Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 42 of 356
Found at i:13765037 original size:30 final size:30
Alignment explanation
Indices: 13764959--13765047 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
13764949 CATAGTATCG
* * *
13764959 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTT
*
13764989 TAT-TCTGGATTTCTTTATTCTGGGTTTCTT
1 TATCT-TGGATTTCTTTATTCTGGATTTCTT
*
13765019 TATCTTGGATTTCTTTATTC-GGTTTTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTT
13765048 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.17
30 42 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTT
Found at i:13765047 original size:14 final size:15
Alignment explanation
Indices: 13764968--13765047 Score: 101
Period size: 15 Copynumber: 5.4 Consensus size: 15
13764958 GTATCTTGGG
*
13764968 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
13764983 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
13764998 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
13765013 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
13765028 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
13765042 TTTCTT
1 TTTCTT
13765048 GTTATCTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
14 10 0.18
15 45 0.79
16 2 0.04
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13766486 original size:46 final size:46
Alignment explanation
Indices: 13766416--13766555 Score: 192
Period size: 46 Copynumber: 3.0 Consensus size: 46
13766406 CGGGGCGTTA
* *
13766416 CAACGTAACATGAGATGAATAAGACCATGGTTGAAAGATACCATGG
1 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
*
13766462 CAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGG
1 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
* * * * *
13766508 CAACATGACA-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGG
1 CAACGTGACATGAAA-TGAATAAGACCATGGTTGAAAGATACCATGG
13766554 CA
1 CA
13766556 TCATGTCGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
45 4 0.05
46 80 0.95
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (46 bp):
CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
Found at i:13766701 original size:26 final size:26
Alignment explanation
Indices: 13766644--13766738 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
13766634 TCAAATGATG
* *
13766644 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
13766670 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
** * *
13766694 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTGTAT-GAAATGGT-TATACAA
*
13766723 AATAGTTGTATGAAAT
1 AATGGTTGTATGAAAT
13766739 AATTAAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:13777397 original size:19 final size:18
Alignment explanation
Indices: 13777358--13777404 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
13777348 CCATTATAGT
13777358 ATATTTATATTATAATATA
1 ATATTT-TATTATAATATA
*
13777377 ATATTTTATTATAAATTTA
1 ATATTTTATTAT-AATATA
*
13777396 ATTTTTTAT
1 ATATTTTAT
13777405 GTGTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTTATTATAATATA
Found at i:13787508 original size:6 final size:6
Alignment explanation
Indices: 13787497--13787533 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
13787487 TACGCTTTGC
* *
13787497 TTCTTT TTCTTT TTTTTT TTCTTT TTTTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
13787534 CAGTGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TTCTTT
Found at i:13787517 original size:12 final size:12
Alignment explanation
Indices: 13787500--13787533 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
13787490 GCTTTGCTTC
13787500 TTTTTCTTTTTT
1 TTTTTCTTTTTT
13787512 TTTTTCTTTTTT
1 TTTTTCTTTTTT
13787524 TTTTTCTTTT
1 TTTTTCTTTT
13787534 CAGTGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:13787518 original size:18 final size:17
Alignment explanation
Indices: 13787497--13787534 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13787487 TACGCTTTGC
*
13787497 TTCTTTTTCTTTTTTTTT
1 TTCTTTTT-TTTTTTCTT
13787515 TTCTTTTTTTTTTTCTT
1 TTCTTTTTTTTTTTCTT
13787532 TTC
1 TTC
13787535 AGTGAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTCTTTTTTTTTTTCTT
Found at i:13789051 original size:53 final size:53
Alignment explanation
Indices: 13788971--13789081 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
13788961 TTTAACTATA
*
13788971 TATATGTGTGTATATGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
1 TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
*
13789024 TATATGTGTGTATACGAAAAACTATAACAAATGAAAGTATATTCAATTAAAAT
1 TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
13789077 TATAT
1 TATAT
13789082 TTACTTTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (53 bp):
TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
Found at i:13789954 original size:26 final size:30
Alignment explanation
Indices: 13789925--13789979 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13789915 TATCACTTAT
13789925 AAAAATT-AT-ATA-TAA-TATTTTAATTG
1 AAAAATTAATGATATTAATTATTTTAATTG
*
13789951 AAAATTTAATGATATTAATTATTTTAATT
1 AAAAATTAATGATATTAATTATTTTAATT
13789980 AATTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 3 0.12
29 3 0.12
30 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
AAAAATTAATGATATTAATTATTTTAATTG
Found at i:13791176 original size:125 final size:124
Alignment explanation
Indices: 13790984--13791371 Score: 573
Period size: 125 Copynumber: 3.1 Consensus size: 124
13790974 AACTTTTTAT
* * * *
13790984 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAAAAGACGTTTTTGAACAAACAGTGTTGA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
13791049 AAACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGAACGC
66 AAACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACT-AAAAAAGCTCCTACGTG-ACGC
*
13791110 TTTTTTTCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCGA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
* *
13791174 AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAGCTCATACGTGACGC
66 AAACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACTAAAAAAGCTCCTACGTGACGC
* * * *
13791233 TTTTTTTCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
* * * *
13791298 AAACGCTTCAA-CTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
66 AAACGCTTTAAGC-AGGATGGACTGTTAGCAAAATTACT-AAAAAAGCTCCTACGT-GACGC
*
13791359 TCTTTTTCTACAG
1 TTTTTTTCTACAG
13791372 CAGTTCCTAT
Statistics
Matches: 239, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
123 25 0.10
124 87 0.36
125 88 0.37
126 39 0.16
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (124 bp):
TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
AAACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACTAAAAAAGCTCCTACGTGACGC
Found at i:13791290 original size:124 final size:125
Alignment explanation
Indices: 13790984--13791371 Score: 582
Period size: 124 Copynumber: 3.1 Consensus size: 125
13790974 AACTTTTTAT
* * * *
13790984 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAAAAGACGTTTTTGAACAAACAGTGTTGA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
*
13791049 AAACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGAACGC
66 AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTG-ACGC
*
13791110 TTTTTTTCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCGA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
*
13791174 AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACT-AAAAAAGCTCATACGTGACGC
66 AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGACGC
* * * *
13791233 TTTTTTTCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCA
1 TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
* * * * * *
13791298 AAACGCTTCAACTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
66 AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGT-GACGC
*
13791359 TCTTTTTCTACAG
1 TTTTTTTCTACAG
13791372 CAGTTCCTAT
Statistics
Matches: 240, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
123 25 0.10
124 88 0.37
125 88 0.37
126 39 0.16
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
AAACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGACGC
Found at i:13804286 original size:46 final size:45
Alignment explanation
Indices: 13804219--13804559 Score: 209
Period size: 46 Copynumber: 7.8 Consensus size: 45
13804209 ATTATACAGG
*
13804219 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA-TTCAGA
* * * *
13804265 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA-ATTCAGA
* * * * * *
13804309 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATTCAGA
* * * *
13804348 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGAATTCAGA
*
13804389 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA-TTCAGA
* * * *
13804435 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATTCA-GA
* * * * **
13804478 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGAAT-TCAGA
* * *
13804522 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA
13804560 CACTATCTTA
Statistics
Matches: 229, Mismatches: 41, Indels: 50
0.72 0.13 0.16
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 27 0.12
