Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 285 of 310
Found at i:93859568 original size:20 final size:20
Alignment explanation
Indices: 93859543--93859581 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93859533 TTGTGTTAAT
93859543 AATAATTTAAATATAAAATA
1 AATAATTTAAATATAAAATA
* *
93859563 AATAATTTTAATATTAAAT
1 AATAATTTAAATATAAAAT
93859582 GAGTATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATTTAAATATAAAATA
Found at i:93860274 original size:43 final size:43
Alignment explanation
Indices: 93860213--93860443 Score: 273
Period size: 43 Copynumber: 5.0 Consensus size: 43
93860203 ATCTTAATGT
*
93860213 TAAATATATATCATATAATAATTTACAAAACTAACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
*
93860256 TAAATATATATCATATAATAATTTACAAAATTTACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
*
93860299 TAAATATATATATCATATAATAACTTACATAACTTACAAAATTTACATAATACA
1 T-AA-ATATATATC--AT-ATAA--TA-AT---TTACAAAACTTACATAATACA
* *
93860353 TAAATATATATCATATAATAACTTACAAGACTTACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
* *
93860396 TAAATAATATATATCATACAATAACTTACAAAACTTACATAATACA
1 T--A-AATATATATCATATAATAATTTACAAAACTTACATAATACA
93860442 TA
1 TA
93860444 CCTTATATAA
Statistics
Matches: 167, Mismatches: 7, Indels: 27
0.83 0.03 0.13
Matches are distributed among these distances:
43 62 0.37
44 3 0.02
45 10 0.06
46 41 0.25
47 4 0.02
48 4 0.02
49 4 0.02
50 4 0.02
51 2 0.01
52 9 0.05
53 2 0.01
54 22 0.13
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (43 bp):
TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
Found at i:93860330 original size:9 final size:9
Alignment explanation
Indices: 93860318--93860503 Score: 59
Period size: 9 Copynumber: 21.0 Consensus size: 9
93860308 ATATCATATA
93860318 ATAACTTAC
1 ATAACTTAC
93860327 ATAACTTAC
1 ATAACTTAC
* *
93860336 AAAATTTAC
1 ATAACTTAC
93860345 ATAA--TAC
1 ATAACTTAC
* *
93860352 ATAA-ATAT
1 ATAACTTAC
*
93860360 ATATCATATA-
1 ATAAC-T-TAC
93860370 ATAACTTAC
1 ATAACTTAC
93860379 A-AGACTTAC
1 ATA-ACTTAC
93860388 ATAA--TAC
1 ATAACTTAC
* *
93860395 ATAAATAATAT
1 ATAACT--TAC
* *
93860406 ATATCATAC
1 ATAACTTAC
93860415 AATAACTTAC
1 -ATAACTTAC
*
93860425 AAAACTTAC
1 ATAACTTAC
93860434 ATAA--TAC
1 ATAACTTAC
* *
93860441 ATACCTTAT
1 ATAACTTAC
* *
93860450 ATAAATT-T
1 ATAACTTAC
* *
93860458 ATATCATATC
1 ATAACTTA-C
*
93860468 ATAACTTGC
1 ATAACTTAC
*
93860477 ATAACATAC
1 ATAACTTAC
*
93860486 AAAACTTAC
1 ATAACTTAC
*
93860495 TTAACTTAC
1 ATAACTTAC
93860504 GTAATACATA
Statistics
Matches: 128, Mismatches: 33, Indels: 32
0.66 0.17 0.17
Matches are distributed among these distances:
7 20 0.16
8 13 0.10
9 71 0.55
10 17 0.13
11 7 0.05
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:93860452 original size:46 final size:44
Alignment explanation
Indices: 93860327--93860443 Score: 182
Period size: 46 Copynumber: 2.6 Consensus size: 44
93860317 AATAACTTAC
* *
93860327 ATAACTTACAAAATTTACATAATACATA-AATATATATCATATA
1 ATAACTTACAAAACTTACATAATACATATAATATATATCATACA
*
93860370 ATAACTTACAAGACTTACATAATACATAAATAATATATATCATACA
1 ATAACTTACAAAACTTACATAATACAT--ATAATATATATCATACA
93860416 ATAACTTACAAAACTTACATAATACATA
1 ATAACTTACAAAACTTACATAATACATA
93860444 CCTTATATAA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
43 25 0.37
44 1 0.01
45 1 0.01
46 40 0.60
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.32
Consensus pattern (44 bp):
ATAACTTACAAAACTTACATAATACATATAATATATATCATACA
Found at i:93860472 original size:52 final size:48
Alignment explanation
Indices: 93860246--93860474 Score: 261
Period size: 52 Copynumber: 4.7 Consensus size: 48
93860236 TACAAAACTA
* *
93860246 ACATAATACATAAATATATATCATATAATAATTTACAAAATTTACATAAT
1 ACAT-ATA-ATAAATATATATCATATAATAACTTACAAAACTTACATAAT
* *
93860296 ACATA-AAT--ATATATATCATATAATAACTTACATAACTTACAAAATTT
1 ACATATAATAAATATATATCATATAATAACTTACAAAACTTACATAA--T
*
93860343 ACATAATACATAAATATATATCATATAATAACTTACAAGACTTACATAAT
1 ACAT-ATA-ATAAATATATATCATATAATAACTTACAAAACTTACATAAT
*
93860393 ACATA-AAT-AATATATATCATACAATAACTTACAAAACTTACATAAT
1 ACATATAATAAATATATATCATATAATAACTTACAAAACTTACATAAT
* *
93860439 ACATACCTTATATAAATTTATATCATATCATAACTT
1 ACATA---TA-ATAAATATATATCATATAATAACTT
93860475 GCATAACATA
Statistics
Matches: 154, Mismatches: 12, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
45 32 0.21
46 41 0.27
47 9 0.06
48 3 0.02
49 3 0.02
50 12 0.08
51 2 0.01
52 52 0.34
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (48 bp):
ACATATAATAAATATATATCATATAATAACTTACAAAACTTACATAAT
Found at i:93860472 original size:98 final size:96
Alignment explanation
Indices: 93860235--93860474 Score: 329
Period size: 97 Copynumber: 2.5 Consensus size: 96
93860225 ATATAATAAT
* * *
93860235 TTACAAAACTAACATAATACATAAATATATATCATATAATAATTTACAAAATTTACATAATACAT
1 TTACAAAA-TTACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACAT
* *
93860300 AAATATATATATCATATAATAACTTACATAAC
65 AAATATATATATCATACAATAACTTACAAAAC
*
93860332 TTACAAAATTTACATAATACATAAATATATATCATATAATAACTTACAAGACTTACATAATACAT
1 TTACAAAA-TTACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACAT
93860397 AAATAATATATATCATACAATAACTTACAAAAC
65 AAAT-ATATATATCATACAATAACTTACAAAAC
* * * * *
93860430 TTACATAA-TACATACCTTATATAAATTTATATCATATCATAACTT
1 TTACAAAATTACATA--ATACATAAATATATATCATATAATAACTT
93860475 GCATAACATA
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
96 6 0.05
97 64 0.50
98 58 0.45
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (96 bp):
TTACAAAATTACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACATA
AATATATATATCATACAATAACTTACAAAAC
Found at i:93866064 original size:15 final size:16
Alignment explanation
Indices: 93866039--93866069 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
93866029 GCAACAACTT
93866039 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
93866055 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
93866070 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:93866074 original size:21 final size:21
Alignment explanation
Indices: 93866048--93866087 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93866038 TAGAGCGGAG
*
93866048 GCAGCAGAGAGGGAGGCAGCA
1 GCAGCAGAGAGAGAGGCAGCA
*
93866069 GCAGCAGCGAGAGAGGCAG
1 GCAGCAGAGAGAGAGGCAG
93866088 AGGCACGAGC
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:0.33, C:0.20, G:0.47, T:0.00
Consensus pattern (21 bp):
GCAGCAGAGAGAGAGGCAGCA
Found at i:93866403 original size:31 final size:31
Alignment explanation
Indices: 93866335--93866413 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
93866325 AATTAATGTT
* * *
93866335 TTTGGTTGTATTTTTTATGCTAAATTTGCTGTT
1 TTTGGTTGTA--TTTTATACTAAATTTACTGTA
* *
93866368 TTTGGTTGTATTTTATACTATATTTATTGTA
1 TTTGGTTGTATTTTATACTAAATTTACTGTA
93866399 TTTGGTTAG-ATTTTA
1 TTTGGTT-GTATTTTA
93866414 ATGCAGGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 29 0.73
32 1 0.03
33 10 0.25
ACGTcount: A:0.19, C:0.04, G:0.16, T:0.61
Consensus pattern (31 bp):
TTTGGTTGTATTTTATACTAAATTTACTGTA
Found at i:93871561 original size:41 final size:41
Alignment explanation
Indices: 93871504--93871584 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
93871494 TTGTATAAAA
93871504 CTCAAGTTGTGATCTATTAGCCGATGATCACCTTCTTTAAT
1 CTCAAGTTGTGATCTATTAGCCGATGATCACCTTCTTTAAT
93871545 CTCAAGTTGTGATCTATTAGCCGATGATCACCTTCTTTAA
1 CTCAAGTTGTGATCTATTAGCCGATGATCACCTTCTTTAA
93871585 GATTAGTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (41 bp):
CTCAAGTTGTGATCTATTAGCCGATGATCACCTTCTTTAAT
Found at i:93871702 original size:17 final size:17
Alignment explanation
Indices: 93871676--93871711 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93871666 GATGTGAGTG
*
93871676 AAAAAAATTTATATAAT
1 AAAAAAATTTATAAAAT
*
93871693 AAAAATATTTATAAAAT
1 AAAAAAATTTATAAAAT
93871710 AA
1 AA
93871712 TTGAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAAATTTATAAAAT
Found at i:93872380 original size:16 final size:16
Alignment explanation
Indices: 93872355--93872413 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
93872345 TAATTGTATA
93872355 TATA-AATTTTGATTT
1 TATACAATTTTGATTT
93872370 TATACAATTTT--TTT
1 TATACAATTTTGATTT
* *
93872384 CATAAAATTTTGATTT
1 TATACAATTTTGATTT
* *
93872400 GATTCAATTTTGAT
1 TATACAATTTTGAT
93872414 AAATTATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.33
15 4 0.11
16 20 0.56
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (16 bp):
TATACAATTTTGATTT
Found at i:93872559 original size:31 final size:28
Alignment explanation
Indices: 93872518--93872591 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 28
93872508 ATAATGATTA
93872518 AACCAAAATTAAAGTTTCAAGTATATAATT
1 AACC-AAATTAAA-TTTCAAGTATATAATT
* *
93872548 GAACCATAATTAGAATTTCACGTTTATAATT
1 -AACCA-AATTA-AATTTCAAGTATATAATT
93872579 ACACCAAATTAAA
1 A-ACCAAATTAAA
93872592 ATTTATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 2 0.05
30 7 0.18
31 27 0.71
32 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (28 bp):
AACCAAATTAAATTTCAAGTATATAATT
Found at i:93874639 original size:28 final size:28
