Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 56 of 276
Found at i:17569936 original size:21 final size:20
Alignment explanation
Indices: 17569898--17569937 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
17569888 AGAGCAATTA
*
17569898 TAAAAAAATAATACTAACAT
1 TAAAAAAATAAAACTAACAT
*
17569918 TAAAAAAACTAAAATTAACA
1 TAAAAAAA-TAAAACTAACA
17569938 GTAGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAAAATAAAACTAACAT
Found at i:17572256 original size:19 final size:21
Alignment explanation
Indices: 17572234--17572273 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17572224 GACGCATAAC
17572234 AAGAAA-AAAAAAA-GAAGAA
1 AAGAAAGAAAAAAAGGAAGAA
17572253 AAGAAAGGAAAAAAAGGAAGA
1 AAGAAA-GAAAAAAAGGAAGA
17572274 GAAGGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAAAAAGGAAGAA
Found at i:17575332 original size:42 final size:40
Alignment explanation
Indices: 17575284--17575374 Score: 121
Period size: 39 Copynumber: 2.2 Consensus size: 40
17575274 TGAAAAGTAT
* * *
17575284 TTATATTAAAAAAATACCATCATAAATATAATAAATGTTTTA
1 TTATATTAAAAAAACA-CA-AATAAATATAATAAATATTTTA
17575326 TTATATT-AAAAAACACAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACAAATAAATATAATAAATATTTTA
*
17575365 TTGTATTAAA
1 TTATATTAAA
17575375 TATAAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 26 0.59
40 4 0.09
41 7 0.16
42 7 0.16
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (40 bp):
TTATATTAAAAAAACACAAATAAATATAATAAATATTTTA
Found at i:17582131 original size:36 final size:36
Alignment explanation
Indices: 17582089--17582344 Score: 131
Period size: 36 Copynumber: 7.1 Consensus size: 36
17582079 GAATAATTAT
17582089 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * ** * *
17582125 TTATTCAATAATAACCAGTTATTCAGTATCGATC-A
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* *
17582160 --ATT--G----A-TCGGTTATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * * *
17582187 TTATTCAGTAA-AATCAGATATTCAGTAACTATTAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * *
17582222 GTTATTCAGTAGCAGTCA-TTCATTCAGTGACAATCAG
1 -TTATTCAGTAACAGTCAGTT-ATTCAGTAACAATCAA
*
17582259 TTATTCAGTAATATTCAGTAACAGTCTATATCCAGTAACAGTCAA
1 TTATTCAGT-A-A--CAGT--CAGT-TAT-T-CAGTAACAATCAA
* * * * * *
17582304 TTATCCGGTAACAGTTAATTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
17582340 TTATT
1 TTATT
17582345 TTATACCTTT
Statistics
Matches: 162, Mismatches: 36, Indels: 44
0.67 0.15 0.18
Matches are distributed among these distances:
26 15 0.09
27 2 0.01
29 3 0.02
31 1 0.01
33 3 0.02
34 1 0.01
35 18 0.11
36 62 0.38
37 18 0.11
38 3 0.02
39 2 0.01
40 4 0.02
41 4 0.02
42 2 0.01
43 4 0.02
44 3 0.02
45 17 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
Found at i:17582277 original size:18 final size:18
Alignment explanation
Indices: 17582089--17582269 Score: 132
Period size: 18 Copynumber: 9.6 Consensus size: 18
17582079 GAATAATTAT
*
17582089 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
*
17582107 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAG
* * *
17582125 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAG
*
17582143 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A---ATCAG
* *
17582169 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAG
17582187 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAG
* * *
17582204 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AATCAG
* *
17582223 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAATCAG
*
17582240 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAG
17582259 TTATTCAGTAA
1 TTATTCAGTAA
17582270 TATTCAGTAA
Statistics
Matches: 125, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
17 17 0.14
18 75 0.60
19 16 0.13
21 2 0.02
22 1 0.01
23 2 0.02
26 12 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:17582294 original size:17 final size:17
Alignment explanation
Indices: 17582264--17582332 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 17
17582254 ATCAGTTATT
*
17582264 CAGT-AATATTCAGTAA
1 CAGTCAATATCCAGTAA
*
17582280 CAGTCTATATCCAGTAA
1 CAGTCAATATCCAGTAA
*
17582297 CAGTCAATTATCCGGTAA
1 CAGTCAA-TATCCAGTAA
* *
17582315 CAGTTAATTATTCAGTAA
1 CAGTCAA-TATCCAGTAA
17582333 TAATCAGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.09
17 16 0.36
18 24 0.55
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (17 bp):
CAGTCAATATCCAGTAA
Found at i:17582314 original size:18 final size:18
Alignment explanation
Indices: 17582274--17582332 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
17582264 CAGTAATATT
*
17582274 CAGTAACAGTCTA-TATC
1 CAGTAACAGTCAATTATC
17582291 CAGTAACAGTCAATTATC
1 CAGTAACAGTCAATTATC
* * *
17582309 CGGTAACAGTTAATTATT
1 CAGTAACAGTCAATTATC
17582327 CAGTAA
1 CAGTAA
17582333 TAATCAGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (18 bp):
CAGTAACAGTCAATTATC
Found at i:17582580 original size:45 final size:45
Alignment explanation
Indices: 17582513--17582667 Score: 188
Period size: 45 Copynumber: 3.5 Consensus size: 45
17582503 AACAAATTCG
* * * *
17582513 GAAT-AGTAATAGTAATAGTAACAGTATTCAACACACAAAGTGCC
1 GAATCAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCC
* *
17582557 GAATCAGTAGC-GATAACAGTAACAATATTCGACACACACAGTGCC
1 GAATCAGTAACAG-TAACAGTAACAATATTCGACACACAAAGTGCC
* * *
17582602 GAATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCC
1 GAATCAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCC
* *
17582647 GAATCGGTAACAGTAGCAGTA
1 GAATCAGTAACAGTAACAGTA
17582668 GCGGTAACAA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
44 5 0.05
45 91 0.94
46 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (45 bp):
GAATCAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCC
Found at i:17583132 original size:294 final size:293
Alignment explanation
Indices: 17582603--17583188 Score: 1145
Period size: 294 Copynumber: 2.0 Consensus size: 293
17582593 CACAGTGCCG
17582603 AATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGTA
1 AATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGTA
17582668 GCGGTAACAATAACTAGCACATAAGTGCCTAAAATACGGCACATAAAGTGCCCGATCGGTAAAGT
66 GCGGTAACAATAACTAGCACATAAGTGCCTAAAATACGGCACATAAAGTGCCCGATCGGTAAAGT
17582733 CGATAAATCCCGTACTCTTCCAATCCTATGGCATGCCAATTATATCCGACTAGCCCGACAAGTTA
131 CGATAAATCCCGTACTCTTCCAATCCTATGGCATGCCAATTATATCCGACTAGCCCGACAAGTTA
*
17582798 ATAGGAAATTTAATTCTTATTCCAATTTTACTTAATATTCATATTTACCCCTATTAACAAGACTT
196 ATAGGAAATTTAATTCTTATTCCAATTTTACTTAATATTCATATTTACCCCTATTAACAAGACTC
*
17582863 GGACTTTGGCGGATATACGGATTCCAACCAAAT
261 GGACTTTGACGGATATACGGATTCCAACCAAAT
17582896 NAATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGT
1 -AATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGT
17582961 AGCGGTAACAATAACTAGCACATAAGTGCCTAAAATACGGCACATAAAGTGCCCGATCGGTAAAG
65 AGCGGTAACAATAACTAGCACATAAGTGCCTAAAATACGGCACATAAAGTGCCCGATCGGTAAAG
17583026 TCGATAAATCCCGTACTCTTCCAATCCTATGGCATGCCAATTATATCCGACTAGCCCGACAAGTT
130 TCGATAAATCCCGTACTCTTCCAATCCTATGGCATGCCAATTATATCCGACTAGCCCGACAAGTT
17583091 AATAGGAAATTTAATTCTTATTCCAATTTTACTTAATATTCATATTTACCCCTATTAACAAGACT
195 AATAGGAAATTTAATTCTTATTCCAATTTTACTTAATATTCATATTTACCCCTATTAACAAGACT
17583156 CGGACTTTGACGGATATACGGATTCCAACCAAA
260 CGGACTTTGACGGATATACGGATTCCAACCAAA
17583189 CACACCAGTA
Statistics
Matches: 290, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
294 290 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (293 bp):
AATCGGTAACAGTAGCAGTAAAAATATTCGACACACAAAGTGCCGAATCGGTAACAGTAGCAGTA
GCGGTAACAATAACTAGCACATAAGTGCCTAAAATACGGCACATAAAGTGCCCGATCGGTAAAGT
CGATAAATCCCGTACTCTTCCAATCCTATGGCATGCCAATTATATCCGACTAGCCCGACAAGTTA
ATAGGAAATTTAATTCTTATTCCAATTTTACTTAATATTCATATTTACCCCTATTAACAAGACTC
GGACTTTGACGGATATACGGATTCCAACCAAAT
Found at i:17583381 original size:5 final size:5
Alignment explanation
Indices: 17583370--17583406 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
17583360 AATTAATCAT
* *
17583370 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AA
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AA
17583407 ATTGACTNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:17584355 original size:9 final size:9
Alignment explanation
Indices: 17584337--17584371 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
17584327 TATCTTTTTC
*
17584337 ATTTCTTTT
1 ATTTCATTT
17584346 ATTTCATTT
1 ATTTCATTT
17584355 ATTTC-TTT
1 ATTTCATTT
17584363 ATTTCATTT
1 ATTTCATTT
17584372 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:17584365 original size:17 final size:18
Alignment explanation
Indices: 17584337--17584383 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
17584327 TATCTTTTTC
17584337 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
17584355 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
17584372 CTTTATTTTATT
1 ATTTCTTTTATT
17584384 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:17584373 original size:13 final size:13
Alignment explanation
Indices: 17584337--17584379 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
17584327 TATCTTTTTC
* *
17584337 ATTTCTTTTATTT
1 ATTTCATTTCTTT
17584350 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
17584363 ATTTCATTTCTTT
1 ATTTCATTTCTTT
17584376 ATTT
1 ATTT
17584380 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:17585894 original size:31 final size:31
Alignment explanation
Indices: 17585859--17585922 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
17585849 TAAAAAGTTG
17585859 ATAAAGAGCTACCCACTTTTCAAGAAAAACT
1 ATAAAGAGCTACCCACTTTTCAAGAAAAACT
*
17585890 ATAAAGAGCTACTCACTTTTCAAGAAAAACT
1 ATAAAGAGCTACCCACTTTTCAAGAAAAACT
17585921 AT
1 AT
17585923 CACTGTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (31 bp):
ATAAAGAGCTACCCACTTTTCAAGAAAAACT
Found at i:17591209 original size:18 final size:18
Alignment explanation
Indices: 17591169--17591211 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17591159 GGCCTCCTTT
17591169 TCATCATCTGAAAACTCA
1 TCATCATCTGAAAACTCA
* * *
17591187 GCATCATCTGATAACTCC
1 TCATCATCTGAAAACTCA
17591205 TCATCAT
1 TCATCAT
17591212 TCTCACCGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (18 bp):
TCATCATCTGAAAACTCA
Found at i:17593127 original size:138 final size:135
Alignment explanation
Indices: 17592878--17593135 Score: 329
Period size: 138 Copynumber: 1.9 Consensus size: 135
17592868 AATCACTTCT
* * *
17592878 TCAATAGGTAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCACCATACAGCCTGA
1 TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCACCACACAGCCCGA
* * *
17592943 CTCACCTCTAACCGGCTCAGACCCACAAACAATTGGCTTGAGCCCATCAAAATCTTCTGCTTTTG
66 CTCACCTCTAACCAGCGCAGACCCACAAACAATTGGCTTGAACCCATCAAAATCTTCTGCTTTTG
17593008 ATTCC
131 ATTCC
* * * * * *
