Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 363 of 410
Found at i:111605428 original size:28 final size:29
Alignment explanation
Indices: 111605373--111605430 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
111605363 TCAATTTAAA
111605373 AACTTTTCAATGTTAAAGAAATTACATTC
1 AACTTTTCAATGTTAAAGAAATTACATTC
111605402 AACTTTTCAATGTT-AAGAAATTACATTC
1 AACTTTTCAATGTTAAAGAAATTACATTC
111605430 A
1 A
111605431 TTCATCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (29 bp):
AACTTTTCAATGTTAAAGAAATTACATTC
Found at i:111609535 original size:17 final size:18
Alignment explanation
Indices: 111609507--111609540 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
111609497 ATTATGGAAT
*
111609507 TAAATTGATTATTAAATA
1 TAAATTGATTATCAAATA
111609525 TAAATTG-TTATCAAAT
1 TAAATTGATTATCAAAT
111609541 GTTCTGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (18 bp):
TAAATTGATTATCAAATA
Found at i:111613280 original size:24 final size:24
Alignment explanation
Indices: 111613253--111613304 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
111613243 AAGATTTAGA
* *
111613253 ATTTATTAGTAGAATATATTTGTT
1 ATTTATTAGCAGAAAATATTTGTT
* *
111613277 ATTTATTAGCATAAAATCTTTGTT
1 ATTTATTAGCAGAAAATATTTGTT
111613301 ATTT
1 ATTT
111613305 CTAGAAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (24 bp):
ATTTATTAGCAGAAAATATTTGTT
Found at i:111615252 original size:22 final size:23
Alignment explanation
Indices: 111615210--111615259 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
111615200 TTGCACTAAT
111615210 TATAATAATTAAAAATAT-AAAA
1 TATAATAATTAAAAATATAAAAA
** *
111615232 TATAATAATTAAATGTGTAAAAA
1 TATAATAATTAAAAATATAAAAA
111615255 TATAA
1 TATAA
111615260 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
TATAATAATTAAAAATATAAAAA
Found at i:111616561 original size:17 final size:17
Alignment explanation
Indices: 111616528--111616572 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
111616518 GAAAGGACAA
*
111616528 AATATAATTATAATTAT
1 AATATTATTATAATTAT
*
111616545 ACTATTGATTA-AATTAT
1 AATATT-ATTATAATTAT
111616562 AATATTATTAT
1 AATATTATTAT
111616573 TTGTAAAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
AATATTATTATAATTAT
Found at i:111623013 original size:22 final size:22
Alignment explanation
Indices: 111622988--111623030 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
111622978 AAAGGAGAGA
111622988 AAGGAGAAGGAGAAGAAGAAGG
1 AAGGAGAAGGAGAAGAAGAAGG
*
111623010 AAGGTGAAGGAGAAGAAGAAG
1 AAGGAGAAGGAGAAGAAGAAG
111623031 AAAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.02
Consensus pattern (22 bp):
AAGGAGAAGGAGAAGAAGAAGG
Found at i:111623444 original size:112 final size:113
Alignment explanation
Indices: 111623195--111624109 Score: 1400
Period size: 112 Copynumber: 8.0 Consensus size: 113
111623185 TAGTTATTTG
* * *
111623195 TTTTGTTAATAATTTATAGGATTAGG-T-TATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAG
1 TTTTATTAGTAATTTA-A-GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-TGTATTAG
* *
111623258 TGTATTGTGATTTTTTTAGTAATATATTTTTAAAAAAATAATTTTATAGCTA
63 CGTATTGTAATTTTTTTAGTAATATA-TTTTAAAAAAATAATTTTATAGCTA
111623310 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGT
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGT
111623374 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
66 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
*
111623422 TTTTATTAGTAATTTAATATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGT
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGT
111623486 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
66 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
* *
111623534 TTTTATTAATAATTTAAGATTATGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGT
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGT
111623598 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAAATAATTTTATAGCTA
66 ATTGTAATTTTTTTAGTAATATATTTT-AAAAAAATAATTTTATAGCTA
*
111623647 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGC
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGT
*
111623711 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTA
66 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
* *
111623759 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-TGTATTAGCG
* *
111623824 TATTGTGATTTTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTA
65 TATTGT-A-ATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
* *
111623875 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-TGTATTAGCG
* *
111623940 TATTGTGATTTTTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTA
65 TATTGT-A--ATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
*
111623992 TTTTATTAGTAATTTAAGATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTATGTATTAA
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG-TT--TATGTATTAG
* * * *
111624055 TGTATTGTGATTTTTATTTAGTAATGTA-TTT-AAAAAATAATTTTATAGTTA
63 CGTATTGT-AATTTT-TTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
111624106 TTTT
1 TTTT
111624110 GTGTTAGTAT
Statistics
Matches: 766, Mismatches: 22, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
112 297 0.39
113 147 0.19
114 37 0.05
115 66 0.09
116 127 0.17
117 90 0.12
118 2 0.00
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (113 bp):
TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGT
ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
Found at i:111623506 original size:225 final size:227
