Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 48 of 255
Found at i:13357502 original size:84 final size:84
Alignment explanation
Indices: 13357316--13357533 Score: 258
Period size: 84 Copynumber: 2.6 Consensus size: 84
13357306 GTGTAAGTCG
** * * *
13357316 ATGTCTGGGACATCGACATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCGTA
1 ATGTCTGGGACAGAGGCATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCAGCATCATA
*
13357381 TCCGATTTCGTGTAAGACC
66 TCCGATTTCGTGCAAGACC
** * **
13357400 ATGTCTGGGACATTGGCATCGTATTTGATTTTGTGTAAGACCATGTCTGGGACATCAGCATCATA
1 ATGTCTGGGACAGAGGCATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCAGCATCATA
*
13357465 TCTGATTTCGTGCAAGACC
66 TCCGATTTCGTGCAAGACC
* * * * *
13357484 CTGTCTGGGATAGAGGCATTGATAT-TGAATTACATGTAAGACCACGTCTG
1 ATGTCTGGGACAGAGGCATCG-TATCTG-ATTTCATGTAAGACCATGTCTG
13357534 AGACGTCGAC
Statistics
Matches: 114, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
84 93 0.82
85 21 0.18
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (84 bp):
ATGTCTGGGACAGAGGCATCGTATCTGATTTCATGTAAGACCATGTCTGGGACATCAGCATCATA
TCCGATTTCGTGCAAGACC
Found at i:13364156 original size:42 final size:42
Alignment explanation
Indices: 13364096--13364425 Score: 394
Period size: 42 Copynumber: 7.8 Consensus size: 42
13364086 CTCGATTTGA
*
13364096 GATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
* * * **
13364139 AATTTCATGTAAGACCATGTCTGGGACATCAGTTTCGTATCT
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
* *
13364181 GATTTCGTGTAAGA-TATGTCTGGGACATTGGCATCGTATCT
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
* * *
13364222 GATTTTGTGTAAAACCATGTCTGGGACATCGACATCGTATCT
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
*
13364264 GATTTTGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
* * * *
13364306 GCTTTTGTGTAAGACCATGTCTGGGACATTGGCATCATATCT
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
* * * **
13364348 AATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-T
1 GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCT
* * * *
13364390 GAATTACATGTAAGACCACGTCTGGGACGTCGGCAT
1 G-ATTTCGTGTAAGACCATGTCTGGGACATCGGCAT
13364426 TGTACCCGTT
Statistics
Matches: 246, Mismatches: 38, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
41 34 0.14
42 177 0.72
43 35 0.14
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCT
Found at i:13364247 original size:125 final size:126
Alignment explanation
Indices: 13364097--13364417 Score: 412
Period size: 125 Copynumber: 2.5 Consensus size: 126
13364087 TCGATTTGAG
*
13364097 ATTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTG
1 ATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTG
** * * *
13364162 GGACATCAGTTTCGTATCTGATTTCGTGTAAGA-TATGTCTGGGACATTGGCATCGTATCTG
65 GGACATCAGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
* * * * **
13364223 ATTTTGTGTAAAACCATGTCTGGGACATCGACATCGTATCTGATTTTGTGTAAGACCATGTCTGG
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTGG
* * *
13364288 GACATCGGCATCGTATCTGCTTTTGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
66 GACATCAGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
* * ** * *
13364349 ATTTCATGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACATGTAAGACCACGTCT
1 ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATCT-AATTTCATGTAAGACCATGTCT
13364413 GGGAC
64 GGGAC
13364418 GTCGGCATTG
Statistics
Matches: 165, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
125 81 0.49
126 59 0.36
127 25 0.15
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (126 bp):
ATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTAATTTCATGTAAGACCATGTCTGG
GACATCAGCATCGTATCTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCATATCTA
Found at i:13377509 original size:30 final size:30
Alignment explanation
Indices: 13377475--13377533 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13377465 GGGCCTATAC
*
13377475 TTGTGATGTATGAAATAT-AGTGAAAATGAT
1 TTGTGATATAT-AAATATAAGTGAAAATGAT
* *
13377505 TTGTGATATATATATATAAGTTAAAATGA
1 TTGTGATATATAAATATAAGTGAAAATGA
13377534 GGTTAGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (30 bp):
TTGTGATATATAAATATAAGTGAAAATGAT
Found at i:13391929 original size:19 final size:20
Alignment explanation
Indices: 13391893--13391932 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13391883 CGTGTGTCCC
13391893 CTATATTTTGTAAAAATTTT
1 CTATATTTTGTAAAAATTTT
*
13391913 CTATGTTTTGT-AAAATTTT
1 CTATATTTTGTAAAAATTTT
13391932 C
1 C
13391933 CTGAGTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (20 bp):
CTATATTTTGTAAAAATTTT
Found at i:13397032 original size:44 final size:46
Alignment explanation
Indices: 13396912--13397087 Score: 123
Period size: 44 Copynumber: 3.8 Consensus size: 46
13396902 GATTTCTTGT
13396912 GTGCTAGTGTAAGACATG-TCTGGGACATGCATCGGCCACAATATGA
1 GTGCTAGTGTAAGACATGTTC-GGGACATGCATCGGCCACAATATGA
* * * * * * *
13396958 GTGCCAGTGTAAGACATGTAT-GAGATATGCATTGG-C-TAAGA-GTC
1 GTGCTAGTGTAAGACATGT-TCGGGACATGCATCGGCCACAATATG-A
* *
13397002 GTGCTAGTGTAAGACATGTTCGGGACATGCATCAG-CACGTATTTATGA
1 GTGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCAC--A-ATATGA
* *
13397050 GAGCTAGTATAAGACCATG-TCTGGGACATGGCATCGGC
1 GTGCTAGTGTAAGA-CATGTTC-GGGACAT-GCATCGGC
13397088 AACTTATCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
43 2 0.02
44 32 0.33
45 1 0.01
46 28 0.29
47 1 0.01
48 16 0.16
49 12 0.12
50 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (46 bp):
GTGCTAGTGTAAGACATGTTCGGGACATGCATCGGCCACAATATGA
Found at i:13401170 original size:40 final size:40
Alignment explanation
Indices: 13401097--13401197 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
13401087 ACCCAAGTAT
*
13401097 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
13401136 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
13401176 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
13401198 CATCCGAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 12 0.21
40 46 0.79
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:13429978 original size:40 final size:40
Alignment explanation
Indices: 13429934--13430158 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
13429924 GCTCCTCGTT
* * *
13429934 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
13429974 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
13430014 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
13430054 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
13430093 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
13430134 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13430159 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13430118 original size:119 final size:120
Alignment explanation
Indices: 13429936--13430158 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
13429926 TCCTCGTTCA
*
13429936 AATGCCTTCGGGACATAGCCCGGTTATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
13430001 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
13430056 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
13430118 ATATGGTCACTTAGCACAAAGCCTTTGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
13430159 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:13437836 original size:25 final size:26
Alignment explanation
Indices: 13437802--13437855 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
13437792 TCCACTCTTC
13437802 TAAAAAAACAC-TAAAGAGAA-ATTAT
1 TAAAAAAACACTTAAA-AGAATATTAT
* *
13437827 TAAAGAAACACTTAAAAGAATTTTAT
1 TAAAAAAACACTTAAAAGAATATTAT
13437853 TAA
1 TAA
13437856 CTCAAAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAAAAAACACTTAAAAGAATATTAT
Found at i:13451084 original size:40 final size:40
Alignment explanation
Indices: 13451010--13451231 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
13451000 AACCCAAGTA
* * *
13451010 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
13451049 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
**
13451089 CCTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
13451129 CCTTCAGGACTTAGCCCGGATATAGTCAATAGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
13451169 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
13451209 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
13451232 CATTCGAATA
Statistics
Matches: 166, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 11 0.07
40 152 0.92
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:13453219 original size:28 final size:28
Alignment explanation
Indices: 13453156--13453278 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
13453146 ATATTAAGTC
*
13453156 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
13453183 CGCACACTTAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
13453211 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
13453239 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
13453268 CGCACACTTAG
1 CGCACACTTAG
13453279 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.24
28 50 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:13462440 original size:91 final size:96
Alignment explanation
Indices: 13462232--13462498 Score: 255
Period size: 94 Copynumber: 2.8 Consensus size: 96
13462222 AAGTTTCCAG
* * * * * * *
13462232 TGCCATGTCTCGGACATGGTCTTACACTGGCTA-TCATCATCGAGGCCGATGCCATGTCCCAAAC
1 TGCCATGTCTCAGACATGGTCTTAAACTAGC-ACACATC-TCAATGCCGATGCCATGTCCCAGAC
* * * * *
13462296 ATGGTCTTACACTAGCTCT-CGCATATCCATGCCGA
64 ATGTTCTTACACTGGCT-TACG--TCTCGAGGCCGA
* *
13462331 TGCCATGTCTCAGACATGGTCTTAAACT-G-ACACATCTC-GTAGCGGATG-CATGTCCCAGACA
1 TGCCATGTCTCAGACATGGTCTTAAACTAGCACACATCTCAAT-GCCGATGCCATGTCCCAGACA
13462392 TG-TCTTACACTGGCTTACGTCTCGAGGCCGA
65 TGTTCTTACACTGGCTTACGTCTCGAGGCCGA
* * *
13462423 TG-CATGTC-CGAGACATGGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACA
1 TGCCATGTCTC-AGACATGGTCTTAAACTAGCACACATCTCAATGCCGATGCCATGTCCCAGACA
13462486 TGTTCTTACACTG
65 TGTTCTTACACTG
13462499 CTCATGGCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
90 1 0.01
91 22 0.15
92 12 0.08
93 14 0.10
94 30 0.21
95 24 0.17
96 9 0.06
97 4 0.03
98 1 0.01
99 26 0.18
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (96 bp):
TGCCATGTCTCAGACATGGTCTTAAACTAGCACACATCTCAATGCCGATGCCATGTCCCAGACAT
GTTCTTACACTGGCTTACGTCTCGAGGCCGA
Found at i:13462493 original size:139 final size:143
Alignment explanation
Indices: 13462235--13462498 Score: 376
Period size: 139 Copynumber: 1.9 Consensus size: 143
13462225 TTTCCAGTGC
* *
13462235 CATGTCTCGGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGG
* * *
