Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 194 of 290
Found at i:62343070 original size:46 final size:47
Alignment explanation
Indices: 62342964--62343086 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 47
62342954 TGTCTTCGAC
** * *
62342964 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
62343014 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
62343060 ATGGACTTACATGGCTCATTTCTGTCT
1 ATGGACTTACATGGCTCATTCCTGTCT
62343087 GTCCTGTCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
46 35 0.54
50 30 0.46
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:62372459 original size:112 final size:112
Alignment explanation
Indices: 62372262--62372482 Score: 397
Period size: 112 Copynumber: 2.0 Consensus size: 112
62372252 GCACACGGCT
*
62372262 GTGTCGCACGACCGTGTCTGTCTTTGTTCACTTCTGCCACACATGTGTATGAAAGTCCAAACCCA
1 GTGTCGCACGACCGTGTCTGTCTTTGTTCACTTCTGCCACACATGTATATGAAAGTCCAAACCCA
* *
62372327 TGTTGTTTTGGCAGGTTCACCCATGGTTGTTTGGCACGGGCGTGGCC
66 TGTTGTTTTGGCAGGTTCACCCACGGTTATTTGGCACGGGCGTGGCC
* *
62372374 GTGTCGCACGACCGTGTCTGTCTTTGTTCACTTCTGCCACACCTGTATATGAAAGTCCACACCCA
1 GTGTCGCACGACCGTGTCTGTCTTTGTTCACTTCTGCCACACATGTATATGAAAGTCCAAACCCA
62372439 TGTTGTTTTGGCAGGTTCACCCACGGTTATTTGGCACGGGCGTG
66 TGTTGTTTTGGCAGGTTCACCCACGGTTATTTGGCACGGGCGTG
62372483 TCGCACGCCT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.31
Consensus pattern (112 bp):
GTGTCGCACGACCGTGTCTGTCTTTGTTCACTTCTGCCACACATGTATATGAAAGTCCAAACCCA
TGTTGTTTTGGCAGGTTCACCCACGGTTATTTGGCACGGGCGTGGCC
Found at i:62375272 original size:47 final size:47
Alignment explanation
Indices: 62375206--62375446 Score: 347
Period size: 47 Copynumber: 5.1 Consensus size: 47
62375196 GAAATGATAG
* *
62375206 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
62375253 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62375300 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
62375349 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
62375396 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62375443 TAAG
1 TAAG
62375447 TCCCGAAGGG
Statistics
Matches: 176, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 132 0.75
49 44 0.25
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62375380 original size:96 final size:96
Alignment explanation
Indices: 62375206--62375446 Score: 346
Period size: 96 Copynumber: 2.6 Consensus size: 96
62375196 GAAATGATAG
* *
62375206 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
62375269 ATGTGATGAATGTGAAAGTGTATATATGAGA
66 ATGTGATGAATGTGAAAGTATATATATGAGA
*
62375300 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
62375365 ATGTGATGAATGTGAAAGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTATATATATGAGA
* * * * * * *
62375396 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
62375447 TCCCGAAGGG
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
94 44 0.33
95 1 0.01
96 87 0.66
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTATATATATGAGA
Found at i:62375638 original size:36 final size:37
Alignment explanation
Indices: 62375565--62375642 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62375555 CTGAGCTCTA
* *
62375565 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
*
62375602 AAGACCCGATAACTTCGTGTGGAGA-TTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
62375638 AAGAC
1 AAGAC
62375643 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 16 0.42
37 22 0.58
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
Found at i:62377288 original size:17 final size:18
Alignment explanation
Indices: 62377255--62377288 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62377245 GCGTAGTTTT
*
62377255 GGTTTATCGTGTGTTCTC
1 GGTTTATCGTGTCTTCTC
62377273 GGTTTAT-GTGTCTTCT
1 GGTTTATCGTGTCTTCT
62377289 ATTCATCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.15, G:0.26, T:0.53
Consensus pattern (18 bp):
GGTTTATCGTGTCTTCTC
Found at i:62393684 original size:55 final size:55
Alignment explanation
Indices: 62393561--62393685 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 55
62393551 TGCGATATGG
* * * * * * *
62393561 CCGTGGTCGAGCCTACCAAAACAACATGGGTGTGCGACACGCCCGTGTGGAAGAA
1 CCGTGGTCGAACCTGCCAAAACAACACGAGCGTGCGACACGCCCGTGTGAAACAA
* *** ** *
62393616 CTGTGGGATAACCTGCCAAAACAACACGAGCGTTTGACACGCCCGTGTGAAACAC
1 CCGTGGTCGAACCTGCCAAAACAACACGAGCGTGCGACACGCCCGTGTGAAACAA
62393671 CCGTGGTCGAACCTG
1 CCGTGGTCGAACCTG
62393686 TTAAATTAAC
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.16
Consensus pattern (55 bp):
CCGTGGTCGAACCTGCCAAAACAACACGAGCGTGCGACACGCCCGTGTGAAACAA
Found at i:62395731 original size:12 final size:12
Alignment explanation
Indices: 62395716--62395747 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
62395706 TTTATTAAAA
62395716 TTACTTTTATTT
1 TTACTTTTATTT
62395728 TTACTTTTATTT
1 TTACTTTTATTT
62395740 TTA-TTTTA
1 TTACTTTTA
62395748 GTAAATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
TTACTTTTATTT
Found at i:62402429 original size:44 final size:43
Alignment explanation
Indices: 62402357--62402445 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 43
62402347 CAAGTATAAA
62402357 AATGTCAAATACTCCCTCAAACAATTACCATATGCATTAAATC
1 AATGTCAAATACTCCCTCAAACAATTACCATATGCATTAAATC
*
62402400 AATGTCAAATACTCACCTCAAACACTTACCATATGCATTAAATC
1 AATGTCAAATACTC-CCTCAAACAATTACCATATGCATTAAATC
62402444 AA
1 AA
62402446 ATTACAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 14 0.32
44 30 0.68
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.27
Consensus pattern (43 bp):
AATGTCAAATACTCCCTCAAACAATTACCATATGCATTAAATC
Found at i:62404057 original size:25 final size:21
Alignment explanation
Indices: 62404004--62404056 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
62403994 TGCATATGAT
62404004 TTCTATCTATCGAAAGTTGTC
1 TTCTATCTATCGAAAGTTGTC
62404025 TTCTATCTATCGAAAGTTGTC
1 TTCTATCTATCGAAAGTTGTC
*
62404046 TTCAATCTATC
1 TTCTATCTATC
62404057 TCGAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (21 bp):
TTCTATCTATCGAAAGTTGTC
Found at i:62406335 original size:40 final size:40
Alignment explanation
Indices: 62406282--62406384 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 40
62406272 AGTCCAGTTA
** * *
62406282 CTAGCACAAAGCCTGCAGGACTTTAGGCCCAGATATATTT
1 CTAGCACGTAGCCTGCAGGACCTCAGGCCCAGATATATTT
* * * *
62406322 CTAGCACGTAGCCTGTA-GACCTCAGGTCCGGATATGTTT
1 CTAGCACGTAGCCTGCAGGACCTCAGGCCCAGATATATTT
*
62406361 CCAGCACGTAGCCTGC-GGACCTCA
1 CTAGCACGTAGCCTGCAGGACCTCA
62406385 TGTCTGGATA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 38 0.73
40 14 0.27
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CTAGCACGTAGCCTGCAGGACCTCAGGCCCAGATATATTT
Found at i:62406367 original size:39 final size:39
Alignment explanation
Indices: 62406313--62406398 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
62406303 TTTAGGCCCA
* * *
62406313 GATATATTTCTAGCACGTAGCCTGTAGACCTCAGGTCCG
1 GATATGTTTCCAGCACGTAGCCTGCAGACCTCAGGTCCG
* * *
62406352 GATATGTTTCCAGCACGTAGCCTGCGGACCTCATGTCTG
1 GATATGTTTCCAGCACGTAGCCTGCAGACCTCAGGTCCG
62406391 GATATGTT
1 GATATGTT
62406399 CCAAATATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.30
Consensus pattern (39 bp):
GATATGTTTCCAGCACGTAGCCTGCAGACCTCAGGTCCG
Found at i:62413926 original size:33 final size:33
Alignment explanation
Indices: 62413884--62413946 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
62413874 GTGTAATCCC
62413884 TTATTAAACAAACAGTCAATCATACAATGGCAA
1 TTATTAAACAAACAGTCAATCATACAATGGCAA
62413917 TTATTAAACAAACAGTCAATCATACAATGG
1 TTATTAAACAAACAGTCAATCATACAATGG
62413947 AAATCATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (33 bp):
TTATTAAACAAACAGTCAATCATACAATGGCAA
Found at i:62414350 original size:27 final size:27
Alignment explanation
Indices: 62414335--62414396 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
62414325 GGGATATATC
62414335 AGTCATTTTACCTCATAAGGGTATAAA
1 AGTCATTTTACCTCATAAGGGTATAAA
** *
62414362 AGTCATTTTACCTTGT-AGAGGTATAAT
1 AGTCATTTTACCTCATAAG-GGTATAAA
62414389 AGTCATTT
1 AGTCATTT
62414397 CATCAAGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACCTCATAAGGGTATAAA
Found at i:62417651 original size:40 final size:40
Alignment explanation
Indices: 62417467--62417651 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
62417457 GCTACTCATT
* *
62417467 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
62417507 CAATTGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
62417547 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
62417586 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62417627 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62417652 CATCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62425542 original size:40 final size:40
Alignment explanation
Indices: 62425505--62425728 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
62425495 GCTACTCGTT
*
62425505 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
62425545 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
62425585 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
62425624 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62425663 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
62425704 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62425729 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 68 0.43
40 77 0.48
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62425668 original size:78 final size:80
Alignment explanation
Indices: 62425505--62425728 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
62425495 GCTACTCGTT
* * *
62425505 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
*
62425570 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
62425585 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCACACAAATGCCTTTGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
*
62425647 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * *
62425663 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCC
62425726 GGA
64 GGA
62425729 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.28
79 55 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:62425688 original size:118 final size:120
Alignment explanation
Indices: 62425505--62425728 Score: 287
Period size: 118 Copynumber: 1.9 Consensus size: 120
62425495 GCTACTCGTT
* *
62425505 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
62425570 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
* * * **
62425624 CAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
62425686 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62425729 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 4 0.04
118 54 0.60
119 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACA
Found at i:62428535 original size:39 final size:40
Alignment explanation
Indices: 62428490--62428657 Score: 115
Period size: 40 Copynumber: 4.2 Consensus size: 40
62428480 CGGGGTTTAG
* * *
62428490 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** *
62428529 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
62428569 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
62428609 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
62428650 CCGGATAT
1 CCGGATAT
62428658 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:62428640 original size:41 final size:40
Alignment explanation
Indices: 62428513--62428657 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
62428503 CTCGCACAAG
* * * * *
62428513 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
62428553 GCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
62428593 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
62428634 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
62428658 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:62435495 original size:37 final size:37
Alignment explanation
Indices: 62435395--62435497 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
62435385 CGAATAGTCC
* *
62435395 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
62435432 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
62435469 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62435498 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:62435724 original size:48 final size:48
Alignment explanation
Indices: 62435670--62436035 Score: 597
Period size: 48 Copynumber: 7.6 Consensus size: 48
62435660 GCCGAATCAC
*
62435670 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
62435718 TAGCCATTCGGCTTTACCACATATACATATCTCATACATAATTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
62435766 TATCCATTCGGCTTTACCTCATATGCATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * * **
62435814 TAGCCATTCGGCTTTATCGCATATACATATCTCATACATAGTTCACGC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
62435862 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
62435910 TAGCCATTCGGCTTTACCTCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
62435958 TAGCCATTCTGCTTTACCGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
62436006 TAGCCATTCGACTTTACCACATATACATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
62436036 ATATTTATCT
Statistics
Matches: 292, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 292 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:62442085 original size:42 final size:42
Alignment explanation
Indices: 62441960--62442087 Score: 111
Period size: 42 Copynumber: 3.0 Consensus size: 42
62441950 AGGATTTCGA
* * *
62441960 TATATGATTTCGTGTAAGACTAC-GTTTGGGAC-GTTGGCATCG
1 TATATGGTTTTGTGTAAGAC-CCTGTTTGGGACAG-TGGCATCG
* * * *
62442002 -ATTTGAGATTTATGTGTAAGACCATGTCTGGTACA-TCGGCATCG
1 TATATG-G-TTT-TGTGTAAGACCCTGTTTGGGACAGT-GGCATCG
62442046 TATATGGTTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG
1 TATATGGTTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG
62442088 ACATTTGATT
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
41 4 0.06
42 27 0.40
43 8 0.12
44 24 0.36
45 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (42 bp):
TATATGGTTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG
Found at i:62445088 original size:48 final size:48
Alignment explanation
Indices: 62445027--62445204 Score: 277
Period size: 48 Copynumber: 3.7 Consensus size: 48
62445017 AAGATGCCTC