Alignment explanation
Indices: 111623195--111624109 Score: 1404
Period size: 225 Copynumber: 4.0 Consensus size: 227
111623185 TAGTTATTTG
* * *
111623195 TTTTGTTAATAATTTATAGGATTAGG-T-TATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAG
1 TTTTATTAGTAATTTA-A-GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAG-GTATTAG
* *
111623258 TGTATTGTGATTTTTTTAGTAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAAT
63 CGTATTGTAATTTTTTTAGTAATATA-TTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAAT
111623323 TTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGTATTGT-AATTTTT
127 TTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGTATTGTGAATTTTT
111623386 TTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
192 TTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
*
111623422 TTTTATTAGTAATTTAATATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGT
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATTAGCGT
*
111623486 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAATAATTTAA
66 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
*
111623551 GATTATGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGTATTGT-AATTTTTTTAG
131 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGTATTGTGAATTTTTTTAG
111623614 TAATATATTTTAAAAAAAATAATTTTATAGCTA
196 TAATATATTTT-AAAAAAATAATTTTATAGCTA
*
111623647 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGC
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATTAGCGT
*
111623711 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
111623776 GATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTT
131 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA-TGTATTAGCGTATTGTGA-ATTTTTTT
*
111623841 AGTAATATATTTTAAAAAAATATTTTTATAGCTA
194 AGTAATATATTTTAAAAAAATAATTTTATAGCTA
* *
111623875 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAG-GTATTAGCG
* *
111623940 TATTGTGATTTTTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAAT
65 TATTGT-A--ATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAAT
** *
111624005 TTAAGATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTATGTATTAATGTATTGTGATTT
127 TTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG-TT--TATGTATTAGCGTATTGTGAATT
* *
111624068 TTATTTAGTAATGTA-TTT-AAAAAATAATTTTATAGTTA
189 TT-TTTAGTAATATATTTTAAAAAAATAATTTTATAGCTA
111624106 TTTT
1 TTTT
111624110 GTGTTAGTAT
Statistics
Matches: 646, Mismatches: 26, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
224 114 0.18
225 218 0.34
226 2 0.00
227 54 0.08
228 74 0.11
229 20 0.03
230 13 0.02
231 40 0.06
232 10 0.02
233 99 0.15
234 2 0.00
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (227 bp):
TTTTATTAGTAATTTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATTAGCGT
ATTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTATGTATTAGCGTATTGTGAATTTTTTTAG
TAATATATTTTAAAAAAATAATTTTATAGCTA
Found at i:111623730 original size:337 final size:339
Alignment explanation
Indices: 111623195--111624109 Score: 1416
Period size: 337 Copynumber: 2.7 Consensus size: 339
111623185 TAGTTATTTG
* * *
111623195 TTTTGTTAATAATTTATAGGATTAGGT-TATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGT
1 TTTTATTAATAATTTA-A-GATTAGTTATATAAATTGTTAGTGTTTAGTGGTTTAG-GTATTAGT
*
111623259 GTATTGTGATTTTTTTAGTAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATT
63 GTATTGTAATTTTTTTAGTAATATA-TTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATT
111623324 TAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTA
127 TAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTA
*
111623389 GTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAATATTAGGTTATATAA
192 GTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAA
*
111623454 ATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGTATTGT-A-ATTTTTTTAGTAATATATTTTAAA
257 ATTATTAGTGTTTAGTGGTTTAGGTATTAGCGTATTGTGATATTTTTTTAGTAATATATTTTAAA
111623516 AAAATAATTTTATAGCTA
322 AAAATAATTTTATAGCTA
*
111623534 TTTTATTAATAATTTAAGATTATGTTATATAAATTGTTAGTGTTTAGTGGTTTA-GTATTAGCGT
1 TTTTATTAATAATTTAAGATTA-GTTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATTAGTGT
111623598 ATTGTAATTTTTTTAGTAATATATTTTAAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTA
65 ATTGTAATTTTTTTAGTAATATATTTT-AAAAAAATAATTTTATAGCTATTTTATTAGTAATTTA
*
111623663 AGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGCATTGTAATTTTTTTAGT
129 AGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGT
*
111623728 AATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAAT
194 AATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAAT
* *
111623793 TATTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTTAGTAATATATTTTAAAA
259 TATTAGTGTTTAGTGGTTTAG-GTATTAGCGTATTGTGATATTTTTTTAGTAATATATTTTAAAA
*
111623858 AAATATTTTTATAGCTA
323 AAATAATTTTATAGCTA
* *
111623875 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTATTAGTGTTTAGTGGTTTAGTGTATTAGTG
1 TTTTATTAATAATTTAAGATTA-GTTATATAAATTGTTAGTGTTTAGTGGTTTAG-GTATTAGTG
* *
111623940 TATTGTGATTTTTTTTTTAGTAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAAT
64 TATTGT-A--ATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAAT
** *
111624005 TTAAGATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTATGTATTAATGTATTGTGATTT
126 TTAAGATTAGGTTATATAAATTGTTAGTGTTTAGTGG-TT--TA-GTATTAGCGTATTGT-AATT
* *
111624068 TTATTTAGTAATGTA-TTT-AAAAAATAATTTTATAGTTATTTT
186 TT-TTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTT
111624110 GTGTTAGTAT
Statistics
