Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 83 of 144
Found at i:18749690 original size:19 final size:19
Alignment explanation
Indices: 18749666--18749702 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18749656 AAAATATCAT
*
18749666 ATTAATTTTATTTAATTTA
1 ATTAATTTAATTTAATTTA
*
18749685 ATTAATTTAATTTTATTT
1 ATTAATTTAATTTAATTT
18749703 GATCAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTAATTTAATTTAATTTA
Found at i:18749747 original size:161 final size:161
Alignment explanation
Indices: 18749570--18749894 Score: 553
Period size: 161 Copynumber: 2.0 Consensus size: 161
18749560 TATTAAACTA
* * * *
18749570 TTAAAATATTATTATTTTTGAAATAGATAATCTGACAAGTCCAATTACCTATTGGGTCAATTGTC
1 TTAAAATAATATTATTTTTGAAACAAATAATCTGACAAGTCCAATTACCCATTGGGTCAATTGTC
18749635 TGACTTGAAAATTAATTTTTAAAAATATCATATTAATTTTATTTAATTTAA-TTAATTTAATTTT
66 TGACTTGAAAATTAATTTTTAAAAATATCATATTAATTTTATTTAA-TTAATTTAATTTAATTTT
18749699 ATTTGATCAAAATTAATTTTCCAAAAAATCAC
130 ATTTGATCAAAATTAATTTTCCAAAAAATCAC
* *
18749731 TTAAAATAATATTATTTTTGAAACAAATAGTCTGACAAGTCCAATTACCCATTTGGTCAATTGTC
1 TTAAAATAATATTATTTTTGAAACAAATAATCTGACAAGTCCAATTACCCATTGGGTCAATTGTC
* * *
18749796 TGACTTGAAAATTAATTTTTAAAGATATCATATTTATTTTATTTTATTAATTTAATTTAATTTTA
66 TGACTTGAAAATTAATTTTTAAAAATATCATATTAATTTTATTTAATTAATTTAATTTAATTTTA
18749861 TTTGATCAAAATTAATTTTCCAAAAAATCAC
131 TTTGATCAAAATTAATTTTCCAAAAAATCAC
18749892 TTA
1 TTA
18749895 GATTTTTCAA
Statistics
Matches: 154, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
160 4 0.03
161 150 0.97
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (161 bp):
TTAAAATAATATTATTTTTGAAACAAATAATCTGACAAGTCCAATTACCCATTGGGTCAATTGTC
TGACTTGAAAATTAATTTTTAAAAATATCATATTAATTTTATTTAATTAATTTAATTTAATTTTA
TTTGATCAAAATTAATTTTCCAAAAAATCAC
Found at i:18749858 original size:19 final size:18
Alignment explanation
Indices: 18749827--18749862 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
18749817 AAGATATCAT
*
18749827 ATTTATTTTATTTTATTA
1 ATTTATTTAATTTTATTA
18749845 ATTTAATTTAATTTTATT
1 ATTT-ATTTAATTTTATT
18749863 TGATCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATTTAATTTTATTA
Found at i:18754392 original size:28 final size:27
Alignment explanation
Indices: 18754340--18754393 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
18754330 GCTTCGATCC
*
18754340 TTTAAAATAAAAAAATCATTTAAATTCA
1 TTTAAAATAAAAAAA-CATTCAAATTCA
18754368 TTTAAAATATATAAAAA-ATTCAAATT
1 TTTAAAATA-A-AAAAACATTCAAATT
18754394 AGTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 17 0.74
29 1 0.04
30 5 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (27 bp):
TTTAAAATAAAAAAACATTCAAATTCA
Found at i:18755428 original size:15 final size:16
Alignment explanation
Indices: 18755408--18755440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18755398 AATAAAGTAT
*
18755408 AATAAA-ATTTTAAAA
1 AATAAATATTATAAAA
18755423 AATAAATATTATAAAA
1 AATAAATATTATAAAA
18755439 AA
1 AA
18755441 AACACATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATTATAAAA
Found at i:18757205 original size:15 final size:15
Alignment explanation
Indices: 18757185--18757242 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
18757175 ATTCAATATT
18757185 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18757200 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18757219 AATATATTAATAATA
1 AATATTTTAATAATA
18757234 AATATTTTA
1 AATATTTTA
18757243 TAGTATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 4 0.11
18 1 0.03
19 10 0.29
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18760376 original size:5 final size:5
Alignment explanation
Indices: 18760366--18760392 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18760356 TATTAAATAT
18760366 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
18760393 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:18761762 original size:3 final size:3
Alignment explanation
Indices: 18761754--18761788 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18761744 AGGTAAGCTT
18761754 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18761789 GAAAATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18764216 original size:23 final size:22
Alignment explanation
Indices: 18764180--18764244 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
18764170 TTTCCTTAAT
*
18764180 ATAAAGTTTAAAAACATACCTTA
1 ATAAAGTTT-AAAACATACCCTA
* *
18764203 ATGAAGTCTTAAAACATGCCCTA
1 ATAAAGT-TTAAAACATACCCTA
18764226 ATAAAGTTTATAAACATAC
1 ATAAAGTTTA-AAACATAC
18764245 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 3 0.09
23 30 0.86
24 2 0.06
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (22 bp):
ATAAAGTTTAAAACATACCCTA
Found at i:18770165 original size:24 final size:23
Alignment explanation
Indices: 18770127--18770234 Score: 72
Period size: 21 Copynumber: 4.9 Consensus size: 23
18770117 TTAATATATG
* *
18770127 AAATATTAATTTTAAATATTTCT
1 AAATATTAATATTAAATATTTAT
*
18770150 AAATAATTAATATTAATTATTTAT
1 AAAT-ATTAATATTAAATATTTAT
*
18770174 AAA-ATTTA-ATTATAATA--TAT
1 AAATATTAATATTA-AATATTTAT
*
18770194 -AA-ATTATATTTTAAATA-TT-T
1 AAATATTA-ATATTAAATATTTAT
18770214 AAATA-TAATCATTAAATATTT
1 AAATATTAAT-ATTAAATATTT
18770235 GTAATTAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
19 5 0.07
20 11 0.16
21 19 0.28
22 10 0.15
23 4 0.06
24 19 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATATTAATATTAAATATTTAT
Found at i:18770204 original size:33 final size:33
Alignment explanation
Indices: 18770131--18770230 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
18770121 TATATGAAAT
18770131 ATTA-ATTTTAAATATTTCTAAATAATTAAT-ATT-A
1 ATTATATTTTAAATA-TT-TAAAT-A-TAATCATTAA
* *
18770165 ATTAT-TTATAAA-ATTTAATTATAAT-ATATAA
1 ATTATATTTTAAATATTTAAATATAATCAT-TAA
18770196 ATTATATTTTAAATATTTAAATATAATCATTAA
1 ATTATATTTTAAATATTTAAATATAATCATTAA
18770229 AT
1 AT
18770231 ATTTGTAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
29 6 0.11
30 2 0.04
31 10 0.18
32 8 0.14
33 18 0.32
34 12 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTATATTTTAAATATTTAAATATAATCATTAA
Found at i:18775219 original size:28 final size:28
Alignment explanation
Indices: 18775188--18775246 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18775178 TAAAAGGTAA
18775188 AATTAT-TATATTATTTATGTAGTTAAAT
1 AATTATGTATATTATTTAT-TAGTTAAAT
* * *
18775216 AATTTTGTATTTTGTTTATTAGTTAAAT
1 AATTATGTATATTATTTATTAGTTAAAT
18775244 AAT
1 AAT
18775247 CGGTCCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (28 bp):
AATTATGTATATTATTTATTAGTTAAAT
Found at i:18778112 original size:64 final size:62
Alignment explanation
Indices: 18777983--18778141 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 62
18777973 ATTTACATAC
* * * * * *
18777983 ATATATGTACGA-ACGTATGTATATAAATAACAATAAAAAATGAAATCAAGATGTATGTTAATAT
1 ATATATGTAC-ATGCGTATATATAAAAAT-A-AATAAAAAATAAAATCAAAATGTATATTAATAT
18778047 ATATATGTACATGCGTATATATAAAAATAAATAAAAAATAAAATCAAAATGTATATCTATGTATA
1 ATATATGTACATGCGTATATATAAAAATAAATAAAAAATAAAATCAAAATGTATAT-TA---ATA
18778112 T
62 T
**
18778113 ATATATACACATGCGTATA-A-AAAAATAAA
1 ATATATGTACATGCGTATATATAAAAATAAA
18778142 ACAAACACAA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
62 24 0.29
63 4 0.05
64 32 0.39
65 1 0.01
66 21 0.26
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (62 bp):
ATATATGTACATGCGTATATATAAAAATAAATAAAAAATAAAATCAAAATGTATATTAATAT
Found at i:18778566 original size:6 final size:6
Alignment explanation
Indices: 18778549--18778586 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
18778539 GACCCTTCTT
*
18778549 TTTAAA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
18778587 GAATGAGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.32
6 19 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:18778571 original size:17 final size:17
Alignment explanation
Indices: 18778549--18778621 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 17
18778539 GACCCTTCTT
*
18778549 TTTAAATTAAATTTAAA
1 TTTAAAATAAATTTAAA
18778566 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* * * *
18778583 TTTAGAATGAGTTCAAA
1 TTTAAAATAAATTTAAA
* *
18778600 TTCAAAATAAGTTTAAA
1 TTTAAAATAAATTTAAA
*
18778617 ATTAA
1 TTTAA
18778622 CATTGGATCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:18779130 original size:39 final size:39
Alignment explanation
Indices: 18779087--18779487 Score: 241
Period size: 39 Copynumber: 10.3 Consensus size: 39
18779077 CCATGATAGG
* * *
18779087 GGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGA
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
* * ** * * * * * *
18779126 GGTAAAAAATCGAATGGCT-GTAATCTACCCCAAGTTCGG
1 GGTAAAAGATTGGCT-GATGGTGATCTGCCCCAGGCTCGA
* * *
18779165 GGTAAGAGATTGGCTGATGGTAATCTGCCTCAGGCTCGA
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
*
18779204 GGTAAAAGA-T--C-GAATGGCTGCAATCTGCCCTAGGCTCGA
1 GGTAAAAGATTGGCTG-ATGG-TG--ATCTGCCCCAGGCTCGA
* ** *
18779243 GGTAAGAGATTGGCTGATGGTGATCCACCCCAGGCTCAA
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
* * * * *
18779282 GGTAAAAGA-T--CTAATGGCTGCAATCTG-CCCTGGTTAGG
1 GGTAAAAGATTGGCTGATGG-TG--ATCTGCCCCAGGCTCGA
* * * * *
18779320 GGTGAGAGATTAGCTGATGGTGATCTGCTCCAGGCTCGG
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
* * *
18779359 GGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGA
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
* ** * * *
18779398 GGTAAAAGATCGAAT-A-GCTGCAATCTACCCCAGGCTCGG
1 GGTAAAAGATTGGCTGATGGTG--ATCTGCCCCAGGCTCGA
* *
18779437 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAAGCT-TA
1 GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
18779475 GGGTAAAAGATTG
1 -GGTAAAAGATTG
18779488 AATAACTGCA
Statistics
Matches: 272, Mismatches: 68, Indels: 44
0.71 0.18 0.11
Matches are distributed among these distances:
35 1 0.00
36 11 0.04
37 6 0.02
38 23 0.08
39 208 0.76
40 6 0.02
41 11 0.04
42 5 0.02
43 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (39 bp):
GGTAAAAGATTGGCTGATGGTGATCTGCCCCAGGCTCGA
Found at i:18779191 original size:78 final size:77
Alignment explanation
Indices: 18779057--18779368 Score: 354
Period size: 78 Copynumber: 4.0 Consensus size: 77
18779047 CTTTATTACT
** * * * * *
18779057 TCGAATGAATGCAATCTGCCCCATGATAGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGC
1 TCGAATGGCTGCAATCT-CCCCAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGC
*
18779122 TCGAGGTAAAAAA
65 TCGAGGTAAAAGA
* * * *
18779135 TCGAATGGCTGTAATCTACCCCAAGTTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCTCAGGC
1 TCGAATGGCTGCAATCT-CCCCAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGC
18779200 TCGAGGTAAAAGA
65 TCGAGGTAAAAGA
* * * **
18779213 TCGAATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCCACCCCAGGC
1 TCGAATGGCTGCAATCT-CCCCAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGC
*
18779278 TCAAGGTAAAAGA
65 TCGAGGTAAAAGA
* * * * * * *
18779291 TCTAATGGCTGCAATCTGCCCTGGTTAGGGGTGAGAGATTAGCTGATGGTGATCTGCTCCAGGCT
1 TCGAATGGCTGCAATCTCCCCAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCT
* *
18779356 CGGGGTAAGAGA
66 CGAGGTAAAAGA
18779368 T
1 T
18779369 TAGCTGATGG
Statistics