** *
62445027 ATGTCGATGCCATGTCTTAGACATGGTCTTACACTGGCTCACATAACG
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
62445075 ATG-CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAACA
1 ATGTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* *
62445123 ATGTCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCACATAACA
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
62445171 ATGTCGATGCCATGTCCCAGACATGGTTTTACAC
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACAC
62445205 AATTACACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 1 0.01
48 116 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:62448126 original size:44 final size:46
Alignment explanation
Indices: 62448077--62448192 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 46
62448067 TATGCGTGCT
*
62448077 GATGCATGTCCCAAACATGTCTTACACTAGCAGAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-GAACTCTGTCAGGCC
* * *
62448121 GATGCATGTCCCAGACACGTCTTACACTAGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCGAACTCTGTC-AGGCC
*
62448168 GATGCATGTCCCAGACATATCTTAC
1 GATGCATGTCCCAGACATGTCTTAC
62448193 TTTGGCACTC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
43 5 0.08
44 30 0.48
46 1 0.02
47 26 0.42
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCGAACTCTGTCAGGCC
Found at i:62450042 original size:86 final size:86
Alignment explanation
Indices: 62449892--62450049 Score: 253
Period size: 86 Copynumber: 1.8 Consensus size: 86
62449882 ACAGATACGG
**
62449892 GTTAAGGGTGTTACACCATGTTCAGGATGAGGTATGGGCATTATAAATTTCTTTTTATGCCATTT
1 GTTAAGGGTGTTACACCATGTTCAGGACAAGGTATGGGCATTATAAATTTCTTTTTATGCCATTT
62449957 GGATTAATAAACACTCCTGCA
66 GGATTAATAAACACTCCTGCA
* * * * *
62449978 GTTAGGGGTGTTACACCATGTTTAGGACAAGTTATTGGCATTATGAATTTCTTTTTATGCCATTT
1 GTTAAGGGTGTTACACCATGTTCAGGACAAGGTATGGGCATTATAAATTTCTTTTTATGCCATTT
62450043 GGATTAA
66 GGATTAA
62450050 CAAATGCTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (86 bp):
GTTAAGGGTGTTACACCATGTTCAGGACAAGGTATGGGCATTATAAATTTCTTTTTATGCCATTT
GGATTAATAAACACTCCTGCA
Found at i:62455125 original size:68 final size:67
Alignment explanation
Indices: 62455053--62455200 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
62455043 CATCATGTGT
* * * *
62455053 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
62455115 ATGTAG
62 ATGTAG
* * *
62455121 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
62455186 AG
66 AG
62455188 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
62455201 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:62459561 original size:46 final size:46
Alignment explanation
Indices: 62459405--62459565 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
62459395 CTTACCAAAA
* * *
62459405 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
* * * *
62459451 GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-CGAACTCG
1 GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGAACTCG
*
62459498 GACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
62459544 GACTCAACTCAACGAGTTCGGA
1 GACTCAACTCAACGAGTTCGGA
62459566 TGCTCAACCA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 48 0.52
47 28 0.30
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
Found at i:62462210 original size:79 final size:80
Alignment explanation
Indices: 62462107--62462278 Score: 276
Period size: 79 Copynumber: 2.2 Consensus size: 80
62462097 GGACTAAGAT
*
62462107 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
62462172 -ATTCCGAGCTAAG-C
66 TA-ACCGAGCTAAGTC
*
62462186 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
* *
62462251 TAACCGGGCTATGTC
66 TAACCGAGCTAAGTC
62462266 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62462279 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
79 71 0.83
80 15 0.17
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
TAACCGAGCTAAGTC
Found at i:62462277 original size:119 final size:120
Alignment explanation
Indices: 62462054--62462278 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
62462044 TTGAATGATG
* * *
62462054 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGAGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
62462119 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
62462174 TCCGAGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
62462236 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTG
62462279 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 72 0.78
120 19 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGAGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62462285 original size:40 final size:40
Alignment explanation
Indices: 62462054--62462278 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
62462044 TTGAATGATG
* * * *
62462054 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
62462094 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
62462134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62462174 TCCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62462213 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62462254 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62462279 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.22
40 115 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62466922 original size:25 final size:25
Alignment explanation
Indices: 62466894--62466948 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
62466884 ACACGAGTCA
62466894 TAATTGACAAATTTTGTGACAGCCC
1 TAATTGACAAATTTTGTGACAGCCC
62466919 TAATTGACAAATTTTGTGACAGCCC
1 TAATTGACAAATTTTGTGACAGCCC
62466944 TAATT
1 TAATT
62466949 TGACCCTGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (25 bp):
TAATTGACAAATTTTGTGACAGCCC
Found at i:62468837 original size:29 final size:29
Alignment explanation
Indices: 62468802--62468875 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
62468792 GTTGTAAGAT
* *
62468802 TGGCACTAAGTGTGCGGGCTTCAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTCAAAGTACA
* *
62468831 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTCAAAGTACA
62468860 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62468876 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTCAAAGTACA
Found at i:62477191 original size:29 final size:29
Alignment explanation
Indices: 62477156--62477229 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
62477146 GTTGTAAGAT
* *
62477156 TGGCACTAAGTGTGCGGGCTTCAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTCAAAGTACA
* *
62477185 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTCAAAGTACA
62477214 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62477230 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTCAAAGTACA
Found at i:62483483 original size:68 final size:68
Alignment explanation
Indices: 62483374--62483509 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
62483364 TGACATTTTG
* *
62483374 GAGAATGCTAGAATAAAACTAATGAAGCTTGTTACAAATGTGGTTCGCTAGATCATTTCATTTGA
1 GAGAATCCTAGAATAAAACTAATGAAGCTTGTTACAAATGTGGTCCGCTAGATCATTTCATTTGA
62483439 GAT
66 GAT
62483442 GAGAATCCTAGAATAAAACTAATGAAGCTTGTTACAAATGTGGTCCGCTAGATCATTTCATTTGA
1 GAGAATCCTAGAATAAAACTAATGAAGCTTGTTACAAATGTGGTCCGCTAGATCATTTCATTTGA
62483507 GAT
66 GAT
62483510 TTTCCTGAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (68 bp):
GAGAATCCTAGAATAAAACTAATGAAGCTTGTTACAAATGTGGTCCGCTAGATCATTTCATTTGA
GAT
Found at i:62484798 original size:28 final size:29
Alignment explanation
Indices: 62484749--62484816 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
62484739 AAAGCCGAAA
** *
62484749 GTGATTGGGCCTGATGGGCCATAT-AAAT
1 GTGATTGGGCCTGACAGACCATATAAAAT
62484777 GTGATTGGGCCTGACAGACCATATGAAAAT
1 GTGATTGGGCCTGACAGACCATAT-AAAAT
62484807 GT--TTGGGCCT
1 GTGATTGGGCCT
62484817 AAAGGAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 29 0.83
30 6 0.17
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
GTGATTGGGCCTGACAGACCATATAAAAT
Found at i:62486415 original size:58 final size:58
Alignment explanation
Indices: 62486325--62486441 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
62486315 TTTATTATTA
62486325 AGCTTGTTTAATTTCGTATACTGTAGATAGTTAGTGGGCTATTTTAGATGATTATACT
1 AGCTTGTTTAATTTCGTATACTGTAGATAGTTAGTGGGCTATTTTAGATGATTATACT
62486383 AGCTTGTTTAATTT-GATATACTGTAGATAGTTAGTGGGCTATTTTAGATGATTATACT
1 AGCTTGTTTAATTTCG-TATACTGTAGATAGTTAGTGGGCTATTTTAGATGATTATACT
62486441 A
1 A
62486442 AGGCTTTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 1 0.02
58 57 0.98
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (58 bp):
AGCTTGTTTAATTTCGTATACTGTAGATAGTTAGTGGGCTATTTTAGATGATTATACT
Found at i:62488228 original size:30 final size:29
Alignment explanation
Indices: 62488185--62488245 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
62488175 CAAGTAACCG
*
62488185 AAGCTAGTTAAATCGCACATTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
*
62488214 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
62488244 AA
1 AA
62488246 CCTTCCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:62495340 original size:37 final size:37
Alignment explanation
Indices: 62495290--62495442 Score: 245
Period size: 37 Copynumber: 4.1 Consensus size: 37
62495280 TTATTACGAA
* * *
62495290 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62495327 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGA-AGTCATCGG
*
62495364 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62495401 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62495438 GTCTT
1 GTCTT
62495443 TAGAGCTCGG
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
36 1 0.01
37 109 0.99
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62495639 original size:47 final size:47
Alignment explanation
Indices: 62495561--62495767 Score: 333
Period size: 47 Copynumber: 4.4 Consensus size: 47
62495551 CCCTTCGGGA
* * * * * *
62495561 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62495608 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62495655 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62495702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62495749 CTTATCACATATATACACT
1 CTTATCACATATATACACT
62495768 GTCTTCACTG
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62499059 original size:21 final size:21
Alignment explanation
Indices: 62499025--62499064 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62499015 AATGGTCATG
*
62499025 GATGATTTGAGAGTGACTTAA
1 GATGATTTGAGAGTCACTTAA
**
62499046 GATGATTTTCGAGTCACTT
1 GATGATTTGAGAGTCACTT
62499065 TTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (21 bp):
GATGATTTGAGAGTCACTTAA
Found at i:62499602 original size:28 final size:28
Alignment explanation
Indices: 62499569--62499687 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
62499559 ATTGCATGAC
*
62499569 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
62499597 TATGAAAGTGATTGGGCTTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
62499625 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* * * *
62499653 TATGAATGAGATTAGGCCTAAAGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
62499681 AATGAAT
1 TATGAAT
62499688 AAGTACGGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:62501913 original size:16 final size:16
Alignment explanation
Indices: 62501892--62501924 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62501882 CCCTTTGCCA
62501892 TGATTAGATGATTTGT
1 TGATTAGATGATTTGT
62501908 TGATTAGATGATTTGT
1 TGATTAGATGATTTGT
62501924 T
1 T
62501925 TGATCAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (16 bp):
TGATTAGATGATTTGT
Found at i:62503972 original size:453 final size:453
Alignment explanation
Indices: 62503122--62504020 Score: 1458
Period size: 453 Copynumber: 2.0 Consensus size: 453
62503112 ATTTGTTTCA
* * *
62503122 AAATGTTTGATTTGTCAGGAAGTCAAAGCTGAGCATCAAGTGCCGTCAAGTTTATTACAGCCGAT
1 AAATGTTTGATTTGTCAGCAAGTCAAAGCTAAGCATCAAATGCCGTCAAGTTTATTACAGCCGAT
* *
62503187 TATGATTCCTGAGTGGAAGTGGGATAGAGTAATAATGGATTTCGTATTAGGTTAGCCCTTATCTC
66 TATGATTCCTAAGTAGAAGTGGGATAGAGTAATAATGGATTTCGTATTAGGTTAGCCCTTATCTC
* * *
62503252 TAAAAAACAAAGATGCGATCTGGGTTGTTGTTGACAGATTGACGAAATCAACTCATTTCATTTTG
131 CAAAAAACAAAGATGCGATCTAGGTTGTTGTTGACAAATTGACGAAATCAACTCATTTCATTTTG
* *
62503317 GTACGTATGGATTTCTCGCTAGATAAATTAGGTATATTTCTGAAATTGTAAGATTACATGGTGTT
196 GTACATATAGATTTCTCGCTAGATAAATTAGGTATATTTCTGAAATTGTAAGATTACATGGTGTT
* * * *
62503382 CCCCTATCTATTATTTCGGATAAAGACCGAAGATTTACTTTGAGATTTTATAAGATATTGCAAGA
261 CCCCTATATATTATTTCGGATAAAGACCCAAGATTTACTTCGAGATTTTAGAAGATATTGCAAGA
*
62503447 AGCTTTGGGTTCAAAGCTGCATTTTTTAGCACTGCATTTCACCCGCAAATGAATGGTCAATCCGA
326 AGCTTTGGGTTCAAAGCTGCATTTTTTAGCACTGCATTTCACCCGCAAACGAATGGTCAATCCGA
62503512 ACAAGTTATTCAGATACTTGAGGATATGTTGCGTTGTTGCATTCTTGAGTTTGAAGTGTTTTG
391 ACAAGTTATTCAGATACTTGAGGATATGTTGCGTTGTTGCATTCTTGAGTTTGAAGTGTTTTG
* * * *
62503575 AAATGTTTGATTTGTTAGCAAGTCAAAGCTAAGCATCAAATGCCGTCAGGTTTATTATAGCCTAT
1 AAATGTTTGATTTGTCAGCAAGTCAAAGCTAAGCATCAAATGCCGTCAAGTTTATTACAGCCGAT
* * *
62503640 TATGATTCCTAAGTAGAAGTGGGATAGAGTACTAATGGATTTCGTATTATGTTTA-CCCTTTTCT
66 TATGATTCCTAAGTAGAAGTGGGATAGAGTAATAATGGATTTCGTATTA-GGTTAGCCCTTATCT
* * * *
62503704 CCGAAAAAGAAAGATGTGATCTAGGTTGTTGTTGGCAAATTGACGAAATCAACTCATTTCATTTT
130 CCAAAAAACAAAGATGCGATCTAGGTTGTTGTTGACAAATTGACGAAATCAACTCATTTCATTTT
*
62503769 GGTACATATAGATTTCTCGCTAGATAAATTAGGTATATTTCTGAAATTGTGAGATTACATGGTGT
195 GGTACATATAGATTTCTCGCTAGATAAATTAGGTATATTTCTGAAATTGTAAGATTACATGGTGT
* * * *
62503834 TCCCCTATATATTGTTTCGGATAGAGACCCAAGATTTACTTCGATATTTTGGAAGATATTGCAAG
260 TCCCCTATATATTATTTCGGATAAAGACCCAAGATTTACTTCGAGATTTTAGAAGATATTGCAAG
* * *
62503899 AAGCTTTGGGTTCAAAGCTGCATTTTTTAGCACTGTATTTCACCCGCAAACGGATGGTCAATTCG
325 AAGCTTTGGGTTCAAAGCTGCATTTTTTAGCACTGCATTTCACCCGCAAACGAATGGTCAATCCG
* *
62503964 ATCAAGTTATTTAGATACTTGAGGATATGTTGCGTTGTTGCATTCTTGAGTTTGAAG
390 AACAAGTTATTCAGATACTTGAGGATATGTTGCGTTGTTGCATTCTTGAGTTTGAAG
62504021 GTAGCTGGGA
Statistics
Matches: 409, Mismatches: 36, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
453 405 0.99
454 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (453 bp):
AAATGTTTGATTTGTCAGCAAGTCAAAGCTAAGCATCAAATGCCGTCAAGTTTATTACAGCCGAT
TATGATTCCTAAGTAGAAGTGGGATAGAGTAATAATGGATTTCGTATTAGGTTAGCCCTTATCTC
CAAAAAACAAAGATGCGATCTAGGTTGTTGTTGACAAATTGACGAAATCAACTCATTTCATTTTG
