Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 32 of 344
Found at i:11010705 original size:24 final size:24
Alignment explanation
Indices: 11010616--11010730 Score: 107
Period size: 24 Copynumber: 4.9 Consensus size: 24
11010606 ACAACTCGTA
*
11010616 AGAGCTTACTGTTTT-AGCTCATT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
11010639 GGAGCTTA-TCG-ATTCAGCTCGAA-
1 AGAGCTTACT-GTTTTCAGCTC-AAT
11010662 AGAGCTTACTG--TTCAGCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
*
11010684 AGAGCTTACTGTTTTCATCTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAT
* *
11010708 AGAGTTTACTGTTCGTCAGCTCA
1 AGAGCTTACTGTT-TTCAGCTCA
11010731 GGAGGAGCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.03
22 22 0.29
23 21 0.28
24 24 0.32
25 7 0.09
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAT
Found at i:11015791 original size:47 final size:47
Alignment explanation
Indices: 11015727--11015885 Score: 192
Period size: 47 Copynumber: 3.2 Consensus size: 47
11015717 TTACATAGAT
* *
11015727 CACATATCACACAGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
11015774 CACATATCACACTGATGCCATATCCCAGATCTGGTCTTATACGGAAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
11015821 CACATAATCACATCTTTCAGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACAT-ATCACA-C--T--GATGCCATATCCCAGATATGGTCTTATACAG-AAG
11015875 CACATATCACA
1 CACATATCACA
11015886 TGTTGTCATG
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
47 48 0.50
48 6 0.06
49 1 0.01
51 1 0.01
53 33 0.34
54 7 0.07
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:11017461 original size:19 final size:19
Alignment explanation
Indices: 11017437--11017483 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11017427 AATGCCTCTT
*
11017437 TTTGCATT-CATTTCATACA
1 TTTGCATTACATTGCAT-CA
11017456 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
11017475 TATGCATTA
1 TTTGCATTA
11017484 AATTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:11020182 original size:44 final size:44
Alignment explanation
Indices: 11020108--11020209 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
11020098 TGATGGAACC
* * * *
11020108 GAAGTTGCAATGGAGCAGGTTAAAGTTACAAACCTTATCTC-CAT
1 GAAGTTACAGTGGAGCAGATTAAAGATACAAACCTTATCTCTC-T
* * **
11020152 GAAGTTACCGTGGAGCAGATTGAAGATACAAGTCTTATCTCTCT
1 GAAGTTACAGTGGAGCAGATTAAAGATACAAACCTTATCTCTCT
11020196 GAAGTTACAGTGGA
1 GAAGTTACAGTGGA
11020210 ATGGGTCGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
GAAGTTACAGTGGAGCAGATTAAAGATACAAACCTTATCTCTCT
Found at i:11021948 original size:4 final size:4
Alignment explanation
Indices: 11021939--11021969 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11021929 GTATATGTGT
*
11021939 TTTA TTTA TTTA CTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
11021970 TCTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:11023529 original size:20 final size:20
Alignment explanation
Indices: 11023504--11023545 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11023494 TTTTCCAAGT
*
11023504 TGAGGTTCACAAACTAGCTC
1 TGAGGTTCACAAACTAACTC
11023524 TGAGGTTCACAAACTAACTC
1 TGAGGTTCACAAACTAACTC
11023544 TG
1 TG
11023546 GGTCTGCGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
TGAGGTTCACAAACTAACTC
Found at i:11028391 original size:15 final size:14
Alignment explanation
Indices: 11028349--11028398 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11028339 ATAACTTTGC
*
11028349 ATGCAAATGATGTG
1 ATGCAAATGATGAG
11028363 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
11028378 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
11028392 ATGCAAA
1 ATGCAAA
11028399 AAAGAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:11032283 original size:3 final size:3
Alignment explanation
Indices: 11032270--11032319 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
11032260 AAGAGGTATT
* * * *
11032270 ATA AT- ATA ATA ATA ATA ATG AT- ATA ATA GTG ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11032316 ATA A
1 ATA A
11032320 AAGTAAAATG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:11032464 original size:24 final size:23
Alignment explanation
Indices: 11032421--11032513 Score: 79
Period size: 24 Copynumber: 4.1 Consensus size: 23
11032411 GTATATATAT
11032421 GTATAAAA-TA-AATAAGTAAATAA
1 GTATAAAAGTATAA-AA-TAAATAA
11032444 GTGATAAAAGTATAAAATAAATAA
1 GT-ATAAAAGTATAAAATAAATAA
* * *
11032468 GTATATAA--ATAATATATATAA
1 GTATAAAAGTATAAAATAAATAA
* *
11032489 -AATAAAAGTATAAAATATATAA
1 GTATAAAAGTATAAAATAAATAA
11032511 GTA
1 GTA
11032514 AGTGAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.19
22 12 0.21
23 8 0.14
24 15 0.26
25 4 0.07
26 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
GTATAAAAGTATAAAATAAATAA
Found at i:11032469 original size:15 final size:15
Alignment explanation
Indices: 11032421--11032513 Score: 81
Period size: 15 Copynumber: 6.2 Consensus size: 15
11032411 GTATATATAT
11032421 GTATAAAATAAATAA
1 GTATAAAATAAATAA
11032436 GTA-AATAAGTGATAA-AA
1 GTATAA-AA-T-A-AATAA
11032453 GTATAAAATAAATAA
1 GTATAAAATAAATAA
11032468 GTATATAAAT-AATATA
1 GTATA-AAATAAATA-A
11032484 -TATAAAAT-AA-AA
1 GTATAAAATAAATAA
*
11032496 GTATAAAATATATAA
1 GTATAAAATAAATAA
11032511 GTA
1 GTA
11032514 AGTGAATAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
12 1 0.02
13 9 0.14
14 11 0.17
15 26 0.39
16 7 0.11
17 8 0.12
18 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
GTATAAAATAAATAA
Found at i:11032497 original size:43 final size:44
Alignment explanation
Indices: 11032447--11032552 Score: 153
Period size: 43 Copynumber: 2.4 Consensus size: 44
11032437 TAAATAAGTG
11032447 ATAAAAGTATAAAATAAATAAGTATA-TAAATAATATATA-TAAA
1 ATAAAAGTATAAAATAAATAAGTA-AGTAAATAATATATATTAAA
* * *
11032490 ATAAAAGTATAAAATATATAAGTAAGTGAATAATATATATTTGAA
1 ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATA-TTAAA
11032535 ATAAAAGTATAAAATAAA
1 ATAAAAGTATAAAATAAA
11032553 CGAAGTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 35 0.62
45 20 0.36
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (44 bp):
ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATATTAAA
Found at i:11034789 original size:58 final size:58
Alignment explanation
Indices: 11034727--11034863 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 58
11034717 TTAATTCGTA
* *
11034727 TAATAATAATTATATTAAGAATTTTA-TTAAATTATATATTA-TTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AA-TATAGATAAATTATATATTATTTTTATTAAATTATATT
* * *
11034785 TAATAATAATTATGTTAAAATATAGATAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATATAGATAAATTATATATTATTTTTATTAAATTATATT
* *
11034843 TAAAAAGAATCT-TATTAAAAT
1 TAATAATAAT-TATATTAAAAT
11034864 TTAATAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
56 3 0.04
57 15 0.22
58 49 0.72
59 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (58 bp):
TAATAATAATTATATTAAAATATAGATAAATTATATATTATTTTTATTAAATTATATT
Found at i:11034990 original size:20 final size:20
Alignment explanation
Indices: 11034967--11035008 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11034957 TCCATTCAAC
*
11034967 CAAACATAAGAATACTATTA
1 CAAACACAAGAATACTATTA
*
11034987 CAAACACACGAATACTATTA
1 CAAACACAAGAATACTATTA
11035007 CA
1 CA
11035009 GTTATATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.21
Consensus pattern (20 bp):
CAAACACAAGAATACTATTA
Found at i:11035070 original size:16 final size:16
Alignment explanation
Indices: 11035049--11035104 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
11035039 TGAATTATTG
*
11035049 ATTACAATTCTATTCC
1 ATTACAGTTCTATTCC
*
11035065 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
*
11035081 ATTACAGTCCTATTCC
1 ATTACAGTTCTATTCC
11035097 ATTACAGT
1 ATTACAGT
11035105 GAATAAACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:11038015 original size:30 final size:30
Alignment explanation
Indices: 11037981--11038038 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
11037971 GCCACCACCA
*
11037981 ACTCCACTAGCCACACTTGCTTCACTACTT
1 ACTCCACTAGCCACACTTGCTCCACTACTT
11038011 ACTCCACTAGCCACACTTGCTCCACTAC
1 ACTCCACTAGCCACACTTGCTCCACTAC
11038039 CACTTGTACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.43, G:0.07, T:0.26
Consensus pattern (30 bp):
ACTCCACTAGCCACACTTGCTCCACTACTT
Found at i:11038033 original size:18 final size:17
Alignment explanation
Indices: 11038007--11038041 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11037997 TTGCTTCACT
11038007 ACTTACTCCACTAGCCAC
1 ACTTACTCCACTA-CCAC
*
11038025 ACTTGCTCCACTACCAC
1 ACTTACTCCACTACCAC