13462300 TCTTACACTAGCTCTCGCATATCCATGCCGATGCCATGTCTCAGACATGGTCTTAAACTGACACA
66 TCTTACACTAGCACTCG-ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTAAACTGACACA
13462365 TCTCGTAGCGGATG
130 TCTCGTAGCGGATG
* * *
13462379 CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-TCGAGGCCGATG-CATGTCCGAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCAAACATG
* * *
13462440 GTCTTACACTAGCACTCG-TCTCAATGCCGATGCCATGTCCCAGACATGTTCTTACACTG
65 GTCTTACACTAGCACTCGATATCAATGCCGATGCCATGTCCCAGACATGGTCTTAAACTG
13462499 CTCATGGCAA
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
139 36 0.33
141 30 0.28
142 13 0.12
143 17 0.16
144 12 0.11
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAAACATGG
TCTTACACTAGCACTCGATATCAATGCCGATGCCATGTCCCAGACATGGTCTTAAACTGACACAT
CTCGTAGCGGATG
Found at i:13472889 original size:49 final size:50
Alignment explanation
Indices: 13472783--13472891 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 50
13472773 CGGGGTAAGT
* ** * * * *
13472783 TGCCGATGCCATGTCCCGGACATGGTCTTACACTGGCTATCATCATTGAG
1 TGCCGATGCCAGGTCCCAAACATAGTCTTACACTAGCTATCATCAATCAG
* * *
13472833 -GCTGATGCCAGGTCCCAAACATAGTCTTACACTAGCTCTCA-CAATCCG
1 TGCCGATGCCAGGTCCCAAACATAGTCTTACACTAGCTATCATCAATCAG
13472881 TGCCGATGCCA
1 TGCCGATGCCA
13472892 TGTTCCAGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCAGGTCCCAAACATAGTCTTACACTAGCTATCATCAATCAG
Found at i:13472987 original size:46 final size:47
Alignment explanation
Indices: 13472899--13473028 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 47
13472889 CCATGTTCCA
* * *
13472899 GCCGATGCATGTCCTAGACATGTCTTACACTGGC-TTAAGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAAGTCTCAAG
* * * * *
13472945 GCCGATGAATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAAGTCTCAAG
*
13472991 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
13473029 ACACCAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 42 0.61
47 13 0.19
48 14 0.20
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTAAGTCTCAAG
Found at i:13486762 original size:42 final size:42
Alignment explanation
Indices: 13486712--13486793 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
13486702 AGACGTGGTA
*
13486712 TGTAACAGCCCGATTTTGGGTCTAGCCGAAACAGTGGTTTCG
1 TGTAACAGCCCGATTTTGGGTCTAACCGAAACAGTGGTTTCG
* *
13486754 TGTAACAGCCCGATTTTGGGTCTAATCGGAACAGTGGTTT
1 TGTAACAGCCCGATTTTGGGTCTAACCGAAACAGTGGTTT
13486794 TGGGACCACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
TGTAACAGCCCGATTTTGGGTCTAACCGAAACAGTGGTTTCG
Found at i:13488690 original size:39 final size:39
Alignment explanation
Indices: 13488632--13488942 Score: 487
Period size: 39 Copynumber: 8.0 Consensus size: 39
13488622 AAGACACTGA
*
13488632 AAATGTATCCGGGCCAAAGTCTCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
13488671 AATTGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * *
13488710 AAATATATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
13488749 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
13488788 AAATGTATCCGGACTAAAGTCCCACAGGCTTCGTGCTGA
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
*
13488827 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGTTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
13488866 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
** *
13488905 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
13488943 ATAATATAAT
Statistics
Matches: 250, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 250 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:13492649 original size:94 final size:92
Alignment explanation
Indices: 13492480--13492654 Score: 235
Period size: 92 Copynumber: 1.9 Consensus size: 92
13492470 AGCATATTTG
* * * * * *
13492480 TGCCGATGCCATGTCCCGGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATTTCCTAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATCACGTAGCCAATGCATGTCCCAGA
13492545 CATGTCTTACACTAGCACTCGTCTCAA
66 CATGTCTTACACTAGCACTCGTCTCAA
* * *
13492572 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGTGGCCAATGCATGTCCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATCAC---GTAGCCAATGCATGTCCC
13492636 AGACATGTCTTACACTAGC
63 AGACATGTCTTACACTAGC
13492655 TCACAATAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 3 0.04
92 35 0.49
94 33 0.46
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (92 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATCACGTAGCCAATGCATGTCCCAGA
CATGTCTTACACTAGCACTCGTCTCAA
Found at i:13496217 original size:15 final size:15
Alignment explanation
Indices: 13496194--13496228 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13496184 GTGTGTCCCC
*
13496194 TGCACCTAAATTTAT
1 TGCAACTAAATTTAT
*
13496209 TGCAACTAAATTTGT
1 TGCAACTAAATTTAT
13496224 TGCAA
1 TGCAA
13496229 AAGAGAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (15 bp):
TGCAACTAAATTTAT
Found at i:13498845 original size:50 final size:50
Alignment explanation
Indices: 13498789--13499039 Score: 244
Period size: 50 Copynumber: 5.0 Consensus size: 50
13498779 TCGATTATAG
*
13498789 AAAATCAAATATAAGATCACATATGTGCATACCTATATGGCCGAATATGA
1 AAAATCAAATATAACATCACATATGTGCATACCTATATGGCCGAATATGA
* *
13498839 AAAATCAAATTTAACATCACATATGTACTTATTGCATACCTATATGGCCGAATATGC
1 AAAATCAAATATAACATCACATATG-------TGCATACCTATATGGCCGAATATGA
* * * *
13498896 AAAATCAAATTTAACATCA-A-ATAT--ATACTTATATGGCTGAATAT-A
1 AAAATCAAATATAACATCACATATGTGCATACCTATATGGCCGAATATGA
* * * **
13498941 CAAATTCAAATATAATATCACATTTGTGCATACCT-TCATGGCCGAATATTC
1 -AAAATCAAATATAACATCACATATGTGCATACCTAT-ATGGCCGAATATGA
* * *
13498992 AAAATCCAATATAACATCACATATGTACATACCTATGTGGCCGAATAT
1 AAAATCAAATATAACATCACATATGTGCATACCTATATGGCCGAATAT
13499040 ATACAAGGTC
Statistics
Matches: 165, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
46 34 0.21
47 1 0.01
48 3 0.02
49 1 0.01
50 79 0.48
51 1 0.01
55 2 0.01
56 1 0.01
57 43 0.26
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (50 bp):
AAAATCAAATATAACATCACATATGTGCATACCTATATGGCCGAATATGA
Found at i:13498902 original size:57 final size:57
Alignment explanation
Indices: 13498814--13498927 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
13498804 ATCACATATG
* *
13498814 TGCATACCTATATGGCCGAATATGAAAAATCAAATTTAACATCACATATGTACTTAT
1 TGCATACCTATATGGCCGAATATGAAAAATCAAATTTAACATCAAATATATACTTAT
*
13498871 TGCATACCTATATGGCCGAATATGCAAAATCAAATTTAACATCAAATATATACTTAT
1 TGCATACCTATATGGCCGAATATGAAAAATCAAATTTAACATCAAATATATACTTAT
13498928 ATGGCTGAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (57 bp):
TGCATACCTATATGGCCGAATATGAAAAATCAAATTTAACATCAAATATATACTTAT
Found at i:13514142 original size:40 final size:39
Alignment explanation
Indices: 13514058--13514242 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
13514048 TCGAATGATG
* * * * *
13514058 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
13514098 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
13514138 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13514177 TCC-GAGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGA-CTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
13514218 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
13514243 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13514265 original size:79 final size:79
Alignment explanation
Indices: 13514111--13514275 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13514101 GGACTAAGAT
* **
13514111 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
13514176 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
13514190 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
13514253 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
13514269 CCGAAGG
1 CCGAAGG
13514276 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:13517832 original size:16 final size:16
Alignment explanation
Indices: 13517813--13517844 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13517803 AATTGTTTTA
13517813 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
13517829 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
13517845 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:13518276 original size:50 final size:50
Alignment explanation
Indices: 13518055--13518429 Score: 283
Period size: 50 Copynumber: 7.5 Consensus size: 50
13518045 CTGGTATGCA
* * * *
13518055 TAGTAGCATGCACTTAGTACTACACATG-CACCTATCAATTTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * ** * * *
13518104 TAGTAGCCTGTACTTACTATTACACACATGA-AT-TCACCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCA--ATCTGGTACACG
* ** * * * *
13518154 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* * * *
13518205 TAGTAGCTTGCGCTTAATACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* ** * * * * *
13518255 TAGTAGCCTGCCCTTAGTACTACACACATGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
** * * * *
13518305 TAGTAGCCTGCACTTAGTACTACACATGTGATCAGAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* ** *
13518356 TAGTAGCCTGCACTTAGTACAACACATGCAACCTATCAATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
*
13518406 TAGTAGCCTGCACTTTGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
13518430 TACGTGACTA
Statistics
Matches: 246, Mismatches: 69, Indels: 21
0.73 0.21 0.06
Matches are distributed among these distances:
48 3 0.01
49 29 0.12
50 142 0.58
51 68 0.28
52 2 0.01
54 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:13518309 original size:151 final size:150
Alignment explanation
Indices: 13518047--13518438 Score: 570
Period size: 151 Copynumber: 2.6 Consensus size: 150
13518037 GAAGCTCTCT
* *
13518047 GGTATGCATAGTAGCATGCACTTAGTACTACACATGCACCTATCAATTTGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCACCTATCAATTTGGTACACGTAGTAGCC
* * * * *
13518112 TGTACTTACTATTACACACATGAATTCACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
13518177 ACACGTGATC-GAAGTTAACG
131 ACACGTGATCAG-AGTTAACG
* * * *
13518197 GGTACGCATAGTAGCTTGCGCTTAATACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGC-ACCTATCAATTTGGTACACGTAGTAGC
* **
13518262 CTGCCCTTAGTACTACACACATGACTTAACCATCTGATACATGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
*
13518327 CACATGTGATCAGAGTTAACG
130 CACACGTGATCAGAGTTAACG
* *
13518348 GGTACGCATAGTAGCCTGCACTTAGTACAACACATGCAACCTATCAATTTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGC-ACCTATCAATTTGGTACACGTAGTAGC
* * *
13518413 CTGCACTTTGTACTACATACGTGACT
65 CTGCACTTAGTACTACACACATGACT
13518439 AACAAGGAAT
Statistics
Matches: 215, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
150 33 0.15
151 181 0.84