Matches: 533, Mismatches: 25, Indels: 28
0.91 0.04 0.05
Matches are distributed among these distances:
336 4 0.01
337 219 0.41
338 3 0.01
339 55 0.10
340 1 0.00
341 91 0.17
343 32 0.06
344 3 0.01
345 50 0.09
346 22 0.04
347 34 0.06
348 8 0.02
349 11 0.02
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (339 bp):
TTTTATTAATAATTTAAGATTAGTTATATAAATTGTTAGTGTTTAGTGGTTTAGGTATTAGTGTA
TTGTAATTTTTTTAGTAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAG
ATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTATTAGCGTATTGTAATTTTTTTAGTAA
TATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTA
TTAGTGTTTAGTGGTTTAGGTATTAGCGTATTGTGATATTTTTTTAGTAATATATTTTAAAAAAA
TAATTTTATAGCTA
Found at i:111624175 original size:13 final size:15
Alignment explanation
Indices: 111624157--111624197 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
111624147 TTTAGTGTTT
111624157 TGTAATTTT-T-TAA
1 TGTAATTTTATATAA
111624170 TGTAATTTTTATATAA
1 TGTAA-TTTTATATAA
111624186 TGTAA-TTTATAT
1 TGTAATTTTATAT
111624198 TATTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.20
14 11 0.44
15 1 0.04
16 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TGTAATTTTATATAA
Found at i:111624225 original size:22 final size:22
Alignment explanation
Indices: 111624172--111624234 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
111624162 TTTTTTAATG
*
111624172 TAATTTTTATATAATGTAATTTA
1 TAATTTTTATATAAT-TTATTTA
*
111624195 T-ATTATTATAT-ATTTATTTGA
1 TAATTTTTATATAATTTATTT-A
*
111624216 TAATTTTTAT-TGATTTATT
1 TAATTTTTATATAATTTATT
111624235 AAAATGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 23 0.68
23 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TAATTTTTATATAATTTATTTA
Found at i:111626247 original size:33 final size:33
Alignment explanation
Indices: 111626210--111626321 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 33
111626200 ATTCATCTCA
*
111626210 GTACTCTACTCCTTCCGGCCCGTATCCACCTAT
1 GTACTCTACTCCTTCCGGCCCGTATCCACCTAC
* * **
111626243 GTACTCAACTCC-TCTAGAG-CCGTATCCACCGCC
1 GTACTCTACTCCTTC-CG-GCCCGTATCCACCTAC
* *
111626276 GTACTCTACTCCTTCCGGCCCATATCCACCTCC
1 GTACTCTACTCCTTCCGGCCCGTATCCACCTAC
* *
111626309 ATATTCTACTCCT
1 GTACTCTACTCCT
111626322 CTCGGCTCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
32 3 0.05
33 58 0.91
34 3 0.05
ACGTcount: A:0.18, C:0.43, G:0.11, T:0.29
Consensus pattern (33 bp):
GTACTCTACTCCTTCCGGCCCGTATCCACCTAC
Found at i:111631840 original size:28 final size:28
Alignment explanation
Indices: 111631807--111631861 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
111631797 TACATAACGA
111631807 TTTGGAAGTAAAAAAACAAGCCATAGCT
1 TTTGGAAGTAAAAAAACAAGCCATAGCT
111631835 TTTGGAAGTAAAAAAACAAGCCATAGC
1 TTTGGAAGTAAAAAAACAAGCCATAGC
111631862 ATAGGTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (28 bp):
TTTGGAAGTAAAAAAACAAGCCATAGCT
Found at i:111651755 original size:50 final size:51
Alignment explanation
Indices: 111651701--111651798 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
111651691 TTTCTCCAAT
* * *
111651701 TCGTGTTCAAGGCTGTTAAATAGACACTGGTGTGTGGTGTACC-GTGTAAG
1 TCGTGCTCAAGGCTGTTAAATAGACACAGGTGTGTGGTCTACCTGTGTAAG
* **
111651751 TCGTGCTCGATTCTGTTAAATAGACACAGGTGTGTGGTCTACCTGTGT
1 TCGTGCTCAAGGCTGTTAAATAGACACAGGTGTGTGGTCTACCTGTGT
111651799 GAGGAAGTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 37 0.90
51 4 0.10
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (51 bp):
TCGTGCTCAAGGCTGTTAAATAGACACAGGTGTGTGGTCTACCTGTGTAAG
Found at i:111667110 original size:21 final size:21
Alignment explanation
Indices: 111667084--111667155 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
111667074 GTGTTACAAT
*
111667084 AAGAGCTGAACAGAAGTTCGA
1 AAGAGCTGAACAGAAGCTCGA
* *
111667105 AAGAGCTGAACAAAAGCTCGG
1 AAGAGCTGAACAGAAGCTCGA
* *
111667126 AAGAGCTAAACAGAAGCTCAA
1 AAGAGCTGAACAGAAGCTCGA
111667147 AAGAGCTGA
1 AAGAGCTGA
111667156 TCCACCTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (21 bp):
AAGAGCTGAACAGAAGCTCGA
Found at i:111669835 original size:21 final size:23
Alignment explanation
Indices: 111669817--111669865 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
111669807 CTGATAAAAT
111669817 TTAAATTAA-AAAAAT-TAAAGA
1 TTAAATTAATAAAAATATAAAGA
*
111669838 TTAAATTAATAAAAATATAAACA
1 TTAAATTAATAAAAATATAAAGA
111669861 TTAAA
1 TTAAA
111669866 AATGAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.36
22 6 0.24
23 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAATTAATAAAAATATAAAGA
Found at i:111670846 original size:2 final size:2
Alignment explanation
Indices: 111670839--111670894 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
111670829 ATTGTTTCAC
111670839 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111670881 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
111670895 AAATAACGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111671622 original size:18 final size:18
Alignment explanation
Indices: 111671601--111671635 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111671591 GAGGCATTAT
111671601 CGAACAAAAACACATTTC
1 CGAACAAAAACACATTTC
**
111671619 CGAACAACCACACATTT
1 CGAACAAAAACACATTT
111671636 ATACAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (18 bp):
CGAACAAAAACACATTTC
Found at i:111680663 original size:18 final size:18
Alignment explanation
Indices: 111680624--111680664 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111680614 TTTATCAAAG
*
111680624 TTGATTTCACAAATAAAG
1 TTGATTTCACAAATAAAC
