Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 201 of 444
Found at i:56212237 original size:24 final size:24
Alignment explanation
Indices: 56212210--56212440 Score: 354
Period size: 24 Copynumber: 9.6 Consensus size: 24
56212200 CTTATTATGT
* * *
56212210 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
56212234 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
56212258 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
56212282 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
56212306 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
56212330 TCGCACACATAGTGCCATAGTAAG
1 TCGCACACATAGTGCCATAGTAAA
*
56212354 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
56212378 TCGCACACATAGTGCCATAGTAAG
1 TCGCACACATAGTGCCATAGTAAA
*
56212402 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
56212426 TCGCACACATAGTGC
1 TCGCACACATAGTGC
56212441 ATTTGAGATA
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 192 1.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:56212897 original size:2 final size:2
Alignment explanation
Indices: 56212890--56212919 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56212880 ATGGGCATAC
56212890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56212920 CATACCCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56220004 original size:24 final size:24
Alignment explanation
Indices: 56219977--56220202 Score: 345
Period size: 24 Copynumber: 9.6 Consensus size: 24
56219967 CTTATTATGT
* * *
56219977 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
56220001 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
56220025 TCGCACAC-TAGTG-CATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
56220047 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
56220070 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
56220094 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
56220117 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
56220141 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
56220164 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
56220188 TCGCACACATAGTGC
1 TCGCACACATAGTGC
56220203 ATTTGAGATA
Statistics
Matches: 193, Mismatches: 4, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
22 16 0.08
23 79 0.41
24 98 0.51
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:56220104 original size:47 final size:47
Alignment explanation
Indices: 56219977--56220202 Score: 366
Period size: 47 Copynumber: 4.8 Consensus size: 47
56219967 CTTATTATGT
* * ** * *
56219977 TCGCACACATAGAGCTATAGCAAATCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGT-AA
*
56220025 TCGCACAC-TAGTG-CATAGTAAATCGCACACATAGTGCCATAGTAA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
56220070 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
56220117 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
56220164 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGC
1 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGC
56220203 ATTTGAGATA
Statistics
Matches: 170, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
45 10 0.06
46 31 0.18
47 121 0.71
48 8 0.05
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (47 bp):
TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAA
Found at i:56220660 original size:2 final size:2
Alignment explanation
Indices: 56220653--56220678 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56220643 TGGGCATACT
56220653 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
56220679 CATACCCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56222131 original size:17 final size:19
Alignment explanation
Indices: 56222089--56222132 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56222079 ATGAAATTTT
*
56222089 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56222108 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56222126 AA-TATTA
1 AATTATTA
56222133 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56223958 original size:28 final size:28
Alignment explanation
Indices: 56223926--56223994 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56223916 GCGTAGATCA
56223926 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
56223954 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56223982 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56223995 GGGTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56226399 original size:17 final size:19
Alignment explanation
Indices: 56226357--56226400 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56226347 ATGAAATTTT
*
56226357 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56226376 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56226394 AA-TATTA
1 AATTATTA
56226401 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56228216 original size:28 final size:28
Alignment explanation
Indices: 56228185--56228253 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
56228175 GCGTAGATCA
56228185 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56228213 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56228241 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56228254 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56230655 original size:17 final size:19
Alignment explanation
Indices: 56230613--56230656 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56230603 ATGAAATTTT
*
56230613 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56230632 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56230650 AA-TATTA
1 AATTATTA
56230657 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56232478 original size:28 final size:28
Alignment explanation
Indices: 56232446--56232514 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
56232436 GCGTAGATCA
56232446 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56232474 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
56232502 CGATA-TACCCCTA
1 CGAAATTACCCCTA
56232515 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:56236815 original size:17 final size:19
Alignment explanation
Indices: 56236773--56236816 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56236763 ATAAAATTTT
*
56236773 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56236792 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56236810 AA-TATTA
1 AATTATTA
56236817 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56236929 original size:15 final size:15
Alignment explanation
Indices: 56236911--56236939 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56236901 ATATTTATAA
56236911 AATTATTATTATTAT
1 AATTATTATTATTAT
56236926 AATTATTATTATTA
1 AATTATTATTATTA
56236940 GATAGGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:56243136 original size:27 final size:28
Alignment explanation
Indices: 56243079--56243148 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
56243069 AAATTTGTAC
*
56243079 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
56243107 AGCACTAAGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
56243134 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56243149 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:56254303 original size:30 final size:30
Alignment explanation
Indices: 56254269--56254325 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
56254259 CGAGCCTAGA
56254269 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
56254299 GGCAAAATTGTAATTTTTCAAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
56254326 GAGTTAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:56255138 original size:64 final size:64
Alignment explanation
Indices: 56255058--56255241 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
56255048 AGACATTATG
* * *
56255058 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
56255122 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56255187 AA
63 AA
* * *
56255189 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
56255242 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56261260 original size:27 final size:27
Alignment explanation
Indices: 56261230--56261312 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
56261220 GATGCAAAAG
* *
56261230 TATATAGTGAGTCCGCACACTTAGTGC
1 TATATAATAAGTCCGCACACTTAGTGC
*
56261257 TATATAATCAG-CTCGCACACTTAGTGC
1 TATATAATAAGTC-CGCACACTTAGTGC
* *
56261284 TATATAATCAAATTCGCACACTTAGTGC
1 TATATAAT-AAGTCCGCACACTTAGTGC
56261312 T
1 T
56261313 GTACAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 31 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
TATATAATAAGTCCGCACACTTAGTGC
Found at i:56261309 original size:28 final size:27
Alignment explanation
Indices: 56261243--56261312 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
56261233 ATAGTGAGTC
*
56261243 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
56261270 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
56261298 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56261313 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56263039 original size:40 final size:40
Alignment explanation