Alignment explanation
Indices: 93874565--93874660 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
93874555 CAAAAATATA
* *
93874565 AAACCCTAAAC-C-TAAACGTCGAACTC
1 AAACCCTAAACTCTTAAACCTTGAACTC
* * * *
93874591 ATAATCCAAAACCCTTGAACCTTGAACTC
1 A-AACCCTAAACTCTTAAACCTTGAACTC
* * *
93874620 AAACCCTAAACTCTTAAACCATAAACTT
1 AAACCCTAAACTCTTAAACCTTGAACTC
*
93874648 GAACCCTAAACTC
1 AAACCCTAAACTC
93874661 CAAATTCATG
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 33 0.61
29 12 0.22
ACGTcount: A:0.42, C:0.32, G:0.05, T:0.21
Consensus pattern (28 bp):
AAACCCTAAACTCTTAAACCTTGAACTC
Found at i:93874686 original size:7 final size:7
Alignment explanation
Indices: 93874674--93874784 Score: 72
Period size: 7 Copynumber: 16.1 Consensus size: 7
93874664 ATTCATGAGC
93874674 CCTAAAT
1 CCTAAAT
93874681 CCTAAAT
1 CCTAAAT
*
93874688 CTTAAA-
1 CCTAAAT
*
93874694 CCTTAAT
1 CCTAAAT
93874701 CCTTAAAT
1 CC-TAAAT
93874709 -CTCAAAT
1 CCT-AAAT
*
93874716 -CTAAAC
1 CCTAAAT
*
93874722 CCTAAAC
1 CCTAAAT
*
93874729 CCTAAAC
1 CCTAAAT
93874736 CCTAAAT
1 CCTAAAT
*
93874743 CTTAAA-
1 CCTAAAT
*
93874749 CCTTAAT
1 CCTAAAT
93874756 CCTTAAAT
1 CC-TAAAT
93874764 -CTCAAAT
1 CCT-AAAT
*
93874771 -CTAAAC
1 CCTAAAT
93874777 CCTAAAT
1 CCTAAAT
93874784 C
1 C
93874785 TCGGGGTTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
6 16 0.19
7 60 0.71
8 8 0.10
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.29
Consensus pattern (7 bp):
CCTAAAT
Found at i:93874740 original size:55 final size:55
Alignment explanation
Indices: 93874673--93874782 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
93874663 AATTCATGAG
*
93874673 CCCTAAATCCTAAATCTTAAACCTTAATCCTTAAATCTCAAATCTAAACCCTAAA
1 CCCTAAACCCTAAATCTTAAACCTTAATCCTTAAATCTCAAATCTAAACCCTAAA
93874728 CCCTAAACCCTAAATCTTAAACCTTAATCCTTAAATCTCAAATCTAAACCCTAAA
1 CCCTAAACCCTAAATCTTAAACCTTAATCCTTAAATCTCAAATCTAAACCCTAAA
93874783 TCTCGGGGTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (55 bp):
CCCTAAACCCTAAATCTTAAACCTTAATCCTTAAATCTCAAATCTAAACCCTAAA
Found at i:93874824 original size:47 final size:47
Alignment explanation
Indices: 93874764--93874857 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
93874754 ATCCTTAAAT
* *
93874764 CTCAAATCTAAACCCTAAATCTCGGGGTTTAATGTTTAAGGTTCAAG
1 CTCAAATCCAAACCCTAAATCTCGGGATTTAATGTTTAAGGTTCAAG
93874811 CTCAAATCCAAACCCTAAATCTCGGGATTTAATGTTTAAGGTTCAAG
1 CTCAAATCCAAACCCTAAATCTCGGGATTTAATGTTTAAGGTTCAAG
93874858 GTAAAACAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (47 bp):
CTCAAATCCAAACCCTAAATCTCGGGATTTAATGTTTAAGGTTCAAG
Found at i:93875005 original size:17 final size:18
Alignment explanation
Indices: 93874983--93875016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93874973 TTATTTATAA
93874983 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
93875000 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
93875017 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:93877486 original size:15 final size:15
Alignment explanation
Indices: 93877437--93877488 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
93877427 TAACTCAATG
*
93877437 TAAAATATTTT-ATT
1 TAAAATATTTTAATA
*
93877451 TCAAAATATAATTTAAAA
1 T-AAAATAT--TTTAATA
93877469 TAAAATATTTTAATA
1 TAAAATATTTTAATA
93877484 TAAAA
1 TAAAA
93877489 ATAATTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
17 10 0.32
18 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATATTTTAATA
Found at i:93897049 original size:18 final size:20
Alignment explanation
Indices: 93897026--93897077 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 20
93897016 TCCTTTTTAT
93897026 ATTTAAATATCTA-TATA-A
1 ATTTAAATATCTATTATATA
93897044 ATTTAAA-A-CTATTATATA
1 ATTTAAATATCTATTATATA
*
93897062 A-TTAAATATTTATTAT
1 ATTTAAATATCTATTAT
93897078 TTCACTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 10 0.34
19 6 0.21
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAATATCTATTATATA
Found at i:93901980 original size:29 final size:30
Alignment explanation
Indices: 93901942--93901998 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
93901932 ATTTTGTACA
*
93901942 TATATATTTTGAATTTTTTAAA-ATTTTATT
1 TATATATTTT-AATTTTTAAAATATTTTATT
*
93901972 TATA-ATTTTTATTTTTAAAATATTTTA
1 TATATATTTTAATTTTTAAAATATTTTA
93901999 ACCTAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 11 0.46
30 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TATATATTTTAATTTTTAAAATATTTTATT
Found at i:93906049 original size:50 final size:50
Alignment explanation
Indices: 93905969--93906065 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
93905959 ATTAGCACTG
** * *
93905969 AGAACGTAGCACTTTAATGTTGGGTGTAAATCATCAAATAGTTTCCCTTA
1 AGAACGTAGCACTTTAACATTGGATATAAATCATCAAATAGTTTCCCTTA
* * *
93906019 AGAACGTAGCACTTTAGCATTGGATATAAATTATTAAATAGTTTCCC
1 AGAACGTAGCACTTTAACATTGGATATAAATCATCAAATAGTTTCCC
93906066 CAGAGCATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (50 bp):
AGAACGTAGCACTTTAACATTGGATATAAATCATCAAATAGTTTCCCTTA
Found at i:93907424 original size:13 final size:13
Alignment explanation
Indices: 93907390--93907425 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
93907380 AACATTTTTA
93907390 AGATTTTTTTTCT
1 AGATTTTTTTTCT
**
93907403 AGAACTTTTTTCT
1 AGATTTTTTTTCT
93907416 AGATTTTTTT
1 AGATTTTTTT
93907426 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (13 bp):
AGATTTTTTTTCT
Found at i:93913736 original size:17 final size:17
Alignment explanation
Indices: 93913707--93913739 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
93913697 ATATATTGTT
93913707 ATTTATAAATAAATTTG
1 ATTTATAAATAAATTTG
93913724 ATTTA-AAATTAAATTT
1 ATTTATAAA-TAAATTT
93913740 TTTTGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
ATTTATAAATAAATTTG
Found at i:93917235 original size:21 final size:21
Alignment explanation
Indices: 93917209--93917249 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93917199 ATCTGCTCAA
* *
93917209 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
93917230 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
93917250 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:93920333 original size:48 final size:48
Alignment explanation
Indices: 93920262--93920495 Score: 265
Period size: 48 Copynumber: 4.8 Consensus size: 48
93920252 TCGGAATCTT
* * *
93920262 AGCCTCCCGTCTACCCCAGTCCTCCCATTGTGAAGCCGCC-ACTTCCAA
1 AGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAAC-TCCAA
* ** **
93920310 AGCCTCCTGTATACCCAAGTCCTCCTATTACGAAGCCGCCAGTTCCAA
1 AGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACTCCAA
* *
93920358 AGCCTCCTGTAAACCCAAGTCCTCCCATTGTGAAGCCGCCAACACCAA
1 AGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACTCCAA
** *
93920406 CCCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCAACGCCAACGCCAA
1 AGCCTCCTGTATACCCAAGTCCTCCCATTGTGAA---GC--CGCCAACTCCAA
*
93920459 CGCCTCCTGTATACCCAAGTCCT-CCAGTTGTGAAGCC
1 AGCCTCCTGTATACCCAAGTCCTCCCA-TTGTGAAGCC
93920496 ACCTCCAGTG
Statistics
Matches: 159, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
48 112 0.70
50 2 0.01
51 2 0.01
52 3 0.02
53 40 0.25
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (48 bp):
AGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACTCCAA
Found at i:93926016 original size:31 final size:32
Alignment explanation
Indices: 93925972--93926031 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
93925962 TTTCACTCTT
* *
93925972 TTTTTAAAAAAATTGATAGTCAAATTTAAATC
1 TTTTTAAAAAAATTGAGAGTAAAATTTAAATC
93926004 TTTTT-AAAAAATTGAGAGTAAAATTTAA
1 TTTTTAAAAAAATTGAGAGTAAAATTTAA
93926032 CTAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.40
Consensus pattern (32 bp):
TTTTTAAAAAAATTGAGAGTAAAATTTAAATC
Found at i:93938657 original size:19 final size:20
Alignment explanation
Indices: 93938633--93938671 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
93938623 AAAAATTACA
93938633 AAAAAATT-AAAATAATTTT
1 AAAAAATTCAAAATAATTTT
93938652 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
93938672 TAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:93940123 original size:29 final size:28
Alignment explanation
Indices: 93940064--93940132 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
93940054 TAAATCTTAA
* *
93940064 AATTATATATGAACTTTTATTTAATGTGC
1 AATTATACATGAACTTTAATTTAA-GTGC
*
93940093 AATCGTATACATGAACTTTAATTTGA-TGC
1 AAT--TATACATGAACTTTAATTTAAGTGC
93940122 AATTATACATG
1 AATTATACATG
93940133 TGAATTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 8 0.23
29 9 0.26
31 18 0.51
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (28 bp):
AATTATACATGAACTTTAATTTAAGTGC
Found at i:93950691 original size:20 final size:21
Alignment explanation
Indices: 93950657--93950710 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
93950647 TGATGATATT
93950657 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATTAGATA
93950678 -TATATTATTTTAATTAGATA
1 TTATATTATTTTAATTAGATA
*
93950698 TTTTATTATTTTA
1 TTATATTATTTTA
93950711 TTATTATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 15 0.50