17593013 TCAATAGATAAATTCAGATTGCTTTCTGGTTTTGACGTATCTTCTTCTACCTTCACCGCACGGCC
1 TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGAC---TCTTCTTCCACCTTCACCACACAGCC
* ** *
17593078 CGGCTCACCT-TCAACCAGCGCAGACCCATGAACAATTGGTTTGAACCCATCAAAATCT
63 CGACTCACCTCT-AACCAGCGCAGACCCACAAACAATTGGCTTGAACCCATCAAAATCT
17593136 GACTCAGACC
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
135 32 0.31
137 1 0.01
138 70 0.68
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (135 bp):
TCAATAGATAAACTCAGATTCCCTTCTGGTTTTGACTCTTCTTCCACCTTCACCACACAGCCCGA
CTCACCTCTAACCAGCGCAGACCCACAAACAATTGGCTTGAACCCATCAAAATCTTCTGCTTTTG
ATTCC
Found at i:17594270 original size:22 final size:21
Alignment explanation
Indices: 17594245--17594296 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
17594235 AGTTCAAAAT
17594245 AAATAAATTATTAAAAAATTAA
1 AAATAAATTATT-AAAAATTAA
* *
17594267 AAATAAAAATATTAAAAATTAT
1 AAAT-AAATTATTAAAAATTAA
17594289 AAA-AAATT
1 AAATAAATT
17594297 GGTTCAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
22 15 0.58
23 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATTATTAAAAATTAA
Found at i:17595338 original size:14 final size:13
Alignment explanation
Indices: 17595319--17595356 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
17595309 ATTTAATGTT
17595319 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
17595333 TAATTATTAAGGA
1 TAATTATTTAGGA
17595346 TAATTATTTAG
1 TAATTATTTAG
17595357 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:17596625 original size:34 final size:34
Alignment explanation
Indices: 17596582--17596648 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
17596572 ATCAGAATCG
17596582 ACGACGAAGTAGAGTCTAGGATTAACGAAAACCT
1 ACGACGAAGTAGAGTCTAGGATTAACGAAAACCT
*
17596616 ACGACGAAGTAGAGTCTAGGGTTAACGAAAACC
1 ACGACGAAGTAGAGTCTAGGATTAACGAAAACC
17596649 CTACTCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.16
Consensus pattern (34 bp):
ACGACGAAGTAGAGTCTAGGATTAACGAAAACCT
Found at i:17599037 original size:8 final size:7
Alignment explanation
Indices: 17599009--17599056 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
17598999 GGCAACCTAA
17599009 TTTTTAT
1 TTTTTAT
17599016 TTTTTAT
1 TTTTTAT
*
17599023 TTATTAT
1 TTTTTAT
17599030 TCTTTTAT
1 T-TTTTAT
17599038 TCTTTTA-
1 T-TTTTAT
*
17599045 TTATTAT
1 TTTTTAT
17599052 TTTTT
1 TTTTT
17599057 GATATTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 4 0.11
7 19 0.54
8 12 0.34
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTAT
Found at i:17599048 original size:22 final size:21
Alignment explanation
Indices: 17599009--17599056 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
17598999 GGCAACCTAA
17599009 TTTTTATTTTTTATTTATTAT
1 TTTTTATTTTTTATTTATTAT
17599030 TCTTTTATTCTTTTA-TTATTAT
1 T-TTTTATT-TTTTATTTATTAT
17599052 TTTTT
1 TTTTT
17599057 GATATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTTATTTATTAT
Found at i:17601863 original size:22 final size:23
Alignment explanation
Indices: 17601819--17601863 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17601809 TCTTGCATTT
*
17601819 TTTATATTTTTAATTTAATTTTA
1 TTTATATTTTTAATTTAACTTTA
*
17601842 TTTAT-TTTTTAATTTAGCTTTA
1 TTTATATTTTTAATTTAACTTTA
17601864 ATATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTATATTTTTAATTTAACTTTA
Found at i:17602293 original size:16 final size:16
Alignment explanation
Indices: 17602274--17602316 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
17602264 TTATTTTTCT
17602274 TATATATTCTTTTATA
1 TATATATTCTTTTATA
* *
17602290 TATAT-TT-TATTATG
1 TATATATTCTTTTATA
17602304 TATATATTCTTTT
1 TATATATTCTTTT
17602317 TTACTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATATTCTTTTATA
Found at i:17608266 original size:184 final size:184
Alignment explanation
Indices: 17607957--17608324 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
17607947 AGCCCTTTTA
17607957 TTAGATAGAGTTAAAACTTTGGGCATTAGGGCGAAAGTGTATTTGTAATCCTCTTATATGTAATG
1 TTAGATAGAGTTAAAACTTTGGGCATTAGGGCGAAAGTGTATTTGTAATCCTCTTATATGTAATG
17608022 ATATTCTTTTTCTAAATAAAGTTTTCTAAATGAGATTGAATCAGAATCGATGTCCTTTTTGCATT
66 ATATTCTTTTTCTAAATAAAGTTTTCTAAATGAGATTGAATCAGAATCGATGTCCTTTTTGCATT
17608087 CATGCATTTGCATCTCATAGCATGTCGTCGCATCCTTCGCATTCAAAGTTATAG
131 CATGCATTTGCATCTCATAGCATGTCGTCGCATCCTTCGCATTCAAAGTTATAG
17608141 TTAGATAGAGTTAAAACTTTGGGCATTAGGGCGAAAGTGTATTTGTAATCCTCTTATATGTAATG
1 TTAGATAGAGTTAAAACTTTGGGCATTAGGGCGAAAGTGTATTTGTAATCCTCTTATATGTAATG
17608206 ATATTCTTTTTCTAAATAAAGTTTTCTAAATGAGATTGAATCAGAATCGATGTCCTTTTTGCATT
66 ATATTCTTTTTCTAAATAAAGTTTTCTAAATGAGATTGAATCAGAATCGATGTCCTTTTTGCATT
17608271 CATGCATTTGCATCTCATAGCATGTCGTCGCATCCTTCGCATTCAAAGTTATAG
131 CATGCATTTGCATCTCATAGCATGTCGTCGCATCCTTCGCATTCAAAGTTATAG
17608325 AGAGACCCTA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (184 bp):
TTAGATAGAGTTAAAACTTTGGGCATTAGGGCGAAAGTGTATTTGTAATCCTCTTATATGTAATG
ATATTCTTTTTCTAAATAAAGTTTTCTAAATGAGATTGAATCAGAATCGATGTCCTTTTTGCATT
CATGCATTTGCATCTCATAGCATGTCGTCGCATCCTTCGCATTCAAAGTTATAG
Found at i:17616774 original size:174 final size:175
Alignment explanation
Indices: 17616343--17616983 Score: 1043
Period size: 175 Copynumber: 3.7 Consensus size: 175
17616333 CAGACCAAAG
* ** *
17616343 CATAGCAGTTCTGGCCTTCACG-TGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTAT
1 CATAGCAGATCTAACCTTCA-GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTAT
*
17616407 GTTTACAAGGAACAAATCGAAGACATAGCAGATTGGACTTTCGGATGTTCTCACACCAAAGCAGA
65 GTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGA
*
17616472 TCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATA
130 TCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATA
* * * *
17616518 CATAGAAGATCTAACCTTCAGATGTTTATTCTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
* *
17616583 TTTACAAGGACCAAATCGAAGACATAGCAGATTTGACTTTTGGATGTTCTCACACCAAAGCAGAT
66 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
* * *
17616648 CCAAGATAACAGATTTGGCATCTCCATTTCGA-TGAGAGCAGATA
131 CCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATA
17616692 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
* *
17616757 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTTCTCACACCAAAGTAGAT
66 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
* *
17616822 CTAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAGTAGATA
131 CCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATA
* * *
17616867 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGTAGATTCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
* *
17616932 TTTACAAGGAGCAAATCGAAGACATAGCAGATTTGACTTTCGAATGTTCTCA
66 TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCA
17616984 GGCATCTCCA
Statistics
Matches: 434, Mismatches: 30, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
174 164 0.38
175 270 0.62
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (175 bp):
CATAGCAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
TTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGAT
CCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATA
Found at i:17616830 original size:349 final size:349
Alignment explanation
Indices: 17616343--17616983 Score: 1104
Period size: 349 Copynumber: 1.8 Consensus size: 349
17616333 CAGACCAAAG
* ** *
17616343 CATAGCAGTTCTGGCCTTCACGTGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATG
1 CATAGCAGATCTAACCTTCACGTGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
17616408 TTTACAAGGAACAAATCGAAGACATAGCAGATTGGACTTTCGGATGTTCTCACACCAAAGCAGAT
66 TTTACAAGGAACAAATCGAAGACATAGCAGATTGGACTTTCGGATGTTCTCACACCAAAGCAGAT
17616473 CCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGAAGATCTAACCTTCA
131 CCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGAAGATCTAACCTTCA
* *
17616538 GATGTTTATTCTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGACCAAATCGAA
196 GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGACCAAATCGAA
* *
17616603 GACATAGCAGATTTGACTTTTGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATTTGGCA
261 GACATAGCAGATTTGACTTTCGAATGTTCTCACACCAAAGCAGATCCAAGATAACAGATTTGGCA
17616668 TCTCCATTTCGATGAGAGCAGATA
326 TCTCCATTTCGATGAGAGCAGATA
17616692 CATAGCAGATCTAACCTTCA-GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTAT
1 CATAGCAGATCTAACCTTCACG-TGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTAT
* * *
17616756 GTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTTCTCACACCAAAGTAGA
65 GTTTACAAGGAACAAATCGAAGACATAGCAGATTGGACTTTCGGATGTTCTCACACCAAAGCAGA
* * * *
17616821 TCTAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTC
130 TCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGAAGATCTAACCTTC
* * *
17616886 AGATGTTTATACTAAAGTAGATTCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGA
195 AGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGACCAAATCGA
17616951 AGACATAGCAGATTTGACTTTCGAATGTTCTCA
260 AGACATAGCAGATTTGACTTTCGAATGTTCTCA
17616984 GGCATCTCCA
Statistics
Matches: 273, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
348 1 0.00
349 272 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (349 bp):
CATAGCAGATCTAACCTTCACGTGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTATG
TTTACAAGGAACAAATCGAAGACATAGCAGATTGGACTTTCGGATGTTCTCACACCAAAGCAGAT
CCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGTAGATACATAGAAGATCTAACCTTCA
GATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGACCAAATCGAA
GACATAGCAGATTTGACTTTCGAATGTTCTCACACCAAAGCAGATCCAAGATAACAGATTTGGCA
TCTCCATTTCGATGAGAGCAGATA
Found at i:17617103 original size:146 final size:146
Alignment explanation
Indices: 17616838--17617109 Score: 454
Period size: 146 Copynumber: 1.9 Consensus size: 146
17616828 TAACAGATCT
* *
17616838 GGCATCTCTATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGTTTATACTAAAG
1 GGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTAAAG
* * * *
17616903 TAGATTCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCAGATTTGA
66 CAGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGA
17616968 CTTTCGAATGTTCTCA
131 CTTTCGAATGTTCTCA
* * *
17616984 GGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATATTGAAG
1 GGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTAAAG
*
17617049 CAGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAATACATAGCAGAT
66 CAGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAGACATAGCAGAT
17617110 CTAACCTTCA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
146 116 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (146 bp):
GGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTATACTAAAG
CAGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGA
CTTTCGAATGTTCTCA
Found at i:17617156 original size:87 final size:87
Alignment explanation
Indices: 17617010--17617245 Score: 298