Indices: 56262990--56263197 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 40
56262980 TCTTCGGAAT
* * *
56262990 TTAG-CCGGATATAACCACAAGCACTATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACTAATGCCTTCGGGTC
* * ** * * *
56263029 TTAACCCGGATTTGGTGACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACTAATGCCTTCGGGTC
* * *
56263069 TTAGCCCGAATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACTAATGCCTTCGGGTC
* *
56263109 TTAGCTCGGATATAATCACTAGCA-TAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACT-AATGCCTTCGGGTC
*
56263149 TTAGCCCGGATATAATCACTAGCA-TAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACT-AATGCCTTCGGGTC
56263189 TTAGCCCGG
1 TTAGCCCGG
56263198 GTATCATTCA
Statistics
Matches: 141, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACTAATGCCTTCGGGTC
Found at i:56268818 original size:43 final size:42
Alignment explanation
Indices: 56268764--56268877 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 42
56268754 TGTGATTGCA
* *
56268764 TGTAAGA-CATGTCTGGGACATTGGCATTGTATTAA-GATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCG--TTAACGATTTCG
* * *
56268806 TGTAAGACCATGTCTAAGACATTAGCATCGTTAATCGGTTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTTAA-CGATTTCG
* *
56268849 TGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGTAAGACCATGTCTAGGACATTGGCATC
56268878 CATATGTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.07
42 7 0.12
43 49 0.82
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTTAACGATTTCG
Found at i:56276279 original size:40 final size:40
Alignment explanation
Indices: 56276234--56276421 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
56276224 ATAACCACAA
* * * ** * *
56276234 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTATCTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
56276274 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
* *
56276314 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGA-CAACTC
* * *
56276354 GCATAAATGCCTTCGGGACTTAGCCCGGATAT-ATTC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGA--CAACTC
* *
56276394 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56276422 GTATCATTCA
Statistics
Matches: 135, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
Found at i:56276341 original size:80 final size:79
Alignment explanation
Indices: 56276233--56276421 Score: 229
Period size: 80 Copynumber: 2.4 Consensus size: 79
56276223 TATAACCACA
* * * ** * *
56276233 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT-ATCTTGCACAAATGCCTTCGGGTCTTAG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGCCTTCGGGACTTAG
56276297 CCCGGATATGA-CAACT
65 CCCGGATAT-ATC-ACT
* *
56276313 CGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGC
56276378 CCGGATATATTCACT
66 CCGGATATA-TCACT
* *
56276393 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
56276422 GTATCATTCA
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 91 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGC
CCGGATATATCACT
Found at i:56282845 original size:16 final size:16
Alignment explanation
Indices: 56282819--56282857 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
56282809 TGCCATAGTT
56282819 GTTGATTTAGCTAAATG
1 GTTG-TTTAGCTAAATG
56282836 GTTGTTTAGCTAAATG
1 GTTGTTTAGCTAAATG
56282852 GTTGTT
1 GTTGTT
56282858 CTTTTGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (16 bp):
GTTGTTTAGCTAAATG
Found at i:56286239 original size:40 final size:42
Alignment explanation
Indices: 56286176--56286281 Score: 101
Period size: 42 Copynumber: 2.6 Consensus size: 42
56286166 CTATCTTAGT
*
56286176 ATCGCACACTTAGTG-C-CACATATAGCCAAAGCTAT-TCCA
1 ATCGCACACTAAGTGTCACACATATAGCCAAAGCTATCTCCA
* * * * *
56286215 ATTCGCACACTAAGTGTTATATATATAGCCGAAGCTATCTCGA
1 A-TCGCACACTAAGTGTCACACATATAGCCAAAGCTATCTCCA
* * *
56286258 AACGCACACTAAGTGCCAAACATA
1 ATCGCACACTAAGTGTCACACATA
56286282 GTCGATTCGT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
39 1 0.02
40 13 0.25
42 34 0.65
43 4 0.08
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
ATCGCACACTAAGTGTCACACATATAGCCAAAGCTATCTCCA
Found at i:56286509 original size:21 final size:22
Alignment explanation
Indices: 56286483--56286529 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
56286473 TATATGTACT
56286483 CAAATTTAACTC-ATTTAAT-CA
1 CAAATTT-ACTCAATTTAATCCA
*
56286504 CAAATTTATTCAATTTAATCCA
1 CAAATTTACTCAATTTAATCCA
56286526 CAAA
1 CAAA
56286530 GCATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (22 bp):
CAAATTTACTCAATTTAATCCA
Found at i:56286748 original size:28 final size:29
Alignment explanation
Indices: 56286684--56286749 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
56286674 TTTCAATTTA
* * *
56286684 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
* *
56286713 TTTCTCAAATTAATCCCT-AATTGACATT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
56286741 TTTGTCAAA
1 TTTCTCAAA
56286750 AAACACTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:56294323 original size:29 final size:29
Alignment explanation
Indices: 56294289--56294422 Score: 81
Period size: 29 Copynumber: 4.6 Consensus size: 29
56294279 TACTCGATTT
* * *
56294289 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
56294318 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
56294347 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
56294376 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
*
56294405 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
56294423 TATTTCCAGC
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
29 84 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:56294381 original size:58 final size:58
Alignment explanation
Indices: 56294348--56294478 Score: 253
Period size: 58 Copynumber: 2.3 Consensus size: 58
56294338 CTTCGAGCTC
56294348 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
*
56294406 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGTCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
56294464 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56294479 ATCTCGTCAC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (58 bp):
GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCAT
Found at i:56294410 original size:87 final size:87
Alignment explanation
Indices: 56294319--56294478 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
56294309 ATTTAAGCCC
* * *
56294319 GCACACACAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 GCACACACAGTGCCATACACTTCCAGCAT-GCACACTCAGTGCCATATATTTCCAGCATGCACAC
56294383 TCAGTGCCATATTTTTCCAGCAT
65 TCAGTGCCATATTTTTCCAGCAT
** * * * *
56294406 GCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGTCATATTTTTCCAGCATGCACACT
1 GCACACACAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCATGCACACT
*
56294471 TAGTGCCA
66 CAGTGCCA
56294479 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 61 0.98
88 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (87 bp):
GCACACACAGTGCCATACACTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCATGCACACT
CAGTGCCATATTTTTCCAGCAT
Found at i:56294423 original size:29 final size:29
Alignment explanation
Indices: 56294348--56294478 Score: 217
Period size: 29 Copynumber: 4.5 Consensus size: 29
56294338 CTTCGAGCTC
56294348 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
56294377 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56294406 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* * *
56294435 GCACACTCAGTGTCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56294464 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56294479 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:56296031 original size:41 final size:45
Alignment explanation
Indices: 56295973--56296105 Score: 143
Period size: 45 Copynumber: 3.0 Consensus size: 45
56295963 ATGCTATCTC
* * *
56295973 ATATCGATGCCACTGTCCCAAACAGGGTCTTACAC-AAATCA-A-
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAACCACAT
* * *
56296015 ATAT-GATGCCAATGTCCTAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAACCACAT
*
56296059 ATATCGATGCCAACGTCCCAGAC-GTGGTCTTACACGAGAA-CACAT
1 ATATCGATGCCAATGTCCCAGACAG-GGTCTTACACGA-AACCACAT
56296104 AT
1 AT
56296106 TAGAAATCCT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
41 26 0.35
42 8 0.11
43 1 0.01
44 4 0.05
45 34 0.45
46 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAAACCACAT
Found at i:56296087 original size:45 final size:43
Alignment explanation
Indices: 56295936--56296095 Score: 130
Period size: 45 Copynumber: 3.7 Consensus size: 43
56295926 ATATCATACA
* * * ** * **
56295936 ATGCCAACGTCCTAGATGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAACCAAATATCG
* *
56295979 ATGCC-ACTGTCCCAAACAG-GGTCTTACAC-AAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAACCAAATATCG
* * * *
56296020 ATGCCAATGTCCTAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAACCA-A-ATATCG
56296065 ATGCCAACGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
56296096 GAACACATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 23 0.25
42 14 0.15
43 21 0.23
44 5 0.05
45 28 0.31