21 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATATTATTTTAATTAGATA
Found at i:93950713 original size:20 final size:20
Alignment explanation
Indices: 93950662--93950726 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
93950652 ATATTTTATG
* *
93950662 ATTATTTAATTAGATA-TAT
1 ATTATTTTATTAGATATTTT
93950681 ATTATTTTAATTAGATATTTT
1 ATTATTTT-ATTAGATATTTT
* *
93950702 ATTATTTTATTA-TTATTTC
1 ATTATTTTATTAGATATTTT
93950721 ATTATT
1 ATTATT
93950727 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.45
20 12 0.30
21 10 0.25
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTATTTTATTAGATATTTT
Found at i:93950714 original size:3 final size:3
Alignment explanation
Indices: 93950696--93950744 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
93950686 TTTAATTAGA
*
93950696 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
93950741 TAT T
1 TAT T
93950745 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:93950716 original size:11 final size:11
Alignment explanation
Indices: 93950700--93950738 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
93950690 ATTAGATATT
93950700 TTATTATTTTA
1 TTATTATTTTA
*
93950711 TTATTATTTCA
1 TTATTATTTTA
93950722 TTATTATTTTA
1 TTATTATTTTA
93950733 TTATTA
1 TTATTA
93950739 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:93952922 original size:23 final size:23
Alignment explanation
Indices: 93952892--93953021 Score: 102
Period size: 23 Copynumber: 5.5 Consensus size: 23
93952882 CCCAATATAT
93952892 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
93952915 GGCTCTTTGTGAGCCTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
** *
93952938 GTGCTCGCT-TGAACTTCCCGATATA
1 G-GCTCTTTGTGAGCTTCCCG--ATA
* ***
93952963 TGGCT-ATCCAGAGCTTCCCGATA
1 -GGCTCTTTGTGAGCTTCCCGATA
**
93952986 GGCTCTTCATGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
93953009 TGGTTCTTTGTGA
1 -GGCTCTTTGTGA
93953022 ACTACCTGAT
Statistics
Matches: 84, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
22 4 0.05
23 50 0.60
24 14 0.17
25 15 0.18
26 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCCGATA
Found at i:93954977 original size:21 final size:21
Alignment explanation
Indices: 93954948--93954990 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93954938 TTTGAAACCC
* *
93954948 TTTTGTCCCTTTTTATTTTCT
1 TTTTATCCCTTTCTATTTTCT
93954969 TTTTATCCCTTTCTATTTTCT
1 TTTTATCCCTTTCTATTTTCT
93954990 T
1 T
93954991 AGGTTGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATCCCTTTCTATTTTCT
Found at i:93956568 original size:51 final size:51
Alignment explanation
Indices: 93956508--93956609 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
93956498 CTTCCTACTA
93956508 CCAAAGAATAGAAATCCTTTCTCATATGCTAACTTTCTTTTGTTTTGGGAC
1 CCAAAGAATAGAAATCCTTTCTCATATGCTAACTTTCTTTTGTTTTGGGAC
93956559 CCAAAGAATAGAAATCCTTTCTCATATGCTAACTTTCTTTTGTTTTGGGAC
1 CCAAAGAATAGAAATCCTTTCTCATATGCTAACTTTCTTTTGTTTTGGGAC
93956610 AGTTCTCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (51 bp):
CCAAAGAATAGAAATCCTTTCTCATATGCTAACTTTCTTTTGTTTTGGGAC
Found at i:93964468 original size:28 final size:29
Alignment explanation
Indices: 93964434--93964502 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
93964424 TAACTTTGAT
93964434 TTATTTATATATAT-TTAAATAAATAT-A
1 TTATTTATATATATATTAAATAAATATAA
*
93964461 TTAATTTAT-TTTATATTAAATAAATATAA
1 TT-ATTTATATATATATTAAATAAATATAA
*
93964490 TTATTTCTATATA
1 TTATTTATATATA
93964503 CAATATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 6 0.17
28 23 0.66
29 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATTTATATATATATTAAATAAATATAA
Found at i:93964480 original size:24 final size:24
Alignment explanation
Indices: 93964452--93964511 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
93964442 ATATATTTAA
93964452 ATAAATATAT-TAATTTATTT-TAT
1 ATAAATATATATAA-TTATTTCTAT
*
93964475 ATTAAATAAATATAATTATTTCTAT
1 A-TAAATATATATAATTATTTCTAT
93964500 ATACAATATATA
1 ATA-AATATATA
93964512 AACATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 16 0.52
25 14 0.45
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAAATATATATAATTATTTCTAT
Found at i:93969786 original size:19 final size:20
Alignment explanation
Indices: 93969749--93969789 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
93969739 TACTACATAA
*
93969749 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
93969769 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
93969788 TT
1 TT
93969790 ACCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:93970827 original size:18 final size:15
Alignment explanation
Indices: 93970784--93970826 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
93970774 TGAACCCACT
93970784 ACATAATAATAATTA
1 ACATAATAATAATTA
*
93970799 ACATATTAATAATTA
1 ACATAATAATAATTA
93970814 ACATGAA-AATAAT
1 ACAT-AATAATAAT
93970827 ATAATTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
ACATAATAATAATTA
Found at i:93976846 original size:29 final size:29
Alignment explanation
Indices: 93976764--93976847 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
93976754 TATTAGTAGT
*
93976764 TGAACTTAAATTTTAAAATCTGAAAAGTAAA
1 TGAA-TTAAATTTTAAAATCT-TAAAGTAAA
* * *
93976795 TGAATTCAATTAATAAAA-ATTAAAGTATAA
1 TGAATTAAATT-TTAAAATCTTAAAGTA-AA
93976825 TG-ATTAAATTTTAAAATCTTAAA
1 TGAATTAAATTTTAAAATCTTAAA
93976848 AAATACAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
28 5 0.12
29 18 0.42
30 11 0.26
31 9 0.21
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (29 bp):
TGAATTAAATTTTAAAATCTTAAAGTAAA
Found at i:93989083 original size:55 final size:54
Alignment explanation
Indices: 93988959--93989155 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
93988949 TTGGTAAGAT
* * *
93988959 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * *
93989013 AAGGAAATCATGTAAGAACATGTCAAGACATGGCATTGATGAGTTACTATAAGGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAA-GGC
* * *
93989069 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
** *
93989121 AAGGATACCACATAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
93989156 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 6 0.05
53 29 0.24
54 41 0.34
55 39 0.32
56 6 0.05
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:93989185 original size:108 final size:109
Alignment explanation
Indices: 93988967--93989190 Score: 292
Period size: 108 Copynumber: 2.1 Consensus size: 109
93988957 ATAAGGATAT
* **
93988967 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGAAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGAAC
* * * *
93989032 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGGAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACTAAAAGGAAAAGGTCC
* * * *
93989076 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACATAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGAAC
*
93989140 ATGTCAAGACATGGCAATGGTAAGTT-C-AGAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGCAATGATAAGTTACTA-AAAGGAAAAGG-TCC
*
93989184 CAAGTAA
1 CATGTAA
93989191 TCCAAAGAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
106 1 0.01
107 10 0.10
108 53 0.53
109 36 0.36
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGAAC
ATGTCAAGACATGGCAATGATAAGTTACTAAAAGGAAAAGGTCC
Found at i:93997809 original size:23 final size:23
Alignment explanation
Indices: 93997776--93997822 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
93997766 AAAGGTACAA
93997776 GGGCCAACCAATCTTTAGAACTT
1 GGGCCAACCAATCTTTAGAACTT
*
93997799 GGGCCATCCAATCTTTAGAACTT
1 GGGCCAACCAATCTTTAGAACTT
93997822 G
1 G
93997823 TGCAAACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (23 bp):
GGGCCAACCAATCTTTAGAACTT
Found at i:94004396 original size:29 final size:29
Alignment explanation
Indices: 94004354--94004412 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
94004344 TATAAATAAG
94004354 CGCTTCTCGGGAGGCAACCTGAGCACTAA
1 CGCTTCTCGGGAGGCAACCTGAGCACTAA
94004383 CGCTTCTCGGGAGGCAACCTGAGCACTAA
1 CGCTTCTCGGGAGGCAACCTGAGCACTAA
94004412 C
1 C
94004413 ATATTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (29 bp):
CGCTTCTCGGGAGGCAACCTGAGCACTAA
Found at i:94005034 original size:17 final size:17
Alignment explanation
Indices: 94005012--94005051 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
94005002 TCCTTTATTA
94005012 CGTTTTTAAAATTCATT
1 CGTTTTTAAAATTCATT
*
94005029 CGTTTTTAAGATTCATT
1 CGTTTTTAAAATTCATT
*
94005046 TGTTTT
1 CGTTTT
94005052 CCTTTTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (17 bp):
CGTTTTTAAAATTCATT
Found at i:94006619 original size:12 final size:12
Alignment explanation
Indices: 94006602--94006626 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94006592 CTTAATCCTG
94006602 TTATTACTAAAT
1 TTATTACTAAAT
94006614 TTATTACTAAAT
1 TTATTACTAAAT
94006626 T
1 T
94006627 ATACATATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTACTAAAT
Found at i:94007546 original size:13 final size:14
Alignment explanation
Indices: 94007523--94007552 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
