Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 353 of 425
Found at i:109130763 original size:35 final size:37
Alignment explanation
Indices: 109130692--109130789 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
109130682 ATAATCTTCA
109130692 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
109130730 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
109130765 ATGATATGCAATCTTAGA-AT-ATATG
1 ATGATA-GCAATCTTAGATATGATATG
109130790 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 21 0.37
36 20 0.35
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:109131096 original size:17 final size:17
Alignment explanation
Indices: 109131072--109131108 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
109131062 TGTTTCCCTG
*
109131072 GTTTTTTTATATATTTTA
1 GTTTTTTAATA-ATTTTA
109131090 GTTTTTTAATAATTTTA
1 GTTTTTTAATAATTTTA
109131107 GT
1 GT
109131109 ATCATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (17 bp):
GTTTTTTAATAATTTTA
Found at i:109142954 original size:220 final size:219
Alignment explanation
Indices: 109142571--109143159 Score: 953
Period size: 220 Copynumber: 2.7 Consensus size: 219
109142561 CGGGCTAAAG
* * * * *
109142571 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
*
109142636 TTGTCAGAAAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACG-AGAGCAGATCGAAG
* * *
109142701 ACATAGCAGATCTAACCTTTGTATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
130 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
109142766 GCATTGACAAGGAGCAAATCGAAGA
195 GCATTGACAAGGAGCAAATCGAAGA
* * * *
109142791 CATAGCATATTTGGCTTTCACGTGTTTACGCTGAATCAAATCTAAGATGGTTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
* *
109142856 TTGTCAGGGAACAAATCGAAGAAACAGATTTGGTATCTCCATATTCGACAGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAC-GAGAGCAGATCGAAG
109142921 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
130 ACATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
109142986 GCATTGACAAGGAGCAAATCGAAGA
195 GCATTGACAAGGAGCAAATCGAAGA
* * **
109143011 CATAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAGATCTAAGATGATATGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
* * *
109143076 CTGTTAGAGAACAAATCGAAGAAACAAATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAC-GAGAGCAGATCGAAG
109143141 ACATAGCAGATCTAACCTT
130 ACATAGCAGATCTAACCTT
109143160 TATTGAAGCA
Statistics
Matches: 339, Mismatches: 29, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
220 338 1.00
221 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (219 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGAGAGCAGATCGAAGA
CATAGCAGATCTAACCTTCGGATGTCTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTG
CATTGACAAGGAGCAAATCGAAGA
Found at i:109143213 original size:78 final size:77
Alignment explanation
Indices: 109143103--109143314 Score: 311
Period size: 78 Copynumber: 2.7 Consensus size: 77
109143093 GAAGAAACAA
** * *
109143103 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTTATTGAAG
1 ATTTGGCATCTCTGTATTAGACGG-GAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAAG
109143168 CAGATCCAAGATG
65 CAGATCCAAGATG
* *
109143181 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACACAGCAGAT-TGGATCTTTATTGAA
1 ATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAGCAGATCT-GACCTTTATTGAA
109143245 GCAGATCCAAGATG
64 GCAGATCCAAGATG
*
109143259 ATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACAT-GCAGATCTGACCTT
1 ATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAGCAGATCTGACCTT
109143315 CATGCGTTTA
Statistics
Matches: 121, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
77 12 0.10
78 107 0.88
79 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (77 bp):
ATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAAGC
AGATCCAAGATG
Found at i:109143395 original size:45 final size:45
Alignment explanation
Indices: 109143331--109143530 Score: 285
Period size: 45 Copynumber: 4.5 Consensus size: 45
109143321 TTTACATCGA
* *
109143331 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
109143376 AGCAAATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** * **
109143421 AGCAGATTGAAGA-AGCAGATTTGGCGCCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
109143465 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGA
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
109143510 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAACAGAT
109143531 ATCATCTTCC
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 40 0.29
45 99 0.71
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:109143466 original size:89 final size:90
Alignment explanation
Indices: 109143329--109143530 Score: 300
Period size: 89 Copynumber: 2.3 Consensus size: 90
109143319 CGTTTACATC
* *
109143329 GAAGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAGATAAC
1 GAAGCAGATCAAAGATAG-CAGATTTGGCACCTCTGTATTAGACGGGGAGCAAATCAAAGATAAC
109143393 AGATTTGGCATCTCTGTATTAGACGG
65 AGATTTGGCATCTCTGTATTAGACGG
* ** * * *
109143419 GGAGCAGATTGAAGA-AGCAGATTTGGCGCCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GAAGCAGATCAAAGATAGCAGATTTGGCACCTCTGTATTAGACGGGGAGCAAATCAAAGATAACA
*
109143483 GATTTGGCGTCTCTGTATTAGACGG
66 GATTTGGCATCTCTGTATTAGACGG
109143508 GAAGCAGATCAAAGATAGCAGAT
1 GAAGCAGATCAAAGATAGCAGAT
109143531 ATCATCTTCC
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
89 79 0.80
90 20 0.20
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (90 bp):
GAAGCAGATCAAAGATAGCAGATTTGGCACCTCTGTATTAGACGGGGAGCAAATCAAAGATAACA
GATTTGGCATCTCTGTATTAGACGG
Found at i:109143500 original size:134 final size:135
Alignment explanation
Indices: 109143258--109143530 Score: 349
Period size: 134 Copynumber: 2.0 Consensus size: 135
109143248 GATCCAAGAT
* *
109143258 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATGCAGATCTGACCTTCATGCGTT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATGCAGATCTGACCCTCAT-CGTT
* *
109143323 TACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAAAG
65 TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCAAAG
109143388 ATAACA
130 ATAACA
* * *
109143394 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-A-GCAGATTTGGCGCCTC-T-GTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATGCAGATCTGAC-CCTCATCGT-
* * * * *
109143455 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCA
64 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCA
*
109143519 AAGATAGCA
127 AAGATAACA
109143528 GAT
1 GAT
109143531 ATCATCTTCC
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
132 3 0.03
133 4 0.03
134 71 0.59
135 4 0.03
136 38 0.32
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (135 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATGCAGATCTGACCCTCATCGTTT
ACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCAAAGA
TAACA
Found at i:109143953 original size:35 final size:37
Alignment explanation
Indices: 109143882--109143979 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
109143872 ATAATCTTCA
109143882 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
109143920 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
109143955 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
109143980 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:109143979 original size:17 final size:19
Alignment explanation
Indices: 109143882--109143972 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
109143872 ATAATCTTCA
109143882 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109143901 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109143920 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109143937 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
109143955 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
109143973 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:109143998 original size:22 final size:22
Alignment explanation
Indices: 109143882--109143995 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
109143872 ATAATCTTCA
109143882 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
109143901 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
109143920 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
109143937 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
109143955 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
109143977 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
109143996 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:109144286 original size:18 final size:17