152 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (150 bp):
GGTACGCATAGTAGCATGCACTTAGTACTACACATGCACCTATCAATTTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTAC
ACACGTGATCAGAGTTAACG
Found at i:13518352 original size:101 final size:100
Alignment explanation
Indices: 13518247--13518429 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 100
13518237 CTATCAATCT
* * * * *
13518247 GGTACACGTAGTAGCCTGCCCTTAGTACTACACACATG-ACTTAACCATCTGATACATGTAGTAG
1 GGTACACATAGTAGCCTGCACTTAGTAC-A-ACACATGAACCTAACAATCTGATACACGTAGTAG
13518311 CCTGCACTTAGTACTACACATGTGATCAGAGTTAACG
64 CCTGCACTTAGTACTACACATGTGATCAGAGTTAACG
* * * *
13518348 GGTACGCATAGTAGCCTGCACTTAGTACAACACATGCAACCTATCAATTTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACAACACATG-AACCTAACAATCTGATACACGTAGTAGC
*
13518413 CTGCACTTTGTACTACA
65 CTGCACTTAGTACTACA
13518430 TACGTGACTA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
99 7 0.10
100 1 0.01
101 62 0.89
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACAACACATGAACCTAACAATCTGATACACGTAGTAGCC
TGCACTTAGTACTACACATGTGATCAGAGTTAACG
Found at i:13521065 original size:40 final size:39
Alignment explanation
Indices: 13521010--13521101 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
13521000 ATTATTTGTG
*
13521010 GCACTTAGTGTGTGATACGACATAGCTTCGACTATATATT
1 GCACTTAGTGTGTGATACGACATAGCTTCGACTATATA-C
** * * *
13521050 GCACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTAC
1 GCACTTAGTGTGTGATACGACATAGCTTCGACTATATAC
13521089 GACACTTAGTGTG
1 G-CACTTAGTGTG
13521102 CGAGATATCG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (39 bp):
GCACTTAGTGTGTGATACGACATAGCTTCGACTATATAC
Found at i:13528423 original size:40 final size:40
Alignment explanation
Indices: 13528339--13528430 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 40
13528329 AACTCCGTCC
* * * *
13528339 AACCCAACACACC--ATGTGGGGAAAAAATTGACCCACCC
1 AACCCTACACACCAAATATGGGGAAAAAATCGACCCACCA
* * * *
13528377 ATCCCTACATACCAAATATGGGGATAAAATCGACCCATCA
1 AACCCTACACACCAAATATGGGGAAAAAATCGACCCACCA
13528417 AACCCTACACACCA
1 AACCCTACACACCA
13528431 TAAAGTACCG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
38 10 0.24
40 32 0.76
ACGTcount: A:0.40, C:0.34, G:0.12, T:0.14
Consensus pattern (40 bp):
AACCCTACACACCAAATATGGGGAAAAAATCGACCCACCA
Found at i:13537700 original size:44 final size:42
Alignment explanation
Indices: 13537663--13537765 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
13537653 ATCGATTTGA
13537663 GATTTACATGTAAGACCATGTCTGGGACATCGACATCGTATTT
1 GATTT-CATGTAAGACCATGTCTGGGACATCGACATCGTATTT
* * ** * *
13537706 GATTTCGTGTAAGACCCTGTCTAAGACAGTGGA-ATTGATATTT
1 GATTTCATGTAAGACCATGTCTGGGACA-TCGACATCG-TATTT
*
13537749 GATTACATGTAAGACCA
1 GATTTCATGTAAGACCA
13537766 CGTCATGACA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 22 0.45
43 27 0.55
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (42 bp):
GATTTCATGTAAGACCATGTCTGGGACATCGACATCGTATTT
Found at i:13541883 original size:27 final size:27
Alignment explanation
Indices: 13541853--13542028 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
13541843 AATTGTACAA
*
13541853 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
13541880 CACTAAGTGTGCGAAGTGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
13541907 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
13541934 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
* *
13541962 CACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
13541989 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
13542016 CACTGAGTGTGCG
1 CACTAAGTGTGCG
13542029 GATTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:13541965 original size:82 final size:81
Alignment explanation
Indices: 13541853--13542007 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
13541843 AATTGTACAA
* *
13541853 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAGTGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTA-GCACTAAGTGT
13541917 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
** *
13541934 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTAGCACTAAGTGT
*
13541999 GCGAGTTGA
65 GCGAATTGA
13542008 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:13542019 original size:82 final size:81
Alignment explanation
Indices: 13541848--13542028 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
13541838 GATTAAATTG
* * *
13541848 TACAACACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAGTGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAA
13541913 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13541929 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGAT-GCACT
* **
13541993 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13542011 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13542029 GATTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAGTGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13544115 original size:27 final size:26
Alignment explanation
Indices: 13544073--13544211 Score: 84
Period size: 27 Copynumber: 5.2 Consensus size: 26
13544063 GGTAAGGAAT
* * *
13544073 GTTTGCCAATTTGTTTCGTGAGCTGGG
1 GTTTGCCAGTTGGTTTCG-GAGCTAGG
*
13544100 GTTTGCCAGTTGGTTTGACGG-GCTAAG
1 GTTTGCCAGTTGGTTT--CGGAGCTAGG
* *
13544127 GTTTGCTAGTTGGTTT-GGTGCATAGGG
1 GTTTGCCAGTTGGTTTCGGAGC-TA-GG
** * *
13544154 GTTCACCAGTTGGTTTGGCGAGCTAAG
1 GTTTGCCAGTTGGTTTCG-GAGCTAGG
* * *
13544181 GTTTGCCAATTGGTTTGGTGAACTAGG
1 GTTTGCCAGTTGGTTTCG-GAGCTAGG
13544208 GTTT
1 GTTT
13544212 ACTAGTATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
24 2 0.02
25 2 0.02
26 2 0.02
27 73 0.83
28 4 0.05
29 5 0.06
ACGTcount: A:0.14, C:0.13, G:0.35, T:0.37
Consensus pattern (26 bp):
GTTTGCCAGTTGGTTTCGGAGCTAGG
Found at i:13544132 original size:54 final size:53
Alignment explanation
Indices: 13544073--13544213 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 53
13544063 GGTAAGGAAT
* * *
13544073 GTTTGCCAATTTGTTTCGTGAGCTGGGGTTTGCCAGTTGGTTTGACGGGCTAAG
1 GTTTGCCAATTGGTTT-GTGAGCTGGGGTTTACCAGTTGGTTTGACGAGCTAAG
* * * * *
13544127 GTTTGCTAGTTGGTTTG-GTGCATAGGGGTTCACCAGTTGGTTTGGCGAGCTAAG
1 GTTTGCCAATTGGTTTGTGAGC-T-GGGGTTTACCAGTTGGTTTGACGAGCTAAG
* *
13544181 GTTTGCCAATTGGTTTGGTGAACTAGGGTTTAC
1 GTTTGCCAATTGGTTT-GTGAGCTGGGGTTTAC
13544214 TAGTATAAGT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
52 3 0.04
53 2 0.03
54 60 0.87
55 2 0.03
56 2 0.03
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.37
Consensus pattern (53 bp):
GTTTGCCAATTGGTTTGTGAGCTGGGGTTTACCAGTTGGTTTGACGAGCTAAG
Found at i:13550969 original size:93 final size:92
Alignment explanation
Indices: 13550855--13551027 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 92
13550845 TGCCCATAAG
* *
13550855 CGAACTTGGACTCAACTCAACGAGCTCGGGT-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGAACTCAACTCAACGAGCTC-GGTAG-TCGCATCCATAAGTGAACTCGGACTCAACTC
13550919 AACGAGTTTA-GATGCCTAATTACATGTCA
64 AACGAG-TTAGGATGCCTAATTACATGTCA
* **
13550948 CGAACTCGAACTCAACTCAACGAGCTCGGTCAGTCGCATCCATAAGTGAACTTGGACTTTACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGT-AGTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13551013 ATGAGTTAGGATGCC
65 ACGAGTTAGGATGCC
13551028 CAAATATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 6 0.08
93 64 0.90
94 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (92 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGTAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTAGGATGCCTAATTACATGTCA
Found at i:13559771 original size:47 final size:47
Alignment explanation
Indices: 13559717--13559810 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
13559707 GATAGGGTTG
* *
13559717 AAACACTCTGTTCATTAGATCCATAAAAGCTACTGGTGTATTTTTTA
1 AAACACTCTGTTCATCAGATCCATAAAAGCTACCGGTGTATTTTTTA
*
13559764 AAACACTCTGTTCATCAGATCTATAAAAGCTACCGGTGTATTTTTTA
1 AAACACTCTGTTCATCAGATCCATAAAAGCTACCGGTGTATTTTTTA
13559811 GCCCAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (47 bp):
AAACACTCTGTTCATCAGATCCATAAAAGCTACCGGTGTATTTTTTA
Found at i:13565746 original size:33 final size:33
Alignment explanation
Indices: 13565709--13565881 Score: 140
Period size: 33 Copynumber: 5.3 Consensus size: 33
13565699 CAGCTGAAAT
13565709 AGTAAACACAGAATATAGATAGTCTACTGGGAC
1 AGTAAACACAGAATATAGATAGTCTACTGGGAC
* * **
13565742 AGTAAACACAAAATAGAGATAGTCCGCTGGGAC
1 AGTAAACACAGAATATAGATAGTCTACTGGGAC
* * * * *
13565775 AGTAAACATAGAATAAAGATAGTCCATTGAGAC
1 AGTAAACACAGAATATAGATAGTCTACTGGGAC
* * * * *
13565808 AATAAACATAGAATA-A-ATAGTCTATTAGAAC
1 AGTAAACACAGAATATAGATAGTCTACTGGGAC
* *
13565839 AATAAGCACAG-A-ATAGATAATGTCTAC-GGGCAC
1 AGTAAACACAGAATATAGAT-A-GTCTACTGGG-AC
13565872 AGTAAACACA
1 AGTAAACACA
13565882 AGGAAAGTTC
Statistics
Matches: 113, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.01
30 2 0.02
31 22 0.19
32 3 0.03
33 85 0.75
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (33 bp):
AGTAAACACAGAATATAGATAGTCTACTGGGAC
Found at i:13569999 original size:45 final size:45
Alignment explanation
Indices: 13569935--13570055 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
13569925 AGGATTCCGG
* * *
13569935 TATGTGTTTTCGTGTAAGACTACATCTGGGATGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTGGGAAGTTGACATCGATA
* *
13569980 TATGTGTTTTCATGTAAGACCACGTCTGGGAAGTTGACATCGATA
1 TATGTGTTTTCGTGTAAGACCACATCTGGGAAGTTGACATCGATA
* * **
13570025 TATGTGGTTACGTGTAAGACCATGTCTGGGA
1 TATGTGTTTTCGTGTAAGACCACATCTGGGA
13570056 CATCAGTATC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACATCTGGGAAGTTGACATCGATA
Found at i:13572478 original size:40 final size:40
Alignment explanation
Indices: 13572433--13572656 Score: 227
Period size: 40 Copynumber: 5.8 Consensus size: 40
13572423 ATAACCACAA
* * *
13572433 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATATCAACTC
*
13572473 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
13572513 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
13572553 GCACAAATGCC-T----TCTTAG-CCGTATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
13572587 GCATAAATGCCTT--GGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
13572625 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
13572657 CATTCAAATG
Statistics
Matches: 164, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
34 18 0.11
35 11 0.07
37 5 0.03
38 28 0.17
39 2 0.01
40 98 0.60
41 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:13579498 original size:38 final size:38
Alignment explanation
Indices: 13579433--13579545 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 38
13579423 ATTTGATGTG