Matches: 196, Mismatches: 38, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
77 47 0.24
78 149 0.76
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (77 bp):
TCGAATGGCTGCAATCTCCCCAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCT
CGAGGTAAAAGA
Found at i:18779367 original size:116 final size:116
Alignment explanation
Indices: 18779226--18779466 Score: 322
Period size: 116 Copynumber: 2.1 Consensus size: 116
18779216 AATGGCTGCA
* *
18779226 ATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCCACCCCAGGCTCAAGGTAAAAGA
1 ATCTGCCC-AGGCTCGGGGTAAGAGATTGGCTGATGGTGATCCACCCCAAGCTCAAGGTAAAAGA
* * * * * * *
18779291 TCTAATGGCTGCAATCT-GCCCTGGTTAGGGGTGAGAGATTAGCTGATGGTG
65 TCGAATAGCTGCAATCTACCCCAGGCTAGGGGTAAAAGATTAGCTGATGGTG
* ** *
18779342 ATCTGCTCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
1 ATCTGC-CCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCCACCCCAAGCTCAAGGTAAAAGA
* *
18779407 TCGAATAGCTGCAATCTACCCCAGGCTCGGGGTAAAAGATTGGCTGATGGTG
65 TCGAATAGCTGCAATCTACCCCAGGCTAGGGGTAAAAGATTAGCTGATGGTG
18779459 ATCTGCCC
1 ATCTGCCC
18779467 CAAGCTTAGG
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 73 0.68
117 35 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (116 bp):
ATCTGCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCCACCCCAAGCTCAAGGTAAAAGAT
CGAATAGCTGCAATCTACCCCAGGCTAGGGGTAAAAGATTAGCTGATGGTG
Found at i:18779396 original size:155 final size:155
Alignment explanation
Indices: 18779069--18779407 Score: 373
Period size: 155 Copynumber: 2.2 Consensus size: 155
18779059 GAATGAATGC
* * * * ** *
18779069 AATCTGCCCCATGATAGGGGTAAGAGATTGGCTGATGATGATCTGCCCCAAGCTCGAGGTAAAAA
1 AATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATGATCCACCCCAAGCTCAAGGTAAAAA
* * *
18779134 ATCGAATGGCTGTAATCTACCCCAAGTTCGGGGTAAGAGATTGGCTGATGGTAATCTGCCTCAGG
66 ATCGAATGGCTGCAATCTACCCCAAGTTAGGGGTAAGAGATTAGCTGATGGTAATCTGCCTCAGG
18779199 CTCGAGGTAAAAGATCGAATGGCTG
131 CTCGAGGTAAAAGATCGAATGGCTG
* * * *
18779224 CAATCTGCCCTAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCCACCCCAGGCTCAAGGTAAAA
1 -AATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATGATCCACCCCAAGCTCAAGGTAAAA
* * * ** * *
18779289 GATCTAATGGCTGCAATCT-GCCCTGGTTAGGGGTGAGAGATTAGCTGATGGTGATCTG-CTCCA
65 AATCGAATGGCTGCAATCTACCCCAAGTTAGGGGTAAGAGATTAGCTGATGGTAATCTGCCT-CA
* *
18779352 GGCTCGGGGTAAGAGATTAGCTG-ATGG-TG
129 GGCTCGAGGTAAAAGA-T--C-GAATGGCTG
*
18779381 -ATCTGCCCCAAGCTCGAGGTAAAAGAT
1 AATCTGCCCCAAGCTCGAGGTAAGAGAT
18779408 CGAATAGCTG
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
154 2 0.01
155 72 0.47
156 71 0.46
157 2 0.01
158 5 0.03
159 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (155 bp):
AATCTGCCCCAAGCTCGAGGTAAGAGATTGGCTGATGATGATCCACCCCAAGCTCAAGGTAAAAA
ATCGAATGGCTGCAATCTACCCCAAGTTAGGGGTAAGAGATTAGCTGATGGTAATCTGCCTCAGG
CTCGAGGTAAAAGATCGAATGGCTG
Found at i:18779502 original size:39 final size:39
Alignment explanation
Indices: 18779381--18779526 Score: 150
Period size: 39 Copynumber: 3.7 Consensus size: 39
18779371 GCTGATGGTG
* * * *
18779381 ATCTGCCCCAAGCTCGAGGTAAAAGATCGAATAGCTGCA
1 ATCTGCCCCAAGCTTGGGGTAAAAGATTGAATAACTGCA
* * * ** * **
18779420 ATCTACCCCAGGCTCGGGGTAAAAGATTGGCTGA-TGGTG
1 ATCTGCCCCAAGCTTGGGGTAAAAGATTGAATAACT-GCA
*
18779459 ATCTGCCCCAAGCTTAGGGTAAAAGATTGAATAACTGCA
1 ATCTGCCCCAAGCTTGGGGTAAAAGATTGAATAACTGCA
*
18779498 ATCTGCCCCAAGCTTGGGGTAAGAGATTG
1 ATCTGCCCCAAGCTTGGGGTAAAAGATTG
18779527 GAATCTTTAA
Statistics
Matches: 84, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
38 1 0.01
39 82 0.98
40 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (39 bp):
ATCTGCCCCAAGCTTGGGGTAAAAGATTGAATAACTGCA
Found at i:18779526 original size:78 final size:78
Alignment explanation
Indices: 18779342--18779527 Score: 275
Period size: 78 Copynumber: 2.4 Consensus size: 78
18779332 GCTGATGGTG
* * *
18779342 ATCTGCTCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTAGAGGTAAAAGA
*
18779407 TCGAATAGCTGCA
66 TCGAATAACTGCA
* *
18779420 ATCTACCCCAGGCTCGGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAAGCTTAG-GGTAAAAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGC-TAGAGGTAAAAG
*
18779484 ATTGAATAACTGCA
65 ATCGAATAACTGCA
* *
18779498 ATCTGCCCCAAGCTTGGGGTAAGAGATTGG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGG
18779528 AATCTTTAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 94 0.98
79 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTAGAGGTAAAAGA
TCGAATAACTGCA
Found at i:18779926 original size:49 final size:49
Alignment explanation
Indices: 18779868--18780245 Score: 339
Period size: 49 Copynumber: 7.7 Consensus size: 49
18779858 GAGTTCACCA
* * *
18779868 TTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGGTTTGCAG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGGTTCGCCG
* * * *** *
18779917 TTGCAGCCTCAACTTTTCCAATTGCATCTTCATGGTACC-GGATTTGCCG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGG-TTCGCCG
* * * *
18779966 TTGCGGCCTCAA-TTCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCG
1 TTGCGGCCTCAACCT-TTCCCATCAAATCTTC-ATGGTACCAGGTTCGCCG
* * * * * * * *
18780016 TTGTGACCTTAACCTTTCCCTTTAAATCTTCATGGTACCCGGTCCGCCA
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGGTTCGCCG
* * *
18780065 TTGCGGCCTCAACCTTTCCCATCATAT-TTCATGGTACCAGATTCGTCG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGGTTCGCCG
* * * * * *
18780113 TTGTGTCCTCAATCTTTCCCATCACATCTTCTAAGGTACCAGGTTCACCG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTC-ATGGTACCAGGTTCGCCG
* * ** * *
18780163 TTGCGGCCTCAACCTTTCCCTTCAAATATTCATGGTGTCGGGTTCGCTG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGGTTCGCCG
* * *
18780212 TTGCGGCCTTAGCCTTTCCCATCACATCTTCATG
1 TTGCGGCCTCAACCTTTCCCATCAAATCTTCATG
18780246 TTTCCTTGGT
Statistics
Matches: 261, Mismatches: 61, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
48 43 0.16
49 141 0.54
50 74 0.28
51 3 0.01
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (49 bp):
TTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACCAGGTTCGCCG
Found at i:18780052 original size:99 final size:96
Alignment explanation
Indices: 18779777--18780245 Score: 280
Period size: 99 Copynumber: 4.8 Consensus size: 96
18779767 GTCGTTGTGA
* * * * * * * *
18779777 CCTCAACCTTTCCCATCATATTTCATGGTATCGGATTCGTCATTGTGGCCTCAATCC-TTCTCAT
1 CCTCAACCTTTCCCATCACATTTCAAGGTACCAGATTCGCCGTTGTGACCTCAA-CCTTTCCCAT
* * * ** * *
18779841 CCATAT-TTTAAGGTGTCGAGTTCACCATTGCGG
65 -CAAATCTTCATGGTACCG-GTTCGCCGTTGCGG
* * * * * * * * *
18779874 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCAGGTTTGCAGTTG-CAGCCTCAACTTTTCCAA
1 CCTCAACCTTTCCCATCACAT-TTCAAGGTACCAGATTCGCCGTTGTGA-CCTCAACCTTTCCCA
*** *
18779938 TTGCATCTTCATGGTACCGGATTTGCCGTTGCGG
64 TCAAATCTTCATGGTACCGG-TTCGCCGTTGCGG
* * * *
18779972 CCTCAA-TTCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGTGACCTTAACCTTTCCC
1 CCTCAACCT-TTCCCATCACAT-TTC-AAGGTACCAGATTCGCCGTTGTGACCTCAACCTTTCCC
* * * *
18780036 TTTAAATCTTCATGGTACCCGGTCCGCCATTGCGG
63 ATCAAATCTTCATGGTA-CCGGTTCGCCGTTGCGG
* * * * *
18780071 CCTCAACCTTTCCCATCATATTTCATGGTACCAGATTCGTCGTTGTGTCCTCAATCTTTCCCATC
1 CCTCAACCTTTCCCATCACATTTCAAGGTACCAGATTCGCCGTTGTGACCTCAACCTTTCCCATC
* * *
18780136 ACATCTTCTAAGGTACCAGGTTCACCGTTGCGG
66 AAATCTTC-ATGGTACC-GGTTCGCCGTTGCGG
* * * ** * * * * * * *
18780169 CCTCAACCTTTCCCTTCAAATATTCATGGTGTCGGGTTCGCTGTTGCGGCCTTAGCCTTTCCCAT
1 CCTCAACCTTTCCCATCACAT-TTCAAGGTACCAGATTCGCCGTTGTGACCTCAACCTTTCCCAT
*
18780234 CACATCTTCATG
65 CAAATCTTCATG
18780246 TTTCCTTGGT
Statistics
Matches: 288, Mismatches: 71, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
97 65 0.23
98 107 0.37
99 110 0.38
100 6 0.02
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (96 bp):
CCTCAACCTTTCCCATCACATTTCAAGGTACCAGATTCGCCGTTGTGACCTCAACCTTTCCCATC
AAATCTTCATGGTACCGGTTCGCCGTTGCGG
Found at i:18780150 original size:147 final size:147
Alignment explanation
Indices: 18779777--18780245 Score: 532
Period size: 147 Copynumber: 3.2 Consensus size: 147
18779767 GTCGTTGTGA
* * * *
18779777 CCTCAACCTTTCCCATCATATTTCATGGTATCGGATTCGTCATTGTGGCCTCAATCCTTCTCATC
1 CCTCAACCTTTCCCATCATATTTCATGGTACCGGATTCGTCGTTGTGGCCTCAATCTTTCCCATC
* * ** * *
18779842 -CATATTTTAAGGTGTCGAGTTCACCATTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTAC
66 ACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTAC
* *
18779906 CAGGTTTG-CAGTTGCAG
131 CAGGTTCGCCA-TTGCGG
* * * * * *
18779923 CCTCAACTTTTCCAATTGCAT-CTTCATGGTACCGGATTTGCCGTTGCGGCCTCAAT-TCTTCCC
1 CCTCAACCTTTCCCA-T-CATATTTCATGGTACCGGATTCGTCGTTGTGGCCTCAATCT-TTCCC
* * * * *
18779986 ATCACATCTTCTAAGGTACCGGGTTCGCCGTTGTGACCTTAACCTTTCCCTTTAAATCTTCATGG
63 ATCACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGG
* *
18780051 TACCCGGTCCGCCATTGCGG
128 TACCAGGTTCGCCATTGCGG
* *
18780071 CCTCAACCTTTCCCATCATATTTCATGGTACCAGATTCGTCGTTGTGTCCTCAATCTTTCCCATC
1 CCTCAACCTTTCCCATCATATTTCATGGTACCGGATTCGTCGTTGTGGCCTCAATCTTTCCCATC
* * **
18780136 ACATCTTCTAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATATTCATGGTGT
66 ACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTAC
* **
18780201 CGGGTTCGCTGTTGCGG
131 CAGGTTCGCCATTGCGG
* * *
18780218 CCTTAGCCTTTCCCATCACATCTTCATG
1 CCTCAACCTTTCCCATCATAT-TTCATG
18780246 TTTCCTTGGT
Statistics
Matches: 266, Mismatches: 49, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
146 16 0.06
147 162 0.61
148 86 0.32
149 2 0.01
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (147 bp):
CCTCAACCTTTCCCATCATATTTCATGGTACCGGATTCGTCGTTGTGGCCTCAATCTTTCCCATC
ACATCTTCTAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTAC
CAGGTTCGCCATTGCGG
Found at i:18789081 original size:64 final size:63
Alignment explanation
Indices: 18789013--18789131 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 63
18789003 ATTTACATAC
* * * *
18789013 ATATATGTACAAACGTATTTATATAAATAACA-ATAAAAAATGAAATCAAGATGTATGTTAATAT
1 ATATATGTACAAACGTATATATAAAAATAA-ATA-AAAAAATAAAATCAAAATGTATGTTAATAT
18789077 ATATATGTACAAACGTATATATAAAAATAAATAAAAAAATAAAATCAAAATGTAT
1 ATATATGTACAAACGTATATATAAAAATAAATAAAAAAATAAAATCAAAATGTAT
18789132 ATCTATGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 21 0.42
64 29 0.58
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (63 bp):
ATATATGTACAAACGTATATATAAAAATAAATAAAAAAATAAAATCAAAATGTATGTTAATAT
Found at i:18789635 original size:17 final size:17
Alignment explanation
Indices: 18789584--18789676 Score: 96
Period size: 17 Copynumber: 5.5 Consensus size: 17
18789574 GATCCTTCTT
*
18789584 TTTAAATTAAATTTAAA
1 TTTAAAATAAATTTAAA
* * ** *
18789601 TTTAGAATGAGCTCAAA
1 TTTAAAATAAATTTAAA
*
18789618 TTCAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
* *
18789635 TTTACACTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
18789652 TTTAAAATAAATTAAAA
1 TTTAAAATAAATTTAAA
18789669 TTTAAAAT
1 TTTAAAAT
18789677 TGGATCTAAT
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:18789667 original size:5 final size:6
Alignment explanation
Indices: 18789625--18789674 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
18789615 AAATTCAAAA
* * * *
18789625 TAAATT TAAATT TACA-C TAAATT TAAATT TAAA-A TAAATT AAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
18789671 TAAA