Period size: 87 Copynumber: 2.7 Consensus size: 87
17617000 TGGAGAGCAG
* *
17617010 ATACATAGCAGATCTAACCTTCAGATGTTTATATTGAAGCAGATCCAAGATGATTTGGCATTATT
1 ATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCATT
*
17617075 GTGTTTACAAGGA-ACAAATCGA
66 GTGTTCACAAGGAGA-AAATCGA
*
17617097 ATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCT
1 ATACATAGCAGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATCAT
17617161 TGTGTTCACAAGGAGAAAATCGA
65 TGTGTTCACAAGGAGAAAATCGA
* * * ** * * * * *
17617184 AAACACAGCAGATTTGGCTTTCACG-TGTTTATGCTGAAGCAAATCAAAGATGGTTTGGCATC
1 ATACATAGCAGATCTAACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
17617246 TCTGCGTTGT
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
86 3 0.02
87 123 0.94
88 5 0.04
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (87 bp):
ATACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCATT
GTGTTCACAAGGAGAAAATCGA
Found at i:17618997 original size:16 final size:16
Alignment explanation
Indices: 17618978--17619020 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
17618968 TTATTTTTCT
17618978 TATATATTCTTTTATA
1 TATATATTCTTTTATA
* *
17618994 TATAT-TT-TATTATG
1 TATATATTCTTTTATA
17619008 TATATATTCTTTT
1 TATATATTCTTTT
17619021 TTACTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATATTCTTTTATA
Found at i:17623350 original size:10 final size:10
Alignment explanation
Indices: 17623311--17623350 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17623301 TAATTTTAGG
*
17623311 ATTTATTTTC
1 ATTTATTTTT
*
17623321 ATTTATCTTT
1 ATTTATTTTT
*
17623331 AATTATTTTT
1 ATTTATTTTT
17623341 ATTTATTTTT
1 ATTTATTTTT
17623351 TAAAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:17624151 original size:39 final size:38
Alignment explanation
Indices: 17624073--17624150 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
17624063 ATTTTCAAAA
*
17624073 TTCCAATCAAAACTTTTAATTCTGTTTTTATTTTATTT
1 TTCCAATCAAAACTTTTAATTCTGTTTTTATTTAATTT
17624111 TTCCATATCAAAACTTTTAATTCTGTTTTT-TTTAATTT
1 TTCCA-ATCAAAACTTTTAATTCTGTTTTTATTTAATTT
17624149 TT
1 TT
17624151 TTAGGTACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 14 0.37
39 24 0.63
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (38 bp):
TTCCAATCAAAACTTTTAATTCTGTTTTTATTTAATTT
Found at i:17624922 original size:16 final size:16
Alignment explanation
Indices: 17624901--17624931 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17624891 TTTTAATCTT
17624901 TCTTTGAATTTTATTC
1 TCTTTGAATTTTATTC
*
17624917 TCTTTGATTTTTATT
1 TCTTTGAATTTTATT
17624932 TTATTTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (16 bp):
TCTTTGAATTTTATTC
Found at i:17624947 original size:21 final size:21
Alignment explanation
Indices: 17624908--17624947 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17624898 CTTTCTTTGA
*
17624908 ATTTTATTCTCTTTGATTTTT
1 ATTTTATTCTCTTTAATTTTT
17624929 ATTTTATT-TCTTATAATTT
1 ATTTTATTCTCTT-TAATTT
17624948 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTATTCTCTTTAATTTTT
Found at i:17628049 original size:10 final size:10
Alignment explanation
Indices: 17628010--17628049 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17628000 TAATTTTAGG
*
17628010 ATTTATTTTC
1 ATTTATTTTT
*
17628020 ATTTATCTTT
1 ATTTATTTTT
*
17628030 AATTATTTTT
1 ATTTATTTTT
17628040 ATTTATTTTT
1 ATTTATTTTT
17628050 TAAAATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:17628850 original size:39 final size:38
Alignment explanation
Indices: 17628772--17628849 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
17628762 ATTTTCAAAA
*
17628772 TTCCAATCAAAACTTTTAATTCTGTTTTTATTTTATTT
1 TTCCAATCAAAACTTTTAATTCTGTTTTTATTTAATTT
17628810 TTCCATATCAAAACTTTTAATTCTGTTTTT-TTTAATTT
1 TTCCA-ATCAAAACTTTTAATTCTGTTTTTATTTAATTT
17628848 TT
1 TT
17628850 TTAGGTACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 14 0.37
39 24 0.63
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (38 bp):
TTCCAATCAAAACTTTTAATTCTGTTTTTATTTAATTT
Found at i:17629621 original size:16 final size:16
Alignment explanation
Indices: 17629600--17629630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17629590 TTTTAATCTT
17629600 TCTTTGAATTTTATTC
1 TCTTTGAATTTTATTC
*
17629616 TCTTTGATTTTTATT
1 TCTTTGAATTTTATT
17629631 TTATTTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (16 bp):
TCTTTGAATTTTATTC
Found at i:17629646 original size:21 final size:21
Alignment explanation
Indices: 17629607--17629646 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17629597 CTTTCTTTGA
*
17629607 ATTTTATTCTCTTTGATTTTT
1 ATTTTATTCTCTTTAATTTTT
17629628 ATTTTATT-TCTTATAATTT
1 ATTTTATTCTCTT-TAATTT
17629647 GTAAAATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTATTCTCTTTAATTTTT
Found at i:17641550 original size:40 final size:40
Alignment explanation
Indices: 17641505--17641638 Score: 146
Period size: 40 Copynumber: 3.3 Consensus size: 40
17641495 AATTATGTTT
* *
17641505 GGCACTTAGTGTGTGTATCGAGATAGCTTCGACTATATAA
1 GGCACTTAGTGTGTGTATCGAGAAAGCTTCGGCTATATAA
* * * *
17641545 GGCACTTAGTGTATGAATC-AGAAAAGCTTTGGCTATATAT
1 GGCACTTAGTGTGTGTATCGAG-AAAGCTTCGGCTATATAA
* * *
17641585 GGCACTTAGTGTGCGATATTGAGAGAGCTTCGGCTATGA-AA
1 GGCACTTAGTGTGTG-TATCGAGAAAGCTTCGGCTAT-ATAA
17641626 GGCACTTAGTGTG
1 GGCACTTAGTGTG
17641639 CGAGATTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
39 2 0.03
40 44 0.57
41 28 0.36
42 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (40 bp):
GGCACTTAGTGTGTGTATCGAGAAAGCTTCGGCTATATAA
Found at i:17641630 original size:41 final size:41
Alignment explanation
Indices: 17641505--17641683 Score: 143
Period size: 40 Copynumber: 4.4 Consensus size: 41
17641495 AATTATGTTT
* * * *
17641505 GGCACTTAGTGTGTG-TATCGAGATAGCTTCGACTATATAA
1 GGCACTTAGTGTGCGATATTGAGAAAGCTTCGGCTATATAA
** * * *
17641545 GGCACTTAGTGTATGA-A-TCAGAAAAGCTTTGGCTATATAT
1 GGCACTTAGTGTGCGATATTGAG-AAAGCTTCGGCTATATAA
*
17641585 GGCACTTAGTGTGCGATATTGAGAGAGCTTCGGCTATGA-AA
1 GGCACTTAGTGTGCGATATTGAGAAAGCTTCGGCTAT-ATAA
* * * * **
17641626 GGCACTTAGTGTGCGAGATT-ATAATAGCTTCAGCTATGCTTT
1 GGCACTTAGTGTGCGATATTGAGAA-AGCTTCGGCTAT-ATAA
17641668 GGCACTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
17641684 GATATCAAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 45 0.40
41 45 0.40
42 20 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (41 bp):
GGCACTTAGTGTGCGATATTGAGAAAGCTTCGGCTATATAA
Found at i:17651572 original size:35 final size:35
Alignment explanation
Indices: 17651533--17651601 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
17651523 TCTCAAAGTC
* *
17651533 TGCTTTTTGATATTTTCTTGGGGATGAACTCTTTT
1 TGCTTTTTGATATTTGCTTAGGGATGAACTCTTTT
* *
17651568 TGCTTTTTGATATTTGCTTAGGGATTATCTCTTT
1 TGCTTTTTGATATTTGCTTAGGGATGAACTCTTT
17651602 CTCTTCATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.14, C:0.12, G:0.19, T:0.55
Consensus pattern (35 bp):
TGCTTTTTGATATTTGCTTAGGGATGAACTCTTTT
Found at i:17652939 original size:133 final size:131
Alignment explanation
Indices: 17652691--17653045 Score: 331
Period size: 133 Copynumber: 2.7 Consensus size: 131
17652681 ACGGGAGATT
* * * **
17652691 GCAACCCAGCACGATAGAGCACTATTCCCCGAATTTCCAAACATCGAACATTTCTTTAGTTTTAA
1 GCAACCCAGCACGATAGGGCACGATT-CCCGAATTCCCAAACATCGAACATACCTTTAGTTTTAA
* * * ** * * * *
17652756 AGATTTTTTAGAAAACGTGAGTGAAATTCTGAAGGGACGTTCGATCGTTTTGAACAAATGAA-AA
65 AGATTTCTTAAAAAACATGAGTGAAAACCTAAAGGAACATTCGATCGTTTTGAACAAA-CAAGAA
17652820 AGC
129 AGC
* * *
17652823 GCAACCCAGCACGATAGGGTACGATTCTCGAATTCCCAAGCATCGAACATCACCTTT-GTTTTAA
1 GCAACCCAGCACGATAGGGCACGATTCCCGAATTCCCAAACATCGAACAT-ACCTTTAGTTTTAA
* * *
17652887 AGGGTTTGCTTAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAACAAACAAGA
65 A-GATTT-CTTAAAAAACATGAGTGAAAACCTAAAGGAACATTCGATCGTTTTGAACAAACAAGA
*
17652952 AATC
128 AAGC
* * * ** * ** *
17652956 ACAACCCAGCACAATAGGGCATGATTCCCGAATTGTCAAACACCGAGTATTTCC-TTAGTTTTAA
1 GCAACCCAGCACGATAGGGCACGATTCCCGAATTCCCAAACATCGAACA-TACCTTTAGTTTTAA
* *
17653020 AGGATTT-TTAGAAGACATGAGTGAAA
65 A-GATTTCTTAAAAAACATGAGTGAAA
17653046 TTTTGAAGGG
Statistics
Matches: 181, Mismatches: 36, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
131 46 0.25
132 35 0.19
133 99 0.55
134 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCACGATTCCCGAATTCCCAAACATCGAACATACCTTTAGTTTTAAA
GATTTCTTAAAAAACATGAGTGAAAACCTAAAGGAACATTCGATCGTTTTGAACAAACAAGAAAG
C
Found at i:17653105 original size:131 final size:130
Alignment explanation
Indices: 17652642--17653284 Score: 479
Period size: 131 Copynumber: 4.9 Consensus size: 130
17652632 TAGAAAATAC
* * * * * * *
17652642 GAGTGAAATTCCAAAGAGATATTCAATTATTTTGAGCAAACGGGAGATTGCAACCCAGCACGATA
1 GAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGATA
* * * *
17652707 GAGCACT-ATTCCCCGAATTTCCAAACATCGAACATTTCTTTAGTTTTAAA-GATTTTTTAGAAA
66 GGGCA-TGATT-CCCGAA-TTCCAAACATCGAACATCTCCTTAGTTTTAAAGGA-TTTTTAAAAA
*
17652770 ACGT
127 ACAT
* * ** * * **
17652774 GAGTGAAATTCTGAAGGGACGTTCGATCGTTTTGAA-CAAATGAAAAAGCGCAACCCAGCACGAT
1 GAGTGAAATTCTAAAGGGACATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAGCACGAT
* * * * * * *
17652838 AGGGTACGATTCTCGAATTCCCAAGCATCGAACATCACCTTTGTTTTAAAGGGTTTGCTTAAAAA
65 AGGGCATGATTCCCGAATT-CCAAACATCGAACATCTCCTTAGTTTTAAAGGATTT--TTAAAAA
17652903 ACAT
127 ACAT
** * * * * ** *
17652907 GAGTGAAAACCTAAAGGAATATTCGATTGTTTTGAA-CAAACAAGAAATCACAACCCAGCACAAT
1 GAGTGAAATTCTAAAGGGACATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAGCACGAT
* * ** * * *
17652971 AGGGCATGATTCCCGAATTGTCAAACACCGAGTATTTCCTTAGTTTTAAAGGATTTTTAGAAGAC
65 AGGGCATGATTCCCGAATT-CCAAACATCGAACATCTCCTTAGTTTTAAAGGATTTTTAAAAAAC
17653036 AT
129 AT
* * * * * *
17653038 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGATA
* * * * * * * * *
17653103 GGGCATGATTCCACGAATTACTAAATATCGCATATCGCCTTCA--TTTAAGGGGTTCTTAAAAGA
66 GGGCATGATTCC-CGAATT-CCAAACATCGAACATCTCCTT-AGTTTTAAAGGATTTTTAAAAAA
17653166 CAT
128 CAT
* * * * * * *
17653169 GGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGAAGTTGCAACCCAACACGTTA
1 GAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGATA
* * * * *
17653234 GGGCACGATTCCACGAATTGCCAAATATCGAATATCGCCTTCGTTTTAAAG
66 GGGCATGATTCC-CGAATT-CCAAACATCGAACATCTCCTTAGTTTTAAAG
17653285 AACTCTTAAT
Statistics
Matches: 404, Mismatches: 96, Indels: 22
0.77 0.18 0.04
Matches are distributed among these distances:
130 4 0.01
131 215 0.53
132 80 0.20
133 105 0.26
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
GAGTGAAATTCTAAAGGGACATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGATA
GGGCATGATTCCCGAATTCCAAACATCGAACATCTCCTTAGTTTTAAAGGATTTTTAAAAAACAT
Found at i:17657318 original size:19 final size:19
Alignment explanation
Indices: 17657294--17657332 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17657284 TTACATATAG