11038042 TTGTACCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.46, G:0.06, T:0.23
Consensus pattern (17 bp):
ACTTACTCCACTACCAC
Found at i:11038720 original size:25 final size:25
Alignment explanation
Indices: 11038530--11038750 Score: 120
Period size: 25 Copynumber: 9.0 Consensus size: 25
11038520 TTCTTAATCT
*
11038530 TATATTATATATATATTCTTTTA-A-
1 TATATTATGTATATATT-TTTTATAC
* * ** *
11038554 TATATTA-G-GTATATTCTAAATTC
1 TATATTATGTATATATTTTTTATAC
* * *
11038577 TATATTACGTATATATATATTATAC
1 TATATTATGTATATATTTTTTATAC
* * *
11038602 TATTTTATGTATATATCTTTAATAC
1 TATATTATGTATATATTTTTTATAC
*
11038627 TATATTATTTATATATATATTTT-TAC
1 TATATTATGTATATAT-T-TTTTATAC
* *
11038653 ATGTTATCTTATGTATATA--TTTTA-AT
1 ----TATATTATGTATATATTTTTTATAC
*
11038679 TATATTATGTATGTATTTTTTATAC
1 TATATTATGTATATATTTTTTATAC
* *
11038704 TATATTATGTACATATTTTTAATA-
1 TATATTATGTATATATTTTTTATAC
* * *
11038728 T-TATCACGTATTTATTTTTTATA
1 TATATTATGTATATATTTTTTATA
11038751 TATGTACATA
Statistics
Matches: 147, Mismatches: 36, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.01
22 19 0.13
23 24 0.16
24 14 0.10
25 64 0.44
26 8 0.05
27 3 0.02
30 13 0.09
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTATGTATATATTTTTTATAC
Found at i:11038730 original size:20 final size:20
Alignment explanation
Indices: 11038705--11038763 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
11038695 TTTTTATACT
11038705 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
11038725 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
11038748 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
11038764 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:11042788 original size:18 final size:17
Alignment explanation
Indices: 11042750--11042804 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 17
11042740 ACAAAAAAAA
11042750 TTTATTGATATATTATATT
1 TTTATT-AT-TATTATATT
11042769 TTTATTATTATTAGTA-T
1 TTTATTATTATTA-TATT
11042786 TTTA-TA-TATTATATT
1 TTTATTATTATTATATT
11042801 TTTA
1 TTTA
11042805 AAAATTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 2 0.06
17 10 0.29
18 4 0.12
19 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTATTATTATTATATT
Found at i:11046549 original size:50 final size:50
Alignment explanation
Indices: 11046474--11046650 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
11046464 CCATGGAAAC
11046474 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * * *
11046524 AAGTGATTAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
11046574 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * * *
11046624 CAACTGAAAAATGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
11046651 CTGATCAGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
50 87 0.79
51 23 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:11046670 original size:31 final size:31
Alignment explanation
Indices: 11046628--11046829 Score: 296
Period size: 31 Copynumber: 6.5 Consensus size: 31
11046618 AAATGACAAC
*
11046628 TGAAAAATGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
11046659 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
11046690 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
**
11046721 TGAAAAGTGGTAGCTTTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
11046752 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
11046783 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
11046814 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
11046830 TGGCTACAAG
Statistics
Matches: 154, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:11046963 original size:47 final size:47
Alignment explanation
Indices: 11046863--11046985 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
11046853 GTGATTTCTA
* * *
11046863 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGACATCAGTGAGATATATGCTACTG
* *
11046910 TATAAGACCATAT-TCGGGATATGACATCAGTGAGATATGTGATTAC-G
1 TATAAGACCATATCT-GGGATATGACATCAGTGAGATATATG-CTACTG
* * * *
11046957 TGTAAGACCATAACTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGACATCA
11046986 TTGTGTAAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
46 1 0.02
47 59 0.92
48 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGACATCAGTGAGATATATGCTACTG
Found at i:11057419 original size:19 final size:19
Alignment explanation
Indices: 11057395--11057439 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
11057385 ATGAATAAGT
11057395 GTTGAATGCTTGTTAAGAG
1 GTTGAATGCTTGTTAAGAG
11057414 GTTGAATGCTTGTTAAGAG
1 GTTGAATGCTTGTTAAGAG
11057433 GTTGAAT
1 GTTGAAT
11057440 TGAATACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (19 bp):
GTTGAATGCTTGTTAAGAG
Found at i:11069171 original size:19 final size:20
Alignment explanation
Indices: 11069143--11069181 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11069133 TTCTATTATT
11069143 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
11069162 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
11069182 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:11069199 original size:25 final size:23
Alignment explanation
Indices: 11069162--11069207 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
11069152 TTTGTTTTAA
*
11069162 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
11069185 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
11069208 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:11070159 original size:30 final size:30
Alignment explanation
Indices: 11070125--11070187 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
11070115 ACTTAACAAG
11070125 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
11070155 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
11070185 CAA
1 CAA
11070188 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:11086586 original size:22 final size:23
Alignment explanation
Indices: 11086561--11086619 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
11086551 CAACCAAATC
11086561 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
11086583 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
11086606 ACA-TCATCACATAT
1 A-ATTCAT-ACATAT
11086620 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:11091268 original size:37 final size:37
Alignment explanation
Indices: 11091226--11091394 Score: 198
Period size: 37 Copynumber: 4.6 Consensus size: 37
11091216 ATAATACTCG
*
11091226 ATTGAGCTTTATTCAGTATATCGATAGATATCGCTCA
1 ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
* * *
11091263 GTTGAGCTTTATTTAGTATATTC-ATAGATTTCTCTCA
1 ATTGAGCTTTATTCAGTATA-TCGATAGATTTCGCTCA
* * * **
11091300 ATTGAGATTTATTCAGTATATCCATATATTTTTCTCA
1 ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
11091337 ATTGAGCTTTATTCAGTATATCCG-TAGATTTCGCTCA
1 ATTGAGCTTTATTCAGTATAT-CGATAGATTTCGCTCA
* * *
11091374 CTTAAACTTTATTCAGTATAT
1 ATTGAGCTTTATTCAGTATAT
11091395 TAGTAGATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
36 2 0.02
37 107 0.96
38 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.44
Consensus pattern (37 bp):
ATTGAGCTTTATTCAGTATATCGATAGATTTCGCTCA
Found at i:11096590 original size:2 final size:2
Alignment explanation
Indices: 11096583--11096617 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11096573 ACCTTCTGCT
11096583 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11096618 ATTCACCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11109014 original size:12 final size:12
Alignment explanation
Indices: 11108999--11109029 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
11108989 ATATCTTTCC
11108999 ATATATTTAGGA
1 ATATATTTAGGA
11109011 ATATATTTAGGA
1 ATATATTTAGGA
11109023 ATATATT
1 ATATATT
11109030 ATATATCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (12 bp):
ATATATTTAGGA
Found at i:11112999 original size:70 final size:66
Alignment explanation
Indices: 11112868--11112999 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 66
11112858 ATATATAATA
* ** *
11112868 TAATGGTTTTGTCTTTTAACTTAATTAGTAAACTTTATCAAAAAAATGTAGTTTTAACTTTTAAC
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACTTTATCAAAAAAACGTAGTTTTAACTTTTAAC
11112933 T
66 T
** *
11112934 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGACGTAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAAC-TTTATCAAAAAAACGTAGTTTTAACTTT
11112999 T
62 T
11113000 CTTATTTGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 19 0.35
67 3 0.05
68 2 0.04
69 6 0.11
70 25 0.45
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (66 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACTTTATCAAAAAAACGTAGTTTTAACTTTTAAC
T