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAACCAAATATCG
Found at i:56298869 original size:40 final size:40
Alignment explanation
Indices: 56298820--56299023 Score: 243
Period size: 40 Copynumber: 5.2 Consensus size: 40
56298810 TCTTCGGAAT
* * *
56298820 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
56298859 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
56298898 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
56298938 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
56298978 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
56299018 TTAGCC
1 TTAGCC
56299024 GGGTATCATT
Statistics
Matches: 141, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.24
40 106 0.75
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:56298913 original size:79 final size:79
Alignment explanation
Indices: 56298811--56299020 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 79
56298801 CAACGAGCTT
* * * * **
56298811 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAACCCGGATATAAT
*
56298875 AACTTGCACAAATGC
65 AACTAGCACAAATGC
* * * *
56298890 CTTC-GGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAACCCGGATATAAT
* *
56298954 CACTAGCATAAATGC
65 AACTAGCACAAATGC
* * *
56298969 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCA-CAATGCCTTCGGGTCTTA
56299021 GCCGGGTATC
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
78 5 0.05
79 61 0.56
80 42 0.39
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAATGCCTTCGGGTCTTAACCCGGATATAATA
ACTAGCACAAATGC
Found at i:56305288 original size:46 final size:46
Alignment explanation
Indices: 56305238--56305410 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
56305228 TGGTCGAGCA
*
56305238 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56305284 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
56305331 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56305377 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56305411 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56305394 original size:93 final size:93
Alignment explanation
Indices: 56305235--56305405 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56305225 GGATGGTCGA
* *
56305235 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56305300 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56305328 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56305393 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56305406 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56305672 original size:19 final size:20
Alignment explanation
Indices: 56305635--56305672 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56305625 ATAAGGTGGT
56305635 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56305655 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56305673 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56309211 original size:22 final size:22
Alignment explanation
Indices: 56309184--56309241 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
56309174 GTTTAAGCCT
*
56309184 CACACGCCCGTGTGGAGGTATA
1 CACACGCCCGTGTGGAAGTATA
56309206 CACACGCCCGTGTGGAAGTATA
1 CACACGCCCGTGTGGAAGTATA
56309228 CACACGCCCGTGTG
1 CACACGCCCGTGTG
56309242 CTTTGGGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGCCCGTGTGGAAGTATA
Found at i:56312825 original size:18 final size:18
Alignment explanation
Indices: 56312802--56312838 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56312792 ATGATTATGG
*
56312802 ATGGGATAATTCGTTGAA
1 ATGGGATAATTAGTTGAA
*
56312820 ATGGGATTATTAGTTGAA
1 ATGGGATAATTAGTTGAA
56312838 A
1 A
56312839 AAAGATGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (18 bp):
ATGGGATAATTAGTTGAA
Found at i:56316869 original size:10 final size:10
Alignment explanation
Indices: 56316850--56316881 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
56316840 ATGGAAGGGG
56316850 GAAA-AAAAA
1 GAAATAAAAA
56316859 GAAATAAAAA
1 GAAATAAAAA
56316869 GAAAT-AAAA
1 GAAATAAAAA
56316878 GAAA
1 GAAA
56316882 ATGAAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 12 0.55
10 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAATAAAAA
Found at i:56321977 original size:29 final size:29
Alignment explanation
Indices: 56321931--56321986 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
56321921 TAAAATACTT
56321931 AAAAATATAAAAGGAATAAATA-AATACA
1 AAAAATATAAAAGGAATAAATACAATACA
**
56321959 AAAAATATAAAACTTAATAAATACAATA
1 AAAAATATAAAA-GGAATAAATACAATA
56321987 TGGAGGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 8 0.33
30 4 0.17
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (29 bp):
AAAAATATAAAAGGAATAAATACAATACA
Found at i:56324243 original size:57 final size:57
Alignment explanation
Indices: 56324125--56324243 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 57
56324115 GTTAGGTCAA
* * * * * * * *
56324125 ATCTTGTCTTTTTAATCCCTTGATACTTGTTTCCAGTTCTGCCCTTAATTTTTGCAT
1 ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
* * *
56324182 ATCTTGCCTTCTTAATCCCTTGATCCTTGCTGCCAGTTATGCCTTTGATCTTGGCAG
1 ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
56324239 ATCTT
1 ATCTT
56324244 TTGTTGTTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.15, C:0.25, G:0.13, T:0.46
Consensus pattern (57 bp):
ATCTTGCCTTCTTAATCCCTTGATACTTGCTGCCAGTTATGCCCTTAATCTTGGCAG
Found at i:56325609 original size:228 final size:230
Alignment explanation
Indices: 56325212--56325675 Score: 869
Period size: 228 Copynumber: 2.0 Consensus size: 230
56325202 AGCTTATTGT
56325212 TTTTATTTAACACTTTATGAAACATGGATTTCTTGTTTAAAGTTTCGTTTTGATTCGTAACTTCA
1 TTTTATTTAACACTTTATGAAACATGGATTTCTTGTTTAAAGTTTCGTTTTGATTCGTAACTTCA
56325277 AATATTTAAATGTTGTGTCTTGATCAAATTGGCCTAATATTGCAATGTAGTTGCCATTTTTAGCG
66 AATATTTAAATGTTGTGTCTTGATCAAATTGGCCTAATATTGCAATGTAGTTGCCATTTTTAGCG
*
56325342 TTTGTCTCTGCTTTGAAAAGTGATTATGATGTTGAAATTCTTTGATTTTCTTTG-TT-TAAATGT
131 TTTGTCTCTGCTTTGAAAAGTGATTATGATGTTGAAATTCTTTGATTTTCTGTGTTTATAAATGT
56325405 TTGTTATCTTCTAAAGATTGTTATTTCCAATTAGA
196 TTGTTATCTTCTAAAGATTGTTATTTCCAATTAGA
56325440 TTTTATTTAACACTTTATGAAACATGGATTTCTTGTTTAAAGTTTCGTTTTGATTCGTAACTTCA
1 TTTTATTTAACACTTTATGAAACATGGATTTCTTGTTTAAAGTTTCGTTTTGATTCGTAACTTCA
*
56325505 AATATTTAAATGTTGTTTCTTGATCAAATTGGCCTAATATTGCAATGTAGTTGCCATTTTTAGCG
66 AATATTTAAATGTTGTGTCTTGATCAAATTGGCCTAATATTGCAATGTAGTTGCCATTTTTAGCG
56325570 TTTGTCTCTGCTTTGAAAAGTGATTATGATGTTGAAATTCTTTGATTTTCTGTGTTTAAATAAAT
131 TTTGTCTCTGCTTTGAAAAGTGATTATGATGTTGAAATTCTTTGATTTTCTGTGTTT--ATAAAT
*
56325635 GTTTGTTATCTTCTAAGGATTGTTATTTCCAATTAGA
194 GTTTGTTATCTTCTAAAGATTGTTATTTCCAATTAGA
56325672 TTTT
1 TTTT
56325676 CTACTAGTCT
Statistics
Matches: 229, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
228 182 0.79
229 2 0.01
232 45 0.20
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (230 bp):
TTTTATTTAACACTTTATGAAACATGGATTTCTTGTTTAAAGTTTCGTTTTGATTCGTAACTTCA
AATATTTAAATGTTGTGTCTTGATCAAATTGGCCTAATATTGCAATGTAGTTGCCATTTTTAGCG
TTTGTCTCTGCTTTGAAAAGTGATTATGATGTTGAAATTCTTTGATTTTCTGTGTTTATAAATGT
TTGTTATCTTCTAAAGATTGTTATTTCCAATTAGA
Found at i:56329031 original size:31 final size:31
Alignment explanation
Indices: 56328991--56329060 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 31
56328981 GAAGTTGTTT
56328991 TAAACTAAACTTTCTTATTGATATAAAACTCC
1 TAAA-TAAACTTTCTTATTGATATAAAACTCC
56329023 TAAATAAACTTTCTTATTGATATAAAACTCC
1 TAAATAAACTTTCTTATTGATATAAAACTCC
56329054 TAAATAA
1 TAAATAA
56329061 CTTAAACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (31 bp):
TAAATAAACTTTCTTATTGATATAAAACTCC
Found at i:56331292 original size:51 final size:50
Alignment explanation
Indices: 56331237--56331377 Score: 212
Period size: 51 Copynumber: 2.8 Consensus size: 50
56331227 TTAATTTAAA
*
56331237 GATGCAAACTTTAACTAACATGTGAGTTACGTAATGCATGTCATTATTTAT
1 GATGCAAAC-TTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
* *
56331288 GATGCAAACTTAACTAATCATGAGAGTTGCATAATGCATGTCATTATTTAT
1 GATGCAAACTTAACTAA-CATGAGAGTTACGTAATGCATGTCATTATTTAT
*
56331339 GATGCATACTTAACTAACATGAGAGTTACAG-AATGCATG
1 GATGCAAACTTAACTAACATGAGAGTTAC-GTAATGCATG
56331378 ACTTTATTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 27 0.33
51 55 0.67
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (50 bp):
GATGCAAACTTAACTAACATGAGAGTTACGTAATGCATGTCATTATTTAT
Found at i:56331385 original size:50 final size:50
Alignment explanation
Indices: 56331220--56331385 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 50
56331210 GTTACTTAAC
* *
56331220 GCATGAC-TTAATTTAAAGATGCAAACTTTAACTAACATGTGAGTTAC-GTAAT
1 GCATGACATT-ATTT-ATGATGCAAAC-TTAACTAACATGAGAGTTACAG-AAT
* * *
56331272 GCATGTCATTATTTATGATGCAAACTTAACTAATCATGAGAGTTGCATAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAA-CATGAGAGTTACAGAAT
* *
56331323 GCATGTCATTATTTATGATGCATACTTAACTAACATGAGAGTTACAGAAT
1 GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
*
56331373 GCATGACTTTATT
1 GCATGACATTATT
56331386 AAATGTAGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
50 34 0.34
51 55 0.54
52 10 0.10
53 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (50 bp):
GCATGACATTATTTATGATGCAAACTTAACTAACATGAGAGTTACAGAAT