17657294 GGAAAACTATAAGTGTAAA
1 GGAAAACTATAAGTGTAAA
17657313 GGAAAACTATAAGTGTAAA
1 GGAAAACTATAAGTGTAAA
17657332 G
1 G
17657333 TACATGGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (19 bp):
GGAAAACTATAAGTGTAAA
Found at i:17659396 original size:45 final size:43
Alignment explanation
Indices: 17659319--17659792 Score: 158
Period size: 45 Copynumber: 10.8 Consensus size: 43
17659309 TGGTGGCTTA
* * * *
17659319 AATCTGCTTCACTGCAACTTCAAGAAGCCAAGATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TC-TCGTCTTC
* * * *
17659364 AATTTGCTCCACTGCAACTTCAGGGAGACAAGACCTACCATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT--CGTCTTC
* * * * * *
17659409 AACCTACTCCACTGCAACTTTAGGGAG-CTAGGA-CTTG-CTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGAC-AAGATCTCGTCTTC
* * * *
17659450 AATCTGCTTCACTGCAACTTCAGGAAGGCAAAATTCGTCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TC-TCGTCTTC
* * * * * * * *
17659495 GATTTGCCCCATTGCAAATTTAGGGAGACAAGATCTACAATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT-C-GTCTTC
** * * * * * * *
17659540 AGCCTACTCCACTACATCTTTAGGGAG-CTAGGA-CTTG-CTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGAC-AAGATCTCGTCTTC
* * * * *
17659581 AATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCGTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGA-TC-TCGTCTTC
* * * * *
17659626 GATTTGCCCCACTGCAACTTCAGGGAGACAAGATCTACAATATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT-C-GTCTTC
** * * * * * * * *
17659671 AGCCTACTCCACTACATCTTTAGAGAG-CTAGGAT-TTG-CTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGAC-AAGATCTCGTCTTC
* * * *
17659712 AATCTGCTTCACTGCAACTTTA-GGAAACCAAGATTCGTCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGA-CAAGA-TC-TCGTCTTC
* * *
17659757 AATTTGCCCCACTGCAACTTCAGCGAGACAAGATCT
1 AATCTGCTCCACTGCAACTTCAGGGAGACAAGATCT
17659793 ACATTCTGTT
Statistics
Matches: 296, Mismatches: 107, Indels: 54
0.65 0.23 0.12
Matches are distributed among these distances:
40 2 0.01
41 72 0.24
42 4 0.01
43 6 0.02
44 22 0.07
45 187 0.63
46 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTCGTCTTC
Found at i:17659500 original size:131 final size:131
Alignment explanation
Indices: 17659248--17659795 Score: 810
Period size: 131 Copynumber: 4.2 Consensus size: 131
17659238 TCTATCGCGG
* * * * *
17659248 CTTCAAGGAGATAAGACCTACAATCTTCAGCCTACTCCACTACAAATTTAGGGAGCTAGGA-TGG
1 CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACT--
* *
17659312 TGGCTTAAATCTGCTTCACTGCAACTTCAAGAAGCCAAGATTCGTCGTCTTCAATTTGCTCCACT
64 T-GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGCCCCACT
17659377 GCAA
128 GCAA
* * * *
17659381 CTTCAGGGAGACAAGACCTACCATATTCAACCTACTCCACTGCAACTTTAGGGAGCTAGGACTTG
1 CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTG
* * * *
17659446 CTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAAATTCGTCGTCTTCGATTTGCCCCATTGCA
66 CTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGCCCCACTGCA
17659511 A
131 A
* * *
17659512 ATTTAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACATCTTTAGGGAGCTAGGACTTG
1 CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTG
* * *
17659577 CTTAAATCTACTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCGTCGATTTGCCCCACTGCA
66 CTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGCCCCACTGCA
17659642 A
131 A
* * *
17659643 CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACATCTTTAGAGAGCTAGGATTTG
1 CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTG
* * *
17659708 CTTAAATCTGCTTCACTGCAACTTTAGGAAACCAAGATTCGTCATCTTCAATTTGCCCCACTGCA
66 CTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGCCCCACTGCA
17659773 A
131 A
*
17659774 CTTCAGCGAGACAAGATCTACA
1 CTTCAGGGAGACAAGATCTACA
17659796 TTCTGTTTCA
Statistics
Matches: 378, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 322 0.85
132 1 0.00
133 54 0.14
134 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (131 bp):
CTTCAGGGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTG
CTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCAATTTGCCCCACTGCA
A
Found at i:17659918 original size:64 final size:64
Alignment explanation
Indices: 17659817--17659940 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
17659807 AGGCCTATGC
* * * *
17659817 TTATGCCAAATAATTAGGATGCTATGATCAACATGAATCAATTGTTCCTAACTAGATGTGATGT
1 TTATGCCAAATAATTAGAATGCTATAATCAACATGAATCAAATGCTCCTAACTAGATGTGATGT
* * *
17659881 TTATGTCAAATAATTAGAATGCTATAATTGAA-ATGAATCAAATGCTCCTGACTAGATGTG
1 TTATGCCAAATAATTAGAATGCTATAA-TCAACATGAATCAAATGCTCCTAACTAGATGTG
17659941 TTATGAATGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
64 49 0.94
65 3 0.06
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (64 bp):
TTATGCCAAATAATTAGAATGCTATAATCAACATGAATCAAATGCTCCTAACTAGATGTGATGT
Found at i:17661047 original size:19 final size:23
Alignment explanation
Indices: 17661025--17661070 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
17661015 TGGCCTCTCC
17661025 TTTT-CTTTTC-T-TTTC-TTCT
1 TTTTCCTTTTCTTATTTCTTTCT
17661044 TTTTCCTTTTCTTATTTCTTTCT
1 TTTTCCTTTTCTTATTTCTTTCT
17661067 TTTT
1 TTTT
17661071 TTTAAAGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
21 1 0.04
22 4 0.17
23 8 0.35
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCCTTTTCTTATTTCTTTCT
Found at i:17661051 original size:25 final size:26
Alignment explanation
Indices: 17661022--17661073 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
17661012 CCTTGGCCTC
17661022 TCCTTTTC-T-TTTCTTTTCTTCTTTT
1 TCCTTTTCTTATTTC-TTTCTTCTTTT
*
17661047 TCCTTTTCTTATTTCTTTCTTTTTTT
1 TCCTTTTCTTATTTCTTTCTTCTTTT
17661073 T
1 T
17661074 AAAGGTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 12 0.50
27 4 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (26 bp):
TCCTTTTCTTATTTCTTTCTTCTTTT
Found at i:17664763 original size:192 final size:192
Alignment explanation
Indices: 17664436--17664821 Score: 772
Period size: 192 Copynumber: 2.0 Consensus size: 192
17664426 GTAATAAATA
17664436 ATAGAACAATGAGAGTTCTCAAGATAGCTCTTCAAAGGGTAAAGATAACTTATGTTATCAATGTG
1 ATAGAACAATGAGAGTTCTCAAGATAGCTCTTCAAAGGGTAAAGATAACTTATGTTATCAATGTG
17664501 ATATGAAAGATTATTGGCCACATATATAGCATAAGTGTAAATATTTTATTTCTTTTAATATTCTT
66 ATATGAAAGATTATTGGCCACATATATAGCATAAGTGTAAATATTTTATTTCTTTTAATATTCTT
17664566 TAAGGAATGATATGAGAATGTAGTAATAAATTCTATCATTATAGATAGAAAGTATTTATCTT
131 TAAGGAATGATATGAGAATGTAGTAATAAATTCTATCATTATAGATAGAAAGTATTTATCTT
17664628 ATAGAACAATGAGAGTTCTCAAGATAGCTCTTCAAAGGGTAAAGATAACTTATGTTATCAATGTG
1 ATAGAACAATGAGAGTTCTCAAGATAGCTCTTCAAAGGGTAAAGATAACTTATGTTATCAATGTG
17664693 ATATGAAAGATTATTGGCCACATATATAGCATAAGTGTAAATATTTTATTTCTTTTAATATTCTT
66 ATATGAAAGATTATTGGCCACATATATAGCATAAGTGTAAATATTTTATTTCTTTTAATATTCTT
17664758 TAAGGAATGATATGAGAATGTAGTAATAAATTCTATCATTATAGATAGAAAGTATTTATCTT
131 TAAGGAATGATATGAGAATGTAGTAATAAATTCTATCATTATAGATAGAAAGTATTTATCTT
17664820 AT
1 AT
17664822 TTGGTACTAA
Statistics
Matches: 194, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (192 bp):
ATAGAACAATGAGAGTTCTCAAGATAGCTCTTCAAAGGGTAAAGATAACTTATGTTATCAATGTG
ATATGAAAGATTATTGGCCACATATATAGCATAAGTGTAAATATTTTATTTCTTTTAATATTCTT
TAAGGAATGATATGAGAATGTAGTAATAAATTCTATCATTATAGATAGAAAGTATTTATCTT
Found at i:17666778 original size:27 final size:27
Alignment explanation
Indices: 17666707--17666780 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
17666697 AAAAAAAAAA
*
17666707 GGTGGTGTGGGTGCCAGAGGCGGCACC
1 GGTGGTGTAGGTGCCAGAGGCGGCACC
* **** *
17666734 GGTTGTGCCTCTGGCAGAGGCGGCACC
1 GGTGGTGTAGGTGCCAGAGGCGGCACC
*
17666761 GGTGGTGTAGGTCCCAGAGG
1 GGTGGTGTAGGTGCCAGAGG
17666781 TGACACCTAA
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (27 bp):
GGTGGTGTAGGTGCCAGAGGCGGCACC
Found at i:17666994 original size:16 final size:16
Alignment explanation
Indices: 17666950--17667007 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
17666940 TATTGTGTTT
17666950 TTGTT-GTTATTATTA
1 TTGTTAGTTATTATTA
* * *
17666965 TTGTTGATTTTTATTTTTT
1 TTGTT-A--GTTATTATTA
17666984 TTGTTAGTTATTATTA
1 TTGTTAGTTATTATTA
17667000 TTGTTAGT
1 TTGTTAGT
17667008 AAAAAACTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 5 0.15
16 15 0.45
18 1 0.03
19 12 0.36
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (16 bp):
TTGTTAGTTATTATTA
Found at i:17667076 original size:39 final size:36
Alignment explanation
Indices: 17666984--17667082 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 36
17666974 TTTATTTTTT
17666984 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATTA
1 TTGTTAGTTATTATTATTGTTAGTAAAAAACTATTA
*
17667020 TTAGAATT-GTTGGTTATTATTGTTAGTAAAAAACCCTAATTA
1 TT-G--TTAGTT-ATTATTATTGTTAGTAAAAAA--CT-ATTA
17667062 TTGTTAGTTATTATTATTGTT
1 TTGTTAGTTATTATTATTGTT
17667083 GATTTATATT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
36 2 0.04
37 1 0.02
38 3 0.06
39 35 0.66
40 3 0.06
41 3 0.06
42 6 0.11
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (36 bp):
TTGTTAGTTATTATTATTGTTAGTAAAAAACTATTA
Found at i:17670548 original size:68 final size:63
Alignment explanation
Indices: 17670438--17670690 Score: 199
Period size: 68 Copynumber: 3.9 Consensus size: 63
17670428 ATACAGATAG
** ** ** * *
17670438 TATGTAGCTAGGTCACATGTATGGTGTTGGGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC--GA-A
17670502 TTA
62 -TA
* *
17670505 TTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGAATA
1 -TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC-GAATA
* * * * *
17670570 TATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGA-A
17670635 TA
62 TA
* * *
17670637 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
17670691 CGAACTATAT
Statistics
Matches: 152, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 2 0.01
66 25 0.16
67 33 0.22
68 46 0.30
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAATA
Found at i:17671776 original size:12 final size:12
Alignment explanation
Indices: 17671756--17671790 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17671746 CAGAAAGAGA
*
17671756 ATGATATGTATC
1 ATGACATGTATC
17671768 ATGACATGTATC
1 ATGACATGTATC
17671780 ATGACATGTAT
1 ATGACATGTAT
17671791 ATATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (12 bp):
ATGACATGTATC
Found at i:17672383 original size:14 final size:14
Alignment explanation
Indices: 17672366--17672396 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17672356 ATAATATAGT
17672366 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
17672380 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
17672394 ATA
1 ATA
17672397 GAAAGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:17677975 original size:39 final size:39
Alignment explanation
Indices: 17677921--17678047 Score: 218