GTACATATAGATTTCTCGCTAGATAAATTAGGTATATTTCTGAAATTGTAAGATTACATGGTGTT
CCCCTATATATTATTTCGGATAAAGACCCAAGATTTACTTCGAGATTTTAGAAGATATTGCAAGA
AGCTTTGGGTTCAAAGCTGCATTTTTTAGCACTGCATTTCACCCGCAAACGAATGGTCAATCCGA
ACAAGTTATTCAGATACTTGAGGATATGTTGCGTTGTTGCATTCTTGAGTTTGAAGTGTTTTG
Found at i:62508398 original size:50 final size:50
Alignment explanation
Indices: 62508279--62508574 Score: 227
Period size: 50 Copynumber: 5.9 Consensus size: 50
62508269 ATTGTGATAA
* * *** * *
62508279 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTGTATGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-T-TAGGT
* * * *
62508331 CACGTGTATAGTACTAAGTGCAGGCTACTACGTTTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * * * * * * *
62508381 TGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
62508432 CACGTGTGTAGTACTAAATGCAGGCTACTACATGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
62508482 CACGTATGTAGTACTAATTGCAGGCTACTACGTGTACCAAATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
62508531 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
62508575 CTTCAGTTAC
Statistics
Matches: 188, Mismatches: 53, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
49 38 0.20
50 78 0.41
51 36 0.19
52 36 0.19
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:62508460 original size:101 final size:101
Alignment explanation
Indices: 62508330--62508511 Score: 249
Period size: 101 Copynumber: 1.8 Consensus size: 101
62508320 TGGTTGTATG
* * * ** *
62508330 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTTTA-CTAGATAGTTAGGTTGCATGTGTAGTA
1 TCACGTGTATAGTACTAAATGCAGGCTACTACATGTATC-AGATAGTTAGGTCACATATGTAGTA
62508394 CTAAGTGCAAGCTACTATGCGTACCCGACAACTTCAA
65 CTAAGTGCAAGCTACTATGCGTACCCGACAACTTCAA
* * *
62508431 TCACGTGTGTAGTACTAAATGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTATGTAGTAC
1 TCACGTGTATAGTACTAAATGCAGGCTACTACATGTATCAGATAGTTAGGTCACATATGTAGTAC
* *
62508496 TAATTGCAGGCTACTA
66 TAAGTGCAAGCTACTA
62508512 CGTGTACCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
101 68 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (101 bp):
TCACGTGTATAGTACTAAATGCAGGCTACTACATGTATCAGATAGTTAGGTCACATATGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGACAACTTCAA
Found at i:62508579 original size:150 final size:153
Alignment explanation
Indices: 62508283--62508568 Score: 398
Period size: 151 Copynumber: 1.9 Consensus size: 153
62508273 TGATAACACA
** ** * * *
62508283 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTGTATGTCACGTGTATAGTACTAA
1 TGTGTAGTACTAAATGCAGGCTACTACATGTATAAGATGGTTGTAGGTCACGTATATAGTACTAA
* * * *
62508348 GTGCAGGCTACTACGTTTACTAGATAGTTAGGTTGCATGTGTAGTACTAAGTGCAAGCTACTATG
66 GTGCAGGCTACTACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
62508413 CGTACCCGACAACTTCAATCACG
131 CGTACCCGACAACTTCAATCACG
* *
62508436 TGTGTAGTACTAAATGCAGGCTACTACATGTATCAGATGG-T-TAGGTCACGTATGTAGTACTAA
1 TGTGTAGTACTAAATGCAGGCTACTACATGTATAAGATGGTTGTAGGTCACGTATATAGTACTAA
* * * *
62508499 TTGCAGGCTACTACGTGTACCAAATTGTT-GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATG
66 GTGCAGGCTACTACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
62508563 CGTACC
131 CGTACC
62508569 TGATAGCTTC
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
150 38 0.33
151 43 0.37
152 1 0.01
153 34 0.29
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (153 bp):
TGTGTAGTACTAAATGCAGGCTACTACATGTATAAGATGGTTGTAGGTCACGTATATAGTACTAA
GTGCAGGCTACTACGTGTACCAAATAGTTAGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
CGTACCCGACAACTTCAATCACG
Found at i:62508793 original size:16 final size:15
Alignment explanation
Indices: 62508772--62508801 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
62508762 GAATGGAGTA
62508772 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
62508788 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
62508802 TAAAACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:62515914 original size:23 final size:22
Alignment explanation
Indices: 62515862--62515914 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
62515852 TCCACGTCTT
*
62515862 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
62515884 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
62515907 TTTCTTTT
1 TTTCTTTT
62515915 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:62519370 original size:28 final size:28
Alignment explanation
Indices: 62519307--62519488 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
62519297 ATATTAAGTC
*
62519307 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62519334 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62519362 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62519390 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62519418 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62519446 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
62519475 CGTACACTTAGTGC
1 CGCACACTTAGTGC
62519489 CAATCTCATG
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
27 21 0.15
28 104 0.73
29 18 0.13
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62533529 original size:14 final size:14
Alignment explanation
Indices: 62533510--62533539 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62533500 TTTTGATTAA
62533510 ATAACTGAAGGTAT
1 ATAACTGAAGGTAT
62533524 ATAACTGAAGGTAT
1 ATAACTGAAGGTAT
62533538 AT
1 AT
62533540 GTGAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
ATAACTGAAGGTAT
Found at i:62534009 original size:27 final size:27
Alignment explanation
Indices: 62533971--62534598 Score: 623
Period size: 27 Copynumber: 23.7 Consensus size: 27
62533961 TAATAAAGAG
62533971 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
62533998 AAATTATCGAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
**
62534024 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
62534051 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
**
62534077 AAATTATTAAAATACCCTCGATTTGT-
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
62534103 AAATTACCGAAATACCCTC-AATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
62534129 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
62534156 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
**
62534182 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
62534209 AAATTA-CTAAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
**
62534235 AAATTATTAAAATACCCTCGATTTGT-
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
62534261 AAATTACCGAAATACCCTC-AATTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
62534287 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
62534314 AAATTACCGAAATACCCTCTA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
62534340 AAATTACCAAAACACTCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* **
62534367 AAATTA-CTGAAATACCTTAAATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
62534394 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
62534420 AAATTA-CTAAAATACCCTCAATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
62534447 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
62534473 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
62534500 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
62534527 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
62534554 AAATT-TCCAAA-ACACTTCCGATTTGTA
1 AAATTATCGAAATAC-CCT-CGATTTGTA
*
62534581 AAATTATCAAAATACCCT
1 AAATTATCGAAATACCCT
62534599 TATAGTGTTA
Statistics
Matches: 509, Mismatches: 64, Indels: 55
0.81 0.10 0.09
Matches are distributed among these distances:
25 15 0.03
26 229 0.45
27 252 0.50
28 11 0.02
29 2 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:62534027 original size:53 final size:53
Alignment explanation
Indices: 62533970--62534625 Score: 775
Period size: 53 Copynumber: 12.4 Consensus size: 53
62533960 ATAATAAAGA
* * *
62533970 GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
* * *
62534023 GAAATTATTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
*
62534076 GAAATTATTAAAATACCCTCGATTTGT-AAATTACCGAAATACCCTCAATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
* * *
62534128 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
* ** *
62534181 GAAATTATTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
*
62534234 GAAATTATTAAAATACCCTCGATTTGT-AAATTACCGAAATACCCTCAATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
* *
62534286 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCTATTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
* * * * * *
62534339 GAAATTACCAAAACACTCTCGATTTGTAAAATTACTGAAATACCTTAAATTTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAA-TTGT
* * * **
62534393 AAAATTACCAAAATACCCTCGA-TTGTGAAATTACTAAAATACCCTCAATTTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAA-TTGT
* * * * * *
62534446 AAAATTACTGAAATACCCTCGA-TTGTGAAATTATCGAAACACCCTCGATTTGT
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-AATTGT
* * *
62534499 AAAATTA-TCGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCAATTTGT
1 GAAATTACT-AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAA-TTGT
* * * * * * * * *
62534553 AAAATTTCCAAAACA-CTTCCGATTTGTAAAATTATCAAAATACCCTTATAGTGT
1 GAAATTACTAAAATACCCT-CGATTTGTAAAATTACCGAAATACCCTCA-ATTGT
* *
62534607 TAAATTACCAAAATACCCT
1 GAAATTACTAAAATACCCT
62534626 TGTAGTGTAA
Statistics
Matches: 534, Mismatches: 58, Indels: 20
0.87 0.09 0.03
Matches are distributed among these distances:
52 96 0.18
53 335 0.63
54 100 0.19
55 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTGT
Found at i:62534190 original size:158 final size:158
Alignment explanation
Indices: 62533970--62534545 Score: 877
Period size: 158 Copynumber: 3.6 Consensus size: 158
62533960 ATAATAAAGA
* *
62533970 GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTGTGAAATTATTAAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTATCAAA
*
62534035 ATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTGTGAAATTATTAAAATACCCTCGATT
66 ATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTGTGAAATTATTAAAATACCCTCGATT
62534100 TGTAAATTACCGAAATACCCTCAATTGT
131 TGTAAATTACCGAAATACCCTCAATTGT
* *
62534128 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTATTAAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTATCAAA
62534193 ATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTGTGAAATTATTAAAATACCCTCGATT
66 ATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTGTGAAATTATTAAAATACCCTCGATT
62534258 TGTAAATTACCGAAATACCCTCAATTGT
131 TGTAAATTACCGAAATACCCTCAATTGT
* *
62534286 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCTATTGTGAAATTACCAAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTATCAAA
* * * * ** * **
62534351 ACACTCTCGATTTGTAAAATTACTGAAATACCTTAAATTTGTAAAATTACCAAAATACCCTCGA-
66 ATACCCTCGATTTGTAAAATTACTAAAATACCCTCGA-TTGTGAAATTATTAAAATACCCTCGAT
**
62534415 TTGTGAAATTACTAAAATACCCTCAATTTGT
130 TTGT-AAATTACCGAAATACCCTCAA-TTGT
* * * * * *
62534446 AAAATTACTGAAATACCCTCGA-TTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTATCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTGAAATTATCAA
*
62534510 AATACCCTCGATTTGTAAAATTACCAAAATACCCTC
65 AATACCCTCGATTTGTAAAATTACTAAAATACCCTC
62534546 AATTTGTAAA
Statistics
Matches: 382, Mismatches: 32, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
158 251 0.66
159 64 0.17
160 67 0.18
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (158 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTATCAAA
ATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTGTGAAATTATTAAAATACCCTCGATT
TGTAAATTACCGAAATACCCTCAATTGT
Found at i:62534611 original size:27 final size:27
Alignment explanation
Indices: 62534103--62534665 Score: 150
Period size: 27 Copynumber: 21.1 Consensus size: 27
62534093 CTCGATTTGT
* * * *
62534103 AAATTACCGAAATACCCTCA-ATTGTG
1 AAATTACCAAAATACCCTTATAGTGTA
** * *
62534129 AAATTACTGAAATACCCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
* *
62534156 AAATTACCAAAATACCCTCGAT--TGTG
1 AAATTACCAAAATACCCT-TATAGTGTA
** * *
62534182 AAATTATTAAAATACCCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
* * *
62534209 AAATTACTAAAATACCCTCGAT--TGTG
1 AAATTACCAAAATACCCT-TATAGTGTA
** * *
62534235 AAATTATTAAAATACCCTCGAT-TTGT-
1 AAATTACCAAAATACCCT-TATAGTGTA
* * * *
62534261 AAATTACCGAAATACCCTCA-ATTGTG
1 AAATTACCAAAATACCCTTATAGTGTA
** * *
62534287 AAATTACTGAAATACCCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
* *
62534314 AAATTACCGAAATACCCTCTAT--TGTG
1 AAATTACCAAAATACCCT-TATAGTGTA
* * * *
62534340 AAATTACCAAAACACTCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
** * *
62534367 AAATTACTGAAATA-CCTTAAATTTGTA
1 AAATTACCAAAATACCCTTATA-GTGTA
* *
62534394 AAATTACCAAAATACCCTCGAT--TGTG
1 AAATTACCAAAATACCCT-TATAGTGTA
* * *
62534420 AAATTACTAAAATACCCTCA-ATTTGTA
1 AAATTACCAAAATACCCTTATA-GTGTA
** * *
62534447 AAATTACTGAAATACCCTCGAT--TGTG
1 AAATTACCAAAATACCCT-TATAGTGTA
* * * * *
62534473 AAATTATCGAAACACCCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
* * * *
62534500 AAATTATCGAAATACCCTCGAT-TTGTA
1 AAATTACCAAAATACCCT-TATAGTGTA
* *
62534527 AAATTACCAAAATACCCTCA-ATTTGTA
1 AAATTACCAAAATACCCTTATA-GTGTA
* * * *
62534554 AAATTTCCAAAACACTTCC-GAT-TTGTA
1 AAATTACCAAAATAC--CCTTATAGTGTA
* *
62534581 AAATTATCAAAATACCCTTATAGTGTT
1 AAATTACCAAAATACCCTTATAGTGTA
*
62534608 AAATTACCAAAATACCCTTGTAGTGTA
1 AAATTACCAAAATACCCTTATAGTGTA
* * * * * *
62534635 AAATAACCGACAGACCCCTATAGGGTA
1 AAATTACCAAAATACCCTTATAGTGTA
62534662 AAAT
1 AAAT
62534666 GACTATTTTG
Statistics
Matches: 440, Mismatches: 71, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
25 9 0.02
26 164 0.37
27 259 0.59
28 5 0.01
29 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTATAGTGTA
Found at i:62535142 original size:11 final size:11
Alignment explanation
Indices: 62535126--62535151 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62535116 ATTGCATGTA
62535126 TGATATTATTG
1 TGATATTATTG
62535137 TGATATTATTG
1 TGATATTATTG
62535148 TGAT
1 TGAT
62535152 GTAGCCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:62538353 original size:14 final size:14
Alignment explanation
Indices: 62538334--62538363 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62538324 TTTTGATTAA
62538334 ATAACTGAAGGTAT
1 ATAACTGAAGGTAT
62538348 ATAACTGAAGGTAT
1 ATAACTGAAGGTAT
62538362 AT