42 7 0.03
43 29 0.13
44 60 0.26
45 6 0.03
46 73 0.32
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATTCAGA
Found at i:13804535 original size:44 final size:42
Alignment explanation
Indices: 13804432--13804625 Score: 119
Period size: 43 Copynumber: 4.6 Consensus size: 42
13804422 AAAGAATTTC
* * * * *
13804432 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAAAA
** *
13804475 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-AA
* * * * *
13804518 GAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA
1 -AGATCTTATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAAAA
** * *
13804562 CTATCTTATCTCCCCGAAGTTACAGTAGAGCGGATT---AAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAA
* * *
13804601 GGATCTTATCTCTCTGAGGTTACAG
1 AGATCTTATCTCCCTGAAGTTACAG
13804626 CAGAGTAGAT
Statistics
Matches: 116, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
39 22 0.19
42 3 0.03
43 56 0.48
44 32 0.28
45 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAA
Found at i:13804586 original size:43 final size:43
Alignment explanation
Indices: 13804389--13804575 Score: 173
Period size: 43 Copynumber: 4.3 Consensus size: 43
13804379 TCACATCAGG
* * * * *
13804389 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TA
13804435 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
* * * * * * **
13804478 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGA-CA-CTA
13804522 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
13804565 TCTTATCTCCC
1 TCTTATCTCCC
13804576 CGAAGTTACA
Statistics
Matches: 114, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
42 4 0.04
43 41 0.36
44 30 0.26
45 4 0.04
46 34 0.30
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
Found at i:13804636 original size:82 final size:85
Alignment explanation
Indices: 13804432--13804637 Score: 310
Period size: 87 Copynumber: 2.4 Consensus size: 85
13804422 AAAGAATTTC
*
13804432 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
*
13804497 CAGTGGAGCGGATTAAAATAAG
66 CAGTAGAGCGGATT--AATAAG
*
13804519 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
13804584 CAGTAGAGCGGATT-A-AAG
66 CAGTAGAGCGGATTAATAAG
* * * *
13804602 -GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
13804638 CATTAAGTCT
Statistics
Matches: 112, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
82 32 0.29
83 3 0.03
84 1 0.01
87 76 0.68
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
CAGTAGAGCGGATTAATAAG
Found at i:13806283 original size:3 final size:3
Alignment explanation
Indices: 13806228--13806266 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13806218 GTACTTTTGC
13806228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13806267 CATCTTTGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13806498 original size:36 final size:36
Alignment explanation
Indices: 13806419--13806498 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
13806409 AATTTGTTTA
* *
13806419 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
13806455 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
13806491 ATATATAT
1 ATATATAT
13806499 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:13806746 original size:18 final size:18
Alignment explanation
Indices: 13806725--13806761 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13806715 TACACCTATA
*
13806725 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
13806743 TATATATATGCATATTTT
1 TATATATATACATATTTT
13806761 T
1 T
13806762 TTCTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:13806748 original size:20 final size:18
Alignment explanation
Indices: 13806723--13806761 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
13806713 TATACACCTA
13806723 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
13806743 TATATATATGCATATTTT
1 TATATATATGCATATTTT
13806761 T
1 T
13806762 TTCTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:13811401 original size:3 final size:3
Alignment explanation
Indices: 13811393--13811423 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13811383 AACCAACGTG
13811393 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
13811424 AAGCTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13813761 original size:46 final size:46
Alignment explanation
Indices: 13813709--13814108 Score: 489
Period size: 46 Copynumber: 8.7 Consensus size: 46
13813699 GCTCTTTGAA
* * * *
13813709 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACAAGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13813755 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13813801 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13813847 ATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGAG-AACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATG-GCAACATGAC
* * * *
13813893 ATGAAAAGAATAAGACCATGGTTGAGAGATACCAAGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * ***
13813939 GGGAAATGAATAAGACCAAGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13813985 ATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13814031 ATGAAAAGAATAAGACCATAGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
13814077 A-GAAAATGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATAC
13814109 TATGCCATCA
Statistics
Matches: 316, Mismatches: 35, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 313 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:13815966 original size:13 final size:13
Alignment explanation
Indices: 13815948--13815982 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13815938 CTCGGCAGGG
13815948 ACACGCCCGCGGC
1 ACACGCCCGCGGC
*
13815961 ACACGCCTGCGGC
1 ACACGCCCGCGGC
13815974 ACACGCCCG
1 ACACGCCCG
13815983 TGTTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.51, G:0.29, T:0.03
Consensus pattern (13 bp):
ACACGCCCGCGGC
Found at i:13816112 original size:19 final size:19
Alignment explanation
Indices: 13816078--13816116 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13816068 GATTTCGTAC
*
13816078 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
13816098 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
13816116 T
1 T
13816117 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:13821156 original size:23 final size:23
Alignment explanation
Indices: 13821112--13821156 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13821102 ACCAATTCAA
* *
13821112 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
13821135 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
13821157 CACATACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:13831082 original size:46 final size:49
Alignment explanation
Indices: 13830899--13831211 Score: 302
Period size: 46 Copynumber: 6.7 Consensus size: 49
13830889 GAGTGTAATA
* *
13830899 CCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCAATG
* * * *
13830946 TCGATGCCATCTCCTAGACATGGTCTTACACTGGCTCTCACATCTCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCAATG
* * *
13830996 CCGATGCCATGTTCCAGACATGGTCTTACACTGAC-C--CATCTC-GTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAAT-G
*
13831042 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
* * *
13831088 CCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
* * *
13831134 CCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTA-A--TAATATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCA-AT-G
*
13831182 CCGAAG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
13831212 AGCGCACAAA
Statistics
Matches: 223, Mismatches: 28, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 78 0.35
47 64 0.29
48 20 0.09
49 4 0.02
50 31 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
Found at i:13831160 original size:94 final size:95
Alignment explanation
Indices: 13830906--13831214 Score: 322
Period size: 94 Copynumber: 3.3 Consensus size: 95
13830896 ATACCGATGT
* * *
13830906 CATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAA-GTCGATGCCATCTCCTAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCCATGTCCTAGACATGG
* * *
13830969 TCTTACACTGGCTCTCACATCTCCATGCCGATG
64 TCTTACACTGGCTCT-ACATCTCAAGGCCAATG
* * *
13831002 CCATGTTCCAGACATGGTCTTACACT-GAC-C-CATCTC-GTAGCCGATG-CATGTCCCAGACAT
1 -CATGTCCCAGACATGGTCTTACACTAG-CTCTC-TCTCAAT-GCCGATGCCATGTCCTAGACAT
13831062 -GTCTTACACTGGCT-TACATCTCAAGGCCAATG
62 GGTCTTACACTGGCTCTACATCTCAAGGCCAATG
13831094 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATGCCGATGCCATGTCCTAGACATGGT
* * *
13831158 CTTACACTGACTCTA-ATAAT-ATGGCCGAA-G
65 CTTACACTGGCTCTACAT-CTCAAGGCC-AATG
13831188 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
13831215 GCACAAAGGA
Statistics
Matches: 183, Mismatches: 15, Indels: 31
0.80 0.07 0.14
Matches are distributed among these distances:
90 11 0.06
91 15 0.08
92 26 0.14
93 15 0.08
94 63 0.34
95 19 0.10
96 9 0.05
97 25 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (95 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATGCCGATGCCATGTCCTAGACATGGTC
TTACACTGGCTCTACATCTCAAGGCCAATG
Found at i:13839992 original size:129 final size:130
Alignment explanation