Found at i:11115652 original size:18 final size:20
Alignment explanation
Indices: 11115629--11115674 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
11115619 TTTACAAGGG
11115629 TTTAATTTATATTT-GA-AA
1 TTTAATTTATATTTAGAGAA
* *
11115647 TTTAATATATTTTTAGAGAA
1 TTTAATTTATATTTAGAGAA
11115667 TTTAATTT
1 TTTAATTT
11115675 TTGTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTAATTTATATTTAGAGAA
Found at i:11119974 original size:18 final size:19
Alignment explanation
Indices: 11119953--11120036 Score: 50
Period size: 18 Copynumber: 4.3 Consensus size: 19
11119943 AATTACAAAA
11119953 AAAAATT-AAATAATTTTT
1 AAAAATTCAAATAATTTTT
* * *
11119971 -AAAATTCAAATTATGTAT
1 AAAAATTCAAATAATTTTT
*
11119989 AAAAATTTCAAATTTTATATTTTA
1 AAAAA-TTCAAA---TA-ATTTTT
11120013 AAAAATT-ATAA-AATTTTT
1 AAAAATTCA-AATAATTTTT
11120031 AAAAAT
1 AAAAAT
11120037 ATTAAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
17 6 0.12
18 19 0.38
19 5 0.10
20 6 0.12
22 1 0.02
23 5 0.10
24 8 0.16
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (19 bp):
AAAAATTCAAATAATTTTT
Found at i:11120040 original size:20 final size:19
Alignment explanation
Indices: 11120008--11120072 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 19
11119998 AAATTTTATA
11120008 TTTTAAAAAATTATAAAAT
1 TTTTAAAAAATTATAAAAT
*
11120027 TTTTAAAAATATTAAAAAAT
1 TTTTAAAAA-ATTATAAAAT
* * *
11120047 ATATAAAAAAGT-T-AAAT
1 TTTTAAAAAATTATAAAAT
11120064 TTTTAAAAA
1 TTTTAAAAA
11120073 TTTTCAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 11 0.29
19 11 0.29
20 16 0.42
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTTAAAAAATTATAAAAT
Found at i:11120065 original size:62 final size:60
Alignment explanation
Indices: 11119952--11120066 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
11119942 AAATTACAAA
** * *
11119952 AAAAAATTAAATAATTTTTAAAATTCAAATTATGTATAAAAATTTCAAATTTTATATTTT
1 AAAAAATTAAATAATTTTTAAAATTCAAAAAATATATAAAAAGTTCAAATTTTATATTTT
*
11120012 AAAAAATTATAA-AATTTTTAAAAATATTAAAAAATATATAAAAAAGTT-AAATTTT
1 AAAAAATTA-AATAATTTTT-AAAAT-TCAAAAAATATAT-AAAAAGTTCAAATTTT
11120067 TAAAAATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
60 16 0.35
61 7 0.15
62 16 0.35
63 7 0.15
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (60 bp):
AAAAAATTAAATAATTTTTAAAATTCAAAAAATATATAAAAAGTTCAAATTTTATATTTT
Found at i:11120302 original size:26 final size:26
Alignment explanation
Indices: 11120270--11120319 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11120260 TAACTCAAAC
*
11120270 AATTTCACTTGATTCGACTTGACTCA
1 AATTTCACTTCATTCGACTTGACTCA
*
11120296 AATTTCATTTCATTCGACTTGACT
1 AATTTCACTTCATTCGACTTGACT
11120320 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTCACTTCATTCGACTTGACTCA
Found at i:11126360 original size:2 final size:2
Alignment explanation
Indices: 11126355--11126414 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
11126345 TATATATATA
11126355 TG TG TG TG TG TG TG TG 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 TG TG TG TG TG TG TG TG
11126397 TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG
11126415 CAAATGGCCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:11130479 original size:3 final size:3
Alignment explanation
Indices: 11130466--11130497 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
11130456 CTTTCTCAAT
11130466 TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC T
11130498 CCAAGCTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:11131479 original size:12 final size:12
Alignment explanation
Indices: 11131462--11131487 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11131452 GATAAAATAT
11131462 TTAAATTCAAAA
1 TTAAATTCAAAA
11131474 TTAAATTCAAAA
1 TTAAATTCAAAA
11131486 TT
1 TT
11131488 TAAAAAGAGA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAATTCAAAA
Found at i:11132456 original size:61 final size:61
Alignment explanation
Indices: 11132367--11132483 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
11132357 AATTAATCAC
11132367 ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCATAT
1 ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCATAT
* * * * *
11132428 ATTAATATTAAATTAATAAAAT-TCTATCTAGGTAAATATTTAATTTAATTTAATAT
1 ATTAATATCAAATAAATAAAATAT-TATCTAGATAAATATTAAATTAAATTTAATAT
11132484 TAAATTCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 1 0.02
61 49 0.98
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
ATTAATATCAAATAAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCATAT
Found at i:11133972 original size:87 final size:87
Alignment explanation
Indices: 11133828--11134300 Score: 775
Period size: 87 Copynumber: 5.4 Consensus size: 87
11133818 AGATCTGTTA
* * *
11133828 TCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
11133893 CGTGAAAGCCAAATCAGCTATA
66 CGTGAAAGCCAAATCAGCTATG
*
11133915 TCTTCGATATGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
**
11133980 CGTGAAAAACAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * **
11134002 TCCTCGATCTGCACCCTGCCAATACATAGACGTAAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
11134067 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
11134089 TCTTCGATCTGCTCCTTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACG
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
11134154 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
11134176 TCTTCGATCTGCTCCCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
11134241 CATGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
11134263 TCCTCGATCTGCTCTCTGCCAATACAGAGACGCCAAAT
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAAT
11134301 TTGTTGTCTT
Statistics
Matches: 356, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 356 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:11134315 original size:44 final size:44
Alignment explanation
Indices: 11134266--11134433 Score: 273
Period size: 44 Copynumber: 3.8 Consensus size: 44
11134256 AGCTATGTCC
* *
11134266 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATTTGTTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
**
11134310 TCGATCTGCTCTCTGCCAATACAGAGATACCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
* *
11134354 TCGATCTGCTCTCTGCCAATATAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
*
11134398 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATC
11134434 ATCTTGGATT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 115 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCT
Found at i:11135427 original size:16 final size:16
Alignment explanation
Indices: 11135408--11135458 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 16
11135398 CCATTTTTTC
11135408 TTTTTTCTTTTTTCTT
1 TTTTTTCTTTTTTCTT
11135424 TTTTTTCTCTTTTTCTT
1 TTTTTTCT-TTTTTCTT
11135441 TTATTTTCTTTTTT-TT
1 TT-TTTTCTTTTTTCTT
11135457 TT
1 TT
11135459 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.36
17 15 0.45
18 6 0.18
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTT
Found at i:11135454 original size:7 final size:7
Alignment explanation
Indices: 11135401--11135442 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
11135391 GGCCTCTCCA
11135401 TTTTTTC
1 TTTTTTC
11135408 TTTTTTC
1 TTTTTTC
11135415 TTTTTTC
1 TTTTTTC
11135422 TTTTTTTTC
1 --TTTTTTC
11135431 TCTTTTTC
1 T-TTTTTC
11135439 TTTT
1 TTTT
11135443 ATTTTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 18 0.56
8 7 0.22
9 7 0.22
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:11142094 original size:35 final size:35
Alignment explanation
Indices: 11142055--11142124 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
11142045 ATAGGGAGAG
11142055 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
1 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
11142090 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
1 AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
11142125 TTCCCAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (35 bp):
AAATTTGAGTGAATGCTCTCAAGAATTCTTATTGC
Found at i:11142264 original size:21 final size:23
Alignment explanation
Indices: 11142238--11142282 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
11142228 AAAAGGTATC
*
11142238 TACAAATTAA-ATC-TCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
11142259 TACAAAATAATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
11142282 T
1 T
11142283 GCATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (23 bp):
TACAAAATAATATCTTCTAAGAT
Found at i:11142298 original size:19 final size:19
Alignment explanation
Indices: 11142274--11142378 Score: 166