* *
111680642 TTGATTTCACGAATCAAC
1 TTGATTTCACAAATAAAC
111680660 TTGAT
1 TTGAT
111680665 ACTTAATCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTGATTTCACAAATAAAC
Found at i:111680884 original size:18 final size:18
Alignment explanation
Indices: 111680861--111680898 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
111680851 ACTAAAAAAT
*
111680861 TATTTTTATATTT-TTATA
1 TATTTTAAT-TTTATTATA
111680879 TATTTTAATTTTATTATA
1 TATTTTAATTTTATTATA
111680897 TA
1 TA
111680899 AATTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:111683600 original size:40 final size:40
Alignment explanation
Indices: 111683554--111683717 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 40
111683544 CGGGATTTAA
111683554 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
111683594 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
111683634 CCGGATATAATC-GCTAGCATAAATGCCTTCGAGACATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
111683674 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
111683714 CCGG
1 CCGG
111683718 TTATCATCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:111691184 original size:3 final size:3
Alignment explanation
Indices: 111691176--111691207 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
111691166 ATAATTTGGA
111691176 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111691208 GGTAACGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:111693576 original size:18 final size:19
Alignment explanation
Indices: 111693537--111693576 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
111693527 ATGATTTGAC
*
111693537 ATGATATGCACATGATATGT
1 ATGATATACACATGA-ATGT
111693557 ATGATATACACATG-ATGT
1 ATGATATACACATGAATGT
111693575 AT
1 AT
111693577 TCATTTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (19 bp):
ATGATATACACATGAATGT
Found at i:111693648 original size:25 final size:24
Alignment explanation
Indices: 111693619--111693689 Score: 106
Period size: 25 Copynumber: 2.9 Consensus size: 24
111693609 GGAGGAAGTG
*
111693619 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
*
111693643 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
111693668 CATAAAGGGCTTTGCCCCAGTT
1 CA-AAAGGGCTTTGCCCCAGTT
111693690 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 2 0.05
25 41 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:111693702 original size:24 final size:23
Alignment explanation
Indices: 111693619--111693716 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 23
111693609 GGAGGAAGTG
* *
111693619 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAG-TTAT
111693643 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAG-TTAT
111693668 CATAAAGGGCTTTGCCCCAGTTAT
1 CA-AAAGGGCTTTGCCCCAGTTAT
* **
111693692 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAG-GGCTTTGCC-CCAGTTAT
111693717 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
23 4 0.06
24 14 0.22
25 47 0.72
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (23 bp):
CAAAAGGGCTTTGCCCCAGTTAT
Found at i:111695054 original size:28 final size:29
Alignment explanation
Indices: 111695001--111695057 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
111694991 TGACACCCGA
*
111695001 AAGCTTACTGAAGAAAGTAATTACAACAT
1 AAGCTTACTGAAGAAAGTAACTACAACAT
111695030 AAGCTTACTGAA-AAAGTAACTACAACAT
1 AAGCTTACTGAAGAAAGTAACTACAACAT
111695058 TCTCTTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (29 bp):
AAGCTTACTGAAGAAAGTAACTACAACAT
Found at i:111699754 original size:4 final size:4
Alignment explanation
Indices: 111699745--111699798 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
111699735 TACGTACATT
111699745 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
111699793 TACA TA
1 TACA TA
111699799 TGCATAAACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:111703095 original size:36 final size:31
Alignment explanation
Indices: 111703009--111703083 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
111702999 GTAAAATTAT
111703009 AAATATAAAAAA-AATATTTTGTTATCATTTC
1 AAATA-AAAAAATAATATTTTGTTATCATTTC
* *
111703040 AACTAAAAAAATAATATTTTGTTTTCATTTC
1 AAATAAAAAAATAATATTTTGTTATCATTTC
111703071 AAATAAAAAAATA
1 AAATAAAAAAATA
111703084 TTTTAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.15
31 34 0.85
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.39
Consensus pattern (31 bp):
AAATAAAAAAATAATATTTTGTTATCATTTC
Found at i:111710978 original size:25 final size:25
Alignment explanation
Indices: 111710919--111710978 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
111710909 GACTCTTTTT
* * *
111710919 AAAAAATTAAGGACTAAATTTACTT
1 AAAAAATTAAAGACTAAATTGACTA
111710944 AAAAAA-TAAAGACTAAATTGAC-A
1 AAAAAATTAAAGACTAAATTGACTA
111710967 AAAAAATGTAAA
1 AAAAAAT-TAAA
111710979 CATTAAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.20
24 14 0.47
25 10 0.33
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.23
Consensus pattern (25 bp):
AAAAAATTAAAGACTAAATTGACTA
Found at i:111712540 original size:31 final size:31
Alignment explanation
Indices: 111712502--111712565 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
111712492 GACTCAAAGA
*
111712502 AAAAAAATAAAACGATGGAGTGGGCAACTAG
1 AAAAAAATAAAACAATGGAGTGGGCAACTAG
111712533 AAAAAAATAAAACAATGGAGTGGGCAACTAG
1 AAAAAAATAAAACAATGGAGTGGGCAACTAG
111712564 AA
1 AA
111712566 TTTTTTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.23, T:0.12
Consensus pattern (31 bp):
AAAAAAATAAAACAATGGAGTGGGCAACTAG