Indices: 13839787--13840062 Score: 432
Period size: 129 Copynumber: 2.1 Consensus size: 130
13839777 TTATTAAAAA
** * *
13839787 TATA-AAA-ATATTAAAAATACTGTCTTATTCAAAAGAACTTTTATTTTATTAAAAATATAAAAA
1 TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
*
13839850 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATAT-AAAAAGTT
66 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
* * *
13839914 TGTACAAATATATTAAAAATATTACCTTATTAAAAAAAACTTTTATTTTATTAAAATTATAAAAA
1 TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
* *
13839979 GTAAATTATAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAATTT
66 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
*
13840044 TATACAAATATTTTAAAAA
1 TATACAAATATATTAAAAA
13840063 ATCAATGTTG
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
127 3 0.02
128 3 0.02
129 104 0.78
130 24 0.18
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (130 bp):
TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
Found at i:13840473 original size:18 final size:18
Alignment explanation
Indices: 13840452--13840486 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13840442 AAAAGGAAAC
*
13840452 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
13840470 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
13840487 CGCACCTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:13840575 original size:30 final size:30
Alignment explanation
Indices: 13840541--13840605 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
13840531 GTTGAAGTGT
13840541 TGGGCCTGGTGACTATGTGGGCGCTGTTGA
1 TGGGCCTGGTGACTATGTGGGCGCTGTTGA
* * * *
13840571 TGGGCCTTGTGATTGTGTGGGCGTTGTTGA
1 TGGGCCTGGTGACTATGTGGGCGCTGTTGA
13840601 TGGGC
1 TGGGC
13840606 TCGTGTCGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.08, C:0.14, G:0.45, T:0.34
Consensus pattern (30 bp):
TGGGCCTGGTGACTATGTGGGCGCTGTTGA
Found at i:13842311 original size:11 final size:11
Alignment explanation
Indices: 13842282--13842311 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13842272 TAAACAGAGC
*
13842282 TTTGAGAAAAA
1 TTTGAGAGAAA
13842293 TTTGAGAGAAA
1 TTTGAGAGAAA
13842304 TTTGAGAG
1 TTTGAGAG
13842312 GATTTTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:13842696 original size:29 final size:24
Alignment explanation
Indices: 13842653--13842724 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 24
13842643 TGTTGCGCTG
13842653 TTTATATTTTTAAAATTTAATCTCTACATT
1 TTTAT-TTTTTAAAATTTAAT-T-T---TT
13842683 TTTATTTTTTAAAATTTAATTTTT
1 TTTATTTTTTAAAATTTAATTTTT
13842707 TTTATTTTTT-AAATTTAA
1 TTTATTTTTTAAAATTTAA
13842725 AAATTTAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.19
24 12 0.29
27 1 0.02
28 1 0.02
29 15 0.36
30 5 0.12
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTATTTTTTAAAATTTAATTTTT
Found at i:13843945 original size:22 final size:22
Alignment explanation
Indices: 13843906--13843948 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13843896 TAGCTATTTA
**
13843906 TTGTTGTTTTAATTCTATTTTC
1 TTGTTGTTTTAACCCTATTTTC
*
13843928 TTGTTGTTTTCACCCTATTTT
1 TTGTTGTTTTAACCCTATTTT
13843949 GCTACCATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.09, T:0.65
Consensus pattern (22 bp):
TTGTTGTTTTAACCCTATTTTC
Found at i:13844154 original size:19 final size:19
Alignment explanation
Indices: 13844127--13844178 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
13844117 TTGTTGAGAA
* *
13844127 ATATTTATTTTAATATATT
1 ATATATATTTTAATAAATT
13844146 ATATATA-TTTAA-AAATT
1 ATATATATTTTAATAAATT
*
13844163 ATATAAATATTTAATA
1 ATATATAT-TTTAATA
13844179 CAAACAGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 11 0.41
20 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATATATATTTTAATAAATT
Found at i:13846496 original size:19 final size:20
Alignment explanation
Indices: 13846472--13846516 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
13846462 TAAATTTTGG
*
13846472 AATTTTTATAAA-TATTTTA
1 AATTTTTAAAAATTATTTTA
13846491 AA-TTTTAAAAATTATTTTA
1 AATTTTTAAAAATTATTTTA
13846510 AATTTTT
1 AATTTTT
13846517 GTTGAGGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 11 0.48
20 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTA
Found at i:13852917 original size:131 final size:128
Alignment explanation
Indices: 13852593--13853250 Score: 432
Period size: 131 Copynumber: 5.0 Consensus size: 128
13852583 CTTGCCTTAG
* * * * * * * * *
13852593 AAAATATGAGTGAAATTTCGAAGAGATACTCGATTATTTTGAACGAACGGGAGATTGCAACCCAG
1 AAAACATGAGTGAAA-TT-GAAGGGATATTCGATTGTTTTGAGCAAAC-GAAAATCGCAACCCAG
* * * * * *
13852658 CACGATAGGGCACTATTCCCCGAATTGCCAAACATCGAACAT-TTCTTCCGTTTTCAAGAGTTTT
63 CACGATAGGGCACGATTCCTCAAATTGCCAAACATCGAACATCATCTT-CGTTTTAAAGTGTTTT
13852722 TA
127 TA
* * * * * * * *
13852724 GAAAACGTGAGTGAAATTCCGAAGGGATCTTCAATTGTTCTGAACCAATGAAAAAGCGCAACCCA
1 -AAAACATGAGTGAAATT--GAAGGGATATTCGATTGTTTTGAGCAAACG-AAAATCGCAACCCA
* *
13852789 GCACGATAGGGCACGATT-CTCAAATCGCCAAACATTGAACATCATCTTCGTTTTAAAGTGTTTT
62 GCACGATAGGGCACGATTCCTCAAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGTGTTTT
13852853 TA
127 TA
* * *
13852855 ATAAACATGAGTGAGAATATAAAGGAATATTCGATTGTTTTGAGCAAACGAAAGATCACAACCCA
1 A-AAACATGAGTGA-AAT-TGAAGGGATATTCGATTGTTTTGAGCAAACGAAA-ATCGCAACCCA
* *** * * * * *** *
13852920 ACACGATAAAACATGATT-CTCGAATTGTCAAACATCGAATATTGCCTTCGTTTTAAA-TAATTT
62 GCACGATAGGGCACGATTCCTCAAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGT-GTTT
13852983 TTA
126 TTA
* * * * * *
13852986 AAAGACATGAATGAAATTTTGAAGGGATATTTGATTATTTTAAGCAACCGAGAAATTGCAACCCA
1 AAA-ACATGAGTGAAA--TTGAAGGGATATTCGATTGTTTTGAGCAAACGA-AAATCGCAACCCA
* * * * * **
13853051 GCACGTTAGGGCACGATTCCACAAATTGCCAAATATCGCACATCA-CATTCGTTTCAAAG-AATT
62 GCACGATAGGGCACGATTCCTCAAATTGCCAAACATCGAACATCATC-TTCGTTTTAAAGTGTTT
13853114 TTA
126 TTA
* * * *
13853117 AAAAGGCATGA-TGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCC
1 AAAA--CATGAGTGAAA--TTGAAGGGATATTCGATTGTTTTGAGCAAACG-AAAATCGCAACCC
* * * * * * * * * * *
13853181 AACACGTTAGGGCACTATTCCGCGAATTGCCAAATATTGAATC-TCGTCTTCATTTTAGAGAGTT
61 AGCACGATAGGGCACGATTCCTCAAATTGCCAAACATCGAA-CATCATCTTCGTTTTAAAGTGTT
13853245 TTTA
125 TTTA
13853249 AA
1 AA
13853251 TGAATACTTA
Statistics
Matches: 418, Mismatches: 87, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
130 10 0.02
131 293 0.70
132 114 0.27
133 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (128 bp):
AAAACATGAGTGAAATTGAAGGGATATTCGATTGTTTTGAGCAAACGAAAATCGCAACCCAGCAC
GATAGGGCACGATTCCTCAAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGTGTTTTTA
Found at i:13853814 original size:21 final size:21
Alignment explanation
Indices: 13853772--13853814 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13853762 AGAAGTTAAC
* * *
13853772 AAAATATATGATAATAATAAT
1 AAAAAATATGATAAGAAAAAT
*
13853793 AAAAAATATGATACGAAAAAT
1 AAAAAATATGATAAGAAAAAT
13853814 A
1 A
13853815 CATGACAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAAATATGATAAGAAAAAT
Found at i:13865130 original size:13 final size:13
Alignment explanation
Indices: 13865112--13865141 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13865102 CCGGCCCACC
*
13865112 TATATTATTTTTT
1 TATATTATTTTTA
13865125 TATATTATTTTTA
1 TATATTATTTTTA
13865138 TATA
1 TATA
13865142 AATTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTATTTTTA
Found at i:13865302 original size:30 final size:30
Alignment explanation
Indices: 13865268--13865327 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13865258 ACTTAACAAG
*
13865268 CAAATGCCTCTAAAATAATAA-ATAAATTAA
1 CAAATGCATCTAAAATAATAACA-AAATTAA
*
13865298 CAAATGCATTTAAAATAATAACAAAATTAA
1 CAAATGCATCTAAAATAATAACAAAATTAA
13865328 TAATAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCATCTAAAATAATAACAAAATTAA
Found at i:13866682 original size:31 final size:31
Alignment explanation
Indices: 13866645--13866704 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
13866635 TAATAGTCAC
*
13866645 GTGACTTAAATAAAAACTTTCAGATAATTTA
1 GTGACTTAAATAAAAACTTTCAAATAATTTA
*
13866676 GTGACTTAAATAAAAACTTTTAAATAATT
1 GTGACTTAAATAAAAACTTTCAAATAATT
13866705 CAATAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (31 bp):
GTGACTTAAATAAAAACTTTCAAATAATTTA
Found at i:13866956 original size:18 final size:18
Alignment explanation
Indices: 13866924--13866966 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13866914 TGCTCGTTTT
*
13866924 AAAAAAT-CATTAAAATA
1 AAAAAATCCATAAAAATA
*
13866941 AAAAAATCCATAAAAATG
1 AAAAAATCCATAAAAATA
13866959 AAAAAATC
1 AAAAAATC
13866967 TTGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAAATCCATAAAAATA
Found at i:13867045 original size:21 final size:21
Alignment explanation
Indices: 13867019--13867058 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13867009 AATAATTATC
*
13867019 GATATTTTTAAATAATAAAAA
1 GATATTTTAAAATAATAAAAA
*
13867040 GATATTTTAAAATTATAAA
1 GATATTTTAAAATAATAAA
13867059 TATGTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
GATATTTTAAAATAATAAAAA
Found at i:13868688 original size:21 final size:21
Alignment explanation
Indices: 13868656--13868714 Score: 102