94007513 TTTAAAAGAA
94007523 AAAGAAAAAGAAAG
1 AAAGAAAAAGAAAG
94007537 AAAG-AAAAGAAAG
1 AAAGAAAAAGAAAG
94007550 AAA
1 AAA
94007553 TATAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:94010734 original size:9 final size:9
Alignment explanation
Indices: 94010720--94010764 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
94010710 GGTATATGCA
94010720 AATTTTGTG
1 AATTTTGTG
94010729 AATTTTGTG
1 AATTTTGTG
94010738 -ATTTTGTG
1 AATTTTGTG
94010746 AATTTTGTG
1 AATTTTGTG
94010755 -ATTTTGTG
1 AATTTTGTG
94010763 AA
1 AA
94010765 ATAGGGACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.47
9 18 0.53
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
AATTTTGTG
Found at i:94010743 original size:8 final size:8
Alignment explanation
Indices: 94010721--94010763 Score: 68
Period size: 8 Copynumber: 5.1 Consensus size: 8
94010711 GTATATGCAA
94010721 ATTTTGTG
1 ATTTTGTG
94010729 AATTTTGTG
1 -ATTTTGTG
94010738 ATTTTGTG
1 ATTTTGTG
94010746 AATTTTGTG
1 -ATTTTGTG
94010755 ATTTTGTG
1 ATTTTGTG
94010763 A
1 A
94010764 AATAGGGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 17 0.52
9 16 0.48
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (8 bp):
ATTTTGTG
Found at i:94010743 original size:17 final size:17
Alignment explanation
Indices: 94010721--94010764 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
94010711 GTATATGCAA
94010721 ATTTTGTGAATTTTGTG
1 ATTTTGTGAATTTTGTG
94010738 ATTTTGTGAATTTTGTG
1 ATTTTGTGAATTTTGTG
94010755 ATTTTGTGAA
1 ATTTTGTGAA
94010765 ATAGGGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (17 bp):
ATTTTGTGAATTTTGTG
Found at i:94014070 original size:17 final size:18
Alignment explanation
Indices: 94014048--94014083 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
94014038 GATATGATAC
94014048 TAAAAT-TATAAAAAAAT
1 TAAAATATATAAAAAAAT
94014065 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
94014083 T
1 T
94014084 CGGGAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:94014371 original size:22 final size:21
Alignment explanation
Indices: 94014336--94014428 Score: 70
Period size: 18 Copynumber: 4.6 Consensus size: 21
94014326 AAAAGGTATC
* *
94014336 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
94014357 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
94014380 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
94014399 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
94014417 TGCATATCATAT
1 TACAAATCATAT
94014429 ATATGATTGC
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 3 0.05
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:94014379 original size:23 final size:22
Alignment explanation
Indices: 94014336--94014393 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
94014326 AAAAGGTATC
* *
94014336 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
94014357 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
94014380 TGCATATCATATCT
1 TACAAATCATATCT
94014394 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:94014418 original size:37 final size:38
Alignment explanation
Indices: 94014365--94014445 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 38
94014355 ATTACAAAAT
*
94014365 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATATAAGATTG
*
94014401 CA-ATCATATCTAAGATTGCATATCATATATATGATTG
1 CATATCATATCTAAGATTGCATATCATATATAAGATTG
94014438 CATATCAT
1 CATATCAT
94014446 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 3 0.08
36 3 0.08
37 29 0.73
38 5 0.12
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATATAAGATTG
Found at i:94014432 original size:23 final size:19
Alignment explanation
Indices: 94014372--94014445 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
94014362 AATCATATCT
94014372 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
94014391 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
94014409 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
94014428 TATATGATTGCATATCAT
1 TCTAAGATTGCATATCAT
94014446 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.35
19 34 0.65
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:94014602 original size:21 final size:20
Alignment explanation
Indices: 94014564--94014603 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94014554 TTGGACTTCG
**
94014564 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
94014584 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
94014604 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:94015151 original size:82 final size:82
Alignment explanation
Indices: 94015041--94015566 Score: 914
Period size: 82 Copynumber: 6.4 Consensus size: 82
94015031 CTGCAAATTT
94015041 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
94015106 GGGAGATAAGATCTGCG
66 GGGAGATAAGATCTGCG
94015123 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
94015188 GGGAGATAAGATCTGCG
66 GGGAGATAAGATCTGCG
94015205 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
94015270 GGGAGATAAGATCTGCG
66 GGGAGATAAGATCTGCG
94015287 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
94015352 GGGAGATAAGATCTGCG
66 GGGAGATAAGATCTGCG
94015369 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
94015434 GGGAGATAAGATCTGCG
66 GGGAGATAAGATCTGCG
* * * * *
94015451 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTACTTA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
**
94015513 GGGAGATAAGATCTGTAAATTT
66 GGGAGATAAGATCTG-----CG
*
94015535 AACCTGTTACCCTACTACTTAGGGGATTAAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGG
94015567 CGCTGAATTT
Statistics
Matches: 431, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
79 34 0.08
81 1 0.00
82 365 0.85
84 31 0.07
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (82 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCGTCGTCGATCTGTTTCGCTACTGCTTA
GGGAGATAAGATCTGCG
Found at i:94016529 original size:7 final size:7
Alignment explanation
Indices: 94016517--94016571 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
94016507 GCCTCTCCAT
94016517 TTTTTTC
1 TTTTTTC
94016524 TTTTTTC
1 TTTTTTC
94016531 TTTTTAT-
1 TTTTT-TC
94016538 TTTTTTC
1 TTTTTTC
*
94016545 TCTTTTGC
1 T-TTTTTC
94016553 --TTTTC
1 TTTTTTC
94016558 TTTTTTCC
1 TTTTTT-C
94016566 TTTTTT
1 TTTTTT
94016572 TTTGAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
5 4 0.10
6 1 0.03
7 22 0.55
8 13 0.32
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:94016539 original size:21 final size:20
Alignment explanation
Indices: 94016515--94016571 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
94016505 TGGCCTCTCC
94016515 ATTTTTTTCTTTTTTCTTTTT
1 ATTTTTTTCTTTTTTC-TTTT
*
94016536 ATTTTTTTCTCTTTTGCTTTT
1 ATTTTTTTCT-TTTTTCTTTT
* *
94016557 CTTTTTTCCTTTTTT
1 ATTTTTTTCTTTTTT
94016572 TTTGAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.81
Consensus pattern (20 bp):
ATTTTTTTCTTTTTTCTTTT
Found at i:94022278 original size:35 final size:35
Alignment explanation
Indices: 94022220--94023131 Score: 1779
Period size: 35 Copynumber: 26.0 Consensus size: 35
94022210 AATCATATCT
94022220 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
94022257 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022292 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022327 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022362 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022397 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022432 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022467 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022502 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022537 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022572 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022607 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022642 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022677 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022712 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022747 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022782 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022817 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022852 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022887 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022922 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022957 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94022992 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94023027 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
94023062 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
94023097 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
94023132 TGAAGATTAT
Statistics
Matches: 872, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
35 857 0.98
36 5 0.01
37 10 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:94023995 original size:21 final size:21
Alignment explanation
Indices: 94023962--94024001 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94023952 TTAGAGCGGA
*
94023962 GGCAGCAGAGAGGGAGGCAGC