Found at i:111715032 original size:13 final size:11
Alignment explanation
Indices: 111714996--111715026 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
111714986 CCGCCCGTAT
111714996 TAATTTTTATA
1 TAATTTTTATA
*
111715007 TTATTTTTATA
1 TAATTTTTATA
111715018 TAATTTTTA
1 TAATTTTTA
111715027 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:111715182 original size:30 final size:30
Alignment explanation
Indices: 111715148--111715210 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
111715138 ACTTAACAAG
111715148 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
111715178 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
111715208 CAA
1 CAA
111715211 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:111725229 original size:7 final size:7
Alignment explanation
Indices: 111725187--111725226 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
111725177 TTTCAATTTC
111725187 ATATTGA
1 ATATTGA
111725194 ATATTGA
1 ATATTGA
111725201 ATATTGA
1 ATATTGA
111725208 ATATTGA
1 ATATTGA
*
111725215 ATATTTA
1 ATATTGA
111725222 ATATT
1 ATATT
111725227 TAAATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (7 bp):
ATATTGA
Found at i:111729900 original size:3 final size:3
Alignment explanation
Indices: 111729892--111729925 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
111729882 TTATTAAGCT
* *
111729892 TTA TTA TTA TTA TTG TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
111729926 ATTTATACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:111730196 original size:8 final size:7
Alignment explanation
Indices: 111730179--111730272 Score: 69
Period size: 6 Copynumber: 14.3 Consensus size: 7
111730169 TTATATTTAT
111730179 TTACTTA
1 TTACTTA
111730186 TTACTTCA
1 TTACTT-A
**
111730194 TTACCAA
1 TTACTTA
*
111730201 TTAATTA
1 TTACTTA
111730208 TTA-TTA
1 TTACTTA
111730214 TTA-TTA
1 TTACTTA
111730220 TTA-TTA
1 TTACTTA
*
111730226 TTATATTA
1 TTA-CTTA
111730234 TTA-TTA
1 TTACTTA
111730240 TTA-TTA
1 TTACTTA
111730246 TTA-TTA
1 TTACTTA
111730252 TTA-TTA
1 TTACTTA
111730258 TTA-TTA
1 TTACTTA
*
111730264 TTATTTA
1 TTACTTA
111730271 TT
1 TT
111730273 GTTATTACAA
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
6 48 0.62
7 19 0.24
8 11 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (7 bp):
TTACTTA
Found at i:111730212 original size:3 final size:3
Alignment explanation
Indices: 111730204--111730279 Score: 127
Period size: 3 Copynumber: 25.3 Consensus size: 3
111730194 TTACCAATTA
111730204 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
111730251 ATT ATT ATT ATT ATT ATTT ATT GTT ATT A
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT A
111730280 CAAATATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:111730443 original size:12 final size:12
Alignment explanation
Indices: 111730426--111730487 Score: 58
Period size: 12 Copynumber: 5.1 Consensus size: 12
111730416 ATGTATCCAT
111730426 TTATATTATTAC
1 TTATATTATTAC
111730438 TTATATTATTA-
1 TTATATTATTAC
111730449 TTACTATTACCGTTA-
1 TTA-TATTA---TTAC
111730464 TTAT-TTATTAC
1 TTATATTATTAC
*
111730475 CTATATTATTAC
1 TTATATTATTAC
111730487 T
1 T
111730488 ACTATTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 3 0.07
11 6 0.14
12 23 0.55
13 3 0.07
14 1 0.02
15 6 0.14
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (12 bp):
TTATATTATTAC
Found at i:111730474 original size:16 final size:16
Alignment explanation
Indices: 111730443--111730485 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
111730433 ATTACTTATA
111730443 TTATTATTACTATTACC
1 TTATTATTA-TATTACC
111730460 GTTATTATT-TATTACC
1 -TTATTATTATATTACC
111730476 TATATTATTA
1 T-TATTATTA
111730486 CTACTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 14 0.61
18 8 0.35
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (16 bp):
TTATTATTATATTACC
Found at i:111730493 original size:12 final size:11
Alignment explanation
Indices: 111730427--111730495 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 11
111730417 TGTATCCATT
111730427 TATATTATTAC
1 TATATTATTAC
*
111730438 TTATATTATTAT
1 -TATATTATTAC
*
111730450 TACTATTACCGTTAT
1 TA-TATTA---TTAC
111730465 TAT-TTATTACC
1 TATATTATTA-C
111730476 TATATTATTAC
1 TATATTATTAC
111730487 TACTATTAT
1 TA-TATTAT
111730496 ATTATTATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 3 0.06
11 8 0.17
12 27 0.56
13 3 0.06
14 1 0.02
15 6 0.12
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.55
Consensus pattern (11 bp):
TATATTATTAC
Found at i:111730512 original size:28 final size:28
Alignment explanation
Indices: 111730438--111730512 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
111730428 ATATTATTAC
**
111730438 TTATATTATTATTA-C-TATTACCGTTA
1 TTATATTATTATTATCATATTACCACTA
* *
111730464 TTAT-TTATTACCTAT-ATTATTACTACTA
1 TTATATTATTA-TTATCA-TATTACCACTA
111730492 TTATATTATTATTATCATATT
1 TTATATTATTATTATCATATT
111730513 TTACTCATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
25 6 0.16
26 6 0.16
28 19 0.50
29 7 0.18
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.56
Consensus pattern (28 bp):
TTATATTATTATTATCATATTACCACTA
Found at i:111737164 original size:66 final size:66
Alignment explanation
Indices: 111737058--111737189 Score: 210
Period size: 66 Copynumber: 2.0 Consensus size: 66
111737048 ATTCATATAC
* * *
111737058 CATTCATAACACATCTAATTAGGAGCATTAGATTCATTTCGATCAAAGCGTCCTAATTATTTGAC
1 CATTCATAACACACCTAATTAGGAGCATTAGATTCATTTCGATCAAAGCATCCTAATCATTTGAC
111737123 A
66 A
* * *