* *
13579433 TATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
13579473 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
13579511 TATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
13579546 TTATATTCGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 52 0.80
39 5 0.08
40 8 0.12
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.26
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:13579665 original size:16 final size:16
Alignment explanation
Indices: 13579644--13579708 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
13579634 GTATTCGGGC
13579644 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
13579660 CTTCGTGCC--G--GG
1 CTTCGTGCCTAGCAGG
13579672 CCTTCGTGCCTAGCAGG
1 -CTTCGTGCCTAGCAGG
13579689 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
13579705 CTTC
1 CTTC
13579709 ATACCGGTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.05
13 9 0.20
14 1 0.02
15 1 0.02
16 29 0.66
17 2 0.05
ACGTcount: A:0.09, C:0.34, G:0.31, T:0.26
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:13579676 original size:29 final size:29
Alignment explanation
Indices: 13579639--13579697 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13579629 GATGCGTATT
13579639 CGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGGCCTTCGTGCCTAGCAGGCTTCGTGC
13579668 CGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGGCCTTCGTGCCTAGCAGGCTTCGTGC
13579697 C
1 C
13579698 TAGCAGGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.07, C:0.36, G:0.34, T:0.24
Consensus pattern (29 bp):
CGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:13579761 original size:43 final size:43
Alignment explanation
Indices: 13579549--13579747 Score: 251
Period size: 43 Copynumber: 4.6 Consensus size: 43
13579539 GCTGGTATTA
* *
13579549 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGAG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
13579592 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGCG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
13579635 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG-GCCTTCGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTG--AT-GTG
* * * *
13579680 CCTA-GCAGG-CTTCGTGCCTAGCAGGCTTCATACCGGTGATGTG
1 --TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
13579723 TATTCGAGCCTTCGTGCCTAGCAGG
1 TATTCGGGCCTTCGTGCCTAGCAGG
13579748 TGTAATGCCG
Statistics
Matches: 136, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 96 0.71
44 2 0.01
45 27 0.20
46 4 0.03
47 2 0.01
ACGTcount: A:0.12, C:0.28, G:0.32, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:13580810 original size:48 final size:48
Alignment explanation
Indices: 13580717--13580819 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
13580707 TGTGTAAGCT
* * * *
13580717 TAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGTG
1 TAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGTA
**
13580765 TAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGTA
1 TAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGTA
13580813 TAAGACC
1 TAAGACC
13580820 ATAATTGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
TAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGTA
Found at i:13585509 original size:46 final size:46
Alignment explanation
Indices: 13585442--13585567 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
13585432 AACCCGCCCC
* * * *
13585442 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
13585488 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
13585534 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13585568 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:13592601 original size:46 final size:46
Alignment explanation
Indices: 13592430--13592598 Score: 268
Period size: 46 Copynumber: 3.7 Consensus size: 46
13592420 AACCCGCCCC
* * * *
13592430 TAAGTGAACTCGAACTCAACTCAATGAGCTCAGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
13592476 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
*
13592522 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCA
*
13592568 TAAGTGAACTCGGACTCAACTCAACAAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
13592599 GGATGCTCAA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 114 0.98
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
Found at i:13592620 original size:46 final size:45
Alignment explanation
Indices: 13592432--13592620 Score: 145
Period size: 46 Copynumber: 4.1 Consensus size: 45
13592422 CCCGCCCCTA
* * * * *
13592432 AGTGAACTCGAACTCAACTCAATGAGCTCAGG-TGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCACCATCC-T
* * *
13592477 AAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCACCATCC-T
*** *
13592523 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*
13592569 AAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
13592616 AGTGA
1 AGTGA
13592621 CATGTCACTT
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.02
46 122 0.94
47 1 0.01
48 5 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:13593742 original size:38 final size:38
Alignment explanation
Indices: 13593695--13593781 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
13593685 GGCTTAAAGA
* * *
13593695 CCCGTAGGCTTCATGCTGGTAAAATATCTAGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTAAAATATCCAGGATAAAT
* ** *
13593733 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCATGCTGGTAAAATATCCAGGATAAAT
13593771 CCCGCAGGCTT
1 CCCGCAGGCTT
13593782 AGTGTTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGTAAAATATCCAGGATAAAT
Found at i:13593791 original size:38 final size:38
Alignment explanation
Indices: 13593728--13593802 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
13593718 ATATCTAGGT
*
13593728 TAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
1 TAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGA
* *
13593766 TAAATCCCGCAGGCTTAGTGTTGGTATTATATTCGGG
1 TAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGG
13593803 CCTTCGTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (38 bp):
TAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGA
Found at i:13593870 original size:43 final size:43
Alignment explanation
Indices: 13593795--13593949 Score: 238
Period size: 43 Copynumber: 3.6 Consensus size: 43
13593785 GTTGGTATTA
* *
13593795 TATTCGGGCCTTCGTACCTAGCAAGCTCCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
** *
13593838 TATTTAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
* **
13593881 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTAGTGATGTG
1 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
13593924 TATTCGGGCCTTCGTACCTAGCAGGC
1 TATTCGGGCCTTCGTACCTAGCAGGC
13593950 GTAATGCCGG
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.13, C:0.26, G:0.31, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:13596111 original size:43 final size:42
Alignment explanation
Indices: 13596064--13596145 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
13596054 TCTTACATGT
*
13596064 AATCAAACATCGATGCC-ACTGTCCCAGACACAGTCTTACAAAA
1 AATCAAACA-CGATGCCGA-TATCCCAGACACAGTCTTACAAAA
* **
13596107 AATCAGACACGATGCCGATATCCCAGACATGGTCTTACA
1 AATCAAACACGATGCCGATATCCCAGACACAGTCTTACA
13596146 CGTAAAGTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (42 bp):
AATCAAACACGATGCCGATATCCCAGACACAGTCTTACAAAA
Found at i:13603111 original size:27 final size:28
Alignment explanation
Indices: 13603027--13603124 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
13603017 CATGAGATTG
* * *
13603027 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
13603056 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
13603084 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
13603111 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
13603125 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:13603138 original size:29 final size:27
Alignment explanation
Indices: 13603055--13603139 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
13603045 TAAATTGTTC
* *
13603055 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
13603083 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
13603110 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
13603139 A
1 A
13603140 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:13616145 original size:27 final size:26
Alignment explanation
Indices: 13616090--13616155 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
13616080 TGGATAAGTT
13616090 GTAGAATTACCGAAATATCCCTATAGG
1 GTAGAATTACC-AAATATCCCTATAGG
* *
13616117 GTAGAATTACCAAGATA-CCCTTGTGGG
1 GTAGAATTACCAA-ATATCCC-TATAGG
*
13616144 GTAAAATTACCA
1 GTAGAATTACCA
13616156 TTTTGCCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.15
27 29 0.85
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (26 bp):
GTAGAATTACCAAATATCCCTATAGG
Found at i:13616866 original size:27 final size:26
Alignment explanation
Indices: 13616826--13616885 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
13616816 CCACATATAT
* *
13616826 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
13616852 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
13616879 ATATCTG
1 ATATCTG
13616886 GCAGCTCCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:13618694 original size:40 final size:40
Alignment explanation
Indices: 13618613--13618793 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
13618603 AAACCAAGTA
** * *
13618613 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
13618652 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
13618692 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
***
13618732 CCTTCGGGACTTAGCCCTAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
13618772 CCTTCGGG-CTTAGCCCAGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
13618794 CAATCCGAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 24 0.19
40 104 0.81
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:13621372 original size:12 final size:12
Alignment explanation
Indices: 13621334--13621382 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
13621324 AAGAAATAAG
*
13621334 AAGAACAAACAGA
1 AAGAA-AAAGAGA
*
13621347 GAAGAAAAGGGAGA
1 -AAGAAAA-AGAGA
13621361 AAGAAAAAGAGA
1 AAGAAAAAGAGA
13621373 AAGAAAAAGA
1 AAGAAAAAGA
13621383 ATGAGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 14 0.45
13 9 0.29
14 8 0.26
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:13623422 original size:21 final size:21
Alignment explanation
Indices: 13623396--13623461 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