Period size: 21 Copynumber: 2.8 Consensus size: 21
13868646 AGTTTTACCT
13868656 GTTTT-ACGTTTTAACTTAATA
1 GTTTTGAC-TTTTAACTTAATA
13868677 GTTTTGACTTTTAACTTAATA
1 GTTTTGACTTTTAACTTAATA
13868698 GTTTTGACTTTTAACTT
1 GTTTTGACTTTTAACTT
13868715 TAGAAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 35 0.95
22 2 0.05
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
GTTTTGACTTTTAACTTAATA
Found at i:13869800 original size:20 final size:20
Alignment explanation
Indices: 13869758--13869800 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
13869748 TAGTGAAGAA
*
13869758 ATTA-AAAAAACTATACAAC
1 ATTATAAAAAACTATAAAAC
*
13869777 -TTATAAAAAAGTATAAAAC
1 ATTATAAAAAACTATAAAAC
13869796 ATTAT
1 ATTAT
13869801 CAGATTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 13 0.65
20 4 0.20
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (20 bp):
ATTATAAAAAACTATAAAAC
Found at i:13870522 original size:154 final size:153
Alignment explanation
Indices: 13870087--13870545 Score: 884
Period size: 153 Copynumber: 3.0 Consensus size: 153
13870077 ATATATGTAT
*
13870087 GATAAAAAAAATATTTTG-AAAAAAAATTAAAGGTAGGAAATCAACAAATATCAAGTTCTTTCAA
1 GATAAAAAAAATATTTTGAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAA
13870151 TTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCC
66 TTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCC
13870216 TCCCCTCATCATGTTTAATCACC
131 TCCCCTCATCATGTTTAATCACC
13870239 GATAAAAAAAATATTTTGAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAA
1 GATAAAAAAAATATTTTGAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAA
13870304 TTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCC
66 TTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCC
13870369 TCCCCTCATCATGTTTAATCACC
131 TCCCCTCATCATGTTTAATCACC
13870392 GATAAAAAAAATATTTTGAAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCA
1 GATAAAAAAAATATTTTG-AAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCA
*
13870457 ATTAATTAACTTAAAACAGAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGC
65 ATTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGC
13870522 CTCCCCTCATCATGTTTAATCACC
130 CTCCCCTCATCATGTTTAATCACC
13870546 TAATGATTAA
Statistics
Matches: 303, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
152 18 0.06
153 151 0.50
154 134 0.44
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (153 bp):
GATAAAAAAAATATTTTGAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAA
TTAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCC
TCCCCTCATCATGTTTAATCACC
Found at i:13870891 original size:23 final size:23
Alignment explanation
Indices: 13870845--13870892 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13870835 AACTCGGTAT
* *
13870845 TAATTTTTTATATTATTTTTATA
1 TAATTTTTTAAATTATTTTAATA
13870868 TAATTTTTTAAA-TATATTTAATA
1 TAATTTTTTAAATTAT-TTTAATA
13870891 TA
1 TA
13870893 TCAAAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TAATTTTTTAAATTATTTTAATA
Found at i:13871022 original size:30 final size:30
Alignment explanation
Indices: 13870988--13871050 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13870978 ACTTAACAAG
*
13870988 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
13871018 CAAATGCTTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
13871048 CAA
1 CAA
13871051 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:13880565 original size:20 final size:20
Alignment explanation
Indices: 13880540--13880585 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13880530 ATTACGCTTT
13880540 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
13880560 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
13880579 GCCCATA
1 GCCCATA
13880586 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:13880594 original size:19 final size:20
Alignment explanation
Indices: 13880552--13880595 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
13880542 CCATATTAAC
** *
13880552 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
13880572 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
13880591 ACAGT
1 ACAGT
13880596 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:13882222 original size:36 final size:36
Alignment explanation
Indices: 13882175--13882254 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
13882165 AGATGGCTAA
13882175 CCCTAATTCGACAAAACAAAAAGAAAATCAAGCTTG
1 CCCTAATTCGACAAAACAAAAAGAAAATCAAGCTTG
13882211 CCCTAATTCGACAAAACAAAAAGAAAATCAAGCTTG
1 CCCTAATTCGACAAAACAAAAAGAAAATCAAGCTTG
*
13882247 CCCGAATT
1 CCCTAATT
13882255 TCCACTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.47, C:0.24, G:0.11, T:0.17
Consensus pattern (36 bp):
CCCTAATTCGACAAAACAAAAAGAAAATCAAGCTTG
Found at i:13892988 original size:22 final size:24
Alignment explanation
Indices: 13892960--13893003 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13892950 TATGGCAAGA
13892960 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
13892982 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
13893004 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:13916729 original size:2 final size:2
Alignment explanation
Indices: 13916724--13916749 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13916714 CAGAGATATA
13916724 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
13916750 GAGGAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:13919171 original size:44 final size:43
Alignment explanation
Indices: 13919121--13919267 Score: 147
Period size: 42 Copynumber: 3.4 Consensus size: 43
13919111 TCTAAAATAT
* *
13919121 CGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGATATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGA-ATTTA
** *
13919165 CGTGTAAGACCATGTCTGGGACATTGACATCGTATTTG-ATTT-
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGAATTTA
* * * *
13919207 CGAGTAAGACCTTGTCTGGGACAGAGGCATCAATATTGAA-TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTGAATTTA
* *
13919250 CATGTAAGACCACGTCTG
1 CGTGTAAGACCATGTCTG
13919268 AGACGTAGGC
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.37
43 19 0.23
44 27 0.32
45 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGAATTTA
Found at i:13921428 original size:42 final size:41
Alignment explanation
Indices: 13921351--13921434 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
13921341 CACAAAACTC
* * * *
13921351 ACAAAAGCCCATGCTCTCGAGGAGCACACAGAGTGAGGCTT
1 ACAAAAGCCCATGCTCCCAAGGAGCACACAAAGTGAGACTT
*
13921392 ACAAAAGCTCATGCTCCCAAAGGAGCACACAAAGTGAGACTT
1 ACAAAAGCCCATGCTCCC-AAGGAGCACACAAAGTGAGACTT
13921434 A
1 A
13921435 TTTATGGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.43
42 21 0.57
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.14
Consensus pattern (41 bp):
ACAAAAGCCCATGCTCCCAAGGAGCACACAAAGTGAGACTT
Found at i:13922271 original size:26 final size:26
Alignment explanation
Indices: 13922235--13922307 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
13922225 ATCTTTGATC
* * * *
13922235 GGCGAATCCAGTTTGCCACACAAATT
1 GGCGAACCCAGCTTGCCAAACAAACT
*
13922261 GGCGAACCCAGCTTGTCAAACAAACT
1 GGCGAACCCAGCTTGCCAAACAAACT
*
13922287 GGTGAACCCCTAGCTTGCCAA
1 GGCGAA-CCC-AGCTTGCCAA
13922308 CATATTAGCG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 26 0.68
27 3 0.08
28 9 0.24
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (26 bp):
GGCGAACCCAGCTTGCCAAACAAACT
Found at i:13923001 original size:14 final size:15
Alignment explanation
Indices: 13922982--13923011 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13922972 ACCTACTAAG
13922982 TAAAGA-TAAGATGT
1 TAAAGATTAAGATGT
13922996 TAAAGATTAAGATGT
1 TAAAGATTAAGATGT
13923011 T
1 T
13923012 TTAGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
TAAAGATTAAGATGT
Found at i:13925851 original size:21 final size:24
Alignment explanation
Indices: 13925824--13925872 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
13925814 AATTTTATGT
13925824 TTATATATTATAT-ATAT-AAATAA
1 TTATAT-TTATATAATATAAAATAA
*
13925847 TTATATTTATCTAATATAAAATAA
1 TTATATTTATATAATATAAAATAA
13925871 TT
1 TT
13925873 TGGTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 10 0.43
24 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATATTTATATAATATAAAATAA
Found at i:13925985 original size:29 final size:30
Alignment explanation
Indices: 13925952--13926018 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
13925942 TAATAAAAGT
13925952 TTTATA-AATATAATTACAC-CAAATTAAAA
1 TTTATATAATA-AATTACACACAAATTAAAA
* *
13925981 TTTATATAATAAATTATACATAAATTAAAA
1 TTTATATAATAAATTACACACAAATTAAAA
*
13926011 TTAATATA
1 TTTATATA
13926019 TAATTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTATATAATAAATTACACACAAATTAAAA
Found at i:13927158 original size:125 final size:126
Alignment explanation
Indices: 13926883--13927273 Score: 532
Period size: 126 Copynumber: 3.1 Consensus size: 126
13926873 GAAAGATTTT
* * * * *
13926883 TTTTTCTACAGTCGTTTTTGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAGTAACAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATCAAAA
* * * * *