Alignment explanation
Indices: 109144263--109144297 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109144253 GTTTCCCTGA
*
109144263 TTTTTTTATATATTTTAG
1 TTTTTTAATA-ATTTTAG
109144281 TTTTTTAATAATTTTAG
1 TTTTTTAATAATTTTAG
109144298 AATCATATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTTTAATAATTTTAG
Found at i:109150344 original size:39 final size:39
Alignment explanation
Indices: 109150290--109150369 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
109150280 TTCAATTTGA
109150290 GATCTTAGGTATCGAATTCAACATCCAACCAGAATCTTG
1 GATCTTAGGTATCGAATTCAACATCCAACCAGAATCTTG
*
109150329 GATCTT-GAGTATCGAATTCAACATCCAATCAGAATCTTG
1 GATCTTAG-GTATCGAATTCAACATCCAACCAGAATCTTG
109150368 GA
1 GA
109150370 CTCAACAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (39 bp):
GATCTTAGGTATCGAATTCAACATCCAACCAGAATCTTG
Found at i:109156212 original size:17 final size:17
Alignment explanation
Indices: 109156190--109156224 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
109156180 GAAATGAGTA
109156190 AAAGAAATTTCCACTCG
1 AAAGAAATTTCCACTCG
109156207 AAAGAAATTTCCACTCG
1 AAAGAAATTTCCACTCG
109156224 A
1 A
109156225 GATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (17 bp):
AAAGAAATTTCCACTCG
Found at i:109156468 original size:16 final size:16
Alignment explanation
Indices: 109156449--109156482 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
109156439 ATATTTTTTT
109156449 TTATAAATGTTATATA
1 TTATAAATGTTATATA
*
109156465 TTATAAATTTTATATA
1 TTATAAATGTTATATA
109156481 TT
1 TT
109156483 TTTGGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:109157161 original size:26 final size:25
Alignment explanation
Indices: 109157132--109157199 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
109157122 CTAAAATTTT
*
109157132 TTTAAAAAATAAAAATATGAAAAATA
1 TTTAAAAAATAAAAATA-AAAAAATA
** *
109157158 TTTAAAATTTATAAATAAAAAAATA
1 TTTAAAAAATAAAAATAAAAAAATA
* *
109157183 TTTTATAAATATAAAAT
1 TTTAAAAAATA-AAAAT
109157200 TTCAAGATTC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (25 bp):
TTTAAAAAATAAAAATAAAAAAATA
Found at i:109157356 original size:9 final size:9
Alignment explanation
Indices: 109157342--109157397 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
109157332 TAACATTGAA
109157342 TTTTATAAT
1 TTTTATAAT
109157351 TTTTAT-AT
1 TTTTATAAT
109157359 TTTTA-AATT
1 TTTTATAA-T
*
109157368 TTTTAAAGAT
1 TTTTATA-AT
*
109157378 TTTT-TTAT
1 TTTTATAAT
109157386 TTTTATAAT
1 TTTTATAAT
109157395 TTT
1 TTT
109157398 AAAGAGCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 14 0.36
9 18 0.46
10 6 0.15
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:109157398 original size:26 final size:25
Alignment explanation
Indices: 109157380--109157442 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
109157370 TTAAAGATTT
109157380 TTTTATTTTTATAATTTTAAAGAGC
1 TTTTATTTTTATAATTTTAAAGAGC
* *
109157405 TTTTATTTTTCTATTTTTAAA-A-C
1 TTTTATTTTTATAATTTTAAAGAGC
109157428 TTTTACTTTTT-TAAT
1 TTTTA-TTTTTATAAT
109157443 ATGATTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.26
24 6 0.18
25 19 0.56
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (25 bp):
TTTTATTTTTATAATTTTAAAGAGC
Found at i:109158867 original size:12 final size:12
Alignment explanation
Indices: 109158850--109158874 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109158840 TAAAAAATAA
109158850 AAAAAATCATTT
1 AAAAAATCATTT
109158862 AAAAAATCATTT
1 AAAAAATCATTT
109158874 A
1 A
109158875 TGATAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATCATTT
Found at i:109163934 original size:9 final size:9
Alignment explanation
Indices: 109163920--109163960 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
109163910 TTTTTAATTT
109163920 GAATAACTC
1 GAATAACTC
*
109163929 GAATAATTC
1 GAATAACTC
109163938 GAATAACTC
1 GAATAACTC
*
109163947 GAATAATTC
1 GAATAACTC
109163956 GAATA
1 GAATA
109163961 TTAAACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (9 bp):
GAATAACTC
Found at i:109163941 original size:18 final size:18
Alignment explanation
Indices: 109163914--109163960 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
109163904 TTGAGTTTTT
*
109163914 TAATTTGAATAACTCGAA
1 TAATTCGAATAACTCGAA
109163932 TAATTCGAATAACTCGAA
1 TAATTCGAATAACTCGAA
109163950 TAATTCGAATA
1 TAATTCGAATA
109163961 TTAAACTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (18 bp):
TAATTCGAATAACTCGAA
Found at i:109164153 original size:19 final size:21
Alignment explanation
Indices: 109164126--109164167 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
109164116 TACTCTCTCA
*
109164126 TTTATTTTTTCT-CAAAATTT
1 TTTATTTTTCCTCCAAAATTT
*
109164146 TTTA-TTTTCCTCCATAATTT
1 TTTATTTTTCCTCCAAAATTT
109164166 TT
1 TT
109164168 ACTCCCTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTTTCCTCCAAAATTT
Found at i:109177245 original size:22 final size:22
Alignment explanation
Indices: 109177220--109177269 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
109177210 GAGCACTGAA
*
109177220 GTGCTATACAAAGAGCAAGAAT
1 GTGCTAAACAAAGAGCAAGAAT
* **
109177242 GTGCTAAACAGAGAGCATTAAT
1 GTGCTAAACAAAGAGCAAGAAT
109177264 GTGCTA
1 GTGCTA
109177270 GTAATCGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (22 bp):
GTGCTAAACAAAGAGCAAGAAT
Found at i:109178284 original size:5 final size:5
Alignment explanation
Indices: 109178258--109178309 Score: 56
Period size: 5 Copynumber: 10.8 Consensus size: 5
109178248 TTACCAATTT
* *
109178258 ATATA ATAT- ATATA ACAT- ATATA ATATA ATTTA ATATA ATAT- ATAATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
109178306 ATAT
1 ATAT
109178310 TCTTATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 9 0.23
5 28 0.72
6 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:109187812 original size:6 final size:6
Alignment explanation
Indices: 109187796--109187827 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
109187786 CGTTTCTCCT
*
109187796 CCTGCC GCTGCC CCTGCC CCTGCC CCTGCC CC
1 CCTGCC CCTGCC CCTGCC CCTGCC CCTGCC CC
109187828 ATGTTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.66, G:0.19, T:0.16
Consensus pattern (6 bp):
CCTGCC
Found at i:109194474 original size:27 final size:27
Alignment explanation
Indices: 109194436--109194495 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
109194426 TGTTGTTGTA
*
109194436 TCCTAAGAGACAGATGACCAACGTTTC
1 TCCTAAGAGACAGACGACCAACGTTTC
*
109194463 TCCTAAGAGACAGACGGCCAACGTTTC
1 TCCTAAGAGACAGACGACCAACGTTTC
109194490 T-CTAAG
1 TCCTAAG
109194496 TACCATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (27 bp):
TCCTAAGAGACAGACGACCAACGTTTC
Found at i:109198464 original size:13 final size:13
Alignment explanation
Indices: 109198446--109198470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109198436 GGTTTGTTTA
109198446 TTAAACTAATTAT
1 TTAAACTAATTAT
109198459 TTAAACTAATTA
1 TTAAACTAATTA
109198471 ACAGATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:109206138 original size:23 final size:24
Alignment explanation
Indices: 109206108--109206165 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
109206098 GCGTTTAACG
**
109206108 AACATGTTTGTTTA-ACGTTCGCA
1 AACATGTTCATTTAGACGTTCGCA
*
109206131 AACATGTTCATTTAGACGTTCGCG
1 AACATGTTCATTTAGACGTTCGCA
109206155 AACATGTTCAT
1 AACATGTTCAT
109206166 AAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (24 bp):
AACATGTTCATTTAGACGTTCGCA
Found at i:109210702 original size:32 final size:33
Alignment explanation
Indices: 109210660--109210722 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
109210650 CCACATGTCT
109210660 GTGTGGGCCCACACGCCCAGATTGACCTTGCTC
1 GTGTGGGCCCACACGCCCAGATTGACCTTGCTC
*
109210693 GTGT-GGCCCACACGCCCAGATTGGCCTTGC
1 GTGTGGGCCCACACGCCCAGATTGACCTTGC
109210723 CCATATAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.14, C:0.37, G:0.29, T:0.21
Consensus pattern (33 bp):
GTGTGGGCCCACACGCCCAGATTGACCTTGCTC
Found at i:109213515 original size:30 final size:31
Alignment explanation
Indices: 109213473--109213531 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
109213463 GTGTTTGGGG
109213473 GATGGTTTAATGGTAAATTGATTGAATTTGA
1 GATGGTTTAATGGTAAATTGATTGAATTTGA
109213504 GATGG-TTAATGGTAAATTGATTGAATTT
1 GATGGTTTAATGGTAAATTGATTGAATTT
109213532 ACACTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.42
Consensus pattern (31 bp):
GATGGTTTAATGGTAAATTGATTGAATTTGA
Found at i:109214302 original size:23 final size:23
Alignment explanation