Period size: 17 Copynumber: 5.8 Consensus size: 19
11142264 AATAATATCT
11142274 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11142293 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11142311 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
11142328 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
11142347 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11142364 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11142379 TGAAAATTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.41
18 16 0.20
19 31 0.39
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11142354 original size:36 final size:36
Alignment explanation
Indices: 11142274--11142377 Score: 174
Period size: 36 Copynumber: 2.9 Consensus size: 36
11142264 AATAATATCT
*
11142274 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCATACCATA
11142311 TCTAAGATTGTATCATATCTAAGATTGCATACCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATACCATA
11142347 TCTAAGATTGTATCATATCTAAGATTGCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATA
11142378 TTGAAAATTA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 19 0.29
36 36 0.55
37 10 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATACCATA
Found at i:11142625 original size:42 final size:43
Alignment explanation
Indices: 11142566--11142675 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
11142556 GGCTATTACA
*
11142566 GGGTGTATACTTTCTTCCTTAACATTGAGCG-ACTCTAATATC
1 GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
* *
11142608 GGGTGTATACTTTCTTCCTTAACATTGGGTGAACTCCAATATC
1 GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
11142651 GGGTGTATACTTTCTTCCTTAACAT
1 GGGTGTATACTTTCTTCCTTAACAT
11142676 CGGGGGGATA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (43 bp):
GGGTGTATACTTTCTTCCTTAACATTGAGCGAACTCCAATATC
Found at i:11142686 original size:26 final size:26
Alignment explanation
Indices: 11142648--11142697 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
11142638 GAACTCCAAT
* * *
11142648 ATCGGGTGTATACTTTCTTCCTTAAC
1 ATCGGGGGGATACTTTCATCCTTAAC
11142674 ATCGGGGGGATACTTTCATCCTTA
1 ATCGGGGGGATACTTTCATCCTTA
11142698 CACCAAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
ATCGGGGGGATACTTTCATCCTTAAC
Found at i:11144043 original size:20 final size:20
Alignment explanation
Indices: 11143998--11144044 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
11143988 CCAAACACAA
11143998 AACCAAAAACCTAACACTTC
1 AACCAAAAACCTAACACTTC
** *
11144018 -ACCAAAAGGCTAACCCTTC
1 AACCAAAAACCTAACACTTC
11144037 AACCAAAA
1 AACCAAAA
11144045 TCAAGACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.49, C:0.34, G:0.04, T:0.13
Consensus pattern (20 bp):
AACCAAAAACCTAACACTTC
Found at i:11151981 original size:21 final size:20
Alignment explanation
Indices: 11151923--11151994 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
11151913 AGTGGACAGC
*
11151923 TGTTGCT-TTGCT-TGCTGC
1 TGTTGCTGTTGCTGTGCTGT
* *
11151941 TGTTGCTGCTGCTGCCGCTGT
1 TGTTGCTGTTGCTG-TGCTGT
11151962 TGTTGCTGTTGCTGATGCTGT
1 TGTTGCTGTTGCTG-TGCTGT
*
11151983 TGTTGTTGTTGC
1 TGTTGCTGTTGC
11151995 AGTAGCTGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.16
19 4 0.09
21 33 0.75
ACGTcount: A:0.01, C:0.19, G:0.32, T:0.47
Consensus pattern (20 bp):
TGTTGCTGTTGCTGTGCTGT
Found at i:11151983 original size:18 final size:18
Alignment explanation
Indices: 11151921--11151990 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
11151911 TGAGTGGACA
11151921 GCTGTTGCT-TTGCTTGCT
1 GCTGTTGCTGTTGC-TGCT
*
11151939 GCTGTTGCTGCTGCTGCCGCT
1 GCTGTTGCTG-T--TGCTGCT
* *
11151960 GTTGTTGCTGTTGCTGAT
1 GCTGTTGCTGTTGCTGCT
*
11151978 GCTGTTGTTGTTG
1 GCTGTTGCTGTTG
11151991 TTGCAGTAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 25 0.60
20 2 0.05
21 12 0.29
22 3 0.07
ACGTcount: A:0.01, C:0.20, G:0.33, T:0.46
Consensus pattern (18 bp):
GCTGTTGCTGTTGCTGCT
Found at i:11155539 original size:3 final size:3
Alignment explanation
Indices: 11155533--11155566 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11155523 GAGCCATTAA
*
11155533 CTG CTG CTG CTG CTG CTG CTG CTG CTG TTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
11155567 ATATTTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.35
Consensus pattern (3 bp):
CTG
Found at i:11156109 original size:6 final size:6
Alignment explanation
Indices: 11156098--11156129 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11156088 GTATAACTGC
11156098 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TG
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TG
11156130 TGGAAGCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (6 bp):
TGCTGT
Found at i:11160049 original size:26 final size:24
Alignment explanation
Indices: 11160020--11160068 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11160010 TTCATTTTAT
11160020 ATTTAATCTCAATATATTTTTTGGGA
1 ATTTAATCTC--TATATTTTTTGGGA
* *
11160046 ATTTATTCTCTTTATTTTTTGGG
1 ATTTAATCTCTATATTTTTTGGG
11160069 TTTAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.57
Consensus pattern (24 bp):
ATTTAATCTCTATATTTTTTGGGA
Found at i:11164635 original size:21 final size:21
Alignment explanation
Indices: 11164609--11164653 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11164599 CTAATAAATT
*
11164609 CCATTTTCTTCAATTTTCTTA
1 CCATTTTCTTCAATTTTCTCA
* *
11164630 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAATTTTCTCA
11164651 CCA
1 CCA
11164654 ACCAAACAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.02, T:0.53
Consensus pattern (21 bp):
CCATTTTCTTCAATTTTCTCA
Found at i:11167679 original size:104 final size:103
Alignment explanation
Indices: 11167543--11167808 Score: 392
Period size: 103 Copynumber: 2.6 Consensus size: 103
11167533 GTTGTACATA
** * *
11167543 AAGGGGTTGCTGTGTACTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* *
11167608 TTGAAATGTGAA-AGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAA--TAAAGAGGGGGTTGCTATGTGCTGATTCCCCC
*
11167647 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
11167711 TCTGAAATAAAGAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATAAAGAGGGGGTTGCTATGTGCTGATTCCCCC
* * * *
11167750 AAGGGGTTGCTAAGTGTTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
11167809 AATAACGGTT
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
102 3 0.02
103 80 0.54
104 64 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATAAAGAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11171358 original size:28 final size:28
Alignment explanation
Indices: 11171318--11171374 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
11171308 CCCTAAGCCC
*
11171318 TTCGTCACCTTCTTTCTCTTTTTCTTTT
1 TTCGTCACCTTCTTTCTCTTTCTCTTTT
*
11171346 TTCGTCTCCTTCTTTCTCTTTCTCTTTT
1 TTCGTCACCTTCTTTCTCTTTCTCTTTT
11171374 T
1 T
11171375 CTTTCTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.02, C:0.30, G:0.04, T:0.65
Consensus pattern (28 bp):
TTCGTCACCTTCTTTCTCTTTCTCTTTT
Found at i:11171395 original size:16 final size:16
Alignment explanation
Indices: 11171327--11171389 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
11171317 CTTCGTCACC
11171327 TTCTTTCTCTTTTTCT
1 TTCTTTCTCTTTTTCT
**
11171343 TT-TTTCGTCTCCTTCTT
1 TTCTTTC-TCTTTTTC-T
11171360 TCTCTTTCTCTTTTTCT
1 T-TCTTTCTCTTTTTCT
11171377 TTCTTTCT-TTTTT
1 TTCTTTCTCTTTTT
11171390 GTTTTCGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 9 0.23
16 15 0.38
17 4 0.10
18 7 0.18
19 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (16 bp):
TTCTTTCTCTTTTTCT
Found at i:11171514 original size:33 final size:31
Alignment explanation
Indices: 11171456--11171523 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 31
11171446 ATTACTTTTG
*
11171456 TTTTATATGATATAGATAAATACTTA-AGGT
1 TTTTATATGATATAGATAAATACTTACACGT
* *
11171486 TTTTATATTATAATATATAAATAAACTTACACGT
1 TTTTATATGAT-ATAGATAAAT--ACTTACACGT
11171520 TTTT
1 TTTT
11171524 TTTAATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 10 0.32
31 9 0.29
33 5 0.16
34 7 0.23
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTTATATGATATAGATAAATACTTACACGT
Found at i:11173474 original size:27 final size:28
Alignment explanation
Indices: 11173437--11173490 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11173427 AAAATTTATT
*
11173437 TCAAACTCTCAAAT-TCAATTTTAAAACA
1 TCAAACTCTCAAATCCCAA-TTTAAAACA
11173465 TCAAA-TCTCAAATCCCAATTTAAAAC
1 TCAAACTCTCAAATCCCAATTTAAAAC
11173491 CCCAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (28 bp):
TCAAACTCTCAAATCCCAATTTAAAACA