13926948 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTTAAAAAAGCTCCCACGTGAACGCTC
66 ACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
* * * * * * * *
13927009 TTTTTATACAGTTGTTCCTAAAAAAATAATTTAGAGAAGACGGTTTTGAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATCAAAA
* *
13927074 ACGCTTCAAACA-GATGCACTGTCAACAAAATTACTGAAAAAATCTCCCACGTGGACGCTC
66 ACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
* * * *
13927134 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGTAGACAGTTCTGAAAAAATGGTATCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATCAAAA
* * *
13927199 ACGCTTTAAACAGGATGCACTATCAGCAAAATTACTGAAAAAAACTCCCACATGGACGCTC
66 ACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
13927260 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
13927274 CTCCTGCTTA
Statistics
Matches: 228, Mismatches: 36, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
125 107 0.47
126 121 0.53
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTATCAAAA
ACGCTTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
Found at i:13936929 original size:43 final size:43
Alignment explanation
Indices: 13936882--13936969 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
13936872 ATCCAATCAA
13936882 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
1 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
*
13936925 GTATGATTAATTTCATACTCAACTAATTTTTGTTTAGCTTTAG
1 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
13936968 GT
1 GT
13936970 CGGTTATCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (43 bp):
GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
Found at i:13937549 original size:19 final size:19
Alignment explanation
Indices: 13937521--13937557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13937511 CACATATTTG
13937521 GTTATCTAATTTAATTTTA
1 GTTATCTAATTTAATTTTA
* *
13937540 GTTATTTAATTTTATTTT
1 GTTATCTAATTTAATTTT
13937558 GCATTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (19 bp):
GTTATCTAATTTAATTTTA
Found at i:13938665 original size:22 final size:22
Alignment explanation
Indices: 13938640--13938682 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13938630 GCACTATTAA
13938640 ACAAAGAGCACTAAA-GTGCTAT
1 ACAAAGAGCAC-AAATGTGCTAT
13938662 ACAAAGAGCACAAATGTGCTA
1 ACAAAGAGCACAAATGTGCTA
13938683 AACGGATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (22 bp):
ACAAAGAGCACAAATGTGCTAT
Found at i:13938718 original size:25 final size:25
Alignment explanation
Indices: 13938685--13938735 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13938675 ATGTGCTAAA
* * *
13938685 CGGATAGCACTAATGTGGTAATAAT
1 CGGAGAGCACTAACGTGCTAATAAT
13938710 CGGAGAGCACTAACGTGCTAATAAT
1 CGGAGAGCACTAACGTGCTAATAAT
13938735 C
1 C
13938736 AATGAATGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGAGAGCACTAACGTGCTAATAAT
Found at i:13941019 original size:3 final size:3
Alignment explanation
Indices: 13941011--13941453 Score: 628
Period size: 3 Copynumber: 149.3 Consensus size: 3
13941001 ACATTTGAAG
* * *
13941011 ATA ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13941059 AT- ATA ATA ATA ATA GTA AT- ATA ATA ATA ATA GTA AT- ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13941103 ATA ATA AGA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13941151 ATA ATA GTA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
13941199 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13941247 ATA GTA AT- ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA GTA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13941293 ATA ATA ATA ATA ATA ACA GTA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13941341 ATA ACA GTA ATA ATA ACA GTA ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
13941387 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13941435 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
13941454 CAACAACAAC
Statistics
Matches: 389, Mismatches: 44, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
2 12 0.03
3 374 0.96
4 3 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13941903 original size:3 final size:3
Alignment explanation
Indices: 13941897--13941941 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
13941887 TACAACAATT
13941897 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13941942 GGGGATTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13950212 original size:55 final size:57
Alignment explanation
Indices: 13950087--13950227 Score: 148
Period size: 55 Copynumber: 2.5 Consensus size: 57
13950077 CGATATGGCT
* * * *
13950087 GTGGTCGAGCCTGCTAAAACAACACGGGCGTACGACACGTCCGTGTGGAAGAAACAT
1 GTGGTCGAACCTGTTAAAACAACACGGGCGTACGACACGTCCATGTGGAAGAAACAC
* * *
13950144 G-GGT-GAACCTGTTAAAACAACACGGGCGTTCGACACG-CCTATGT-GAA-ACACCC
1 GTGGTCGAACCTGTTAAAACAACACGGGCGTACGACACGTCC-ATGTGGAAGAAACAC
* **
13950197 GTGGTCGAACTTGTTAAATTAACACGGGCGT
1 GTGGTCGAACCTGTTAAAACAACACGGGCGT
13950228 GAGGCTTGCA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
53 4 0.06
54 8 0.11
55 55 0.77
56 3 0.04
57 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (57 bp):
GTGGTCGAACCTGTTAAAACAACACGGGCGTACGACACGTCCATGTGGAAGAAACAC
Found at i:13959951 original size:16 final size:17
Alignment explanation
Indices: 13959930--13959961 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13959920 TTCAAAAATC
13959930 AATAAAAAAA-ATAAAA
1 AATAAAAAAATATAAAA
13959946 AATAAAAAAATATAAA
1 AATAAAAAAATATAAA
13959962 TAGACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAATATAAAA
Found at i:13970751 original size:41 final size:43
Alignment explanation
Indices: 13970688--13970821 Score: 164
Period size: 45 Copynumber: 3.1 Consensus size: 43
13970678 ATGCCATCTC
* *
13970688 ATATCGATGCCACTGTCCCAGACATGGTCTTACACGAATCA-A-
1 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAACCACAT
*
13970730 ATATGATGCCAATGTCTCAGACATGGTCTTACACGTAACCACAT
1 ATATGATGCCAATGTCCCAGACATGGTCTTACACG-AACCACAT
* * *
13970774 ATATTGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAT
1 ATA-TGATGCCAATGTCCCAGACATGGTCTTACACG-AACCACAT
13970819 ATA
1 ATA
13970822 AAAAATCCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 29 0.36
42 8 0.10
43 1 0.01
44 3 0.04
45 39 0.49
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATATGATGCCAATGTCCCAGACATGGTCTTACACGAACCACAT
Found at i:13970802 original size:45 final size:45
Alignment explanation
Indices: 13970651--13970821 Score: 162
Period size: 45 Copynumber: 3.9 Consensus size: 45
13970641 ATATCGTACA
* * * *
13970651 ATGCCAACGTCCCAGACGTGGTCTTATA--T-GCCATC-TCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCA-CAT-ATATTG
*
13970694 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AATCA-A-ATA-TG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAACCACATATATTG
* *
13970735 ATGCCAATGTCTCAGACATGGTCTTACACGTAACCACATATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATATTG
* * *
13970780 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATA
13970822 AAAAATCCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 27 0.26
42 10 0.10
43 24 0.23
44 3 0.03
45 41 0.39
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATATTG
Found at i:13971963 original size:14 final size:15
Alignment explanation
Indices: 13971946--13971974 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13971936 ACACAAAAAT
13971946 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13971960 TTCACACATAATAAA
1 TTCACACATAATAAA
13971975 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13973379 original size:61 final size:61
Alignment explanation
Indices: 13973284--13973405 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
13973274 GTAACTTCTT
* *
13973284 TTAATTATGAATGATCTACTCTTAAAAATGGACTTTTCTTCCACTGAATAAGCACATCAAA
1 TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAACACATCAAA
*
13973345 TTAATTATGAATGATCTACTCTTAAACAGGGACTTTTCTTCCACTGAATAAACACATCAAA
1 TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAACACATCAAA
13973406 AACCTGAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (61 bp):
TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAACACATCAAA
Found at i:13976957 original size:49 final size:48
Alignment explanation
Indices: 13976899--13977063 Score: 187
Period size: 49 Copynumber: 3.4 Consensus size: 48
13976889 GGTAAAGTGT
*
13976899 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTTCGAGGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACGA-GC
* * *
13976948 CGATGCCATGTCCAAGACATGGTTTTACACTAGCTCTCA-CATAACTGTGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATC-T-AC-GAGC
* * *
13976998 CGATGCCATGTCCCAGACATGGTCTTACACT-GATA-CATC-GCGTAGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACG-AGC
13977044 CGATG-CATGTCCCAGACATG
1 CGATGCCATGTCCCAGACATG
13977064 TCTTATACTG
Statistics
Matches: 101, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 16 0.16
46 8 0.08
48 3 0.03
49 41 0.41
50 32 0.32
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACGAGC
Found at i:13982513 original size:582 final size:582
Alignment explanation
Indices: 13981409--13982574 Score: 2251
