198387 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAGGGA
***
14198402 TTGGGGGTTTAGGG-
1 TTTAAGGTTTAGGGA
* *
14198416 GTT-AGATGTTAGGG-
1 TTTAAGGT-TTAGGGA
*
14198430 GTTAAGAG-TTAGGGA
1 TTTAAG-GTTTAGGGA
14198445 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
14198460 TT
1 TT
14198462 CAGGGATCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
13 9 0.16
14 19 0.33
15 30 0.52
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:14199266 original size:100 final size:102
Alignment explanation
Indices: 14199148--14199336 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 102
14199138 TTTTAAAAAA
* *
14199148 ACGCCTCAAAAAATAAATCAAT-T-TATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACG
1 ACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACG
14199211 GCGTCATTTTGTTGAAAATGAAATAGCGGCATTTTTC
66 GCGTCATTTTGTTGAAAATGAAATAGCGGCATTTTTC
*
14199248 ACGCCGCAAAAAACAAATCAATATATATAAAATATAAAATAAAAAATTTTTAGCATAGCAAAACG
1 ACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACG
*
14199313 GCGTCATTTTGTTTAAAATGAAAT
66 GCGTCATTTTGTTGAAAATGAAAT
14199337 TTTTTTTGCA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
100 20 0.24
101 1 0.01
102 62 0.75
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (102 bp):
ACGCCGCAAAAAACAAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACG
GCGTCATTTTGTTGAAAATGAAATAGCGGCATTTTTC
Found at i:14199452 original size:153 final size:154
Alignment explanation
Indices: 14199262--14199541 Score: 438
Period size: 153 Copynumber: 1.8 Consensus size: 154
14199252 CGCAAAAAAC
* * * *
14199262 AAATCAATATATATAAAATATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTT
1 AAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGAATAGCAAAACAGCGTCATTTTGTTC
*** *
14199327 AAAATGAAATTTTTTTTGC-AGCGCTCCTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCAT
66 AAAATGAAAAAATTTTTGCGA-CGCTCCTCATAAAAACGCCGCTAAAAGTAAGCAATAGCGGCAT
14199391 TTGTTAAAAAAACACGGTAAAGAAT
130 TTGTTAAAAAAACACGGTAAAGAAT
14199416 AAATCAATATATA-AAAAAATAAAATAAAAAATTTTTAGAATAGCAAAACAGCGTCATTTTGTTC
1 AAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGAATAGCAAAACAGCGTCATTTTGTTC
* * *
14199480 AAAATGAAAAAATTTTTGCGACGCTTCTCGTAAAAGCGCCGCTAAAAGTAAGCAATAGCGGC
66 AAAATGAAAAAATTTTTGCGACGCTCCTCATAAAAACGCCGCTAAAAGTAAGCAATAGCGGC
14199542 GTTTTTTTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
153 100 0.88
154 14 0.12
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (154 bp):
AAATCAATATATATAAAAAATAAAATAAAAAATTTTTAGAATAGCAAAACAGCGTCATTTTGTTC
AAAATGAAAAAATTTTTGCGACGCTCCTCATAAAAACGCCGCTAAAAGTAAGCAATAGCGGCATT
TGTTAAAAAAACACGGTAAAGAAT
Found at i:14199581 original size:13 final size:14
Alignment explanation
Indices: 14199553--14199583 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14199543 TTTTTTTAAT
14199553 AAACGCCGCAAAAA
1 AAACGCCGCAAAAA
*
14199567 AAACGCCGTAAAAA
1 AAACGCCGCAAAAA
14199581 AAA
1 AAA
14199584 TTATATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.23, G:0.13, T:0.03
Consensus pattern (14 bp):
AAACGCCGCAAAAA
Done.