Found at i:56334050 original size:100 final size:100
Alignment explanation
Indices: 56333877--56334062 Score: 336
Period size: 100 Copynumber: 1.9 Consensus size: 100
56333867 GTTGACTGTC
* *
56333877 GTCGTGGTGTTGCTCTGTGAAACTTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
1 GTCGTCGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
56333942 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
66 GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
* *
56333977 GTCGTCGTGTTGCTCTGTGGAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACTATGAT
1 GTCGTCGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
56334042 GCTCGAACACCAAAGTGCCCC
66 GCTCGAACACCAAAGTGCCCC
56334063 TTGCAAGGCC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (100 bp):
GTCGTCGTGTTGCTCTGTGAAACCTTAAAGCCATCAATATTGTCTTATCTTATATCCACCATGAT
GCTCGAACACCAAAGTGCCCCCTATAAGGACTATT
Found at i:56336168 original size:42 final size:42
Alignment explanation
Indices: 56336105--56336190 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
56336095 TGTCGCGACA
*
56336105 ATAAGTGCAATTTGTCAATAGTGTTACGACTTTACTAGCATG
1 ATAAGTGCAATCTGTCAATAGTGTTACGACTTTACTAGCATG
* *
56336147 ATAAGTGCAATCTGTCCATAGTGTTATGACTTTACTAGCATG
1 ATAAGTGCAATCTGTCAATAGTGTTACGACTTTACTAGCATG
56336189 AT
1 AT
56336191 GCCGCGATAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (42 bp):
ATAAGTGCAATCTGTCAATAGTGTTACGACTTTACTAGCATG
Found at i:56341705 original size:42 final size:42
Alignment explanation
Indices: 56341641--56341724 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
56341631 TAATCAGCGT
*
56341641 CTGAAACCACAAATTTAGATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
*
56341683 CTGAAACCATAAATTTAAATGATAAATATATATTTAAAAATA
1 CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
56341725 AAATAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (42 bp):
CTGAAACCACAAATTTAAATGATAAATATATATTTAAAAATA
Found at i:56341728 original size:19 final size:19
Alignment explanation
Indices: 56341664--56341729 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
56341654 TTTAGATGAT
56341664 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
* * *
56341683 CTGAAACCATAAATTTAAATGAT-
1 ---AAA-TATATATTTAAA-AATA
56341706 AAATATATATTTAAAAATA
1 AAATATATATTTAAAAATA
56341725 AAATA
1 AAATA
56341730 AAATAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 3 0.09
22 3 0.09
23 10 0.29
24 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATATATTTAAAAATA
Found at i:56345001 original size:43 final size:42
Alignment explanation
Indices: 56344846--56345002 Score: 120
Period size: 43 Copynumber: 3.7 Consensus size: 42
56344836 TGTGTTTTCT
* *
56344846 TGTAAGACCACTTCTGGGACGTTGGCGTCGAT-TTATGACTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATT-TGA-TTACG
* * * * * **
56344890 TGTGAGACCATGTCTGGGACATCGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
*** * * *
56344932 TGTAAGACCTTTTCTAGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATC-ATATTTGATTACG
56344975 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
56345003 TGTATGAGCT
Statistics
Matches: 84, Mismatches: 25, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
42 25 0.30
43 34 0.40
44 25 0.30
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACG
Found at i:56351729 original size:27 final size:28
Alignment explanation
Indices: 56351699--56351764 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
56351689 ATTGCGGCGG
*
56351699 AGCCACCAGAAA-AGATATTTGTAGCGT
1 AGCCACCAGAAATAGATATTTGTAGCAT
* *
56351726 AGCCATCAGAAATAGATATTTGTGGCAT
1 AGCCACCAGAAATAGATATTTGTAGCAT
56351754 AGCCACCAGAA
1 AGCCACCAGAA
56351765 CGCTTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (28 bp):
AGCCACCAGAAATAGATATTTGTAGCAT
Found at i:56365214 original size:40 final size:39
Alignment explanation
Indices: 56365046--56365216 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
56365036 AGAAATTGAA
* *
56365046 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
56365086 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
56365126 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
56365166 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
56365206 TGATATCCGGG
1 TGATATCCGGG
56365217 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:56387046 original size:27 final size:28
Alignment explanation
Indices: 56386985--56387047 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
56386975 GTCATTTACG
*
56386985 CACAAGGGGCAAAATAGTCATTTAACACC
1 CACAA-GGGCAAAATAGTAATTTAACACC
* * *
56387014 C-TAAGGGCAAAATGGTAATTTTAC-CC
1 CACAAGGGCAAAATAGTAATTTAACACC
56387040 CACAAGGG
1 CACAAGGG
56387048 TATCTCGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 2 0.07
29 1 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (28 bp):
CACAAGGGCAAAATAGTAATTTAACACC
Found at i:56387057 original size:27 final size:27
Alignment explanation
Indices: 56387027--56387172 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
56387017 AGGGCAAAAT
* * * *
56387027 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56387054 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56387081 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56387108 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
56387135 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56387162 GGTAATTCTAC
1 GGTAATTCTAC
56387173 AACTTATCCA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56400213 original size:37 final size:37
Alignment explanation
Indices: 56400161--56400251 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
56400151 TTATTACGAA
*
56400161 GTCTTACCCGAACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
56400198 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56400235 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56400252 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 46 0.90
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:56400349 original size:48 final size:48
Alignment explanation
Indices: 56400291--56400442 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
56400281 TGTTACAACA
*
56400291 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56400339 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56400387 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56400435 TTCACATT
1 TTCACATT
56400443 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56400592 original size:49 final size:49
Alignment explanation
Indices: 56400434--56400760 Score: 554
Period size: 49 Copynumber: 6.7 Consensus size: 49
56400424 CACACATATA
* *
56400434 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* * *
56400483 CTTCA-ATTCATCACATCGGCCATTAGGCCTTATCACA--TATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56400529 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAG
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56400578 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-GATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATG-TATATACAC
56400627 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56400676 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56400725 TTTCACATTCATCACATTGGCCATTAGGCCGTATCA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCA
56400761 AATATATACA
Statistics
Matches: 265, Mismatches: 8, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
46 12 0.05
47 31 0.12
48 33 0.12
49 188 0.71
50 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
Found at i:56404703 original size:40 final size:41
Alignment explanation
Indices: 56404587--56404807 Score: 183
Period size: 40 Copynumber: 5.5 Consensus size: 41
56404577 CCAGCATGAT
* * *
56404587 TGCTCTTCGGGACCTAGCCCGGAT-TCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAATCACTAGCACGAA
*
56404627 TGCTCTTCGGAACTTAGTCCGGA-A-ACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATA-ATCACTAGCACGAA
* *
56404667 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATATAATCACTAGCACGAA
** * * *
56404706 TTGC-CTTCGGGTCTTAACCCGGGTATAA-CAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATATAATC-ACT-AGCACGAA
** * **
56404747 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATATAATCACTAGCACGAA
*
56404787 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
56404808 GTATCATTCA
Statistics
Matches: 154, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
39 19 0.12
40 130 0.84
41 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
TGCTCTTCGGAACTTAGCCCGGATATAATCACTAGCACGAA
Found at i:56406715 original size:37 final size:37
Alignment explanation
Indices: 56406665--56406755 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
56406655 TTATTACGAA
56406665 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
56406702 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
56406739 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
56406756 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:56406853 original size:48 final size:48
Alignment explanation
Indices: 56406795--56406946 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
56406785 TGTTACAACA