Indices: 109214272--109214315 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
109214262 GTGATTTATC
*
109214272 GCATTTTTACTGGCAACTTTTCT
1 GCATTTTTACTGGCAAATTTTCT
109214295 GCATTTTTACTGGCAAATTTT
1 GCATTTTTACTGGCAAATTTT
109214316 TTTGCATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (23 bp):
GCATTTTTACTGGCAAATTTTCT
Found at i:109218326 original size:22 final size:24
Alignment explanation
Indices: 109218283--109218326 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
109218273 TTTACACCCC
*
109218283 TAAAGAGAATCAAATTTATTTTTT
1 TAAAGAGAATCAAATATATTTTTT
*
109218307 TAAA-AGAA-CAAATATGTTTT
1 TAAAGAGAATCAAATATATTTT
109218327 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 4 0.22
24 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
TAAAGAGAATCAAATATATTTTTT
Found at i:109229512 original size:28 final size:29
Alignment explanation
Indices: 109229476--109229531 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
109229466 ATTAAAAAGA
*
109229476 AATTAGACA-ACTTAAATGACACTAACTG
1 AATTAGACACACTTAAATGAAACTAACTG
* * *
109229504 AATTGGACACATTTAATTGAAACTAACT
1 AATTAGACACACTTAAATGAAACTAACT
109229532 AGCATATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (29 bp):
AATTAGACACACTTAAATGAAACTAACTG
Found at i:109231526 original size:29 final size:29
Alignment explanation
Indices: 109231494--109231550 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
109231484 CTTCGAGCTC
*
109231494 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
109231523 GCACACTTAGTGCCATATATTTCCAGCA
1 GCACACCCAGTGCCATATATTTCCAGCA
109231551 CACACACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:109231556 original size:29 final size:29
Alignment explanation
Indices: 109231502--109231566 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
109231492 TCGCACACCC
* **
109231502 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
109231531 AGTGCCATATATTTCCAGCACACACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
109231560 AGTGCCA
1 AGTGCCA
109231567 ATCTCGTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCACACACACTT
Found at i:109238724 original size:29 final size:29
Alignment explanation
Indices: 109238692--109238748 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
109238682 CTTCGAGCTC
*
109238692 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
109238721 GCACACTTAGTGCCATATATTTCCAGCA
1 GCACACCCAGTGCCATATATTTCCAGCA
109238749 CACACACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:109238754 original size:29 final size:29
Alignment explanation
Indices: 109238700--109238764 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
109238690 TCGCACACCC
* **
109238700 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
109238729 AGTGCCATATATTTCCAGCACACACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
109238758 AGTGCCA
1 AGTGCCA
109238765 ATCTCGTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCACACACACTT
Found at i:109242989 original size:46 final size:46
Alignment explanation
Indices: 109242922--109243090 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 46
109242912 TGTAACCCGC
*
109242922 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
109242968 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GGC-ATTTGCAT
* * * * *
109243017 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
109243060 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
109243091 TTCAGATGCC
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 84 0.81
47 2 0.02
48 3 0.03
49 5 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:109243041 original size:92 final size:93
Alignment explanation
Indices: 109242930--109243102 Score: 294
Period size: 92 Copynumber: 1.9 Consensus size: 93
109242920 GCCCATAAGT
* * *
109242930 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109242995 CGAGCTC-GATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
*
109243022 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
109243087 CGAGTTCAGATGCCTA
66 CGAGCTCAGATGCCTA
109243103 AATATCCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 67 0.89
93 8 0.11
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:109243115 original size:46 final size:45
Alignment explanation
Indices: 109242927--109243115 Score: 125
Period size: 46 Copynumber: 4.1 Consensus size: 45
109242917 CCCGCCCATA
* * * *** *
109242927 AGTGAACTCGGACTCAACTCAACGAGCTCG-GGCGTTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCTAAACATCC--C
* * *
109242973 AGTGAACTCGGACTCAACTCAACGAGCTCGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCTA--AACATCCC
* * *** *
109243020 A-CGAACTCGGACTCAACTCAACGAGTTCG--GACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATG-CCTAAACATCC--C
*
109243065 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCCTAAACATCCC
109243111 AGTGA
1 AGTGA
109243116 CATGTCACTT
Statistics
Matches: 112, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 87 0.78
47 5 0.04
48 6 0.05
49 6 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCTAAACATCCC
Found at i:109244601 original size:30 final size:30
Alignment explanation
Indices: 109244553--109244610 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
109244543 ATTTGGTTGG
* *
109244553 TTTGGTTGTGTATAAAATGGTGCATATGGT
1 TTTGGTTATGTATAAAATGATGCATATGGT
* * *
109244583 TTTGGTTATGTGTTAAATGATGGATATG
1 TTTGGTTATGTATAAAATGATGCATATG
109244611 TGATGCTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (30 bp):
TTTGGTTATGTATAAAATGATGCATATGGT
Found at i:109248756 original size:39 final size:39
Alignment explanation
Indices: 109248709--109248849 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
109248699 CATATTCATT
* * *
109248709 TTTAAGCATGTATCACATTA-TACATATAATCACATAGCA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
* * *
109248748 TTCAAGCATATATCACAATACTCATAAAATCACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
109248787 TTTAAGCATATATCCCAAGACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
109248826 TTTAAGCATATATCAAAATACTCA
1 TTTAAGCATATATCACAATACTCA
109248850 AAAACATGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 86 0.99
40 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:109251884 original size:26 final size:26
Alignment explanation
Indices: 109251855--109251955 Score: 159
Period size: 26 Copynumber: 3.9 Consensus size: 26
109251845 CCCATCATCA
109251855 AACATTTACCTTAA-CCATTATCATGG
1 AACATTTACC-TAACCCATTATCATGG
*
109251881 AACATTTACCTAGCCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
* *
109251907 AATATTTACCTAATCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGG
109251933 AACATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
109251956 ATTTGTACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 2 0.03
26 66 0.97
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGG
Found at i:109254915 original size:26 final size:26
Alignment explanation
Indices: 109254886--109254990 Score: 201
Period size: 26 Copynumber: 4.0 Consensus size: 26
109254876 TACAAGTTGG
109254886 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
*
109254912 TAATGGGTTAGGTAAATGTTTCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
109254938 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
109254964 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
109254990 T
1 T
109254991 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTCCATGA
Found at i:109271325 original size:22 final size:21
Alignment explanation
Indices: 109271295--109271360 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
109271285 TACAAATTAA
109271295 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
109271317 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
109271338 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
109271357 ATCT
1 ATCT
109271361 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:109271347 original size:19 final size:19
Alignment explanation
Indices: 109271312--109271390 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
109271302 AGATTACAAG
109271312 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
109271333 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
109271352 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
109271369 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
109271388 ATC
1 ATC
109271391 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:109271354 original size:14 final size:15
Alignment explanation
Indices: 109271334--109271390 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