13623386 CGGCTTGAGG
*
13623396 CACGGGTGTGTCCCATGGCCA
1 CACGGGCGTGTCCCATGGCCA
*
13623417 CACGGGCGTGTCCCTTGGCCA
1 CACGGGCGTGTCCCATGGCCA
*
13623438 CACAGGCGTGT-CCATTGGCCA
1 CACGGGCGTGTCCCA-TGGCCA
13623459 CAC
1 CAC
13623462 ACAGGCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 2 0.05
21 38 0.95
ACGTcount: A:0.15, C:0.36, G:0.30, T:0.18
Consensus pattern (21 bp):
CACGGGCGTGTCCCATGGCCA
Found at i:13626947 original size:31 final size:31
Alignment explanation
Indices: 13626909--13626983 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
13626899 ACGGTTACTA
13626909 GGCCGAAGCCTTTTCATAAATCATACCACTG
1 GGCCGAAGCCTTTTCATAAATCATACCACTG
* *
13626940 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATACCACTG
13626971 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
13626984 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATACCACTG
Found at i:13627055 original size:42 final size:42
Alignment explanation
Indices: 13627008--13627097 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
13626998 GCCCTCAGGG
* ** *
13627008 CCATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
13627050 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
1 CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
13627092 CCATTT
1 CCATTT
13627098 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
CCATTTCAATATCACATGAAATACCAATGAATGTATGCAAGC
Found at i:13627306 original size:26 final size:26
Alignment explanation
Indices: 13627242--13627364 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
13627232 CCTCTTTAAT
**
13627242 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
13627267 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
13627292 AACAGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
13627318 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
13627344 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
13627365 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 31 0.36
26 55 0.64
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:13627355 original size:52 final size:51
Alignment explanation
Indices: 13627242--13627364 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 51
13627232 CCTCTTTAAT
* *
13627242 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTTAATA
1 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
13627292 AAC-AGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTA-GGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
13627344 AACTAGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
13627365 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
50 8 0.12
51 25 0.37
52 33 0.49
53 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:13628244 original size:27 final size:27
Alignment explanation
Indices: 13628167--13628253 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
13628157 TATTCATTAT
* * *
13628167 TTTACCATACAGGGG-TATTACAGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
* * *
13628194 TTTACACTACAAGGGCTTTGCGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
13628221 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
13628248 TTTACC
1 TTTACC
13628254 TAATAGAGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:13628345 original size:27 final size:26
Alignment explanation
Indices: 13628311--13628670 Score: 102
Period size: 27 Copynumber: 13.3 Consensus size: 26
13628301 ATCTACAAAC
13628311 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTT-TAAAT
*
13628338 CAATGGTATTTTCA-TAATTTTTAGAAAGT
1 CAAGGGTA-TTTCAGTAATTTTT--AAA-T
* *
13628367 CAAGGGTATTTCTGTAACTTTCTAAAT
1 CAAGGGTATTTCAGTAA-TTTTTAAAT
* ** *
13628394 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTT-TAAAT
** * * *
13628421 TGAGGGTATTTCGGTAA-TTTCACAAA
1 CAAGGGTATTTCAGTAATTTTTA-AAT
* ** *
13628447 CCAGTGGTATTTTGGTAA-TTTTACAAA
1 CAAG-GGTATTTCAGTAATTTTTA-AAT
** ** *
13628474 CTTGGGGTATTTTGGTAATTTTAAAAAT
1 C-AAGGGTATTTCAGTAATTTT-TAAAT
** * * *
13628502 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTT-TAAAT
* * *
13628529 CAAGGGCATTTTAGCAA-TTTTACAGAT
1 CAAGGGTATTTCAGTAATTTTTA-A-AT
* ** *
13628556 TAA-GGTATTTTGGTAA-TTTTACTGAT
1 CAAGGGTATTTCAGTAATTTTTA--AAT
* ** *
13628582 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTT-TAAAT
*
13628609 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTT-TAAAT
** *** *
13628636 TGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATT-TTTAAAT
13628663 CAAGGGTA
1 CAAGGGTA
13628671 AAATAGTAAT
Statistics
Matches: 255, Mismatches: 59, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
25 3 0.01
26 33 0.13
27 176 0.69
28 25 0.10
29 14 0.05
30 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATTTTTAAAT
Found at i:13628456 original size:54 final size:53
Alignment explanation
Indices: 13628369--13628643 Score: 250
Period size: 54 Copynumber: 5.1 Consensus size: 53
13628359 TAGAAAGTCA
*
13628369 AGGGTATTTCT-GTAACTTT-CTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGGTAATTTTAC-AAATCA-GGGTATTTTGGTAATTTTACAAATTG
* * *
13628423 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTTG
1 AGGGTATTTTGGTAATTTTACAAATCAG-GGTATTTTGGTAATTTTACAAA-TTG
* * * ***
13628478 -GGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAA-TCAGGGTATTTTGGTAATTTTACAAATTG
* * * * * * ** *
13628531 AGGGCATTTTAGCAATTTTACAGATTAAGGTATTTTGGTAATTTTACTGATCG
1 AGGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGGTAATTTTACAAATTG
** * * *
13628584 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATTG
1 AGGGTATTTTGGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAATTG
13628638 AGGGTA
1 AGGGTA
13628644 AAACAGTAAT
Statistics
Matches: 175, Mismatches: 39, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
53 41 0.23
54 128 0.73
55 6 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGGTAATTTTACAAATTG
Found at i:13628490 original size:81 final size:80
Alignment explanation
Indices: 13628396--13628643 Score: 327
Period size: 81 Copynumber: 3.1 Consensus size: 80
13628386 TTCTAAATCA
*
13628396 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTT
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTTT
*
13628460 GGTAATTTTACAAACTT
65 AGTAATTTTACAAA-TT
* *
13628477 GGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGCATTTTA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
* *
13628542 GCAATTTTACAGATT
66 GTAATTTTACAAATT
** ** * * **
13628557 AAGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTA
1 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
*
13628622 GTAATTTTATAAATT
66 GTAATTTTACAAATT
13628637 GAGGGTA
1 G-GGGTA
13628644 AAACAGTAAT
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
80 69 0.48
81 73 0.51
82 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
GTAATTTTACAAATT
Found at i:13628671 original size:27 final size:27
Alignment explanation
Indices: 13628621--13628751 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
13628611 AGGGTATTTT
* *
13628621 AGTAATTTTATAAATTGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
13628648 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
13628675 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
13628702 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
13628729 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
13628752 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:13628764 original size:54 final size:54
Alignment explanation
Indices: 13628594--13628751 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
13628584 AGGGTATTTT
* *** * *
13628594 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
* * *
13628648 AGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
* **
13628702 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
13628752 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
GGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
Found at i:13628788 original size:81 final size:81
Alignment explanation
Indices: 13628611--13628797 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
13628601 TTGTAAACCA
* * *
13628611 AGGGTATTTTAGTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATA
1 AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATA
*
13628676 GTAATTCTATAAATCG
66 GTAATTCTACAAATCG
*** * * * *** *
13628692 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
1 AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATA
* * *
13628757 GTAATTTTACAATTTG
66 GTAATTCTACAAATCG
* *
13628773 AGGGCATTTCAGTAATTTGGTAAAT
1 AGGGTATTTCAGTAATTTTGTAAAT
13628798 TTAAGTATTC
Statistics
Matches: 83, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.34
Consensus pattern (81 bp):
AGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATA
GTAATTCTACAAATCG
Found at i:13634524 original size:40 final size:40
Alignment explanation
Indices: 13634460--13634552 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
13634450 ACTATGTTCG
*
13634460 GCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATA-AATA
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAGAA-A
* * * * *
13634500 GCACTAAGTGTGCGAATTGGAATAGTTTCGGTTATAGGAG
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAGAAA
13634540 GCACTAAGTGTGC
1 GCACTAAGTGTGC
13634553 TATACCGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAGAAA
Found at i:13639162 original size:98 final size:100
Alignment explanation
Indices: 13639036--13639269 Score: 312
Period size: 99 Copynumber: 2.4 Consensus size: 100
13639026 ACATATGTAG
* * ** *
13639036 CCAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-TAAATTATCTGGTA
1 CCAAGTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACT-AACCATCTGATA
* *
13639100 CACGTAGTAGCCTGCACTTAGTACTACACATGTGA-
65 CACGTAATAGCCTGCACTTAGTACTACACACGTGAT
* *
13639135 CCAA-TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATA
1 CCAAGTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAACCATCTGATA
*
13639199 CACGTAATAGCCTTCACTTAGTACTACACACGTGAT
65 CACGTAATAGCCTGCACTTAGTACTACACACGTGAT
* * *
13639235 CGAAGTTATCGGGTACGCATAGTAGCCTGCTCTTA
1 CCAAGTTATCTGGTACGCATAGTAGCCTGCACTTA
13639270 TTCATCATAT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
98 41 0.35
99 45 0.38
100 4 0.03
101 27 0.23
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (100 bp):
CCAAGTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACTAACCATCTGATAC
ACGTAATAGCCTGCACTTAGTACTACACACGTGAT
Found at i:13639217 original size:50 final size:50
Alignment explanation
Indices: 13639042--13639269 Score: 264
Period size: 49 Copynumber: 4.6 Consensus size: 50