Found at i:11177320 original size:15 final size:15
Alignment explanation
Indices: 11177300--11177353 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
11177290 ATACTACAAA
11177300 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
11177315 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
11177332 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
11177349 ATATT
1 ATATT
11177354 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:11177484 original size:25 final size:22
Alignment explanation
Indices: 11177445--11177495 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11177435 ATATTTAATA
11177445 ATTTATTATTTTAATAAATTAT
1 ATTTATTATTTTAATAAATTAT
*
11177467 ATTTATTATATTAAT-AATT-T
1 ATTTATTATTTTAATAAATTAT
11177487 ATTATATTA
1 ATT-TATTA
11177496 CTAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 9 0.33
22 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTATTATTTTAATAAATTAT
Found at i:11180956 original size:17 final size:18
Alignment explanation
Indices: 11180922--11180957 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11180912 TGAATTTCTA
11180922 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
11180940 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
11180957 T
1 T
11180958 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:11181427 original size:16 final size:18
Alignment explanation
Indices: 11181395--11181429 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
11181385 CCTTGGTTTC
11181395 TTTGTTTTTCTTTTATAT
1 TTTGTTTTTCTTTTATAT
11181413 TTTG-TTTTC-TTTATAT
1 TTTGTTTTTCTTTTATAT
11181429 T
1 T
11181430 ATTTTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTGTTTTTCTTTTATAT
Found at i:11183274 original size:46 final size:46
Alignment explanation
Indices: 11183207--11183298 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11183197 CACAACTTAG
*
11183207 ATTCAGACGGATACGCGGATCCAACCCAAACACATCAGTACGGCAC
1 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
11183253 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
1 ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
11183299 TCAGTGCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.12
Consensus pattern (46 bp):
ATTCAGACGGATACGCGGATCCAACCCAAACACACCAGTACGGCAC
Found at i:11183542 original size:5 final size:5
Alignment explanation
Indices: 11183524--11183568 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
11183514 ATAATTCATA
* *
11183524 AATTCC AATTC AATAC AATTC AATTC AACTC AATTC AATTTC AAT
1 AATT-C AATTC AATTC AATTC AATTC AATTC AATTC AA-TTC AAT
11183569 ACTACAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (5 bp):
AATTC
Found at i:11183549 original size:15 final size:15
Alignment explanation
Indices: 11183516--11183570 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
11183506 CAACTCAAAT
11183516 AATTC-ATA-AATTCC
1 AATTCAATACAATT-C
11183530 AATTCAATACAATTC
1 AATTCAATACAATTC
11183545 AATTCAACT-CAATTC
1 AATTCAA-TACAATTC
11183560 AATTTCAATAC
1 AA-TTCAATAC
11183571 TACAATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.14
15 20 0.56
16 11 0.31
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTCAATACAATTC
Found at i:11184451 original size:22 final size:23
Alignment explanation
Indices: 11184409--11184452 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11184399 ATATATATAA
11184409 TACAAATGTATGTATATTTTTAC
1 TACAAATGTATGTATATTTTTAC
* *
11184432 TACACATGTAT-TTTATTTTTA
1 TACAAATGTATGTATATTTTTA
11184453 ACATACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TACAAATGTATGTATATTTTTAC
Found at i:11189791 original size:32 final size:32
Alignment explanation
Indices: 11189754--11189827 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
11189744 TCATAGTCTA
*
11189754 TAGTTTCACAATTTA-AAGTTTAAGTATATATG
1 TAGTTTCACAATTTATAA-TTTAAGTATATAAG
* *
11189786 TAGTTTCATAATTTATAATTTCAGTATATAAG
1 TAGTTTCACAATTTATAATTTAAGTATATAAG
11189818 TAGTTTCACA
1 TAGTTTCACA
11189828 GTCTATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 35 0.95
33 2 0.05
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (32 bp):
TAGTTTCACAATTTATAATTTAAGTATATAAG
Found at i:11191017 original size:24 final size:24
Alignment explanation
Indices: 11190990--11191055 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
11190980 CTCATTTACA
* *
11190990 TTGTGGCCAAGCCACTCAATATTG
1 TTGTGGACAAGCCACTCAATAGTG
* * ***
11191014 TTGTGGTCAAGCCAATTGTTAGTG
1 TTGTGGACAAGCCACTCAATAGTG
11191038 TTGTGGACAAGCCACTCA
1 TTGTGGACAAGCCACTCA
11191056 CTTTTGTAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
TTGTGGACAAGCCACTCAATAGTG
Found at i:11194174 original size:96 final size:97
Alignment explanation
Indices: 11194010--11194187 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 97
11194000 TTCTTTTTTC
*
11194010 TCCTCTTCACCCTCTTGGCTTCAGCTTTTACCTTACTCGAACTAAGCTTATTGGGATCCTTGTCT
1 TCCTCTTCACCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
11194075 ACTCCATCG-TTCCTTTCAATGACAGACTTGT
66 ACTCCATCGTTTCCTTTCAATGACAGACTTGT
** ** * * * *
11194106 TCCTCTTTGCCCTCTTGGCTTTGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
1 TCCTCTTCACCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
*
11194171 ACTCCATTGTTTCCTTT
66 ACTCCATCGTTTCCTTT
11194188 GGTGAAGACT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 64 0.90
97 7 0.10
ACGTcount: A:0.13, C:0.31, G:0.15, T:0.41
Consensus pattern (97 bp):
TCCTCTTCACCCTCTTGGCTTCAGCTTTTACCTTACTCGAACCAAGCTTATTGGGATCCTTGTCT
ACTCCATCGTTTCCTTTCAATGACAGACTTGT
Found at i:11201247 original size:33 final size:29
Alignment explanation
Indices: 11201216--11201354 Score: 164
Period size: 27 Copynumber: 4.9 Consensus size: 29
11201206 GCCAGGCAAT
11201216 TTACCATCCATGCCTGGCATTGGCATTGGCAAA
1 TTACCATCCATGCCTGGCATTGGCA-T-G--AA
*
11201249 TTACCAGCCATGCCTGGCATTGGCA--AA
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
11201276 TTACCAGCCATGCCTGGCATTGGCAT-AA
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
11201304 -TACCATCCTTGCCTGGCATTGGCATG--
1 TTACCATCCATGCCTGGCATTGGCATGAA
*
11201330 TTACCATCCATGCCTGGAATTGGCA
1 TTACCATCCATGCCTGGCATTGGCA
11201355 CGTTACCATC
Statistics
Matches: 98, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
27 72 0.73
28 2 0.02
33 24 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (29 bp):
TTACCATCCATGCCTGGCATTGGCATGAA
Found at i:11201359 original size:27 final size:27
Alignment explanation
Indices: 11201236--11201365 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
11201226 TGCCTGGCAT
*
11201236 TGGCATTGGCAAATTACCAGCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
*
11201263 TGGCATTGGCAAATTACCAGCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
*
11201290 TGGCATTGGCATAA-TACCATCCTTGCC
1 TGGCATTGGCA-AATTACCATCCATGCC
**
11201317 TGGCATTGGCATGTTACCATCCATGCC
1 TGGCATTGGCAAATTACCATCCATGCC
* **
11201344 TGGAATTGGCACGTTACCATCC
1 TGGCATTGGCAAATTACCATCC
11201366 TTGACTGCCG
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
27 92 0.98
28 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (27 bp):
TGGCATTGGCAAATTACCATCCATGCC
Found at i:11201388 original size:54 final size:54
Alignment explanation
Indices: 11201216--11201390 Score: 152
Period size: 54 Copynumber: 3.1 Consensus size: 54
11201206 GCCAGGCAAT
* * * * * *
11201216 TTACCATCCATGCCTGGCATTGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCAAA
1 TTACCATCCATGCCTGGAATTGGCA----C-AA-TACCATCCTTGACTGCCATTGGCATA
* * * * * *
11201276 TTACCAGCCATGCCTGGCATTGGCATAATACCATCCTTGCCTGGCATTGGCATG
1 TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
** * *
11201330 TTACCATCCATGCCTGGAATTGGCACGTTACCATCCTTGACTGCCGTTGGTATA
1 TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
11201384 TTACCAT
1 TTACCAT
11201391 TAACTGGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
54 73 0.74
55 2 0.02
60 24 0.24
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (54 bp):
TTACCATCCATGCCTGGAATTGGCACAATACCATCCTTGACTGCCATTGGCATA
Found at i:11201389 original size:81 final size:81
Alignment explanation
Indices: 11201236--11201390 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
11201226 TGCCTGGCAT
* * *
11201236 TGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCAAATTACCAGCCATGCCTGGCATTGGCA
1 TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
11201301 TAATACCATCCTTGCC
66 TAATACCATCCTTGCC
** * ** * * * *
11201317 TGGCATTGGCATGTTACCATCCATGCCTGGAATTGGCACGTTACCATCCTTGACTGCCGTTGGTA
1 TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
*
11201382 TATTACCAT
66 TAATACCAT