109271324 AGATTGCATA
109271334 TCATATCTAAGATTG
1 TCATATCTAAGATTG
109271349 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
109271368 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
109271385 -CATATC
1 TCATATC
109271391 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:109271376 original size:36 final size:39
Alignment explanation
Indices: 109271312--109271390 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
109271302 AGATTACAAG
109271312 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
109271352 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
109271388 ATC
1 ATC
109271391 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:109273721 original size:19 final size:19
Alignment explanation
Indices: 109273697--109273746 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
109273687 TATTCTAGGC
109273697 TTAATGGGCCAAAACTGGG
1 TTAATGGGCCAAAACTGGG
109273716 TTAATGGGCCAAAACTGGG
1 TTAATGGGCCAAAACTGGG
109273735 TTAATGGGCCAA
1 TTAATGGGCCAA
109273747 CGGGCCCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (19 bp):
TTAATGGGCCAAAACTGGG
Found at i:109273876 original size:28 final size:28
Alignment explanation
Indices: 109273844--109273908 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
109273834 ATGTACTAGA
109273844 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
109273872 ATACCCCTATGTATGCAAAATTACCGTT
1 ATACCCCTATGTATGCAAAATTACCATT
109273900 ATACCCCTA
1 ATACCCCTA
109273909 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:109274072 original size:27 final size:27
Alignment explanation
Indices: 109274014--109274103 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
109274004 AGGAAGCGTC
109274014 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
109274042 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
109274069 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
109274098 CTGGTG
1 CTGGTG
109274104 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:109274122 original size:55 final size:56
Alignment explanation
Indices: 109274014--109274128 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
109274004 AGGAAGCGTC
* *
109274014 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
109274069 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
109274125 CTGG
1 CTGG
109274129 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:109281577 original size:19 final size:19
Alignment explanation
Indices: 109281547--109281602 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
109281537 TTTTGATATT
109281547 CTGGGCTTAATGGGCCAAAA
1 CTGGG-TTAATGGGCCAAAA
109281567 CTGGGTTAATGGGCCAAAA
1 CTGGGTTAATGGGCCAAAA
109281586 CTGGGTTAATGGGCCAA
1 CTGGGTTAATGGGCCAA
109281603 CGGGCCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 31 0.86
20 5 0.14
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (19 bp):
CTGGGTTAATGGGCCAAAA
Found at i:109281732 original size:28 final size:28
Alignment explanation
Indices: 109281700--109281761 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
109281690 ATGTACTAGA
109281700 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
**
109281728 ATACCCCTATGTATGCAAAATTACTGTT
1 ATACCCCTATGTATGCAAAATTACCATT
109281756 ATACCC
1 ATACCC
109281762 TTAGGGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:109281928 original size:27 final size:27
Alignment explanation
Indices: 109281870--109281959 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
109281860 AGGAAGCATC
109281870 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
109281898 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
109281925 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
109281954 CTGGTG
1 CTGGTG
109281960 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:109281978 original size:55 final size:56
Alignment explanation
Indices: 109281870--109281984 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
109281860 AGGAAGCATC
* *
109281870 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
109281925 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
109281981 CTGG
1 CTGG
109281985 AAGCCATGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:109282782 original size:34 final size:34
Alignment explanation
Indices: 109282739--109282805 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
109282729 CCTCCTCTTT
109282739 TTCTGGTTTCCTACCTGGTGCACAGCTCTCATTA
1 TTCTGGTTTCCTACCTGGTGCACAGCTCTCATTA
109282773 TTCTGGTTTCCTACCTGGTGCACAGCTCTCATT
1 TTCTGGTTTCCTACCTGGTGCACAGCTCTCATT
109282806 CACTTTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.30, G:0.18, T:0.39
Consensus pattern (34 bp):
TTCTGGTTTCCTACCTGGTGCACAGCTCTCATTA
Found at i:109283298 original size:206 final size:206
Alignment explanation
Indices: 109282944--109283555 Score: 1003
Period size: 206 Copynumber: 3.0 Consensus size: 206
109282934 GGGTGTTACA
* ** * *
109282944 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTTGAATATA
1 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
* *
109283009 GAGACGCCAAACTTCGATTTGTTCTCTGAAAATACTA-AAATGCCAAATCATCTTAGATTTGCTT
66 GAGACGCCAAACTTCGATTTGTTCTCTGACAATAC-AGAGATGCCAAATCATCTTAGATTTGCTT
109283073 CATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATG
130 CATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATG
109283138 CCAAATCACCTT
195 CCAAATCACCTT
* * * *
109283150 GGATCTGCTTCAATATAAACATATGAAGGCCAAATCTGCTATTTGTTTGCTCTCCGTCGAATATG
1 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
109283215 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
66 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
**
109283280 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGC
131 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGC
109283345 CAAATCACCTT
196 CAAATCACCTT
* * *
109283356 AGACCTGCTTCAGCATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
1 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
* * *
109283421 GAGACACCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTC
66 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
* * *
109283486 AGCGTAAAC-CGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGC
131 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGC
109283550 CAAATC
196 CAAATC
109283556 TGTTATCTTC
Statistics
Matches: 377, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
205 59 0.16
206 318 0.84
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCACCTT
Found at i:109283583 original size:44 final size:44
Alignment explanation
Indices: 109283525--109283699 Score: 140
Period size: 44 Copynumber: 4.0 Consensus size: 44
109283515 TGTCTTTGAT
* * *
109283525 TTGTTCCTTGTAAACACAAGGATGCCAAATCTGTTATCTTCAAC
1 TTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAAC
* ** *
109283569 TTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC
1 TTGTTCCCTATAAACACAAGGATGCCAAAT-CTGCTATCTTC-AAC
** * * * ** * * *
109283613 TACTTCGCTGTAAGCAC-AGGAATGTTAGATCTGCTATCTTCGAT
1 TTGTTCCCTATAAACACAAGG-ATGCCAAATCTGCTATCTTCAAC
*
109283657 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAA
1 TTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAA
109283700 AATCATCAAA
Statistics
Matches: 96, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
42 2 0.02
43 11 0.11
44 70 0.73
45 11 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
TTGTTCCCTATAAACACAAGGATGCCAAATCTGCTATCTTCAAC
Found at i:109294651 original size:14 final size:13
Alignment explanation
Indices: 109294628--109294678 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
109294618 TGAATCCTCC
109294628 TATTTTATTTTTT
1 TATTTTATTTTTT
*
109294641 T-TTTCT-TATTTT
1 TATTT-TATTTTTT
109294653 TATTTTATTTTCTT
1 TATTTTATTTT-TT
109294667 TATTTTATTTTT
1 TATTTTATTTTT
109294679 ATTTTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 10 0.31
13 9 0.28
14 13 0.41
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTATTTTTT
Found at i:109294662 original size:25 final size:25
Alignment explanation
Indices: 109294628--109294683 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
109294618 TGAATCCTCC
*
109294628 TATTTTATTTT-TTTTTTCTTATTTT
1 TATTTTATTTTCTTTATT-TTATTTT
109294653 TATTTTATTTTCTTTATTTTATTTT
1 TATTTTATTTTCTTTATTTTATTTT
109294678 TATTTT
1 TATTTT
109294684 TCTTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (25 bp):
TATTTTATTTTCTTTATTTTATTTT
Found at i:109294689 original size:11 final size:11
Alignment explanation
Indices: 109294630--109294729 Score: 84