13639032 GTAGCCAAGC
* * * *
13639042 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA--TAAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAT
*
13639091 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* *
13639140 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
* * * * * *
13639190 CATCTGATACACGTAATAGCCTTCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-T
* * * *
13639241 TATCGGGTACGCATAGTAGCCTGCTCTTA
1 TATCTGGTACACGTAGTAGCCTGCACTTA
13639270 TTCATCATAT
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 88 0.58
50 44 0.29
51 21 0.14
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
Found at i:13647429 original size:31 final size:30
Alignment explanation
Indices: 13647369--13647429 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13647359 TTTCCAATCC
*
13647369 TAGGGGCAAAATCGTAATTCTGCAAAGGTT
1 TAGGGGCAAAATCGTAATTCTCCAAAGGTT
* * *
13647399 TAGGGTCAAAATTGTAATTTTTCCAAAGGTT
1 TAGGGGCAAAATCGTAA-TTCTCCAAAGGTT
13647430 GAGTTAGGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAATCGTAATTCTCCAAAGGTT
Found at i:13648253 original size:95 final size:97
Alignment explanation
Indices: 13648154--13648380 Score: 278
Period size: 101 Copynumber: 2.3 Consensus size: 97
13648144 TTAAGGATTC
* * ** *
13648154 CATGTAAGACCACATCGAGATGTGGCATTG-GGAC-TAAGGCAAGGATACCATGTAAGACCATGT
1 CATGTAAGACCACACCAAGACATGGCATTGAGGACATAAGACAAGGATACCATGTAAGACCATGT
13648217 TTGGAACATGGCATTTGGTAAGATAAAGATAT
66 TTGGAACATGGCATTTGGTAAGATAAAGATAT
** * **
13648249 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGACAAGGATACCATGTAAGACC
1 CATGTAAGACCACACCAAGACATGGCATTG---AGGAC-ATAAGACAAGGATACCATGTAAGACC
**
13648314 ATGTTTGGAACATGGCATTTGGTAAGATATGGATAT
62 ATGTTTGGAACATGGCATTTGGTAAGATAAAGATAT
**
13648350 CATGTAAGACCATGCCAAGACATGGCATTGA
1 CATGTAAGACCACACCAAGACATGGCATTGA
13648381 TGAGTTACTA
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
95 23 0.20
98 1 0.01
99 2 0.02
101 87 0.77
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (97 bp):
CATGTAAGACCACACCAAGACATGGCATTGAGGACATAAGACAAGGATACCATGTAAGACCATGT
TTGGAACATGGCATTTGGTAAGATAAAGATAT
Found at i:13648261 original size:47 final size:47
Alignment explanation
Indices: 13648197--13648363 Score: 151
Period size: 47 Copynumber: 3.4 Consensus size: 47
13648187 CTAAGGCAAG
13648197 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
1 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
* *** *
13648244 GATATCATGTAAGACCATGCCAAGG--CATGGCA-TTGATAAGTTCTATAAGACAA
1 GATACCATGTAAGACCATG-TTTGGAACATGGCATTTGGTAAG----AT---A-AA
**
13648297 GGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATATG
1 -GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
*
13648345 GATATCATGTAAGACCATG
1 GATACCATGTAAGACCATG
13648364 CCAAGACATG
Statistics
Matches: 94, Mismatches: 13, Indels: 26
0.71 0.10 0.20
Matches are distributed among these distances:
45 7 0.07
46 7 0.07
47 36 0.38
48 2 0.02
49 3 0.03
52 3 0.03
53 4 0.04
54 18 0.19
55 7 0.07
56 7 0.07
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (47 bp):
GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
Found at i:13648313 original size:101 final size:102
Alignment explanation
Indices: 13648188--13648418 Score: 367
Period size: 101 Copynumber: 2.3 Consensus size: 102
13648178 GCATTGGGAC
*
13648188 TAAGGCAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
*
13648253 TAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
66 TAAGACCATGCCAAGACATGGCATTGATAAGTTACTA
**
13648289 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATATGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
*
13648354 TAAGACCATGCCAAGACATGGCATTGATGAGTTACTA
66 TAAGACCATGCCAAGACATGGCATTGATAAGTTACTA
* * *
13648391 TAAGGAAAAAG-TCCCATGTAAGACCATG
1 TAA-GACAAGGATACCATGTAAGACCATG
13648419 CCAAGGCATG
Statistics
Matches: 120, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 93 0.77
102 22 0.18
103 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (102 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
TAAGACCATGCCAAGACATGGCATTGATAAGTTACTA
Found at i:13648410 original size:55 final size:52
Alignment explanation
Indices: 13648249--13648570 Score: 248
Period size: 55 Copynumber: 6.1 Consensus size: 52
13648239 ATAAAGATAT
* * *
13648249 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAA-GACAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTC-ATAAGGA-AAGG-TCC
**** ** * *
13648303 CATGTAAGACCATGTTTGGAACATGGCATT--TG-GTAAGATATGGATA--T--
1 CATGTAAGACCATGCCAAG-ACATGGCATTGATGAGT-TCATAAGGAAAGGTCC
*
13648350 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGAAAAAGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-C-ATAAGG-AAAGGTCC
* * * *
13648405 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGAAAGG-TCC
* * *
13648458 CATGGAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-C-ATAAGG-AAAGGTCC
* * * *
13648513 CATGTAAGACTATGCCAA-AGCATGGCATTGGTGAGTTCATAAGGCAAGGATTC
1 CATGTAAGACCATGCCAAGA-CATGGCATTGATGAGTTCATAAGGAAAGG-TCC
13648566 CATGT
1 CATGT
13648571 TAGATCAAAT
Statistics
Matches: 212, Mismatches: 37, Indels: 39
0.74 0.13 0.14
Matches are distributed among these distances:
46 10 0.05
47 15 0.07
48 2 0.01
49 3 0.01
50 5 0.02
51 2 0.01
52 13 0.06
53 57 0.27
54 19 0.09
55 82 0.39
56 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGGAAAGGTCC
Found at i:13648429 original size:101 final size:101
Alignment explanation
Indices: 13648223--13648541 Score: 356
Period size: 108 Copynumber: 3.1 Consensus size: 101
13648213 ATGTTTGGAA
* * *
13648223 CATGGCATTTGGTAAGATAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-C
1 CATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTAC
* * ***
13648287 TATAA-GACAAGGATACCATGTAAGACCATG-TTTGG
66 TATAAGGAAAAGG-TCCCATGTAAGACCATGCCAAGG
*
13648322 AACATGGCATTTGGTAAGATATGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT
1 --CATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT
*
13648387 ACTATAAGGAAAAAGTCCCATGTAAGACCATGCCAAGG
64 ACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGG
** * * *
13648425 CATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGGAAGACCATGTCAAGACATGGCATTGAT
1 CATGGCATT--TG-G----TAAGATAAGGATATCATGTAAGACCATGCCAAGACATGGCATTGAT
* * * *
13648490 GAGTTACTATAAGGCAAAGGTCTCATGTAAGACTATGCCAAAG
59 GAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGG
13648533 CATGGCATT
1 CATGGCATT
13648542 GGTGAGTTCA
Statistics
Matches: 187, Mismatches: 21, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
101 68 0.36
102 22 0.12
103 9 0.05
104 1 0.01
108 87 0.47
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (101 bp):
CATGGCATTTGGTAAGATAAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTAC
TATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGG
Found at i:13648470 original size:53 final size:55
Alignment explanation
Indices: 13648344--13648570 Score: 263
Period size: 55 Copynumber: 4.2 Consensus size: 55
13648334 GGTAAGATAT
*
13648344 GGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGG-AA
1 GGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAA
** * * *
13648398 AAAGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGCAA
1 GGA-TACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAA
* *
13648452 GGATACCATGGAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGC-AA
* *
13648508 GG-T-CTCATGTAAGACTATGCCAA-AGCATGGCATTGGTGAGTT-C-ATAAGGCAA
1 GGATAC-CATGTAAGACCATGCCAAGA-CATGGCATTGATGAGTTACTATAAGGCAA
*
13648560 GGATTCCATGT
1 GGATACCATGT
13648571 TAGATCAAAT
Statistics
Matches: 147, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
52 4 0.03
53 54 0.37
54 10 0.07
55 75 0.51
56 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (55 bp):
GGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGCAA
Found at i:13648480 original size:108 final size:108
Alignment explanation
Indices: 13648344--13648592 Score: 381
Period size: 108 Copynumber: 2.3 Consensus size: 108
13648334 GGTAAGATAT
* *
13648344 GGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGGAAAAAGTCCCATG
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAAGTCCCATG
*
13648409 TAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAA
66 TAAGACCATGCCAAAGCATGGCATTGGTGAGTTCATAAGGCAA
* * * *
13648452 GGATACCATGGAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCTCATG
1 GGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAAGTCCCATG
*
13648517 TAAGACTATGCCAAAGCATGGCATTGGTGAGTTCATAAGGCAA
66 TAAGACCATGCCAAAGCATGGCATTGGTGAGTTCATAAGGCAA
* * * **
13648560 GGATTCCATGTTAGATCAAATCAAGACATGGCA
1 GGATACCATGTAAGACCATGTCAAGACATGGCA
13648593 ATGGTAAGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 127 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (108 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAAGTCCCATG
TAAGACCATGCCAAAGCATGGCATTGGTGAGTTCATAAGGCAA
Found at i:13648590 original size:53 final size:52
Alignment explanation
Indices: 13648350--13648604 Score: 196
Period size: 53 Copynumber: 4.7 Consensus size: 52
13648340 ATATGGATAT
** * ** *
13648350 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTACTATAAGG-AAAAAGTCC
1 CATGTAAGA-CATATCAAGACATGGCATTGGTGAGTT-C-ATAAGGCAAGGA-TTC
** * *
13648405 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGA-CATATCAAGACATGGCATTGGTGAGTTCATAAGGCAAGGATTC
* * *
13648458 CATGGAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG--TC
1 CATGTAAGA-CATATCAAGACATGGCATTGGTGAGTT-C-ATAAGGC-AAGGATTC
13648512 TCATGTAAGAC-TATGCCAA-AGCATGGCATTGGTGAGTTCATAAGGCAAGGATTC
1 -CATGTAAGACATAT--CAAGA-CATGGCATTGGTGAGTTCATAAGGCAAGGATTC
* * * *
13648566 CATGTTAGATCAAATCAAGACATGGCAATGGTAAGTTCA
1 CATGTAAGA-CATATCAAGACATGGCATTGGTGAGTTCA
13648605 AAAAGGAAAA
Statistics
Matches: 170, Mismatches: 17, Indels: 28
0.79 0.08 0.13
Matches are distributed among these distances:
52 4 0.02
53 78 0.46
54 13 0.08
55 71 0.42
56 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (52 bp):
CATGTAAGACATATCAAGACATGGCATTGGTGAGTTCATAAGGCAAGGATTC
Found at i:13648981 original size:11 final size:11
Alignment explanation
Indices: 13648965--13648990 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13648955 GCATAGTAGT
13648965 AACCCTTCACG
1 AACCCTTCACG
13648976 AACCCTTCACG
1 AACCCTTCACG
13648987 AACC
1 AACC
13648991 ATCTATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (11 bp):
AACCCTTCACG
Found at i:13661122 original size:40 final size:40
Alignment explanation
Indices: 13661085--13661266 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