1 AT
62538364 GTGAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
ATAACTGAAGGTAT
Found at i:62544264 original size:901 final size:901
Alignment explanation
Indices: 62542524--62544328 Score: 3511
Period size: 901 Copynumber: 2.0 Consensus size: 901
62542514 TTAAAGGTGG
62542524 TAAAATAAGACACAAGAAGATCTGTGGTAAAGTGGCATGTGACACCACATAGGTGTTTGGGAAGT
1 TAAAATAAGACACAAGAAGATCTGTGGTAAAGTGGCATGTGACACCACATAGGTGTTTGGGAAGT
62542589 CGCGTGTGGAGGTTTAGGGGGAGCCAAGGTTCAAGCCGCAAGGTAAGTTAAATAGGGTATTTATT
66 CGCGTGTGGAGGTTTAGGGGGAGCCAAGGTTCAAGCCGCAAGGTAAGTTAAATAGGGTATTTATT
62542654 TTTGTGAACAGGAAAGGTAGGTATTGGAACGTAAGTGGAACTCTATGAGGAAGAGTTTGAGCTGT
131 TTTGTGAACAGGAAAGGTAGGTATTGGAACGTAAGTGGAACTCTATGAGGAAGAGTTTGAGCTGT
62542719 TCAGGGGATTGGGTAAGGGAGAGATAAGGGAGGAAATTTAGGAGCTAATCAAGGAGCTTGGTGTT
196 TCAGGGGATTGGGTAAGGGAGAGATAAGGGAGGAAATTTAGGAGCTAATCAAGGAGCTTGGTGTT
*
62542784 GGCCGAATGTTGGACTCTTGAGGAGCAAGAGTTGGCTAGCCAAGGGTCTTTAGTTCAGGTAAATT
261 GGCCGAATGTTGGACTCTTGAGGAGCAAGAGTTGGCCAGCCAAGGGTCTTTAGTTCAGGTAAATT
62542849 TGGCTAGGTCATTTAGTGTTGGGAATTTCGACATTTGGACTTGTGGCTGCCGAATTCTTTTTGCA
326 TGGCTAGGTCATTTAGTGTTGGGAATTTCGACATTTGGACTTGTGGCTGCCGAATTCTTTTTGCA
*
62542914 TTTTTGGGACTGGGTTGGTCATTCTGCTGTTCTACCGAAAGAGAGTGGGGTACCTAGGGTTTTCT
391 TTTTTGGGACTGGGTTGGTCATTCTGCTGTTCTACCGAAAGAGAGTGGGGCACCTAGGGTTTTCT
* *
62542979 CTTTTTCTTTCTTTTTTTAGAATCTGAAACTTACACCTTACACCTATGCTGACTTCTCTTCTTCA
456 CTTTTTCTTTCTTTTTTTAGAAGCTGAAACTTACACCTTACACCTATGCTAACTTCTCTTCTTCA
62543044 AGAACCAAATTCTCTCATCTCCTCCCCTCTTCTTTTCTCTTTTCTTTTCTTGTCGACTCTCGTCT
521 AGAACCAAATTCTCTCATCTCCTCCCCTCTTCTTTTCTCTTTTCTTTTCTTGTCGACTCTCGTCT
62543109 TCTTTATCCCTGTTTCCTCTGAAAACCAAGTACCTGCTACCGATTACCCCTTGGGCGAACCTAAA
586 TCTTTATCCCTGTTTCCTCTGAAAACCAAGTACCTGCTACCGATTACCCCTTGGGCGAACCTAAA
62543174 TCTTTCATATTTCTCTTCTTATTTTCCCTCATAAACCTTTACCAAAGAACTGGTTAGCCGAAACT
651 TCTTTCATATTTCTCTTCTTATTTTCCCTCATAAACCTTTACCAAAGAACTGGTTAGCCGAAACT
*
62543239 CCATTGAAGCCGAACCTTTCGTTCTTTCTTTCAAAACTGAAACTTTTCTACACCGAGGTACTTCA
716 CCATTGAAGCCGAACCTTTCGTTCTTTCTTTCAAAACTAAAACTTTTCTACACCGAGGTACTTCA
*
62543304 AACGCTGAATCCTTGAGTATAATTTTCCTTTCTTGTACTGTGGTTGGATCTACAGTAGATCGGGA
781 AACGCTGAATCCTTGAGTATAATTTTCCCTTCTTGTACTGTGGTTGGATCTACAGTAGATCGGGA
62543369 GTAGTTTCATAACTATATAGGTAAGTGTTCGGATCCTTCTTTAGTTACTCATGATT
846 GTAGTTTCATAACTATATAGGTAAGTGTTCGGATCCTTCTTTAGTTACTCATGATT
62543425 TAAAATAAGACACAAGAAGATCTGTGGTAAAGTGGCATGTGACACCACATAGGTGTTTGGGAAGT
1 TAAAATAAGACACAAGAAGATCTGTGGTAAAGTGGCATGTGACACCACATAGGTGTTTGGGAAGT
62543490 CGCGTGTGGAGGTTTAGGGGGAGCCAAGGTTCAAGCCGCAAGGTAAGTTAAATAGGGTATTTATT
66 CGCGTGTGGAGGTTTAGGGGGAGCCAAGGTTCAAGCCGCAAGGTAAGTTAAATAGGGTATTTATT
*
62543555 TTTGTGAACAGGAAAGGTAGGTATTGGAACGTAGGTGGAACTCTATGAGGAAGAGTTTGAGCTGT
131 TTTGTGAACAGGAAAGGTAGGTATTGGAACGTAAGTGGAACTCTATGAGGAAGAGTTTGAGCTGT
62543620 TCAGGGGATTGGGTAAGGGAGAGATAAGGGAGGAAATTTAGGAGCTAATCAAGGAGCTTGGTGTT
196 TCAGGGGATTGGGTAAGGGAGAGATAAGGGAGGAAATTTAGGAGCTAATCAAGGAGCTTGGTGTT
62543685 GGCCGAATGTTGGACTCTTGAGGAGCAAGAGTTGGCCAGCCAAGGGTCTTTAGTTCAGGTAAATT
261 GGCCGAATGTTGGACTCTTGAGGAGCAAGAGTTGGCCAGCCAAGGGTCTTTAGTTCAGGTAAATT
62543750 TGGCTAGGTCATTTAGTGTTGGGAATTTCGACATTTGGACTTGTGGCTGCCGAATTCTTTTTGCA
326 TGGCTAGGTCATTTAGTGTTGGGAATTTCGACATTTGGACTTGTGGCTGCCGAATTCTTTTTGCA
* *
62543815 TTTTTGGGACTGGGTTGGTCATTCTGCTGTTCTGCGGAAAGAGAGTGGGGCACCTAGGGTTTTCT
391 TTTTTGGGACTGGGTTGGTCATTCTGCTGTTCTACCGAAAGAGAGTGGGGCACCTAGGGTTTTCT
*
62543880 CTTTTTCTTTCTTTTTTTAGAAGCTGAAACTTACACCTTACACCTGTGCTAACTTCTCTTCTTCA
456 CTTTTTCTTTCTTTTTTTAGAAGCTGAAACTTACACCTTACACCTATGCTAACTTCTCTTCTTCA
62543945 AGAACCAAATTCTCTCATCTCCTCCCCTCTTCTTTTCTCTTTTCTTTTCTTGTCGACTCTCGTCT
521 AGAACCAAATTCTCTCATCTCCTCCCCTCTTCTTTTCTCTTTTCTTTTCTTGTCGACTCTCGTCT
62544010 TCTTTATCCCTGTTTCCTCTGAAAACCAAGTACCTGCTACCGATTACCCCTTGGGCGAACCTAAA
586 TCTTTATCCCTGTTTCCTCTGAAAACCAAGTACCTGCTACCGATTACCCCTTGGGCGAACCTAAA
*
62544075 TCTTTCATATTTCTCTTCTTATTTTCCCTCATAAACCTTTATCAAAGAACTGGTTAGCCGAAACT
651 TCTTTCATATTTCTCTTCTTATTTTCCCTCATAAACCTTTACCAAAGAACTGGTTAGCCGAAACT
62544140 CCATTGAAGCCGAACCTTTCGTTCTTTCTTTCAAAACTAAAACTTTTCTACACCGAGGTACTTCA
716 CCATTGAAGCCGAACCTTTCGTTCTTTCTTTCAAAACTAAAACTTTTCTACACCGAGGTACTTCA
62544205 AACGCTGAATCCTTGAGTATAATTTTCCCTTCTTGTACTGTGGTTGGATCTACAGTAGATCGGGA
781 AACGCTGAATCCTTGAGTATAATTTTCCCTTCTTGTACTGTGGTTGGATCTACAGTAGATCGGGA
62544270 GTAGTTTCATAACTATATAGGTAAGTGTTCGGATCCTTCTTTAGTTACTCATGATT
846 GTAGTTTCATAACTATATAGGTAAGTGTTCGGATCCTTCTTTAGTTACTCATGATT
62544326 TAA
1 TAA
62544329 GGTAAAAGCC
Statistics
Matches: 893, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
901 893 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (901 bp):
TAAAATAAGACACAAGAAGATCTGTGGTAAAGTGGCATGTGACACCACATAGGTGTTTGGGAAGT
CGCGTGTGGAGGTTTAGGGGGAGCCAAGGTTCAAGCCGCAAGGTAAGTTAAATAGGGTATTTATT
TTTGTGAACAGGAAAGGTAGGTATTGGAACGTAAGTGGAACTCTATGAGGAAGAGTTTGAGCTGT
TCAGGGGATTGGGTAAGGGAGAGATAAGGGAGGAAATTTAGGAGCTAATCAAGGAGCTTGGTGTT
GGCCGAATGTTGGACTCTTGAGGAGCAAGAGTTGGCCAGCCAAGGGTCTTTAGTTCAGGTAAATT
TGGCTAGGTCATTTAGTGTTGGGAATTTCGACATTTGGACTTGTGGCTGCCGAATTCTTTTTGCA
TTTTTGGGACTGGGTTGGTCATTCTGCTGTTCTACCGAAAGAGAGTGGGGCACCTAGGGTTTTCT
CTTTTTCTTTCTTTTTTTAGAAGCTGAAACTTACACCTTACACCTATGCTAACTTCTCTTCTTCA
AGAACCAAATTCTCTCATCTCCTCCCCTCTTCTTTTCTCTTTTCTTTTCTTGTCGACTCTCGTCT
TCTTTATCCCTGTTTCCTCTGAAAACCAAGTACCTGCTACCGATTACCCCTTGGGCGAACCTAAA
TCTTTCATATTTCTCTTCTTATTTTCCCTCATAAACCTTTACCAAAGAACTGGTTAGCCGAAACT
CCATTGAAGCCGAACCTTTCGTTCTTTCTTTCAAAACTAAAACTTTTCTACACCGAGGTACTTCA
AACGCTGAATCCTTGAGTATAATTTTCCCTTCTTGTACTGTGGTTGGATCTACAGTAGATCGGGA
GTAGTTTCATAACTATATAGGTAAGTGTTCGGATCCTTCTTTAGTTACTCATGATT
Found at i:62545621 original size:455 final size:455
Alignment explanation
Indices: 62544758--62545659 Score: 1493
Period size: 455 Copynumber: 2.0 Consensus size: 455
62544748 GATGGTTTGC
* * *
62544758 TTGTTAATCTTGGTAATCTCAAGTGGTAAGATTGCAGAGTGTGTAATTTCATGCACTTTGGTACA
1 TTGTTAATCCTGGTAATCTCAAGTGGTAAGATTGCAGAGTGCGTAATTTCATGCACTTCGGTACA
* * *
62544823 TTTGGGCTTAATTGGCCGAAAATGGGTTAATGGGCCAACGGGCCCAATTCGGTAAAAAATGCTCA
66 TTTGGGCTTAATGGGCCGAAAACGGGTTAATGGGCCAACAGGCCCAATTCGGTAAAAAATGCTCA
* * *
62544888 GTAAGTGTTTCTGTTAATATGTTAATGGTTGTAACATGCATGAAAACCCTAAAATAGTAAATTTA
131 GTAAGTCTTTCTGTTAATACGTTAATGGCTGTAACATGCATGAAAACCCTAAAATAGTAAATTTA
* *
62544953 CTAAAATAACCCTAAGTATGAAAGTACCATTATACCCCTAGATGCAGAATGACCGTTATACCCCT
196 ATAAAATAACCCTAAGTATGAAAGTACCATTATACCCCTAGATGCAAAATGACCGTTATACCCCT
*
62545018 AAGGTTAATTTTGACTGAAATACATGATATTCTGAATCTGTTTATGGTATGGCATGACATATATA
261 AAGGTTAATTTTGACTGAAATACATGATATTCTGAATCTGTTTATGGTATAGCATGACATATATA
*
62545083 TCTATTGCATGGATATGGGTTGGGTTTCTACATACATGGAATATCTGTTCTGTCTCTACTATGGG
326 TCCATTGCATGGATATGGGTTGGGTTTCTACATACATGGAATATCTGTTCTGTCTCTACTATGGG
62545148 CCTATAGGCTTCATTCTGAATTCTATATAGGGCTAAGGCCCAACTTAATCTGTTTCTGTTTCTGT
391 CCTATAGGCTTCATTCTGAATTCTATATAGGGCTAAGGCCCAACTTAATCTGTTTCTGTTTCTGT
**
62545213 TTGTTAATCCTGGTAATCTCAAGTGGTAAGATTGCAGAGTGCGTAATTTTGTGCACTTCGGTACA
1 TTGTTAATCCTGGTAATCTCAAGTGGTAAGATTGCAGAGTGCGTAATTTCATGCACTTCGGTACA
62545278 TTTGGGCTTAATGGGCCGAAAACGGGTTAATGGGCCAACAGGCCCAATTCGGTAAAAAA-GCTCA
66 TTTGGGCTTAATGGGCCGAAAACGGGTTAATGGGCCAACAGGCCCAATTCGGTAAAAAATGCTCA
*
62545342 GTAAGTCTTTCTGTTAATACGTTAATGGCTGTAACATGCATGAAAACCTTAAAATAGTAAATTTA
131 GTAAGTCTTTCTGTTAATACGTTAATGGCTGTAACATGCATGAAAACCCTAAAATAGTAAATTTA
* * *
62545407 ATGAAATACCCCTAAGTATGAAAGTTACCATTATACCCCTAGGTGCAAAATGACCGTTATACCCC
196 ATAAAATAACCCTAAGTATGAAAG-TACCATTATACCCCTAGATGCAAAATGACCGTTATACCCC
* * * * * *
62545472 TAGGGTTAATTTTGATTGAAATGCATGATATTCTGATTCTGTTTGTGGTATAGCATGACATGTAT
260 TAAGGTTAATTTTGACTGAAATACATGATATTCTGAATCTGTTTATGGTATAGCATGACATATAT
* * *
62545537 ATCCGTTGCATGGATATGGGTTGGGTTAT-TGCATACATGGAATATCTGTTCTGTCTCTGCTATG
325 ATCCATTGCATGGATATGGGTTGGGTT-TCTACATACATGGAATATCTGTTCTGTCTCTACTATG
* * *
62545601 GGCCTATGGGCTTTATTCTGAATTCTGTATAGGGCTAAGGCCCAACTTAATCTGTTTCT
389 GGCCTATAGGCTTCATTCTGAATTCTATATAGGGCTAAGGCCCAACTTAATCTGTTTCT
62545660 ATGGTTTGAA
Statistics
Matches: 414, Mismatches: 31, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
454 87 0.21
455 326 0.79
456 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (455 bp):
TTGTTAATCCTGGTAATCTCAAGTGGTAAGATTGCAGAGTGCGTAATTTCATGCACTTCGGTACA
TTTGGGCTTAATGGGCCGAAAACGGGTTAATGGGCCAACAGGCCCAATTCGGTAAAAAATGCTCA
GTAAGTCTTTCTGTTAATACGTTAATGGCTGTAACATGCATGAAAACCCTAAAATAGTAAATTTA
ATAAAATAACCCTAAGTATGAAAGTACCATTATACCCCTAGATGCAAAATGACCGTTATACCCCT
AAGGTTAATTTTGACTGAAATACATGATATTCTGAATCTGTTTATGGTATAGCATGACATATATA
TCCATTGCATGGATATGGGTTGGGTTTCTACATACATGGAATATCTGTTCTGTCTCTACTATGGG
CCTATAGGCTTCATTCTGAATTCTATATAGGGCTAAGGCCCAACTTAATCTGTTTCTGTTTCTGT
Found at i:62554885 original size:43 final size:43
Alignment explanation
Indices: 62554837--62554961 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
62554827 CTAATATGTT
* ** * *
62554837 ATCATATATCGATGCCTCTGTCCCAGGCAGGGTTTTACACGAA
1 ATCATATAACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* *
62554880 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCATATAACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
* * *
62554923 ATCACA-ATACAATGCCAATGTCCCAGACATGGTCTTACA
1 ATCATATA-ACGATGCCAATGTCCCAGACAGGGTCTTACA
62554962 TGTAATCACA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 71 0.99
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCATATAACGATGCCAATGTCCCAGACAGGGTCTTACACGAA
Found at i:62556779 original size:134 final size:135
Alignment explanation
Indices: 62556475--62556868 Score: 601
Period size: 134 Copynumber: 2.9 Consensus size: 135
62556465 CTCGACTGCC
* * * * *
62556475 ACTAACATTACTGGGGTGACGGGGTGGTCTACCTTTTTAGACAGGATTACTTGGCTTTTGAGCTG
1 ACTAACATTACTGAGGTGACGGGGTGGTCTACCTCTCTAGACAGGATTACTCGGCTTTTAAGCTG
* * * * *
62556540 GTTCTATCTCTTTTTCAACTCTTTCTGGATAGTCCCTGAGAAAATGGTCAAGTGAACCATATCCG
66 GTTCTATCTCCTTTTCAACTCTTTCTGGACAATCCCTAAGAAAATGGTCAAGTGAACCACATCCG
62556605 GAACT
131 GAACT
* * *
62556610 ACTAACATTACTGAGGTAACGGGGTGGTCTGCCTCTCTAGACAGGATTACTCGGTTTTTAAGCTG
1 ACTAACATTACTGAGGTGACGGGGTGGTCTACCTCTCTAGACAGGATTACTCGGCTTTTAAGCTG
* * * *
62556675 GTGCTATCTCCTTTTCAGCCCCTTCTGGACAATCCCTAAG-AAATGGTCAAGTGAACCACATCCG
66 GTTCTATCTCCTTTTCAACTCTTTCTGGACAATCCCTAAGAAAATGGTCAAGTGAACCACATCCG
62556739 GAACT
131 GAACT
* * *
62556744 ACTAACATTACCGAGGTGACGGGGTGGTCTACCTCTCTAGACAGGATTACTCGGCTTTGAAGATG
1 ACTAACATTACTGAGGTGACGGGGTGGTCTACCTCTCTAGACAGGATTACTCGGCTTTTAAGCTG
62556809 GTTCTATCTCCTTTTCAACTCTTTCTGGACAATCCCTAAGAAAATGGTCAAGTGAACCAC
66 GTTCTATCTCCTTTTCAACTCTTTCTGGACAATCCCTAAGAAAATGGTCAAGTGAACCAC
62556869 TTTCAAAAGA
Statistics
Matches: 231, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 123 0.53
135 108 0.47
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (135 bp):
ACTAACATTACTGAGGTGACGGGGTGGTCTACCTCTCTAGACAGGATTACTCGGCTTTTAAGCTG
GTTCTATCTCCTTTTCAACTCTTTCTGGACAATCCCTAAGAAAATGGTCAAGTGAACCACATCCG
GAACT
Found at i:62558325 original size:22 final size:21
Alignment explanation
Indices: 62558300--62558353 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
62558290 TGCAGGGCTT
*
62558300 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCC-AGGC
* ** *
62558322 ACACACCTATGTGGTCCTGGC
1 ACACGCCCGTGTGGTCCAGGC
62558343 ACACGCCCGTG
1 ACACGCCCGTG
62558354 CTAGAGGCTA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGGTCCAGGC
Found at i:62561239 original size:27 final size:27
Alignment explanation
Indices: 62561124--62561240 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
62561114 GGCAAAAAGC
* * * *
62561124 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
62561151 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
62561178 TATTTCTACCCTACATGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
62561205 TAACTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
62561232 TAATTCTAC
1 TAATTCTAC
62561241 AACTTATCCA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:62568377 original size:119 final size:121
Alignment explanation
Indices: 62568163--62568426 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 121
62568153 TCGAATGATG
* * *
62568163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
* * *
62568227 TGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTA-AA
66 GGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTATAA
* *
62568282 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-AGAT-ACTAAT-TCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TGAC-AATATCCGGACTAAGACCCGAAGGCA
* * * *
62568343 TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
64 TTGGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGATACTATAA
*
62568402 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62568427 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 33 0.26
119 81 0.64
120 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACAATATCCGGACTAAGACCCGAAGGCATT
GGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTATAA
Found at i:62568433 original size:40 final size:40
Alignment explanation
Indices: 62568163--62568426 Score: 322
Period size: 40 Copynumber: 6.7 Consensus size: 40
62568153 TCGAATGATG
* * * *
62568163 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
62568203 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
62568243 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
62568282 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62568322 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62568361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62568402 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62568427 AACGAGTAGC
Statistics
Matches: 195, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 69 0.35
40 116 0.59
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62568459 original size:79 final size:79
Alignment explanation
Indices: 62568216--62568424 Score: 348
Period size: 79 Copynumber: 2.6 Consensus size: 79
62568206 GGACTAAGAT
*
62568216 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
62568281 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
62568295 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
62568360 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
62568374 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
62568425 TGAACGAGTA
Statistics
Matches: 123, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
78 2 0.02
79 109 0.89
