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 123 of 344
Found at i:41665517 original size:20 final size:20
Alignment explanation
Indices: 41665475--41665517 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
41665465 TTGAAAATTA
* * *
41665475 TAATGTTTGATTTTAATATT
1 TAATATTTGATTTTAAAACT
*
41665495 TAATATTTGTTTTTAAAACT
1 TAATATTTGATTTTAAAACT
41665515 TAA
1 TAA
41665518 AAATATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
TAATATTTGATTTTAAAACT
Found at i:41675470 original size:46 final size:46
Alignment explanation
Indices: 41675420--41675586 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
41675410 TGAGCATCCA
*
41675420 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCG
* * * *
41675466 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAA--A--CGTCCG
* * * *
41675513 AACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-G
* *
41675559 AGCTCGTTGAGTTGAGTCTGAGTTCACT
1 AACTCGTTGAGTTGAGTCCGAGTTCACT
41675587 TAGGGGCGGT
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 53 0.53
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCG
Found at i:41675572 original size:93 final size:93
Alignment explanation
Indices: 41675413--41675583 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
41675403 GGATGGTTGA
*
41675413 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
41675478 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
41675506 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGAG
*
41675570 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
41675584 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41683048 original size:46 final size:46
Alignment explanation
Indices: 41682996--41683118 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 46
41682986 GGTTGAGCAT
* * *
41682996 CCGAACTCGTTGAGTTGAGTCCGATTTCACTCATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGC
* * * *
41683042 CTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGC
* * *
41683088 CCGAGCTTGTTGAGTTGAGTCCGAGCTCACT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT
41683119 TAGGGGCGGG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGC
Found at i:41692314 original size:14 final size:15
Alignment explanation
Indices: 41692295--41692323 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41692285 AGATGCATGG
41692295 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTCTTT
41692309 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
41692324 ATGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:41698606 original size:41 final size:43
Alignment explanation
Indices: 41698557--41698651 Score: 124
Period size: 41 Copynumber: 2.3 Consensus size: 43
41698547 TCAATGTCTC
41698557 TGTCCTAGACAGGGTCTTACA-CAAATCAT-ATAT-GATGCCAA
1 TGTCCTAGACAGGGTCTTACATCAAATC-TCATATCGATGCCAA
* **
41698598 TGTCCTAGACATGGTCTTACATGTAATCTCATATCGATGCCAA
1 TGTCCTAGACAGGGTCTTACATCAAATCTCATATCGATGCCAA
*
41698641 TGTCCCAGACA
1 TGTCCTAGACA
41698652 TTATTTTACA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 21 0.45
42 8 0.17
43 18 0.38
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
TGTCCTAGACAGGGTCTTACATCAAATCTCATATCGATGCCAA
Found at i:41698651 original size:43 final size:43
Alignment explanation
Indices: 41698519--41698652 Score: 121
Period size: 43 Copynumber: 3.2 Consensus size: 43
41698509 CGCGATATCT
* ** * * * **
41698519 CAGATATGGTCTTACATGTTTTCACATATCAATGTCTCTGTCC
1 CAGACATGGTCTTACATGTAATCTCATATCGATGCCAATGTCC
* * **
41698562 TAGACAGGGTCTTACA-CAAATCAT-ATAT-GATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATC-TCATATCGATGCCAATGTCC
*
41698603 TAGACATGGTCTTACATGTAATCTCATATCGATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCTCATATCGATGCCAATGTCC
41698646 CAGACAT
1 CAGACAT
41698653 TATTTTACAC
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
41 25 0.35
42 14 0.20
43 32 0.45
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCTCATATCGATGCCAATGTCC
Found at i:41698677 original size:43 final size:43
Alignment explanation
Indices: 41698557--41698677 Score: 97
Period size: 43 Copynumber: 2.9 Consensus size: 43
41698547 TCAATGTCTC
* * * *
41698557 TGTCCTAGACAGGGTCTTACAC-AAATCAT-ATAT-GATGCCAA
1 TGTCCCAGACATGATCTTACACGAAATC-TCACATCGATGCCAA
* * * * *
41698598 TGTCCTAGACATGGTCTTACATGTAATCTCATATCGATGCCAA
1 TGTCCCAGACATGATCTTACACGAAATCTCACATCGATGCCAA
* *
41698641 TGTCCCAGACATTATTTTACACGAAAT-TACACATCGA
1 TGTCCCAGACATGATCTTACACGAAATCT-CACATCGA
41698678 AAATCCTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 21 0.32
42 9 0.14
43 36 0.55
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
TGTCCCAGACATGATCTTACACGAAATCTCACATCGATGCCAA
Found at i:41700445 original size:9 final size:9
Alignment explanation
Indices: 41700431--41700554 Score: 103
Period size: 9 Copynumber: 14.0 Consensus size: 9
41700421 AACTTTGGAT
41700431 CATAACTTA
1 CATAACTTA
41700440 CATAACTTA
1 CATAACTTA
*
41700449 CATAGCTTA
1 CATAACTTA
41700458 CATAACTTA
1 CATAACTTA
*
41700467 CTTAA--TA
1 CATAACTTA
* *
41700474 CGTAA-ATA
1 CATAACTTA
* * *
41700482 TATATCATA
1 CATAACTTA
41700491 TCATAACTTA
1 -CATAACTTA
41700501 CATAACTTA
1 CATAACTTA
41700510 CATAACTTA
1 CATAACTTA
*
41700519 CATAA-ATA
1 CATAACTTA
* * *
41700527 TATATCATA
1 CATAACTTA
41700536 TCATAACTTA
1 -CATAACTTA
41700546 CATAACTTA
1 CATAACTTA
41700555 ATTATACTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
7 6 0.06
8 9 0.10
9 67 0.71
10 12 0.13
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:41700504 original size:52 final size:45
Alignment explanation
Indices: 41700449--41700554 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
41700439 ACATAACTTA
* * *
41700449 CATAGCTTACATAACTTACTTAA--TACGTAAATATATATCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
41700492 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
41700537 CATAACTTACATAACTTA
1 CATAACTTACATAACTTA
41700555 ATTATACTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 21 0.36
45 37 0.64
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (45 bp):
CATAACTTACATAACTTACATAACTTACATAAATATATATCATAT
Found at i:41706394 original size:27 final size:27
Alignment explanation
Indices: 41706365--41706519 Score: 170
Period size: 27 Copynumber: 5.8 Consensus size: 27
41706355 ACCCTTAGAT
*
41706365 TGTAAAATTACCAAAATACCCTTG-ATT
1 TGTAAAATTACCAAAATACCCTTGTA-G
* *
41706392 TGT-AAATTACCGAAATACCTTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* *
41706418 TGTAAAATTACTAAAATACCATTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* *
41706445 TGTAAAATTACCAAAATAACCTTGTTG
1 TGTAAAATTACCAAAATACCCTTGTAG
* * * *
41706472 TGTAAGATTATCGAAATACCCTTGTGG
1 TGTAAAATTACCAAAATACCCTTGTAG
* *
41706499 TGTAAAATTATCGAAATACCC
1 TGTAAAATTACCAAAATACCC
41706520 CTATAGGGCA
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.19
27 89 0.81
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:41706532 original size:27 final size:27
Alignment explanation
Indices: 41706478--41706533 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
41706468 GTTGTGTAAG
* * *
41706478 ATTATCGAAATACCCTTGTGGTGTAAA
1 ATTATCGAAATACCCCTATGGTGCAAA
41706505 ATTATCGAAATACCCCTATAGG-GCAAA
1 ATTATCGAAATACCCCTAT-GGTGCAAA
41706532 AT
1 AT
41706534 GACTGTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
ATTATCGAAATACCCCTATGGTGCAAA
Found at i:41706533 original size:81 final size:80
Alignment explanation
Indices: 41706368--41706533 Score: 201
Period size: 81 Copynumber: 2.1 Consensus size: 80
41706358 CTTAGATTGT
* *
41706368 AAAATTACCAAAATACCCTTGATTTGTAAATTACCGAAATACCTTTGTAGTGTAAAATTACTAAA
1 AAAATTACCAAAATAACCTTGATTTGTAAATTACCGAAATACCCTTGTAGTGTAAAATTACTAAA
* * * *
41706433 ATACCATTGTAGTGT
66 ATACCACTATAGGGC
* *
41706448 AAAATTACCAAAATAACCTTG-TTGTGTAAGATTATCGAAATACCCTTGTGGTGTAAAATTA-TC
1 AAAATTACCAAAATAACCTTGATT-TGTAA-ATTACCGAAATACCCTTGTAGTGTAAAATTACT-
* *
41706511 GAAATACCCCTATAGGGC
63 AAAATACCACTATAGGGC
41706529 AAAAT
1 AAAAT
41706534 GACTGTTTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.03
80 26 0.36
81 45 0.62
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (80 bp):
AAAATTACCAAAATAACCTTGATTTGTAAATTACCGAAATACCCTTGTAGTGTAAAATTACTAAA
ATACCACTATAGGGC
Found at i:41710648 original size:24 final size:24
Alignment explanation
Indices: 41710614--41710682 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
41710604 TCGTGAACCC
*
41710614 ACTTTTCGGCTTTTTAGCCTTTCG
1 ACTTTTTGGCTTTTTAGCCTTTCG
*
41710638 ACTTTTTGGCTTTTTAGCCTTTTGG
1 ACTTTTTGGCTTTTTAGCC-TTTCG
*
41710663 A-TTTTTGG-TTTTCAGCCTTT
1 ACTTTTTGGCTTTTTAGCCTTT
41710683 GCTATTTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 3 0.07
23 8 0.20
24 25 0.61
25 5 0.12
ACGTcount: A:0.09, C:0.19, G:0.17, T:0.55
Consensus pattern (24 bp):
ACTTTTTGGCTTTTTAGCCTTTCG
Found at i:41716147 original size:41 final size:42
Alignment explanation
Indices: 41716102--41716180 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
41716092 CTAGAGTGAG
*
41716102 ATAGCTTCAGCTATG-AAAGGCAGTTAGTGTGCGAGATTATA
1 ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGATTATA
***
41716143 ATAGCTTCAGCTATGCTTTGGCACTTAGTGTGCGAGAT
1 ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGAT
41716181 ATCGAGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGATTATA
Found at i:41721224 original size:30 final size:29
Alignment explanation
Indices: 41721188--41721254 Score: 116
Period size: 30 Copynumber: 2.3 Consensus size: 29
41721178 ATGAATCGGA
*
41721188 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGAACTAAGTGTGCGATTT-AACT
41721218 AGCTTTGGAACTAAGTGTGCGATTTAACT
1 AGCTTTGGAACTAAGTGTGCGATTTAACT
41721247 AGCTTTGG
1 AGCTTTGG
41721255 TTCCTTGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (29 bp):
AGCTTTGGAACTAAGTGTGCGATTTAACT
Found at i:41729449 original size:43 final size:43
Alignment explanation
Indices: 41729401--41729536 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
41729391 CTGGCAATAA
*
41729401 GCCTGCTAGACCTTTAAGTTCGATATCATTTCACCAGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCAGCATTAC
* ** *
41729444 GCCTGCTAG-GCTCGAAG-CCTGATA--ATATTCACCAGC-TTAAA
1 GCCTGCTAGACCTTTAAGTCC-GATATCAT-TTCACCAGCATT-AC
* *
41729485 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCAGCATTAC
*
41729528 GCCTTCTAG
1 GCCTGCTAG
41729537 GCTCAAATGC
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
40 4 0.06
41 19 0.26
42 18 0.25
43 27 0.38
44 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (43 bp):
GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCAGCATTAC
Found at i:41732829 original size:47 final size:47
Alignment explanation
Indices: 41732774--41733096 Score: 475
Period size: 47 Copynumber: 6.8 Consensus size: 47
41732764 ATTTAGGATT
*
41732774 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41732821 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
41732870 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41732917 CGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCTTAATGGC
1 CGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGC
** *
41732966 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
** * * *
41733013 CGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
41733060 CAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41733097 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
47 160 0.64
49 91 0.36
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:41732836 original size:96 final size:92
Alignment explanation
Indices: 41732774--41733041 Score: 419
Period size: 96 Copynumber: 2.8 Consensus size: 92
41732764 ATTTAGGATT
41732774 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41732839 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
41732870 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41732935 AGTGTATGTATATGTGATAAGGCTTAATGGC
66 AGTGTATATATATGTGATAAGGC---AT-GC
** * *
41732966 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41733031 AGTGTATATAT
66 AGTGTATATAT
41733042 GTGGCAGGGC
Statistics
Matches: 165, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
95 1 0.01
96 164 0.99
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (92 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCATGC
Found at i:41732925 original size:143 final size:141
Alignment explanation
Indices: 41732774--41733096 Score: 475
Period size: 143 Copynumber: 2.3 Consensus size: 141
41732764 ATTTAGGATT
41732774 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41732839 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
*
41732904 AAGGCCTAATAGC
129 AAGGCCGAATAGC
* *
41732917 CGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
* * *
41732982 AAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGC
64 AAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
* * *
41733047 AGGGCCGAGTGGC
129 AAGGCCGAATAGC
* * * *
41733060 CAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41733097 TCCCGAAGGG
Statistics
Matches: 163, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 12 0.07
143 108 0.66
145 43 0.26
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
GGCCGAATAGC
Found at i:41735167 original size:43 final size:43
Alignment explanation
Indices: 41735119--41735448 Score: 588
Period size: 43 Copynumber: 7.7 Consensus size: 43
41735109 TTGGTTTTCA
*
41735119 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
41735162 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
41735205 GCACTAAGTGTGCGGGCAATAAGTATTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* *
41735248 GCACTAAGTGTACGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
41735291 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCAAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
41735334 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
**
41735377 GCACTAAGTGTGCGGGCAATAAGTGTTCACTTTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
41735420 GCACTAAGTGTGCGGGCAATAAGTATTCA
1 GCACTAAGTGTGCGGGCAATAAGTGTTCA
41735449 AGTGTGCGGG
Statistics
Matches: 275, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 275 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
Found at i:41735592 original size:40 final size:40
Alignment explanation
Indices: 41735537--41735734 Score: 299
Period size: 40 Copynumber: 5.0 Consensus size: 40
41735527 AAGCACTATG
*
41735537 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
41735577 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
41735617 TGTGTGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
41735657 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
41735697 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
41735735 ATTGAGCTTG
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 141 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:41735758 original size:40 final size:40
Alignment explanation
Indices: 41735537--41735777 Score: 286
Period size: 40 Copynumber: 6.0 Consensus size: 40
41735527 AAGCACTATG
* * *
41735537 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
41735577 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
41735617 TGTGTGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
41735657 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGC-AT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
41735696 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * * * *
41735737 TGAGCTTGTGGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG-GCAAT
41735778 CATGCTGGTG
Statistics
Matches: 177, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
39 3 0.02
40 166 0.94
41 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:41739652 original size:47 final size:47
Alignment explanation
Indices: 41739597--41739919 Score: 468
Period size: 47 Copynumber: 6.8 Consensus size: 47
41739587 ATTTAGGATT
*
41739597 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
41739644 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
41739693 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
41739740 CGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCTTAATGGC
1 CGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGC
** *
41739789 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
** * * *
41739836 CGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
41739883 C-AGTGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 CGA-TGTGATGAATGTGAAAGTGTATATATGTGATAAG
41739920 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.00
47 159 0.63
49 91 0.36
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:41739659 original size:96 final size:92
Alignment explanation
Indices: 41739597--41739864 Score: 419
Period size: 96 Copynumber: 2.8 Consensus size: 92
41739587 ATTTAGGATT
41739597 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41739662 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATATGTGATAAGG-C--AT-GC
41739693 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41739758 AGTGTATGTATATGTGATAAGGCTTAATGGC
66 AGTGTATATATATGTGATAAGGC---AT-GC
** * *
41739789 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41739854 AGTGTATATAT
66 AGTGTATATAT
41739865 GTGGCAGGGC
Statistics
Matches: 165, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
95 1 0.01
96 164 0.99
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (92 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCATGC
Found at i:41739748 original size:143 final size:141
Alignment explanation
Indices: 41739597--41739919 Score: 468
Period size: 143 Copynumber: 2.3 Consensus size: 141
41739587 ATTTAGGATT
41739597 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41739662 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
*
41739727 AAGGCCTAATAGC
129 AAGGCCGAATAGC
* *
41739740 CGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
* * *
41739805 AAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGC
64 AAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
* * *
41739870 AGGGCCGAGTGGC
129 AAGGCCGAATAGC
* * *
41739883 C-AGTGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 CGA-TGTGATGAATGTGAAAGTGTATATATGTGATAAG
41739920 TCCCGAAGGG
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
141 12 0.07
142 1 0.01
143 107 0.66
145 43 0.26
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
GGCCGAATAGC
Found at i:41741756 original size:22 final size:22
Alignment explanation
Indices: 41741717--41741759 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
41741707 ATCACTCTTC
* *
41741717 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
41741739 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
41741760 ATTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:41743036 original size:27 final size:27
Alignment explanation
Indices: 41742996--41743107 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
41742986 AGGAAGCGTC
*
41742996 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
41743023 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
41743050 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
41743078 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
41743104 CTGG
1 CTGG
41743108 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:41743102 original size:54 final size:54
Alignment explanation
Indices: 41742996--41743107 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
41742986 AGGAAGCGTC
* *
41742996 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
41743050 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
41743104 CTGG
1 CTGG
41743108 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:41752000 original size:27 final size:26
Alignment explanation
Indices: 41751952--41752011 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
41751942 GCGAAGCTGC
*
41751952 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
41751979 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
41752005 CAGATAT
1 CAGATAT
41752012 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41752427 original size:27 final size:27
Alignment explanation
Indices: 41752397--41752510 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
41752387 AAATCAGTAT
*
41752397 TTCTACCCTACAAGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
41752424 TTCTATCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
* ***
41752451 TTCTACCCTATAGGGGTATTTTAATAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
41752478 TTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCCTACAGGGGTATTTCGGTAA
41752505 TTCTAC
1 TTCTAC
41752511 AACTTATCCA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTCGGTAA
Found at i:41761719 original size:45 final size:45
Alignment explanation
Indices: 41761655--41761834 Score: 288
Period size: 45 Copynumber: 4.0 Consensus size: 45
41761645 AATATTATAC
*
41761655 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
41761700 GATACTGTTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
41761745 GATACTATTCTGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
41761790 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
41761835 AATGATATCG
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (45 bp):
GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:41768851 original size:49 final size:49
Alignment explanation
Indices: 41768778--41768969 Score: 242
Period size: 49 Copynumber: 3.9 Consensus size: 49
41768768 CTATTGTGAT
* * *
41768778 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
* ** **
41768827 GTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTATTAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-G
* *
41768877 GTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
* * * *
41768925 GTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
41768970 GCCTTGTCTA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 4 0.03
49 111 0.92
50 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
Found at i:41768953 original size:98 final size:99
Alignment explanation
Indices: 41768778--41768956 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 99
41768768 CTATTGTGAT
* * *
41768778 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGTAC
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
41768843 TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
66 TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
* * *
41768877 GTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTAT
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
*
41768941 TAAGTGCAGGCTACTA
66 TAAATGCAGGCTACTA
41768957 TGCGTACCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 68 0.93
99 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
Found at i:41770688 original size:14 final size:14
Alignment explanation
Indices: 41770669--41770721 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
41770659 AAATGGTAAG
41770669 AATGGTATGAACGA
1 AATGGTATGAACGA
*
41770683 AATGGTATGAATGA
1 AATGGTATGAACGA
*
41770697 AATGGTATGATCGA
1 AATGGTATGAACGA
**
41770711 AGGGGTATGAA
1 AATGGTATGAA
41770722 TGAATTGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (14 bp):
AATGGTATGAACGA
Found at i:41770711 original size:28 final size:28
Alignment explanation
Indices: 41770669--41770730 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
41770659 AAATGGTAAG
*
41770669 AATGGTATGAACGAAATGGTATGAATGA
1 AATGGTATGAACGAAAGGGTATGAATGA
* *
41770697 AATGGTATGATCGAAGGGGTATGAATGA
1 AATGGTATGAACGAAAGGGTATGAATGA
*
41770725 ATTGGT
1 AATGGT
41770731 CAGTTTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.27
Consensus pattern (28 bp):
AATGGTATGAACGAAAGGGTATGAATGA
Found at i:41775745 original size:6 final size:6
Alignment explanation
Indices: 41775734--41775816 Score: 80
Period size: 6 Copynumber: 13.5 Consensus size: 6
41775724 TCAGAACTAC
* *
41775734 AATCAG AATCAG AATCAG AATCAA AATCAG -GTGACAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG
* *
41775783 AATCAG TATCAGG TAA-CAG AATCAA AATCAG AAT
1 AATCAG AATCA-G -AATCAG AATCAG AATCAG AAT
41775817 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
AATCAG
Found at i:41775775 original size:31 final size:31
Alignment explanation
Indices: 41775737--41775816 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
41775727 GAACTACAAT
*
41775737 CAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
**
41775768 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
*
41775799 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
41775817 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAGGTAA
Found at i:41775777 original size:25 final size:25
Alignment explanation
Indices: 41775741--41775813 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
41775731 TACAATCAGA
41775741 ATCAGAATCAGAATCAAAATCAGGT
1 ATCAGAATCAGAATCAAAATCAGGT
*
41775766 GA-CAGAATCAGAATCAGAATCA-GT
1 -ATCAGAATCAGAATCAAAATCAGGT
41775790 ATCAGGTAA-CAGAATCAAAATCAG
1 ATCA-G-AATCAGAATCAAAATCAG
41775814 AATGTGAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 33 0.80
26 3 0.07
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
ATCAGAATCAGAATCAAAATCAGGT
Found at i:41776081 original size:27 final size:26
Alignment explanation
Indices: 41776033--41776084 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
41776023 GCGAGGCTGC
*
41776033 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
41776059 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
41776085 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:41776352 original size:27 final size:27
Alignment explanation
Indices: 41776319--41776667 Score: 392
Period size: 27 Copynumber: 12.9 Consensus size: 27
41776309 TCACACCTAG
*
41776319 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
41776346 GGGTAAAACGGTTATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
41776373 GGGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
41776400 GGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
41776427 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
41776454 GGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
41776481 GGGTAAAATGATAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
41776508 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
41776535 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
41776562 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
41776589 GGGTAAAAAGATAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * *
41776616 GGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
41776643 GGGTAAAACGATAATTCTGTAAATC
1 GGGTAAAATGGTAATTTTGTAAATC
41776668 AAAGGTACTT
Statistics
Matches: 270, Mismatches: 52, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 270 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:41776388 original size:54 final size:54
Alignment explanation
Indices: 41776319--41776667 Score: 437
Period size: 54 Copynumber: 6.5 Consensus size: 54
41776309 TCACACCTAG
* * * ** * *
41776319 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTTATTCTATAAATCGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * * *
41776373 GGGTAAAACGATAATTTTGTAAATCAAGGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * * *
41776427 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * *
41776481 GGGTAAAATGATAATTTTGTAAATTGAGGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * * * * *
41776535 GGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * * *
41776589 GGGTAAAAAGATAATTTTTTAAATCGAGGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
*
41776643 GGGTAAAACGATAATTCTGTAAATC
1 GGGTAAAACGATAATTTTGTAAATC
41776668 AAAGGTACTT
Statistics
Matches: 257, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 257 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (54 bp):
GGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
Found at i:41776701 original size:27 final size:27
Alignment explanation
Indices: 41776671--41776820 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
41776661 GTAAATCAAA
*
41776671 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAGTCGAG
* *
41776698 GGTATTTTAGTAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAGTCGAG
** * *
41776725 GGTATTTCAGTAATTTCACAAATC-AG
1 GGTATTTTGGTAATTTTACAAGTCGAG
* *
41776751 AGGTATTTTGGTAATTTTACAA-ACTAGG
1 -GGTATTTTGGTAATTTTACAAGTCGA-G
* ** * *
41776779 GGTATTTTGGTAATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTACAAGTCGAG
41776806 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
41776821 CTACCCTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 98 0.94
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAGTCGAG
Found at i:41776782 original size:54 final size:54
Alignment explanation
Indices: 41776680--41776845 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 54
41776670 AGGTACTTTG
* * ** *
41776680 GTAATTTTACAAGTC-GAGGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGA-GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
* **
41776734 GTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCA
* * * * * * *
41776788 GTAATTTTATAAACCAAAGGTATTTTGGTAATTCTAC-CCTACAGGGCATTTCA
1 GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
41776841 GTAAT
1 GTAAT
41776846 GCTAGCCTAC
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
52 3 0.03
53 12 0.13
54 71 0.78
55 5 0.05
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
Found at i:41776820 original size:81 final size:81
Alignment explanation
Indices: 41776663--41776812 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
41776653 ATAATTCTGT
* * *** * *
41776663 AAATCAAAGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAGGGT
1 AAATCAAAGGTACTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGGT
41776728 ATTTCAGTAATTTCAC
66 ATTTCAGTAATTTCAC
* * * *
41776744 AAATCAGAGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAACCAAAGG
1 AAATCAAAGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGG
41776808 TATTT
65 TATTT
41776813 TGGTAATTCT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 53 0.93
82 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
AAATCAAAGGTACTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGGT
ATTTCAGTAATTTCAC
Found at i:41778711 original size:6 final size:6
Alignment explanation
Indices: 41778693--41778774 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
41778683 AAGAAACATT
* *
41778693 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
41778742 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
41778775 ATGATGCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 46 0.77
7 6 0.10
8 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:41778740 original size:31 final size:31
Alignment explanation