Period size: 11 Copynumber: 9.3 Consensus size: 11
109294620 AATCCTCCTA
109294630 TTTTATTTT-T
1 TTTTATTTTAT
*
109294640 TTTT-TCTTAT
1 TTTTATTTTAT
109294650 TTTTATTTTA-
1 TTTTATTTTAT
*
109294660 TTTT-CTTTA-
1 TTTTATTTTAT
109294669 TTTTATTTTTAT
1 TTTTA-TTTTAT
*
109294681 TTTTCTTTTGAT
1 TTTTATTTT-AT
109294693 TTTTATTTTCAT
1 TTTTATTTT-AT
**
109294705 TTCAATTTTAT
1 TTTTATTTTAT
*
109294716 TATTATTTTAT
1 TTTTATTTTAT
109294727 TTT
1 TTT
109294730 GAAAGACATA
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
9 11 0.15
10 13 0.18
11 24 0.34
12 23 0.32
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:109294695 original size:6 final size:5
Alignment explanation
Indices: 109294628--109294729 Score: 75
Period size: 5 Copynumber: 19.2 Consensus size: 5
109294618 TGAATCCTCC
*
109294628 TATTT TATTT T-TTT T-TTCT TATTTT TATTT TATTT T-CTT TATTT TATTTT
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT TA-TTT
* *
109294678 TATTTT TCTTT TGATTTT TATTT TCATTT CAATTT TATTAT TATTT TATTT
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TATTT TATT-T TATTT TATTT
109294729 T
1 T
109294730 GAAAGACATA
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
4 9 0.11
5 39 0.48
6 27 0.33
7 6 0.07
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:109294696 original size:7 final size:6
Alignment explanation
Indices: 109294630--109294729 Score: 71
Period size: 6 Copynumber: 16.5 Consensus size: 6
109294620 AATCCTCCTA
* *
109294630 TTTTATT TTTTTT TTCTTAT TTTTA- TTTTAT TTTCTTT ATTTTAT TTTTAT
1 TTTTA-T TTTTAT TT-TTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT
* * * * * *
109294681 TTTTCT TTTGAT TTTTAT TTTCA- TTTCAA TTTTAT TATTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
109294727 TTT
1 TTT
109294730 GAAAGACATA
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
5 14 0.19
6 44 0.59
7 13 0.18
8 3 0.04
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:109294702 original size:17 final size:16
Alignment explanation
Indices: 109294630--109294729 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 16
109294620 AATCCTCCTA
109294630 TTTTATTTT-TTTT-T
1 TTTTATTTTCTTTTAT
* *
109294644 TCTTATTTTTATTTTA-
1 TTTTA-TTTTCTTTTAT
* *
109294660 TTTT-CTTTATTTTAT
1 TTTTATTTTCTTTTAT
109294675 TTTTATTTTTCTTTTGAT
1 TTTTA-TTTTCTTTT-AT
* *
109294693 TTTTATTTTCATTTCAA
1 TTTTATTTTC-TTTTAT
*
109294710 TTTTATTATTATTTTAT
1 TTTTATT-TTCTTTTAT
109294727 TTT
1 TTT
109294730 GAAAGACATA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
14 13 0.19
15 8 0.12
16 7 0.10
17 27 0.40
18 12 0.18
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTATTTTCTTTTAT
Found at i:109300846 original size:45 final size:45
Alignment explanation
Indices: 109300687--109300864 Score: 157
Period size: 45 Copynumber: 4.0 Consensus size: 45
109300677 ATGCTATCTC
*** * *
109300687 ATATCGATGCCATTGTCCCAGATAGGGTCTTACACG-AATCA-A-
1 ATATCGATGCCAACATCCCAGATATGGTCTTACACGAAAACACAT
* * ** * * *
109300729 ATAT-GATACCGATGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACATCCCAGATATGGTCTTACACGAAAACACAT
* * *
109300773 ATATCGATGCCAACGTCCCTGATGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACATCCCAGATATGGTCTTACACGAAAACACAT
* * * *
109300818 ATATCGATGCCAGCATTCCAGATATGGTCTTGCATGAAAACACAT
1 ATATCGATGCCAACATCCCAGATATGGTCTTACACGAAAACACAT
109300863 AT
1 AT
109300865 CAAAATTCTA
Statistics
Matches: 111, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 26 0.23
42 8 0.07
43 1 0.01
44 4 0.04
45 72 0.65
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCAACATCCCAGATATGGTCTTACACGAAAACACAT
Found at i:109303069 original size:40 final size:42
Alignment explanation
Indices: 109302982--109303078 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 42
109302972 GTAATGATCT
**
109302982 CGCACACTTAGTGCCTCATATATAGCCGAAGCTATTCCAATT
1 CGCACACTTAGTGCCTCATATATAGCCGAAGCTATTCCAAAA
* * **
109303024 TGCACACTTAGTG-CT-ATTTATAGCCGAAGCTATTTTAAAA
1 CGCACACTTAGTGCCTCATATATAGCCGAAGCTATTCCAAAA
**
109303064 CGCACAAATAGTGCC
1 CGCACACTTAGTGCC
109303079 AAACATAGTC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 30 0.67
41 3 0.07
42 12 0.27
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
CGCACACTTAGTGCCTCATATATAGCCGAAGCTATTCCAAAA
Found at i:109311712 original size:23 final size:23
Alignment explanation
Indices: 109311682--109311725 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
109311672 AAGCCTAACA
109311682 CTTAGTAAATATGTTATGCCACG
1 CTTAGTAAATATGTTATGCCACG
109311705 CTTAGTAAATATGTTATGCCA
1 CTTAGTAAATATGTTATGCCA
109311726 ATCTTCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (23 bp):
CTTAGTAAATATGTTATGCCACG
Found at i:109313073 original size:6 final size:6
Alignment explanation
Indices: 109313062--109313090 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
109313052 AAGATAAACC
109313062 AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
109313091 TTATCCCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:109314458 original size:29 final size:29
Alignment explanation
Indices: 109314413--109314490 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 29
109314403 CCTGTGTGCA
* *
109314413 AACCCC-TATAAGCGAACACTTGCATGTG
1 AACCCCTTATAAGCGAACACCTACATGTG
* * * *
109314441 AACCCCTTATAGGTGAACCCCTATATGTG
1 AACCCCTTATAAGCGAACACCTACATGTG
* *
109314470 AACCCCTATATATGCAAACAC
1 AACCCCT-TATAAGCGAACAC
109314491 ATATGCAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 6 0.16
29 23 0.61
30 9 0.24
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.23
Consensus pattern (29 bp):
AACCCCTTATAAGCGAACACCTACATGTG
Found at i:109314470 original size:14 final size:14
Alignment explanation
Indices: 109314436--109314480 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
109314426 GAACACTTGC
109314436 ATGTGAACCCCTTAT
1 ATGTGAACCCC-TAT
*
109314451 AGGTGAACCCCTAT
1 ATGTGAACCCCTAT
109314465 ATGTGAACCCCTAT
1 ATGTGAACCCCTAT
109314479 AT
1 AT
109314481 ATGCAAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (14 bp):
ATGTGAACCCCTAT
Found at i:109314617 original size:22 final size:22
Alignment explanation
Indices: 109314582--109314735 Score: 89
Period size: 22 Copynumber: 6.9 Consensus size: 22
109314572 ATCTATTGAA
* *
109314582 ATATGCAAATCCTATATGTTAT
1 ATATGCGAACCCTATATGTTAT
* *
109314604 TTATGCGAACCCTACATG-TACT
1 ATATGCGAACCCTATATGTTA-T
* *
109314626 AATATGCAAACCCTATAAGTTAT
1 -ATATGCGAACCCTATATGTTAT
* * *
109314649 TTATGCAAACCCTACATGTGGTA-
1 ATATGCGAACCCTATATGT--TAT
* * * *
109314672 ATATACGAGCCTTATATGTCAT
1 ATATGCGAACCCTATATGTTAT
*
109314694 TTATGCGAACCCTA-ATTGTTTAT
1 ATATGCGAACCCTATA-TG-TTAT
* *
109314717 ACATGCGAACTCTATATGT
1 ATATGCGAACCCTATATGT
109314736 GCAAACCCTA
Statistics
Matches: 97, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
21 4 0.04
22 44 0.45
23 44 0.45
24 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (22 bp):
ATATGCGAACCCTATATGTTAT
Found at i:109314632 original size:45 final size:45
Alignment explanation
Indices: 109314581--109314707 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 45
109314571 TATCTATTGA
*
109314581 AATATGCAAATCCTATATGTTATTTATGCGAACCCTACATGTACT
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
* * **
109314626 AATATGCAAACCCTATAAGTTATTTATGCAAACCCTACATGTGGT
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
* * * * *
109314671 AATATACGAGCCTTATATGTCATTTATGCGAACCCTA
1 AATATGCAAACCCTATATGTTATTTATGCGAACCCTA
109314708 ATTGTTTATA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (45 bp):
AATATGCAAACCCTATATGTTATTTATGCGAACCCTACATGTACT
Found at i:109315637 original size:39 final size:39
Alignment explanation
Indices: 109315592--109315678 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
109315582 ATTTATTTTG
109315592 TTTTGTTTTAAGTG-A-ATATTTTTAATTATTTATTATTAT
1 TTTTGTTTTAAGTGTATATATTTTT-ATTA-TTATTATTAT
*** *
109315631 TTTTGTTTTTTTTGTATTTATTTTTATTATTATTATTAT
1 TTTTGTTTTAAGTGTATATATTTTTATTATTATTATTAT
*
109315670 TTTTCTTTT
1 TTTTGTTTT
109315679 CTTCTTCACG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 29 0.71
40 5 0.12
41 7 0.17
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.72
Consensus pattern (39 bp):
TTTTGTTTTAAGTGTATATATTTTTATTATTATTATTAT
Found at i:109315660 original size:9 final size:9
Alignment explanation
Indices: 109315608--109315673 Score: 60
Period size: 10 Copynumber: 6.8 Consensus size: 9
109315598 TTTAAGTGAA
109315608 TATTTTTAAT
1 TATTTTT-AT
109315618 TATTTATTAT
1 TATTT-TTAT
*
109315628 TATTTTTGTT
1 TATTTTT-AT