1 TAAA
18789675 ATTGGATCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
5 7 0.21
6 27 0.79
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:18790535 original size:18 final size:18
Alignment explanation
Indices: 18790520--18790554 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18790510 GCAATTAATG
18790520 TAAAATT-TTTAATTAAA
1 TAAAATTATTTAATTAAA
*
18790537 TAAATTTATTTAATTAAA
1 TAAAATTATTTAATTAAA
18790555 AATCTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTATTTAATTAAA
Found at i:18793866 original size:36 final size:35
Alignment explanation
Indices: 18793819--18793887 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 35
18793809 AAGATAATAT
18793819 ATTTTGTTTAACTTGACTTGCAAGCAATTCTCTTTG
1 ATTTTGTTTAACTTGACTTGCAAGCAA-TCTCTTTG
18793855 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTT
1 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTT
18793888 AGAATTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.46
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTTG
Found at i:18820618 original size:13 final size:13
Alignment explanation
Indices: 18820585--18820638 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
18820575 ACATACATAC
18820585 AATAAAATGCAAAA
1 AATAAAAT-CAAAA
18820599 TAATAAAA-CACAAA
1 -AATAAAATCA-AAA
*
18820613 AATAAAATGAAAA
1 AATAAAATCAAAA
18820626 AATAAAATGCAAA
1 AATAAAAT-CAAA
18820639 GGATCACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 20 0.59
14 7 0.21
15 7 0.21
ACGTcount: A:0.72, C:0.07, G:0.06, T:0.15
Consensus pattern (13 bp):
AATAAAATCAAAA
Found at i:18821745 original size:102 final size:101
Alignment explanation
Indices: 18821556--18821803 Score: 245
Period size: 102 Copynumber: 2.4 Consensus size: 101
18821546 TTTGTTTTGC
* * * *
18821556 TCCACTGTTACTTCAAGGAGATAAGATTCGCTGTTGTAGCTTCATCTTGCTCTACTGCAACTTCA
1 TCCACTGTAACTTCAAGGATATAGGATTCGCTGTTGTAGCTTCATCTTGCTCTACAGCAACTTCA
*
18821621 AAGAGATAAAGATTTGCCACTGTTAATTTTAATCCGA-
66 AAGAGATAAAGATCTGCCACTGTT-ATTTTAATCC-AT
* * *
18821658 TCCACTGTAACTTCAAGGATATAGGATTTGCTTTTGTGGCTTCACTCCATT-C-C-ACAGCAACT
1 TCCACTGTAACTTCAAGGATATAGGATTCGCTGTTGTAGCTTCA-T-C-TTGCTCTACAGCAACT
* ** * **
18821720 TCAAGGAGATTGAGATCTGCTACTGTTATTTTTCTCCAT
63 TCAAAGAGATAAAGATCTGCCACTGTTATTTTAATCCAT
* * * *
18821759 TCCATTGTAACTTCAGGGATATAGGAGTTCG-TGTTATAACTTCAT
1 TCCACTGTAACTTCAAGGATATAGGA-TTCGCTGTTGTAGCTTCAT
18821804 TCCATCTCAC
Statistics
Matches: 120, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
100 2 0.02
101 41 0.34
102 71 0.59
103 2 0.02
104 2 0.02
105 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (101 bp):
TCCACTGTAACTTCAAGGATATAGGATTCGCTGTTGTAGCTTCATCTTGCTCTACAGCAACTTCA
AAGAGATAAAGATCTGCCACTGTTATTTTAATCCAT
Found at i:18823463 original size:29 final size:29
Alignment explanation
Indices: 18823387--18823758 Score: 127
Period size: 29 Copynumber: 12.7 Consensus size: 29
18823377 TTTGGATACC
* **
18823387 CGGGGGTAAAATGGTAATTTT-G-GACCCT
1 CGGGGTTAAAATGGTAATTTTAGTGA-AAT
* *
18823415 CGGGGGTAAAATGGTAAATTTCAGTGAAAT
1 CGGGGTTAAAATGGT-AATTTTAGTGAAAT
* * **
18823445 CGGGGTTAAAAATGG-AATTTTGGAGAGTTT
1 CGGGGTT-AAAATGGTAATTTTAGTGA-AAT
* *
18823475 AGGGG-T-AAATGGTAATTTTTGGTGAAAT
1 CGGGGTTAAAATGGTAA-TTTTAGTGAAAT
*
18823503 CGGGGTTAAAAAT-GAAATTTT-G-GAAAGTT
1 CGGGGTT-AAAATGGTAATTTTAGTGAAA--T
*
18823532 CGGGGGT-AAATGGTAATTTTAGGTGAAAT
1 CGGGGTTAAAATGGTAATTTTA-GTGAAAT
*
18823561 CAGGGTTAAAAATGG-AATTTT-G-GAAAGTT
1 CGGGGTT-AAAATGGTAATTTTAGTGAAA--T
* *
18823590 CAGGGG-TAAAATGGTAATTTTTGGTGAGAT
1 C-GGGGTTAAAATGGTAA-TTTTAGTGAAAT
** *
18823620 CAAGGTTAAAAATGG-AATTTT-G-AAAAGTTT
1 CGGGGTT-AAAATGGTAATTTTAGTGAAA---T
** *
18823650 AAGGG-TAAAATGGTAATTTTTGGTGAAAT
1 CGGGGTTAAAATGGTAA-TTTTAGTGAAAT
** * *
18823679 TAGGGTTAAAAATGG-AATTTT-GGGAAGTT
1 CGGGGTT-AAAATGGTAATTTTAGTGAA-AT
* * *
18823708 TGGGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGGGGTTAAAATGGTAA-TTTTAGTGAAAT
*
18823738 CGGGTTTAAAAATGG-AATTTT
1 CGGGGTT-AAAATGGTAATTTT
18823759 GGAAAGTTTA
Statistics
Matches: 265, Mismatches: 38, Indels: 81
0.69 0.10 0.21
Matches are distributed among these distances:
27 20 0.08
28 57 0.22
29 75 0.28
30 57 0.22
31 50 0.19
32 6 0.02
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.33
Consensus pattern (29 bp):
CGGGGTTAAAATGGTAATTTTAGTGAAAT
Found at i:18823631 original size:59 final size:59
Alignment explanation
Indices: 18823417--18823790 Score: 540
Period size: 59 Copynumber: 6.4 Consensus size: 59
18823407 TGGACCCTCG
* ** * *
18823417 GGGGTAAAATGGTAAATTTCAGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * **
18823476 GGGGT-AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* *
18823534 GGGGT-AAATGGTAATTTTAGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
18823592 GGGGTAAAATGGTAATTTTTGGTGAGATCAAGGTTAAAAATGGAATTTTGAAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
* * * *
18823651 AGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGGAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
18823710 GGGGTAAAATGGTAATTTTTGGTGAAATC-GGGTTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCAGGG-TTAAAAATGGAATTTTGGAAAGTTTA
18823769 GGGGT-AAATAGGTAATTTTTGG
1 GGGGTAAAAT-GGTAATTTTTGG
18823791 AAGTTTCGAG
Statistics
Matches: 285, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 112 0.39
59 173 0.61
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:18823837 original size:118 final size:115
Alignment explanation
Indices: 18823438--18823848 Score: 408
Period size: 118 Copynumber: 3.5 Consensus size: 115
18823428 GTAAATTTCA
* * * *
18823438 GTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT-AGGGGT-AAATGGTAATTTTTGGTGAA
1 GTGAATTCGAGGTTAAAAATGGATTTTTGGA-AATTTCA-GGGTAAAATGGTAATTTTTGGTGAA
* ** *
18823501 ATCGGGGTTAAAAATGAAATTTTGGAAAGTTCGGGGGTAAAT-GGTAATTTTAG
64 ATC-GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAATAGGTAATTTT-T
* * * *
18823554 GTGAAATC-AGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAG
1 GTGAATTCGA-GGTTAAAAATGGATTTTTGGAAATTTCA-GGGTAAAATGGTAATTTTTGGTGAA
* * *
18823618 ATCAAGGTTAAAAATGGAATTTTGAAAAGTTTAAGGGTAAA-ATGGTAATTTTT
64 ATC-GGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAATA-GGTAATTTTT
* * * **
18823671 GGTGAAATTAG-GGTTAAAAATGGAATTTTGGGAAGTTTGGGGGTAAAATGGTAATTTTTGGTGA
1 -GTG-AATTCGAGGTTAAAAATGG-ATTTTTGGAAATTTCAGGGTAAAATGGTAATTTTTGGTGA
18823735 AATCGGGTTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAATAGGTAATTTTT
63 AATCGGG-TTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAATAGGTAATTTTT
* * *
18823789 G-GAAGTTTCGAGG-TAAAAATGTGATTTTTTGAAATTTTAGGGTCAAAAT-GCAATTTTTGG
1 GTGAA--TTCGAGGTTAAAAATG-GATTTTTGGAAATTTCAGGGT-AAAATGGTAATTTTTGG
18823849 ACTGTTTGGG
Statistics
Matches: 248, Mismatches: 31, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
115 5 0.02
116 36 0.15
117 92 0.37
118 101 0.41
119 14 0.06
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (115 bp):
GTGAATTCGAGGTTAAAAATGGATTTTTGGAAATTTCAGGGTAAAATGGTAATTTTTGGTGAAAT
CGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAATAGGTAATTTTT
Found at i:18824105 original size:162 final size:162
Alignment explanation
Indices: 18823918--18824243 Score: 535
Period size: 162 Copynumber: 2.0 Consensus size: 162
18823908 AGGCATCCAG
* *
18823918 CAGTCAAGGGACTAAATTGTAAATCTTGAAAAATTCTTAGGCCAATTTTATAATTAAATAAAAGT
1 CAGTCAAAGGACTAAATTATAAATCTTGAAAAATTCTTAGGCCAATTTTATAATTAAATAAAAGT
* * *
18823983 TGATTTAGGGATTAAATTAAAATAAATTAAAAATGACAGGGACTAGATACATAAATAAGCCAAAA
66 TGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAGCCAAAA
18824048 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
131 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
* * * * *
18824080 CAGTCAAAGGATTAATTTATAAATCTTGAAAAATTCTTAGGCTAATTTTGTAATTAAATGAAAGT
1 CAGTCAAAGGACTAAATTATAAATCTTGAAAAATTCTTAGGCCAATTTTATAATTAAATAAAAGT
* * *
18824145 TGATTTAAGGATTAAATTAAAACAAATTGAAAATGGCAGGGACTAGATACAGAAATAAGCTAAAA
66 TGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAGCCAAAA
18824210 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
131 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
18824242 CA
1 CA
18824244 AAGGACTGAA
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 151 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (162 bp):
CAGTCAAAGGACTAAATTATAAATCTTGAAAAATTCTTAGGCCAATTTTATAATTAAATAAAAGT
TGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGATACAGAAATAAGCCAAAA
AGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
Found at i:18825102 original size:9 final size:9
Alignment explanation
Indices: 18825088--18825122 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
18825078 AAAAATATAT
*
18825088 TTATTATTA
1 TTATTAATA
18825097 TTATTAATA
1 TTATTAATA
*
18825106 TTATTAATG
1 TTATTAATA
18825115 TTATTAAT
1 TTATTAAT
18825123 GCTTCTGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:18826477 original size:13 final size:12
Alignment explanation
Indices: 18826461--18826507 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
18826451 TCTCCTCTCC
18826461 TCTTCTTTTCTTT
1 TCTT-TTTTCTTT
18826474 TCTTTTTTCTTTT
1 TCTTTTTTC-TTT
18826487 TCTTTCTTTCTTT
1 TCTTT-TTTCTTT
*
18826500 CCTTTTTT
1 TCTTTTTT
18826508 AGGTGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 8 0.26
13 19 0.61
14 4 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:18826489 original size:18 final size:19
Alignment explanation
Indices: 18826466--18826506 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
18826456 TCTCCTCTTC
18826466 TTTTCTTTTCTTT-TTT-CT
1 TTTTC-TTTCTTTCTTTCCT
18826484 TTTTCTTTCTTTCTTTCCT
1 TTTTCTTTCTTTCTTTCCT
18826503 TTTT
1 TTTT
18826507 TAGGTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTTTCTTTCTTTCCT
Found at i:18829199 original size:93 final size:92
Alignment explanation
Indices: 18829098--18829269 Score: 247
Period size: 93 Copynumber: 1.9 Consensus size: 92
18829088 TGTTGCGAGT
18829098 CCTCGACAGCTCATGTGAGCAGCATCATATACTGGTA-ATAGAGTTGATACAAACATAAGAATGA
1 CCTCGACAGCTCATGTGAGCAGCATCATATACTGGTACA-A-AGTTGATACAAACATAAGAATGA
* *
18829162 AATTTTGGATTATAGCATATATTATGAGA
64 AATTCTAGATTATAGCATATATTATGAGA
* * * * * *
18829191 CCTCGACAGCTCGTGTGAGCAGTATCGTATACTGGTACAAAGTTGATACAGACATGAGGATGAAA
1 CCTCGACAGCTCATGTGAGCAGCATCATATACTGGTACAAAGTTGATACAAACATAAGAATGAAA
18829256 TTCTAGATTATAGC
66 TTCTAGATTATAGC
18829270 TTGTGGAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 34 0.49
93 35 0.50
94 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (92 bp):
CCTCGACAGCTCATGTGAGCAGCATCATATACTGGTACAAAGTTGATACAAACATAAGAATGAAA
TTCTAGATTATAGCATATATTATGAGA
Found at i:18833705 original size:15 final size:15
Alignment explanation
Indices: 18833680--18833716 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18833670 CTTAAAGCAA
18833680 AAATT-AAAAAGAAC-
1 AAATTAAAAAAG-ACT
18833694 AAATTAAAAAAGACT
1 AAATTAAAAAAGACT
18833709 AAATTAAA
1 AAATTAAA
18833717 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (15 bp):
AAATTAAAAAAGACT
Found at i:18835937 original size:25 final size:24
Alignment explanation
Indices: 18835907--18835968 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
18835897 TAAATTTAAA
18835907 ATATTTATTTTAATCAAAGTCAAAT