Period size: 582 Copynumber: 2.0 Consensus size: 582
13981399 CGAAGAACAT
13981409 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
1 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
13981474 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
66 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
13981539 ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACACTTGGTCCATTAATACATATTTACCTA
131 ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACACTTGGTCCATTAATACATATTTACCTA
13981604 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
196 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
*
13981669 TCCATACAAATATAAGAGTGGGTAGATCCCAGGTCAATTAATGCAACAACAGATATATCATGGAT
261 TCCATACAAATATAAGAGTGGGTAGATCCCAGGTCAATTAATGCAACAACAGATATATCATAGAT
*
13981734 AGAAAAAGTATCCGTGATCACATAGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
326 AGAAAAAGTATCCATGATCACATAGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
13981799 TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
391 TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
13981864 CTTCCCGGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTACTTGCCTTTACTTTTTACTTTCT
456 CTTCCCGGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTACTTGCCTTTACTTTTTACTTTCT
13981929 CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
521 CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
13981991 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
1 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
13982056 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
66 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
*
13982121 ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACACTTGGTCCATTAATACTTATTTACCTA
131 ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACACTTGGTCCATTAATACATATTTACCTA
13982186 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
196 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
* *
13982251 TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGCTACAACAGATATATCATAGAT
261 TCCATACAAATATAAGAGTGGGTAGATCCCAGGTCAATTAATGCAACAACAGATATATCATAGAT
* *
13982316 AGAAAAAGTATCCATGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAGTCC
326 AGAAAAAGTATCCATGATCACATAGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
13982381 TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
391 TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
* *
13982446 CTTCCCGGGTTCTTTTGTTGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
456 CTTCCCGGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTACTTGCCTTTACTTTTTACTTTCT
13982511 CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
521 CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
13982573 TC
1 TC
13982575 TCGTTTCCTC
Statistics
Matches: 575, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
582 575 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (582 bp):
TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACACTTGGTCCATTAATACATATTTACCTA
AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
TCCATACAAATATAAGAGTGGGTAGATCCCAGGTCAATTAATGCAACAACAGATATATCATAGAT
AGAAAAAGTATCCATGATCACATAGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
CTTCCCGGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTACTTGCCTTTACTTTTTACTTTCT
CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
Found at i:13984483 original size:46 final size:46
Alignment explanation
Indices: 13984423--13984736 Score: 479
Period size: 46 Copynumber: 6.8 Consensus size: 46
13984413 TTTGACATGA
* * * * *
13984423 TGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
*** *
13984469 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
**
13984515 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
13984561 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
13984607 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
13984653 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ACATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
*
13984698 TGCCATGGTATCTTTCAACCATGGTATTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
13984737 TTCAGAGAGC
Statistics
Matches: 253, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 46 0.18
46 207 0.82
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:13986870 original size:31 final size:31
Alignment explanation
Indices: 13986815--13986876 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
13986805 CTAAATAAAT
*
13986815 AATAATAATAAAATAATAAATATCTTATTAA
1 AATAATAATAAAATAATAAATATCTAATTAA
* **
13986846 AATATTAATAAAATAATATTTATCTAATTAA
1 AATAATAATAAAATAATAAATATCTAATTAA
13986877 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (31 bp):
AATAATAATAAAATAATAAATATCTAATTAA
Found at i:13998035 original size:46 final size:48
Alignment explanation
Indices: 13997930--13998102 Score: 221
Period size: 46 Copynumber: 3.6 Consensus size: 48
13997920 TTTGACATGA
* * * *
13997930 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CATTC-TTTTCATGTCACGT
13997980 TGCCATGGTATCTTTCAACCATGGTC-TA-ATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTCTTTTCATGTCACGT
* * *
13998026 TGCCATGGTATCTTTCAACCATGGTCTTACA-T-ATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTCTTTTCATGTCACGT
13998072 TGCCATGGTATCTTTCAACCATGGTCTTACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACA
13998103 CATTTCATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
45 5 0.04
46 79 0.70
47 3 0.03
48 1 0.01
49 2 0.02
50 23 0.20
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (48 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATTCTTTTCATGTCACGT
Found at i:14011436 original size:13 final size:13
Alignment explanation
Indices: 14011418--14011442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14011408 GCTCGGCAGG
14011418 GACACGCCCGTGT
1 GACACGCCCGTGT
14011431 GACACGCCCGTG
1 GACACGCCCGTG
14011443 AGAGTCGTGC
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:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:14020802 original size:13 final size:13
Alignment explanation
Indices: 14020784--14020812 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14020774 TTTAGTTTAA
14020784 TTAGTTAATTAGT
1 TTAGTTAATTAGT
14020797 TTAGTTAATTAGT
1 TTAGTTAATTAGT
14020810 TTA
1 TTA
14020813 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:14026292 original size:5 final size:6
Alignment explanation
Indices: 14026274--14026298 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14026264 AATCCTCCTA
14026274 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
14026299 GAAAGACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:14028121 original size:20 final size:20
Alignment explanation
Indices: 14028092--14028131 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14028082 AGAGCGCACC
*
14028092 AAGAGCCAAAA-GGAGCCAAA
1 AAGAGACAAAACGGA-CCAAA
14028112 AAGAGACAAAACGGACCAAA
1 AAGAGACAAAACGGACCAAA
14028132 TCGAGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.57, C:0.20, G:0.23, T:0.00
Consensus pattern (20 bp):
AAGAGACAAAACGGACCAAA
Found at i:14029166 original size:13 final size:13
Alignment explanation
Indices: 14029148--14029176 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14029138 TTTAGTTTAA
14029148 TTAGTTAATTAGT
1 TTAGTTAATTAGT
14029161 TTAGTTAATTAGT
1 TTAGTTAATTAGT
14029174 TTA
1 TTA
14029177 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:14036395 original size:22 final size:23
Alignment explanation
Indices: 14036373--14036424 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
14036363 ATGTTGTTAC
14036373 TTTTATTTTAT-TTTAAGACTACT
1 TTTTATTTT-TCTTTAAGACTACT
14036396 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTTCTTTAAGAC-TACT
14036418 TTTTATT
1 TTTTATT
14036425 AGGTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTATTTTTCTTTAAGACTACT
Found at i:14041378 original size:14 final size:15
Alignment explanation
Indices: 14041361--14041389 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14041351 ACACGAAAAT
14041361 TTCACACAT-ATAAA
1 TTCACACATAATAAA
14041375 TTCACACATAATAAA
1 TTCACACATAATAAA
14041390 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:14045603 original size:50 final size:50
Alignment explanation
Indices: 14045528--14045704 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
14045518 CTATGGCAAC
14045528 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
14045578 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
14045628 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
14045678 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
14045705 CTGATTAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:14045718 original size:31 final size:31
Alignment explanation
Indices: 14045680--14045766 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
14045670 ACAAATGACA
* *
14045680 AGTGAAAAGTGGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
14045711 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
14045742 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