Indices: 41778704--41778774 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
41778694 TCAGAACTAG
* *
41778704 AATCAGAATCAGAATCAGGTGATAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
*
41778735 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
41778766 AATCAGAAT
1 AATCAGAAT
41778775 ATGATGCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:41779292 original size:27 final size:26
Alignment explanation
Indices: 41779276--41779766 Score: 376
Period size: 27 Copynumber: 18.2 Consensus size: 26
41779266 AACATCCTAG
41779276 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
41779303 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * * *
41779330 GGATAAAATAGTAATTTTTTAAATCAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
41779357 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
*
41779384 GGGTAAACA--GTAATTCTGTAAATCGA
1 GGGTAAA-ATGGTAATT-TATAAATCGA
* * *
41779410 GGGTAAAATGATAATTTTGTAAATTGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * *
41779437 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * * *
41779464 GGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
41779491 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * *
41779518 AGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* *
41779545 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
*
41779572 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * **
41779599 GGGTAAAACGGTAATTTTGTAAATTAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * *
41779626 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATT-TATAAATCGA
* *
41779653 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
41779680 GGGTAAAAATAGTAATTCTGTAAATCGA
1 GGGT-AAAATGGTAATT-TATAAATCGA
* * *
41779708 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
***
41779735 GGGTACTTTGGTAATTT-TACAAGTCGA
1 GGGTAAAATGGTAATTTATA-AA-TCGA
41779762 GGGTA
1 GGGTA
41779767 TTTCAGTAAT
Statistics
Matches: 389, Mismatches: 58, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 35 0.09
27 318 0.82
28 33 0.08
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (26 bp):
GGGTAAAATGGTAATTTATAAATCGA
Found at i:41779361 original size:54 final size:54
Alignment explanation
Indices: 41779276--41779739 Score: 533
Period size: 54 Copynumber: 8.6 Consensus size: 54
41779266 AACATCCTAG
** * * * *
41779276 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGA
* * * * *
41779330 GGATAAAATAGTAATTTTTTAAATCAAGGGTAAAA-CGATAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAG-TAATTCTGTAAATCGA
* * * *
41779384 GGGT-AAACAGTAATTCTGTAAATCGAGGGTAAAAT-GATAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAG-TAATTCTGTAAATCGA
* * * *
41779437 GGGTAAAATAGTAATTTTGTAAATCAAGGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGA
* * * *
41779491 GGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATC-AAGGGTAAAATAGTAATTCTGTAAATCGA
* * * * *
41779545 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGA
* * *
41779599 GGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGA
* *
41779653 GGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCAAGGGT-AAAATAGTAATTCTGTAAATCGA
* *
41779708 GGGTAAAAC-GATAATTCTGTAAATCGAGGGTA
1 GGGTAAAACAG-TAATTTTGTAAATCAAGGGTA
41779740 CTTTGGTAAT
Statistics
Matches: 360, Mismatches: 42, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
53 47 0.13
54 260 0.72
55 53 0.15
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCGA
Found at i:41779512 original size:81 final size:81
Alignment explanation
Indices: 41779276--41779766 Score: 556
Period size: 81 Copynumber: 6.1 Consensus size: 81
41779266 AACATCCTAG
* * * * * *
41779276 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
* *
41779341 TAATTTTTTAAATCAA
66 TAATTTTGTAAATCGA
* *
41779357 GGGTAAAA-CGATAATTCTATAAATCGAGGGT-AAACAGTAATTCTGTAAATCGAGGGTAAAATG
1 GGGTAAAATAG-TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATG
* *
41779420 ATAATTTTGTAAATTGA
65 GTAATTTTGTAAATCGA
* * * * * * *
41779437 GGGTAAAATAGTAATTTTGTAAATCAAGGATAAAATAGTAATTTTGTAAATTGAGGGTAAAACGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
41779502 TAATTCTGTAAATCGA
66 TAATTTTGTAAATCGA
* * *
41779518 AGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
* * *
41779583 TAATTCTATAAATCAA
66 TAATTTTGTAAATCGA
** * * ** * *
41779599 GGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
41779664 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * ***
41779680 GGGTAAAAATAGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTCTGTAAATCGAGGGTACTTT
1 GGGT-AAAATAGTAATTCTATAAATCGAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTAAAAT
** *
41779744 GGTAATTTTACAAGTCGA
64 GGTAATTTTGTAAATCGA
41779762 GGGTA
1 GGGTA
41779767 TTTCAGTAAT
Statistics
Matches: 346, Mismatches: 59, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
80 65 0.19
81 216 0.62
82 65 0.19
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (81 bp):
GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTTTGTAAATCGA
Found at i:41779898 original size:27 final size:27
Alignment explanation
Indices: 41779734--41779885 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
41779724 CTGTAAATCG
* ** *
41779734 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAACCA
** * **
41779761 AGGGTATTTCAGTAATTTCACAAA-TT
1 AGGGTATTTTGGTAATTTTACAAACCA
*
41779787 AGAGGTATTTTGGTAATTTTACAAACTA
1 AG-GGTATTTTGGTAATTTTACAAACCA
41779815 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
41779842 TA-GGTATTTTGGTAATTGTATAAACCA
1 -AGGGTATTTTGGTAATTTTACAAACCA
41779869 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
41779886 CTACCCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.03
27 100 0.93
28 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:41782129 original size:93 final size:93
Alignment explanation
Indices: 41781970--41782141 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
41781960 CGCCCATAAG
* * * *
41781970 CGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
41782035 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
41782063 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
41782128 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
41782142 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:41782131 original size:46 final size:46
Alignment explanation
Indices: 41781963--41782134 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
41781953 TGTAACCCGC
** * * * *
41781963 CCATAAGCGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
41782009 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
41782059 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
41782102 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
41782135 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.54
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:41782157 original size:46 final size:45
Alignment explanation
Indices: 41782014--41782157 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
41782004 CGCATCCATG
41782014 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
41782061 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
41782107 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
41782153 AGTGA
1 AGTGA
41782158 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.41
47 31 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:41784573 original size:15 final size:15
Alignment explanation
Indices: 41784534--41784574 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
41784524 CAAGGAAACC
41784534 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
41784549 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
41784564 GAATAAAGAAA
1 GAATAAAGAAA
41784575 CCCAAGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.61, C:0.10, G:0.17, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:41791822 original size:15 final size:17
Alignment explanation
Indices: 41791787--41791825 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
41791777 TTTCTCACTC
41791787 TCTTTTTCTTTTTCGATT
1 TCTTTTTC-TTTTCGATT
41791805 TCTTTTTC-TTTC-ATT
1 TCTTTTTCTTTTCGATT
41791820 TCTTTT
1 TCTTTT
41791826 GTTCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
18 8 0.38
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCTTTTCGATT
Found at i:41796110 original size:20 final size:19
Alignment explanation
Indices: 41796074--41796124 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
41796064 AAGGGCTATT
*
41796074 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
41796093 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
41796113 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
41796125 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:41796864 original size:46 final size:48
Alignment explanation
Indices: 41796792--41796914 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 48
41796782 GACATTATAA
* * *
41796792 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAC-GA-
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* * *
41796838 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAC
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* *
41796886 AAGCTAGTGTAAGACCTGTATGGGACATG
1 AAGCTAGTGTAAGACATGTCTGGGACATG
41796915 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 39 0.59
47 1 0.02
48 26 0.39
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (48 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
Found at i:41797002 original size:49 final size:49
Alignment explanation
Indices: 41796935--41797064 Score: 122
Period size: 49 Copynumber: 2.6 Consensus size: 49
41796925 GTTGTGTGTC
* * *
41796935 AGTGTAAGACCTGCCTGGGACATGGCATCGACAC-CGATAGATGAGA-TCT
1 AGTG-AAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAATTCA
* * * * *
41796984 AGTGCAAGACCTGTCTGGGAGACGACATCGGCCTCGATATATGAAATTCA
1 AGTG-AAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAATTCA
*
41797034 ACAT-AAGACCTGTCTGGGACATGGCATCGAC
1 A-GTGAAGACCTGTCTGGGACATGGCATCGAC
41797065 TTTGATGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.02
49 59 0.92
50 3 0.05
51 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
AGTGAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAATTCA
Found at i:41809002 original size:27 final size:27