13661075 GCTACTCGTT
*
13661085 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATT-TAGTAACTCGCA
*
13661125 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * *
13661165 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
* * * * *
13661204 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCAGATTTAGTAAC-TCGCA
13661245 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
13661267 GGTCATGATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 73 0.60
41 15 0.12
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATTTAGTAACTCGCA
Found at i:13661229 original size:79 final size:81
Alignment explanation
Indices: 13661087--13661268 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 81
13661077 TACTCGTTCA
* *
13661087 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
* *
13661151 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
13661167 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCAG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* *
13661229 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
13661246 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
13661269 TCATGATTCG
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
TATAGTAACTTAGCAC
Found at i:13669384 original size:39 final size:40
Alignment explanation
Indices: 13669270--13669454 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
13669260 GCTACTCGTT
*
13669270 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
13669310 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
13669350 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
13669389 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
13669430 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13669455 CATGATTCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 76 0.60
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13669438 original size:79 final size:81
Alignment explanation
Indices: 13669270--13669454 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
13669260 GCTACTCGTT
* *
13669270 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
13669334 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
13669351 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
13669413 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
13669430 CAAAGCCTTCGGGACTTATCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
13669455 CATGATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 26 0.29
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:13678028 original size:14 final size:15
Alignment explanation
Indices: 13677999--13678028 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13677989 CAAAATTTAG
13677999 ACATGATACTTTCAC
1 ACATGATACTTTCAC
13678014 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
13678028 A
1 A
13678029 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:13679148 original size:26 final size:26
Alignment explanation
Indices: 13679119--13679168 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13679109 AATTAAAGCA
*
13679119 TAGGGGCATATCAATCATTTTACCTC
1 TAGGGGCATAACAATCATTTTACCTC
* **
13679145 TAGGGGTATAACGGTCATTTTACC
1 TAGGGGCATAACAATCATTTTACC
13679169 AGTAAGTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (26 bp):
TAGGGGCATAACAATCATTTTACCTC
Found at i:13681390 original size:42 final size:40
Alignment explanation
Indices: 13681298--13681438 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 40
13681288 GTCCTAGATG
* * * *
13681298 TGGTCTTACATGTAATCATGTATCGATGGCACTGTCCCAGACA
1 TGGTCTTACATGAAATCA--TA-CAATGCCAATGTCCCAGACA
13681341 -GGCTCTTACATGAAATCAAATACAATGCCAATGTCCCAGACA
1 TGG-TCTTACATGAAATC--ATACAATGCCAATGTCCCAGACA
* *
13681383 TGGTCTTACATGTAAATC-T-CAAAT-CCAACGTCCCAAACA
1 TGGTCTTACATG-AAATCATAC-AATGCCAATGTCCCAGACA
13681422 TGGTCTTA-ATGAAATCA
1 TGGTCTTACATGAAATCA
13681439 CATATCAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
37 5 0.06
38 3 0.04
39 22 0.26
40 4 0.05
42 28 0.33
43 22 0.26
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TGGTCTTACATGAAATCATACAATGCCAATGTCCCAGACA
Found at i:13687225 original size:19 final size:19
Alignment explanation
Indices: 13687198--13687236 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13687188 TTGTTTAAAT
*
13687198 AGTACTTCATCCATATAAC
1 AGTAATTCATCCATATAAC
* *
13687217 AGTAATTCATTCGTATAAC
1 AGTAATTCATCCATATAAC
13687236 A
1 A
13687237 CATAGCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (19 bp):
AGTAATTCATCCATATAAC
Found at i:13687420 original size:25 final size:23
Alignment explanation
Indices: 13687378--13687461 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
13687368 GAGCTATGAT
* *
13687378 CAGTAAGCTTCTCCTGAGCTGATGGA
1 CAGTAAGC-TCTACTGAGCTGA--AA
*
13687404 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTCTACTGAGCTGAAA
*
13687427 CAGTAAGCTCCGAC-GAGCTGAAAA
1 CAGTAAGCT-CTACTGAGCTG-AAA
*
13687451 TAGTAAGCTCT
1 CAGTAAGCTCT
13687462 TATGAGTTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 17 0.35
24 13 0.27
25 11 0.22
26 8 0.16
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (23 bp):
CAGTAAGCTCTACTGAGCTGAAA
Found at i:13695148 original size:23 final size:23
Alignment explanation
Indices: 13695118--13695197 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 23
13695108 TGATAGACAA
13695118 TAAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTATTGAGCTGAAACGG
*
13695141 TAAGCTCTGA-TGAGCTGAAAACAG
1 TAAGCTCT-ATTGAGCTG-AAACGG
13695165 TAAGCTCT-TATGAGCTGATATATCGG
1 TAAGCTCTAT-TGAGCTGA-A-A-CGG
13695191 TAAGCTC
1 TAAGCTC
13695198 ATACAAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
23 16 0.33
24 22 0.46
25 1 0.02
26 9 0.19
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAAACGG
Found at i:13695167 original size:24 final size:23
Alignment explanation
Indices: 13695089--13695182 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 23
13695079 GAGCTATGAC
* *
13695089 CAGTAAGCTCCTCCTGAGCTGATAGA
1 CAGTAAGCT-CT-ATGAGCTGA-AAA
*
13695115 CAATAAGCTCTATTGAGCTG-AAA
1 CAGTAAGCTCTA-TGAGCTGAAAA
*
13695138 CGGTAAGCTCTGATGAGCTGAAAA
1 CAGTAAGCTCT-ATGAGCTGAAAA
13695162 CAGTAAGCTCTTATGAGCTGA
1 CAGTAAGCTC-TATGAGCTGA
13695183 TATATCGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.31
24 22 0.38
25 10 0.17
26 8 0.14
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (23 bp):
CAGTAAGCTCTATGAGCTGAAAA
Found at i:13695179 original size:47 final size:51
Alignment explanation
Indices: 13695103--13695197 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 51
13695093 AAGCTCCTCC
*
13695103 TGAGCTGATAGACAATAAGCTCTATTGAGCTGA-A-A-CGGTAAGCTCTGA
1 TGAGCTGATAAACAATAAGCTCTATTGAGCTGATATATCGGTAAGCTCTGA
*
13695151 TGAGCTGA-AAACAGTAAGCTCT-TATGAGCTGATATATCGGTAAGCTC
1 TGAGCTGATAAACAATAAGCTCTAT-TGAGCTGATATATCGGTAAGCTC
13695198 ATACAAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 1 0.02
47 20 0.49
48 9 0.22
49 1 0.02
50 10 0.24
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (51 bp):
TGAGCTGATAAACAATAAGCTCTATTGAGCTGATATATCGGTAAGCTCTGA
Found at i:13697076 original size:28 final size:28
Alignment explanation
Indices: 13697036--13697092 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
13697026 AAGAAAGCTG
*
13697036 AGTTTTGGCTAGAGAATATGATCTAGGT
1 AGTTTTGGCTAGAGAATACGATCTAGGT
*
13697064 AGTTTTGGCTAGAGAATACGATCTGGGT
1 AGTTTTGGCTAGAGAATACGATCTAGGT
13697092 A
1 A
13697093 TTTGATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (28 bp):
AGTTTTGGCTAGAGAATACGATCTAGGT
Found at i:13704266 original size:50 final size:50
Alignment explanation
Indices: 13704071--13704267 Score: 218
Period size: 50 Copynumber: 3.9 Consensus size: 50
13704061 ATCTATTGTG
* * *
13704071 AGGTCATGTTTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAATT
* * * * *
13704121 -GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * **
13704171 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
13704221 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
13704268 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 38 0.32
50 45 0.38
51 37 0.31
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:13725993 original size:14 final size:15
Alignment explanation
Indices: 13725964--13725993 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13725954 CAAAATTTAG
13725964 ACATGATACTTTCAC
1 ACATGATACTTTCAC
13725979 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
13725993 A
1 A
13725994 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:13730020 original size:47 final size:47
Alignment explanation
Indices: 13729966--13730159 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
13729956 TTAGGATTTT
** * *
13729966 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
13730013 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
13730060 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
13730107 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
13730154 ATGTGA
1 ATGTGA
13730160 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:13730066 original size:22 final size:22
Alignment explanation
Indices: 13729995--13730066 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
13729985 GTATATATGA
13729995 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
13730017 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
13730042 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
13730064 GAT
1 GAT
13730067 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:13730115 original size:25 final size:25
Alignment explanation
Indices: 13730040--13730115 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
13730030 ATGCATATAT
13730040 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
13730065 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
13730087 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
13730112 GTGA
1 GTGA
13730116 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:13730231 original size:91 final size:95
Alignment explanation
Indices: 13730130--13730308 Score: 269
Period size: 91 Copynumber: 1.9 Consensus size: 95
13730120 GAACATGCAT
*
13730130 ATATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAGATATGTATATGT-G-GCCGA
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAGATATGTATATGTGGAGCCGA
13730190 ATGGCTAATGTGAAATATGTATGAGATATGC
65 ATGGCTAATGTGAAATATGTATGAGATATGC
13730221 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGG---AGCC
*
13730286 GAATGGCTAGTGTGAAATATGTA
63 GAATGGCTAATGTGAAATATGTA
13730309 GGCGATGTGC
Statistics
Matches: 78, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