1 GGCAACAGAGAGGGAGGCAGC
*
94023983 GGCAACAGTGAGGGAGGCA
1 GGCAACAGAGAGGGAGGCA
94024002 AAACAGAGCA
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:0.30, C:0.17, G:0.50, T:0.03
Consensus pattern (21 bp):
GGCAACAGAGAGGGAGGCAGC
Found at i:94024271 original size:31 final size:31
Alignment explanation
Indices: 94024235--94024295 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
94024225 TATATTTTTT
*
94024235 ATGCTATATTTGCTATTTTTGGTTGGATTTC
1 ATGCTATATTTGCTATTTTTGGTTGAATTTC
*
94024266 ATGCTATATTTGCTGTTTTTGGTTGAATTT
1 ATGCTATATTTGCTATTTTTGGTTGAATTT
94024296 AATGTAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (31 bp):
ATGCTATATTTGCTATTTTTGGTTGAATTTC
Found at i:94031296 original size:46 final size:46
Alignment explanation
Indices: 94031242--94031553 Score: 335
Period size: 46 Copynumber: 7.0 Consensus size: 46
94031232 GTGTGCTCTC
* *
94031242 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
94031288 TAATATGAAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
94031334 TGATATGAAATGTGTAAGACCATGGTTG--A-A-A--A---C--C-
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
94031368 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** ** * *
94031414 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* **
94031460 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
94031506 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
94031552 TG
1 TG
94031554 TCAAAGATAA
Statistics
Matches: 232, Mismatches: 21, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
34 28 0.12
35 1 0.00
36 1 0.00
37 2 0.01
38 1 0.00
40 2 0.01
42 1 0.00
43 2 0.01
44 1 0.00
45 2 0.01
46 191 0.82
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:94031370 original size:34 final size:34
Alignment explanation
Indices: 94031330--94031398 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
94031320 ATACCATGGC
94031330 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
94031364 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
94031398 A
1 A
94031399 GATACCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (34 bp):
AACCTGATATGAAATGTGTAAGACCATGGTTGAA
Found at i:94031424 original size:80 final size:80
Alignment explanation
Indices: 94031284--94031536 Score: 290
Period size: 80 Copynumber: 3.0 Consensus size: 80
94031274 ATACCATAGC
* * * * * *
94031284 AACCTAATATGAAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
94031349 AAGACCATGGTTGAA
66 AAGACCATGGTTGAA
* *
94031364 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAAT
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
94031429 AAGACCATGGTTGAAA
66 AAGACCATGGTTG-AA
**
94031445 GATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 -A-ACC-T-G-A---T---ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
94031510 AGAAAATGAGTAAGACCATAGTTGAA
55 AGGAAATGAGTAAGACCATGGTTGAA
94031536 A
1 A
94031537 GACACTATGG
Statistics
Matches: 147, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
80 70 0.48
81 2 0.01
82 1 0.01
83 3 0.02
84 1 0.01
85 1 0.01
86 1 0.01
89 1 0.01
90 1 0.01
91 2 0.01
92 64 0.44
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (80 bp):
AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
AAGACCATGGTTGAA
Found at i:94031468 original size:126 final size:126
Alignment explanation
Indices: 94031241--94031490 Score: 374
Period size: 126 Copynumber: 2.0 Consensus size: 126
94031231 AGTGTGCTCT
* * * **
94031241 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTAATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
* **
94031306 ACCAAGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAAC
66 ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAAC
* * *
94031367 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
* * *
94031432 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAA
66 ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAA
94031491 GATACCATGG
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (126 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAAC
Found at i:94031855 original size:16 final size:17
Alignment explanation
Indices: 94031834--94031866 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94031824 ATGATGGTGC
94031834 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
94031850 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
94031867 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:94036426 original size:57 final size:57
Alignment explanation
Indices: 94036335--94036445 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
94036325 TCATCAATTT
* * * *
94036335 TCCTGCTGCTTTCATGCCCTTGCCGCCCAGCCCAAATAAATTTTGGGTCTAATTGCC
1 TCCTGCTGATTTCATGCCCTTACCACCCAACCCAAATAAATTTTGGGTCTAATTGCC
*
94036392 TCCTGCTGATTTCATGCCCTTACCATCCAACCCAAATAAATTTTGGGTCTAATT
1 TCCTGCTGATTTCATGCCCTTACCACCCAACCCAAATAAATTTTGGGTCTAATT
94036446 ATCTTTTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (57 bp):
TCCTGCTGATTTCATGCCCTTACCACCCAACCCAAATAAATTTTGGGTCTAATTGCC
Found at i:94044344 original size:17 final size:17
Alignment explanation
Indices: 94044322--94044360 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
94044312 CTCTACTTTT
94044322 TTCTTTTCTTTGAGTAC
1 TTCTTTTCTTTGAGTAC
94044339 TTCTTTTCTTTGAGTAC
1 TTCTTTTCTTTGAGTAC
94044356 TTCTT
1 TTCTT
94044361 CAGCCTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.18, G:0.10, T:0.62
Consensus pattern (17 bp):
TTCTTTTCTTTGAGTAC
Found at i:94050002 original size:31 final size:31
Alignment explanation
Indices: 94049964--94050025 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
94049954 AAGGTAGGTG
94049964 TAAAATCCATATATGAATACAATGTATATAC
1 TAAAATCCATATATGAATACAATGTATATAC
* *
94049995 TAAAATCCATATATGAATGCACTGTATATAC
1 TAAAATCCATATATGAATACAATGTATATAC
94050026 ACATTGGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (31 bp):
TAAAATCCATATATGAATACAATGTATATAC
Found at i:94050700 original size:17 final size:18
Alignment explanation
Indices: 94050666--94050704 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
94050656 TAAATTTTAA
*
94050666 ATTTACACATTAACTTTG
1 ATTTACACATGAACTTTG
*
94050684 ATTTA-ACATGAATTTTG
1 ATTTACACATGAACTTTG
94050701 ATTT
1 ATTT
94050705 GATGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTTACACATGAACTTTG
Found at i:94051282 original size:11 final size:11
Alignment explanation
Indices: 94051246--94051293 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
94051236 ATTGTGAATA
94051246 AATTATTAATTT
1 AATTATT-ATTT
*
94051258 AATTATAATTT
1 AATTATTATTT
*
94051269 AATTATTATGT
1 AATTATTATTT
*
94051280 AATT-TTTTTT
1 AATTATTATTT
94051290 AATT
1 AATT
94051294 CACACAACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.26
11 17 0.55
12 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
AATTATTATTT
Found at i:94053883 original size:24 final size:24
Alignment explanation
Indices: 94053856--94053903 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94053846 ATACTGAAGT
94053856 AAAATTTTAATTTGCTGATGCAAC
1 AAAATTTTAATTTGCTGATGCAAC
94053880 AAAATTTTAATTTGCTGATGCAAC
1 AAAATTTTAATTTGCTGATGCAAC
94053904 CACAAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
AAAATTTTAATTTGCTGATGCAAC
Found at i:94056311 original size:5 final size:5
Alignment explanation
Indices: 94056303--94056333 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
94056293 TTACTATGAC
94056303 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
94056334 TATGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:94056456 original size:48 final size:48
Alignment explanation
Indices: 94056400--94056496 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
94056390 AGATAAAGAC
*
94056400 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTTTGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
94056448 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
94056496 T
1 T
94056497 TTGAGTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (48 bp):
TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
Found at i:94067578 original size:132 final size:132
Alignment explanation
Indices: 94067336--94067602 Score: 365
Period size: 132 Copynumber: 2.0 Consensus size: 132
94067326 TTGCCTCGCC
* * * *
94067336 TTAGAAAACACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTGCAAC
1 TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * *
94067401 CCAGCACGATAGGGTACGACTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
94067466 TT
131 TT
* * *
94067468 TTAGAAAACATGAGTGAAATTCTAAAAGG-ACATTCGATTATTTTGAGCAAACGAGAGATTGCAA
1 TTAGAAAACACGAGTGAAATT-TAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAA
* * *** * *
94067532 CCTAGCACGATAGGGCACGATTTTGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAA
65 CCCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAA
94067597 TTT
130 TTT
94067600 TTA
1 TTA
94067603 AATGAATAAT
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
132 111 0.95
133 6 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (132 bp):
TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