Alignment explanation
Indices: 41808972--41809149 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41808962 ATATTGAGTC
* * * *
41808972 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41808999 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41809026 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41809054 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41809081 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41809108 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41809135 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41809150 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41809111 original size:82 final size:81
Alignment explanation
Indices: 41808993--41809148 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41808983 TGCTATATAA
* *
41808993 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41809058 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41809075 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41809139 CACTTAGTGC
65 CACTTAGTGC
41809149 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41817034 original size:27 final size:27
Alignment explanation
Indices: 41817004--41817181 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41816994 ATATTGAGTC
* * * *
41817004 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41817031 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41817058 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41817086 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41817113 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41817140 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41817167 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41817182 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41817143 original size:82 final size:81
Alignment explanation
Indices: 41817025--41817180 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41817015 TGCTATATAA
* *
41817025 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41817090 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41817107 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41817171 CACTTAGTGC
65 CACTTAGTGC
41817181 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41825058 original size:27 final size:27
Alignment explanation
Indices: 41825028--41825205 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41825018 ATATTGAGTC
* * * *
41825028 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41825055 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41825082 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41825110 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41825137 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41825164 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41825191 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41825206 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41825167 original size:82 final size:81
Alignment explanation
Indices: 41825049--41825204 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41825039 TGCTATATAA
* *
41825049 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41825114 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41825131 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41825195 CACTTAGTGC
65 CACTTAGTGC
41825205 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41831503 original size:82 final size:81
Alignment explanation
Indices: 41831387--41831537 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
41831377 AAATTGTACA
* * * *
41831387 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
41831451 TGCGAAATGACCATGCG
65 TGCGAAATGACCATGCG
** *
41831468 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
41831533 TGCGA
65 TGCGA
41831538 GTTGATTGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.30
82 43 0.70
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGACCATGCG
Found at i:41831544 original size:27 final size:27
Alignment explanation
Indices: 41831387--41831542 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
41831377 AAATTGTACA
*
41831387 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
41831414 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* * *
41831441 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
41831468 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
41831496 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
41831523 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
41831543 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:41831553 original size:27 final size:27
Alignment explanation
Indices: 41831386--41831563 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
41831376 TAAATTGTAC
*
41831386 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* ** *
41831413 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
** ** *
41831439 ATGCACTAAGTGTGCGAAATGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
41831467 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
41831495 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
41831522 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
41831549 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
41831564 GGCTCACTAT
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:41831554 original size:82 final size:81
Alignment explanation
Indices: 41831379--41831563 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
41831369 GCGGGATTAA
* * * *
41831379 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
41831444 CTAAGTGTGCGAAATG
66 CTAAGTGTGCGAAATG
*** * * ** *
41831460 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
**
41831524 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAAATG
* *
41831542 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
41831564 GGCTCACTAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAAATG
Found at i:41836401 original size:27 final size:27
Alignment explanation
Indices: 41836371--41836548 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41836361 ATATTGAGTC
* * * *
41836371 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41836398 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41836425 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41836453 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41836480 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41836507 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41836534 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41836549 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41836510 original size:82 final size:81
Alignment explanation
Indices: 41836392--41836547 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41836382 TGCTATATAA
* *
41836392 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41836457 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41836474 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41836538 CACTTAGTGC
65 CACTTAGTGC
41836548 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41836565 original size:19 final size:19
Alignment explanation
Indices: 41836541--41836580 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
41836531 AATCGCACAC
41836541 TTAGTGCTGTACAATTTAA
1 TTAGTGCTGTACAATTTAA
41836560 TTAGTGCTGTACAATTTAA
1 TTAGTGCTGTACAATTTAA
41836579 TT
1 TT
41836581 CCCGCGCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (19 bp):
TTAGTGCTGTACAATTTAA
Found at i:41841634 original size:37 final size:37
Alignment explanation
Indices: 41841584--41841662 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
41841574 TTATTACGAA
* * *
41841584 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
41841621 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
41841658 GTCTT
1 GTCTT
41841663 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:41841859 original size:47 final size:47
Alignment explanation
Indices: 41841781--41842271 Score: 820
Period size: 47 Copynumber: 10.4 Consensus size: 47
41841771 CCCTTCGGGA
* * * * * * *
41841781 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41841828 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41841875 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41841922 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41841969 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41842016 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41842065 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41842112 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41842159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41842206 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41842253 CTTATCACATATATACACT
1 CTTATCACATATATACACT
41842272 GTCTTGGCTG
Statistics
Matches: 421, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 375 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41842211 original size:237 final size:237
Alignment explanation
Indices: 41841781--41842267 Score: 843
Period size: 237 Copynumber: 2.1 Consensus size: 237
41841771 CCCTTCGGGA
* * * * *
41841781 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
41841844 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
41841909 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
41841974 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41842016 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
41842081 ACTTTCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
41842146 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
* *
41842211 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
41842253 CTTATCACATATATA
1 CTTATCACATATATA
41842268 CACTGTCTTG
Statistics
Matches: 237, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 226 0.95
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (237 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41844754 original size:19 final size:20
Alignment explanation
Indices: 41844722--41844762 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
41844712 GAATGAAATC
41844722 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
41844742 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
41844761 GA