80 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGATACTAA
ATCCGGGTTAAGTC
Found at i:62573756 original size:28 final size:28
Alignment explanation
Indices: 62573693--62573873 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
62573683 ATATTAAGTC
* *
62573693 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
62573720 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
62573748 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
62573776 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
62573804 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
62573832 CGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
62573859 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62573874 GTACAATTTA
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 41 0.28
28 108 0.72
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:62573892 original size:84 final size:84
Alignment explanation
Indices: 62573693--62573898 Score: 301
Period size: 84 Copynumber: 2.5 Consensus size: 84
62573683 ATATTAAGTC
* * * *
62573693 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCAAACCCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
62573757 AGTGCTACATAATCAAGCT
66 AGTGCTACATAATCAAGCT
* *
62573776 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATCAAACCCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
62573841 AGTGCTACATAATCAA-CT
66 AGTGCTACATAATCAAGCT
* *
62573859 CGCACACTTAGTGCTGTACA-ATTTAAACCCGCACACTTAG
1 CGCACACTTAGTGC--TACATAATCAAACCCGCACACTTAG
62573899 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
83 37 0.33
84 71 0.63
85 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (84 bp):
CGCACACTTAGTGCTACATAATCAAACCCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
AGTGCTACATAATCAAGCT
Found at i:62581941 original size:28 final size:28
Alignment explanation
Indices: 62581856--62582035 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
62581846 ATATTAAGTC
*
62581856 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62581883 CGCACACTTAGTGC--TACAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62581909 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62581937 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62581965 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62581993 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62582022 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62582036 CAATCTCATG
Statistics
Matches: 140, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
25 6 0.04
26 17 0.12
27 13 0.09
28 85 0.61
29 19 0.14
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62583981 original size:48 final size:46
Alignment explanation
Indices: 62583912--62584031 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
62583902 TGTCTTCAAC
** * *
62583912 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--ATATATCTAAT
* * *
62583960 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
62584006 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
62584032 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 33 0.53
48 29 0.47
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:62585559 original size:43 final size:43
Alignment explanation
Indices: 62585493--62585649 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
62585483 AGCTCGTACA
* *
62585493 ATGCCAAC-GTCCTAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * * *
62585536 ATGCCACTATCCTAGACGGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * *
62585578 ATGCCGCTGTCCCAGACATGGTCTTACATGTAAATCATAA-ATTG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
62585622 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACGTGGTCTTACA
62585650 CGAAAACACA
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.30
43 40 0.41
44 27 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:62594848 original size:43 final size:44
Alignment explanation
Indices: 62594728--62594899 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 44
62594718 AGCTCGTACA
* ** * *
62594728 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AACCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCAAATATCG
* * *
62594771 ATGCCACTGTCTCAGACAAGGTCTT--ACATGAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAT-AAATCAAATATCG
* *
62594813 ATGCCAATGTCCTAGACATGGTCTTACACATAAATCATAA-ATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCA-AATATCG
* ** * *
62594857 ATGCCAACGTCCCAGATGTGGTCTTACACA-AAAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCAAATATCG
62594900 GATCCTATGT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
41 2 0.02
42 23 0.23
43 44 0.43
44 33 0.32
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAAATCAAATATCG
Found at i:62596908 original size:357 final size:357
Alignment explanation
Indices: 62596253--62596957 Score: 1329
Period size: 357 Copynumber: 2.0 Consensus size: 357
62596243 TTCACCCCTA
*
62596253 TTTCACCTTAATGACAGTCACTTAACTTTGTGGTTGCCGAATGTTGCTAGGGGCGTGATCTCCAT
1 TTTCACCTTAATGACAGTCACTTAACTTTGTGGTTGCCGAATGTTGCTAGGGGCGCGATCTCCAT
* *
62596318 AGTCAATGGGGTTAGGCCAATTATCCTTTCACAATAAGTAATCCTATCACTCGTGGTAAGTACTT
66 AGTCAAGGGGGTTAGGCCAATTATCCTTTCACAATAAGTAATCCTATCACTCATGGTAAGTACTT
*
62596383 TAGGTATTATTTATATTTACAAGGGATTATAACTTCTGAAGAATCGATTAACTGTTTCAGATAAA
131 TAGGTATTATTTATATTTACAAGGGATTATAACTTCTGAAGAATCGATTAACTATTTCAGATAAA
62596448 GGTTAAAGTTTTGGAGAGAGTTCGTGGGGTGTGGAGCAAAAAGGTCTGGTGATTGGTGGATTGGT
196 GGTTAAAGTTTTGGAGAGAGTTCGTGGGGTGTGGAGCAAAAAGGTCTGGTGATTGGTGGATTGGT
**
62596513 AAGTAGCAATGAGTAAGTTAGAGTGATTTCAATACTTTGGTTTTGGATTTATCACGGATGTGACT
261 AAGTAGCAATGAGTAAGTTAGAGTGATTTCAATACTTTGGTTTTGGATTTATCACAAATGTGACT
62596578 AATGGTGGATCATTGTGAATCATTGGTAACTG
326 AATGGTGGATCATTGTGAATCATTGGTAACTG
62596610 TTTCACCTTAATGACAGTCACTTAACTTTGTGGTTGCCGAATGTTGCTAGGGGCGCGATCTCCAT
1 TTTCACCTTAATGACAGTCACTTAACTTTGTGGTTGCCGAATGTTGCTAGGGGCGCGATCTCCAT
*
62596675 AGTCAAGGGGGTTAGGCCAATTATCCTTTCACAATAAGTAATCCTGTCACTCATGGTAAGTACTT
66 AGTCAAGGGGGTTAGGCCAATTATCCTTTCACAATAAGTAATCCTATCACTCATGGTAAGTACTT
* *
62596740 TAGGTATTATTTATATTTACAAGGGATTATAACTTCTGATGAATCGGTTAACTATTTCAGATAAA
131 TAGGTATTATTTATATTTACAAGGGATTATAACTTCTGAAGAATCGATTAACTATTTCAGATAAA
62596805 GGTTAAAGTTTTGGAGAGAGTTCGTGGGGTGTGGAGCAAAAAGGTCTGGTGATTGGTGGATTGGT
196 GGTTAAAGTTTTGGAGAGAGTTCGTGGGGTGTGGAGCAAAAAGGTCTGGTGATTGGTGGATTGGT
62596870 AAGTAGCAATGAGTAAGTTAGAGTGATTTCAATACTTTGGTTTTGGATTTATCACAAATGTGACT
261 AAGTAGCAATGAGTAAGTTAGAGTGATTTCAATACTTTGGTTTTGGATTTATCACAAATGTGACT
62596935 AATGGTGGATCATTGTGAATCAT
326 AATGGTGGATCATTGTGAATCAT
62596958 AGGTGCTTTG
Statistics
Matches: 339, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
357 339 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (357 bp):
TTTCACCTTAATGACAGTCACTTAACTTTGTGGTTGCCGAATGTTGCTAGGGGCGCGATCTCCAT
AGTCAAGGGGGTTAGGCCAATTATCCTTTCACAATAAGTAATCCTATCACTCATGGTAAGTACTT
TAGGTATTATTTATATTTACAAGGGATTATAACTTCTGAAGAATCGATTAACTATTTCAGATAAA
GGTTAAAGTTTTGGAGAGAGTTCGTGGGGTGTGGAGCAAAAAGGTCTGGTGATTGGTGGATTGGT
AAGTAGCAATGAGTAAGTTAGAGTGATTTCAATACTTTGGTTTTGGATTTATCACAAATGTGACT
AATGGTGGATCATTGTGAATCATTGGTAACTG
Found at i:62614768 original size:14 final size:12
Alignment explanation
Indices: 62614736--62614781 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
62614726 TTTTGGATGA
*
62614736 ATTTAATTGAAT
1 ATTTAATTTAAT
62614748 ATTTAATTTAAT
1 ATTTAATTTAAT
62614760 AAGTTTAATTT-AT
1 -A-TTTAATTTAAT
62614773 A-TTAATTTA
1 ATTTAATTTA
62614782 GATCAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
12 12 0.40
13 3 0.10
14 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (12 bp):
ATTTAATTTAAT
Found at i:62621872 original size:26 final size:26
Alignment explanation
Indices: 62621801--62621948 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
62621791 CCTCTTTAAT
* **
62621801 AACTGGGGCA-GAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62621826 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
62621851 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* ***
62621877 AAATGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62621903 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
62621929 AACTGGGGCAT-AGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
62621949 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
25 41 0.37
26 70 0.63
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:62622023 original size:20 final size:20
Alignment explanation
Indices: 62621998--62622092 Score: 151
Period size: 20 Copynumber: 4.8 Consensus size: 20
62621988 TTATGAATAC
62621998 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
62622018 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
62622038 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
62622058 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
62622078 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
62622093 TCCTACGTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
18 8 0.11
20 62 0.86
21 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:62622029 original size:11 final size:11
Alignment explanation
Indices: 62621998--62622085 Score: 84
Period size: 9 Copynumber: 8.7 Consensus size: 11
62621988 TTATGAATAC
*
62621998 ATCATGTGCAT
1 ATCATGTACAT
62622009 ATCA--TACAT
1 ATCATGTACAT
*
62622018 ATCATGTGCAT
1 ATCATGTACAT
62622029 ATCA--TACAT
1 ATCATGTACAT
62622038 ATCATGTACAT
1 ATCATGTACAT
62622049 ATCA--TACAT
1 ATCATGTACAT
*
62622058 ATCATGTGCAT
1 ATCATGTACAT
*
62622069 ATCATAT-CA-
1 ATCATGTACAT
62622078 ATCATGTA
1 ATCATGTA
62622086 TATCATATCC
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
9 31 0.48
10 2 0.03
11 31 0.48
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:62630203 original size:26 final size:26
Alignment explanation
Indices: 62630132--62630253 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
62630122 CCTCTTTAAT
* *
62630132 AACTGGGGCA-GAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62630157 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
62630182 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
62630208 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
62630234 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCATAAGCCCTTTT
62630254 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 40 0.44
26 50 0.56
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:62630241 original size:52 final size:51
Alignment explanation
Indices: 62630132--62630253 Score: 203
Period size: 51 Copynumber: 2.4 Consensus size: 51
62630122 CCTCTTTAAT
*
62630132 AACTGGGGCA-GAGCCCTTTTCAGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCAAAGCCCTTTTCAATA
*
62630182 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCA-AAGCCCTTTTCAATA
62630234 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCATAAGCCCTTTT
62630254 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
50 10 0.15
51 30 0.44
52 28 0.41
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCAGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:62630393 original size:25 final size:25
Alignment explanation
Indices: 62630365--62630437 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
62630355 ATAATTAAAC
* * *
62630365 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
62630390 CCTAGGGGCAAAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
62630415 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
62630438 CATAATATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:62634790 original size:56 final size:57
Alignment explanation
Indices: 62634718--62634827 Score: 161
Period size: 56 Copynumber: 1.9 Consensus size: 57
62634708 TAGGATTTCG
* *
62634718 ATATGTGATGTGCGAGTAAGACCATGT-TTATAC-GTTGGCATCGATATGTGATTCTA
1 ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAG-TGGCATCGATATGTGATTCTA
* *
62634774 ATATGTGATGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATT
1 ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGATT
62634828 ACATGTAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 26 0.54
57 21 0.44
58 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (57 bp):
ATATGTGATGTGCGAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGATTCTA
Found at i:62641070 original size:51 final size:51
Alignment explanation
Indices: 62640994--62641182 Score: 188
Period size: 50 Copynumber: 3.8 Consensus size: 51
62640984 TGAGGTCGCA
* *
62640994 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAATTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTT-AGATCACG
* * ** * *
62641045 TGTGTAGTACTAAGTGCAGGGTACTACGTGTATCAGAT-GGTTAGGTTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTAGATCACG
* * * * *
62641095 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTAGATCACG
** **
62641144 TGTGTAGTACTATCTGCAGGCTACTATTTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
62641183 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
49 38 0.33
50 42 0.37
51 34 0.30
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTAGATCACG
Found at i:62644224 original size:40 final size:40
Alignment explanation
Indices: 62644130--62644332 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
62644120 TGGGATTTTA
* * *
62644130 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAG-
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
62644169 CCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62644209 CCGGATATAGTAACTCACACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
62644249 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
62644289 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
62644329 CCGG
1 CCGG
62644333 TTATCATCCG
Statistics
Matches: 147, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.23
40 112 0.76
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62649865 original size:20 final size:18
Alignment explanation
Indices: 62649840--62649876 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
62649830 ACCTAACACG
62649840 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
62649860 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
62649877 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:62661631 original size:22 final size:22
Alignment explanation
Indices: 62661603--62661644 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62661593 AAATAAATAC