11201391 TAACTGGCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (81 bp):
TGGCATTGGCAAATTACCAGCCATGCCTGGAATTGGCAAATTACCAGCCATGACTGCCATTGGCA
TAATACCATCCTTGCC
Found at i:11209986 original size:82 final size:82
Alignment explanation
Indices: 11209849--11210006 Score: 282
Period size: 82 Copynumber: 1.9 Consensus size: 82
11209839 GCATGAAAGG
11209849 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACAACGAATAGCCTCAAAG
1 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACAACGAATAGCCTCAAAG
11209914 TTTTGATGATGTAATGA
66 TTTTGATGATGTAATGA
* *
11209931 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAATGAA-GAATAGCCTTAAA
1 AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAA-CAACGAATAGCCTCAAA
11209995 GTTTTGATGATG
65 GTTTTGATGATG
11210007 CGATGAATGA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (82 bp):
AAACCATCTAATAAATATCCTTCAAGTGAGTATGTGACAATCGTCAACAACGAATAGCCTCAAAG
TTTTGATGATGTAATGA
Found at i:11220285 original size:32 final size:32
Alignment explanation
Indices: 11220249--11220310 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
11220239 TCCTCTCTTC
11220249 TTCATTTCTTTTAACATAA-TTTTTCTATGTTT
1 TTCATTTCTTTTAACATAACTTTTT-TATGTTT
*
11220281 TTCATTTCTTTTTACATAACTTTTTTATGT
1 TTCATTTCTTTTAACATAACTTTTTTATGT
11220311 CTTTGAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.63
Consensus pattern (32 bp):
TTCATTTCTTTTAACATAACTTTTTTATGTTT
Found at i:11228034 original size:39 final size:39
Alignment explanation
Indices: 11227980--11228058 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
11227970 TAAAAAAGCA
*
11227980 TAATTTTTTGGACAAGTTCAAGTACTAACAATGTGTTCT
1 TAATTTTTTGGACAAGTTCAAGTACTAACAATGTATTCT
*
11228019 TAATTTTTTGTACAAGTTCAAGTACTAACAATGTATTCT
1 TAATTTTTTGGACAAGTTCAAGTACTAACAATGTATTCT
11228058 T
1 T
11228059 TCAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (39 bp):
TAATTTTTTGGACAAGTTCAAGTACTAACAATGTATTCT
Found at i:11239512 original size:18 final size:18
Alignment explanation
Indices: 11239446--11239512 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
11239436 CTAGGCTAGC
11239446 TTTTAA-TTTGTTTTT-T
1 TTTTAATTTTGTTTTTGT
*
11239462 CTTTTAATTTCG-TTTTGT
1 -TTTTAATTTTGTTTTTGT
11239480 TTATT-ATTTTGGTTTTTGT
1 TT-TTAATTTT-GTTTTTGT
11239499 TTTTAATTTTGTTT
1 TTTTAATTTTGTTT
11239513 GTTTCTTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 16 0.38
18 13 0.31
19 13 0.31
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (18 bp):
TTTTAATTTTGTTTTTGT
Found at i:11240048 original size:14 final size:14
Alignment explanation
Indices: 11240025--11240056 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11240015 TCAAATCACC
11240025 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
*
11240039 GGGCCCGTTTGGTT
1 GGGCCAGTTTGGTT
11240053 GGGC
1 GGGC
11240057 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:11245171 original size:14 final size:14
Alignment explanation
Indices: 11245148--11245179 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11245138 TCAAATCACC
11245148 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
*
11245162 GGGCCCGTTTGGTT
1 GGGCCAGTTTGGTT
11245176 GGGC
1 GGGC
11245180 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:11255041 original size:7 final size:7
Alignment explanation
Indices: 11255024--11255130 Score: 56
Period size: 8 Copynumber: 13.7 Consensus size: 7
11255014 ACAAATAAAT
11255024 AAAAGAAA
1 AAAAG-AA
11255032 AAATAGAA
1 AAA-AGAA
11255040 AAAAGAA
1 AAAAGAA
11255047 ACAAAGGAA
1 A-AAA-GAA
*
11255056 AATAAAACA
1 AA-AAGA-A
11255065 AGAAAGAA
1 A-AAAGAA
11255073 AGAAAG-A
1 A-AAAGAA
11255080 AAAAGAA
1 AAAAGAA
*
11255087 AAAGGAA
1 AAAAGAA
11255094 ATAAA-AA
1 A-AAAGAA
11255101 GAGAAAGAA
1 -A-AAAGAA
11255110 AAAGAGAA
1 AAA-AGAA
*
11255118 AGAAGAA
1 AAAAGAA
11255125 AGAAAG
1 A-AAAG
11255131 CCACGGCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
6 4 0.05
7 24 0.30
8 36 0.45
9 15 0.19
10 1 0.01
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Found at i:11255073 original size:4 final size:4
Alignment explanation
Indices: 11255064--11255130 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
11255054 AAAATAAAAC
* *
11255064 AAGA AAGA AAGA AAG- AA-A AAGA AA-A AGGA AATA AA-A AGAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA
11255109 AA-A AGAGA AAG- AAGA AAGA AAG
1 AAGA A-AGA AAGA AAGA AAGA AAG
11255131 CCACGGCCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
3 13 0.25
4 35 0.67
5 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:11255074 original size:22 final size:23
Alignment explanation
Indices: 11255031--11255074 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11255021 AATAAAAGAA
11255031 AAAATAGAAAAAAGAAACAAAGG
1 AAAATAGAAAAAAGAAACAAAGG
* *
11255054 AAAATA-AAACAAGAAAGAAAG
1 AAAATAGAAAAAAGAAACAAAG
11255075 AAAGAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.05
Consensus pattern (23 bp):
AAAATAGAAAAAAGAAACAAAGG
Found at i:11255086 original size:6 final size:6
Alignment explanation
Indices: 11255075--11255129 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
11255065 AGAAAGAAAG
* * * *
11255075 AAAGAA AAAGAA AAAG-G AAATAA AAAGAG AAAGAA AAAGAG AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
11255122 GAAAGAA A
1 -AAAGAA A
11255130 GCCACGGCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 30 0.77
7 6 0.15
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:11255096 original size:37 final size:38
Alignment explanation
Indices: 11255016--11255125 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 38
11255006 ATAATAAAAC
* *
11255016 AAATAAATAAAAGAAA-AAATAGA-AAAAAGAAACAAAGGA
1 AAATAAA-AAGAGAAAGAAAAAGAGAAAAAG-AA-AAAGGA
11255055 AAATAAAACA-AGAAAGAAAGAA-AGAAAAAGAAAAAGG-
1 AAATAAAA-AGAGAAAGAAA-AAGAGAAAAAGAAAAAGGA
11255092 AAATAAAAAGAGAAAGAAAAAGAGAAAGAAGAAA
1 AAATAAAAAGAGAAAGAAAAAGAGAAA-AAGAAA
11255126 GAAAGCCACG
Statistics
Matches: 63, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
36 3 0.05
37 22 0.35
38 17 0.27
39 14 0.22
40 7 0.11
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (38 bp):
AAATAAAAAGAGAAAGAAAAAGAGAAAAAGAAAAAGGA
Found at i:11255099 original size:17 final size:17
Alignment explanation
Indices: 11255039--11255107 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
11255029 AAAAAATAGA
11255039 AAAAAGAAACAAAGGAAAAT
1 AAAAAG-AA-AAAGG-AAAT
* *
11255059 AAAACAAGAAAGAAAGAAAG
1 -AAA-AAGAAA-AAGGAAAT
11255079 AAAAAGAAAAAGGAAAT
1 AAAAAGAAAAAGGAAAT
*
11255096 AAAAAGAGAAAG
1 AAAAAGAAAAAG
11255108 AAAAAGAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
17 17 0.41
18 6 0.15
19 3 0.07
20 4 0.10
21 8 0.20
22 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGGAAAT
Found at i:11255101 original size:11 final size:12
Alignment explanation
Indices: 11255065--11255127 Score: 74
Period size: 12 Copynumber: 5.1 Consensus size: 12
11255055 AAATAAAACA
11255065 AGAAAGAAAGAAAG
1 AGAAAG-AA-AAAG
*
11255079 AAAAAGAAAAAG
1 AGAAAGAAAAAG
*
11255091 -GAAATAAAAAG
1 AGAAAGAAAAAG
11255102 AGAAAGAAAAAG
1 AGAAAGAAAAAG
11255114 AGAAAGAAGAAAG
1 AGAAAGAA-AAAG
11255127 A
1 A
11255128 AAGCCACGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
11 9 0.21
12 22 0.51
13 7 0.16
14 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:11255107 original size:23 final size:25
Alignment explanation
Indices: 11255065--11255129 Score: 89
Period size: 23 Copynumber: 2.6 Consensus size: 25
11255055 AAATAAAACA
11255065 AGAAAGAAAGAAAGAAAAAGAAAAAG
1 AGAAAG-AAGAAAGAAAAAGAAAAAG
* *
11255091 -GAAATAA-AAAGAGAAAGAAAAAG
1 AGAAAGAAGAAAGAAAAAGAAAAAG
11255114 AGAAAGAAGAAAGAAA
1 AGAAAGAAGAAAGAAA
11255130 GCCACGGCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 15 0.45
24 8 0.24
25 10 0.30
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (25 bp):
AGAAAGAAGAAAGAAAAAGAAAAAG
Found at i:11255130 original size:29 final size:30
Alignment explanation
Indices: 11255064--11255130 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
11255054 AAAATAAAAC
11255064 AAGAAAG-AA-AGAAAGAAAAAGAAAAAGG
1 AAGAAAGAAAGAGAAAGAAAAAGAAAAAGG
*
11255092 AA-ATAA-AAAGAGAAAGAAAAAGAGAAA-G
1 AAGA-AAGAAAGAGAAAGAAAAAGAAAAAGG
11255120 AAGAAAGAAAG
1 AAGAAAGAAAG
11255131 CCACGGCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
27 1 0.03
28 11 0.33
29 21 0.64
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (30 bp):
AAGAAAGAAAGAGAAAGAAAAAGAAAAAGG
Found at i:11256087 original size:41 final size:41
Alignment explanation
Indices: 11256036--11256139 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 41
11256026 TTTACTTCGG
* *