*
56406795 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56406843 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56406891 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56406939 TTCACATT
1 TTCACATT
56406947 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56406995 original size:49 final size:49
Alignment explanation
Indices: 56406938--56407413 Score: 799
Period size: 49 Copynumber: 9.9 Consensus size: 49
56406928 CACACATATA
* *
56406938 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* * *
56406987 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56407034 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
*
56407083 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56407130 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56407179 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* *
56407228 TTTCACATTCATCACATTGGTCATTAGGCCTTATCACGTGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56407277 TTTCACATTCATCACATTGGCC-----GCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
56407321 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
* *
56407370 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATA
56407414 CATCTCATAC
Statistics
Matches: 405, Mismatches: 13, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
44 43 0.11
47 90 0.22
49 272 0.67
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
Found at i:56407038 original size:96 final size:96
Alignment explanation
Indices: 56406938--56407415 Score: 804
Period size: 96 Copynumber: 5.0 Consensus size: 96
56406928 CACACATATA
* * *
56406938 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
* *
56407003 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
56407034 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
56407099 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
56407130 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
56407195 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA--TATATACAC
* *
56407228 TTTCACATTCATCACATTGGTCATTAGGCCTTATCACGTGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
56407293 TTGGCC-----GCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA--TATATACAC
56407321 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
56407386 TTGGCCATTAGGCCGTATCACATATATACA
66 TTGGCCATTAGGCCTTATCACATATATACA
56407416 TCTCATACAT
Statistics
Matches: 365, Mismatches: 10, Indels: 14
0.94 0.03 0.04
Matches are distributed among these distances:
93 91 0.25
96 187 0.51
98 87 0.24
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACAC
Found at i:56407094 original size:145 final size:146
Alignment explanation
Indices: 56406938--56407413 Score: 797
Period size: 145 Copynumber: 3.3 Consensus size: 146
56406928 CACACATATA
* *
56406938 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
56407003 TCGGCCATTAGGCCTTATCACA-TATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 TTGGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
56407067 TCACATGTATATACAC
131 TCACATGTATATACAC
*
56407083 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
56407146 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TTGGCCATTAGGCCTTATCACA-GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
56407211 ATCACATGTATATACAC
130 ATCACATGTATATACAC
* * *
56407228 TTTCACATTCATCACATTGGTCATTAGGCCTTATCACGTGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
56407293 TTGGCC-----GCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TTGGCCATTAGGCCTTATCACA-GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
56407353 ATCACATGTATATACAC
130 ATCACATGTATATACAC
*
56407370 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
56407414 CATCTCATAC
Statistics
Matches: 315, Mismatches: 12, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
142 111 0.35
143 45 0.14
145 129 0.41
147 30 0.10
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.34
Consensus pattern (146 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
TCACATGTATATACAC
Found at i:56417445 original size:29 final size:28
Alignment explanation
Indices: 56417395--56417452 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
56417385 ACTTTTCATT
56417395 TATTTCACATTTCAACCTCTAAGTTTGCA
1 TATTTCACATTTCAACCTCTAA-TTTGCA
56417424 TATTTCACAATTT-AATCC-CTAATTTGCA
1 TATTTCAC-ATTTCAA-CCTCTAATTTGCA
56417452 T
1 T
56417453 TTTTACGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.26
29 14 0.52
30 6 0.22
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (28 bp):
TATTTCACATTTCAACCTCTAATTTGCA
Found at i:56419227 original size:20 final size:20
Alignment explanation
Indices: 56419190--56419227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56419180 TGATGGGGAG
*
56419190 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
56419210 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
56419228 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:56421187 original size:46 final size:46
Alignment explanation
Indices: 56421120--56421392 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
56421110 AGTGTGCTCT
*
56421120 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56421166 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56421212 CTGATATGAAATGTGTAAGACCATGGTTGAAA-ATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
56421257 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
56421303 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
56421349 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
56421393 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
45 46 0.22
46 167 0.78
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:56421276 original size:91 final size:92
Alignment explanation
Indices: 56421120--56421392 Score: 424
Period size: 91 Copynumber: 3.0 Consensus size: 92
56421110 AGTGTGCTCT
*
56421120 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
56421185 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
56421212 CTGATATGAAATGTGTAAGACCATGGTTGAAA-ATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
56421276 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
56421303 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAA
* * *
56421367 GACCATAGTTGAAAGACACTATGGCA
65 GACCATGGTTGAAAGATACCATGGCA
56421393 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
91 87 0.52
92 81 0.48
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:56421367 original size:137 final size:137
Alignment explanation
Indices: 56421120--56421380 Score: 425
Period size: 137 Copynumber: 1.9 Consensus size: 137
56421110 AGTGTGCTCT
* ***
56421120 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
* * * *
56421185 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAATACCA
66 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAATACCA
56421250 TGGCAAC
131 TGGCAAC
*
56421257 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
56421322 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAA
66 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAA
56421381 GACACTATGG
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
136 1 0.01
137 113 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (137 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAG
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAATACCA
TGGCAAC
Found at i:56421413 original size:137 final size:136
Alignment explanation
Indices: 56421135--56421415 Score: 352
Period size: 137 Copynumber: 2.1 Consensus size: 136
56421125 ATGAAATGTG
* ***
56421135 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGA
* * * * * *
56421200 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAATACCATGGCAACCTGATATG
66 TACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAACACCATGGCAACATGATA-G
***
56421265 AAATGTG
130 AAATAAA
*
56421272 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGA
* *
56421337 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG-TC
66 TACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAA-ACACCATGGCAACATGAT-
56421400 A-AAGATAAA
128 AGAA-ATAAA
56421409 TAAGACC
1 TAAGACC
56421416 GTGGATGGGA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
136 3 0.02
137 108 0.87
138 13 0.10
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAACACCATGGCAACATGATAGA
AATAAA
Found at i:56423002 original size:23 final size:23
Alignment explanation
Indices: 56422976--56423022 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
56422966 ATGTTGCCAT
56422976 TGAAAGGAAAAGTGATCAGAATG
1 TGAAAGGAAAAGTGATCAGAATG
56422999 TGAAAGGAAAAGTGATCAGAATG
1 TGAAAGGAAAAGTGATCAGAATG
56423022 T
1 T
56423023 CATAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.30, T:0.19
Consensus pattern (23 bp):
TGAAAGGAAAAGTGATCAGAATG
Found at i:56423596 original size:46 final size:46
Alignment explanation
Indices: 56423543--56423718 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56423533 TATTTGGGCA
56423543 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
56423589 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