14045767 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:14045838 original size:46 final size:49
Alignment explanation
Indices: 14045788--14045911 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 49
14045778 GATTTTCGTA
* * *
14045788 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CATG
1 TAAGACCATAGCTGGGCTATGGCATCGATCTGAGATATGTGATTACATG
* *
14045834 TAAGACCATAGCTGGGCTATGGCATCGATCTGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATCTGAGATATGTGATTACATG
14045883 TAAGACCATAGCTGGGCTATGGCATCGAT
1 TAAGACCATAGCTGGGCTATGGCATCGAT
14045912 ATATGAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
46 24 0.34
47 1 0.01
48 13 0.19
49 32 0.46
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATCTGAGATATGTGATTACATG
Found at i:14045926 original size:42 final size:43
Alignment explanation
Indices: 14045832--14045994 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 43
14045822 ATGTGATTCA
*
14045832 TGTAAGACCATAGCTGGGCTATGGCATCGATCTGTGATATG-TGATTACG
1 TGTAAGACCATAGCTGGGCTATGGCATCGA--T-T-ATATGAAGA-T--G
*
14045881 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* * *
14045923 TGTAAGGCCATAGCTGGGCTATGGAATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* * **
14045965 TGTAAAACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
14045995 GAAAATGAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 59 0.60
43 1 0.01
44 6 0.06
45 2 0.02
49 30 0.30
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:14050270 original size:38 final size:39
Alignment explanation
Indices: 14050186--14050320 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
14050176 ACCAATATGG
*
14050186 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
14050225 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
14050263 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
14050304 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
14050321 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:14053166 original size:55 final size:55
Alignment explanation
Indices: 14053107--14053228 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
14053097 GTTCAAGCTC
* *
14053107 CACGCCCGTGTTAATTTAAT-AGGTTCGACCACGAGTTTTAGACACGGGCGTGTCG
1 CACGCCCGTGTTAATTT-ATCAGGTTCAACCACGAGTTTTACACACGGGCGTGTCG
* * * * * * *
14053162 CACGCCCGTGCTAGTTTCTCAGTTTCAACCATGGGTTTTCCACACGGGCGTGTCG
1 CACGCCCGTGTTAATTTATCAGGTTCAACCACGAGTTTTACACACGGGCGTGTCG
*
14053217 CACGCCTGTGTT
1 CACGCCCGTGTT
14053229 GTTTTGGCAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 1 0.02
55 54 0.98
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTATCAGGTTCAACCACGAGTTTTACACACGGGCGTGTCG
Found at i:14059192 original size:14 final size:14
Alignment explanation
Indices: 14059169--14059204 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
14059159 AAAACCCTAA
*
14059169 TTTCTCTCTTTCTT
1 TTTCTTTCTTTCTT
14059183 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
14059197 TTTCTTTC
1 TTTCTTTC
14059205 CTATTTCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:14059282 original size:5 final size:5
Alignment explanation
Indices: 14059274--14059301 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14059264 ATTAAACTAT
14059274 TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TAT
14059302 TTCTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:14060723 original size:23 final size:23
Alignment explanation
Indices: 14060681--14060724 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14060671 TAAATATTAT
*
14060681 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
14060704 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
14060725 AAAATGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:14061761 original size:23 final size:23
Alignment explanation
Indices: 14061729--14061772 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
14061719 TCTACCATTT
14061729 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
14061752 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
14061773 ATAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:14061765 original size:13 final size:11
Alignment explanation
Indices: 14061733--14061775 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
14061723 CCATTTTCTA
*
14061733 AATAAAATAAT
1 AATAAAATATT
14061744 AAT-AAATATCT
1 AATAAAATAT-T
14061755 AAGTAAAATATT
1 AA-TAAAATATT
14061767 AATAAAATA
1 AATAAAATA
14061776 ATATTTCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:14062488 original size:30 final size:29
Alignment explanation
Indices: 14062454--14062534 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 29
14062444 GTCTATGTAC
14062454 CTTTTGTAAATTTAAAATTTAG-TCTCTATA
1 CTTTT-TAAATTTAAAATTTAGCTCT-TATA
** * *
14062484 C-TTTTATTTTTAGAAAATTAGCTCTTTTA
1 CTTTTTAAATTTA-AAATTTAGCTCTTATA
14062513 CTTTTTAAATTTTAAAATTTAG
1 CTTTTTAAA-TTTAAAATTTAG
14062535 ATCCAACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
28 6 0.15
29 14 0.35
30 16 0.40
31 4 0.10
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (29 bp):
CTTTTTAAATTTAAAATTTAGCTCTTATA
Found at i:14066068 original size:16 final size:17
Alignment explanation
Indices: 14066047--14066082 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
14066037 TATTCTTTTT
14066047 TTTTATTCTAAAATT-A
1 TTTTATTCTAAAATTCA
14066063 TTTTATTCTAAAATTCA
1 TTTTATTCTAAAATTCA
14066080 TTT
1 TTT
14066083 ATTTTATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATTCTAAAATTCA
Found at i:14072634 original size:9 final size:9
Alignment explanation
Indices: 14072620--14072653 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14072610 GTTTTCGAAT
14072620 TCGAATAAC
1 TCGAATAAC
14072629 TCGAATAAC
1 TCGAATAAC
*
14072638 TCGAATAAT
1 TCGAATAAC
14072647 TCGAATA
1 TCGAATA
14072654 TCAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14074580 original size:16 final size:17
Alignment explanation
Indices: 14074534--14074580 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
14074524 ATTATTTATA
*
14074534 TATTTTAAATAATAATT
1 TATTTTAAATTATAATT
14074551 T-TTTATATAATTAT-ATT
1 TATTT-TA-AATTATAATT
14074568 TATTTTAAATTAT
1 TATTTTAAATTAT
14074581 TAACTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTAAATTATAATT
Found at i:14075875 original size:18 final size:18
Alignment explanation
Indices: 14075854--14075888 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14075844 ATTTTGAAAT
*
14075854 TAATTTGAATTTAATTTC
1 TAATTTAAATTTAATTTC
*
14075872 TAATTTAAATTTGATTT
1 TAATTTAAATTTAATTT
14075889 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TAATTTAAATTTAATTTC
Found at i:14080204 original size:21 final size:21
Alignment explanation
Indices: 14080178--14080257 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
14080168 TGATCAATAT
*
14080178 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
14080199 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
14080220 ACGACACACGAGGTGCCTGATAC
1 ACGACACACAAAGTGCCT-A-AA
*
14080243 ACGACACATAAAGTG
1 ACGACACACAAAGTG
14080258 TCTGATCGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 34 0.72
23 13 0.28
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:14080250 original size:23 final size:21
Alignment explanation
Indices: 14080176--14080242 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
14080166 CCTGATCAAT
** * *
14080176 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
14080197 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
14080218 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
14080239 ATAC
1 ATAC
14080243 ACGACACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:14080594 original size:15 final size:16
Alignment explanation
Indices: 14080576--14080605 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14080566 TCCAATCAAT
14080576 ATATTT-TTCAATATA
1 ATATTTATTCAATATA
14080591 ATATTTATTCAATAT
1 ATATTTATTCAATAT
14080606 TCAAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTATTCAATATA
Found at i:14080691 original size:15 final size:15
Alignment explanation
Indices: 14080633--14080694 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
14080623 TCATATATAT
*
14080633 TATATAATTCAATCAA
1 TATA-AATTCAATAAA
14080649 TATAAATTCAATCAAA
1 TATAAATTCAAT-AAA
*
14080665 -ATAATTTCAATAAA
1 TATAAATTCAATAAA
14080679 TATAAATTCAATAAA
1 TATAAATTCAATAAA
14080694 T
1 T
14080695 TCATCGCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.07
15 32 0.78
16 6 0.15
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAATTCAATAAA
Found at i:14083994 original size:23 final size:23
Alignment explanation
Indices: 14083968--14084016 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14083958 AATTAAAAAG
14083968 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
14083991 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
14084014 ATG
1 ATG
14084017 TTGTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:14088470 original size:23 final size:23
Alignment explanation
Indices: 14088444--14088492 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
14088434 AATTAAAAAG