11256036 TTTAACCGATGTGACACTGGGTGTCAATATACTACTTCAAA
1 TTTATCCGATGAGACACTGGGTGTCAATATACTACTTCAAA
* * **
11256077 TTTATCCGATGAGACACTGGGTATCAATTTACTACTTTGAA
1 TTTATCCGATGAGACACTGGGTGTCAATATACTACTTCAAA
* *
11256118 -TTATCCGACGAGGCACTGGGTG
1 TTTATCCGATGAGACACTGGGTG
11256140 CCAAACTGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.35
41 35 0.65
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (41 bp):
TTTATCCGATGAGACACTGGGTGTCAATATACTACTTCAAA
Found at i:11274986 original size:29 final size:31
Alignment explanation
Indices: 11274953--11275023 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
11274943 AAGTTTACGT
*
11274953 TTTGGTCACTGATGTT-TCAGTTG-TAACAA
1 TTTGGTCACTGATGTTATCAATTGATAACAA
*
11274982 TTTGGTCACAGATGTTATCAATTGATAACAA
1 TTTGGTCACTGATGTTATCAATTGATAACAA
11275013 TTTGGTCACTG
1 TTTGGTCACTG
11275024 GTCTCTGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 15 0.41
30 6 0.16
31 16 0.43
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (31 bp):
TTTGGTCACTGATGTTATCAATTGATAACAA
Found at i:11275014 original size:31 final size:29
Alignment explanation
Indices: 11274953--11275021 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
11274943 AAGTTTACGT
* *
11274953 TTTGGTCACTGATGTTTCAGTTGTAACAA
1 TTTGGTCACAGATGTTTCAATTGTAACAA
11274982 TTTGGTCACAGATGTTATCAATTGATAACAA
1 TTTGGTCACAGATGTT-TCAATTG-TAACAA
11275013 TTTGGTCAC
1 TTTGGTCAC
11275022 TGGTCTCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 15 0.42
30 6 0.17
31 15 0.42
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (29 bp):
TTTGGTCACAGATGTTTCAATTGTAACAA
Found at i:11277566 original size:296 final size:296
Alignment explanation
Indices: 11276989--11277876 Score: 1719
Period size: 296 Copynumber: 3.0 Consensus size: 296
11276979 AAATAATTCT
11276989 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
1 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
*
11277054 TAAAACATTTTTTTCATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
66 TAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
*
11277119 AGGAAAGAGACAAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAAGCAAAAAATCG
131 AGGAAAGAGAC-AAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCG
11277184 AAAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATG
195 AAAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATG
11277249 CTTAGGGTTGTTGAT-GGGAAAAATATCCCTCCTTCA
260 CTTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
11277285 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
1 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
11277350 TAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
66 TAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
11277415 AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCGA
131 AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCGA
11277480 AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
196 AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
11277545 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
261 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
11277581 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
1 TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
11277646 TAAAACA-TTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
66 TAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
11277710 AGGAAAGAGAC-AAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCGA
131 AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCGA
*
11277774 AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATATTGC
196 AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
11277839 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
261 TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
11277875 TA
1 TA
11277877 ATTCTTTGAA
Statistics
Matches: 588, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
294 155 0.26
295 200 0.34
296 233 0.40
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (296 bp):
TATATAGTATTTTTAAAAAAATATTTTTATATAAAAATTGTAAGTTAGTTTTATTATTTTAAATA
TAAAACATTTTTTTTATTAGCAAAACTAAATTTAATTATAAATTTTTTGATACAAGTATTCAACA
AGGAAAGAGACAAAAAAAATGATGGTGTTAAGAAGACCGGTTCACTTAAACAGGCAAAAAATCGA
AAAAGTAAGGGAGTAAAGTAGAGGAGATTGTGAAGATAAGGAAGATAGAGTGTTGAAGATAATGC
TTAGGGTTGTTGATGGGGAAAAATATCCCTCCTTCA
Found at i:11278820 original size:21 final size:21
Alignment explanation
Indices: 11278794--11278841 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
11278784 GAAGCTTGAA
* *
11278794 AGCTGAATAGAAGCTCATAAG
1 AGCTGAACAAAAGCTCATAAG
*
11278815 AGCTGAACAAAAGCTCGTAAG
1 AGCTGAACAAAAGCTCATAAG
11278836 AGCTGA
1 AGCTGA
11278842 TCTACCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
AGCTGAACAAAAGCTCATAAG
Found at i:11283631 original size:102 final size:103
Alignment explanation
Indices: 11283421--11283638 Score: 221
Period size: 102 Copynumber: 2.1 Consensus size: 103
11283411 TCTAGTCCAA
*
11283421 AAAGTATTA-ATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTGAAA
1 AAAGTA-TAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTAAAA
** * * *
11283485 GTAATACCAAAATGACATTTTGTTTTTCACAAACCATAC
65 ACAATACCAAAATGACATTATGTTTTTCAAAAAACATAC
* * * * ** *
11283524 TAAGTATAGATACC-TTTTGGTCAAGTATCGATATTTTTTGAATTATTGATACTTGCTTTTAAAA
1 AAAGTATAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATAC-CCCTCTTAAAA
* *
11283588 ACGATACCAACAT-AGCATTATGTTTCTT-AAAAAAC-TAC
65 ACAATACCAAAATGA-CATTATGTTT-TTCAAAAAACATAC
*
11283626 AAAGTATCGATAC
1 AAAGTATAGATAC
11283639 GGTATTGATA
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
102 52 0.55
103 40 0.43
104 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (103 bp):
AAAGTATAGATACCTTTTTGGCCAAGTATCGATATTTTATGAATTATCGATACCCCTCTTAAAAA
CAATACCAAAATGACATTATGTTTTTCAAAAAACATAC
Found at i:11288222 original size:27 final size:27
Alignment explanation
Indices: 11288192--11288253 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
11288182 TTCTTGAAAC
*
11288192 TAACTATTATCACGATGAAGGCAAGTG
1 TAACTATTATCACGATAAAGGCAAGTG
11288219 TAACTATTATCACGATAAAGGCAAGTG
1 TAACTATTATCACGATAAAGGCAAGTG
*
11288246 TACCTATT
1 TAACTATT
11288254 GAACAGTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
TAACTATTATCACGATAAAGGCAAGTG
Found at i:11288824 original size:14 final size:13
Alignment explanation
Indices: 11288793--11288831 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
11288783 TTTCCTGGAA
11288793 AATTAA-AACAAG
1 AATTAAGAACAAG
*
11288805 AATTAAGAACAGAT
1 AATTAAGAACA-AG
11288819 AATTAAGAACAAG
1 AATTAAGAACAAG
11288832 TCAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.18
Consensus pattern (13 bp):
AATTAAGAACAAG
Found at i:11296565 original size:22 final size:22
Alignment explanation
Indices: 11296524--11296572 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
11296514 ATTCATATAG
*
11296524 TCAAATAAATATTTACTTC-AT
1 TCAAATAAATATTAACTTCAAT
11296545 TCAAATTAAATA-TAACATTCAAT
1 TCAAA-TAAATATTAAC-TTCAAT
11296568 TCAAA
1 TCAAA
11296573 CATGTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAAATAAATATTAACTTCAAT
Found at i:11298435 original size:26 final size:24
Alignment explanation
Indices: 11298391--11298439 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11298381 ATTTGTCTGA
*
11298391 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
11298415 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
11298440 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:11305492 original size:30 final size:30
Alignment explanation
Indices: 11305438--11305494 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
11305428 ACAGGCAGAG
* *
11305438 ACACGGGCGTGTGTCTCAGCCGTGTGAGGA
1 ACACGGGCATGTGTCCCAGCCGTGTGAGGA
* *
11305468 ACACGGGCATGTGTCCCGGGCGTGTGA
1 ACACGGGCATGTGTCCCAGCCGTGTGA
11305495 AGTCTGCACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.25, G:0.40, T:0.19
Consensus pattern (30 bp):
ACACGGGCATGTGTCCCAGCCGTGTGAGGA
Found at i:11306933 original size:13 final size:13
Alignment explanation
Indices: 11306917--11306951 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
11306907 AAAACAATAC
11306917 CCAAACAGTGTAA
1 CCAAACAGTGTAA
11306930 CCAAACAGTGTAA
1 CCAAACAGTGTAA
11306943 CCAAACAGT
1 CCAAACAGT
11306952 TTCGAACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (13 bp):
CCAAACAGTGTAA
Found at i:11309400 original size:36 final size:36
Alignment explanation
Indices: 11309353--11309425 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
11309343 GATCTAAAGT
11309353 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