Period size: 39 Copynumber: 3.3 Consensus size: 39
17677911 CAAGACACTA
*
17677921 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
17677960 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
17677999 GAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCATGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
17678038 GAAATGTATC
1 GAAATGTATC
17678048 GTAGGCTTCA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:17678056 original size:25 final size:25
Alignment explanation
Indices: 17678022--17678072 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
17678012 GCTAAAGTCC
17678022 CGTAGGCTTCATGTTGGAAATGTAT
1 CGTAGGCTTCATGTTGGAAATGTAT
17678047 CGTAGGCTTCATGTTGGAAATGTAT
1 CGTAGGCTTCATGTTGGAAATGTAT
17678072 C
1 C
17678073 CGGGCTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (25 bp):
CGTAGGCTTCATGTTGGAAATGTAT
Found at i:17678087 original size:64 final size:64
Alignment explanation
Indices: 17677986--17678111 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
17677976 AAAGTCCCGC
* * *
17677986 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCATGTTGGAAATGTATCGT
1 AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCGT
* *
17678050 AGGCTTCATGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATC
1 AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATC
17678112 CGAGCTAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (64 bp):
AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTGGAAATGTATCGT
Found at i:17678104 original size:39 final size:39
Alignment explanation
Indices: 17678050--17678180 Score: 217
Period size: 39 Copynumber: 3.4 Consensus size: 39
17678040 AATGTATCGT
* * *
17678050 AGGCTTCATGTTGGAAATGTATCCGGGCTAAAGTCCCGC
1 AGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCCCGC
17678089 AGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCCCGC
1 AGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCCCGC
*
17678128 AGGCTTCGTCCTGGAAATGTATCCGAGCTAAAGTCCCGC
1 AGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCCCGC
*
17678167 AGGCTTTGTGCTGG
1 AGGCTTCGTGCTGG
17678181 TAATACAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
AGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCCCGC
Found at i:17678126 original size:103 final size:103
Alignment explanation
Indices: 17677947--17678150 Score: 345
Period size: 103 Copynumber: 2.0 Consensus size: 103
17677937 AAAGTCCTGC
* *
17677947 AGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGG
1 AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGA
* **
17678012 GCTAAAGTCCCGTAGGCTTCATGTTGGAAATGTATCGT
66 GCTAAAGTCCCGCAGGCTTCATCCTGGAAATGTATCGT
*
17678050 AGGCTTCATGTTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGA
1 AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGA
*
17678115 GCTAAAGTCCCGCAGGCTTCGTCCTGGAAATGTATC
66 GCTAAAGTCCCGCAGGCTTCATCCTGGAAATGTATC
17678151 CGAGCTAAAG
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 94 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (103 bp):
AGGCTTCATGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGA
GCTAAAGTCCCGCAGGCTTCATCCTGGAAATGTATCGT
Found at i:17683794 original size:39 final size:39
Alignment explanation
Indices: 17683713--17683838 Score: 218
Period size: 39 Copynumber: 3.3 Consensus size: 39
17683703 CAAGACATTA
*
17683713 GAAATGTATCCGGGCTAAAGTCCCGCA-GCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
17683751 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
* *
17683790 GAAATGTATCAGGGCTAAAGTCCCGCAGGCTTCATGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
17683829 GAAATGTATC
1 GAAATGTATC
17683839 GCAGGCTTCA
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
38 27 0.32
39 57 0.68
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
Found at i:17683847 original size:25 final size:25
Alignment explanation
Indices: 17683813--17683862 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
17683803 GCTAAAGTCC
*
17683813 CGCAGGCTTCATGTTGGAAATGTAT
1 CGCAGGCTTCATGCTGGAAATGTAT
17683838 CGCAGGCTTCATGCTGGAAATGTAT
1 CGCAGGCTTCATGCTGGAAATGTAT
17683863 TCGGGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (25 bp):
CGCAGGCTTCATGCTGGAAATGTAT
Found at i:17687309 original size:17 final size:17
Alignment explanation
Indices: 17687287--17687325 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
17687277 CGGTAATAGT
17687287 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
17687304 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
17687321 ATGTT
1 ATGTT
17687326 GTCATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:17689547 original size:22 final size:21
Alignment explanation
Indices: 17689522--17689562 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17689512 CTGCAAAGAA
*
17689522 ACAGACAAACACAACAGCAAGG
1 ACAGACAAAAACAA-AGCAAGG
*
17689544 ACAGGCAAAAACAAAGCAA
1 ACAGACAAAAACAAAGCAA
17689563 AAAAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.59, C:0.24, G:0.17, T:0.00
Consensus pattern (21 bp):
ACAGACAAAAACAAAGCAAGG
Found at i:17689571 original size:16 final size:18
Alignment explanation
Indices: 17689550--17689586 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
17689540 AAGGACAGGC
17689550 AAAAACA-AAGCAAA-AA
1 AAAAACAGAAGCAAAGAA
*
17689566 AAAAACAGCAGCAAAGAA
1 AAAAACAGAAGCAAAGAA
17689584 AAA
1 AAA
17689587 GAATGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.76, C:0.14, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAACAGAAGCAAAGAA
Found at i:17691996 original size:132 final size:131
Alignment explanation
Indices: 17691814--17692470 Score: 583
Period size: 132 Copynumber: 5.0 Consensus size: 131
17691804 TAAGTATTCA
* * * *
17691814 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCGGAATAGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAG-TTCGATGTTTGGCAATTCG-GGAATAGTGCCCTAT
* * **
17691878 CGTGTTGGGTTGCAATTTCGCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCGTG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAAATTTCACTCGTG
*
17691943 CCT
129 TCT
* * * * *
17691946 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATTGCGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCG-GGAATAGTGCCCTATC
* * * *
17692011 GTGTTGGGTTGCAATTTCTTGTTTGCTCAAAATAATCAAATATCCCTTTGAAATTTCACTCAG-G
65 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAAATTTCACTC-GTG
17692075 TCT
129 TCT
* * * * * * * * *
17692078 TCTAAAAATCCTTTAAAACAAAGGCAATA-CTCGGTGTTTGACAATTTGGGAATCA-TACTCTAT
1 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTCGATGTTTGGCAATTCGGGAAT-AGTGCCCTAT
** ** * * * *
17692141 CGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAATAATCGAACGTTCCTTT-AAGTTTTCATTCAT
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAA-ATTTCACTCGT
*
17692205 GTTTT
128 G-TCT
** * * * * * *
17692210 TTTAAGAAAACCCTTTAAAACAAATGCGATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTAT
1 TTT-A-AAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATAGTGCCCTAT
** * * ** * * **
17692275 CGTGCTGGGTTGCGCTTTTTCATTTGTTCAAAACGATCGAAGATCCCTTTGGAATTTCACTCACG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAAATTTCACTCGTG
17692340 T-T
129 TCT
* *
17692342 TTCTAAAAACTCTTGAAAACGGAA-G-AAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCCT
1 TT-TAAAAATTCTTTAAAAC-GAAGGCAAA-GTTCGATGTTTGGCAATTC-GGGAATAGTGCCCT
** * * *
17692405 ATCGTGCTGGGTTGCAATCCCCCGTTTGTTCAAAATAATCGAATGTCTCTTTGAAATTTCACTCG
62 ATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAAATTTCACTCG
17692470 T
127 T
17692471 ATTTTCTAAG
Statistics
Matches: 422, Mismatches: 87, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
130 3 0.01
131 91 0.22
132 225 0.53
133 7 0.02
134 95 0.23
135 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAGTTCGATGTTTGGCAATTCGGGAATAGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTTGAAATTTCACTCGTGTC
T
Found at i:17694169 original size:138 final size:138
Alignment explanation
Indices: 17693689--17694793 Score: 1907
Period size: 138 Copynumber: 8.0 Consensus size: 138
17693679 AATAATTTCA
17693689 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17693754 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17693819 TTATTTTT
131 TTATTTTT
* * *
17693827 TTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTAAATAATCCTGATT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAAT-TTTTTTAAATAACCCTGATT
* * * *
17693892 TTGTCCCTTTGTTTATATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTTGTAT
65 TTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTAT
17693957 TTTA--TTT
130 TTTATTTTT
17693964 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17694029 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17694094 TTATTTTT
131 TTATTTTT
17694102 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17694167 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17694232 TTATTTTT
131 TTATTTTT
17694240 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17694305 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17694370 TTATTTTT
131 TTATTTTT
17694378 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17694443 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17694508 TTATTTTT
131 TTATTTTT
* * *
17694516 TTATCTTATTTTAGTACATAATGTTTCAAATGTAATATTTTAGTGTTTTTTTAAATAAACCTGAT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTA--ATTTTTTTAAATAACCCTGAT
* * * * *
17694581 TTTGTCAC-TTTGTTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGT
64 TTTGTC-CTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGT
17694645 ATTTTA-TTTT
128 ATTTTATTTTT
* * *
17694655 TTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAATAACCTTGATT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAAT-TTTTTTAAATAACCCTGATT
* * *
17694720 TTGTCAC-TTTGTTTGTATTTCTAAAAT-TCTCAGATTTTATTTTTTAAAATATATTATTTTTGT
65 TTGTC-CTTTTGTTTCTATTTCTAAAATAT-TCAGATTTTATTTTTTAGAATATAATATTTTTGT
*
17694783 AATTTATTTTT
128 ATTTTATTTTT
17694794 ATATTATTTT
Statistics
Matches: 928, Mismatches: 30, Indels: 17
0.95 0.03 0.02
Matches are distributed among these distances:
136 84 0.09
137 48 0.05
138 581 0.63
139 132 0.14
140 82 0.09
141 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (138 bp):
TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
TTATTTTT
Found at i:17694802 original size:11 final size:11
Alignment explanation
Indices: 17694769--17694820 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
17694759 TTTTTTAAAA
17694769 TATATTATTTT
1 TATATTATTTT
*
17694780 TGTAATTTATTTT
1 TAT-A-TTATTTT
17694793 TATATTATTTT
1 TATATTATTTT
*
17694804 TATACTATTTT
1 TATATTATTTT
*
17694815 TGTATT
1 TATATT
17694821 TTATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 23 0.68