*
109315638 TTTTTTGTATT
1 TATTTT-TA-T
109315649 TATTTTTAT
1 TATTTTTAT
*
109315658 TATTATTAT
1 TATTTTTAT
109315667 TATTTTT
1 TATTTTT
109315674 CTTTTCTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 17 0.37
10 20 0.43
11 9 0.20
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (9 bp):
TATTTTTAT
Found at i:109316834 original size:27 final size:27
Alignment explanation
Indices: 109316804--109316858 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
109316794 GAGAAGGGAG
109316804 TCTGATTCTGATCTGATATGGCAGTTC
1 TCTGATTCTGATCTGATATGGCAGTTC
109316831 TCTGATTCTGATCTGATATGGCAGTTC
1 TCTGATTCTGATCTGATATGGCAGTTC
109316858 T
1 T
109316859 ACTGTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (27 bp):
TCTGATTCTGATCTGATATGGCAGTTC
Found at i:109318880 original size:14 final size:13
Alignment explanation
Indices: 109318860--109318896 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
109318850 AATATTTGAC
109318860 TTGTTCTTAATTA
1 TTGTTCTTAATTA
109318873 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
109318887 TTGTT-TTAAT
1 TTGTTCTTAAT
109318897 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:109321537 original size:7 final size:6
Alignment explanation
Indices: 109321496--109321536 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
109321486 ATAATTTAAT
*
109321496 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
109321537 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:109321537 original size:20 final size:20
Alignment explanation
Indices: 109321499--109321538 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
109321489 ATTTAATAAA
**
109321499 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
109321519 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
109321539 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:109321579 original size:18 final size:18
Alignment explanation
Indices: 109321556--109321623 Score: 100
Period size: 18 Copynumber: 3.8 Consensus size: 18
109321546 TTTATACAAA
*
109321556 TAATTTGGTTAATTCGGT
1 TAATTTGATTAATTCGGT
**
109321574 TAATTTGGGTAATTCGGT
1 TAATTTGATTAATTCGGT
*
109321592 TAATTCGATTAATTCGGT
1 TAATTTGATTAATTCGGT
109321610 TAATTTGATTAATT
1 TAATTTGATTAATT
109321624 TTATATTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (18 bp):
TAATTTGATTAATTCGGT
Found at i:109321594 original size:27 final size:27
Alignment explanation
Indices: 109321556--109321623 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
109321546 TTTATACAAA
* *
109321556 TAATTTGGTTAATTCGGTTAATTTGGG
1 TAATTTGGTTAATTCGATTAATTCGGG
* *
109321583 TAATTCGGTTAATTCGATTAATTCGGT
1 TAATTTGGTTAATTCGATTAATTCGGG
*
109321610 TAATTTGATTAATT
1 TAATTTGGTTAATT
109321624 TTATATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (27 bp):
TAATTTGGTTAATTCGATTAATTCGGG
Found at i:109321624 original size:9 final size:9
Alignment explanation
Indices: 109321556--109321614 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
109321546 TTTATACAAA
*
109321556 TAATTTGGT
1 TAATTCGGT
109321565 TAATTCGGT
1 TAATTCGGT
* *
109321574 TAATTTGGG
1 TAATTCGGT
109321583 TAATTCGGT
1 TAATTCGGT
*
109321592 TAATTCGAT
1 TAATTCGGT
109321601 TAATTCGGT
1 TAATTCGGT
109321610 TAATT
1 TAATT
109321615 TGATTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:109323075 original size:20 final size:20
Alignment explanation
Indices: 109323050--109323094 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
109323040 CACTTAGTGC
*
109323050 ATAAATGATTAGTTGAAGCT
1 ATAAATGATTAGTCGAAGCT
*
109323070 ATAAATGATTAGTCGGAGCT
1 ATAAATGATTAGTCGAAGCT
109323090 ATAAA
1 ATAAA
109323095 GATAGTGCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (20 bp):
ATAAATGATTAGTCGAAGCT
Found at i:109326328 original size:23 final size:23
Alignment explanation
Indices: 109326275--109326328 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
109326265 TATTGCATCA
*
109326275 CATATCATATACCAAAATCAAAC
1 CATATCATATACCAAAACCAAAC
* *
109326298 GATAATCATA-ACCAAAAACCAAGC
1 CAT-ATCATATACC-AAAACCAAAC
109326322 CATATCA
1 CATATCA
109326329 CATGGCCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.19
Consensus pattern (23 bp):
CATATCATATACCAAAACCAAAC
Found at i:109328892 original size:31 final size:31
Alignment explanation
Indices: 109328854--109328917 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
109328844 CCTTTTCATA
109328854 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
109328885 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
109328916 TT
1 TT
109328918 ACTGTAAACG
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:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:109329160 original size:24 final size:24
Alignment explanation
Indices: 109329109--109329275 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
109329099 GCTTTATCAT
* *
109329109 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
109329134 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
109329158 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
109329181 ATAACTGGGGCATAAACCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
109329205 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
109329229 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
109329253 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
109329276 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.17
24 99 0.74
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:109329209 original size:71 final size:72
Alignment explanation
Indices: 109329128--109329275 Score: 244
Period size: 71 Copynumber: 2.1 Consensus size: 72
109329118 GGCCTAGCCT
109329128 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGC
1 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
109329192 ATAAACC
66 ATAAACC
* * **
109329199 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
1 CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
*
109329264 ATAAGCC
66 ATAAACC
109329271 CTTTT
1 CTTTT
109329276 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
71 49 0.69
72 22 0.31
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGC
ATAAACC
Found at i:109329351 original size:20 final size:20
Alignment explanation
Indices: 109329326--109329385 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
109329316 TATGATTACC
109329326 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
109329346 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
109329366 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
109329386 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:109329356 original size:11 final size:11
Alignment explanation
Indices: 109329326--109329380 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
109329316 TATGATTACC
109329326 TCATGTGCATA
1 TCATGTGCATA
*
109329337 TCA--TACATA
1 TCATGTGCATA
109329346 TCATGTGCATA
1 TCATGTGCATA
* *
109329357 TCA--TACATT
1 TCATGTGCATA
109329366 TCATGTGCATA
1 TCATGTGCATA
109329377 TCAT
1 TCAT
109329381 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:109329460 original size:25 final size:25
Alignment explanation
Indices: 109329428--109329475 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109329418 ATACATAAAC
* * *
109329428 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
109329453 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
109329476 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:109333158 original size:40 final size:40
Alignment explanation
Indices: 109333114--109333261 Score: 185
Period size: 40 Copynumber: 3.7 Consensus size: 40
109333104 TCGATATATT
109333114 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* *
109333154 GTATATCTGGGTTAAATCCCACAGGCTTCATGCTGGTAAA
1 GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
* *
109333194 GTATATCCAGGTTAAATCCCGTAGGCTT-AGTGCTGGT--A
1 GTATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAAA
* * *
109333232 CTATATCCGGGCCTAAAGTCCCGTAGGCTT
1 GTATATCCGGG-TTAAA-TCCCGCAGGCTT
109333262 TGTGCTAGTA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
38 10 0.10
39 5 0.05
40 81 0.84
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
GTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAAA
Found at i:109340769 original size:45 final size:45
Alignment explanation
Indices: 109340705--109340794 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
109340695 AAATGATGAA
*
109340705 GTTTCAACCCAAGAACTTCTATAGCAACAACATTCAATTACATAT
1 GTTTCAACCCAAGAACTTCTACAGCAACAACATTCAATTACATAT
* *