91 27 0.35
92 3 0.04
93 22 0.28
94 1 0.01
98 25 0.32
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (95 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGAGCCGAA
TGGCTAATGTGAAATATGTATGAGATATGC
Found at i:13730324 original size:50 final size:48
Alignment explanation
Indices: 13730129--13730308 Score: 264
Period size: 43 Copynumber: 3.8 Consensus size: 48
13730119 TGAACATGCA
13730129 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
13730177 TATATGT-G----GCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
13730220 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
13730270 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
13730309 GGCGATGTGC
Statistics
Matches: 118, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
43 41 0.35
44 1 0.01
47 2 0.02
48 28 0.24
49 4 0.03
50 41 0.35
51 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:13730562 original size:37 final size:37
Alignment explanation
Indices: 13730454--13730562 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
13730444 GGAAATATAT
*
13730454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
13730491 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
13730528 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
13730563 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:13739313 original size:19 final size:19
Alignment explanation
Indices: 13739286--13739324 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13739276 TTGTTTAAAT
*
13739286 AGTACTTCATCCATATAAC
1 AGTAATTCATCCATATAAC
* *
13739305 AGTAATTCATTCGTATAAC
1 AGTAATTCATCCATATAAC
13739324 A
1 A
13739325 CATAGCTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (19 bp):
AGTAATTCATCCATATAAC
Found at i:13739523 original size:23 final size:24
Alignment explanation
Indices: 13739493--13739549 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
13739483 GCTGATGGAC
*
13739493 AGTAAGCTCT-ATTGAGCTG-AAAT
1 AGTAAGCTCTGA-CGAGCTGAAAAT
13739516 AGTAAGCTCTGACGAGCTGAAAAT
1 AGTAAGCTCTGACGAGCTGAAAAT
13739540 AGTAAGCTCT
1 AGTAAGCTCT
13739550 TATGATTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTGACGAGCTGAAAAT
Found at i:13742424 original size:40 final size:40
Alignment explanation
Indices: 13742352--13742536 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
13742342 GCTACTCGTT
* *
13742352 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
13742392 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
13742432 CTAATGCCTTTGGG-CTTAGCCCGGAATTT-GTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTTAGTAACTCGCA
* * * * * *
13742471 CAAATGCCTTC-GTATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
13742512 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13742537 CATCATTCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 78 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13742520 original size:79 final size:80
Alignment explanation
Indices: 13742357--13742536 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
13742347 TCGTTCAAAT
* * *
13742357 GCCTTCGGGACATAGCCTGG--TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 GCCTTCGGGACTTAGCCCGGAATT-T-GTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
*
13742420 TAGTAACTCACACTAAT
64 TAGTAACTCACACTAAA
* * **
13742437 GCCTTTGGG-CTTAGCCCGGAATTTGTAACTCGCACAAATGCCTTC-GTATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAGCCCGGAATTTGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* * *
13742500 GGTCACTTAGCAC-AAA
65 AGTAACTCA-CACTAAA
13742516 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
13742537 CATCATTCGA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.02
79 56 0.67
80 23 0.28
81 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGAATTTGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTCACACTAAA
Found at i:13750634 original size:79 final size:81
Alignment explanation
Indices: 13750525--13750707 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
13750515 TACTCGTTCA
* *
13750525 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
13750588 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
13750605 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
13750668 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
13750684 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
13750708 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:13750707 original size:40 final size:40
Alignment explanation
Indices: 13750504--13750707 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
13750494 CGGAATTTAA
** *
13750504 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13750544 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13750584 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13750623 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13750663 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13750703 CCGGA
1 CCGGA
13750708 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13751356 original size:37 final size:37
Alignment explanation
Indices: 13751306--13751393 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
13751296 AGGCTACCTA
13751306 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
13751343 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
13751380 TGGCCGAACATACA
1 TGGCCGAACATACA
13751394 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (37 bp):
TGGCCGAACATACACATAACTTATGTACTTATTCATG
Found at i:13758802 original size:93 final size:93
Alignment explanation
Indices: 13758687--13758858 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
13758677 GCCCATAAGT
* *
13758687 GAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGTATCCATAAATGAACT-TGAACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCAG-ACTCAACTC
13758750 AACGAGCTCGGATGCCTAGTTACATCCCTC
64 AACGAGCTCGGATGCCTAGTTACATCCCTC
* *
13758780 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
13758845 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
13758859 CAAACATCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCCCTC
Found at i:13758846 original size:46 final size:47
Alignment explanation
Indices: 13758679--13758854 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 47
13758669 TGTAACCCGC
*
13758679 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
* * * *
13758725 CCATAAATGAACTTGAACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTCGCAT
* * *
13758775 CCCT---CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
* *
13758818 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13758855 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
46 59 0.55
47 28 0.26
48 1 0.01
49 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTCGCAT
Found at i:13758873 original size:46 final size:46
Alignment explanation
Indices: 13758741--13758873 Score: 112
Period size: 46 Copynumber: 2.9 Consensus size: 46
13758731 ATGAACTTGA
* * * *
13758741 ACTCAACTCAACGAGCTCGGATGCCTAGTTACATCCCT--CGAACTCGG
1 ACTCAACTCAACGAGTTCGGATGCCCA--TACAT-CCTAGTGAACTCAG
* * * *
13758788 ACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGTGAACTCAG
1 ACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGTGAACTCAG
*
13758834 ACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGA
1 ACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTGA
13758874 CATGTCACTT
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
44 8 0.12
46 32 0.48
47 23 0.34
49 4 0.06
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (46 bp):
ACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTGAACTCAG
Found at i:13764272 original size:46 final size:46
Alignment explanation
Indices: 13764205--13764373 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
13764195 TGTAACCCGC
*
13764205 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
13764251 CCATAAGTGAACTCGAACTCAACTCAACAAGCTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * * *
13764297 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
*
13764344 CCATAAGTGAACTC-AGACACAACTCAACGA
1 CCATAAGTGAACTCGA-ACTCAACTCAACGA
13764374 TTTCAGATGC
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 56 0.58
47 28 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:13767110 original size:24 final size:24
Alignment explanation
Indices: 13767020--13767113 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 24
13767010 GATCTATGAT
** *
13767020 CAGTAAGCTCCTCCTGAGCTGATAGA
1 CAGTAAGCT-CTTATGAGCTGA-AAA
*
13767046 CAATAAGCTC-TATTGAGCTG-AAA
1 CAGTAAGCTCTTA-TGAGCTGAAAA
* *
13767069 CGGTAAGCT-TTGACGAGCTGAAAA
1 CAGTAAGCTCTT-ATGAGCTGAAAA
13767093 CAGTAAGCTCTTATGAGCTGA
1 CAGTAAGCTCTTATGAGCTGA
13767114 TATATCGGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
23 16 0.30
24 20 0.37
25 10 0.19
26 8 0.15
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTTATGAGCTGAAAA
Found at i:13767137 original size:50 final size:48
Alignment explanation
Indices: 13767035--13767138 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 48
13767025 AGCTCCTCCT
* *
13767035 GAGCTGATAGACAATAAGCTCTATTGAGCTGAAACGGTAAGCTTTGAC
1 GAGCTGATAAACAATAAGCTCTATTGAGCTGAAACGGTAAGCTATGAC
*
13767083 GAGCTGA-AAACAGTAAGCTCT-TATGAGCTGATATATCGGTAAGCTCAT-AC
1 GAGCTGATAAACAATAAGCTCTAT-TGAGCTGA-A-A-CGGTAAGCT-ATGAC
13767133 GAGCTG
1 GAGCTG
13767139 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
46 1 0.02
47 20 0.42
48 8 0.17
49 1 0.02
50 17 0.35
51 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (48 bp):
GAGCTGATAAACAATAAGCTCTATTGAGCTGAAACGGTAAGCTATGAC
Found at i:13769006 original size:28 final size:28
Alignment explanation
Indices: 13768966--13769022 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
13768956 GATAAAGCTG
*
13768966 AGTTTTGGCTAGAGAATATGATCTGGGT
1 AGTTTTGGCTAGAGAATACGATCTGGGT
13768994 AGTTTTGGCTAGAGAATACGATCTGGGT
1 AGTTTTGGCTAGAGAATACGATCTGGGT
13769022 A
1 A
13769023 TTTGATGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (28 bp):
AGTTTTGGCTAGAGAATACGATCTGGGT
Found at i:13771596 original size:52 final size:52
Alignment explanation
Indices: 13771535--13771640 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
13771525 AACGCACGAC
13771535 TTAGTGTTAGCCGCTATTGTTTTTGCATTGAAAATTTGGCAACATTATTTGT
1 TTAGTGTTAGCCGCTATTGTTTTTGCATTGAAAATTTGGCAACATTATTTGT
13771587 TTAGTGTTAGCCGCTATTGTTTTTGCATTGAAAATTTGGCAACATTATTTGT
1 TTAGTGTTAGCCGCTATTGTTTTTGCATTGAAAATTTGGCAACATTATTTGT
13771639 TT
1 TT
13771641 GGTGAGAAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (52 bp):
TTAGTGTTAGCCGCTATTGTTTTTGCATTGAAAATTTGGCAACATTATTTGT
Done.