1 GA
41844763 AAATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:41854472 original size:46 final size:44
Alignment explanation
Indices: 41854385--41854505 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 44
41854375 TATGTGTGCT
* *
41854385 AGTGTAAGACATGTCTGGGACATGCATCAACCACAGTATGAGAGCC
1 AGTGTAAGACATGTCT-GGACATGCATC-GCCAAAGTATGAGAGCC
* * *
41854431 AGTGTAAGACATGTCTAGGACATGCATCGGCATTAAG-ATGAGATCT
1 AGTGTAAGACATGTCT-GGACATGCATCGCCA--AAGTATGAGAGCC
*
41854477 AGTGTAAGAGATGTCTGGAACATGCATCG
1 AGTGTAAGACATGTCTGG-ACATGCATCG
41854506 ATCTTGCGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 4 0.06
46 59 0.91
47 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGACATGCATCGCCAAAGTATGAGAGCC
Found at i:41854636 original size:49 final size:49
Alignment explanation
Indices: 41854568--41854698 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
41854558 TGTGGTGTGT
* *
41854568 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGGTAGATAAAGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATAAAAGC
* * * *
41854617 CAGTGTAAGACCTGTCTGGGGCAT-GCTATCGGCCTCGATATATAAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGC-ATCGACCTCGATAGATAAAAGC
*
41854666 CAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
41854699 TTTAAACTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.04
49 65 0.93
50 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGC
Found at i:41856137 original size:36 final size:37
Alignment explanation
Indices: 41856065--41856137 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
41856055 TTGTTGTGAG
* *
41856065 ATAGATTTGCCATAGATTTCGTGTTGGAATGGTCGTT
1 ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
41856102 ATAGATTTGCCATAGAGTTCG-GTCGGAATGGTCGTT
1 ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
41856138 TTCTCTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (37 bp):
ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
Found at i:41858594 original size:24 final size:24
Alignment explanation
Indices: 41858567--41858667 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
41858557 AAGGCTGTCA
*
41858567 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
41858591 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
41858615 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
41858639 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
41858663 GGAGA
1 GGAGA
41858668 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.03, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:41860142 original size:27 final size:27
Alignment explanation
Indices: 41860102--41860212 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
41860092 AGGAAGCGTC
*
41860102 CTGGTGGCTA-TGCCACAATTATCTAAT
1 CTGGTGGC-ACTGCCACAATTATCTATT
41860129 CTGGTGGCACTGCCACATATT-TCTATT
1 CTGGTGGCACTGCCACA-ATTATCTATT
* *
41860156 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCACAATTATCTATT
* * * *
41860183 CTGATGACACTGTCAC-ATTATCTGTT
1 CTGGTGGCACTGCCACAATTATCTATT
41860209 CTGG
1 CTGG
41860213 CAGCCATGCG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 17 0.23
27 53 0.73
28 3 0.04
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAATTATCTATT
Found at i:41880041 original size:53 final size:53
Alignment explanation
Indices: 41879858--41880114 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 53
41879848 ATTAGGGTTT
* *
41879858 AAGGATACCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
41879913 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAAGGC
* *
41879968 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* *
41880021 AAGGATACCATGTAAGACCATGTCAAGAG-ATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCATTGGTAAGTTCAT-AAGGC
* ** *
41880070 AAGGATACCACT-TAAGACCATGACAAGTTATGGCAATGGTAAGTT
1 AAGGATACCA-TGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
41880115 ACCCGTGTAT
Statistics
Matches: 173, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 40 0.23
50 1 0.01
51 1 0.01
52 8 0.05
53 43 0.25
54 9 0.05
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:41880064 original size:108 final size:110
Alignment explanation
Indices: 41879865--41880065 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
41879855 TTTAAGGATA
*
41879865 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
41879930 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
41879975 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
41880037 ACCATGTCAAGAGATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
41880066 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:41880103 original size:49 final size:49
Alignment explanation
Indices: 41880021--41880114 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
41880011 TTCATAAGGC
*
41880021 AAGGATACCATGTAAGACCATGTCAAGAGATGGCAATGGTAAGTTTCAA
1 AAGGATACCATGTAAGACCATGACAAGAGATGGCAATGGTAAGTTTCAA
**
41880070 AAGGATACCACT-TAAGACCATGACAAGTTATGGCAATGGTAAGTT
1 AAGGATACCA-TGTAAGACCATGACAAGAGATGGCAATGGTAAGTT
41880115 ACCCGTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (49 bp):
AAGGATACCATGTAAGACCATGACAAGAGATGGCAATGGTAAGTTTCAA
Found at i:41880325 original size:16 final size:16
Alignment explanation
Indices: 41880304--41880334 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41880294 ATAAATTTGA
41880304 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41880320 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41880335 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41887696 original size:55 final size:52
Alignment explanation
Indices: 41887588--41887794 Score: 220
Period size: 55 Copynumber: 3.8 Consensus size: 52
41887578 ATTAGGGTTT
* **
41887588 AAGGATACCATGTAAGACTATGCCAAGACATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATG-CAAGACATG-GCATTGGTAA-G-TTCATAAGGC
* * * *
41887643 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
41887698 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAGTTCATAAGGC
*
41887751 AAGGATACCATGTAAGACCATGCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCAAGACATGGCATTGGTAAGTT
41887795 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
52 25 0.20
53 25 0.20
54 8 0.06
55 65 0.51
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:41887936 original size:23 final size:24
Alignment explanation
Indices: 41887910--41887957 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
41887900 AAGGTAAGGT
*
41887910 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
41887933 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
41887957 A
1 A
41887958 GAGCAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:41892641 original size:47 final size:48
Alignment explanation
Indices: 41892535--41892659 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 48
41892525 CAGTTAACAT
** * *
41892535 GTGCTAACCGGATACACCACGATTACACATACTGATACATGTAACGTG
1 GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
* * * * *
41892583 GTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAATGTG
1 GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
*
41892630 GTGCTAAGTGGATATACCACGGTTAAACAT
1 GTGCTAAGTGGATATACCACGGTTACACAT
41892660 GTAACGTAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 33 0.51
48 32 0.49
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (48 bp):
GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
Found at i:41895010 original size:13 final size:13
Alignment explanation
Indices: 41894992--41895018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41894982 AACCAAAGAG
41894992 TTCAATGATGGAA
1 TTCAATGATGGAA
41895005 TTCAATGATGGAA
1 TTCAATGATGGAA
41895018 T
1 T
41895019 GGTTATAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TTCAATGATGGAA
Found at i:41898742 original size:43 final size:39
Alignment explanation
Indices: 41898645--41898808 Score: 240
Period size: 39 Copynumber: 4.1 Consensus size: 39
41898635 ATTCAAGACA
*
41898645 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
41898684 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCACGATTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGG--C--TTCGTG
41898727 CTGGAAATGCT-TCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATG-TATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
41898766 TTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
41898805 CTGG
1 CTGG
41898809 TAATATAATT
Statistics
Matches: 114, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
38 1 0.01
39 74 0.65
41 2 0.02
43 36 0.32
44 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:41898786 original size:82 final size:82
Alignment explanation
Indices: 41898645--41898798 Score: 265
Period size: 82 Copynumber: 1.9 Consensus size: 82
41898635 ATTCAAGACA
* *
41898645 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCC
41898710 CGCAGGCACGATTCGTG
66 CGCAGGCACGATTCGTG
*
41898727 CTGGAAATGCT-TCCGGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCCGAGCTAAAGTC
1 CTGGAAATG-TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTC
41898791 CCGCAGGC
65 CCGCAGGC
41898799 TTTGTGCTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
82 67 0.99
83 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (82 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCC
CGCAGGCACGATTCGTG
Found at i:41901201 original size:29 final size:29
Alignment explanation
Indices: 41901134--41901235 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
41901124 AAGTCTACAT
* * *
41901134 ACATACATATCGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
41901162 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
41901191 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
41901220 ACACTCATATGGCCCA
1 ACATTCATATGGCCCA
41901236 AATCACATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 20 0.31
29 45 0.69
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:41904376 original size:17 final size:18
Alignment explanation
Indices: 41904354--41904387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41904344 CACATTGAAG
41904354 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
41904371 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
41904388 ATTCTTCAAA