111737124 CATTCATAACACACCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGAC
1 CATTCATAACACACCTAATTAGGAGCATTAGATTCATTTCGATCAAAGCATCCTAATCATTTGAC
111737189 A
66 A
111737190 TAAGCATAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (66 bp):
CATTCATAACACACCTAATTAGGAGCATTAGATTCATTTCGATCAAAGCATCCTAATCATTTGAC
A
Found at i:111737301 original size:43 final size:43
Alignment explanation
Indices: 111737253--111737583 Score: 282
Period size: 43 Copynumber: 7.7 Consensus size: 43
111737243 ATTCACAAGC
*
111737253 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * ***
111737296 CTTAACCCTCTAAGCAGTAGGGAAACA-GATCAA-AGGC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * *
111737336 GGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTAAATTTACA-AGC
1 ---C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA-T
**
111737383 CTTAACATCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* ** * ***
111737426 CTTAACCCCCTAAGCAGTAGGGAAACA-AATCAA-AGGC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *
111737466 GGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAATTTACA-AA
1 ---C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*
111737512 CTTTAACCCCCTCAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*
111737556 CTTAACCCCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
111737584 ATCAAAGATG
Statistics
Matches: 224, Mismatches: 47, Indels: 34
0.73 0.15 0.11
Matches are distributed among these distances:
40 6 0.03
41 2 0.01
42 7 0.03
43 147 0.66
44 51 0.23
45 7 0.03
46 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:111737480 original size:130 final size:129
Alignment explanation
Indices: 111737242--111737633 Score: 640
Period size: 130 Copynumber: 3.0 Consensus size: 129
111737232 AGAATCAGTG
* *
111737242 AATTCACAAGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCT
1 AATTTACAAGCCTTAACT-CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCT
111737307 AAGCAGTAGGGAAACAGATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTA
65 AAGCAGTAGGGAAACAGATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTA
111737372 AATTTACAAGCCTTAACATCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCT
1 AATTTACAAGCCTTAAC-TCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCT
* *
111737437 AAGCAGTAGGGAAACAAATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTG
65 AAGCAGTAGGGAAACAGATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTA
* * * *
111737502 AATTTACAAACTTTAACCCCCTCAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCT
1 AATTTACAAGCCTTAA-CTCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCT
** * * *
111737567 AAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCTA
65 AAGCAGTAGGGAAACAGATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTA
111737632 AA
1 AA
111737634 AATTACAGAT
Statistics
Matches: 245, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
130 243 0.99
131 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (129 bp):
AATTTACAAGCCTTAACTCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTA
AGCAGTAGGGAAACAGATCAAAGGCGATGGGCTTTAACCCCCTAAGTAGTAGGGTAACAAGCTA
Found at i:111737603 original size:87 final size:87
Alignment explanation
Indices: 111737254--111737646 Score: 297
Period size: 87 Copynumber: 4.5 Consensus size: 87
111737244 TTCACAAGCC
* * *
111737254 TTAACTCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
**
111737319 AACAGATCAAAGGCGATGGGCT
66 AACAGATCAAAGATGATGGGCT
* * * **
111737341 TTAACCCCCTAAGTAGTAGGGTAACAAGCTAAATTTACA-AGCCTTAACATCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGA-TCTTAACCCCCTAAGCAGTAGGG
* * * *
111737405 TAACAGGCTGAATTTACA-GAT---C-
65 AAACA-GATCAA---AGATGATGGGCT
* ** ** *
111737427 TTAACCCCCTAAGCAGTAGGGAAACA-AATCAAA--GGC-GATGGGCTTTAACCCCCTAAGTAGT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAGAT---C-TTAACCCCCTAAGCAGT
* * * * * ****
111737488 AGGGTAACA-AGCTGAA-TTTACAAACT
61 AGGGAAACAGATC-AAAGATGATGGGCT
* *
111737514 TTAACCCCCTCAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
111737579 AACAGATCAAAGATGATGGGCT
66 AACAGATCAAAGATGATGGGCT
* *
111737601 TTAACCCCCTAAGCAGTAGGGTAATAGGCTAAAAATTACAGATCTT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAATTTACAGATCTT
111737647 GCCTCCTTGA
Statistics
Matches: 231, Mismatches: 51, Indels: 47
0.70 0.16 0.14
Matches are distributed among these distances:
83 2 0.01
84 2 0.01
85 1 0.00
86 57 0.25
87 143 0.62
88 18 0.08
89 1 0.00
90 6 0.03
91 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (87 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
AACAGATCAAAGATGATGGGCT
Found at i:111737836 original size:49 final size:45
Alignment explanation
Indices: 111737634--111738044 Score: 259
Period size: 45 Copynumber: 9.0 Consensus size: 45
111737624 ATAGGCTAAA
** * * *
111737634 AATTACAGATCTTGCCTCCTTGAAGTTGTAGTGGAGCAGATCGAAG
1 AATTACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
** * * * * *
111737680 AA-GGCGAATCTTACCTTCTTGAAGTTGCAGTGAAGCAGATTTAAG
1 AATTAC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
** * * ** * * *
111737725 --CCACCATCCTATCTCCCT-AAGCAGTAGTGGAGTAGACTGAAG
1 AATTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * *
111737767 -ATATCCAATCCTATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGTTG
1 AAT-TACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GA--AG
* *
111737815 AATTACAGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCGAAG
1 AATTACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