12 2 0.06
13 9 0.26
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (11 bp):
TATATTATTTT
Found at i:17694832 original size:414 final size:411
Alignment explanation
Indices: 17693689--17694805 Score: 1911
Period size: 413 Copynumber: 2.7 Consensus size: 411
17693679 AATAATTTCA
17693689 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17693754 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
17693819 TTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTAAATAA
131 TTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-TTTTTTAAATAA
*
17693884 TCCTGATTTTGTCCCTTTGTTTATATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTAT
195 -CCTGATTTTGT-CCTTTGTTTATATTTCTAAAATATTCAGATTTTATTTTTTAAAATATAATAT
*
17693949 TTTTGTATTTTATTTTTATCTTA-TTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTT
258 TTTTGTATTTTATTTTTATATTATTTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTT
17694013 TAAATAACCCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAAT
323 TAAATAACCCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAAT
17694078 ATAATATTTTTGTATTTTATTTTT
388 ATAATATTTTTGTATTTTATTTTT
17694102 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
17694167 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
66 TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
* *
17694232 TTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAAC
131 TTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTTTTTTTAAATAA-
* *
17694297 CCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATT
195 CCTGATTTTGTCC-TTTGTTTATATTTCTAAAATATTCAGATTTTATTTTTTAAAATATAATATT
*
17694362 TTTGTATTTTATTTTTTTATCT-TATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTT
259 TTTGTATTTTATTTTTATAT-TAT-TTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTT
17694426 TTAAATAACCCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAA
322 TTAAATAACCCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAA
17694491 TATAATATTTTTGTATTTTATTTTT
387 TATAATATTTTTGTATTTTATTTTT
* * *
17694516 TTATCTTATTTTAGTACATAATGTTTCAAATGTAATATTTTAGTGTTTTTTTAAATAAACCTGAT
1 TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTA--ATTTTTTTAAATAACCCTGAT
* * * * *
17694581 TTTGTCAC-TTTGTTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGT
64 TTTGTC-CTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGT
17694645 ATTTTA-TTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAAA
128 ATTTTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-TTTTTTAAA
*
17694709 TAACCTTGATTTTGTCACTTTGTTTGTATTTCTAAAAT-TCTCAGATTTTATTTTTTAAAATATA
192 TAACC-TGATTTTGTC-CTTTGTTTATATTTCTAAAATAT-TCAGATTTTATTTTTTAAAATATA
* *
17694773 TTATTTTTGTAATTTATTTTTATATTATTTTTA
254 ATATTTTTGTATTTTATTTTTATATTATTTTTA
17694806 TACTATTTTT
Statistics
Matches: 669, Mismatches: 23, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
411 2 0.00
412 89 0.13
413 181 0.27
414 171 0.26
415 55 0.08
416 169 0.25
417 2 0.00
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.58
Consensus pattern (411 bp):
TTATCTTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAAATAACCCTGATTT
TGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATAATATTTTTGTATT
TTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTTTTTTTAAATAAC
CTGATTTTGTCCTTTGTTTATATTTCTAAAATATTCAGATTTTATTTTTTAAAATATAATATTTT
TGTATTTTATTTTTATATTATTTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTAA
ATAACCCTGATTTTGTCCTTTTGTTTCTATTTCTAAAATATTCAGATTTTATTTTTTAGAATATA
ATATTTTTGTATTTTATTTTT
Found at i:17694869 original size:15 final size:16
Alignment explanation
Indices: 17694822--17694892 Score: 108
Period size: 17 Copynumber: 4.4 Consensus size: 16
17694812 TTTTGTATTT
17694822 TATTTTATTTTTTTCA
1 TATTTTATTTTTTTCA
*
17694838 TAGTTTATTTCTTTTCA
1 TATTTTATTT-TTTTCA
17694855 TATTTTA-TTTTTTCA
1 TATTTTATTTTTTTCA
17694870 TATTTTATTTTTTTTCA
1 TATTTTA-TTTTTTTCA
17694887 TATTTT
1 TATTTT
17694893 CTTCACATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
15 13 0.26
16 11 0.22
17 26 0.52
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:17694871 original size:32 final size:33
Alignment explanation
Indices: 17694822--17694892 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 33
17694812 TTTTGTATTT
17694822 TATTTTATTTTTTTCATAGTTTATTTCTTTTCA
1 TATTTTATTTTTTTCATAGTTTATTTCTTTTCA
* *
17694855 TATTTTA-TTTTTTCATATTTTATTTTTTTTCA
1 TATTTTATTTTTTTCATAGTTTATTTCTTTTCA
17694887 TATTTT
1 TATTTT
17694893 CTTCACATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.81
33 7 0.19
ACGTcount: A:0.18, C:0.07, G:0.01, T:0.73
Consensus pattern (33 bp):
TATTTTATTTTTTTCATAGTTTATTTCTTTTCA
Found at i:17695371 original size:8 final size:8
Alignment explanation
Indices: 17695358--17695407 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
17695348 TGCTCTTTCT
17695358 TCTTCTTC
1 TCTTCTTC
*
17695366 TCTTCTTT
1 TCTTCTTC
17695374 TCTTCTTC
1 TCTTCTTC
*
17695382 TTTTCTT-
1 TCTTCTTC
17695389 TCTT-TTC
1 TCTTCTTC
*
17695396 TCTCCTT-
1 TCTTCTTC
17695403 TCTTC
1 TCTTC
17695408 CCCAAATGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
6 2 0.06
7 10 0.29
8 22 0.65
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
TCTTCTTC
Found at i:17695371 original size:11 final size:10
Alignment explanation
Indices: 17695355--17695403 Score: 64
Period size: 11 Copynumber: 4.8 Consensus size: 10
17695345 GCTTGCTCTT
17695355 TCTTCTTCTTC
1 TCTTCTT-TTC
17695366 TCTTCTTTTC
1 TCTTCTTTTC
17695376 TTCTTCTTTTC
1 -TCTTCTTTTC
17695387 T-TTCTTTTC
1 TCTTCTTTTC
*
17695396 TCTCCTTT
1 TCTTCTTT
17695404 CTTCCCCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
9 9 0.26
10 9 0.26
11 17 0.49
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TCTTCTTTTC
Found at i:17695377 original size:19 final size:20
Alignment explanation
Indices: 17695353--17695396 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
17695343 CTGCTTGCTC
17695353 TTTCTTCTTCTTCTC-TTCT
1 TTTCTTCTTCTTCTCTTTCT
*
17695372 TTTCTTCTTCTTTTCTTTCT
1 TTTCTTCTTCTTCTCTTTCT
17695392 TTTCT
1 TTTCT
17695397 CTCCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTCTTCTTCTTCTCTTTCT
Found at i:17695646 original size:18 final size:21
Alignment explanation
Indices: 17695601--17695651 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
17695591 TTCAGCATCC
17695601 TTCTACTGTTTCTTTTTTTCT
1 TTCTACTGTTTCTTTTTTTCT
17695622 TTCTACTGTTTC-TTTTTT-T
1 TTCTACTGTTTCTTTTTTTCT
17695641 TT-TACTGTTTC
1 TTCTACTGTTTC
17695652 ATGTCAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
20 6 0.20
21 12 0.40
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (21 bp):
TTCTACTGTTTCTTTTTTTCT
Found at i:17703993 original size:25 final size:25
Alignment explanation
Indices: 17703965--17704015 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
17703955 AGTGCAAAGA
17703965 TATATGAAGATTCCTGCTAAAAGCT
1 TATATGAAGATTCCTGCTAAAAGCT
*
17703990 TATATGAAGATTCCTGCTATAAGCT
1 TATATGAAGATTCCTGCTAAAAGCT
17704015 T
1 T
17704016 TTCTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (25 bp):
TATATGAAGATTCCTGCTAAAAGCT
Found at i:17705534 original size:66 final size:66
Alignment explanation
Indices: 17705428--17705563 Score: 152
Period size: 66 Copynumber: 2.1 Consensus size: 66
17705418 GTCAGACAGG
**
17705428 TGATGGTTCACCTTTTCCAGTGCAGTACACAACACCTCCTTGCCC-TTGCTGATGGCTGCGGAAC
1 TGATGGTTCACCTTTTCCAGTGCAGTACACAACACCTCCTTGCCCTTTG-TGATCACTGCGGAAC
17705492 CA
65 CA
* * * * * *
17705494 TGATGGTTCACCTTTTGCAGTGCA-T-CAACTGATACTTCCTTTCCCTTTGTGATCACTGTGGAA
1 TGATGGTTCACCTTTTCCAGTGCAGTAC-AC-AACACCTCCTTGCCCTTTGTGATCACTGCGGAA
17705557 CCA
64 CCA
17705560 TGAT
1 TGAT
17705564 CGCAAGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
64 1 0.02
65 3 0.05
66 52 0.88
67 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (66 bp):
TGATGGTTCACCTTTTCCAGTGCAGTACACAACACCTCCTTGCCCTTTGTGATCACTGCGGAACC
A
Found at i:17707029 original size:64 final size:64
Alignment explanation
Indices: 17706959--17707222 Score: 388
Period size: 64 Copynumber: 4.2 Consensus size: 64
17706949 GATTTTGATG
*
17706959 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
* * *
17707023 TGTTTGTATCTGTCATTGTATGAATACCATTATCAAACTGATCTTTATTGTGCATATCTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
* * *
17707087 TGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
** * * * * *
17707151 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGTCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
17707213 TGTTTGTATC
1 TGTTTGTATC
17707223 CAGGCTCCTA
Statistics
Matches: 183, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 44 0.24
63 2 0.01
64 137 0.75
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
Found at i:17707030 original size:16 final size:16
Alignment explanation
Indices: 17707005--17707041 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17706995 ACTGATCTTT
17707005 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
17707021 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
17707037 ATTGT
1 ATTGT
17707042 ATGAATACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:17707073 original size:32 final size:32
Alignment explanation
Indices: 17706973--17707073 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
17706963 TGTATCTGCC
17706973 ATTGTATGAATGCCATTATCAAACTGATCTTT
1 ATTGTATGAATGCCATTATCAAACTGATCTTT
* * * * *
17707005 ATTGTGTGTATCTGCCATTGT----TTGTATCTGTC
1 ATTGTATG-A-ATGCCATTATCAAACTG-ATCT-TT
*
17707037 ATTGTATGAATACCATTATCAAACTGATCTTT
1 ATTGTATGAATGCCATTATCAAACTGATCTTT
17707069 ATTGT
1 ATTGT
17707074 GCATATCTGC
Statistics
Matches: 50, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
30 9 0.18
31 5 0.10
32 21 0.42
33 5 0.10
34 10 0.20
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (32 bp):
ATTGTATGAATGCCATTATCAAACTGATCTTT
Found at i:17707528 original size:15 final size:15
Alignment explanation
Indices: 17707508--17707537 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17707498 GAAGAAAACG
17707508 TGTCTGGTAGTGATA
1 TGTCTGGTAGTGATA
17707523 TGTCTGGTAGTGATA
1 TGTCTGGTAGTGATA
17707538 GTGATGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (15 bp):
TGTCTGGTAGTGATA
Found at i:17709183 original size:21 final size:21
Alignment explanation
Indices: 17709138--17709183 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17709128 CCGAACCCAG
* * *
17709138 CAAGAGGCTACCCTAAGTCAG
1 CAAGAGGCTACCCCAACTCAA
*
17709159 CAAGAGGGTACCCCAACTCAA
1 CAAGAGGCTACCCCAACTCAA
17709180 CAAG
1 CAAG
17709184 GTGCCCCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.22, T:0.11
Consensus pattern (21 bp):
CAAGAGGCTACCCCAACTCAA
Found at i:17709703 original size:56 final size:56
Alignment explanation
Indices: 17709612--17709723 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