* *
62661603 TTAAATTTTGGGGCGTTACAAG
1 TTAAATTTTAGGGCATTACAAG
62661625 TTAAATTTTAGGGCATTACA
1 TTAAATTTTAGGGCATTACA
62661645 GGAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TTAAATTTTAGGGCATTACAAG
Found at i:62661751 original size:15 final size:15
Alignment explanation
Indices: 62661728--62661757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62661718 ACATATGCTC
*
62661728 TCTTTTTTTTCTTTT
1 TCTTATTTTTCTTTT
62661743 TCTTATTTTTCTTTT
1 TCTTATTTTTCTTTT
62661758 CACGACCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTATTTTTCTTTT
Found at i:62663962 original size:69 final size:70
Alignment explanation
Indices: 62663830--62663962 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
62663820 TAGTTTATTA
* * * * *
62663830 CTAATTAATTTGCTACTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
62663895 CTTAG
66 CTTAG
*
62663900 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
62663963 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:62666733 original size:28 final size:28
Alignment explanation
Indices: 62666670--62666792 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
62666660 ATATTAAGTC
*
62666670 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62666697 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62666725 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62666753 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62666782 CGCACACTTAG
1 CGCACACTTAG
62666793 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62673595 original size:37 final size:39
Alignment explanation
Indices: 62673531--62673648 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 39
62673521 TATATAAAGT
* *
62673531 ATTTAAAA-AATATTA-ATTTATTAATATTTTTTA-T-ATA
1 ATTTAAAATAATATTATATATA-T-ATATTTATTATTAATA
*
62673568 TTTTAAAATAATATTATATATATATATTTATTATTAATA
1 ATTTAAAATAATATTATATATATATATTTATTATTAATA
* * *
62673607 ATATAAAATAA-A-TATATA-ATAATATATATTA-TATTA
1 ATTTAAAATAATATTATATATAT-ATATTTATTATTAATA
62673643 ATTTAA
1 ATTTAA
62673649 TATTATTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
36 11 0.16
37 31 0.46
38 10 0.15
39 16 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (39 bp):
ATTTAAAATAATATTATATATATATATTTATTATTAATA
Found at i:62673659 original size:25 final size:23
Alignment explanation
Indices: 62673623--62673740 Score: 75
Period size: 25 Copynumber: 5.0 Consensus size: 23
62673613 AATAAATATA
*
62673623 TAATA-ATATATATTATATTAATT
1 TAATATATTTATATTATATTAA-T
* *
62673646 TAATATTATTTATATTTTAAT-AT
1 TAATA-TATTTATATTATATTAAT
*
62673669 TAAATATATTTATAATTATTTTAA-
1 T-AATATATTTAT-ATTATATTAAT
* *
62673693 TAATA-ATTAATATTAAATTTAA-
1 TAATATATTTATATTATA-TTAAT
62673715 TAATAATATTTATTATTATATATAAT
1 TAAT-ATATTTA-TATTATAT-TAAT
62673741 AAAATTATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
21 4 0.05
22 13 0.18
23 19 0.26
24 16 0.22
25 21 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATATATTTATATTATATTAAT
Found at i:62673660 original size:37 final size:37
Alignment explanation
Indices: 62673619--62673784 Score: 84
Period size: 37 Copynumber: 4.5 Consensus size: 37
62673609 ATAAAATAAA
62673619 TATATAATAATATATATTATATTAATTTAATATTATT
1 TATATAATAATATATATTATATTAATTTAATATTATT
** *
62673656 TATATTTTAATAT-TA-AATA-T-ATTT-ATAATTATT
1 TATATAATAATATATATTATATTAATTTAAT-ATTATT
* *
62673689 T-TAATAATAAT-TAATATTAAATTTAATAATAATATT-TAT
1 TAT-ATAATAATAT-ATATTATA-TTAAT-TTAATATTAT-T
* * *
62673728 TATTATATATAATA-AAATTATTATTTA-TTAATATTACT
1 TA-TATA-ATAATATATATTA-TATTAATTTAATATTATT
*
62673766 AATAT-ATAAATATATATTA
1 TATATAAT-AATATATATTA
62673785 ATGTTTATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 38
0.64 0.10 0.26
Matches are distributed among these distances:
32 4 0.04
33 17 0.18
34 3 0.03
35 7 0.07
36 6 0.06
37 20 0.21
38 12 0.13
39 6 0.06
40 13 0.14
41 7 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.52
Consensus pattern (37 bp):
TATATAATAATATATATTATATTAATTTAATATTATT
Found at i:62673666 original size:17 final size:17
Alignment explanation
Indices: 62673632--62673684 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
62673622 ATAATAATAT
62673632 ATATTATATTA-A-TTTA
1 ATATTAT-TTATATTTTA
62673648 ATATTATTTATATTTTA
1 ATATTATTTATATTTTA
**
62673665 ATATTAAATATATTTATA
1 ATATTATTTATATTT-TA
62673683 AT
1 AT
62673685 TATTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 3 0.09
16 8 0.25
17 17 0.53
18 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTTATATTTTA
Found at i:62673741 original size:25 final size:25
Alignment explanation
Indices: 62673690--62673785 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
62673680 ATAATTATTT
*
62673690 TAATAATAATTAATATTAAATTTAA
1 TAATAATAATTAATATTAAATATAA
* * *
62673715 TAATAATATTTATTATTATATATAA
1 TAATAATAATTAATATTAAATATAA
* * *
62673740 TAA-AATTATTATTTATT-AATATTAC
1 TAATAATAATTA-ATATTAAATA-TAA
*
62673765 TAATATATAAATATATATTAA
1 TAATA-ATAATTA-ATATTAA
62673786 TGTTTATATA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 9 0.16
25 34 0.62
26 1 0.02
27 10 0.18
28 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (25 bp):
TAATAATAATTAATATTAAATATAA
Found at i:62673816 original size:24 final size:23
Alignment explanation
Indices: 62673789--62673841 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
62673779 ATATTAATGT
62673789 TTATATATAACAATAATAAAA-ATA
1 TTATATATAA-AATAA-AAAATATA
*
62673813 TTATAATATAATATAAAAAATATA
1 TTAT-ATATAAAATAAAAAATATA
62673837 TTATA
1 TTATA
62673842 GTAATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 5 0.19
24 15 0.58
25 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTATATATAAAATAAAAAATATA
Found at i:62674007 original size:17 final size:17
Alignment explanation
Indices: 62673954--62674007 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 17
62673944 ATAATATATT
*
62673954 ATAATAA-TATATAGATA
1 ATAATAATTAT-TAAATA
62673971 ATAATAAATTATTTATAATA
1 ATAAT-AATTA-TTA-AATA
62673991 ATAATAATTATTAAATA
1 ATAATAATTATTAAATA
62674008 TATATTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 9 0.28
20 9 0.28
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATAATAATTATTAAATA
Found at i:62674021 original size:20 final size:20
Alignment explanation
Indices: 62673996--62674055 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
62673986 TAATAATAAT
62673996 AATTATTAAATATATATTAA
1 AATTATTAAATATATATTAA
*
62674016 AATTATATAAA-ATATTTTATA
1 AATTAT-TAAATATATATTA-A
62674037 AATT-TT-AATAATATATTAA
1 AATTATTAAAT-ATATATTAA
62674056 TAATAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 21 0.62
21 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTATTAAATATATATTAA
Found at i:62674080 original size:24 final size:24
Alignment explanation
Indices: 62674034--62674080 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
62674024 AAAATATTTT
** *
62674034 ATAAATTTTAATAATATATTAATA
1 ATAAATTAAAATAATATAATAATA
62674058 ATAAATTAAAATAATATAATAAT
1 ATAAATTAAAATAATATAATAAT
62674081 TTTTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAAATTAAAATAATATAATAATA
Found at i:62674095 original size:22 final size:20
Alignment explanation
Indices: 62674070--62674120 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
62674060 AAATTAAAAT
*
62674070 AATATAATAATTTTTATTTATA
1 AATATAATAA-TATTA-TTATA
62674092 AATATTATATAATATTATTATA
1 AATA-TA-ATAATATTATTATA
62674114 AATATAA
1 AATATAA
62674121 ACTAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 2 0.08
22 13 0.50
23 6 0.23
24 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATAATATTATTATA
Found at i:62674113 original size:11 final size:11
Alignment explanation
Indices: 62673991--62674114 Score: 59
Period size: 11 Copynumber: 11.4 Consensus size: 11
62673981 ATTTATAATA
62673991 ATAATAATTATT
1 ATAAT-ATTATT
62674003 A-AATATATATT
1 ATAATAT-TATT
62674014 A-AA-ATTATAT
1 ATAATATTAT-T
*
62674024 AAAATATT-TT
1 ATAATATTATT
62674034 ATAA-ATT-TT
1 ATAATATTATT
62674043 AATAATA-TATT
1 -ATAATATTATT
*
62674054 AATAATA-AATT
1 -ATAATATTATT
* * *
62674065 AAAATAATATA
1 ATAATATTATT
*
62674076 ATAATTTTTATTT
1 ATAA-TATTA-TT
62674089 ATAAATATTA-T
1 AT-AATATTATT
62674100 ATAATATTATT
1 ATAATATTATT
62674111 ATAA
1 ATAA
62674115 ATATAAACTA
Statistics
Matches: 90, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
9 8 0.09
10 27 0.30
11 39 0.43
12 7 0.08
13 7 0.08
14 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATATTATT
Found at i:62674152 original size:18 final size:19
Alignment explanation
Indices: 62674129--62674169 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
62674119 AAACTAATAA
62674129 TAATTTAATTTAT-ATATT
1 TAATTTAATTTATAATATT
*
62674147 TAATTTATTTTATAATATT
1 TAATTTAATTTATAATATT
62674166 TAAT
1 TAAT
62674170 ATACAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATTTAATTTATAATATT
Found at i:62674204 original size:11 final size:11
Alignment explanation
Indices: 62674188--62674226 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
62674178 ATATTTAAAT
62674188 TAAATATATTA
1 TAAATATATTA
62674199 TAAATATATTA
1 TAAATATATTA
*
62674210 TAATTA-ATTA
1 TAAATATATTA
62674220 T-AATATA
1 TAAATATA
62674227 AATTAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 3 0.12
10 6 0.24
11 16 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAATATATTA
Found at i:62674207 original size:26 final size:27
Alignment explanation
Indices: 62674166--62674238 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
62674156 TTATAATATT
62674166 TAATATACAATAATATT-TAAATTAAATA
1 TAATATA-AATAATATTAT-AATTAAATA
* *
62674194 TATTATAAAT-ATATTATAATTAATTA
1 TAATATAAATAATATTATAATTAAATA
*
62674220 TAATATAAATTA-ATTATAA
1 TAATATAAATAATATTATAA
62674239 AATAATAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 29 0.73
27 5 0.12
28 6 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATATAAATAATATTATAATTAAATA
Found at i:62674230 original size:16 final size:16
Alignment explanation
Indices: 62674211--62674274 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
62674201 AATATATTAT
*
62674211 AATTAATTATAATATA
1 AATTAATTATAAAATA
62674227 AATTAATTATAAAAT-
1 AATTAATTATAAAATA
* * *
62674242 AATAAATTAATACAATT
1 AATTAATT-ATAAAATA
*
62674259 AACTAATTATAAAATA
1 AATTAATTATAAAATA
62674275 TTCAACAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 7 0.18
16 26 0.67
17 6 0.15
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTATAAAATA
Found at i:62674810 original size:18 final size:18
Alignment explanation
Indices: 62674787--62675113 Score: 93
Period size: 18 Copynumber: 18.8 Consensus size: 18
62674777 TTTTATTATA
62674787 AATATAATATTAATATTT
1 AATATAATATTAATATTT
*
62674805 AATATAATATT--TATAT
1 AATATAATATTAATATTT
* *
62674821 -ATATAACAATAATA---
1 AATATAATATTAATATTT
62674835 AATATAA-ATTAAATATTT
1 AATATAATATT-AATATTT
* *
62674853 AATAT--TATAAATA-AT
1 AATATAATATTAATATTT
*
62674868 AAAAT-ATATTAAT-TTT
1 AATATAATATTAATATTT
*
62674884 ATTAT-ATATTAATATATT
1 AATATAATATTAATAT-TT
*
62674902 -ATA-AAAATTTAATTATTT
1 AATATAATA-TTAA-TATTT
*
62674920 -ATATAATATT-ATATAT
1 AATATAATATTAATATTT
62674936 AATATAA-A-TAAGTATTAT
1 AATATAATATTAA-TATT-T
* *
62674954 AAAAT-ATATATAATATAT
1 AATATAATAT-TAATATTT
* * *
62674972 AAAATTATATT-ATATAT
1 AATATAATATTAATATTT
62674989 AATAATAAATATT-ATA-TT
1 AAT-AT-AATATTAATATTT
62675007 ATATATTAATATT--TA-TT
1 A-ATA-TAATATTAATATTT
* *
62675024 AATAT-ATATAAATTTTAT
1 AATATAATATTAATATT-T
*
62675042 AAAATAGCATTATATAATAATTT
1 AATATA--A-TAT-TAAT-ATTT
* *
62675065 ATTTATATTATT-ATATTT
1 A-ATATAATATTAATATTT
62675083 -ATATAATATTAATATTT
1 AATATAATATTAATATTT
*
62675100 -ATAATTATATTAAT
1 AAT-ATAATATTAAT
62675114 TAATTAATTA
Statistics
Matches: 236, Mismatches: 32, Indels: 82
0.67 0.09 0.23
Matches are distributed among these distances:
14 6 0.03
15 25 0.11
16 44 0.19
17 42 0.18
18 72 0.31
19 26 0.11
20 4 0.02
21 4 0.02
22 3 0.01
23 5 0.02
24 5 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (18 bp):
AATATAATATTAATATTT
Found at i:62674933 original size:41 final size:40
Alignment explanation
Indices: 62674888--62675035 Score: 104
Period size: 41 Copynumber: 3.5 Consensus size: 40
62674878 AATTTTATTA
*
62674888 TATATTAATATATTATAAAAATTTAATTATTTATATAATAT
1 TATATTAATATA-AATAAAAATTTAATTATTTATATAATAT
** *
62674929 TATATATAATATAAATAAGTATTATAAAATATATATAATATATAAAAT
1 TATAT-TAATATAAATAAAAATT-T--AAT-TAT-T--TATATAATAT
*
62674977 TATATT-ATATATAATAATAAATATTATATTATATAT-TAATAT
1 TATATTAATATA-AATAA-AAAT-TTA-ATTATTTATATAATAT
*
62675019 T-TATTAATATATATAAA
1 TATATTAATATAAATAAA
62675036 TTTTATAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 27
0.70 0.07 0.22
Matches are distributed among these distances:
40 1 0.01
41 20 0.24
42 19 0.22
43 3 0.04
44 3 0.04
45 3 0.04
46 10 0.12
47 8 0.09
48 17 0.20
49 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (40 bp):
TATATTAATATAAATAAAAATTTAATTATTTATATAATAT
Found at i:62674934 original size:2 final size:2
Alignment explanation
Indices: 62674919--62675033 Score: 50
Period size: 2 Copynumber: 66.0 Consensus size: 2
62674909 TTTAATTATT
*
62674919 TA TA TA -A TA T- TA TA TA TA -A TA TA AA TA -A GTA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
62674956 AA TA TA TA TA -A TA TA TA -A AA T- TA TA T- TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
62674993 -A TA AA TA T- TA TA T- TA TA TA T- TA -A TA TT TA T- TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62675028 TA TA TA
1 TA TA TA
62675034 AATTTTATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 38
0.65 0.06 0.29
Matches are distributed among these distances:
1 18 0.21
2 67 0.78
3 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:62674941 original size:50 final size:51
Alignment explanation
Indices: 62674887--62675145 Score: 128
Period size: 50 Copynumber: 5.2 Consensus size: 51
62674877 TAATTTTATT
62674887 ATATATTAATATATTATAAAAAT-TTAATTATTTATATAATATTATATATA
1 ATATATTAATATATTATAAAAATATTAATTATTTATATAATATTATATATA
* * *
62674937 ATATA--AATAAGTATTATAAAATATATATAA-TATATAAAATTATATTATATATA
1 ATATATTAAT-A-TATTATAAAA-ATAT-TAATTAT-TTATATAATATTATATATA
* *
62674990 ATA-A-TAA-ATATTATATTATATATTAA-TATTTAT-TAATA-TATATA-A
1 ATATATTAATATATTATA-AAAATATTAATTATTTATATAATATTATATATA
* * * *
62675035 ATTTTATAAAATAGCATTATATAATAAT-TTATTTATATTAT-T-ATATT-TATAT-