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:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:41905558 original size:28 final size:28
Alignment explanation
Indices: 41905503--41905626 Score: 142
Period size: 29 Copynumber: 4.4 Consensus size: 28
41905493 CTACATACAT
* *
41905503 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
* * **
41905531 TCATTCATATAGCCCATTAGTACAAATC
1 ACATTCATATGGCCCATTAGCCCAAATC
*
41905559 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
*
41905588 ACATTCAGATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATT-AGCCCAAATC
41905617 ACATTCATAT
1 ACATTCATAT
41905627 TCATGCTTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.03
28 35 0.44
29 41 0.52
30 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGCCCAAATC
Found at i:41905706 original size:17 final size:18
Alignment explanation
Indices: 41905684--41905717 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41905674 TGCCTATTAT
41905684 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
41905701 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
41905718 TCTGGCCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:41908184 original size:17 final size:18
Alignment explanation
Indices: 41908162--41908195 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41908152 CACATTGAAG
41908162 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
41908179 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
41908196 ATTCTTCAAA
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:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:41909366 original size:28 final size:28
Alignment explanation
Indices: 41909311--41909434 Score: 142
Period size: 29 Copynumber: 4.4 Consensus size: 28
41909301 CTACATACAT
* *
41909311 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
* * **
41909339 TCATTCATATAGCCCATTAGTACAAATC
1 ACATTCATATGGCCCATTAGCCCAAATC
*
41909367 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
*
41909396 ACATTCAGATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATT-AGCCCAAATC
41909425 ACATTCATAT
1 ACATTCATAT
41909435 TCATGCTTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.03
28 35 0.44
29 41 0.52
30 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGCCCAAATC
Found at i:41909514 original size:17 final size:18
Alignment explanation
Indices: 41909492--41909525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41909482 TGCCTATTAT
41909492 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
41909509 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
41909526 TCTGGCCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:41910937 original size:15 final size:15
Alignment explanation
Indices: 41910913--41910952 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
41910903 TGTAAATGCA
41910913 ATTTCCTTATCATGG
1 ATTTCCTTATCATGG
* *
41910928 ATTTCTTTATCTTGG
1 ATTTCCTTATCATGG
41910943 ATTTCCTTAT
1 ATTTCCTTAT
41910953 TCTGGGCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCCTTATCATGG
Found at i:41914136 original size:27 final size:27
Alignment explanation
Indices: 41914036--41914119 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
41914026 GGGCATATTC
* *
41914036 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
41914063 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41914090 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41914117 GTC
1 GTC
41914120 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:41914329 original size:54 final size:54
Alignment explanation
Indices: 41914158--41914410 Score: 238
Period size: 54 Copynumber: 4.6 Consensus size: 54
41914148 TTTCATCCTA
* * * * * * * *
41914158 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
* *** * * * * * *
41914212 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTATAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCGAGGGTATTTCGGTAATTTTACAAAC
* * *
41914268 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
* *
41914322 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCGGTAATTTTACAAAC
* **
41914376 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
41914411 AAACAATAAT
Statistics
Matches: 160, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 108 0.68
55 16 0.10
56 35 0.22
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
Found at i:41914382 original size:81 final size:82
Alignment explanation
Indices: 41914158--41914395 Score: 232
Period size: 81 Copynumber: 2.9 Consensus size: 82
41914148 TTTCATCCTA
* * * ** ** * *
41914158 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTATAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
41914223 CCA-TAATTTTTAGAAAGT
66 -CAGTAA-TTTCACAAAGC
* * ***
41914241 CAAGGGTATTTCT-GTAACTTTATAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAAATTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
41914304 TTCGGTAATTTCACAAA-C
64 TTCAGTAATTTCACAAAGC
*
41914322 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
41914387 TAGTAATTT
66 CAGTAATTT
41914396 TGTAAATCGA
Statistics
Matches: 125, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
80 1 0.01
81 63 0.50
82 9 0.07
83 51 0.41
84 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAGC
Found at i:41914408 original size:27 final size:27
Alignment explanation
Indices: 41914158--41914410 Score: 204
Period size: 27 Copynumber: 9.3 Consensus size: 27
41914148 TTTCATCCTA
* * * *
41914158 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** * *
41914185 CAAAGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** *
41914212 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-T
* *
41914241 CAAGGGTATTTCT-GTAACTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
41914268 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
41914295 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
41914322 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
41914348 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* **
41914376 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
41914403 CGAGGGTA
1 CAAGGGTA
41914411 AAACAATAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 152 0.83
28 16 0.09
29 13 0.07
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:41914626 original size:27 final size:27
Alignment explanation
Indices: 41914389--41914612 Score: 261
Period size: 27 Copynumber: 8.3 Consensus size: 27
41914379 GGGTATTTTA
* **
41914389 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
41914416 ATAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
41914443 ATAATTCCATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
41914470 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
41914497 GTAATTCTGTAAATCAATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
41914524 GTAATTATGTAAATC-AGGGTTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAATG
* *
41914551 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
41914578 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
41914605 GTAATTCT
1 GTAATTCT
41914613 ACAAGTCGAA
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 165 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:41914635 original size:27 final size:27
Alignment explanation
Indices: 41914605--41914694 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
41914595 GGGTAAAATG
* *
41914605 GTAATTCTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
41914632 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
41914659 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
41914686 GTAATTTTA
1 GTAATTTTA
41914695 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:41914636 original size:54 final size:54
Alignment explanation
Indices: 41914389--41914637 Score: 209
Period size: 54 Copynumber: 4.6 Consensus size: 54
41914379 GGGTATTTTA
* * * * * * *
41914389 GTAATTTTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAAGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAATG
* ** * * * *
41914443 ATAATTCCATAAATCGAGGGTAAAAT-GGTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAAGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAAATG
* *
41914497 GTAATTCTGTAAATC-AATGGTAAAACAGTAATTATGTAAATC-AGGGTTAAAATG
1 GTAATTCTGTAAATCGAA-GGTAAATCAGTAATTCTGTAAATCGAGGG-TAAAATG
* ** *
41914551 GTAATTATGTAAATCGGGGGTAAAAT-GGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAAGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAAATG
** * **
41914605 GTAATTCTACAAGTCGAAGGTATTTCAGTAATT
1 GTAATTCTGTAAATCGAAGGTAAATCAGTAATT
41914638 TTACAAATTG
Statistics
Matches: 151, Mismatches: 36, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
53 10 0.07
54 131 0.87
55 10 0.07
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAAGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:41914701 original size:28 final size:27
Alignment explanation
Indices: 41914624--41914703 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
41914614 CAAGTCGAAG
* * *
41914624 GTATTTCAGTAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAACTAAGC
*
41914651 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* *
41914678 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
41914704 AGTATTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 38 0.84
28 7 0.16
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:41916124 original size:28 final size:28
Alignment explanation
Indices: 41916052--41916116 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
41916042 TTTGAATCAT
* *
41916052 TCAATATTTTGCACACTAAGTTTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
41916080 TCAATATCTCGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
41916108 TCAATATTT
1 TCAATATTT
41916117 GGTACACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:41919665 original size:47 final size:48
Alignment explanation
Indices: 41919544--41919674 Score: 174
Period size: 48 Copynumber: 2.8 Consensus size: 48
41919534 GAATGAAAAA
* * *
41919544 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
* ** * *
41919592 AACGTGGTGCTAAGTGGATATGCCACGGTTACATGTGTAGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
*
41919639 AACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