TT
Found at i:94077515 original size:17 final size:17
Alignment explanation
Indices: 94077493--94077525 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94077483 TTATAAAATG
94077493 ATATCAAATCAAAGTTC
1 ATATCAAATCAAAGTTC
*
94077510 ATATCAGATCAAAGTT
1 ATATCAAATCAAAGTT
94077526 TACATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (17 bp):
ATATCAAATCAAAGTTC
Found at i:94079036 original size:148 final size:148
Alignment explanation
Indices: 94078844--94079133 Score: 463
Period size: 148 Copynumber: 2.0 Consensus size: 148
94078834 GTATTCTTTT
* * *
94078844 AATTGGCCAGGACTATGGATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATGGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* *
94078909 ATTAATTTATAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTT
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
*
94078974 GAAATGTAACTTTCATGA
131 GAAATATAACTTTCATGA
* * * * *
94078992 AATTGGGCAGGACCATGAATGATGTGGTGGAAATAGTCCATAAAATAATTTCTCATAGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* *
94079057 ATTAATTTACAACTATACTTCTAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTC
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
94079122 GAAATATAACTT
131 GAAATATAACTT
94079134 CCATTAAAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
148 129 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (148 bp):
AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAGTTTTAAAACATTC
GAAATATAACTTTCATGA
Found at i:94080453 original size:6 final size:6
Alignment explanation
Indices: 94080442--94080507 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
94080432 ATAAGTCTAA
* * * *
94080442 AAAAAT AAAAAT AAAACAACT AAGAAT AAAAAT AAACAT AAACAT AAACAT
1 AAAAAT AAAAAT -AAA-AA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
94080493 -AAAAT AAAAAG AAAA
1 AAAAAT AAAAAT AAAA
94080508 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.08
6 37 0.73
7 5 0.10
8 4 0.08
9 1 0.02
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:94082593 original size:19 final size:17
Alignment explanation
Indices: 94082547--94082585 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
94082537 AAATTACATC
*
94082547 AAATCAAAATTCATGTT
1 AAATCAAAATTCAAGTT
94082564 AAATCAAAATTCAAGTGT
1 AAATCAAAATTCAAGT-T
94082582 AAAT
1 AAAT
94082586 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (17 bp):
AAATCAAAATTCAAGTT
Found at i:94084032 original size:2 final size:2
Alignment explanation
Indices: 94084025--94084826 Score: 1604
Period size: 2 Copynumber: 401.0 Consensus size: 2
94084015 GCCATCTGTT
94084025 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084067 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084109 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084151 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084193 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084235 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084277 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084319 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084361 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084403 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084445 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084487 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084529 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084571 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084613 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084655 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084697 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084739 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084781 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94084823 CA CA
1 CA CA
94084827 ATATCAATAA
Statistics
Matches: 800, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 800 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:94091491 original size:4 final size:4
Alignment explanation
Indices: 94091475--94091526 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
94091465 TAATTACTTT
*
94091475 TTTA TTT- TTTA TTTA TTT- TTTG TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
94091521 TTTA TT
1 TTTA TT
94091527 ATTATTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
3 6 0.13
4 39 0.87
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:94091512 original size:12 final size:11
Alignment explanation
Indices: 94091475--94091536 Score: 79
Period size: 12 Copynumber: 5.3 Consensus size: 11
94091465 TAATTACTTT
94091475 TTTATTTTTTA
1 TTTATTTTTTA
*
94091486 TTTATTTTTTG
1 TTTATTTTTTA
94091497 TTTATTTATTTA
1 TTTATTT-TTTA
94091509 TTTATTTATTTA
1 TTTATTT-TTTA
94091521 TTTATTATTATTA
1 TTTATT-TT-TTA
94091534 TTT
1 TTT
94091537 TAAAAAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 17 0.37
12 22 0.48
13 7 0.15
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:94092264 original size:21 final size:21
Alignment explanation
Indices: 94092240--94092303 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
94092230 AAGTCTAACT
* *
94092240 AAGCACATAAGTGCTAAAGGG
1 AAGCACACAAGTGCTAAACGG
*
94092261 AAGC-C-CGAAG-GCT-AACTG
1 AAGCACAC-AAGTGCTAAACGG
94092279 AAGCACACAAGTGCTAAACGG
1 AAGCACACAAGTGCTAAACGG
94092300 AAGC
1 AAGC
94092304 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (21 bp):
AAGCACACAAGTGCTAAACGG
Found at i:94092274 original size:19 final size:19
Alignment explanation
Indices: 94092252--94092314 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
94092242 GCACATAAGT
*
94092252 GCTAAAGGGAAGCCCGAAG
1 GCTAAACGGAAGCCCGAAG
*
94092271 GCT-AACTGAAGCACAC-AAG
1 GCTAAACGGAAGC-C-CGAAG
94092290 TGCTAAACGGAAGCCCGAAG
1 -GCTAAACGGAAGCCCGAAG
94092310 GCTAA
1 GCTAA
94092315 CTGAAGCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 7 0.19
19 13 0.36
20 8 0.22
21 8 0.22
ACGTcount: A:0.38, C:0.24, G:0.29, T:0.10
Consensus pattern (19 bp):
GCTAAACGGAAGCCCGAAG
Found at i:94092294 original size:39 final size:39
Alignment explanation
Indices: 94092222--94092321 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
94092212 ATTTTAATCT
* * *
94092222 GAAGCCCGAAGTCTAACT-AAGCACATAAGTGCTAAAGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
94092260 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
94092299 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
94092322 TCATCAGAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
38 17 0.29
39 41 0.71
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:94094682 original size:3 final size:3
Alignment explanation
Indices: 94094674--94094706 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
94094664 ATGTTGCAAA
94094674 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
94094707 GCGCTGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:94097783 original size:25 final size:25
Alignment explanation
Indices: 94097749--94097804 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
94097739 GGGTTTCACA
* *
94097749 AGCTTCTCGACTAA-TGGCTCTCTTG
1 AGCTTCTCGA-TAATTGGCTCGCATG
94097774 AGCTTCTCGATAATTGGCTCGCATG
1 AGCTTCTCGATAATTGGCTCGCATG
94097799 AGCTTC
1 AGCTTC
94097805 CTGATTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCTTCTCGATAATTGGCTCGCATG
Found at i:94100036 original size:5 final size:5
Alignment explanation
Indices: 94100026--94100056 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
94100016 TTATCATACC
94100026 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
94100057 TAGTTTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:94100741 original size:31 final size:31
Alignment explanation
Indices: 94100706--94100774 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
94100696 GGGCGTGTGG
94100706 GCCACA-CGGACGTGTGGACCCACACAAGCAT
1 GCCACATCGGA-GTGTGGACCCACACAAGCAT
* *
94100737 GCCACATGGGAGTGTGGACCCACACAGGCAT
1 GCCACATCGGAGTGTGGACCCACACAAGCAT
94100768 GCCACAT
1 GCCACAT
94100775 GGGCGTGCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.28, T:0.12
Consensus pattern (31 bp):
GCCACATCGGAGTGTGGACCCACACAAGCAT
Found at i:94100775 original size:31 final size:31
Alignment explanation
Indices: 94100717--94100777 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
94100707 CCACACGGAC
94100717 GTGTGGACCCACACAAGCATGCCACATGGGA
1 GTGTGGACCCACACAAGCATGCCACATGGGA
*
94100748 GTGTGGACCCACACAGGCATGCCACATGGG
1 GTGTGGACCCACACAAGCATGCCACATGGG
94100778 CGTGCGGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.31, T:0.13
Consensus pattern (31 bp):
GTGTGGACCCACACAAGCATGCCACATGGGA
Found at i:94104333 original size:9 final size:9
Alignment explanation
Indices: 94104319--94104355 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
94104309 TATAGTTTGA
94104319 TATTCGAAT
1 TATTCGAAT
94104328 TATTCGAAT
1 TATTCGAAT
94104337 TATTC-AAGT
1 TATTCGAA-T
94104346 TATTCGAAT
1 TATTCGAAT
94104355 T
1 T
94104356 GGAGAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:94104429 original size:18 final size:18
Alignment explanation