14088444 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
14088467 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
14088490 ATG
1 ATG
14088493 TTGTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:14088940 original size:14 final size:15
Alignment explanation
Indices: 14088905--14088933 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14088895 ACAAAAATAA
14088905 GAAAAGAAAATGAGG
1 GAAAAGAAAATGAGG
14088920 GAAAAGAAAA-GAGG
1 GAAAAGAAAATGAGG
14088934 TACAAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (15 bp):
GAAAAGAAAATGAGG
Found at i:14093783 original size:39 final size:39
Alignment explanation
Indices: 14093708--14093783 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
14093698 TAATATAAAG
* *
14093708 AAAATTAATTTAAAACTCTGAATACAAAATTTAAAATCC
1 AAAATTAATTTAAAACTCTGAATACAAAACTCAAAATCC
*
14093747 AAAATTAATTTAAAATTCTGAATACAAAACTCAAAAT
1 AAAATTAATTTAAAACTCTGAATACAAAACTCAAAAT
14093784 TCTAAAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (39 bp):
AAAATTAATTTAAAACTCTGAATACAAAACTCAAAATCC
Found at i:14097270 original size:24 final size:25
Alignment explanation
Indices: 14097231--14097278 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
14097221 AATAGACATG
14097231 TTTCTCTTTTCCTTTTTTCTTCTTA
1 TTTCTCTTTTCCTTTTTTCTTCTTA
* *
14097256 TTTCT-TTTTCTTTTTTTTTTCTT
1 TTTCTCTTTTCCTTTTTTCTTCTT
14097279 TCTATTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTCTCTTTTCCTTTTTTCTTCTTA
Found at i:14097891 original size:20 final size:20
Alignment explanation
Indices: 14097868--14097915 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
14097858 CCAACCCTGG
14097868 CCTCCGTACGCCA-GCACAGC
1 CCTCCGTACGCCACGCAC-GC
14097888 CCT-CGTACGCCACGCACGC
1 CCTCCGTACGCCACGCACGC
*
14097907 ACTCCGTAC
1 CCTCCGTAC
14097916 TTGCAAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (20 bp):
CCTCCGTACGCCACGCACGC
Found at i:14099548 original size:21 final size:22
Alignment explanation
Indices: 14099513--14099554 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
14099503 TAGTTTTCAA
14099513 ATTGTTTCCATATTGTTTTGTAT
1 ATTGTTT-CATATTGTTTTGTAT
14099536 ATTGTTT-ATATTGTTTTGT
1 ATTGTTTCATATTGTTTTGT
14099555 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
ATTGTTTCATATTGTTTTGTAT
Found at i:14099564 original size:21 final size:21
Alignment explanation
Indices: 14099522--14099565 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14099512 AATTGTTTCC
**
14099522 ATATTGTTTTGTATATTGTTT
1 ATATTGTTTTGTATATAATTT
14099543 ATATTGTTTTGT-TATAAATTT
1 ATATTGTTTTGTATAT-AATTT
14099564 AT
1 AT
14099566 TTTCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
ATATTGTTTTGTATATAATTT
Found at i:14100706 original size:130 final size:127
Alignment explanation
Indices: 14100459--14100798 Score: 358
Period size: 130 Copynumber: 2.6 Consensus size: 127
14100449 GATGAGATTT
* ** ** * *
14100459 GATATTTGACAATTCGCAAAATCGTGCCCTAACGTGTTGGGTTGCAACTTCGCGTTTGCTCAAAA
1 GATATTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAA-TT-TTGTTTGTTTAAAA
* ** * * *
14100524 CAATCGAATATCATTTCAAAATTTCACTCATGTCTTTTAAAATCCCTTAAACGAAGGCGATA-TA
63 CAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTTAAAAATCCCTTAAACGAAGGCAATACT-
14100588 C
127 C
* * *
14100589 GATATTTGGCAATTTGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGATTGTTTAAAATA
1 GATATTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGTTTGTTTAAAACA
* *
14100654 ATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTAATACTC
65 ATCAAATATCCCTTCAAAATTTCACTCAGGTCTT-TAAAAATCCCTT-AAACGAAGGCAATACTC
* * * * * **
14100719 GGTGTTTGGCAATTCGGGAATCGTACCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTTAAAAC
1 GATATTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTT-T-GTTTGTTTAAAAC
*
14100784 AATCAAATATTCCTT
64 AATCAAATATCCCTT
14100799 TAGGTTTGCA
Statistics
Matches: 175, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
128 40 0.23
129 40 0.23
130 69 0.39
131 26 0.15
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (127 bp):
GATATTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGTTTGTTTAAAACAA
TCAAATATCCCTTCAAAATTTCACTCAGGTCTTTAAAAATCCCTTAAACGAAGGCAATACTC
Found at i:14100841 original size:131 final size:129
Alignment explanation
Indices: 14100520--14100893 Score: 339
Period size: 131 Copynumber: 2.9 Consensus size: 129
14100510 GCGTTTGCTC
* ** * * * *
14100520 AAAACAATCGAATATCATTTCAAAATTTCACTCATGTCTT-TTAAAATCCCTT-AAACGAAGGCG
1 AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGCA
* * * *
14100583 ATA-TACGATATTTGGCAATTTGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGATTGTT
66 ATACT-CGATGTTTGGCAATTTG-GGAATCGTACCCTATCGTGCTGGGTTGCAATTTTGATTGTT
14100647 T
129 T
* *
14100648 AAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGTA
1 AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGCA
* * ** *
14100713 ATACTCGGTGTTTGGCAATTCGGGAATCGTACCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTT
66 ATACTCGATGTTTGGCAATTTGGGAATCGTACCCTATCGTGCTGGGTTGCAATTT-T-GATTGTT
14100778 T
129 T
* * ** * * * *
14100779 AAAACAATCAAATATTCCTT-TAGGTTTGCATTCATGT-TTATTAAAAA-CCTTTCAAAATGAAG
1 AAAACAATCAAATATCCCTTCAAAATTT-CACTCAGGTCTT-CTAAAAATCCTTT-AAAACGAAG
* ** * * *
14100841 GCGATGTTCGATGTTTGGCGATTTGAGAATCG-AGCCCTATTGTGCTGGGTTGC
63 GCAATACTCGATGTTTGGCAATTTGGGAATCGTA-CCCTATCGTGCTGGGTTGC
14100894 GCTTATTCAT
Statistics
Matches: 200, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
128 35 0.17
129 38 0.19
130 39 0.19
131 88 0.44
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (129 bp):
AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAAACGAAGGCA
ATACTCGATGTTTGGCAATTTGGGAATCGTACCCTATCGTGCTGGGTTGCAATTTTGATTGTTT
Found at i:14110827 original size:5 final size:5
Alignment explanation
Indices: 14110819--14110843 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14110809 TTTTATTATG
14110819 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
14110844 ACCGTCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:14115325 original size:3 final size:3
Alignment explanation
Indices: 14115319--14115343 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14115309 GGGGGGGGGG
14115319 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
14115344 ACCTTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:14116265 original size:95 final size:95
Alignment explanation
Indices: 14116153--14116332 Score: 288
Period size: 95 Copynumber: 1.9 Consensus size: 95
14116143 AGCAAATATA
* * * *
14116153 TATACATGTAACAACTTAAATAACAACTAAAGGAGGATTAAAATGAAAGAACGATAATTTATATG
1 TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
*
14116218 GGATGAAATGTGATTGCAACTAATGGAGGG
66 GGATGAAATATGATTGCAACTAATGGAGGG
* * *
14116248 TATATATGTAATAACTTAAATAACAAATAATGGAGGACTAAAATGAAAGAACGATAACTTATAGG
1 TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
14116313 GGATGAAATATGATTGCAAC
66 GGATGAAATATGATTGCAAC
14116333 CAAATATGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 77 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (95 bp):
TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
GGATGAAATATGATTGCAACTAATGGAGGG
Found at i:14119478 original size:29 final size:28
Alignment explanation
Indices: 14119445--14119512 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
14119435 ATATCTATAG
*
14119445 ATTAAAATAAAAAAATAAATATATATACA
1 ATTAAAATAAAAAAATAAA-ATATACACA
* *
14119474 ATT--AATAGAAATAATAAAATATACATA
1 ATTAAAATA-AAAAAATAAAATATACACA
*
14119501 ATAAAAATAAAA
1 ATTAAAATAAAA
14119513 TTTACAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
27 13 0.41
28 12 0.38
29 7 0.22
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (28 bp):
ATTAAAATAAAAAAATAAAATATACACA
Found at i:14119511 original size:20 final size:20
Alignment explanation
Indices: 14119486--14119523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14119476 TAATAGAAAT
*
14119486 AATAAAATATACATAATAAA
1 AATAAAATATACAAAATAAA
*
14119506 AATAAAATTTACAAAATA
1 AATAAAATATACAAAATA
14119524 TTTTAAGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAATATACAAAATAAA
Found at i:14122812 original size:14 final size:13
Alignment explanation
Indices: 14122782--14122849 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
14122772 ATTTTTAGAT
*
14122782 TAAATATTTAATAA
1 TAAAT-TTTAATTA
14122796 TAAATTTTAATTGA
1 TAAATTTTAATT-A
14122810 TAAAATTTTAATTA
1 T-AAATTTTAATTA
14122824 T---TTTTAATT-
1 TAAATTTTAATTA
14122833 TATAATTTTAATT-
1 TA-AATTTTAATTA
14122846 TAAA
1 TAAA
14122850 GTAAAATTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
9 1 0.02
10 8 0.17
12 2 0.04
13 16 0.34
14 9 0.19
15 11 0.23
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (13 bp):
TAAATTTTAATTA
Found at i:14122828 original size:25 final size:23
Alignment explanation
Indices: 14122800--14122845 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
14122790 TAATAATAAA
14122800 TTTTAATTGATAAAATTTTAATTAT
1 TTTTAATT--TAAAATTTTAATTAT
*
14122825 TTTTAATTTATAATTTTAATT
1 TTTTAATTTAAAATTTTAATT
14122846 TAAAGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTAATTTAAAATTTTAATTAT
Done.