109340750 GTTTCAACCCAAGAACTTCTACAGCAACAAGATTCAATTGCATAT
1 GTTTCAACCCAAGAACTTCTACAGCAACAACATTCAATTACATAT
109340795 AGGAGGCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (45 bp):
GTTTCAACCCAAGAACTTCTACAGCAACAACATTCAATTACATAT
Found at i:109344457 original size:6 final size:6
Alignment explanation
Indices: 109344439--109344556 Score: 134
Period size: 6 Copynumber: 19.3 Consensus size: 6
109344429 AAGAAACATT
109344439 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
109344487 ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
109344538 A-CAGA ATCAAA ATTAGA AT
1 ATCAGA ATCAGA ATCAGA AT
109344557 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
5 4 0.04
6 84 0.87
7 7 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:109344724 original size:27 final size:26
Alignment explanation
Indices: 109344676--109344735 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
109344666 GCGAGGCTGC
*
109344676 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
109344703 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
109344729 CAAATAT
1 CAGATAT
109344736 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:109345053 original size:27 final size:27
Alignment explanation
Indices: 109345023--109345166 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
109345013 GGGGTAAAAT
* *
109345023 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
109345050 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
109345077 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
109345104 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
109345131 AGTATTTTTACCCTACAAAGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
109345158 GGTAATTTT
1 GGTAATTTT
109345167 GTAAATCGAG
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:109345082 original size:54 final size:54
Alignment explanation
Indices: 109345024--109345164 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
109345014 GGGTAAAATG
* * *
109345024 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * * * *
109345078 GTAATTCTACCTTATAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* *
109345132 GTATTTTTACCCTACAAAGGTATTTCGGTAATT
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATT
109345165 TTGTAAATCG
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:109345180 original size:27 final size:27
Alignment explanation
Indices: 109345150--109345435 Score: 158
Period size: 27 Copynumber: 10.6 Consensus size: 27
109345140 ACCCTACAAA
**
109345150 GGTATTTCGGTAATTTTGTAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*** * *
109345177 GGTAAAACGGTAATTCTATAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
*
109345204 GGTACTTT-GGTAA-TTTATCAAGTCGAG
1 GGTA-TTTCGGTAATTTTA-CAAATCGAG
** **
109345231 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
109345258 GGTATTTTAGTAATTTCACAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
109345285 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* * *
109345312 GGTATTTTGATAATTTTACAAA-CCAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
109345339 GGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* * *
109345366 GGTATTTTGGTAATTTTATAAA-CAAAG
1 GGTATTTCGGTAATTTTACAAATC-GAG
*** *
109345393 GGTATTTTAATAATTTTACAAA-CCAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
*
109345420 GGTATTTTGGTAATTT
1 GGTATTTCGGTAATTT
109345436 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
26 10 0.05
27 201 0.93
28 6 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:109345271 original size:81 final size:79
Alignment explanation
Indices: 109345186--109345435 Score: 281
Period size: 81 Copynumber: 3.1 Consensus size: 79
109345176 GGGTAAAACG
* * * * *
109345186 GTAATTCTATAAATCAGGGGTACTTTGGTAATTTATCAAGTCGAGGGTATTTCAATAATTTTACA
1 GTAATT-TACAAATCAGGGGTATTTTGGTAATTTATCAA-ACAAGGGTATTTTAATAATTTTACA
***
109345251 GGTC-GAGGGTATTTTA
64 AACCAG-GGGTATTTTA
* *
109345267 GTAATTTCACAAATCAGGGGTATTTTGGTAATTT-TACAAACTAGGGGTATTTTGATAATTTTAC
1 GTAATTT-ACAAATCAGGGGTATTTTGGTAATTTAT-CAAAC-AAGGGTATTTTAATAATTTTAC
*
109345331 AAACCAGGGGTATTTTG
63 AAACCAGGGGTATTTTA
*
109345348 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAT-AAACAAAGGGTATTTTAATAATTTTAC
1 GTAA-TTTACAAATCAGGGGTATTTTGGTAA-TTTATCAAAC-AAGGGTATTTTAATAATTTTAC
*
109345412 AAACCAGGGGTATTTTG
63 AAACCAGGGGTATTTTA
109345429 GTAATTT
1 GTAATTT
109345436 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
80 6 0.04
81 133 0.90
82 7 0.05
83 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (79 bp):
GTAATTTACAAATCAGGGGTATTTTGGTAATTTATCAAACAAGGGTATTTTAATAATTTTACAAA
CCAGGGGTATTTTA
Found at i:109345288 original size:54 final size:52
Alignment explanation
Indices: 109345230--109345435 Score: 225
Period size: 54 Copynumber: 3.8 Consensus size: 52
109345220 ATCAAGTCGA
* *** *
109345230 GGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTAATAATTTTACAAACCAG-GGGTATTTT-GTAATTTTACAAA-CAG
** *
109345284 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTAATAATTTTACAAACCAGGGGTATTTTG-TAATTTTACAAA-CAG
** * *
109345338 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAATAATTTTACAAACCAGGGGTATTTT-GTAATTTTACAAAC-AG
109345392 GGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTTAATAATTTTACAAACCAGGGGTATTTT-GTAATTT
109345436 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.01
54 130 0.97
55 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (52 bp):
GGGTATTTTAATAATTTTACAAACCAGGGGTATTTTGTAATTTTACAAACAG
Found at i:109345442 original size:27 final size:27
Alignment explanation
Indices: 109345257--109345435 Score: 268
Period size: 27 Copynumber: 6.6 Consensus size: 27
109345247 TACAGGTCGA
* * *
109345257 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
109345284 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
109345311 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
109345338 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
109345365 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
**
109345392 GGGTATTTTAATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
109345419 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
109345436 GGTAAACTAA
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:109347151 original size:15 final size:15
Alignment explanation
Indices: 109347108--109347154 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
109347098 AAGTAATAAT
109347108 CAAAACTTCTAGGCC
1 CAAAACTTCTAGGCC
* * *
109347123 C--ATCCTCAAGGCC
1 CAAAACTTCTAGGCC
109347136 CAAAACTTCTAGGCC
1 CAAAACTTCTAGGCC
109347151 CAAA
1 CAAA
109347155 TTCAGGGTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
13 10 0.42
15 14 0.58
ACGTcount: A:0.34, C:0.36, G:0.13, T:0.17
Consensus pattern (15 bp):
CAAAACTTCTAGGCC
Found at i:109368914 original size:22 final size:23
Alignment explanation
Indices: 109368884--109368937 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
109368874 CTGAGGGGAA
*
109368884 TGGCGATTT-ACCGCATTTTTAC
1 TGGCAATTTGACCGCATTTTTAC
***
109368906 TGGCAATTTGTTTGCATTTTTAC
1 TGGCAATTTGACCGCATTTTTAC
*
109368929 TGGAAATTT
1 TGGCAATTT
109368938 TTTTGCATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (23 bp):
TGGCAATTTGACCGCATTTTTAC
Found at i:109368926 original size:23 final size:23
Alignment explanation
Indices: 109368896--109368945 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
109368886 GCGATTTACC
*
109368896 GCATTTTTACTGGCAATTTGTTT
1 GCATTTTTACTGGAAATTTGTTT
*
109368919 GCATTTTTACTGGAAATTTTTTT
1 GCATTTTTACTGGAAATTTGTTT
109368942 GCAT
1 GCAT
109368946 ATTGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (23 bp):
GCATTTTTACTGGAAATTTGTTT
Found at i:109370080 original size:16 final size:16
Alignment explanation
Indices: 109370056--109370089 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
109370046 TTGACTGAAC
109370056 AATTAAAAAAAAGATA
1 AATTAAAAAAAAGATA
* *
109370072 AATTCAAAAAAGGATA
1 AATTAAAAAAAAGATA
109370088 AA
1 AA
109370090 ACAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (16 bp):
AATTAAAAAAAAGATA
Found at i:109370455 original size:13 final size:13
Alignment explanation
Indices: 109370437--109370461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109370427 CAATCCAAAA
109370437 TAAAAAAATTTGT
1 TAAAAAAATTTGT
109370450 TAAAAAAATTTG
1 TAAAAAAATTTG
109370462 CAATGCAAAT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAAAAAATTTGT
Found at i:109375185 original size:17 final size:16
Alignment explanation