111737861 ACATT--AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-A-
1 A-ATTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
111737903 AATTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG
1 AATTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
111737949 -A-TAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 AATTA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* ** * *
111737994 CTAAATTACAGATCCTATCTCTTTGAAGTTACAGTGGAGCACATTGAAG
1 ---AATTACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
111738043 AA
1 AA
111738045 AAGAAGCGTC
Statistics
Matches: 281, Mismatches: 60, Indels: 48
0.72 0.15 0.12
Matches are distributed among these distances:
41 3 0.01
42 18 0.06
43 12 0.04
44 77 0.27
45 84 0.30
46 11 0.04
47 3 0.01
48 7 0.02
49 64 0.23
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
AATTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:111737974 original size:45 final size:44
Alignment explanation
Indices: 111737649--111738043 Score: 249
Period size: 44 Copynumber: 8.7 Consensus size: 44
111737639 CAGATCTTGC
* * * * *
111737649 CTCCTTGAAGTTGTAGTGGAGCAGATCGAAGA-AGGCGAATCTTAC
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA--CAAATCTTAT
* * * * ** * *
111737694 CTTCTTGAAGTTGCAGTGAAGCAGATTTAAGCCAC-CATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
** * * * * *
111737737 CTCCCT-AAGCAGTAGTGGAGTAGACTGAAGATATCCAATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTAT
* * * *
111737781 TTCCCTGAAGTTGCAGTGGAACAGATTGGAGTTGAATTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATT-GA--AG-A-TACAAATCTTAT
* * * ** *
111737830 CTCCCTGAGGTTGCAGTGGAGCAGATCGAAGACATTAACCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
* *
111737874 CTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAATCTTAT
* *
111737918 CTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTAT
* * * *
111737963 TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----A-TACAAATCTTAT
** * *
111738012 CTCTTTGAAGTTACAGTGGAGCACATTGAAGA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
111738044 AAAGAAGCGT
Statistics
Matches: 267, Mismatches: 66, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
42 18 0.07
43 11 0.04
44 83 0.31
45 79 0.30
46 4 0.01
48 3 0.01
49 65 0.24
50 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTAT
Found at i:111739828 original size:8 final size:7
Alignment explanation
Indices: 111739811--111739907 Score: 63
Period size: 6 Copynumber: 15.3 Consensus size: 7
111739801 TTATATTTAT
111739811 TTACTTA
1 TTACTTA
111739818 TTACTTCA
1 TTACTT-A
**
111739826 TTACCAA
1 TTACTTA
*
111739833 TTAATT-
1 TTACTTA
*
111739839 TAACTTA
1 TTACTTA
111739846 TTA-TTA
1 TTACTTA
111739852 TTA-TTA
1 TTACTTA
111739858 TTA-TTA
1 TTACTTA
111739864 TTA-TTA
1 TTACTTA
111739870 TTA-TTA
1 TTACTTA
111739876 TTA-TTA
1 TTACTTA
111739882 TTA-TTA
1 TTACTTA
111739888 TTA-TTA
1 TTACTTA
111739894 -TA-TTA
1 TTACTTA
*
111739899 TTATTTA
1 TTACTTA
111739906 TT
1 TT
111739908 GTTATTACAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
5 5 0.06
6 51 0.65
7 17 0.22
8 5 0.06
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (7 bp):
TTACTTA
Found at i:111739851 original size:3 final size:3
Alignment explanation
Indices: 111739843--111739914 Score: 119
Period size: 3 Copynumber: 24.0 Consensus size: 3
111739833 TTAATTTAAC
111739843 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
111739891 TTA -TA TTA TTA TTTA TTG TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA
111739915 CAAATATATT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:111740082 original size:3 final size:3
Alignment explanation
Indices: 111740064--111740146 Score: 62
Period size: 3 Copynumber: 27.0 Consensus size: 3
111740054 TATCCATTTA
* * **
111740064 TAT TAT TACT TA- TAT TAT TAT TAC TAT TAC CGT TAT TATT TAT TACCT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA--T
* *
111740112 TAT TAT TAT TAC TAC TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111740147 ATTTTACTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 4 0.06
3 51 0.80
4 6 0.09
5 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:111740099 original size:18 final size:16
Alignment explanation
Indices: 111740078--111740149 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 16
111740068 ATTACTTATA
111740078 TTATTATTACTATTACC
1 TTATTATTA-TATTACC
111740095 GTTATTATT-TATTACC
1 -TTATTATTATATTACC
111740111 TTATTA-T-TATTA-C
1 TTATTATTATATTACC
*
111740124 -TACTATTATATTA--
1 TTATTATTATATTACC
111740137 TTATTATTATATT
1 TTATTATTATATT
111740150 TTACTCATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
12 4 0.08
13 2 0.04
14 22 0.45
15 6 0.12
16 7 0.14
18 8 0.16
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (16 bp):
TTATTATTATATTACC
Found at i:111740101 original size:30 final size:27
Alignment explanation
Indices: 111740066--111740142 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 27
111740056 TCCATTTATA
111740066 TTATTACTTATATTATTATTACTATTACC
1 TTATTA-TTATATTATTATTACTATTA-C
*
111740095 GTTATTATT-TATTACCTTATTATTATTAC
1 -TTATTATTATATTA--TTATTACTATTAC
*
111740124 -TACTATTATATTATTATTA
1 TTATTATTATATTATTATTA
111740143 TTATATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
26 6 0.14
27 6 0.14
28 10 0.24
29 3 0.07
30 17 0.40
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.57
Consensus pattern (27 bp):
TTATTATTATATTATTATTACTATTAC
Found at i:111740159 original size:14 final size:14