1 ATATTTATTTTAA-CAAAGTCAAAT
** *
18835932 ATATTT-TTTATGAAGGAAGTTAAAT
1 ATATTTATTT-T-AACAAAGTCAAAT
18835957 ATATTTATTTTA
1 ATATTTATTTTA
18835969 TATTACTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 4 0.13
25 22 0.71
26 5 0.16
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (24 bp):
ATATTTATTTTAACAAAGTCAAAT
Found at i:18837024 original size:22 final size:22
Alignment explanation
Indices: 18836996--18837050 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 22
18836986 AAATAGAACC
18836996 TATTTCATATGGAATGACACAT
1 TATTTCATATGGAATGACACAT
18837018 TATTTCATATGGAATGACACAT
1 TATTTCATATGGAATGACACAT
18837040 TAATGTTCATA
1 T-AT-TTCATA
18837051 CCATAAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 23 0.74
23 2 0.06
24 6 0.19
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TATTTCATATGGAATGACACAT
Found at i:18839113 original size:17 final size:17
Alignment explanation
Indices: 18839091--18839149 Score: 82
Period size: 17 Copynumber: 3.5 Consensus size: 17
18839081 AATCGAACTT
*
18839091 TTAATTTTAAATTTTAA
1 TTAATTTTAAATTTAAA
*
18839108 TTAATTTTAAATTTGAA
1 TTAATTTTAAATTTAAA
*
18839125 TTTATTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
*
18839142 TTCATTTT
1 TTAATTTT
18839150 GGGTTTAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TTAATTTTAAATTTAAA
Found at i:18839161 original size:34 final size:34
Alignment explanation
Indices: 18839094--18839171 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
18839084 CGAACTTTTA
* *
18839094 ATTTTAAATTTTAATTAATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTAATTTTAAATTTAAATTT
* ***
18839128 ATTTTAAATTTAAATTCATTTTGGGTTTAAATTT
1 ATTTTAAATTTAAATTAATTTTAAATTTAAATTT
*
18839162 ATTTTGAATT
1 ATTTTAAATT
18839172 AAAAATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (34 bp):
ATTTTAAATTTAAATTAATTTTAAATTTAAATTT
Found at i:18841219 original size:30 final size:29
Alignment explanation
Indices: 18841185--18841292 Score: 98
Period size: 30 Copynumber: 3.7 Consensus size: 29
18841175 GAGGTCCTTA
18841185 AACTATCCAAAAATTACATTTTT-ACCCCTG
1 AACT-TCCAAAAATTACATTTTTGA-CCCTG
* *
18841215 AAC-T--AAAAATTGCATTTTTGATCCTG
1 AACTTCCAAAAATTACATTTTTGACCCTG
* **
18841241 AAACTTCCAAAAATTCCATTTTTGACCCAA
1 -AACTTCCAAAAATTACATTTTTGACCCTG
*
18841271 AACTTTCAAAAATTATCATTTT
1 AACTTCCAAAAATTA-CATTTT
18841293 ACCCTTGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 18 0.28
27 4 0.06
28 2 0.03
29 13 0.20
30 27 0.42
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (29 bp):
AACTTCCAAAAATTACATTTTTGACCCTG
Found at i:18841273 original size:29 final size:30
Alignment explanation
Indices: 18841219--18841284 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
18841209 CCCCTGAACT
* **
18841219 AAAAATTGCATTTTTGATCCTGAAACTTCC
1 AAAAATTCCATTTTTGATCCCAAAACTTCC
*
18841249 AAAAATTCCATTTTTGA-CCCAAAACTTTC
1 AAAAATTCCATTTTTGATCCCAAAACTTCC
18841278 AAAAATT
1 AAAAATT
18841285 ATCATTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (30 bp):
AAAAATTCCATTTTTGATCCCAAAACTTCC
Found at i:18846709 original size:11 final size:10
Alignment explanation
Indices: 18846693--18846723 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
18846683 TTCAATGAAC
18846693 AAAAAAAAAG
1 AAAAAAAAAG
18846703 AAAAAAAAAG
1 AAAAAAAAAG
18846713 AAAAAGAAAAG
1 AAAAA-AAAAG
18846724 GAGTGGTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:18846718 original size:16 final size:15
Alignment explanation
Indices: 18846693--18846722 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18846683 TTCAATGAAC
18846693 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
18846708 AAAAGAAAAAGAAAA
1 AAAA-AAAAAGAAAA
18846723 GGAGTGGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:18848153 original size:49 final size:49
Alignment explanation
Indices: 18848048--18848187 Score: 149
Period size: 49 Copynumber: 2.8 Consensus size: 49
18848038 GACATGACGG
* * * * * * *
18848048 GAAAGATCTAAGGCCGTAACGGCGGATCCAATACCATGAAGACACGAAGG
1 GAAAGATCTAA-GCCGCAACGACAGAACCAGTACCACGAAGACACGAAGA
*
18848098 GAAAGATCTAAGCCGCAACGAC-GAACCTAGTACTACGAAGACA-GAAAGA
1 GAAAGATCTAAGCCGCAACGACAGAACC-AGTACCACGAAGACACG-AAGA
* *
18848147 GAAAGATCTAAGCCGCGACGACAGATCCAGTACCACGAAGA
1 GAAAGATCTAAGCCGCAACGACAGAACCAGTACCACGAAGA
18848188 TTTGAAGGGA
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
48 5 0.06
49 57 0.74
50 15 0.19
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.11
Consensus pattern (49 bp):
GAAAGATCTAAGCCGCAACGACAGAACCAGTACCACGAAGACACGAAGA
Found at i:18848200 original size:49 final size:47
Alignment explanation
Indices: 18848046--18848219 Score: 141
Period size: 49 Copynumber: 3.6 Consensus size: 47
18848036 GAGACATGAC
* * * * *
18848046 GGGAAAGATCTAAGGCCGTAACGGCGGATCCAATACCATGAAGACACGAA
1 GGGAAAGATCTAA-GCCGCAACGAC-GATCCAGTACCACGAAGA-AAGAA
* * *
18848096 GGGAAAGATCTAAGCCGCAACGACGAACCTAGTACTACGAAGACAGAAA
1 GGGAAAGATCTAAGCCGCAACGACGATCC-AGTACCACGAAGAAAG-AA
* * **
18848145 GAGAAAGATCTAAGCCGCGACGACAGATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATCTAAGCCGCAACGAC-GATCCAGTACCACGAAGA-AAGAA
* * * *
18848194 GGGAAAGGTTTAAGTCGCAATGACGA
1 GGGAAAGATCTAAGCCGCAACGACGA
18848220 ACCCGGTACC
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
48 7 0.07
49 75 0.75
50 18 0.18
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (47 bp):
GGGAAAGATCTAAGCCGCAACGACGATCCAGTACCACGAAGAAAGAA
Found at i:18848504 original size:39 final size:39
Alignment explanation
Indices: 18848462--18848594 Score: 117
Period size: 39 Copynumber: 3.4 Consensus size: 39
18848452 GAAGTTTCTG
* * * *
18848462 ATCTCTTACCCCGAGCTTGAGGCAGATTGAAGTCATTTG
1 ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGTCATTTA
* * ***
18848501 ATCTTTTACCCCAAGCCTGGGGCAGATCAT-CA-TCAACCA
1 ATCTCTTACCCCAAGCCTGAGGCAGAT--TGCAGTCATTTA
* * *
18848540 ATCTCTTACCCCGAGCCTGAGGTAGATTGCAGCCATTTA
1 ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGTCATTTA
*
18848579 ATCTTTTACCCCAAGC
1 ATCTCTTACCCCAAGC
18848595 TTGGGGAAGC
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 66 0.93
40 1 0.01
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (39 bp):
ATCTCTTACCCCAAGCCTGAGGCAGATTGCAGTCATTTA
Found at i:18848547 original size:78 final size:78
Alignment explanation
Indices: 18848462--18848707 Score: 334
Period size: 78 Copynumber: 3.2 Consensus size: 78
18848452 GAAGTTTCTG
*
18848462 ATCTCTTACCCCGAGCTTGAGGCAGATTGAAGTCATTTGATCTTTTACCCCAAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGAGGCAGATTGAAGCCATTTGATCTTTTACCCCAAGCCTGGGGCAGA
18848527 TCATCATCAACCA
66 TCATCATCAACCA
* * * * * * *
18848540 ATCTCTTACCCCGAGCCTGAGGTAGATTGCAGCCATTTAATCTTTTACCCCAAGCTTGGGGAAGC
1 ATCTCTTACCCCGAGCTTGAGGCAGATTGAAGCCATTTGATCTTTTACCCCAAGCCTGGGGCAGA
18848605 TCATCATCAACCA
66 TCATCATCAACCA
* * * * *
18848618 ATCTCTTACCCCGAGTTTGAGGCAAATT-ACAGCCATTTGATCTTTTACCTCGAGCCTGGGGCAT
1 ATCTCTTACCCCGAGCTTGAGGCAGATTGA-AGCCATTTGATCTTTTACCCCAAGCCTGGGGCAG
*
18848682 ATCATCGTCAACCA
65 ATCATCATCAACCA
18848696 ATCTAC-TACCCC
1 ATCT-CTTACCCC
18848708 TATCACGGGG
Statistics
Matches: 145, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
78 144 0.99
79 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGAGGCAGATTGAAGCCATTTGATCTTTTACCCCAAGCCTGGGGCAGA
TCATCATCAACCA
Found at i:18848621 original size:39 final size:39
Alignment explanation
Indices: 18848501--18848629 Score: 118
Period size: 39 Copynumber: 3.3 Consensus size: 39
18848491 AAGTCATTTG
* *
18848501 ATCTTTTACCCCAAGCCTGGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCAAGCCTGGGGAAGATCATCATCAACCA
* * * * ***
18848540 ATCTCTTACCCCGAGCCTGAGGTAGAT--TGCAGCCATTTA
1 ATCTCTTACCCCAAGCCTGGGGAAGATCAT-CA-TCAACCA
* * *
18848579 ATCTTTTACCCCAAGCTTGGGGAAGCTCATCATCAACCA
1 ATCTCTTACCCCAAGCCTGGGGAAGATCATCATCAACCA
18848618 ATCTCTTACCCC
1 ATCTCTTACCCC
18848630 GAGTTTGAGG
Statistics
Matches: 67, Mismatches: 19, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
37 1 0.01
38 2 0.03
39 61 0.91
40 2 0.03
41 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCAAGCCTGGGGAAGATCATCATCAACCA
Found at i:18849093 original size:201 final size:202
Alignment explanation
Indices: 18848795--18849592 Score: 1158
Period size: 201 Copynumber: 4.0 Consensus size: 202
18848785 ATCAATGAAA
* * * *
18848795 CAAGGCTCAAAACGAACAAATCTTCGAACCCCACCTTCCTAATGAGATACTGAGAAGCAAGTCGA
1 CAAGGCTCAAAATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGA
*
18848860 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTTGTCTTCCTGATGA
66 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGA
* *
18848925 GATACAAAGAAGCGAATTGAAAGAAGTGATGCAGTCATCTTCCTGATGAGATA-TAGAGAAGTAT
131 GATACAGAGAAGCGAATTGAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAGAGAAGTAT
18848989 ACCAACT
196 ACCAACT
*
18848996 CAAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG-AAGGTCG
1 CAAGGCTCAAAATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAA-GTCG
*
18849060 AAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATG
65 AAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATG
* *
18849125 AGATACAGAGAAGCGAATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATAC-AGAGAAGTA
130 AGATACAGAGAAGCGAATTGAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAGAGAAGTA
18849189 TACCAACT
195 TACCAACT
* * *
18849197 CAAGGCTCAAAATGAGCAAATCTTCGAACCCTAGCTTCCTGATAAGATACTGAGAAGCAGGTCGA
1 CAAGGCTCAAAATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGA
* * * *
18849262 AGCAATAAAATGGTTACCTTCCTAATGAGATACTGAGAAGTAAACCAAATTAGTCTTCCTGATGA
66 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGA
* * * * * *
18849327 GATACAGAGAAGCGGATTGAAACAAATTATGCAGTCATTTTCCTGATGAGATACTA-AGAAGAAG
131 GATACAGAGAAGCGAATTGAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAGAGAAGTAT
*
18849391 ACCAAAT
196 ACCAACT
* ** *
18849398 CAAACCCACGCTCAATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATTAGATACTGAGAAGCAA
1 C--A---AGGCTCAAAATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAA
* *
18849463 GTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACGGAGAAGTA-ACCAAATCCGTCTTCCT
61 GTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCT
* * * * ** *
18849527 GATGAAACACAGAGAAGTGGATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATACT-GAGA
126 GATGAGATACAGAGAAGCGAATTGAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAGAGA
18849591 AG
191 AG
18849593 AAGACCAAAT
Statistics
Matches: 538, Mismatches: 49, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
200 2 0.00
201 366 0.68
202 2 0.00
203 1 0.00
205 71 0.13
206 96 0.18
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (202 bp):
CAAGGCTCAAAATGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTCGA
AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGA
GATACAGAGAAGCGAATTGAAACAAGTGATGCAGTCATCTTCCTGATGAGATACTAGAGAAGTAT
ACCAACT
Found at i:18849957 original size:17 final size:18
Alignment explanation
Indices: 18849925--18849985 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 18
18849915 CGAACTTTTA
18849925 ATTTTAAATTTT-AATTT
1 ATTTTAAATTTTAAATTT
*
18849942 ATTTT-AATTTTAAATTC
1 ATTTTAAATTTTAAATTT
***
18849959 ATTTT-GGGTTTAAATTT