Indices: 109375165--109375209 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
109375155 TATATAATGC
109375165 TATATAATATCTTATAG
1 TATATAATATCTT-TAG
*
109375182 TATATAATATATTTAG
1 TATATAATATCTTTAG
*
109375198 TTTATATATATC
1 TATATA-ATATC
109375210 AATGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (16 bp):
TATATAATATCTTTAG
Found at i:109375299 original size:17 final size:17
Alignment explanation
Indices: 109375277--109375339 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
109375267 ATAATAATAG
109375277 TTATA-TATAATATTACA
1 TTATATTAT-ATATTACA
109375294 TTATATTATATATTACA
1 TTATATTATATATTACA
*
109375311 TAATATTATATATT--A
1 TTATATTATATATTACA
109375326 -TATATTATATATTA
1 TTATATTATATATTA
109375340 TATATTATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
17 26 0.62
18 3 0.07
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATATTATATATTACA
Found at i:109375305 original size:7 final size:7
Alignment explanation
Indices: 109375295--109375348 Score: 81
Period size: 7 Copynumber: 7.3 Consensus size: 7
109375285 AATATTACAT
109375295 TATATTA
1 TATATTA
109375302 TATATTACA
1 TATATT--A
109375311 TAATATTA
1 T-ATATTA
109375319 TATATTA
1 TATATTA
109375326 TATATTA
1 TATATTA
109375333 TATATTA
1 TATATTA
109375340 TATATTA
1 TATATTA
109375347 TA
1 TA
109375349 CATATTATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 35 0.80
8 2 0.05
9 2 0.05
10 5 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
TATATTA
Found at i:109375344 original size:40 final size:41
Alignment explanation
Indices: 109375266--109375366 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 41
109375256 TAATCCATAA
109375266 TATA-ATAATAGTTATATA-TA-ATATTACATTATATTATA-
1 TATACATAATA-TTATATATTATATATTACATTATATTATAT
*
109375304 TATTACATAATATTATATATTATATATTATA-TAT-TATATAT
1 TA-TACATAATATTATATATTATATATTACATTATAT-TATAT
* * *
109375345 TATACATATTATTGTTTATTAT
1 TATACATAATATTATATATTAT
109375367 TATACTAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
38 2 0.04
39 10 0.19
40 32 0.60
41 9 0.17
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (41 bp):
TATACATAATATTATATATTATATATTACATTATATTATAT
Found at i:109377372 original size:26 final size:26
Alignment explanation
Indices: 109377343--109377450 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
109377333 TGGTACAAAT
109377343 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109377369 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109377395 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109377421 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109377447 TGAT
1 TGAT
109377451 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109379164 original size:27 final size:27
Alignment explanation
Indices: 109379069--109379173 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
109379059 AGGAAGCGTC
* * *
109379069 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGTCAC-AATATCTGTAT
*
109379096 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGTCACA-ATATCTGTAT
109379123 CTGGTGGCTCTGTCACAATATCTGTAT
1 CTGGTGGCTCTGTCACAATATCTGTAT
*
109379150 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GTCACAATATCTG
109379174 GCAGCTTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.14
27 60 0.86
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGTCACAATATCTGTAT
Found at i:109379926 original size:19 final size:19
Alignment explanation
Indices: 109379902--109379945 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
109379892 GATGGACTCA
109379902 CCACCTCTTTTCCGGTTTC
1 CCACCTCTTTTCCGGTTTC
109379921 CCACCTCTTTTCCGGTTTC
1 CCACCTCTTTTCCGGTTTC
*
109379940 CTACCT
1 CCACCT
109379946 GGTGCACAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.43, G:0.09, T:0.41
Consensus pattern (19 bp):
CCACCTCTTTTCCGGTTTC
Found at i:109381179 original size:2 final size:2
Alignment explanation
Indices: 109381172--109381206 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
109381162 TCATTTGCTT
109381172 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109381207 CTTTTACCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109385864 original size:17 final size:18
Alignment explanation
Indices: 109385831--109385864 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
109385821 GTATTAAAAT
*
109385831 TATTTTATAATAAATTAA
1 TATTTTATAAAAAATTAA
109385849 TATTTT-TAAAAAATTA
1 TATTTTATAAAAAATTA
109385865 TTTCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTATAAAAAATTAA
Found at i:109392587 original size:2 final size:2
Alignment explanation
Indices: 109392574--109392614 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
109392564 ATGCAGAGTG
*
109392574 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -T CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
109392615 ATCCTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:109393951 original size:16 final size:16
Alignment explanation
Indices: 109393915--109393960 Score: 69
Period size: 15 Copynumber: 3.0 Consensus size: 16
109393905 CCTTTTAAAA
*
109393915 TAAAAATTTTATAATT
1 TAAAATTTTTATAATT
109393931 T-AAATTTTTATAATT
1 TAAAATTTTTATAATT
109393946 TAAAATTTTTA-AATT
1 TAAAATTTTTATAATT
109393961 AGTAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAAATTTTTATAATT
Found at i:109395284 original size:11 final size:11
Alignment explanation
Indices: 109395268--109395302 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
109395258 TAAAATCAAC
109395268 TAAAGTTAGAT
1 TAAAGTTAGAT
109395279 TAAAGTTAGAT
1 TAAAGTTAGAT
109395290 T-AAGTTA-AT
1 TAAAGTTAGAT
109395299 TAAA
1 TAAA
109395303 CCATGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.13
10 8 0.35
11 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (11 bp):
TAAAGTTAGAT
Found at i:109396486 original size:30 final size:30
Alignment explanation
Indices: 109396452--109396529 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
109396442 AACATAAGTT
109396452 AGCTTGTGTGAGCAACTTTGATAAAATGAC
1 AGCTTGTGTGAGCAACTTTGATAAAATGAC
* * * *
109396482 AGCTTGTGTGAGGAACTCTGATATAATGTC
1 AGCTTGTGTGAGCAACTTTGATAAAATGAC
109396512 AGCTTGTGTGAGCAACTT
1 AGCTTGTGTGAGCAACTT
109396530 ATTCACCCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (30 bp):
AGCTTGTGTGAGCAACTTTGATAAAATGAC
Found at i:109401695 original size:27 final size:27
Alignment explanation
Indices: 109401664--109401792 Score: 156
Period size: 27 Copynumber: 4.8 Consensus size: 27
109401654 ACCCTAGATA
*
109401664 GTAAAATTACCGAAATACCCTCGATTT
1 GTAAAATTACTGAAATACCCTCGATTT
*
109401691 GTAAAATTACTGAAATA-CCTCCGGTTT
1 GTAAAATTACTGAAATACCCT-CGATTT
* *
109401718 GTAAAATTACTGAAAT-GCCTCTAATTT
1 GTAAAATTACTGAAATACCCTC-GATTT
* *
109401745 GTAAAATTACTGAAATACCCTTG-TAAT
1 GTAAAATTACTGAAATACCCTCGAT-TT
109401772 GTAAAATTACTGAAATACCCT
1 GTAAAATTACTGAAATACCCT
109401793 TGTAGGGTAA
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
26 5 0.06
27 81 0.91
28 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (27 bp):
GTAAAATTACTGAAATACCCTCGATTT
Found at i:109401746 original size:54 final size:54
Alignment explanation
Indices: 109401664--109401792 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
109401654 ACCCTAGATA
* * *
109401664 GTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCTCCGGT-TT
1 GTAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACC-CCGGTAAT
* **
109401718 GTAAAATTACTGAAAT-GCCTCTAATTTGTAAAATTACTGAAATACCCTTGTAAT
1 GTAAAATTACTGAAATACCCTC-AATTTGTAAAATTACTGAAATACCCCGGTAAT
109401772 GTAAAATTACTGAAATACCCT
1 GTAAAATTACTGAAATACCCT
109401793 TGTAGGGTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
53 7 0.11
54 55 0.85
55 3 0.05
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
GTAAAATTACTGAAATACCCTCAATTTGTAAAATTACTGAAATACCCCGGTAAT
Found at i:109414380 original size:27 final size:26
Alignment explanation
Indices: 109414300--109414425 Score: 103
Period size: 27 Copynumber: 4.8 Consensus size: 26
109414290 ACCCCAAACA
* * *
109414300 GTAAAATTACCAAAATTCCCACAGTTT
1 GTAAAATTACCGAAATACCC-TAGTTT
* * *
109414327 ATAAAACTACCGAAATACCCTCGGTTT
1 GTAAAATTACCGAAATACCCT-AGTTT
*
109414354 GTAAAATTACTGAAATACCTCTAGTTT
1 GTAAAATTACCGAAATACC-CTAGTTT
* *
109414381 GT-AAATTACCGAAAT-CCCTTGTAGT
1 GTAAAATTACCGAAATACCCTAGT-TT
**
109414406 GTAAAATTACTTAAATACCC
1 GTAAAATTACCGAAATACCC
109414426 CTGTAGGGTA
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
24 4 0.05
25 5 0.06
26 23 0.29
27 45 0.57
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
GTAAAATTACCGAAATACCCTAGTTT
Done.