56423636 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56423682 CCCGAGCTCGTTGAGTTGAGTCCGAGTACACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56423719 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56423698 original size:93 final size:93
Alignment explanation
Indices: 56423539--56423708 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
56423529 AGGATATTTG
*
56423539 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
56423604 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
56423632 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
56423697 TTGAGTCCGAGT
66 TTGAGTCCGAGT
56423709 ACACTTATGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:56425219 original size:29 final size:29
Alignment explanation
Indices: 56425157--56425259 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
56425147 GTGACGAGAT
* * *
56425157 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
56425186 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
56425215 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
56425244 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56425260 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:56433207 original size:29 final size:29
Alignment explanation
Indices: 56433145--56433247 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
56433135 CGGTGACGAT
* * *
56433145 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
56433174 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
56433203 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
56433232 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56433248 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:56440208 original size:40 final size:40
Alignment explanation
Indices: 56440085--56440220 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 40
56440075 CGACCTTGAG
* * *
56440085 TCGATGAGACACTGAGTGTCACTATATTTCTTCGGATA-GAT
1 TCGATGAGACACTGGGTGTCACTATATTACTTC-GA-ACTAT
** ** *
56440126 TCGATGAGGTACTGGGTACCAC--T-TTACTTCG-ACTAGG
1 TCGATGAGACACTGGGTGTCACTATATTACTTCGAACTA-T
* *
56440163 CCGATGAGACACTGGGTGTCACTATATTGCTTCGAACTAT
1 TCGATGAGACACTGGGTGTCACTATATTACTTCGAACTAT
*
56440203 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
56440221 CCATTCCGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 18 0.25
38 6 0.08
39 2 0.03
40 23 0.32
41 21 0.29
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCACTATATTACTTCGAACTAT
Found at i:56444102 original size:53 final size:53
Alignment explanation
Indices: 56444021--56444171 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
56444011 CTTACACGGT
* * *
56444021 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCGCATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAATCACATTA
* *
56444076 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
** *
56444129 TCACATTGCACCGATGCCATAACCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGG
56444172 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:56449197 original size:34 final size:33
Alignment explanation
Indices: 56449127--56449244 Score: 107
Period size: 34 Copynumber: 3.5 Consensus size: 33
56449117 GTCGTTCAGT
* * *
56449127 TGAAAATTTATTAAATGTACTCTAATTATTTTTCA
1 TGAAAATTTA-TAAAAGTA-TTTAATTATTTATCA
*
56449162 TGAAAATTTATAAAAGTATTATAATTGTTTATCA
1 TGAAAATTTATAAAAGTATT-TAATTATTTATCA
* * * *
56449196 TG--AATAT-TAAATGTACTTTGATTTTTTATCA
1 TGAAAATTTATAAAAGTA-TTTAATTATTTATCA
56449227 TGAAAATTTATAAAAGTA
1 TGAAAATTTATAAAAGTA
56449245 GTAATTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
31 20 0.29
32 6 0.09
33 5 0.07
34 27 0.40
35 10 0.15
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (33 bp):
TGAAAATTTATAAAAGTATTTAATTATTTATCA
Found at i:56449850 original size:9 final size:9
Alignment explanation
Indices: 56449836--56449884 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
56449826 TAGTTTTTTA
56449836 TTTATAATT
1 TTTATAATT
*
56449845 TTTATAGTTT
1 TTTATA-ATT
56449855 TTCTATAATT
1 TT-TATAATT
56449865 TTTATAATAT
1 TTTATAAT-T
56449875 TTTAATAATT
1 TTT-ATAATT
56449885 ATTAAACTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 12 0.35
10 13 0.38
11 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:56455490 original size:3 final size:3
Alignment explanation
Indices: 56455484--56455524 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
56455474 TGATGATGAT
56455484 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
56455525 CGATGTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:56465309 original size:27 final size:27
Alignment explanation
Indices: 56465267--56465349 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
56465257 GCAATATATG
*
56465267 TAAAAATAATTT-AAGTATAAATTTAT
1 TAAAAACAATTTAAAGTATAAATTTAT
56465293 TAAAAACAATTTAAAGTATAAATTTAT
1 TAAAAACAATTTAAAGTATAAATTTAT
*
56465320 TAAAAACAATTTAAAATATAAATTTAT
1 TAAAAACAATTTAAAGTATAAATTTAT
56465347 TAA
1 TAA
56465350 TATATGTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
26 11 0.20
27 43 0.80
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAAAACAATTTAAAGTATAAATTTAT
Found at i:56465351 original size:14 final size:14
Alignment explanation
Indices: 56465277--56465353 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
56465267 TAAAAATAAT
56465277 TTAAGTATAAATTTA
1 TTAA-TATAAATTTA
*
56465292 TTAA-AAACAATTTA
1 TTAATATA-AATTTA
56465306 --AAGTATAAATTTA
1 TTAA-TATAAATTTA
*
56465319 TTAA-AAACAATTTA
1 TTAATATA-AATTTA
*
56465333 -AAATATAAATTTA
1 TTAATATAAATTTA
56465346 TTAATATA
1 TTAATATA
56465354 TGTAAAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.04
13 18 0.38
14 22 0.46
15 6 0.12
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (14 bp):
TTAATATAAATTTA
Found at i:56465458 original size:19 final size:20
Alignment explanation
Indices: 56465434--56465477 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
56465424 TCCAAATACT
56465434 AGAAAAGTAAATCA-TTTCC
1 AGAAAAGTAAATCATTTTCC
*
56465453 AGAAAAGTAAATTATTTTCC
1 AGAAAAGTAAATCATTTTCC
56465473 AGAAA
1 AGAAA
56465478 TCATTTTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.27
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:56468071 original size:41 final size:42
Alignment explanation
Indices: 56467985--56468075 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
56467975 TATATAATTC
**
56467985 TTTAATTTTATTATTTTTAAAATAATTAAAAAATAATTTGGA
1 TTTAATTTTATTATTTTTAAAATAATTAAAAAATAATTTAAA
* * * * * *
56468027 TTTATTTTTATTATTTTT-ATATATTTTAAAAGTTATTTAAA
1 TTTAATTTTATTATTTTTAAAATAATTAAAAAATAATTTAAA
56468068 TTTAATTT
1 TTTAATTT
56468076 CAAAAAATGA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 23 0.57
42 17 0.43
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (42 bp):
TTTAATTTTATTATTTTTAAAATAATTAAAAAATAATTTAAA
Found at i:56468486 original size:15 final size:15
Alignment explanation
Indices: 56468466--56468496 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56468456 CTATTTTCTG
*
56468466 TTTTTTTTTCCTTTA
1 TTTTTTATTCCTTTA
56468481 TTTTTTATTCCTTTA
1 TTTTTTATTCCTTTA
56468496 T
1 T
56468497 CAGCAGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTATTCCTTTA
Found at i:56470136 original size:18 final size:19
Alignment explanation
Indices: 56470103--56470138 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56470093 TTCAAAACAG
*
56470103 TATTTTTTAAATTAAAATT
1 TATTTTTTAAAGTAAAATT
56470122 TATTTTTT-AAGTAAAAT
1 TATTTTTTAAAGTAAAAT
56470139 ATATGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTTTTAAAGTAAAATT
Found at i:56473260 original size:41 final size:42
Alignment explanation
Indices: 56473210--56473288 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
56473200 CTGAAACTTG
* *
56473210 AGGGCTGAACAGAAGCACATAAGTGCT-AATGGAAACCCATA
1 AGGGCTGAACAGAAGCACATAAGAGCTGAATGAAAACCCATA
* *
56473251 AGGGTTGAACAGAAGCTCATAAGAGCTGAATGAAAACC
1 AGGGCTGAACAGAAGCACATAAGAGCTGAATGAAAACC
56473289 TAATAGGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 24 0.73
42 9 0.27
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (42 bp):
AGGGCTGAACAGAAGCACATAAGAGCTGAATGAAAACCCATA
Found at i:56473280 original size:21 final size:21
Alignment explanation
Indices: 56473213--56473280 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
56473203 AAACTTGAGG
*
56473213 GCTGAACAGAAGCACATAAGT
1 GCTGAACAGAAGCACATAAGA
** * * *
56473234 GCT-AATGGAAACCCATAAGG
1 GCTGAACAGAAGCACATAAGA
* *
56473254 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAGCACATAAGA
56473275 GCTGAA
1 GCTGAA
56473281 TGAAAACCTA
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAGCACATAAGA
Found at i:56473317 original size:42 final size:41
Alignment explanation
Indices: 56473242--56473349 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 41
56473232 GTGCTAATGG
* * *
56473242 AAACCC-ATAAGGGTTGAACAGAAGCTCATAAGAGCTGAA-TGA
1 AAACCCAAT-AGGGTT-AACTGAAACTCTTAAGAGCTGAACT-A
* * *
56473284 AAACCTAATAGGTTTAAACTGAAACTCTTAAGAGTTGAACTA
1 AAACCCAATAGGGTT-AACTGAAACTCTTAAGAGCTGAACTA
*
56473326 AAACCCATTAGGGTTAACTGAAAC
1 AAACCCAATAGGGTTAACTGAAAC
56473350 CCATATGAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
41 9 0.17
42 42 0.78