1 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
*
11309389 GTAGGTTTCTGTTTTACACTATTACAATGAACATCA
1 GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
11309425 G
1 G
11309426 ACTTCCCTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (36 bp):
GTAGGCTTCTGTTTTACACTATTACAATGAACATCA
Found at i:11317800 original size:26 final size:26
Alignment explanation
Indices: 11317771--11317854 Score: 152
Period size: 26 Copynumber: 3.2 Consensus size: 26
11317761 TGGTACAAAT
11317771 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
11317797 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11317823 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11317849 TGATAA
1 TGATAA
11317855 GAATTTCATG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 54 0.95
27 3 0.05
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:11326198 original size:21 final size:21
Alignment explanation
Indices: 11326149--11326198 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
11326139 AGTGTTATTG
* *
11326149 AGTTAGTTTTAAAGTTTCGTT
1 AGTTAATTTTAAAGTTTCGGT
** *
11326170 AGGAAATTTTAACGTTTCGGT
1 AGTTAATTTTAAAGTTTCGGT
11326191 AGTTAATT
1 AGTTAATT
11326199 AATTAAAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (21 bp):
AGTTAATTTTAAAGTTTCGGT
Found at i:11329630 original size:21 final size:22
Alignment explanation
Indices: 11329571--11329636 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
11329561 CAGAAGCAGT
* *
11329571 ATACTACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
* ** *
11329593 A-ACGAAACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
11329613 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
11329635 AT
1 AT
11329637 GGCAAAGCCG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
20 2 0.06
21 26 0.81
22 4 0.12
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:11330494 original size:7 final size:7
Alignment explanation
Indices: 11330466--11330505 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
11330456 TTACTTTACT
11330466 ATATATA
1 ATATATA
11330473 ATATAATA
1 ATAT-ATA
11330481 ATAATATA
1 AT-ATATA
11330489 ATATATA
1 ATATATA
11330496 ATATATA
1 ATATATA
11330503 ATA
1 ATA
11330506 AAACATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 19 0.61
8 10 0.32
9 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATATA
Found at i:11331148 original size:20 final size:19
Alignment explanation
Indices: 11331102--11331148 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
11331092 AGTCCTTTTT
*
11331102 CCTAATTTCTCCTAATTAAG
1 CCTAA-TTCACCTAATTAAG
11331122 -CTAAATTCACCTAATTAAAG
1 CCT-AATTCACCTAATT-AAG
11331142 CCTAATT
1 CCTAATT
11331149 AAACACACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.36
Consensus pattern (19 bp):
CCTAATTCACCTAATTAAG
Found at i:11331439 original size:45 final size:43
Alignment explanation
Indices: 11331343--11331440 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 43
11331333 TACATGTATA
* *
11331343 ATTATAAATAATGTATATCCAAATCAATTATAACAAAAATAAT
1 ATTACAAATAATGTATAACCAAATCAATTATAACAAAAATAAT
*
11331386 ACTCTACAAATAATGTATAACCAAATCAATTATAATAAAAATAAAGT
1 A-T-TACAAATAATGTATAACCAAATCAATTATAACAAAAAT-AA-T
11331433 ATTACAAA
1 ATTACAAA
11331441 GTATAATCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 41 0.85
46 3 0.06
47 2 0.04
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (43 bp):
ATTACAAATAATGTATAACCAAATCAATTATAACAAAAATAAT
Found at i:11336272 original size:21 final size:22
Alignment explanation
Indices: 11336226--11336273 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
11336216 CTAGTATAAT
*
11336226 TGATTTATGCCTTATGTGTTAG
1 TGATTTATGCCTTATGTGCTAG
11336248 -GATTTATGCCATTAT-TGCT-G
1 TGATTTATGCC-TTATGTGCTAG
11336268 TGATTT
1 TGATTT
11336274 CATCATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (22 bp):
TGATTTATGCCTTATGTGCTAG
Found at i:11336800 original size:25 final size:25
Alignment explanation
Indices: 11336767--11336815 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11336757 ACATGGCATG
*
11336767 TCAACAACTATATAATGGCTATTTA
1 TCAACAACTATATAATGGATATTTA
11336792 TCAACAACTATATAATGGATATTT
1 TCAACAACTATATAATGGATATTT
11336816 TTTAAGCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (25 bp):
TCAACAACTATATAATGGATATTTA
Found at i:11351495 original size:29 final size:29
Alignment explanation
Indices: 11351420--11351496 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
11351410 CTAACAAGAT
*
11351420 ATAATAATATATAAAATTTTAAAAAATATA
1 ATAATAA-ATATAAATTTTTAAAAAATATA
* * * * *
11351450 AAAATACATACATATTTTTTAAAAATATA
1 ATAATAAATATAAATTTTTAAAAAATATA
*
11351479 ATAATAAATTTAAATTTT
1 ATAATAAATATAAATTTT
11351497 ATATTAATAA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAATAAATATAAATTTTTAAAAAATATA
Found at i:11364275 original size:54 final size:54
Alignment explanation
Indices: 11364149--11364279 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
11364139 AGCAATTAAG
* * * * * * *
11364149 TTATTCAGTAACAGTCATTTATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 TTATTCAATAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAAAGATCAA
* * *
11364203 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCAATTATTCGGTAACAG-TCAA
1 TTATTCAATAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAA-AGATCAA
11364257 TTATTCAATAAT-TATCAGTTATT
1 TTATTCAATAATAT-TCAGTTATT
11364280 TTATACCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.02
54 64 0.97
55 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (54 bp):
TTATTCAATAATATTCAGTTATTCAGTAACAATCAATTATTCAGTAAAGATCAA
Found at i:11364279 original size:18 final size:18
Alignment explanation
Indices: 11364095--11364263 Score: 146
Period size: 18 Copynumber: 9.4 Consensus size: 18
11364085 AATTGATCGG
*
11364095 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
11364113 TTATTTAGTAA-ATTCAGA
1 TTATTCAGTAACAGTCA-A
* * * *
11364131 -TATTCAATAGCAATTAA
1 TTATTCAGTAACAGTCAA
*
11364148 GTTATTCAGTAACAGTCAT
1 -TTATTCAGTAACAGTCAA
* * *
11364167 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAA
*
11364185 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
11364203 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
11364221 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
11364239 TTATTCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
11364257 TTATTCA
1 TTATTCA
11364264 ATAATTATCA
Statistics
Matches: 117, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
17 12 0.10
18 93 0.79
19 12 0.10
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:11364279 original size:36 final size:36
Alignment explanation
Indices: 11364147--11364279 Score: 135
Period size: 36 Copynumber: 3.7 Consensus size: 36
11364137 ATAGCAATTA
* *
11364147 AGTTATTCAGTAA-CAGTCATTTATTCAGTGACAATC
1 AGTTATTCAGTAATCA-TCAATTATTCAGTAACAATC
* * *
11364183 AGTTATTCAGTAATGATCAATTATTCAGTAATATTC
1 AGTTATTCAGTAATCATCAATTATTCAGTAACAATC
* *
11364219 AGTTATTCAGTAA-CAGTCAATTATTCGGTAACAGTC
1 AGTTATTCAGTAATCA-TCAATTATTCAGTAACAATC
* * * *
11364255 AATTATTCAATAATTATCAGTTATT
1 AGTTATTCAGTAATCATCAATTATT
11364280 TTATACCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
35 1 0.01
36 78 0.96
37 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (36 bp):
AGTTATTCAGTAATCATCAATTATTCAGTAACAATC
Found at i:11364496 original size:45 final size:45
Alignment explanation
Indices: 11364443--11364545 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
11364433 ACAAATCCAG
* * *
11364443 AACAGTAACAGTATTCAACACACAAAGTGCTGAATTGATAACGGT
1 AACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACAGT
* *
11364488 AACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACAGT
* *
11364533 AACGGCAACAGTA
1 AACAGTAACAGTA
11364546 ACAGTGGTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTATTCAACACACAAAGTGCCGAATCGATAACAGT
Found at i:11366265 original size:5 final size:5
Alignment explanation
Indices: 11366257--11366290 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
11366247 TTTATATAAT
*
11366257 ATATA ATATA ATATA ATAAAA ATATA ATATA ATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATA
11366291 ACAATTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:11366282 original size:16 final size:16
Alignment explanation
Indices: 11366250--11366291 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11366240 TTACTTATTT
*
11366250 ATATAATATATAATATA
1 ATATAATA-AAAATATA
11366267 ATATAATAAAAATATA
1 ATATAATAAAAATATA
11366283 ATATAATAA
1 ATATAATAA
11366292 CAATTTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAATAAAAATATA
Done.