1 A-TATAT-TAATA-TATTATA-AA-AATATTAATTAT-TTATATAATATTATATATA
** *
62675087 A-ATATTAATAT-TTATAATTATATTAATTAATTA-ATTAA-A-TATATATA
1 ATATATTAATATATTATAAAAATATTAATTATTTATA-TAATATTATATATA
*
62675134 ATTATATAAATA
1 A-TATATTAATA
62675146 AAATATACTA
Statistics
Matches: 160, Mismatches: 22, Indels: 55
0.68 0.09 0.23
Matches are distributed among these distances:
45 8 0.05
46 21 0.13
47 12 0.08
48 5 0.03
49 21 0.13
50 30 0.19
51 15 0.09
52 18 0.11
53 30 0.19
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTAATATATTATAAAAATATTAATTATTTATATAATATTATATATA
Found at i:62674988 original size:19 final size:19
Alignment explanation
Indices: 62674951--62675451 Score: 80
Period size: 18 Copynumber: 26.2 Consensus size: 19
62674941 AAATAAGTAT
62674951 TATAAAA-TATA-TATAATA
1 TATAAAATTATATTAT-ATA
62674969 TATAAAATTATATTATATATAA
1 TATAAAATTATA-T-TATAT-A
62674991 TAATAAATATTATATTATATA
1 T-ATAAA-ATTATATTATATA
*
62675012 T-TAATATT-TATTAATATA
1 TATAAAATTATATT-ATATA
* ** *
62675030 TATAAATTTTATAAAATAGCA
1 TATAAA-ATTATATTATA-TA
* *
62675051 TTATATAA-TA-ATT-TATT
1 -TATAAAATTATATTATATA
**
62675068 TATATTATTATATTTATATAA
1 TATAAAATTATA-TTATAT-A
* *
62675089 TATTAATATT-TATAAT-TA
1 TA-TAAAATTATATTATATA
*
62675107 TAT-TAATTA-ATTA-AT-
1 TATAAAATTATATTATATA
*
62675122 TA-AATATATATAATTATATA
1 TATAAAAT-TAT-ATTATATA
* * *
62675142 AATAAAA-TATACTA-GTA
1 TATAAAATTATATTATATA
* *
62675159 TATAGAATATATTTTATATA
1 TATAAAAT-TATATTATATA
* *
62675179 TATAATAATTATA-AAAAT-
1 TATAA-AATTATATTATATA
* *
62675197 TATAAAA-TATAATGATAAA
1 TATAAAATTAT-ATTATATA
* *
62675216 AATAATTAATTATTATTATTTA
1 TATAA--AATTA-TATTATATA
62675238 -ATAAAATTATATTTATTAATTTA
1 TATAAAATTATA-TTA-T-A--TA
*
62675261 TATAATATTATATTA-ATA
1 TATAAAATTATATTATATA
* * *
62675279 T-TATAATTA-AATAAATAA
1 TATAAAATTATATTATAT-A
* *
62675297 TATAATATTAATATAATAAAATA
1 TATAAAATT-ATAT--T-ATATA
62675320 TTATATAAA-TATATTATAATA
1 -TATA-AAATTATATTAT-ATA
* *
62675341 TATATAA-TATATAATATA
1 TATAAAATTATATTATATA
62675359 TATTATAAA-TATA--AT-TA
1 TA-TA-AAATTATATTATATA
**
62675376 TAT-AAA-TATAAAATATA
1 TATAAAATTATATTATATA
* *
62675393 -ATTAAATTATATAATATA
1 TATAAAATTATATTATATA
* *
62675411 -ATAAATTTATATTAAATA
1 TATAAAATTATATTATATA
*
62675429 TATAAATTTATA-TATATAA
1 TATAAAATTATATTATAT-A
62675448 TATA
1 TATA
62675452 TTATAGTTAT
Statistics
Matches: 358, Mismatches: 60, Indels: 129
0.65 0.11 0.24
Matches are distributed among these distances:
14 7 0.02
15 4 0.01
16 26 0.07
17 34 0.09
18 78 0.22
19 71 0.20
20 37 0.10
21 28 0.08
22 28 0.08
23 18 0.05
24 25 0.07
25 2 0.01
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
TATAAAATTATATTATATA
Found at i:62674998 original size:22 final size:25
Alignment explanation
Indices: 62674920--62678672 Score: 210
Period size: 26 Copynumber: 150.0 Consensus size: 25
62674910 TTAATTATTT
*
62674920 ATATAATATTATATATAATATAAATAA
1 ATATTATATTATATATAATAT--ATAA
* *
62674947 GTATTATAAAATATATATAATATATAA
1 ATATTAT--ATTATATATAATATATAA
62674974 A-ATTATATTATATATAATA-ATAA
1 ATATTATATTATATATAATATATAA
62674997 ATATTATATTATATATTAATATTTATTAA
1 ATATTATATTATATA-TAATA--TA-TAA
* * * * *
62675026 TATATATAAATTTTATAAAATAGCAT-T
1 -ATAT-TATATTATATATAATA-TATAA
* * * *
62675053 ATATAATAATTTATTTATATTAT-TAT
1 ATATTAT-A-TTATATATAATATATAA
* * *
62675079 AT-TTATATAATAT-TAATATTTAT
1 ATATTATATTATATATAATATATAA
62675102 A-ATTATATTA-AT-TAAT-TAATTAA
1 ATATTATATTATATATAATAT-A-TAA
*
62675125 ATA-TATATAATTATATAA-ATA-AA
1 ATATTATATTA-TATATAATATATAA
* *
62675148 ATA-TACTAGTATATAGAATATAT--
1 ATATTA-TATTATATATAATATATAA
62675171 -T-TTATA-TATATAATAAT-TATAA
1 ATATTATATTATAT-ATAATATATAA
* * *
62675193 AAATTATA--AAATATAATGATAAAA
1 ATATTATATTATATATAAT-ATATAA
* *
62675217 ATAATTA-ATTAT-TATTATTTAATAA
1 AT-ATTATATTATATATAATAT-ATAA
*
62675242 A-ATTATATT-TAT-TAATTTATATA
1 ATATTATATTATATATAATATATA-A
*
62675265 ATATTATATTAATATTATAATTAAATAA
1 ATATTATATT-ATA-TATAA-TATATAA
*
62675293 ATA--ATATAATAT-TAATATAATAAA
1 ATATTATATTATATATAATAT-AT-AA
* * *
62675317 ATATTATATAAATATATTATAATATAT
1 ATATTATAT-TATATATAAT-ATATAA
* *
62675344 ATAATATATAATATAT-AT-TATAA
1 ATATTATATTATATATAATATATAA
62675367 ATA-TA-ATTATATA-AATATA-AA
1 ATATTATATTATATATAATATATAA
62675388 ATA-TA-ATTAAATTATATAATATAATAA
1 ATATTATATT--A-TATATAATAT-ATAA
*
62675415 AT-TTATATTAAATATATAAATTTATATAT
1 ATATTATATT--ATATAT-AA--TATATAA
* * *
62675444 ATAATATATTATAGT-TATTAT-TTA
1 ATATTATATTATA-TATAATATATAA
*
62675468 ATA-TATA--AT-TATAATTTA-ATA
1 ATATTATATTATATATAATATATA-A
*
62675489 AT-TTAATATTA-AAATAA-ATTATTAA
1 ATATT-ATATTATATATAATA-TA-TAA
* *
62675514 ATATTTTATATAAAT-TAAATATAATAA
1 ATATTATAT-TATATAT-AATAT-ATAA
* * *
62675541 ATAATA-ATTATAAATTATATTCATTAA
1 ATATTATATTATATATAATA-T-A-TAA
**
62675568 ATAAAATA-TATAT-TAATA-AT--
1 ATATTATATTATATATAATATATAA
* * *
62675588 ATATTAAATATAAAAATAAT-TAATAA
1 ATATTATAT-TATATATAATAT-ATAA
* *
62675614 ATA-TA-GTTATTTATAATA-ATAA
1 ATATTATATTATATATAATATATAA
*
62675636 ACT-TTATAATA-AT-TAATATATTAA
1 A-TATTATATTATATATAATATA-TAA
*
62675660 ATA-TATA-TATATATAAATAAATAA
1 ATATTATATTATATAT-AATATATAA
*
62675684 TTA-TATATTA-ATA-ATATATATTAA
1 ATATTATATTATATATA-ATATA-TAA
62675708 ATATTATA--ATAT-T-ATATATAA
1 ATATTATATTATATATAATATATAA
* *
62675729 ATA--ATA--ATAAATACATA-ATAT
1 ATATTATATTATATATA-ATATATAA
* *
62675750 TTATTATATAAT-TAT-ATATATAA
1 ATATTATATTATATATAATATATAA
* *
62675773 AAATTAT-TAATATATATATATATTAA
1 ATATTATATTATATATA-ATATA-TAA
* *
62675799 A-AATATATATATATTTAATATTTATAA
1 ATATTATAT-TATATATAATA--TATAA
* * *
62675826 CTATAATAATTATATATTTTTAAT-TAAAA
1 ATATTAT-ATTATATA----TAATATATAA
* *
62675855 ATAATAAATT-TA-ATAATAATATAA
1 ATATTATATTATATATAAT-ATATAA
62675879 A-ATATATATTA-ATAT-ATATAT-A
1 ATAT-TATATTATATATAATATATAA
* * *
62675901 ATAATTATATAAT-TATAA-AAATAT
1 AT-ATTATATTATATATAATATATAA
*
62675925 ATA-TATA-TA-ATA-AAAATATAA
1 ATATTATATTATATATAATATATAA
62675946 ATTATATATATTATAATATAATAATATAA
1 A-TAT-TATATTAT-ATATAAT-ATATAA
62675975 ATA-TATATT-T-T-TAAT-TATATA
1 ATATTATATTATATATAATATATA-A
* * *
62675996 ATA-TAAATTATTTACTAATATATAT
1 ATATTATATTATATA-TAATATATAA
* * *
62676021 ATA-TAAATTACATA-AGTATATAA
1 ATATTATATTATATATAATATATAA
* * *
62676044 TATATAATAATAATATATTATTATATAA
1 -ATATTAT-ATTATATA-TAATATATAA
* * *
62676072 GTTATTA-A-TAAATTATTAAT-TAAAA
1 -ATATTATATTATA-TA-TAATATATAA
* * * **
62676097 AT-TTATATTATTAATATTATTTTTTT
1 ATATTATATTA-T-ATATAATATATAA
* * *
62676123 ATATTTTATAATTTATTAATA-ATAA
1 ATATTATATTATATA-TAATATATAA
* * *
62676148 TTAAATTATATTTTATTATTATTTATATAA
1 --ATATTATATTATA-TA-TA-ATATATAA
*
62676178 TATATT-T-TTATATATTAT-TA-ATA
1 -ATATTATATTATATATAATATATA-A
*
62676201 ATATT-TATTATA-ATATTATTATATA
1 ATATTATATTATATATAATA-TATA-A
62676226 ATATTTATATTATATATTAA-AT-TAA
1 ATA-TTATATTATATA-TAATATATAA
62676251 ATAATAATAATTATTATATATAATA-ATTAA
1 AT-AT--T-A-TATTATATATAATATA-TAA
*
62676281 ATATCT-T-TTA-AT-TAATATATTA
1 ATAT-TATATTATATATAATATATAA
*
62676303 ATATCCA-A-TA-ATATAA-ATATAA
1 ATAT-TATATTATATATAATATATAA
* *
62676325 TTAATAATATTATA-ATAATA-ATAA
1 AT-ATTATATTATATATAATATATAA
* * *
62676349 ATA-TA-AATATATAATATTATTATAT
1 ATATTATATTATAT-ATAATA-TATAA
* *
62676374 ATATAATATTTTA-ATAA-ATAT-A
1 ATATTATATTATATATAATATATAA
** * * *
62676396 ATA-TATAAAAAATAAAAATTTTATAA
1 ATATTATATTATAT-ATAA-TATATAA
* *
62676422 TTTAATTATATTATATATAAATTTAGTTAA
1 -AT-ATTATATTATATAT-AATATA--TAA
*
62676452 ATA-TATAATAT-TATAA-AT-TATA
1 ATATTATATTATATATAATATATA-A
62676474 ATA--A-ATTATATATAATAATATAA
1 ATATTATATTATATATAAT-ATATAA
*
62676497 AT-TTA-ATTAATTTATTAAT-TAT-A
1 ATATTATATT-ATATA-TAATATATAA
* * *
62676520 TTTTATATATTTATATATAATATATTA
1 ATAT-TATA-TTATATATAATATATAA
62676547 A-A-TA-ATTA-ATATTAATA-ATAA
1 ATATTATATTATATA-TAATATATAA
* *
62676568 AAATTATA-AATA-A-AATA-ATAA
1 ATATTATATTATATATAATATATAA
* * * *
62676589 ATTATTA-AATAAATATATTTTAT-A
1 A-TATTATATTATATATAATATATAA
*
62676613 AT-TTATA--ATATATATTATATAA
1 ATATTATATTATATATAATATATAA
* * * * *
62676635 TTAATAAAATATAAAATAATATATATA
1 ATATTATATTAT-ATATAATATATA-A
* ** * * *
62676662 TTAAAATATTATAAATAAAATATTA
1 ATATTATATTATATATAATATATAA
*
62676687 ATATTAT-TTAATAATATATTATAT-A
1 ATATTATATT-AT-ATATAATATATAA
* *
62676712 AT-TTAAATTA-A-AT-TTATATAA
1 ATATTATATTATATATAATATATAA
*
62676733 AT-TTATATATTTATAATTAATTATTAATAA
1 ATATTATAT-TATAT-A-TAA-TA-T-ATAA
*
62676763 ATA-TA-ATTA-ATCA-AATATAATAT
1 ATATTATATTATAT-ATAATAT-ATAA
* * *
62676786 TTATAATATTATAAATAA-ATATATA
1 ATATTATATTATATATAATATATA-A
*
62676811 ATATATATATAATAT-TAAT-T-T-A
1 ATAT-TATATTATATATAATATATAA
* *
62676833 ATTTATATATTAATAATATTATATATATA
1 ATAT-TATATT-AT-ATATAATATATA-A
* * *
62676862 TTATTATAAATTAAATA-AATATTTAA
1 ATATTAT--ATTATATATAATATATAA
*
62676888 ATTAATTTAAATATTATTTAATAATATAAATTAA
1 A-T-A-TT--ATATTATAT-ATAATATA---TAA
*
62676922 A-ATT-TATTAATAAAATTAATATAATAA
1 ATATTATATT-AT-ATA-TAATAT-ATAA
* *
62676949 ATAAATTATATTAAATATATAA-ATTTTTA
1 AT--ATTATATT--ATATATAATA-TATAA
* *
62676978 ATA-TATATTATAAAATAATATTTAA
1 ATATTATATTAT-ATATAATATATAA
* *
62677003 ATAATTAAATT-TAT-GAAT-TA-AA
1 ATA-TTATATTATATATAATATATAA
* * *
62677025 ATAATAATATTATAAATTTATTATAATAA
1 AT-ATTATATTAT--ATATAATAT-ATAA
* * *
62677054 TTATTATAATTATTATTTAATATA-AT
1 ATATTAT-ATTA-TATATAATATATAA
* *
62677080 ATA-TATA-AATATATAATTATATTA
1 ATATTATATTATATATAA-TATATAA
* *
62677104 ATATTATA-TATTTATATTATTATTAA
1 ATATTATATTATATATAATA-TA-TAA
* * * *
62677130 ATATAATTTTA-AAATAATATGTATTTA
1 ATATTATATTATATATAATA--TA-TAA
* * * *
62677157 ATAATATATTAATATTTTATTTATAA
1 ATATTATATT-ATATATAATATATAA
* * *
62677183 ATATTA-ATAAT-TTTAATAT-TATT
1 ATATTATATTATATATAATATATA-A
* * * *
62677206 ATATTATATTTTTATATTATTTAATTA
1 ATATTATA-TTATATATAATAT-ATAA
62677233 ATATATATATT-TA-ATAATAATTATAA
1 ATAT-TATATTATATATAAT-A-TATAA
* *
62677259 AT-TTA-A-TATATTTAAT-TAAAA
1 ATATTATATTATATATAATATATAA
* *
62677280 ATAATACAATATTATATTATAATTAAATAA
1 AT-AT--TATATTATA-TATAA-TATATAA
* *
62677310 TATAATTATA--ATATTTAGTATA-ATA
1 -AT-ATTATATTATATATAATATATA-A
*
62677335 ATATTA-ATTA-ATATAAATATATAT
1 ATATTATATTATATAT-AATATATAA
* * * *
62677359 ATATATAAATTAAATATAAAACATTTAAA
1 ATAT-TATATT--ATATATAATATAT-AA
* * * *
62677388 AAATT-TAATAAATTTTAATATA-AA
1 ATATTATATTATA-TATAATATATAA
62677412 AT-TTATAATATATATATTAATATATAA
1 ATATTAT-AT-TATATA-TAATATATAA
62677439 AT-TTA-ATTATATAT-ATATAT-A
1 ATATTATATTATATATAATATATAA
* * *
62677460 ATTTTATATT-TTTAATAA-ATTATTAT
1 ATATTATATTATAT-ATAATA-TA-TAA
*
62677486 ATATTAT-TT-TATATGATAT-T--
1 ATATTATATTATATATAATATATAA
*
62677506 ATAATATATT-TA-ATAATAATAT-A
1 ATATTATATTATATATAAT-ATATAA
*
62677529 AT-TTTTATT-T-T-T-ATATGATAA
1 ATATTATATTATATATAATAT-ATAA
* *
62677550 AT-TTA-ATTATATTTTAATATATATT
1 ATATTATATTATA-TATAATATATA-A
* * *
62677575 ATATTTTATAATAATTATAAATTTATAA
1 ATATTATATTAT-A-TAT-AATATATAA
*
62677603 TATATTA-ATTA-A-A-AAT-TA-AT
1 -ATATTATATTATATATAATATATAA
*
62677623 ATATTATA-TATA-ATAATTAAATAA
1 ATATTATATTATATATAA-TATATAA
* *
62677647 ATATAATATTATAAATAAT-TAT-A
1 ATATTATATTATATATAATATATAA
* * *
62677670 ATTTTATA-TATAATATAATATTTAT
1 ATATTATATTAT-ATATAATATATAA
* * *
62677695 ATAATATA-TATATATATTAT-TTA
1 ATATTATATTATATATAATATATAA
*
62677718 TTATATATATTAT-TATAATAT-TAATA
1 ATAT-TATATTATATATAATATAT-A-A
*
62677744 ATAATATAATTATAATATAATA-ATAA
1 ATATTAT-ATTAT-ATATAATATATAA
62677770 AT-TATATTATTATATTATAATATA-AA
1 ATAT-TA-TATTATA-TATAATATATAA
62677796 A-ATTA-ATTATATAT-ATAATATAA
1 ATATTATATTATATATAAT-ATATAA
*
62677819 TAAATTATAATTA-ATAT--TA-ATAA
1 -ATATTAT-ATTATATATAATATATAA
*
62677842 ATAATATA-TATA-ATTAATTATATAAA
1 ATATTATATTATATA-TAA-TATAT-AA
* * *
62677868 TATTATTATATTAAATATTTATATATTA
1 -A-TATTATATTATATA-TAATATATAA
62677896 A-ATTA-ATTATATATAATA-ATAA
1 ATATTATATTATATATAATATATAA
*
62677918 A-ATT-TA--ATATAAAATATATAA
1 ATATTATATTATATATAATATATAA
*
62677939 TATAATT-TAATTAT-TAAAATATAT-A
1 -AT-ATTAT-ATTATATATAATATATAA
**
62677964 AT-TTATAAAATAATATAATAATATAA
1 ATATTATATTAT-ATATAAT-ATATAA
*
62677990 TATAATTAAATT-TA-AT-ATATATATA
1 -AT-ATTATATTATATATAATATATA-A
*
62678015 ATATTAATAATATATATAAATTAATAATAA
1 ATATT-ATATTATATAT-AA-T-AT-ATAA
62678045 ATA--ATATTAT-TATTAATATTATTATA
1 ATATTATATTATATA-TAATA-TA-TA-A
* * * *
62678071 TTATTATATTA-AAATTAT-TAATTA
1 ATATTATATTATATATAATAT-ATAA
* * *
62678095 TTATTAAATTCTAT-T-ATATATATA
1 ATATTATATTATATATAATATATA-A
* *
62678119 A-ATTATATTAAAATATAAAATA-AA
1 ATATTATATT-ATATATAATATATAA
* *
62678143 ATATTATATTTATAATATATTAAATATA
1 ATATTATA-TTAT-ATATAATATATA-A
* * * *
62678171 AT-TAAAATTATAATATTAATAAAAAA
1 ATATTATATTAT-ATA-TAATATATAA
* * * * *
62678197 AAATAATTATTATAAATATTATATTA
1 ATATTA-TATTATATATAATATATAA
* * * *
62678223 TTATTATATTAATTAAATAATATTTTA
1 ATATTATATT-A-TATATAATATATAA
* *
62678250 A-ATTAAATTAT-TAAATATATATAA
1 ATATTATATTATATATA-ATATATAA
*
62678274 ATATTATTTATATATATAATATATTAA
1 ATATTATAT-TATATATAATATA-TAA
* * *
62678301 TTATATATATAAT-TATTAATAAATATA
1 ATAT-TATATTATATA-TAATATATA-A
* * *
62678328 ATAATAAAATTA-ATTATTATATATAATAC
1 AT-ATTATATTATA-TA-TA-ATAT-ATAA
*
62678357 ATAATTATA-TATTCTAATTATATATAATAA
1 AT-ATTATATTA-TAT-A-TA-ATAT-ATAA
*
62678387 ATAATTATTTTATA-ATTAATAATATAA
1 AT-ATTATATTATATA-TAAT-ATATAA
* * *
62678414 AAATTATAATATATATAATATAATTA
1 ATATTATATTATATATAATAT-ATAA
*
62678440 ATA-TA-AATATATAATAAT-TATTAA
1 ATATTATATTATAT-ATAATATA-TAA
* * * *
62678464 TTGATATAAAGTTATATATTTAATAAATTAT
1 AT-AT-TATA-TTATATA--TAATATA-TAA
* **
62678495 ATATTATTATTATTATATAATATTCTTT
1 ATATTA-TATTA-TATATAATA-TATAA
* *
62678523 ATATTA-ATAATATAT-ATTTA-AA
1 ATATTATATTATATATAATATATAA
*
62678545 ATAATATAGTTATATATAATATAT-A
1 ATATTATA-TTATATATAATATATAA
* *
62678570 A-ATTATATAATAAATTAATTATATAA
1 ATATTATATTATATA-TAA-TATATAA
* *
62678596 TATATTATA-AATATAT-ATATTTAAA
1 -ATATTATATTATATATAATATAT-AA
* *
62678621 TTATATTATATAATAAAATATATATATAA
1 --ATATTATATTAT-ATATA-ATATATAA
*
62678650 ATATTTTATT-TATATAAT-TATAA
1 ATATTATATTATATATAATATATAA
62678673 TTATATACAA
Statistics
Matches: 2712, Mismatches: 486, Indels: 1060
0.64 0.11 0.25
Matches are distributed among these distances:
19 17 0.01
20 67 0.02
21 150 0.06
22 228 0.08
23 310 0.11
24 368 0.14
25 354 0.13
26 383 0.14
27 306 0.11
28 203 0.07
29 171 0.06
30 106 0.04
31 38 0.01
32 7 0.00
34 4 0.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTATATTATATATAATATATAA
Found at i:62675032 original size:68 final size:68
Alignment explanation
Indices: 62674871--62675954 Score: 197
Period size: 68 Copynumber: 16.1 Consensus size: 68