43 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (41 bp):
AAACCCAATAGGGTTAACTGAAACTCTTAAGAGCTGAACTA
Found at i:56473349 original size:20 final size:20
Alignment explanation
Indices: 56473300--56473388 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
56473290 AATAGGTTTA
* * *
56473300 AACTGAAACTCTTAAGAGTT
1 AACTGAAACCCATATGAGTT
* *
56473320 GAACTAAAACCCAT-TAGGGTT
1 -AACTGAAACCCATAT-GAGTT
56473341 AACTGAAACCCATATGAGTT
1 AACTGAAACCCATATGAGTT
* * *
56473361 AACTGAAGCTCATATGAGCT
1 AACTGAAACCCATATGAGTT
*
56473381 AAATGAAA
1 AACTGAAA
56473389 AGTAAACACG
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (20 bp):
AACTGAAACCCATATGAGTT
Found at i:56480948 original size:46 final size:46
Alignment explanation
Indices: 56480882--56481054 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
56480872 TTGAGCATCT
*
56480882 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
* * *
56480928 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TTC
* * **
56480975 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
*
56481021 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56481055 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
Found at i:56489036 original size:13 final size:13
Alignment explanation
Indices: 56489018--56489045 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56489008 AAACGAACTT
56489018 CAAAATAATTATG
1 CAAAATAATTATG
56489031 CAAAATAATTATG
1 CAAAATAATTATG
56489044 CA
1 CA
56489046 GATGAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (13 bp):
CAAAATAATTATG
Found at i:56490822 original size:3 final size:3
Alignment explanation
Indices: 56490809--56490859 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
56490799 AAGAGGTATT
* * * * *
56490809 ATA AT- ATA ATA ATA ATA ATG ATG ATA ATA GTG ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56490856 ATA A
1 ATA A
56490860 AAGTAAAATG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:56491004 original size:24 final size:23
Alignment explanation
Indices: 56490961--56491053 Score: 79
Period size: 24 Copynumber: 4.1 Consensus size: 23
56490951 GTATATATAT
56490961 GTATAAAA-TA-AATAAGTAAATAA
1 GTATAAAAGTATAA-AA-TAAATAA
56490984 GTGATAAAAGTATAAAATAAATAA
1 GT-ATAAAAGTATAAAATAAATAA
* * *
56491008 GTATATAA--ATAATATATATAA
1 GTATAAAAGTATAAAATAAATAA
* *
56491029 -AATAAAAGTATAAAATATATAA
1 GTATAAAAGTATAAAATAAATAA
56491051 GTA
1 GTA
56491054 AGTGAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.19
22 12 0.21
23 8 0.14
24 15 0.26
25 4 0.07
26 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
GTATAAAAGTATAAAATAAATAA
Found at i:56491009 original size:15 final size:15
Alignment explanation
Indices: 56490961--56491053 Score: 81
Period size: 15 Copynumber: 6.2 Consensus size: 15
56490951 GTATATATAT
56490961 GTATAAAATAAATAA
1 GTATAAAATAAATAA
56490976 GTA-AATAAGTGATAA-AA
1 GTATAA-AA-T-A-AATAA
56490993 GTATAAAATAAATAA
1 GTATAAAATAAATAA
56491008 GTATATAAAT-AATATA
1 GTATA-AAATAAATA-A
56491024 -TATAAAAT-AA-AA
1 GTATAAAATAAATAA
*
56491036 GTATAAAATATATAA
1 GTATAAAATAAATAA
56491051 GTA
1 GTA
56491054 AGTGAATAAT
Statistics
Matches: 66, Mismatches: 1, Indels: 22
0.74 0.01 0.25
Matches are distributed among these distances:
12 1 0.02
13 9 0.14
14 11 0.17
15 26 0.39
16 7 0.11
17 8 0.12
18 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
GTATAAAATAAATAA
Found at i:56491037 original size:43 final size:44
Alignment explanation
Indices: 56490987--56491092 Score: 153
Period size: 43 Copynumber: 2.4 Consensus size: 44
56490977 TAAATAAGTG
56490987 ATAAAAGTATAAAATAAATAAGTATA-TAAATAATATATA-TAAA
1 ATAAAAGTATAAAATAAATAAGTA-AGTAAATAATATATATTAAA
* * *
56491030 ATAAAAGTATAAAATATATAAGTAAGTGAATAATATATATTTGAA
1 ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATA-TTAAA
56491075 ATAAAAGTATAAAATAAA
1 ATAAAAGTATAAAATAAA
56491093 CGAAGTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 35 0.62
45 20 0.36
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (44 bp):
ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATATTAAA
Found at i:56493840 original size:51 final size:46
Alignment explanation
Indices: 56493695--56494135 Score: 276
Period size: 41 Copynumber: 9.7 Consensus size: 46
56493685 TTCAATCTAT
* * * *
56493695 TCCACTGCAACTTCAGGGAAATAAGAT-TTGCTAT-TTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
* * * * *
56493739 TCCACTGCAACTTTAAGGAGATAGGGT-TTG-T-T--TTGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
* * * **
56493780 TCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATCT-TG--TTAT-GCTT-AATCTGC
* * * *
56493831 TCTACTGCAACTTCAGGGAAATAAGAT-TTGCTAT-CTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGC-TTAATCTGC
*
56493876 TCCACTGCAACTTCAGGGAGATAAGA-CTTG---TG-TTGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
* * * * *
56493917 TCTACTGCAACTTTAGAGAGATGAGATCTGTGATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATCT-TG--TTAT-GC-TTAATCTGC
* * * *
56493968 TCCACTGCAACTTCAGGGAAATAAGAT-TTGCTATCCTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
* *
56494013 TCCACTGCAACTTCAGGGAGATAAGA-CTTG---TG-TTGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
* * * *
56494054 TCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATCT-TG--TTAT-GCTT-AATCTGC
*
56494105 TCCATTGCAACTTCAGGGAGATAAGAT-TTGT
1 TCCACTGCAACTTCAGGGAGATAAGATCTTGT
56494136 AATTCAACCT
Statistics
Matches: 305, Mismatches: 58, Indels: 65
0.71 0.14 0.15
Matches are distributed among these distances:
41 85 0.28
42 8 0.03
43 7 0.02
44 25 0.08
45 67 0.22
46 4 0.01
47 8 0.03
48 2 0.01
49 8 0.03
50 7 0.02
51 84 0.28
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (46 bp):
TCCACTGCAACTTCAGGGAGATAAGATCTTGTTATGCTTAATCTGC
Found at i:56493940 original size:137 final size:137
Alignment explanation
Indices: 56493602--56494134 Score: 827
Period size: 137 Copynumber: 3.9 Consensus size: 137
56493592 CTGTGATCCA
* * * * * * * * *
56493602 CTCCACTGTAACTTCAGGAAGAT-GGGCTTTGTTTTGATCTGCTCTACTACGACTTTAGAGAGAC
1 CTCCACTGCAACTTCAGGGAGATAAGAC-TTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGAT
56493666 GAGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT-T
65 GAGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
56493730 TTAGTCTG
130 TTAGTCTG
* * * ** *
56493738 CTCCACTGCAACTTTAAGGAGATAGGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
*
56493803 AGATCTGTGATTTATAGCTTCAATCTATTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
66 AGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
56493868 TAGTCTG
131 TAGTCTG
*
56493875 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTTAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* * *
56493940 AGATCTGTGATTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCCT
66 AGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
56494005 TAGTCTG
131 TAGTCTG
*
56494012 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTGCAACTTCAGAGAGATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
* * *
56494077 AGATCTGTGATTTATAGCTTCAATCTGTTCCATTGCAACTTCAGGGAGATAAGATTTG
66 AGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTG
56494135 TAATTCAACC
Statistics
Matches: 369, Mismatches: 26, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
136 113 0.31
137 256 0.69
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (137 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGAGATG
AGATCTGTGATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
TAGTCTG
Found at i:56504492 original size:93 final size:93
Alignment explanation
Indices: 56504379--56504550 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56504369 CGCCCATAAG
* *
56504379 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56504444 ACGAGTTCGGATGCCTAGTTACATTTGA
66 ACGAGTTCGGATGCCTAGTTACATTTGA
* *
56504472 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56504537 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56504551 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTGA
Found at i:56504547 original size:46 final size:46
Alignment explanation
Indices: 56504372--56504547 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
56504362 TGTAACCCGC
* * * *
56504372 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56504418 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* **
56504464 ACATTTGACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56504511 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56504548 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.61
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56508292 original size:11 final size:12
Alignment explanation
Indices: 56508260--56508292 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56508250 GAGCTGTAGC
56508260 AAACTTAATTAT
1 AAACTTAATTAT
*
56508272 AAACTGAATTA-
1 AAACTTAATTAT
56508283 AAACTTAATT
1 AAACTTAATT
56508293 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:56510960 original size:20 final size:19
Alignment explanation
Indices: 56510924--56510963 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
56510914 ATAAAAATTA
56510924 TAGATGAGCTCAATTGAGC