Indices: 94104406--94104440 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94104396 ATTCTAGTTG
94104406 ACTCAAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
94104424 ACTCAAATAACTTGATT
1 ACTCAAATAACTCGATT
94104441 CGTTTAACTC
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:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:94104793 original size:20 final size:18
Alignment explanation
Indices: 94104768--94104811 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
94104758 CGGGCTGAGG
94104768 ACACGGGCGTGTCCAGATCC
1 ACACGGGCGTGT-CAGA-CC
* *
94104788 ACACGGGTGTGTGAGACC
1 ACACGGGCGTGTCAGACC
94104806 ACACGG
1 ACACGG
94104812 CCTACCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.14
Consensus pattern (18 bp):
ACACGGGCGTGTCAGACC
Found at i:94105132 original size:21 final size:22
Alignment explanation
Indices: 94105072--94105132 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
94105062 GGTGTTACAG
* *
94105072 TTTAGGGTTTAGATATTTATGAT
1 TTTAGGGTTTAGGT-TTTAGGAT
*
94105095 TTTAGTG-TTAGAG-TTTAGGA-
1 TTTAGGGTTTAG-GTTTTAGGAT
94105115 TTTAGGGTTTAGGTTTTA
1 TTTAGGGTTTAGGTTTTA
94105133 AGGCTAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 4 0.13
23 6 0.19
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
TTTAGGGTTTAGGTTTTAGGAT
Found at i:94105178 original size:7 final size:7
Alignment explanation
Indices: 94105157--94105342 Score: 69
Period size: 7 Copynumber: 26.7 Consensus size: 7
94105147 GTGATAATAT
94105157 TTTAA-G
1 TTTAAGG
*
94105163 TTTAGGG
1 TTTAAGG
94105170 TTTAAGG
1 TTTAAGG
94105177 TTTAAGG
1 TTTAAGG
94105184 TTT-AGG
1 TTTAAGG
* *
94105190 ATTAGGG
1 TTTAAGG
* *
94105197 TTTATGAT
1 TTTAAG-G
*
94105205 TTTATAGT
1 TTTA-AGG
**
94105213 TTTATAAT
1 TTTA-AGG
*
94105221 TTTATGG
1 TTTAAGG
94105228 TTT-AGTG
1 TTTAAG-G
*
94105235 TTTAGGG
1 TTTAAGG
*
94105242 TTTATGG
1 TTTAAGG
94105249 TTT-AGG
1 TTTAAGG
94105255 TTTAA-G
1 TTTAAGG
*
94105261 TTTAGGG
1 TTTAAGG
*
94105268 TTTAATG
1 TTTAAGG
*
94105275 TTTTAGG
1 TTTAAGG
* *
94105282 TTGATGG
1 TTTAAGG
*
94105289 TTTAGGG
1 TTTAAGG
*
94105296 TTT-ATG
1 TTTAAGG
* *
94105302 TTTTATG
1 TTTAAGG
*
94105309 TTTATGG
1 TTTAAGG
*
94105316 TTTAGAGT
1 TTTA-AGG
*
94105324 TTTAGGG
1 TTTAAGG
*
94105331 TTTAGGG
1 TTTAAGG
94105338 TTTAA
1 TTTAA
94105343 AGTTAAATAA
Statistics
Matches: 134, Mismatches: 36, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
6 24 0.18
7 87 0.65
8 22 0.16
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (7 bp):
TTTAAGG
Found at i:94105179 original size:14 final size:14
Alignment explanation
Indices: 94105157--94105342 Score: 98
Period size: 13 Copynumber: 13.4 Consensus size: 14
94105147 GTGATAATAT
94105157 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
94105170 TTTAAGGTTTAAGG
1 TTTAAGGTTTAGGG
*
94105184 TTT-AGGATTAGGG
1 TTTAAGGTTTAGGG
* * * *
94105197 TTTATGATTTTATAGT
1 TTTAAG-GTTTA-GGG
** *
94105213 TTTATAATTTTATGG
1 TTTA-AGGTTTAGGG
94105228 TTT-AGTGTTTAGGG
1 TTTAAG-GTTTAGGG
*
94105242 TTTATGGTTTA-GG
1 TTTAAGGTTTAGGG
94105255 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
*
94105268 TTTAATGTTTTA-GG
1 TTTAA-GGTTTAGGG
* *
94105282 TTGATGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
94105296 TTTATGTTTTA-TG
1 TTTAAGGTTTAGGG
* *
94105309 TTTATGGTTTAGAGT
1 TTTAAGGTTTAG-GG
*
94105324 TTTAGGGTTTAGGG
1 TTTAAGGTTTAGGG
94105338 TTTAA
1 TTTAA
94105343 AGTTAAATAA
Statistics
Matches: 130, Mismatches: 30, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
12 5 0.04
13 46 0.35
14 46 0.35
15 23 0.18
16 10 0.08
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:94105222 original size:16 final size:16
Alignment explanation
Indices: 94105197--94105230 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94105187 AGGATTAGGG
*
94105197 TTTATGATTTTATAGT
1 TTTATAATTTTATAGT
*
94105213 TTTATAATTTTATGGT
1 TTTATAATTTTATAGT
94105229 TT
1 TT
94105231 AGTGTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTATAGT
Found at i:94105277 original size:40 final size:41
Alignment explanation
Indices: 94105221--94105304 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
94105211 GTTTTATAAT
* * *
94105221 TTTATGGTTTAGTG-TTTAGGGTTTATGGTTTA-GGTTTAAG
1 TTTAGGGTTTAATGTTTTA-GGTTGATGGTTTAGGGTTTAAG
*
94105261 TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTATG
1 TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTAAG
94105302 TTT
1 TTT
94105305 TATGTTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 24 0.63
41 14 0.37
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.54
Consensus pattern (41 bp):
TTTAGGGTTTAATGTTTTAGGTTGATGGTTTAGGGTTTAAG
Found at i:94106892 original size:33 final size:32
Alignment explanation
Indices: 94106855--94106933 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
94106845 TGGTCTAACC
* * *
94106855 ATGGTCTTACGTTCACGATGCCATAACCCAGTT
1 ATGGTCTTACATTCA-AATGCCATAACCCAGCT
* * *
94106888 ATGGTCTTTTCATTGAAATGCCATAGCCCAGCT
1 ATGGTC-TTACATTCAAATGCCATAACCCAGCT
94106921 ATGGTCTTACATT
1 ATGGTCTTACATT
94106934 TATCACTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 6 0.16
33 26 0.68
34 6 0.16
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACATTCAAATGCCATAACCCAGCT
Found at i:94109950 original size:18 final size:18
Alignment explanation
Indices: 94109929--94109985 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
94109919 AAAGGGAAAG
94109929 AAAGAAAAGGAGAAAAAA
1 AAAGAAAAGGAGAAAAAA
*
94109947 AAAGAAAAGGA-AAAAGGA
1 AAAGAAAAGGAGAAAA-AA
*
94109965 AAA-AAGAGAGAGAAAAAA
1 AAAGAAAAG-GAGAAAAAA
94109983 AAA
1 AAA
94109986 ACTCCTATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 21 0.64
19 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAAGGAGAAAAAA
Found at i:94109955 original size:23 final size:22
Alignment explanation
Indices: 94109925--94109969 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
94109915 AATAAAAGGG
*
94109925 AAAGAAA-GAAAAGGAGAAAAAA
1 AAAGAAAGGAAAAAG-GAAAAAA
94109947 AAAGAAAAGGAAAAAGGAAAAAA
1 AAAG-AAAGGAAAAAGGAAAAAA
94109970 GAGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAGAAAGGAAAAAGGAAAAAA
Found at i:94109981 original size:34 final size:33
Alignment explanation
Indices: 94109906--94109985 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 33
94109896 AGTAGCTTGG
* *
94109906 GAAAGAAAAAATAAAAGGGAAAGAAAGAAAAGGA
1 GAAA-AAAAAAGAAAAGGAAAAGAAAGAAAAGGA
94109940 GAAAAAAAAAGAAAAGGAAAAAGGAAA-AAAGAGAGA
1 GAAAAAAAAAGAAAAGG-AAAA-GAAAGAAA-AG-GA
94109976 GAAAAAAAAA
1 GAAAAAAAAA
94109986 ACTCCTATGC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
33 12 0.30
34 10 0.25
35 6 0.15
36 12 0.30
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (33 bp):
GAAAAAAAAAGAAAAGGAAAAGAAAGAAAAGGA
Found at i:94111586 original size:23 final size:25
Alignment explanation
Indices: 94111560--94111606 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
94111550 TATCATTCAT
*
94111560 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
94111583 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
94111607 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:94111929 original size:46 final size:47
Alignment explanation
Indices: 94111877--94112094 Score: 320
Period size: 46 Copynumber: 4.7 Consensus size: 47
94111867 TTCCATAGTG
* * *
94111877 TCTTTCAACTATGGTCTTACACATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
** * * *
94111923 TCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
*
94111969 TCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
94112015 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
94112061 TCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAG
94112095 AGAGCACACT
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.03
46 153 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTA
Found at i:94116304 original size:16 final size:16
Alignment explanation
Indices: 94116254--94116304 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
94116244 ATGGAAATAT
*
94116254 AATCTTTAAGTATATGC
1 AATCTTGAAG-ATATGC
94116271 AATCTTAGATATGATATGC
1 AATCTT-GA-A-GATATGC
94116290 AATCTTGAAGATATG
1 AATCTTGAAGATATG
94116305 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (16 bp):
AATCTTGAAGATATGC
Found at i:94116323 original size:22 final size:21
Alignment explanation
Indices: 94116265--94116306 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
94116255 ATCTTTAAGT
94116265 ATATGCAATCTT--AGATATG
1 ATATGCAATCTTGAAGATATG
94116284 ATATGCAATCTTGAAGATATG
1 ATATGCAATCTTGAAGATATG
94116305 AT
1 AT
94116307 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (21 bp):
ATATGCAATCTTGAAGATATG
Found at i:94119224 original size:28 final size:28
Alignment explanation
Indices: 94119193--94119246 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
94119183 GTATGGATTA
94119193 TAATTAGATTATTTGGTAAGAATAAAAT
1 TAATTAGATTATTTGGTAAGAATAAAAT
* * *
94119221 TAATTATATTGTTTGGTAGGAATAAA
1 TAATTAGATTATTTGGTAAGAATAAA
94119247 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.41
Consensus pattern (28 bp):
TAATTAGATTATTTGGTAAGAATAAAAT