1 ATTTTAAATTTTAAATTT
*
18849976 ATTTTGAATT
1 ATTTTAAATT
18849986 AAAAATTGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
16 6 0.18
17 27 0.79
18 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (18 bp):
ATTTTAAATTTTAAATTT
Found at i:18860114 original size:6 final size:6
Alignment explanation
Indices: 18860105--18860189 Score: 52
Period size: 6 Copynumber: 14.8 Consensus size: 6
18860095 TTAATTTACT
* * * * * * *
18860105 TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA -TTCAT TTTGAG TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
18860151 TTT-AC TTTAAA TTTAAA TTT-AT TTTAAA TTAAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
18860190 TTTTTAAAAG
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
5 15 0.25
6 46 0.75
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:18860124 original size:17 final size:17
Alignment explanation
Indices: 18860086--18860193 Score: 117
Period size: 17 Copynumber: 6.2 Consensus size: 17
18860076 TGAGTCCAAT
* *
18860086 TTTTAATTTTTAATTTA
1 TTTTAAATTTAAATTTA
*
18860103 CTTTTAAGTTTAAATTTA
1 -TTTTAAATTTAAATTTA
*
18860121 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
* * *
18860138 TTTTGAGTTTAAGTTTA
1 TTTTAAATTTAAATTTA
*
18860155 CTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
18860172 TTTTAAATTAAAATTTAA
1 TTTTAAATTTAAATTT-A
18860190 TTTT
1 TTTT
18860194 TAAAAGTCCA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
17 55 0.73
18 20 0.27
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:18860165 original size:11 final size:11
Alignment explanation
Indices: 18860094--18860192 Score: 56
Period size: 11 Copynumber: 8.7 Consensus size: 11
18860084 ATTTTTAATT
**
18860094 TTTAATTTACT
1 TTTAATTTAAA
18860105 TTTAAGTTTAAA
1 TTTAA-TTTAAA
*
18860117 TTTATTTTAAA
1 TTTAATTTAAA
* * *
18860128 TTTAAATTCAT
1 TTTAATTTAAA
* *
18860139 TTTGAGTTTAAG
1 TTT-AATTTAAA
*
18860151 TTTACTTTAAA
1 TTTAATTTAAA
*
18860162 TTTAAATTT-AT
1 TTT-AATTTAAA
*
18860173 TTTAAATTAAAA
1 TTT-AATTTAAA
18860185 TTTAATTT
1 TTTAATTT
18860193 TTAAAAGTCC
Statistics
Matches: 66, Mismatches: 18, Indels: 8
0.72 0.20 0.09
Matches are distributed among these distances:
11 43 0.65
12 23 0.35
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:18860897 original size:3 final size:3
Alignment explanation
Indices: 18860889--18860932 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
18860879 AAATAGTGTC
* *
18860889 AAT AAT AAT AAT AAT AA- ATAT AAT GAT AAT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
18860933 AAAAGGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18862057 original size:30 final size:30
Alignment explanation
Indices: 18862021--18862166 Score: 101
Period size: 30 Copynumber: 4.9 Consensus size: 30
18862011 TTGAACTGCC
18862021 CAAAAAT-CATATTTTGACCCCTAAACTTTT
1 CAAAAATACAT-TTTTGACCCCTAAACTTTT
* * **
18862051 CAAAAATTACA-TTTTAACCCCTAAAGTTCA
1 CAAAAA-TACATTTTTGACCCCTAAACTTTT
* *
18862081 CAAAAAATACATTTTT-AACCCTAAAC-TTC
1 C-AAAAATACATTTTTGACCCCTAAACTTTT
*
18862110 CAAAAATTCCATTTTTGACCCC-AAA-TTTT
1 CAAAAA-TACATTTTTGACCCCTAAACTTTT
* *
18862139 CCAAAATTACCA-TTTT-ACCCCCAAACTT
1 -CAAAAATA-CATTTTTGACCCCTAAACTT
18862167 CCAAAAAAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
28 10 0.11
29 23 0.25
30 47 0.51
31 10 0.11
32 2 0.02
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (30 bp):
CAAAAATACATTTTTGACCCCTAAACTTTT
Found at i:18862123 original size:29 final size:29
Alignment explanation
Indices: 18862039--18862243 Score: 134
Period size: 29 Copynumber: 6.9 Consensus size: 29
18862029 ATATTTTGAC
* *
18862039 CCCTAAACTTTTCAAAAATTACA-TTTTAA
1 CCCTAAAC-TTCCAAAAATTCCATTTTTAA
* * *
18862068 CCCCTAAAGTTCACAAAAAATACATTTTTAA
1 -CCCTAAACTTC-CAAAAATTCCATTTTTAA
*
18862099 CCCTAAACTTCCAAAAATTCCATTTTTGA
1 CCCTAAACTTCCAAAAATTCCATTTTTAA
* * *
18862128 CCCCAAATTTTCC-AAAATTACCA-TTTTAC
1 CCCTAAA-CTTCCAAAAATT-CCATTTTTAA
* * *
18862157 CCCCAAACTTCCAAAAAAAATCACATTTTTAC
1 CCCTAAACTTCC--AAAAATTC-CATTTTTAA
*
18862189 CCCTGAACTTCC-AAAATTACCA-TTTT-A
1 CCCTAAACTTCCAAAAATT-CCATTTTTAA
* * *
18862216 CCCTCGAACCTCCAAAAATTACATTTTT
1 CCCT-AAACTTCCAAAAATTCCATTTTT
18862244 GCTCTCGAGT
Statistics
Matches: 143, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
27 4 0.03
28 17 0.12
29 57 0.40
30 36 0.25
31 13 0.09
32 16 0.11
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.32
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAA
Found at i:18862204 original size:60 final size:60
Alignment explanation
Indices: 18862052--18862233 Score: 176
Period size: 60 Copynumber: 3.0 Consensus size: 60
18862042 TAAACTTTTC
* * * * * *
18862052 AAAAATTACATTTTAACCCCTAAAGTTCACAAAAAATA-CATTTTTAACCCTAAACTTCC--A
1 AAAAATCACATTTTTACCCCTAAACTTC-C-AAAATTACCA-TTTTACCCCCAAACTTCCAAA
* *
18862112 AAAATTC-CATTTTTGACCCC-AAATTTTCCAAAATTACCATTTTACCCCCAAACTTCCAAA
1 AAAAATCACATTTTT-ACCCCTAAA-CTTCCAAAATTACCATTTTACCCCCAAACTTCCAAA
* * * *
18862172 AAAAATCACATTTTTACCCCTGAACTTCCAAAATTACCATTTTACCCTCGAACCTCCAAA
1 AAAAATCACATTTTTACCCCTAAACTTCCAAAATTACCATTTTACCCCCAAACTTCCAAA
18862232 AA
1 AA
18862234 TTACATTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
58 22 0.22
59 12 0.12
60 59 0.58
61 9 0.09
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (60 bp):
AAAAATCACATTTTTACCCCTAAACTTCCAAAATTACCATTTTACCCCCAAACTTCCAAA
Found at i:18862251 original size:29 final size:28
Alignment explanation
Indices: 18862138--18862242 Score: 88
Period size: 28 Copynumber: 3.6 Consensus size: 28
18862128 CCCCAAATTT
* * *
18862138 TCCAAAATTACCATTTTACCCCCAAACT
1 TCCAAAATTACCATTTTACCCTCGAACC
** *
18862166 TCCAAAAAAAATCACATTTTTACCC-CTGAACT
1 TCC-AAAATTA-C-CA-TTTTACCCTC-GAACC
18862198 TCCAAAATTACCATTTTACCCTCGAACC
1 TCCAAAATTACCATTTTACCCTCGAACC
18862226 TCCAAAAATTA-CATTTT
1 TCC-AAAATTACCATTTT
18862243 TGCTCTCGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
28 24 0.38
29 15 0.23
30 2 0.03
31 8 0.12
32 15 0.23
ACGTcount: A:0.37, C:0.30, G:0.02, T:0.30
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCCTCGAACC
Found at i:18862622 original size:97 final size:97
Alignment explanation
Indices: 18862512--18862696 Score: 273
Period size: 97 Copynumber: 1.9 Consensus size: 97
18862502 CATAAAACCT
* *
18862512 TTAAATCGAGGCAATATTCCTTTAT-TTTGAGTTTTGAAAATTTGTGCTTTAACTTACTACGCGC
1 TTAAATCGAGGCAATATTCCTTTATCTATG-GTTTTGAAAATTTGTGCCTTAACTTACTACGCGC
*
18862576 AATTTTTCTTCAAATCGAAATAATTGAATACCC
65 AACTTTTCTTCAAATCGAAATAATTGAATACCC
* * * **
18862609 TTAAATCGAGGCAATGTTTCTTTATCTATGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGTG
1 TTAAATCGAGGCAATATTCCTTTATCTATGGTTTTGAAAATTTGTGCCTTAACTTACTACGCGCA
*
18862674 ACTTTTCTTCAAATCGAGATAAT
66 ACTTTTCTTCAAATCGAAATAAT
18862697 CGAAAATCCT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 75 0.96
98 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (97 bp):
TTAAATCGAGGCAATATTCCTTTATCTATGGTTTTGAAAATTTGTGCCTTAACTTACTACGCGCA
ACTTTTCTTCAAATCGAAATAATTGAATACCC
Found at i:18871972 original size:3 final size:3
Alignment explanation
Indices: 18871959--18872018 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
18871949 ATATTGAGGC
*
18871959 AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
18872006 AGA AGA AGA AGA A
1 AGA AGA AGA AGA A
18872019 AGGGATGATC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18874525 original size:209 final size:209
Alignment explanation
Indices: 18874165--18874702 Score: 810
Period size: 209 Copynumber: 2.6 Consensus size: 209
18874155 GAGATTATCC
* * * * * *
18874165 AAAACAAGTGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAT-AGAACCA
1 AAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGA-AACCA
* * *
18874229 AGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGC
65 AGCTCAAAGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
* **
18874294 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTTTGATGAGAT
130 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAT
18874359 ACAGAGAAGCGGATT
195 ACAGAGAAGCGGATT
*
18874374 AAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAA
1 AAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAA
* * *
18874439 GCTCGACA-TGAGCGAACCTTTGAACCCCAGCTTCCTGATGAGATATTGAGAAGCAGGTCGAAGC
66 GCTC-AAAGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
18874503 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAT
130 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGAT
*
18874568 ACAGAGAAGTGGATT
195 ACAGAGAAGCGGATT
* * * * * *
18874583 GAAACAAGTGATGCGGTCATCTTCCTAATGAGGTACTGAGAAGAAGATCAAATCAACGAAACCAG
1 AAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAA
* * *
18874648 GCTCAAAGTGAGCGAATCTTTGAACCCTAGCTACCTGATGAGATACCGAGAAGCA
66 GCTCAAAGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
18874703 ATAAAATGGT
Statistics
Matches: 296, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
208 2 0.01
209 291 0.98
210 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (209 bp):
AAAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAA
GCTCAAAGTGAGCGAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATA
CAGAGAAGCGGATT
Found at i:18875236 original size:17 final size:17
Alignment explanation
Indices: 18875205--18875311 Score: 106
Period size: 17 Copynumber: 6.2 Consensus size: 17
18875195 TAAGTCCAAT
* *
18875205 TTTTAATTTTTAATTTA
1 TTTTAAATTTAAATTTA
* * *
18875222 CTTTAAGTTTGAATTTA
1 TTTTAAATTTAAATTTA
*
18875239 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
* * *
18875256 TTTTGAGTTTAATTTTA
1 TTTTAAATTTAAATTTA
*
18875273 CTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
*
18875290 TTTTAAATTAAAATTTAA
1 TTTTAAATTTAAATTT-A
18875308 TTTT
1 TTTT
18875312 TAAAAGTCCA
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
17 67 0.93
18 5 0.07
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:18876015 original size:3 final size:3
Alignment explanation
Indices: 18876007--18876059 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
18875997 AAATAGTATC
* ** *
18876007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC GGT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18876055 AAT AA
1 AAT AA
18876060 AAAAGGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18877191 original size:30 final size:28
Alignment explanation
Indices: 18877157--18877485 Score: 125
Period size: 29 Copynumber: 11.2 Consensus size: 28
18877147 TAGAAATCAT
*
18877157 ATTTTGACCCCTAAACTTTTCAAAAATTAC
1 ATTTTGA-CCCTAAA-TTTCCAAAAATTAC
* *
18877187 ATTTTAACCCCTAAATTTCACAAAAAATAC
1 ATTTTGA-CCCTAAATTTC-CAAAAATTAC
* * * ** *
18877217 ATTTTTAACCTCGAACATCCAAAAATTCC
1 ATTTTGACCCT-AAATTTCCAAAAATTAC
18877246 ATTTTTGACCCTAAATTATCCAAAAATTAC
1 A-TTTTGACCCTAAATT-TCCAAAAATTAC
* * * *
18877276 ATTTTTA-CTTGCAAAATTCCAAAAATTCC
1 ATTTTGACCCT--AAATTTCCAAAAATTAC
**
18877305 ATTTTTGA-CCTAGAATTTTTTAAAAATTACC
1 A-TTTTGACCCTA-AA-TTTCCAAAAATTA-C
* * *
18877336 ATTTT-ACCCTCGAACTTCTAAAAATT-C
1 ATTTTGACCCT-AAATTTCCAAAAATTAC
*
18877363 TATTTTTG-CCCTTAAACTTCCAAAAATT-C
1 -A-TTTTGACCC-TAAATTTCCAAAAATTAC
* * * *
18877392 TATTTTTGA-ACTCGAACTTCCAAAAATTCC
1 -A-TTTTGACCCT-AAATTTCCAAAAATTAC
* * *
18877422 ATTTTTGACCCCAAATTTTCTAAAATTACC