62674861 AAATAATAAA
* *
62674871 ATATATTAAT-TTTATT-ATATAT-TAATATATTATAAAAATT-TAATTATTTAT-ATAATATTA
1 ATATATTAATATTTATTAATATATATAAT-TA-TAT-AAAATTAT-ATTATATATAATAATAATA
*
62674931 -TATATA
62 TTATATT
* *
62674937 ATATAAATAAGTA-TTATAAAATATATATAA-TATATAAAATTATATTATATATAATAATAAATA
1 ATAT-ATTAA-TATTTAT-TAATATATATAATTATATAAAATTATATTATATATAATAAT-AATA
62675000 TTATATT
62 TTATATT
* * *
62675007 ATATATTAATATTTATTAATATATATAAATTTTATAAAA-TAGCA-T-TATATAATAAT-TTATT
1 ATATATTAATATTTATTAATATATAT-AATTATATAAAATTA-TATTATATATAATAATAATA-T
62675068 TATATT
63 TATATT
* * * *
62675074 ATTATATTTATATAATATTAATATTTATAATTATATTAATTAATTAATTAAATATATATAATTAT
1 A-TATATTAATAT-TTATTAATATATATAATTATA-TAA--AATT-A-T-ATTATATATAA-TA-
* *
62675139 ATAAATAAAATATACT
56 AT-AAT--ATTATATT
* * * *
62675155 AGTATATAGAATATATT-TTATATATATAATAATTATA-AAAATTATA--AAATATAATGATAAA
1 A-TATAT-TAATAT-TTATTA-ATATAT-ATAATTATATAAAATTATATTATATATAATAATAAT
*
62675216 AATA-ATT
61 ATTATATT
* * * * * * *
62675223 A-ATTATTATTATTTAATAAAAT-TAT-ATT-TATTAATTTATA-TA-ATATTATATTAATATTA
1 ATA-TATTAATATTTATTAATATATATAATTATATAAAATTATATTATATATAATAATAATATTA
62675282 TAATT
65 T-ATT
* * * * *
62675287 AAATAAATAATATAATATTAATATAATAAAATATTATATAAATATATTATAATATATATAATATA
1 ATAT-ATTAATAT-TTATTAATAT-AT-ATA-ATTATAT-AA-A-ATTATATTATATATAATA-A
62675352 TAATA-TATATT
57 TAATATTATATT
* * * *
62675363 ATA-AAT-ATAATTATATAA-ATATA-AAATATAATTAAATTATA-TA-ATATAAT-A-AAT-TT
1 ATATATTAATATTTAT-TAATATATATAATTAT-ATAAAATTATATTATATATAATAATAATATT
62675419 ATATT
64 ATATT
* * *
62675424 AAATATATAA-ATTTA-T-ATATATAATATATTATAGT--TATTAT-TTAATATATAATTATAAT
1 ATATAT-TAATATTTATTAATATAT-ATA-ATTATA-TAAAATTATATT-ATATATAATAATAAT
62675483 -TTAATAATT
61 ATT-AT-ATT
* ** * * * * * *
62675492 -TAATATTAAAATAAATTATTAAATAT-TTTATAT-AAATTAAATATAATAAATAATAATTATAA
1 AT-ATATTAATATTTATTAATATATATAATTATATAAAATT--ATATTATATATAATAA-TA-AT
62675554 ATTATATT
61 ATTATATT
* * * *
62675562 CATTAAATAAAATATATATTAATA-ATAT-ATTAAATATAAAAATA-ATTA-ATA-AAT-AT-A-
1 -A-TATAT-TAATATTTATTAATATATATAATT--ATATAAAATTATATTATATATAATAATAAT
*
62675619 GTTAT-TT
61 ATTATATT
* *
62675626 ATAATAATAA-ACTTTA-TAATA-AT-TAA-TATATTAAA-TATA-TATATAT-ATAAATAA-A-
1 AT-ATATTAATA-TTTATTAATATATATAATTATATAAAATTATATTATATATAAT-AATAATAT
62675681 TA-ATT
63 TATATT
* *
62675686 ATATATTAATAATATATATTAA-ATATTATAATATTATATATAAA-TA-ATAATAAATACATAAT
1 ATATATTAAT-AT-T-TATTAATATA-TAT-A-ATTATATA-AAATTATATTATATATA-ATAAT
*
62675748 ATTTATTATATAATT
58 A-ATATT--AT-ATT
* * * *
62675763 ATATATATAAAAATTATTAATATATAT-A-TATATTAAAAATATA-TATATAT-TTAAT-AT-TT
1 ATATAT-TAATATTTATTAATATATATAATTATA-TAAAATTATATTATATATAATAATAATATT
*
62675822 ATAACT
64 AT-ATT
* * *
62675828 ATAATAATTATATATTT-TTAAT-TA-A-AAATA-ATAAATTTA-ATAATA-AT-ATAA-AATA-
1 AT-AT-ATTA-ATATTTATTAATATATATAATTATATAAAATTATATTATATATAATAATAATAT
62675883 TATATT
63 TATATT
* * * *
62675889 A-ATA-T-ATATATAATAAT-TATATAATTATA-AAAA-TATA-TATATATAATAAAAATA-TAA
1 ATATATTAATATTTATTAATATATATAATTATATAAAATTATATTATATATAATAATAATATTAT
62675946 ATT
66 ATT
62675949 ATATAT
1 ATATAT
62675955 ATTATAATAT
Statistics
Matches: 761, Mismatches: 111, Indels: 296
0.65 0.10 0.25
Matches are distributed among these distances:
55 5 0.01
56 6 0.01
57 11 0.01
58 24 0.03
59 13 0.02
60 22 0.03
61 36 0.05
62 51 0.07
63 27 0.04
64 32 0.04
65 31 0.04
66 43 0.06
67 52 0.07
68 79 0.10
69 66 0.09
70 46 0.06
71 26 0.03
72 36 0.05
73 24 0.03
74 16 0.02
75 20 0.03
76 19 0.02
77 23 0.03
78 11 0.01
79 4 0.01
80 1 0.00
81 16 0.02
82 12 0.02
83 9 0.01
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (68 bp):
ATATATTAATATTTATTAATATATATAATTATATAAAATTATATTATATATAATAATAATATTAT
ATT
Found at i:62675072 original size:16 final size:17
Alignment explanation
Indices: 62674967--62675102 Score: 80
Period size: 17 Copynumber: 8.2 Consensus size: 17
62674957 ATATATATAA
62674967 TATATAA-AATTATATT
1 TATATAATAATTATATT
*
62674983 ATATATAATAA-TAAATAT
1 -TATATAATAATTATAT-T
*
62675001 TATATTATATATTAATATT
1 TATATAATA-ATT-ATATT
*
62675020 TAT-TAATATATATAAATT
1 TATATAATA-AT-TATATT
*
62675038 T-TATAA-AA-TAGCA-T
1 TATATAATAATTA-TATT
62675052 TATATAATAATT-TATT
1 TATATAATAATTATATT
62675068 TATAT--T-ATTATATT
1 TATATAATAATTATATT
62675082 TATATAAT-ATTAATATT
1 TATATAATAATT-ATATT
62675099 TATA
1 TATA
62675103 ATTATATTAA
Statistics
Matches: 96, Mismatches: 7, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
13 3 0.03
14 14 0.15
15 7 0.07
16 13 0.14
17 31 0.32
18 19 0.20
19 6 0.06
20 3 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
TATATAATAATTATATT
Found at i:62675107 original size:23 final size:24
Alignment explanation
Indices: 62675074--62675135 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
62675064 TATTTATATT
*
62675074 ATTATATTTATATAATATTAA-TA
1 ATTATAATTATATAATATTAATTA
* *
62675097 TTTATAATTATATTA-ATTAATTA
1 ATTATAATTATATAATATTAATTA
62675120 ATTA-AATATATATAAT
1 ATTATAAT-TATATAAT
62675136 TATATAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATAATTATATAATATTAATTA
Found at i:62675139 original size:37 final size:38
Alignment explanation
Indices: 62674779--62674946 Score: 61
Period size: 37 Copynumber: 4.7 Consensus size: 38
62674769 AAATAAATTT
62674779 TTATTATA--AATATAATAT-TAAT-ATT-TAA-TATA
1 TTATTATATTAATATAATATATAATAATTATAATTATA
* * *
62674811 ATATT-TA-TATATATAACA-ATAATAAATATAAATTAAATA
1 TTATTATATTA-ATATAATATATAATAATTAT-AATT--ATA
* *
62674850 TT-TAATATT-ATA-AATA-ATAA-AATATATTAATTTTA
1 TTATTATATTAATATAATATATAATAAT-TA-TAATTATA
*
62674885 TTA-TATATTAATAT-AT-TATAAAAATT-TAATTAT-
1 TTATTATATTAATATAATATATAATAATTATAATTATA
62674918 TTATATAATATTATATATAATATA-AATAA
1 TTAT-T-ATATTA-ATATAATATATAATAA
62674947 GTATTATAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 42
0.66 0.07 0.27
Matches are distributed among these distances:
31 2 0.02
32 5 0.05
33 14 0.14
34 8 0.08
35 11 0.11
36 20 0.20
37 21 0.21
38 11 0.11
39 8 0.08
40 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (38 bp):
TTATTATATTAATATAATATATAATAATTATAATTATA
Found at i:62675149 original size:23 final size:23
Alignment explanation
Indices: 62675105--62675452 Score: 72
Period size: 21 Copynumber: 14.7 Consensus size: 23
62675095 TATTTATAAT
* *
62675105 TATAT-TAATTA-ATTAATTAAA
1 TATATATAATTATATAAATAAAA
62675126 TATATATAATTATATAAATAAAA
1 TATATATAATTATATAAATAAAA
* ** * *
62675149 TATACTAGTATATAGAATATATTTTATA
1 TATA-TA-TA-AT--TATATAAATAAAA
* *
62675177 TATATAATAATTATAAAAATTATAA
1 TATAT-ATAATTATATAAA-TAAAA
* *
62675202 -A-ATATAATGATAAAAATAATTAA
1 TATATATAATTATATAAATAA--AA
*
62675225 T-TAT-T-ATTAT-TTAATAAAA
1 TATATATAATTATATAAATAAAA
62675244 TTATATTTATTAATTTATATAATATTATATTAA
1 -TATA--TA-TAA-TTATATAA-A-TA-A--AA
*
62675277 TAT-TATAATTAAATAAAT--AA
1 TATATATAATTATATAAATAAAA
62675297 TATA-AT-ATTA-ATATAATAAAA
1 TATATATAATTATATA-AATAAAA
* *
62675318 TATTATATAA--ATAT-ATTATAA
1 TA-TATATAATTATATAAATAAAA
*
62675339 TATATATAA-TATATAATATATATTA
1 TATATATAATTATATAA-ATA-A-AA
*
62675364 TAAATATAATTATATAAATATAAA
1 TATATATAATTATATAAATA-AAA
62675388 -ATATAATTAAATTATATAATATAATAAA
1 TATAT-A-T-AATTATATAA-AT-A-AAA
* * **
62675416 TTTATATTAAATATATAAAT-TTA
1 TATATA-TAATTATATAAATAAAA
62675439 TATATATAA-TATAT
1 TATATATAATTATAT
62675453 TATAGTTATT
Statistics
Matches: 246, Mismatches: 34, Indels: 94
0.66 0.09 0.25
Matches are distributed among these distances:
18 3 0.01
19 9 0.04
20 15 0.06
21 34 0.14
22 29 0.12
23 33 0.13
24 12 0.05
25 21 0.09
26 25 0.10
27 25 0.10
28 26 0.11
29 6 0.02
30 2 0.01
31 1 0.00
32 3 0.01
33 2 0.01
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
TATATATAATTATATAAATAAAA
Found at i:62675273 original size:5 final size:5
Alignment explanation
Indices: 62675243--62675365 Score: 53
Period size: 5 Copynumber: 25.2 Consensus size: 5
62675233 ATTTAATAAA
*
62675243 ATTAT ATT-T ATTA- ATTTAT ATAAT ATTAT ATTAAT ATTAT AATTA-
1 ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT ATT-AT ATTAT -ATTAT
* * * * * ** *
62675288 AATAA ATAAT ATAAT ATTAAT ATAAT AAAAT ATTAT A-TA- AATAT ATTAT
1 ATTAT ATTAT ATTAT ATT-AT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
* * *
62675337 AATAT A-TAT AATAT ATAAT A-TAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
62675366 AATATAATTA
Statistics
Matches: 91, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
3 1 0.01
4 19 0.21
5 57 0.63
6 14 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
ATTAT
Found at i:62675319 original size:21 final size:21
Alignment explanation
Indices: 62675280--62675415 Score: 105
Period size: 21 Copynumber: 7.0 Consensus size: 21
62675270 ATATTAATAT
62675280 TATAAT-TAAATA-AAT--AA
1 TATAATATAAATATAATAAAA
*
62675297 TATAATATTAATATAATAAAA
1 TATAATATAAATATAATAAAA
* * *
62675318 TATTATATAAATATATTATAA
1 TATAATATAAATATAATAAAA
*
62675339 TAT-ATAT-AATAT-ATAATA
1 TATAATATAAATATAATAAAA
* * *
62675357 TATATTATAAATATAATTATA
1 TATAATATAAATATAATAAAA
*
62675378 TA-AATATAAAATATAATTAAA
1 TATAATAT-AAATATAATAAAA
62675399 T-T-ATAT-AATATAATAAA
1 TATAATATAAATATAATAAA
62675416 TTTATATTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
17 6 0.06
18 21 0.22
19 11 0.11
20 17 0.18
21 42 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATATAAATATAATAAAA
Found at i:62675333 original size:2 final size:2
Alignment explanation
Indices: 62675317--62675456 Score: 71
Period size: 2 Copynumber: 78.5 Consensus size: 2
62675307 ATATAATAAA
*
62675317 AT AT -T AT AT AA AT AT AT -T AT A- AT AT AT AT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
62675354 AT AT AT AT -T AT AA AT AT A- AT -T AT AT AA AT AT A- AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
62675392 A- AT -T AA AT -T AT AT A- AT AT A- AT AA AT TT AT AT -T AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
62675428 AT AT AA AT TT AT AT AT AT A- AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62675457 GTTATTATTT
Statistics
Matches: 102, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
1 17 0.17
2 85 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:62675348 original size:164 final size:169
Alignment explanation
Indices: 62675074--62675383 Score: 390
Period size: 164 Copynumber: 1.9 Consensus size: 169
62675064 TATTTATATT
*
62675074 ATTATATTTATATAATATTAATATTTATAATTATATTAATTAATTAATTAAATATATATAATTAT
1 ATTATATTTATATAATATTAATATTTATAATTATATTAATTAATTAAATAAATATATATAATTAT
* * * *
62675139 ATAAATAAAATATACTAGTATATAGAATATATTTTATATATATAATA-ATTATAAAAATTATAAA
66 ATAAATAAAATAAAATAGTATATAGAATATATTTAATATATATAATATATAATAAAAATTAT-AA
62675203 ATATAATGATAAAAATAATTAATTATTATTATTTAATAAA
130 ATATAATGATAAAAATAATTAATTATTATTATTTAATAAA
62675243 ATTATATTTAT-TAAT-TTATATAATATTAT-ATTAATATT-A-TAATTAAATAAATA-ATATAA
1 ATTATATTTATATAATATTA-AT-AT-TTATAATT-ATATTAATTAATTAAATAAATATATATAA
* * * *
62675302 -TAT-T-AATATAATAAAATATTATATA-AATATATTATAATATATATAATATATAATATATATT
62 TTATATAAATAAAATAAAATAGTATATAGAATATATT-TAATATATATAATATATAATAAAAATT
* *
62675363 ATAAATATAATTATATAAATA
126 ATAAATATAATGATAAAAATA
62675384 TAAAATATAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
163 8 0.06
164 47 0.38
165 12 0.10
166 3 0.02
167 9 0.07
168 19 0.15
169 17 0.14
170 9 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (169 bp):
ATTATATTTATATAATATTAATATTTATAATTATATTAATTAATTAAATAAATATATATAATTAT
ATAAATAAAATAAAATAGTATATAGAATATATTTAATATATATAATATATAATAAAAATTATAAA
TATAATGATAAAAATAATTAATTATTATTATTTAATAAA
Found at i:62675444 original size:59 final size:59
Alignment explanation
Indices: 62675307--62676025 Score: 130
Period size: 57 Copynumber: 12.2 Consensus size: 59
62675297 TATAATATTA
62675307 ATATAATA-A-AATAT-TA-TATAAATAT-ATTATAATATATATAATATATAA-TAT-ATAT
1 ATATAATATATAATATATATTATAAATATAATTAT-ATATATA-AA-ATATAATTATAATAT
* * * *
62675362 -TATAA-ATATAATTATATAAATATAAAATATAATTAAAT-TATATAATATAA-TA-AATTT
1 ATATAATATATAA-TATAT-ATTAT-AAATATAATTATATATATAAAATATAATTATAATAT
* * *
62675419 ATATTAAATATATAA-ATTTATATATATAATAT-ATTATAGT-TAT--TATTTAA-TAT-ATA-
1 ATA-T-AATATATAATATATAT-TATA-AATATAATTATA-TATATAAAATATAATTATAATAT
* * * ***
62675475 ATTATAATTTAATAATTTAATATTA-AAATA-AATTATTAAATATTTTATATAAATTA-AATAT
1 A-TATAATAT-ATAATAT-ATATTATAAATATAATTA-TATATATAAAATAT-AATTATAATAT
* * * *
62675536 A-ATAA-ATAATAATTATAAATTAT--AT-TCATTA-A-ATAAAATATATA-TTAATAATAT
1 ATATAATAT-ATAA-TATATATTATAAATATAATTATATATATAAAATATAATT-ATAATAT
* *
62675590 AT-TAAATATA-AAAATA-ATTAATAAATATAGTTAT-T-TATAATAATA-AACTTTATAATA-
1 ATAT-AATATATAATATATATT-ATAAATATAATTATATATATAA-AATATAA--TTATAATAT
62675647 AT-TAATATATTAAATATATATATATATAAATAAATAATTATATAT-TAATAATATATATTA-AA
1 ATATAATATA-T--A-ATATATAT-TATAAAT--ATAATTATATATATAA-AATATA-ATTATAA
62675709 TAT
57 TAT
* * * * * *
62675712 -TATAATATTATATATAAATAATAATAAATACATAATATTTATTATATAATTATATATATAAAAA
1 ATATAATA-TATA-ATATAT-ATTATAAAT--ATAAT-TATA-TATATAA-AATATA-ATTATAA
62675776 T-T
57 TAT
* * * *
62675778 AT-TAATATAT-ATATATATTAAAAATAT-A-TATATATTTAATATTTATAACTATAATA-
1 ATATAATATATAATATATATTATAAATATAATTATATATATAA-A-ATATAATTATAATAT
* * * * * * *
62675834 ATTATATATTTTTAATTAAAAATAATAAATTTAATAATA-ATATAAAATATATATTA-ATATAT
1 A-TATA-ATATATAA-TATATATTATAAATATAATTATATATATAAAATATA-ATTATA-ATAT
* *
62675896 ATATAATA-ATTATATA-ATTATAAAAAT-ATATATATATAATAAAAATATAAATTAT-ATAT
1 ATATAATATATAATATATATTATAAATATAAT-TATATAT-AT-AAAATAT-AATTATAATAT
* ** * *
62675955 ATTATAATATAATAATATAAATATATATTTTTAATTATATA-ATATAAAT-TATTTACTAATAT
1 A-TATAATAT-ATAATATATAT-TATAAATATAATTATATATATA-AAATATAATTA-TAATAT
62676017 ATAT-ATATA
1 ATATAATATA
62676026 AATTACATAA
Statistics
Matches: 498, Mismatches: 69, Indels: 190
0.66 0.09 0.25
Matches are distributed among these distances:
52 5 0.01
53 8 0.02
54 23 0.05
55 20 0.04
56 47 0.09
57 57 0.11
58 42 0.08
59 48 0.10
60 52 0.10
61 44 0.09
62 40 0.08
63 30 0.06
64 28 0.06
65 26 0.05
66 23 0.05
67 5 0.01
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (59 bp):
ATATAATATATAATATATATTATAAATATAATTATATATATAAAATATAATTATAATAT
Found at i:62675519 original size:27 final size:27
Alignment explanation
Indices: 62675489--62675543 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
62675479 TAATTTAATA
*
62675489 ATTTAATATTAAAATAAAT-TATTAAAT
1 ATTTAATA-TAAAATAAATATAATAAAT
* *
62675516 ATTTTATATAAATTAAATATAATAAAT
1 ATTTAATATAAAATAAATATAATAAAT
62675543 A
1 A
62675544 ATAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTAATATAAAATAAATATAATAAAT
Done.