17709602 TTATCATGCT
* *
17709612 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
17709668 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
17709724 GCAATTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 49 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:17710304 original size:15 final size:14
Alignment explanation
Indices: 17710284--17710328 Score: 58
Period size: 12 Copynumber: 3.3 Consensus size: 14
17710274 CCATTTTTCC
17710284 TCTTCTCCTTCTTCT
1 TCTTCT-CTTCTTCT
17710299 TCTTCTCTTC--CT
1 TCTTCTCTTCTTCT
*
17710311 GCTTCTCTTCTTCT
1 TCTTCTCTTCTTCT
17710325 TCTT
1 TCTT
17710329 TTTTTTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (14 bp):
TCTTCTCTTCTTCT
Found at i:17710315 original size:18 final size:18
Alignment explanation
Indices: 17710284--17710326 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
17710274 CCATTTTTCC
*
17710284 TCTTC-TCCTTCTTCTTCT
1 TCTTCTTCCTGCTTC-TCT
17710302 TC-TCTTCCTGCTTCTCT
1 TCTTCTTCCTGCTTCTCT
17710319 TCTTCTTC
1 TCTTCTTC
17710327 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.58
Consensus pattern (18 bp):
TCTTCTTCCTGCTTCTCT
Found at i:17713844 original size:13 final size:14
Alignment explanation
Indices: 17713819--17713847 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17713809 AGTTGAAATT
17713819 ACAAAACAAGGGGA
1 ACAAAACAAGGGGA
17713833 ACAAAA-AAGGGGA
1 ACAAAACAAGGGGA
17713846 AC
1 AC
17713848 TTACAGAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.14, G:0.28, T:0.00
Consensus pattern (14 bp):
ACAAAACAAGGGGA
Found at i:17714982 original size:9 final size:10
Alignment explanation
Indices: 17714964--17714988 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17714954 CTATTTGAGA
17714964 AAATTTTTTT
1 AAATTTTTTT
17714974 AAATTTTTTT
1 AAATTTTTTT
17714984 AAATT
1 AAATT
17714989 AGCTAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:17715666 original size:2 final size:2
Alignment explanation
Indices: 17715659--17715767 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
17715649 AATTGCCATC
17715659 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17715701 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17715743 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
17715768 ACGCACGCGC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17719120 original size:114 final size:114
Alignment explanation
Indices: 17718952--17719233 Score: 354
Period size: 114 Copynumber: 2.5 Consensus size: 114
17718942 TTGCAATGCA
** * *
17718952 TCAACAACAACTAGCTGCGCTAGCTCAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAATCTG
1 TCAACAACAACTAGCTATGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTG
* * * * *
17719017 CTTCTGGAAATGCTCAACAGTCTCCATCCAATGGCA-C-CATG-ATACCCAC
66 CTCCTGGAAACGCTCAACAGCCTCCAT-CAA--CCACCACAAGCATACCCAC
* *
17719066 TCAACAACAACTAGCTATGTTAGCACAGCAACAGTCCCTTCTTATGGCTGCTGCAGCTAAAGCTG
1 TCAACAACAACTAGCTATGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTG
* *
17719131 CTCCTGGAAACGGTCAACAGCCTCCATCAACCACCACAAGCTTACCCAC
66 CTCCTGGAAACGCTCAACAGCCTCCATCAACCACCACAAGCATACCCAC
* * * * *
17719180 TCAACAACAACTAGCTTTGCTAGCGCATCAACAGTCCCTCCTCATGGCGGCTGC
1 TCAACAACAACTAGCTATGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGC
17719234 TGCTGGAAAT
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
111 2 0.01
112 1 0.01
113 6 0.04
114 136 0.94
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.22
Consensus pattern (114 bp):
TCAACAACAACTAGCTATGCTAGCACAGCAACAGTCCCTTCTCATGGCTGCTGCAGCTAAAGCTG
CTCCTGGAAACGCTCAACAGCCTCCATCAACCACCACAAGCATACCCAC
Found at i:17721861 original size:124 final size:124
Alignment explanation
Indices: 17721641--17721889 Score: 498
Period size: 124 Copynumber: 2.0 Consensus size: 124
17721631 TAACTCGATG
17721641 ACCTGTAAGTTTTGTTTGGAGCAGAAGAACAGGAATTAGATTGCGAACGTCTGAGTGGAAGAAAC
1 ACCTGTAAGTTTTGTTTGGAGCAGAAGAACAGGAATTAGATTGCGAACGTCTGAGTGGAAGAAAC
17721706 TCAGGTACAACCGTACAAGGTTGAATAAGACATTGCTAATCTGGTTAGCCGTTCTGCAT
66 TCAGGTACAACCGTACAAGGTTGAATAAGACATTGCTAATCTGGTTAGCCGTTCTGCAT
17721765 ACCTGTAAGTTTTGTTTGGAGCAGAAGAACAGGAATTAGATTGCGAACGTCTGAGTGGAAGAAAC
1 ACCTGTAAGTTTTGTTTGGAGCAGAAGAACAGGAATTAGATTGCGAACGTCTGAGTGGAAGAAAC
17721830 TCAGGTACAACCGTACAAGGTTGAATAAGACATTGCTAATCTGGTTAGCCGTTCTGCAT
66 TCAGGTACAACCGTACAAGGTTGAATAAGACATTGCTAATCTGGTTAGCCGTTCTGCAT
17721889 A
1 A
17721890 GTATTAGAAG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (124 bp):
ACCTGTAAGTTTTGTTTGGAGCAGAAGAACAGGAATTAGATTGCGAACGTCTGAGTGGAAGAAAC
TCAGGTACAACCGTACAAGGTTGAATAAGACATTGCTAATCTGGTTAGCCGTTCTGCAT
Found at i:17726975 original size:16 final size:17
Alignment explanation
Indices: 17726949--17726983 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17726939 CAGAATTGAG
*
17726949 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
17726966 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
17726982 TT
1 TT
17726984 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:17727922 original size:14 final size:14
Alignment explanation
Indices: 17727903--17727932 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17727893 TATTCATAGG
17727903 TATCTAACATAAAT
1 TATCTAACATAAAT
17727917 TATCTAACATAAAT
1 TATCTAACATAAAT
17727931 TA
1 TA
17727933 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17727992 original size:91 final size:91
Alignment explanation
Indices: 17727837--17728741 Score: 1801
Period size: 91 Copynumber: 9.9 Consensus size: 91
17727827 TCCAAAACAC
*
17727837 AATTAAATACATTTAAAACAGGTCAAAACTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17727902 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17727928 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17727993 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728019 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728084 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728110 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728175 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728201 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728266 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728292 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728357 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728383 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728448 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728474 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728539 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728565 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728630 GTATCTAACATAAATTATCTAACATA
66 GTATCTAACATAAATTATCTAACATA
17728656 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
1 AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
17728721 GTATCTAACATAAATTATCTA
66 GTATCTAACATAAATTATCTA
17728742 TACAATTCAT
Statistics
Matches: 813, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 813 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (91 bp):
AATTAAATACATTTAAAACAGGTCAAAATTATCAATATAATGATCTAACTCATATATATTCATAG
GTATCTAACATAAATTATCTAACATA
Found at i:17728013 original size:14 final size:14
Alignment explanation
Indices: 17727994--17728023 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17727984 TATTCATAGG
17727994 TATCTAACATAAAT
1 TATCTAACATAAAT
17728008 TATCTAACATAAAT
1 TATCTAACATAAAT
17728022 TA
1 TA
17728024 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728104 original size:14 final size:14
Alignment explanation
Indices: 17728085--17728114 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728075 TATTCATAGG
17728085 TATCTAACATAAAT
1 TATCTAACATAAAT
17728099 TATCTAACATAAAT
1 TATCTAACATAAAT
17728113 TA
1 TA
17728115 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728195 original size:14 final size:14
Alignment explanation
Indices: 17728176--17728205 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728166 TATTCATAGG
17728176 TATCTAACATAAAT
1 TATCTAACATAAAT
17728190 TATCTAACATAAAT
1 TATCTAACATAAAT
17728204 TA
1 TA
17728206 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728286 original size:14 final size:14
Alignment explanation
Indices: 17728267--17728296 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728257 TATTCATAGG
17728267 TATCTAACATAAAT
1 TATCTAACATAAAT
17728281 TATCTAACATAAAT
1 TATCTAACATAAAT
17728295 TA
1 TA
17728297 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728377 original size:14 final size:14
Alignment explanation
Indices: 17728358--17728387 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728348 TATTCATAGG
17728358 TATCTAACATAAAT
1 TATCTAACATAAAT
17728372 TATCTAACATAAAT
1 TATCTAACATAAAT
17728386 TA
1 TA
17728388 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728468 original size:14 final size:14
Alignment explanation
Indices: 17728449--17728478 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728439 TATTCATAGG
17728449 TATCTAACATAAAT
1 TATCTAACATAAAT
17728463 TATCTAACATAAAT
1 TATCTAACATAAAT
17728477 TA
1 TA
17728479 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728559 original size:14 final size:14
Alignment explanation
Indices: 17728540--17728569 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728530 TATTCATAGG
17728540 TATCTAACATAAAT
1 TATCTAACATAAAT
17728554 TATCTAACATAAAT
1 TATCTAACATAAAT
17728568 TA
1 TA
17728570 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17728650 original size:14 final size:14
Alignment explanation
Indices: 17728631--17728660 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17728621 TATTCATAGG
17728631 TATCTAACATAAAT
1 TATCTAACATAAAT
17728645 TATCTAACATAAAT
1 TATCTAACATAAAT
17728659 TA
1 TA
17728661 AATACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TATCTAACATAAAT
Found at i:17730371 original size:8 final size:8
Alignment explanation
Indices: 17730366--17730404 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
17730356 TGTATTATTA
17730366 TATTATAT
1 TATTATAT
17730374 TATTATAT
1 TATTATAT
17730382 TATTATAT
1 TATTATAT
*
17730390 TAATATAT
1 TATTATAT
17730398 TATTATA
1 TATTATA
17730405 CTATATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:17730374 original size:13 final size:13
Alignment explanation
Indices: 17730358--17730410 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
17730348 TTACTTTATG
17730358 TATTATTATATTA
1 TATTATTATATTA
17730371 TATTATTATATTA
1 TATTATTATATTA
17730384 T-TATATTA-A-TA
1 TAT-TATTATATTA
*
17730395 TATTATTATACTA
1 TATTATTATATTA
17730408 TAT
1 TAT
17730411 ACTTAAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.22
12 4 0.11
13 24 0.67
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:17730416 original size:24 final size:24