Found at i:94122229 original size:212 final size:212
Alignment explanation
Indices: 94121850--94122233 Score: 705
Period size: 212 Copynumber: 1.8 Consensus size: 212
94121840 GTCCAACTAG
*
94121850 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTGAAACTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
* *
94121915 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94121980 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
94122045 TATATATATATATAATC
196 TATATATATATATAATC
* * * *
94122062 ATATTAGTGAAACTGCTAATGCGTACTTCATTCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTGAAACTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
94122127 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94122192 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTT
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTT
94122234 GAAATGTTAC
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
212 165 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (212 bp):
ATATTACTGAAACTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
TATATATATATATAATC
Found at i:94122705 original size:210 final size:210
Alignment explanation
Indices: 94122343--94123223 Score: 1676
Period size: 210 Copynumber: 4.2 Consensus size: 210
94122333 GTCCAACTAG
*
94122343 ATATTACTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
94122408 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94122473 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
94122538 TATATATATATAATC
196 TATATATATATAATC
94122553 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
94122618 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94122683 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
94122748 TATATATATATAATC
196 TATATATATATAATC
94122763 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
* *
94122828 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94122893 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
94122958 TATATATATATAATC
196 TATATATATATAATC
94122973 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
* *
94123038 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATG
66 AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
94123103 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGT-AA
131 AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
94123167 -ATATATATATAATC
196 TATATATATATAATC
* * *
94123181 ATATTAGTGAATCTGCTAATACATACTTCATCCGGATGAAGTA
1 ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTA
94123224 CGTATTAGCA
Statistics
Matches: 665, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
208 54 0.08
209 2 0.00
210 609 0.92
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (210 bp):
ATATTACTAAATCTGCTAATACATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAA
AATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACAACTATTGTAATG
AGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAA
TATATATATATAATC
Found at i:94123397 original size:31 final size:29
Alignment explanation
Indices: 94123328--94123401 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
94123318 AGAAAATAAT
**
94123328 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
94123357 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
94123388 AACAAAAGTGACTA
1 AACATAAGTGACTA
94123402 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:94125458 original size:96 final size:96
Alignment explanation
Indices: 94125290--94125483 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
94125280 TCGCTTCTTT
*
94125290 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
* * * *
94125355 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
* * * * * *
94125386 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTTCGT
1 TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
* *
94125451 ATTTGCTCGATCATTCCCATCGATAACAGAC
66 ATCTGCTCCATCATTCCCATCGATAACAGAC
94125482 TT
1 TT
94125484 CCTCGGACAC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 85 1.00
ACGTcount: A:0.14, C:0.34, G:0.17, T:0.36
Consensus pattern (96 bp):
TTGCTCCACTTAGCCCTCTTGGCTTCGACTTTACCCTTACTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCCATCGATAACAGAC
Found at i:94137308 original size:70 final size:70
Alignment explanation
Indices: 94137226--94137363 Score: 267
Period size: 70 Copynumber: 2.0 Consensus size: 70
94137216 ATATTTGCAC
*
94137226 CTTTTCCCCAAGGTTCGGAAATTAAACTTCTTCCTATTTTCTTATGTTTTATGACATGCTGATCA
1 CTTTTCCCCAAGGTTCAGAAATTAAACTTCTTCCTATTTTCTTATGTTTTATGACATGCTGATCA
94137291 TTTCA
66 TTTCA
94137296 CTTTTCCCCAAGGTTCAGAAATTAAACTTCTTCCTATTTTCTTATGTTTTATGACATGCTGATCA
1 CTTTTCCCCAAGGTTCAGAAATTAAACTTCTTCCTATTTTCTTATGTTTTATGACATGCTGATCA
94137361 TTT
66 TTT
94137364 TTACCTTCTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (70 bp):
CTTTTCCCCAAGGTTCAGAAATTAAACTTCTTCCTATTTTCTTATGTTTTATGACATGCTGATCA
TTTCA
Found at i:94146044 original size:67 final size:67
Alignment explanation
Indices: 94145936--94146793 Score: 1664
Period size: 67 Copynumber: 12.8 Consensus size: 67
94145926 AACACTCAGT
* * * * *
94145936 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146000 GA
66 GA
94146002 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146067 GA
66 GA
94146069 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146134 GA
66 GA
94146136 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146201 GA
66 GA
94146203 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146268 GA
66 GA
94146270 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146335 GA
66 GA
94146337 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146402 GA
66 GA
94146404 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146469 GA
66 GA
94146471 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146536 GA
66 GA
94146538 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146603 GA
66 GA
94146605 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146670 GA
66 GA
94146672 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
94146737 GA
66 GA
94146739 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
94146794 ACACATAGTA
Statistics
Matches: 786, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
66 18 0.02
67 768 0.98
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.29
Consensus pattern (67 bp):
ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
GA
Found at i:94147595 original size:30 final size:30
Alignment explanation
Indices: 94147561--94147621 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94147551 TCCTTAAATC
94147561 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
94147591 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
94147621 A
1 A
94147622 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:94154343 original size:41 final size:41
Alignment explanation
Indices: 94154286--94154366 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
94154276 ATCCTCTCTG
94154286 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTA
1 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTA
* *
94154327 ACCACCACTAGCATTGCCCGTATTTCCAGATGGTCTACCT
1 ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCT
94154367 CGAGCAGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.25, C:0.36, G:0.14, T:0.26
Consensus pattern (41 bp):
ACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTA
Found at i:94158513 original size:79 final size:81
Alignment explanation
Indices: 94158413--94158597 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
94158403 GCTCCTCGTT
* *
94158413 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
94158476 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
94158493 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
94158557 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
94158573 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94158598 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:94158597 original size:40 final size:40
Alignment explanation
Indices: 94158413--94158597 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
94158403 GCTCCTCGTT
* *
94158413 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
94158453 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
94158493 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
94158532 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
94158573 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
94158598 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:94158825 original size:48 final size:48
Alignment explanation
Indices: 94158769--94158863 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
94158759 CAAATCATAA
*
94158769 TTTAAGCTCTTTTACTCAAGAACTTACCTCGGGTGTTGTCGAACGATG
1 TTTAAGCTCTTTTACTCAAGAACTTACCTCGGATGTTGTCGAACGATG
*
94158817 TTTAAGCTCTTTTACTCGAGAACTTACCTCGGATGTTGTCGAACGAT
1 TTTAAGCTCTTTTACTCAAGAACTTACCTCGGATGTTGTCGAACGAT
94158864 TCCGATAGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (48 bp):
TTTAAGCTCTTTTACTCAAGAACTTACCTCGGATGTTGTCGAACGATG
Done.