41919675 GTAACATGGT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 33 0.46
48 38 0.54
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
Found at i:41919694 original size:38 final size:38
Alignment explanation
Indices: 41919638--41919714 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
41919628 GTAGATTCAT
*
41919638 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
41919676 TAACATGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
41919714 T
1 T
41919715 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:41927319 original size:26 final size:26
Alignment explanation
Indices: 41927290--41927400 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
41927280 AGCATTGCTG
* *
41927290 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
41927316 CCAGAACAGATAATTGTGGC-GAAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
41927343 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
41927370 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
41927397 CCAG
1 CCAG
41927401 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
26 14 0.18
27 59 0.78
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:41927372 original size:54 final size:53
Alignment explanation
Indices: 41927290--41927400 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
41927280 AGCATTGCTG
* *
41927290 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCGA-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGC-ATAGCCA
* *
41927343 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAAATGTGGCATAGCCA
41927397 CCAG
1 CCAG
41927401 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 13 0.25
54 39 0.75
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCATAGCCA
Found at i:41929107 original size:623 final size:624
Alignment explanation
Indices: 41927893--41929143 Score: 2443
Period size: 623 Copynumber: 2.0 Consensus size: 624
41927883 AAAATTGACC
41927893 CTAGTCGGGAAGTAGTTTCGGGACTGCTAAACCGAGTCACCGAAATGTTTGAATGTGATATTTAT
1 CTAGTCGGGAAGTAGTTTCGGGACTGCTAAACCGAGTCACCGAAATGTTTGAATGTGATATTTAT
41927958 TGTCTAGAATATGTAATTATAAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGA
66 TGTCTAGAATATGTAATTATAAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGA
41928023 ATTTAGTCAATAGGACTTATGTGCGACATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTAT
131 ATTTAGTCAATAGGACTTATGTGCGACATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTAT
41928088 TAGTGCATGAAATAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAACTAGTAGTGGCCGGCC
196 TAGTGCATGAAATAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAACTAGTAGTGGCCGGCC
41928153 ATGACAAGCATGGTAGACCAGGTGTGATGGGCAAGACATGTCATAGACATGTTGTGTTGGTGCAT
261 ATGACAAGCATGGTAGACCAGGTGTGATGGGCAAGACATGTCATAGACATGTTGTGTTGGTGCAT
41928218 CATGGGTGGAAAAAAATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAA
326 CATGGGTGGAAAAAAATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAA
*
41928283 CAAAAAAAAGTGTGTAGTTGTTTCCCTCCCATTGCCGTGAGTTAAAGAAAAGAAAAGAGAAAATT
391 CAAAAAAAAGTGTGTAGTTGTTTCCCCCCCATTGCCGTGAGTTAAAGAAAAGAAAAGAGAAAATT
41928348 TTGTTCATCCTTTTTCATCTTCTTTCGGCCGAAAATTCAAAGGAATGAGGAAGGAGTTCTTGCTT
456 TTGTTCATCCTTTTTCATCTTCTTTCGGCCGAAAATTCAAAGGAATGAGGAAGGAGTTCTTGCTT
41928413 CATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGCCATACTTGTATCTAGATCAAGGTATGT
521 CATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGCCATACTTGTATCTAGATCAAGGTATGT
41928478 TTGAGGTTGTGCCTTGAGATTCATGCATGTTTTTAGTTG
586 TTGAGGTTGTGCCTTGAGATTCATGCATGTTTTTAGTTG
41928517 CTAGTCGGGAAGTAGTTTCGGGACTGCTAAACCGAGTCACCGAAATGTTTGAATGTGATATTTAT
1 CTAGTCGGGAAGTAGTTTCGGGACTGCTAAACCGAGTCACCGAAATGTTTGAATGTGATATTTAT
*
41928582 TGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGA
66 TGTCTAGAATATGTAATTATAAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGA
41928647 ATTTAGTCAATAGGACTTATGTGCGACATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTAT
131 ATTTAGTCAATAGGACTTATGTGCGACATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTAT
41928712 TAGTGCATGAAATAAAAA-GGGGGACTTGCATGTCAAATT-CCCCCTAACTAGTAGTGGCCGGCC
196 TAGTGCATGAAATAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAACTAGTAGTGGCCGGCC
41928775 ATGACAAGCATGGTAGACCAGGTGTGATGGGCAAGACATGTCATAGACATGTTGTGTTGGTGCAT
261 ATGACAAGCATGGTAGACCAGGTGTGATGGGCAAGACATGTCATAGACATGTTGTGTTGGTGCAT
41928840 CATGGGTGGAAAAAAATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAA
326 CATGGGTGGAAAAAAATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAA
*
41928905 CAAAAAAAAAGTGTGTAGTTGTTTCCCCCCCATTGTCGTGAGTTAAAGAAAAGAAAAGAGAAAAT
391 C-AAAAAAAAGTGTGTAGTTGTTTCCCCCCCATTGCCGTGAGTTAAAGAAAAGAAAAGAGAAAAT
*
41928970 TTTGTTCATCCTTTTTCATCTTCTTTTGGCCGAAAATTCAAAGGAATGAGGAAGGAGTTCTTGCT
455 TTTGTTCATCCTTTTTCATCTTCTTTCGGCCGAAAATTCAAAGGAATGAGGAAGGAGTTCTTGCT
41929035 TCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGCCATACTTGTATCTAGATCAAGGTATG
520 TCATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGCCATACTTGTATCTAGATCAAGGTATG
41929100 TTTGAGGTTGTGCCTTGAGATTCATGCATGTTTTTAGTTG
585 TTTGAGGTTGTGCCTTGAGATTCATGCATGTTTTTAGTTG
41929140 CTAG
1 CTAG
41929144 CTTGAGTTCT
Statistics
Matches: 622, Mismatches: 4, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
622 155 0.25
623 255 0.41
624 212 0.34
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (624 bp):
CTAGTCGGGAAGTAGTTTCGGGACTGCTAAACCGAGTCACCGAAATGTTTGAATGTGATATTTAT
TGTCTAGAATATGTAATTATAAATGTGTGAAAATTTCAAGCTTCGATTTAGTCGATTGCATGTGA
ATTTAGTCAATAGGACTTATGTGCGACATTTTTGAAATGTGATAGGTCGAAGCATAAGGACCTAT
TAGTGCATGAAATAAAAAGGGGGGACTTGCATGTCAAATTCCCCCCTAACTAGTAGTGGCCGGCC
ATGACAAGCATGGTAGACCAGGTGTGATGGGCAAGACATGTCATAGACATGTTGTGTTGGTGCAT
CATGGGTGGAAAAAAATAAAATAAGGAGCATGGGCATAAAATAATGAAAGGGAATATGATGAAAA
CAAAAAAAAGTGTGTAGTTGTTTCCCCCCCATTGCCGTGAGTTAAAGAAAAGAAAAGAGAAAATT
TTGTTCATCCTTTTTCATCTTCTTTCGGCCGAAAATTCAAAGGAATGAGGAAGGAGTTCTTGCTT
CATGTTTGGTTTGGAAGAGGATTAGGAGGAGGTTTGGCCATACTTGTATCTAGATCAAGGTATGT
TTGAGGTTGTGCCTTGAGATTCATGCATGTTTTTAGTTG
Found at i:41930174 original size:40 final size:39
Alignment explanation
Indices: 41930090--41930274 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
41930080 TTGAATGATG
* * * *
41930090 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41930130 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
41930170 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41930209 TCCGGGTTAAGTTCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41930250 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
41930275 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41930225 original size:79 final size:80
Alignment explanation
Indices: 41930090--41930307 Score: 248
Period size: 79 Copynumber: 2.8 Consensus size: 80
41930080 TTGAATGATG
* * * ** * *
41930090 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGTTCCGAAGGCAAT
41930154 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
*
41930169 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGCAAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCAAT
*
41930233 TGTGCGAGTTACTATA
65 TGTGCGAGATACTATA
* * ** *
41930249 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGTTCCGAAGG
41930308 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
79 75 0.63
80 44 0.37
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:41931533 original size:79 final size:81
Alignment explanation
Indices: 41931397--41931581 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
41931387 TTGAATGATG
* *
41931397 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
41931461 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41931476 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41931538 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
41931556 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41931582 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:41931595 original size:40 final size:40
Alignment explanation
Indices: 41931398--41931581 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
41931388 TGAATGATGT
* * * *
41931398 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
41931438 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
41931478 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
41931516 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41931557 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41931582 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:41931603 original size:79 final size:79
Alignment explanation
Indices: 41931450--41931614 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
41931440 GGACTAAGAT
* * **
41931450 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
41931515 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41931529 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
41931592 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41931608 CCGAAGG
1 CCGAAGG
41931615 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41934775 original size:79 final size:81
Alignment explanation
Indices: 41934664--41934845 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
41934654 GCTACTCGTT
* * * *
41934664 CAAATGGCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
41934728 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
41934744 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
41934807 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
41934824 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
41934846 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 54 0.62
80 29 0.33
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:41934781 original size:39 final size:40
Alignment explanation
Indices: 41934664--41934845 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
41934654 GCTACTCGTT
* *
41934664 CAAATGGCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
41934704 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41934744 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41934783 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41934824 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
41934846 AGACATCATT
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 73 0.60
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Done.