Alignment explanation
Indices: 17730369--17730416 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17730359 ATTATTATAT
*
17730369 TATATTATTATATTATTATATTAA
1 TATATTATTATACTATTATATTAA
17730393 TATATTATTATACTA-TATACTTAA
1 TATATTATTATACTATTATA-TTAA
17730417 GTATTAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATTATTATACTATTATATTAA
Found at i:17732567 original size:161 final size:161
Alignment explanation
Indices: 17732302--17732619 Score: 602
Period size: 161 Copynumber: 2.0 Consensus size: 161
17732292 TATTCGGATG
* *
17732302 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAATTCCGAAGGTAC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATATCCGGCTAAATTCCGAAGGTAC
17732367 TTGGTTTGGGAATGAGCGATCTTGCTGTAATAATTTCAATTAATACGCTCGTAAAATCCCAGCGA
66 TTGGTTTGGGAATGAGCGATCTTGCTGTAATAATTTCAATTAATACGCTCGTAAAATCCCAGCGA
17732432 TGAGGTACGTTTCGTATATGCATTGGATACT
131 TGAGGTACGTTTCGTATATGCATTGGATACT
17732463 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT-AGCTATATCCGGCTAAATTCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGA-CTATATCCGGCTAAATTCCGAAGGTA
17732527 CTTGGTTTGGGAATGAGCGATCTTGCTGTAATAATTTCAATTAATACGCTCGTAAAATCCCAGCG
65 CTTGGTTTGGGAATGAGCGATCTTGCTGTAATAATTTCAATTAATACGCTCGTAAAATCCCAGCG
17732592 ATGAGGTACGTTTCGTATATGCATTGGA
130 ATGAGGTACGTTTCGTATATGCATTGGA
17732620 GTAGTTTATT
Statistics
Matches: 154, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
160 1 0.01
161 153 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (161 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGACTATATCCGGCTAAATTCCGAAGGTAC
TTGGTTTGGGAATGAGCGATCTTGCTGTAATAATTTCAATTAATACGCTCGTAAAATCCCAGCGA
TGAGGTACGTTTCGTATATGCATTGGATACT
Found at i:17741459 original size:27 final size:26
Alignment explanation
Indices: 17741403--17741459 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
17741393 CAACCTTAAC
* * *
17741403 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
17741429 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
17741456 CCTA
1 CCTA
17741460 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:17744996 original size:27 final size:27
Alignment explanation
Indices: 17744965--17745121 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
17744955 TTAGTTTACC
*
17744965 AAATTACCCAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
17744992 AAATTACCGAAATACCATCGA-TTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
17745018 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
17745045 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
17745072 AAATTACTAAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
17745099 AAATTACCAAAGTACCC-CGATTT
1 AAATTACCAAAATACCCTCGATTT
17745122 ACAGAATTAC
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 27 0.23
27 89 0.77
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:17745098 original size:54 final size:54
Alignment explanation
Indices: 17744965--17745121 Score: 237
Period size: 53 Copynumber: 2.9 Consensus size: 54
17744955 TTAGTTTACC
** * *
17744965 AAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCATCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
17745018 AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * *
17745072 AAATTACTAAAATACCCTTGACTTGTAAAATTACCAAAGTACCC-CGATTT
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTT
17745122 ACAGAATTAC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 50 0.52
54 46 0.48
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:17745141 original size:80 final size:80
Alignment explanation
Indices: 17744959--17745168 Score: 233
Period size: 80 Copynumber: 2.6 Consensus size: 80
17744949 AATACTTTAG
* * * *
17744959 TTTACCAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCATCGATTGTAAAATTA
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTGTAAAATTA
*
17745024 CTAAAATACCCTCGA
66 CCAAAATACCCTCGA
** * *
17745039 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGACTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGA-TTGTAAAATT
*
17745104 ACCAAAGTACCC-CGA
65 ACCAAAATACCCTCGA
* **** * ** *
17745119 TTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCC
17745169 CTGTAGGGTA
Statistics
Matches: 107, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
80 87 0.81
81 20 0.19
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (80 bp):
TTTACAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTGTAAAATTA
CCAAAATACCCTCGA
Found at i:17745183 original size:27 final size:27
Alignment explanation
Indices: 17745160--17745456 Score: 391
Period size: 27 Copynumber: 11.0 Consensus size: 27
17745150 CAAAATTATT
*
17745160 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
17745187 GAAATACCCTTGTAGGGTTGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17745214 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17745241 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
17745268 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
17745295 GAAATACCCTTGTAGGGTAGAAATAGC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17745322 GAAATACCCCTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17745349 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
17745376 GAAATACCCTTGTAGGGTAGTAA-TACC
1 GAAATACCCCTGTAGGGTAG-AATTACC
*
17745403 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
17745430 GAGATACCCTTGT-GGAGTAAAATTACC
1 GAAATACCCCTGTAGG-GTAGAATTACC
17745457 ATTTTGCCTC
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.02
27 235 0.98
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:17745247 original size:81 final size:81
Alignment explanation
Indices: 17745153--17745442 Score: 431
Period size: 81 Copynumber: 3.6 Consensus size: 81
17745143 TGATTTACAA
* * *
17745153 AATTATTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTTGAAATATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
*
17745218 TACCCCTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* *
17745234 AATTACTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
17745299 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * * *
17745315 AAATAGC-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATCGAA
1 AATTA-CTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAA
17745379 ATACCCTTGTAGGGTAG
65 ATACCCTTGTAGGGTAG
* * *
17745396 TAA-TACCGAAATACCCCTATAGGGTAGAATTACCGAGATACCCTTGT
1 -AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGT
17745443 GGAGTAAAAT
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 186 0.98
82 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
TACCCTTGTAGGGTAG
Found at i:17745871 original size:6 final size:6
Alignment explanation
Indices: 17745840--17745945 Score: 110
Period size: 6 Copynumber: 17.3 Consensus size: 6
17745830 TTGCATTCAC
* *
17745840 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
17745889 ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTTTG ATTCT-
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
17745937 AGTTCTG AT
1 A-TTCTG AT
17745946 AATGTTTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
5 4 0.05
6 71 0.85
7 7 0.08
8 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17745891 original size:37 final size:37
Alignment explanation
Indices: 17745840--17745928 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
17745830 TTGCATTCAC
* *
17745840 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTG
*
17745877 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTG
17745914 ATTCTGATTCTGATT
1 ATTCTGATTCTGATT
17745929 TTGATTCTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTGATTCTG
Found at i:17747903 original size:15 final size:16
Alignment explanation
Indices: 17747874--17747904 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17747864 CAAACATGTT
17747874 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17747890 TTAACACA-TATCAAA
1 TTAACACATTATCAAA
17747905 AAGACACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17748926 original size:31 final size:32
Alignment explanation
Indices: 17748847--17748933 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 32
17748837 GAGTACATCA
17748847 CCAATCCAACCAAACACACCAGATGCTCACACGAG
1 CCAATCCAACC-AACACACCA-ATGCTCACAC-AG
** *
17748882 CCAATCCCTCCAACACACCAATGCTCATA-AG
1 CCAATCCAACCAACACACCAATGCTCACACAG
*
17748913 CTAATCCAACCAACACACCAA
1 CCAATCCAACCAACACACCAA
17748934 ACAGAGTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 20 0.43
33 8 0.17
34 9 0.20
35 9 0.20
ACGTcount: A:0.40, C:0.41, G:0.07, T:0.11
Consensus pattern (32 bp):
CCAATCCAACCAACACACCAATGCTCACACAG
Found at i:17751194 original size:18 final size:20
Alignment explanation
Indices: 17751171--17751208 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
17751161 CAACGATATC
17751171 AAAAACAT-AAA-AATTACT
1 AAAAACATGAAAGAATTACT
17751189 AAAAACATGAAAGAATTACT
1 AAAAACATGAAAGAATTACT
17751209 TATCATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAACATGAAAGAATTACT
Found at i:17751762 original size:18 final size:18
Alignment explanation
Indices: 17751739--17751776 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17751729 AATATATATT
17751739 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
17751757 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
17751775 AA
1 AA
17751777 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:17751769 original size:13 final size:13
Alignment explanation
Indices: 17751753--17751777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17751743 CAAGTACCCA
17751753 ACCCAACCCAATT
1 ACCCAACCCAATT
17751766 ACCCAACCCAAT
1 ACCCAACCCAAT
17751778 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:17753061 original size:47 final size:47
Alignment explanation
Indices: 17752992--17753082 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
17752982 AGAACATAGA
* *
17752992 AAACTCAAGACTACCTTCGATGTTGTGACACAAACTGAGGGTGTTGC
1 AAACTCAAAACTACCTTCGATGTTGTGAAACAAACTGAGGGTGTTGC
17753039 AAACTCAAAACTACCTTCGATGTTGTGAAACAAACTGAGGGTGT
1 AAACTCAAAACTACCTTCGATGTTGTGAAACAAACTGAGGGTGT
17753083 CGCGACATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (47 bp):
AAACTCAAAACTACCTTCGATGTTGTGAAACAAACTGAGGGTGTTGC
Found at i:17756760 original size:32 final size:32
Alignment explanation
Indices: 17756724--17756787 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
17756714 TTAAGAGAAT
17756724 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
1 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
17756756 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
1 AGTGTAAAAAAGTATTTATTTCTAACATTCCC
17756788 GGATCAAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (32 bp):
AGTGTAAAAAAGTATTTATTTCTAACATTCCC
Done.