1 A-TTTTGACCCTAAATTTCCAAAAATTA-C
* * *
18877452 ATTTT-ACCCCCAAACTTCCAAAAAATCAC
1 ATTTTGA-CCCTAAATTTCC-AAAAATTAC
18877481 ATTTT
1 ATTTT
18877486 TTACCCTCGA
Statistics
Matches: 232, Mismatches: 44, Indels: 47
0.72 0.14 0.15
Matches are distributed among these distances:
27 1 0.00
28 6 0.03
29 130 0.56
30 93 0.40
31 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (28 bp):
ATTTTGACCCTAAATTTCCAAAAATTAC
Found at i:18877248 original size:29 final size:29
Alignment explanation
Indices: 18877207--18877544 Score: 177
Period size: 29 Copynumber: 11.6 Consensus size: 29
18877197 CTAAATTTCA
* * *
18877207 CAAAAAATACATTTTTAACCTCGAACATC
1 CAAAAATTCCATTTTTAACCTCGAACTTC
* * *
18877236 CAAAAATTCCATTTTTGACC-CTAAATTATC
1 CAAAAATTCCATTTTTAACCTC-GAACT-TC
* * * *
18877266 CAAAAATTACATTTTT-ACTTGCAAAATTC
1 CAAAAATTCCATTTTTAACCT-CGAACTTC
* * * *
18877295 CAAAAATTCCATTTTTGACCTAGAATTTTT
1 CAAAAATTCCATTTTTAACCTCGAA-CTTC
* *
18877325 TAAAAATTACCA-TTTTACCCTCGAACTTC
1 CAAAAATT-CCATTTTTAACCTCGAACTTC
* * ** **
18877354 TAAAAATTCTATTTTTGCCCTTAAACTTC
1 CAAAAATTCCATTTTTAACCTCGAACTTC
*
18877383 CAAAAATTCTATTTTTGAA-CTCGAACTTC
1 CAAAAATTCCATTTTT-AACCTCGAACTTC
* * * * *
18877412 CAAAAATTCCATTTTTGACCCCAAATTTT
1 CAAAAATTCCATTTTTAACCTCGAACTTC
* * * *
18877441 CTAAAATTACCA-TTTTACCCCCAAACTTC
1 CAAAAATT-CCATTTTTAACCTCGAACTTC
* *
18877470 CAAAAAATCACATTTTTTACCCTCGAACTT-
1 CAAAAATTC-CA-TTTTTAACCTCGAACTTC
** * * *
18877500 TTAAAATTACCA-TTTTACCCCCGAACCTC
1 CAAAAATT-CCATTTTTAACCTCGAACTTC
*
18877529 CAAAAATTGCATTTTT
1 CAAAAATTCCATTTTT
18877545 GCTCTTGAGT
Statistics
Matches: 239, Mismatches: 53, Indels: 34
0.73 0.16 0.10
Matches are distributed among these distances:
28 21 0.09
29 146 0.61
30 53 0.22
31 19 0.08
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (29 bp):
CAAAAATTCCATTTTTAACCTCGAACTTC
Found at i:18877250 original size:59 final size:58
Alignment explanation
Indices: 18877177--18877439 Score: 220
Period size: 59 Copynumber: 4.5 Consensus size: 58
18877167 CTAAACTTTT
* *
18877177 CAAAAATTACA-TTTTAACCCCTAAATTTCACAAAAAATACATTTTTAACCTCGAACATC
1 CAAAAATTCCATTTTTGACCCCTAAATTTC-CAAAAAATACATTTTTAA-CTCGAACATC
* * *
18877236 CAAAAATTCCATTTTTGA-CCCTAAATTATCCAAAAATTACATTTTT-ACTTGCAAAATTC
1 CAAAAATTCCATTTTTGACCCCTAAATT-TCCAAAAAATACATTTTTAACTCG-AACA-TC
** * * *
18877295 CAAAAATTCCATTTTTGA--CCTAGAATTTTTTAAAAATTACCA-TTTTACCCTCGAACTTC
1 CAAAAATTCCATTTTTGACCCCTA-AA-TTTCCAAAAAATA-CATTTTTA-ACTCGAACATC
* * * * * *
18877354 TAAAAATTCTATTTTTG-CCCTTAAACTTCC-AAAAATTCTATTTTTGAACTCGAACTTC
1 CAAAAATTCCATTTTTGACCCCTAAATTTCCAAAAAATAC-ATTTTT-AACTCGAACATC
18877412 CAAAAATTCCATTTTTGACCCC-AAATTT
1 CAAAAATTCCATTTTTGACCCCTAAATTT
18877440 TCTAAAATTA
Statistics
Matches: 165, Mismatches: 24, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
56 1 0.01
57 9 0.05
58 44 0.27
59 92 0.56
60 16 0.10
61 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTCCATTTTTGACCCCTAAATTTCCAAAAAATACATTTTTAACTCGAACATC
Found at i:18877486 original size:59 final size:58
Alignment explanation
Indices: 18877219--18877545 Score: 279
Period size: 59 Copynumber: 5.6 Consensus size: 58
18877209 AAAAATACAT
* * * * *
18877219 TTTTAACCTCGAACATCCAAAAATTCCATTTTTGACCCTAAATTATCCAAAAATTA-CA
1 TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCCTAAATT-TTCTAAAATTACCA
*** * * *
18877277 TTTTTACTTGCAAAATTCCAAAAATTCCATTTTTGA-CCTAGAATTTTTTAAAAATTACCA
1 -TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCCTA-AATTTTCT-AAAATTACCA
* * * * * * *
18877337 TTTTACCCTCGAACTTCTAAAAATTCTATTTTTG-CCCTTAAACTTCCAAAAATT-CTA
1 TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCC-TAAATTTTCTAAAATTACCA
* * *
18877394 TTTTTGA-ACTCGAACTTCCAAAAATTCCATTTTTGACCCCAAATTTTCTAAAATTACCA
1 -TTTT-ACCCCCGAACTTCCAAAAATTCCATTTTTGACCCTAAATTTTCTAAAATTACCA
* * * * *
18877453 TTTTACCCCCAAACTTCCAAAAAATCACATTTTTTACCCTCGAACTTT-TAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTC-CATTTTTGACCCT-AAATTTTCTAAAATTACCA
* *
18877512 TTTTACCCCCGAACCTCCAAAAATTGCATTTTTG
1 TTTTACCCCCGAACTTCCAAAAATTCCATTTTTG
18877546 CTCTTGAGTG
Statistics
Matches: 213, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
57 3 0.01
58 79 0.37
59 122 0.57
60 9 0.04
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (58 bp):
TTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCCTAAATTTTCTAAAATTACCA
Found at i:18877921 original size:97 final size:97
Alignment explanation
Indices: 18877814--18878004 Score: 269
Period size: 97 Copynumber: 2.0 Consensus size: 97
18877804 CATAAAACCT
* * * *
18877814 TTAAATCGAGGTAATATTCCTTTATTTC-GAGTTTTGAAAATTTGTGCTTTAACTTACTAGGCAC
1 TTAAATCGAGGCAATATTCCTTTATCTCTG-GTTTTGAAAATTTGTGCCTTAACTTACTAGACAC
* *
18877878 GATTTTTCTTCAAATCG-GAATAATTGAATACCC
65 GACTTTTCTTCAAATCGAG-ATAATCGAATACCC
* * *
18877911 TTAAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACGCG
1 TTAAATCGAGGCAATATTCCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACACG
18877976 ACTTTTCTTCAAATCGAGATAATCGAATA
66 ACTTTTCTTCAAATCGAGATAATCGAATA
18878005 TCCTCTTCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
97 81 0.98
98 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (97 bp):
TTAAATCGAGGCAATATTCCTTTATCTCTGGTTTTGAAAATTTGTGCCTTAACTTACTAGACACG
ACTTTTCTTCAAATCGAGATAATCGAATACCC
Found at i:18881201 original size:24 final size:24
Alignment explanation
Indices: 18881173--18881223 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
18881163 AGTTTGACTC
* *
18881173 AAACAAATAAATAGAATTTAATTG
1 AAACAAATAAACAGAATTTAACTG
18881197 AAACAAATAAACAGAATTTAACTG
1 AAACAAATAAACAGAATTTAACTG
18881221 AAA
1 AAA
18881224 ATTATTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAATTTAACTG
Found at i:18882230 original size:4 final size:4
Alignment explanation
Indices: 18882221--18882259 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
18882211 CTCATTTAAG
* *
18882221 AAGA AAGA AAGA AAGA AAGA AAGA AGGA AGAAA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AA
18882260 AATATTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 28 0.93
5 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:18882385 original size:29 final size:29
Alignment explanation
Indices: 18882316--18882387 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
18882306 GAGTAATTTA
*
18882316 AAAATAATTATGATTATCTCTTAAATTAT
1 AAAATAATTATTATTATCTCTTAAATTAT
18882345 AAAATAATTATTATTATCTCTTAAACTT-T
1 AAAATAATTATTATTATCTCTTAAA-TTAT
*
18882374 AAAATTATTATTAT
1 AAAATAATTATTAT
18882388 AAACTTTCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.47
Consensus pattern (29 bp):
AAAATAATTATTATTATCTCTTAAATTAT
Found at i:18886252 original size:6 final size:6
Alignment explanation
Indices: 18886241--18886266 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18886231 CCTGGCAACA
18886241 GCAGCT GCAGCT GCAGCT GCAGCT GC
1 GCAGCT GCAGCT GCAGCT GCAGCT GC
18886267 TGCTACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
Consensus pattern (6 bp):
GCAGCT
Found at i:18891514 original size:50 final size:50
Alignment explanation
Indices: 18891450--18891549 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
18891440 GCTAATTGAT
18891450 TTTTTCGAATAGATAAATTTATTTGTGTAATGCTTGAATTAAGTAGGGAG
1 TTTTTCGAATAGATAAATTTATTTGTGTAATGCTTGAATTAAGTAGGGAG
18891500 TTTTTCGAATAGATAAATTTATTTGTGTAATGCTTGAATTAAGTAGGGAG
1 TTTTTCGAATAGATAAATTTATTTGTGTAATGCTTGAATTAAGTAGGGAG
18891550 ACTAAATTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.42
Consensus pattern (50 bp):
TTTTTCGAATAGATAAATTTATTTGTGTAATGCTTGAATTAAGTAGGGAG
Found at i:18892029 original size:21 final size:21
Alignment explanation
Indices: 18891988--18892030 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18891978 AAGTGTGTTT
* *
18891988 ATGAAGTTAATTGTTAGATAA
1 ATGAAGTTAAGTGTTAAATAA
18892009 ATGAAGTT-AGTGATTAAATAA
1 ATGAAGTTAAGTG-TTAAATAA
18892030 A
1 A
18892031 CATGTTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (21 bp):
ATGAAGTTAAGTGTTAAATAA
Found at i:18892587 original size:29 final size:29
Alignment explanation
Indices: 18892538--18892621 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
18892528 CTAACAATTA
*
18892538 TGAAAATGTTATATCCGAATGGATATTTT
1 TGAAAAGGTTATATCCGAATGGATATTTT
* * *
18892567 TGGAAAGGTTATATCCGAATGGGTGTTTT
1 TGAAAAGGTTATATCCGAATGGATATTTT
*
18892596 TGAAAAGGATATTATCCGGAA-GGATA
1 TGAAAAGGTTA-TATCC-GAATGGATA
18892622 ATAAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
29 34 0.76
30 8 0.18
31 3 0.07
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (29 bp):
TGAAAAGGTTATATCCGAATGGATATTTT
Found at i:18892641 original size:40 final size:40
Alignment explanation
Indices: 18892595--18892683 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
18892585 ATGGGTGTTT
* *
18892595 TTGAAAAGGATATTATCCGGAAGGATAATAAATTAAAAGG
1 TTGAAAAGGATATTATCCGAAAGGATAATAAATGAAAAGG
* *
18892635 TTGAAAAGGATATTATCTGAAAGGGTAATAAATGAAAAGG
1 TTGAAAAGGATATTATCCGAAAGGATAATAAATGAAAAGG
*
18892675 TCGAAAAGG
1 TTGAAAAGG
18892684 TAAATTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.24
Consensus pattern (40 bp):
TTGAAAAGGATATTATCCGAAAGGATAATAAATGAAAAGG
Found at i:18895774 original size:16 final size:16
Alignment explanation
Indices: 18895753--18895791 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18895743 ATATGATTAG
18895753 CCTATACACCATTCAC
1 CCTATACACCATTCAC
*
18895769 CCTATATACCATTCAC
1 CCTATACACCATTCAC
*
18895785 TCTATAC
1 CCTATAC
18895792 CAACCAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (16 bp):
CCTATACACCATTCAC
Found at i:18898620 original size:24 final size:24
Alignment explanation
Indices: 18898588--18898638 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
18898578 ATTACAGTAA
*
18898588 CATTTTCATTAG-TAAAATCAGCAG
1 CATTTTCA-TAGACAAAATCAGCAG
*
18898612 CATTTTCATCGACAAAATCAGCAG
1 CATTTTCATAGACAAAATCAGCAG
18898636 CAT
1 CAT
18898639 ATTTATCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (24 bp):
CATTTTCATAGACAAAATCAGCAG
Found at i:18898704 original size:48 final size:50
Alignment explanation
Indices: 18898650--18898762 Score: 140
Period size: 48 Copynumber: 2.3 Consensus size: 50
18898640 TTTATCAGTA
* * * *
18898650 ATTCATCAGCAATATTATCCACTCCATTTGATG-T-AAAATTAGCATCAT
1 ATTCATCAGCAACATTATCCACTCCATCTGATGTTCAAAATCAGCAGCAT
**
18898698 ATTCATCAGCAACATTATCTTCTCCATCTGATGTTGCAAAATCAGCAGCAT
1 ATTCATCAGCAACATTATCCACTCCATCTGATGTT-CAAAATCAGCAGCAT
*
18898749 ATTCATCAACAACA
1 ATTCATCAGCAACA
18898763 ACTTCACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
48 29 0.53
49 1 0.02
51 25 0.45
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (50 bp):
ATTCATCAGCAACATTATCCACTCCATCTGATGTTCAAAATCAGCAGCAT
Found at i:18898838 original size:33 final size:33
Alignment explanation
Indices: 18898795--18898927 Score: 117
Period size: 33 Copynumber: 4.0 Consensus size: 33
18898785 CAATAGTAAA
*
18898795 CCCTCTTACATCACCCTCCACATCAGCTTCTAC
1 CCCTCCTACATCACCCTCCACATCAGCTTCTAC
* * *
18898828 CCCTCCTACATCACCTTCCTCAACAGCTTCTAC
1 CCCTCCTACATCACCCTCCACATCAGCTTCTAC
* * * * * *
18898861 CCTTTCTAGATCA-CTTTCACCATCAGATTCTAC
1 CCCTCCTACATCACCCTCCA-CATCAGCTTCTAC
* * *
18898894 CCCTTC-ATCATCACCCTCCCCATCAACTTCTAC
1 CCCTCCTA-CATCACCCTCCACATCAGCTTCTAC