1 TAGATGAGCTCAATTGAGC
* *
56510943 TAGATGGAGCTGAGTTGAGC
1 TAGAT-GAGCTCAATTGAGC
56510963 T
1 T
56510964 CATGGAACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (19 bp):
TAGATGAGCTCAATTGAGC
Found at i:56511337 original size:39 final size:39
Alignment explanation
Indices: 56511293--56511369 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
56511283 ATGCAGAACA
*
56511293 CATATTAATAATGTGCAAACTATGACATAGTTAAAGACT
1 CATATTAATAATGTGCAAACTATGACATAATTAAAGACT
* *
56511332 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATAATGTGCAAACTATGACATAATTAAAGAC
56511370 ACAAACTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATAATGTGCAAACTATGACATAATTAAAGACT
Found at i:56514339 original size:68 final size:70
Alignment explanation
Indices: 56514267--56514464 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
56514257 ACACCCTGTA
* * * *
56514267 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
56514329 ATAAAT
65 ATAAAT
*
56514335 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
56514400 ATAAAT
65 ATAAAT
*
56514406 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
56514465 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:56514378 original size:41 final size:41
Alignment explanation
Indices: 56514333--56514450 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56514323 TGAAAGATAA
56514333 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56514374 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56514404 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56514445 ATGTAG
1 ATGTAG
56514451 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56514390 original size:71 final size:71
Alignment explanation
Indices: 56514301--56514464 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56514291 GAGATGTATC
56514301 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56514366 AGGACA
66 AGGACA
56514372 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56514437 AGGACA
66 AGGACA
56514443 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56514465 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56521213 original size:68 final size:70
Alignment explanation
Indices: 56521141--56521338 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
56521131 ACACCCTGTA
* * * *
56521141 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
56521203 ATAAAT
65 ATAAAT
*
56521209 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
56521274 ATAAAT
65 ATAAAT
*
56521280 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
56521339 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:56521252 original size:41 final size:41
Alignment explanation
Indices: 56521207--56521324 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56521197 TGAAAGATAA
56521207 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56521248 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56521278 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56521319 ATGTAG
1 ATGTAG
56521325 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56521264 original size:71 final size:71
Alignment explanation
Indices: 56521175--56521338 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56521165 GAGATGTATC
56521175 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56521240 AGGACA
66 AGGACA
56521246 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56521311 AGGACA
66 AGGACA
56521317 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56521339 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56529267 original size:28 final size:28
Alignment explanation
Indices: 56529236--56529301 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
56529226 CTCACACGCT
56529236 AAGTGCCATACTCAATATCTCGCACACC
1 AAGTGCCATACTCAATATCTCGCACACC
* * * * * *
56529264 AAGTGTCATTCTTAATATTTTGCACACT
1 AAGTGCCATACTCAATATCTCGCACACC
56529292 AAGTGCCATA
1 AAGTGCCATA
56529302 TACATAAATA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (28 bp):
AAGTGCCATACTCAATATCTCGCACACC
Found at i:56531965 original size:13 final size:14
Alignment explanation
Indices: 56531922--56531969 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
56531912 GTACGAATGG
56531922 AATGGTAGGAACGAA
1 AATGGTAGGAAC-AA
56531937 AA-GGTAGGAACAA
1 AATGGTAGGAACAA
*
56531950 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
56531964 ATTGGT
1 AATGGT
56531970 CGGTTTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 4 0.13
14 24 0.80
15 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:56541638 original size:10 final size:10
Alignment explanation
Indices: 56541623--56541670 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
56541613 AATCACTCTC
56541623 TTTTTTTTGA
1 TTTTTTTTGA
56541633 TTTTTTTTGA
1 TTTTTTTTGA
56541643 TTTTTTTTTGA
1 -TTTTTTTTGA
*
56541654 TTTTTTTTTA
1 TTTTTTTTGA
56541664 TTTTTTT
1 TTTTTTT
56541671 AACTTGTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 26 0.72
11 10 0.28
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:56541639 original size:11 final size:11
Alignment explanation
Indices: 56541623--56541670 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
56541613 AATCACTCTC
56541623 TTTTTTTTGA-
1 TTTTTTTTGAT
56541633 TTTTTTTTGAT
1 TTTTTTTTGAT
56541644 TTTTTTTTGAT
1 TTTTTTTTGAT
56541655 TTTTTTTT-AT
1 TTTTTTTTGAT
56541665 TTTTTT
1 TTTTTT
56541671 AACTTGTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.85
Consensus pattern (11 bp):
TTTTTTTTGAT
Found at i:56541649 original size:21 final size:21
Alignment explanation
Indices: 56541623--56541670 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
56541613 AATCACTCTC
56541623 TTTTTTTTGATTTTTTTTGAT
1 TTTTTTTTGATTTTTTTTGAT
*
56541644 TTTTTTTTGATTTTTTTTTAT
1 TTTTTTTTGATTTTTTTTGAT
56541665 TTTTTT
1 TTTTTT
56541671 AACTTGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.85
Consensus pattern (21 bp):
TTTTTTTTGATTTTTTTTGAT
Found at i:56544178 original size:40 final size:40
Alignment explanation
Indices: 56544066--56544179 Score: 174
Period size: 40 Copynumber: 2.8 Consensus size: 40
56544056 ACTTATAATT
* * **
56544066 TTAGTTTAATAATTGAGTTGCTGGACTTTATTAAACTCATC
1 TTAG-TTAATTATTGATTTGCTGGACTTTATTTTACTCATC
*
56544107 TTAGTTAATTATTGATTTGTTGGACTTTATTTTACTCATC
1 TTAGTTAATTATTGATTTGCTGGACTTTATTTTACTCATC
56544147 TTAGTTAATTATTGATTTGCTGGACTTTATTTT
1 TTAGTTAATTATTGATTTGCTGGACTTTATTTT
56544180 TATTAAACTC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 63 0.94
41 4 0.06
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.52
Consensus pattern (40 bp):
TTAGTTAATTATTGATTTGCTGGACTTTATTTTACTCATC
Found at i:56544199 original size:46 final size:44
Alignment explanation
Indices: 56544092--56544203 Score: 151
Period size: 40 Copynumber: 2.6 Consensus size: 44
56544082 GTTGCTGGAC
*
56544092 TTTATTAAACTCATCTTAGTTAATTATTGATTTGTTGGACTTTA
1 TTTATTAAACTCATCTTAGTTAATTATTGATTTGCTGGACTTTA
56544136 -TT-TT--ACTCATCTTAGTTAATTATTGATTTGCTGGACTTTA
1 TTTATTAAACTCATCTTAGTTAATTATTGATTTGCTGGACTTTA
* *
56544176 TTTTTATTAAACTCCTTTTAGTTAATTA
1 --TTTATTAAACTCATCTTAGTTAATTA
56544204 ATTGTAGGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
40 35 0.59
42 2 0.03
43 4 0.07
44 2 0.03
46 16 0.27
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.54
Consensus pattern (44 bp):
TTTATTAAACTCATCTTAGTTAATTATTGATTTGCTGGACTTTA
Found at i:56546366 original size:16 final size:17
Alignment explanation
Indices: 56546334--56546368 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56546324 AAAATGAAAG
*
56546334 AAGAAAAAGAGATATGA
1 AAGAAAAAGAGAAATGA
56546351 AAGAAAAAGA-AAATGA
1 AAGAAAAAGAGAAATGA
56546367 AA
1 AA
56546369 AAGAGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AAGAAAAAGAGAAATGA
Found at i:56551236 original size:24 final size:24
Alignment explanation
Indices: 56551208--56551269 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
56551198 AAAATGACTT
56551208 TGGCACTATGTGTGCGGACTTGAA
1 TGGCACTATGTGTGCGGACTTGAA
*
56551232 TGGCACTATGTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGGACTTGAA
56551256 TGGCACTATGTGTG
1 TGGCACTATGTGTG
56551270 TGGATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGACTTGAA
Found at i:56556804 original size:36 final size:36
Alignment explanation
Indices: 56556757--56556839 Score: 166
Period size: 36 Copynumber: 2.3 Consensus size: 36
56556747 TGTTAATTGC
56556757 AGGTGACTTTTATTAAAGGCTGTTATGCATTCAATA
1 AGGTGACTTTTATTAAAGGCTGTTATGCATTCAATA
56556793 AGGTGACTTTTATTAAAGGCTGTTATGCATTCAATA
1 AGGTGACTTTTATTAAAGGCTGTTATGCATTCAATA
56556829 AGGTGACTTTT
1 AGGTGACTTTT
56556840 CAAGAGATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (36 bp):
AGGTGACTTTTATTAAAGGCTGTTATGCATTCAATA
Found at i:56557631 original size:15 final size:15
Alignment explanation
Indices: 56557585--56557632 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
56557575 AAACCTATAA
*
56557585 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
56557600 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
56557614 AAACTTCATATCCAT
1 AAACTTCATATCCAT
56557629 AAAC
1 AAAC
56557633 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Done.