18898927 C
1 C
18898928 TTTCTTTCAT
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
32 5 0.06
33 71 0.90
34 3 0.04
ACGTcount: A:0.22, C:0.46, G:0.03, T:0.29
Consensus pattern (33 bp):
CCCTCCTACATCACCCTCCACATCAGCTTCTAC
Found at i:18899885 original size:16 final size:16
Alignment explanation
Indices: 18899852--18899901 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
18899842 CGTTCTTGGG
*
18899852 TTAGGGA-TTCAACAAT
1 TTAGGGATTTCAA-TAT
*
18899868 TTGGGGATTTCAATAT
1 TTAGGGATTTCAATAT
*
18899884 TTAGGGATTTTAATAT
1 TTAGGGATTTCAATAT
18899900 TT
1 TT
18899902 TAAGGATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 24 0.83
17 5 0.17
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (16 bp):
TTAGGGATTTCAATAT
Found at i:18899956 original size:16 final size:17
Alignment explanation
Indices: 18899930--18899995 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
18899920 TTCGAAAGGC
18899930 TAATGATTTT-GGGATTT
1 TAAT-ATTTTAGGGATTT
* *
18899947 TAATATTTTGGGGGTTT
1 TAATATTTTAGGGATTT
*
18899964 TAATA-GTTAGGGATTT
1 TAATATTTTAGGGATTT
18899980 TAGA-ATTTTAGGGATT
1 TA-ATATTTTAGGGATT
18899996 CAAAAAAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
16 16 0.39
17 25 0.61
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (17 bp):
TAATATTTTAGGGATTT
Found at i:18908089 original size:207 final size:203
Alignment explanation
Indices: 18907735--18908295 Score: 932
Period size: 207 Copynumber: 2.8 Consensus size: 203
18907725 AATACAAATA
*
18907735 AATTTTGGGGATCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
1 AATTTTGGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
* *
18907800 ATTAATGTTAACTTTCAAGGGTTTACACTAACTAAGATCAAATTAAATAGATAAAATTTAAATTT
66 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATCAAATTTAATAGATAAAATTTAAATTT
* * *
18907865 AAATAATATTTAAATAAAAATCAACCCTAAAACTTTGTTTCAAAATAAAGTTTTGATTTTTATTT
131 AAATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATCAAAATAAAGTTTTAATTTTTATTT
18907930 AATAATTTTTT
196 AATAA---TTT
18907941 AATTTTGGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTTATTTCAAATA
1 AATTTTGGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAA-TTTTTTTTATTTCAAATA
* * * *
18908006 AATTAATGTTAAATTTCAATGATTTACACTAATTAAGATCAAATTTAATAGATAAAATTTATATT
65 AATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATCAAATTTAATAGATAAAATTTAAATT
* *
18908071 TAAATAACATTTAAATAAAAATCAGCCCTAAAATTTTGTATCAAAATAAAGTTTTAATTTTTATT
130 TAAATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATCAAAATAAAGTTTTAATTTTTATT
18908136 TAATAATTT
195 TAATAATTT
*
18908145 --TTTT-GGGACCATTTTAACACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
1 AATTTTGGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
18908207 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATCAAA-TTATATAGATAAAATTTAAATT
66 ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATCAAATTTA-ATAGATAAAATTTAAATT
18908271 TAAATAACATTTAAATAAAAATCAA
130 TAAATAACATTTAAATAAAAATCAA
18908296 ACACAAACAA
Statistics
Matches: 335, Mismatches: 18, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
199 3 0.01
200 99 0.30
201 38 0.11
202 4 0.01
204 3 0.01
206 45 0.13
207 143 0.43
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.43
Consensus pattern (203 bp):
AATTTTGGGGACCATTTTAGCACTATTGTAATTTTATGAATCATAATTTTTTTTATTTCAAATAA
ATTAATGTTAAATTTCAAGGGTTTACACTAACTAAGATCAAATTTAATAGATAAAATTTAAATTT
AAATAACATTTAAATAAAAATCAACCCTAAAACTTTGTATCAAAATAAAGTTTTAATTTTTATTT
AATAATTT
Found at i:18908383 original size:17 final size:16
Alignment explanation
Indices: 18908330--18908383 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
18908320 TTTTTATTTC
*
18908330 CTTCCTTCTTCCTTGG
1 CTTCCTTCTTCCTTCG
*
18908346 CTTCCTTTCTACCCTTC-
1 CTTCC-TTCT-TCCTTCG
18908363 CTTCCTTCTTCCTTCTG
1 CTTCCTTCTTCCTTC-G
18908380 CTTC
1 CTTC
18908384 TGCCGTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 5 0.16
16 9 0.29
17 13 0.42
18 4 0.13
ACGTcount: A:0.02, C:0.43, G:0.06, T:0.50
Consensus pattern (16 bp):
CTTCCTTCTTCCTTCG
Found at i:18912615 original size:3 final size:3
Alignment explanation
Indices: 18912607--18912632 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18912597 TGAAGTGGTA
18912607 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
18912633 ATGTTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18917997 original size:17 final size:17
Alignment explanation
Indices: 18917975--18918013 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18917965 AGGTGGAGAA
* *
18917975 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
18917992 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
18918009 CTTGT
1 CTTGT
18918014 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:18922493 original size:19 final size:19
Alignment explanation
Indices: 18922471--18922520 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
18922461 GCTAATATGT
18922471 TAAAAATAATAA-TTAAAAA
1 TAAAAATAA-AACTTAAAAA
18922490 TAAAAATAAAACTTAAAAA
1 TAAAAATAAAACTTAAAAA
*
18922509 AATAAAATAAAA
1 TA-AAAATAAAA
18922521 ATACAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 17 0.61
20 9 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAAATAAAACTTAAAAA
Found at i:18922495 original size:6 final size:6
Alignment explanation
Indices: 18922471--18922528 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
18922461 GCTAATATGT
* * *
18922471 TAAAAA TAATAAT TAAAAA TAAAAA TAAAACT TAAAAA AATAAAA TAAAAA
1 TAAAAA TAA-AAA TAAAAA TAAAAA TAAAA-A TAAAAA TA-AAAA TAAAAA
*
18922522 TACAAA T
1 TAAAAA T
18922529 GTGAATAGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
6 27 0.64
7 15 0.36
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:18925910 original size:15 final size:15
Alignment explanation
Indices: 18925890--18925919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18925880 CAATTAGAAG
*
18925890 TCCTTAATTTTAGTT
1 TCCTTAATTATAGTT
18925905 TCCTTAATTATAGTT
1 TCCTTAATTATAGTT
18925920 CTCATTCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (15 bp):
TCCTTAATTATAGTT
Found at i:18929194 original size:33 final size:33
Alignment explanation
Indices: 18929156--18929253 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
18929146 AAAATTGGTC
18929156 AAGAGTTAACAAGATGTGTTAAGCATTCAACCT
1 AAGAGTTAACAAGATGTGTTAAGCATTCAACCT
* * *
18929189 TAGAGTTAGA-AAGATGTGTTAA-AAGTCTAACCT
1 AAGAGTTA-ACAAGATGTGTTAAGCATTC-AACCT
18929222 AAGCA-TTAACAAGAT-TGGTTAAGCATTCAACC
1 AAG-AGTTAACAAGATGT-GTTAAGCATTCAACC
18929254 CAAAACCAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
32 5 0.09
33 43 0.81
34 5 0.09
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (33 bp):
AAGAGTTAACAAGATGTGTTAAGCATTCAACCT
Found at i:18947313 original size:23 final size:23
Alignment explanation
Indices: 18947276--18947455 Score: 153
Period size: 23 Copynumber: 7.8 Consensus size: 23
18947266 AACCAAAAAG
* * *
18947276 AGCCTTTGTGGCGTATTTTGATT
1 AGCCTTTATGACGTATTCTGATT
* *
18947299 AGCTTTTATAACGTATTCTGATT
1 AGCCTTTATGACGTATTCTGATT
** * *
18947322 AAACTTTGTGACATATTCTGATT
1 AGCCTTTATGACGTATTCTGATT
* * *
18947345 AGCCTTTGTGGCATATTCTGATT
1 AGCCTTTATGACGTATTCTGATT
18947368 AGCCTTTATGACGTATTCTGATT
1 AGCCTTTATGACGTATTCTGATT
* ** *
18947391 AGCCTCTATGGTGTATTCTAATT
1 AGCCTTTATGACGTATTCTGATT
** * *
18947414 AGTGTTTGTGGCGTATTCTGATT
1 AGCCTTTATGACGTATTCTGATT
* * *
18947437 AGTCTTTGTGGCGTATTCT
1 AGCCTTTATGACGTATTCT
18947456 ATTTGGTCTT
Statistics
Matches: 129, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 129 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (23 bp):
AGCCTTTATGACGTATTCTGATT
Found at i:18947387 original size:69 final size:69
Alignment explanation
Indices: 18947276--18947455 Score: 207
Period size: 69 Copynumber: 2.6 Consensus size: 69
18947266 AACCAAAAAG
* * * * *
18947276 AGCCTTTGTGGCGTATTTTGATTAGCTTTTATAACGTATTCTGATTAAACTTTGTGACATATTCT
1 AGCCTTTGTGGCGTATTCTGATTAGCCTTTATGACGTATTCTGATTAAACTCTATGACATATTCT
*
18947341 GATT
66 AATT
* ** ***
18947345 AGCCTTTGTGGCATATTCTGATTAGCCTTTATGACGTATTCTGATTAGCCTCTATGGTGTATTCT
1 AGCCTTTGTGGCGTATTCTGATTAGCCTTTATGACGTATTCTGATTAAACTCTATGACATATTCT
18947410 AATT
66 AATT
** * * *
18947414 AGTGTTTGTGGCGTATTCTGATTAGTCTTTGTGGCGTATTCT
1 AGCCTTTGTGGCGTATTCTGATTAGCCTTTATGACGTATTCT
18947456 ATTTGGTCTT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 93 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (69 bp):
AGCCTTTGTGGCGTATTCTGATTAGCCTTTATGACGTATTCTGATTAAACTCTATGACATATTCT
AATT
Found at i:18947456 original size:46 final size:46
Alignment explanation
Indices: 18947279--18947479 Score: 195
Period size: 46 Copynumber: 4.4 Consensus size: 46
18947269 CAAAAAGAGC
* * ** * **
18947279 CTTTGTGGCGTATTTTGATTAGCTTTTATAACGTATTCTGATTAAA
1 CTTTGTGGCGTATTCTGATTAGCCTTTATGGCGTATTCTAATTAGT
* * * * * *
18947325 CTTTGTGACATATTCTGATTAGCCTTTGTGGCATATTCTGATTAGC
1 CTTTGTGGCGTATTCTGATTAGCCTTTATGGCGTATTCTAATTAGT
* * * *
18947371 CTTTATGACGTATTCTGATTAGCCTCTATGGTGTATTCTAATTAGT
1 CTTTGTGGCGTATTCTGATTAGCCTTTATGGCGTATTCTAATTAGT
* * * * *
18947417 GTTTGTGGCGTATTCTGATTAGTCTTTGTGGCGTATTCTATTTGGT
1 CTTTGTGGCGTATTCTGATTAGCCTTTATGGCGTATTCTAATTAGT
*
18947463 CTTTGTGGCGTACTCTG
1 CTTTGTGGCGTATTCTG
18947480 CTAAGTTTAT
Statistics
Matches: 126, Mismatches: 29, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (46 bp):
CTTTGTGGCGTATTCTGATTAGCCTTTATGGCGTATTCTAATTAGT
Found at i:18956345 original size:18 final size:19
Alignment explanation
Indices: 18956322--18956361 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18956312 TGGGTACGTA
*
18956322 TATCATGATTTAA-TATTT
1 TATCATGATTAAAGTATTT
*
18956340 TATCATGCTTAAAGTATTT
1 TATCATGATTAAAGTATTT
18956359 TAT
1 TAT
18956362 ATTTATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (19 bp):
TATCATGATTAAAGTATTT
Found at i:18956422 original size:42 final size:43
Alignment explanation
Indices: 18956331--18956424 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
18956321 ATATCATGAT
* * *
18956331 TTAATATTTTATCATGCTTAAAGTATTTTATATTTATAGTTGA
1 TTAATATTTTAGCATGCTTAAAGTATATTATATTTATACTTGA
* *
18956374 TAAATATTTTAGCATGTTTAAA-TATATTATATTTCAT-CTT-A
1 TTAATATTTTAGCATGCTTAAAGTATATTATATTT-ATACTTGA
18956415 TGTAATATTT
1 T-TAATATTT
18956425 AAGATTAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.05
42 20 0.47
43 21 0.49
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.53
Consensus pattern (43 bp):
TTAATATTTTAGCATGCTTAAAGTATATTATATTTATACTTGA
Found at i:18956645 original size:19 final size:19
Alignment explanation
Indices: 18956631--18956686 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
18956621 AAAAAAATTC
*
18956631 AAAATAATTTTAAAAAATGT
1 AAAATAATTTT-AAAAATAT
*
18956651 AAAATAATTTTTAAAATAT
1 AAAATAATTTTAAAAATAT
18956670 AAAAT-ATTTATAAAAAT
1 AAAATAATTT-TAAAAAT
18956687 TCCACAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 17 0.53
20 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATAATTTTAAAAATAT
Found at i:18956647 original size:21 final size:20
Alignment explanation
Indices: 18956622--18956685 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
18956612 AAAATTACCA
18956622 AAAAAAT-TCAAAATAATTTT
1 AAAAAATGT-AAAATAATTTT
18956642 AAAAAATGTAAAATAATTTT
1 AAAAAATGTAAAATAATTTT
* *
18956662 -TAAAATATAAAAT-ATTTAT
1 AAAAAATGTAAAATAATTT-T
18956681 AAAAA
1 AAAAA
18956686 TTCCACAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 21 0.55
21 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAAATGTAAAATAATTTT
Found at i:18962755 original size:2 final size:2
Alignment explanation
Indices: 18962748--18962772 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18962738 GAGCATAATT
18962748 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
18962773 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18966793 original size:73 final size:71
Alignment explanation
Indices: 18966706--18966857 Score: 241
Period size: 73 Copynumber: 2.1 Consensus size: 71
18966696 AGATGAATGG
18966706 AAAACTTAAAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGGCAAAGAA
1 AAAA-TTAAAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACA-GCAAA-AA
18966771 ATAAAGCAT
63 ATAAAGCAT
* *
18966780 AAAATTAAAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAATAGCCAAAAATA
1 AAAATTAAAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGCAAAAAATA
*
18966845 ATGCAT
66 AAGCAT
*
18966851 AACATTA
1 AAAATTA
18966858 CCACTGATGA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
71 16 0.22
72 4 0.05
73 50 0.68
74 4 0.05
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (71 bp):
AAAATTAAAAATTATTACCATCACCATAATAGTGCTTAGAAGAAACCAAGAAACAGCAAAAAATA
AAGCAT
Found at i:18967444 original size:30 final size:30
Alignment explanation
Indices: 18967408--18967468 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
18967398 ACAGACAAAA
18967408 GAAATGAGTATGGTCTTTTTATGTACAACT
1 GAAATGAGTATGGTCTTTTTATGTACAACT
18967438 GAAATGAGTATGGTCTTTTTATGTACAACT
1 GAAATGAGTATGGTCTTTTTATGTACAACT
18967468 G
1 G
18967469 CAGTTTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (30 bp):
GAAATGAGTATGGTCTTTTTATGTACAACT
Found at i:18975584 original size:53 final size:53
Alignment explanation
Indices: 18975504--18975792 Score: 372
Period size: 53 Copynumber: 5.5 Consensus size: 53
18975494 AATTAAAAAG
*
18975504 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTATA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
*
18975557 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTAACA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
* * * * * *
18975610 GGTCCAATTAGTACGTGTCATCGTGAGTACATGAATCCTATTATGGATTAACA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
* * **
18975663 GGTCC---GACTACGTGTCATCGTGAGTATACGAATCCTACTATAGATTTACA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
* * * *
18975713 GGTCCGATGACTACGTGTCATTGTGAGTACATGGATCCTATTACGGA-TTAAA
1 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
* *
18975765 GGCCCGATGACT-CTGTGTTATCGTGAGT
1 GGTCCGATGACTAC-GTGTCATCGTGAGT
18975793 TATCAAAGTC
Statistics
Matches: 207, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
50 43 0.21
51 1 0.00
52 27 0.13
53 136 0.66
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (53 bp):
GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTACA
Found at i:18975728 original size:103 final size:102
Alignment explanation
Indices: 18975504--18975771 Score: 365
Period size: 103 Copynumber: 2.6 Consensus size: 102
18975494 AATTAAAAAG
* *
18975504 GGTCCGATGACTACGTGTCATCGTGAGTATATGAATCCTATTACGGATTTATAGGTCCGATGACT
1 GGTCCGATGACTACGTGTCATCGTGAGTACATGAATCCTATTACGGA-TTAAAGGTCC---GACT
* * *
18975569 ACGTGTCATCGTGAGTATATGAATCCTATTACGGATTAACA
62 ACGTGTCATCGTGAGTATACGAATCCTACTACAGATTAACA
* * * *
18975610 GGTCCAATTAGTACGTGTCATCGTGAGTACATGAATCCTATTATGGATTAACAGGTCCGACTACG
1 GGTCCGATGACTACGTGTCATCGTGAGTACATGAATCCTATTACGGATTAA-AGGTCCGACTACG
* *
18975675 TGTCATCGTGAGTATACGAATCCTACTATAGATTTACA
65 TGTCATCGTGAGTATACGAATCCTACTACAGATTAACA
* * *
18975713 GGTCCGATGACTACGTGTCATTGTGAGTACATGGATCCTATTACGGATTAAAGGCCCGA
1 GGTCCGATGACTACGTGTCATCGTGAGTACATGAATCCTATTACGGATTAAAGGTCCGA
18975772 TGACTCTGTG
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
102 7 0.05
103 85 0.59
105 3 0.02
106 48 0.34
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (102 bp):
GGTCCGATGACTACGTGTCATCGTGAGTACATGAATCCTATTACGGATTAAAGGTCCGACTACGT
GTCATCGTGAGTATACGAATCCTACTACAGATTAACA
Found at i:18989033 original size:16 final size:18
Alignment explanation
Indices: 18989002--18989037 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18988992 TTAACATGAC
18989002 TAAAAAAATATCAATAAA
1 TAAAAAAATATCAATAAA
18989020 TAAAAAAAT-T-AATAAA
1 TAAAAAAATATCAATAAA
18989036 TA
1 TA
18989038 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAAAATATCAATAAA
Found at i:18989037 original size:20 final size:18
Alignment explanation
Indices: 18989002--18989054 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
18988992 TTAACATGAC
*
18989002 TAAAAAAATATCAATAAA
1 TAAAAAAATATAAATAAA
18989020 TAAAAAAAT-T-AATAAA
1 TAAAAAAATATAAATAAA
**
18989036 TATTAAAATA-AAATAAA
1 TAAAAAAATATAAATAAA
18989053 TA
1 TA
18989055 TATTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 13 0.42
17 9 0.29
18 9 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAAAATATAAATAAA
Found at i:18989374 original size:6 final size:6
Alignment explanation
Indices: 18989365--18989429 Score: 55
Period size: 6 Copynumber: 11.2 Consensus size: 6
18989355 TTAAGTTAGA
** *
18989365 TTAAAT TTAAAT TTAAAT TTGCA- TAAAAT TTAAAT TT--AT TATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T-TAAAT
* *
18989411 TTAAAA TTAAAA TTAAAT T
1 TTAAAT TTAAAT TTAAAT T
18989430 AGATAAACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 38 0.81
7 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:18989410 original size:17 final size:17
Alignment explanation
Indices: 18989372--18989415 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18989362 AGATTAAATT
18989372 TAAATTTAAATTTGCATA
1 TAAATTTAAATTT-CATA
18989390 -AAATTTAAATTT-ATTA
1 TAAATTTAAATTTCA-TA
18989406 TAAATTTAAA
1 TAAATTTAAA
18989416 ATTAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.04
16 2 0.08
17 21 0.88
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTCATA
Found at i:18991517 original size:59 final size:59
Alignment explanation
Indices: 18991425--18991620 Score: 276
Period size: 59 Copynumber: 3.4 Consensus size: 59
18991415 AAATATTTTG
18991425 AAATTA-CATTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACC-CGATTTCACCAA
* *
18991484 AAATTACCA-TTTTACCCCCAAACTTTCCCAAATCCCA-TTTTAACCCTAATTTCACCAA
1 AAATTACCATTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCC-GATTTCACCAA
* * *
18991542 AAACTACCATTTTTACCCACGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-A
1 AAATTACCATTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAA-CCCGATTTCACCAA
*
18991601 AAATT-CTATTTTTACCCCCA
1 AAATTACCATTTTTACCCCCA
18991621 GAAGTCAAAA
Statistics
Matches: 121, Mismatches: 11, Indels: 11
0.85 0.08 0.08
Matches are distributed among these distances:
57 1 0.01
58 38 0.31
59 63 0.52
60 16 0.13
61 3 0.02
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.33
Consensus pattern (59 bp):
AAATTACCATTTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCGATTTCACCAA
Found at i:18997358 original size:24 final size:25
Alignment explanation
Indices: 18997331--18997381 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18997321 TTATTAATGA
18997331 ATTTTTATCA-TTAATA-TAATATTT
1 ATTTTTATCATTTAATACTAA-ATTT
*
18997355 ATTTTTATTATTTAATACTAAATTT
1 ATTTTTATCATTTAATACTAAATTT
18997380 AT
1 AT
18997382 AATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 9 0.38
25 12 0.50
26 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATCATTTAATACTAAATTT
Found at i:19003297 original size:3 final size:3
Alignment explanation
Indices: 19003291--19003315 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19003281 AACAAATACA
19003291 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
19003316 TATGCTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19013509 original size:15 final size:17
Alignment explanation
Indices: 19013491--19013524 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19013481 TAGAAAAAGC
19013491 AGATTGA-AA-AAAAAA
1 AGATTGATAACAAAAAA
19013506 AGATTGATAACAAAAAA
1 AGATTGATAACAAAAAA
19013523 AG
1 AG
19013525 TCTCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 2 0.12
17 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.15, T:0.15
Consensus pattern (17 bp):
AGATTGATAACAAAAAA
Found at i:19027592 original size:9 final size:9
Alignment explanation
Indices: 19027578--19027647 Score: 54
Period size: 9 Copynumber: 7.3 Consensus size: 9
19027568 ACTGGTTTTT
19027578 TTTTTATAA
1 TTTTTATAA
*
19027587 TTTTTAAAGA
1 TTTTTATA-A
19027597 TTTTTATAAA
1 TTTTTAT-AA
19027607 TTTTGTATATAA
1 -TTT-T-TATAA
19027619 TTTATT-T-A
1 TTT-TTATAA
*
19027627 TTTTTATGA
1 TTTTTATAA
19027636 TTTTTATAA
1 TTTTTATAA
19027645 TTT
1 TTT
19027648 CAAAATGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
7 2 0.04
8 5 0.10
9 20 0.40
10 9 0.18
11 8 0.16
12 3 0.06
13 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:19027602 original size:19 final size:19
Alignment explanation
Indices: 19027578--19027647 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 19
19027568 ACTGGTTTTT
19027578 TTTTTATAATTTTTAAAGA
1 TTTTTATAATTTTTAAAGA
19027597 TTTTTATAAATTTTGTATATA-A
1 TTTTTAT-AATTTT-TA-A-AGA
*
19027619 TTTATT-T-ATTTTT-ATGA
1 TTT-TTATAATTTTTAAAGA
19027636 TTTTTATAATTT
1 TTTTTATAATTT
19027648 CAAAATGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 17
0.70 0.02 0.28
Matches are distributed among these distances:
16 2 0.05
17 6 0.14
18 4 0.10
19 8 0.19
20 11 0.26
21 2 0.05
22 6 0.14
23 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTATAATTTTTAAAGA
Found at i:19028374 original size:31 final size:31
Alignment explanation
Indices: 19028332--19028395 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
19028322 GTTGCAGTAA
* *
19028332 TTTGGGTAATAAACTATAGTTTAGGTATTAC
1 TTTGGGCAATAAACTATAGTTTAGGTATCAC
* *
19028363 TTTGGGCAATAAAGTATGGTTTAGGTATCAC
1 TTTGGGCAATAAACTATAGTTTAGGTATCAC
19028394 TT
1 TT
19028396 GTAAGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (31 bp):
TTTGGGCAATAAACTATAGTTTAGGTATCAC
Found at i:19039006 original size:10 final size:10
Alignment explanation
Indices: 19038983--19039008 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19038973 TCTTTTCTCT
19038983 TTTCTTCTTC
1 TTTCTTCTTC
19038993 TTTCTTCTTC
1 TTTCTTCTTC
19039003 TTTCTT
1 TTTCTT
19039009 TTTGTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:19050661 original size:63 final size:63
Alignment explanation
Indices: 19050562--19050683 Score: 226
Period size: 63 Copynumber: 1.9 Consensus size: 63
19050552 ATTGACATAC
*
19050562 GAAATGAAGATCAACCACCATACAAAAGTAATTAAGGAAGAGCCAAAGAAAGTGGCAGTATAT
1 GAAATGAAGATCAACCACCATACAAAAATAATTAAGGAAGAGCCAAAGAAAGTGGCAGTATAT
*
19050625 GAAATGAAGATCAACCACCATGCAAAAATAATTAAGGAAGAGCCAAAGAAAGTGGCAGT
1 GAAATGAAGATCAACCACCATACAAAAATAATTAAGGAAGAGCCAAAGAAAGTGGCAGT
19050684 TACCTTCAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (63 bp):
GAAATGAAGATCAACCACCATACAAAAATAATTAAGGAAGAGCCAAAGAAAGTGGCAGTATAT
Done.