Alignment explanation
Indices: 111740097--111740159 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
111740087 CTATTACCGT
111740097 TATTAT-TTATTACC
1 TATTATATTATTA-C
*
111740111 TTATTATTATTACTAC
1 -TATTA-TATTATTAC
*
111740127 TATTATATTATTAT
1 TATTATATTATTAC
111740141 TATTATATT-TTAC
1 TATTATATTATTAC
111740154 TCATTA
1 T-ATTA
111740160 CTCTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
13 4 0.10
14 20 0.49
15 10 0.24
16 2 0.05
17 5 0.12
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATATTATTAC
Found at i:111740159 original size:23 final size:23
Alignment explanation
Indices: 111740096--111740159 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
111740086 ACTATTACCG
111740096 TTATTAT-TTATTAC-C-TTATTA
1 TTATTATATT-TTACTCATTATTA
*
111740117 TTATTACTACTATTA-T-ATTATTA
1 TTATTA-TA-TTTTACTCATTATTA
111740140 TTATTATATTTTACTCATTA
1 TTATTATATTTTACTCATTA
111740160 CTCTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
21 10 0.29
22 4 0.12
23 19 0.56
24 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTATATTTTACTCATTATTA
Found at i:111748236 original size:19 final size:19
Alignment explanation
Indices: 111748212--111748256 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
111748202 AACTTTCTTA
111748212 AATATTAATATAAACTTTT
1 AATATTAATATAAACTTTT
*
111748231 AATATT-ATATAGACTTTT
1 AATATTAATATAAACTTTT
111748249 AA-ATTAAT
1 AATATTAAT
111748257 TTATTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 6 0.25
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
AATATTAATATAAACTTTT
Found at i:111748645 original size:2 final size:2
Alignment explanation
Indices: 111748638--111748672 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
111748628 CATCCGTGTA
111748638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111748673 AAGTATTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111751128 original size:18 final size:18
Alignment explanation
Indices: 111751080--111751203 Score: 63
Period size: 17 Copynumber: 7.3 Consensus size: 18
111751070 ATAAATAAAT
*
111751080 AATAAAATATA-ATATAT
1 AATAAAATATATATATAG
111751097 AATAAAA-ATGATATA-ACG
1 AATAAAATAT-ATATATA-G
*
111751115 AATAAAATATATAT-TAA
1 AATAAAATATATATATAG
* *
111751132 AATAACATA-ATACAT-G
1 AATAAAATATATATATAG
* *
111751148 -ATAAAATGTCTA-ATAG
1 AATAAAATATATATATAG
111751164 AATATAAATA-ATACT-TAG
1 AATA-AAATATATA-TATAG
* *
111751182 -ATAAAAAATATATATAT
1 AATAAAATATATATATAG
111751199 AATAA
1 AATAA
111751204 TTTTTATATA
Statistics
Matches: 80, Mismatches: 12, Indels: 29
0.66 0.10 0.24
Matches are distributed among these distances:
15 8 0.10
16 13 0.16
17 31 0.39
18 26 0.32
19 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (18 bp):
AATAAAATATATATATAG
Found at i:111751217 original size:15 final size:15
Alignment explanation
Indices: 111751165--111751270 Score: 66
Period size: 15 Copynumber: 7.5 Consensus size: 15
111751155 GTCTAATAGA
*
111751165 ATATAAATAATACTT
1 ATATAAATAATATTT
* * *
111751180 AGATAAAAAATATAT
1 ATATAAATAATATTT
*
111751195 ATAT-AATAATTTTT
1 ATATAAATAATATTT
*
111751209 ATATAAATAATGTTT
1 ATATAAATAATATTT
*
111751224 GTAGTAAA-AATA---
1 ATA-TAAATAATATTT
111751236 ATATAAA-AATATTT
1 ATATAAATAATATTT
*
111751250 AAAATAAATAA-A-TT
1 -ATATAAATAATATTT
111751264 ATATAAA
1 ATATAAA
111751271 AATTTTAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
11 8 0.11
12 2 0.03
13 6 0.09
14 13 0.19
15 35 0.50
16 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.38
Consensus pattern (15 bp):
ATATAAATAATATTT
Found at i:111754952 original size:22 final size:21
Alignment explanation
Indices: 111754917--111755011 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
111754907 AAAAGGTATC
* *
111754917 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111754938 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111754961 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111754980 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
111754998 TGCATATCATATCT
1 TACAAATCATATCT
111755012 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111754960 original size:23 final size:22
Alignment explanation
Indices: 111754917--111754974 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
111754907 AAAAGGTATC
* *
111754917 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
111754938 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
111754961 TGCATATCATATCT
1 TACAAATCATATCT
111754975 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:111754977 original size:19 final size:19
Alignment explanation
Indices: 111754953--111755026 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
111754943 AATCATATCT
111754953 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111754972 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111754990 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111755009 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111755027 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111754999 original size:37 final size:38
Alignment explanation
Indices: 111754946--111755026 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
111754936 ATTACAAAAT
111754946 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
111754982 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
111755019 CATATCAT
1 CATATCAT
111755027 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:111755046 original size:37 final size:37
Alignment explanation
Indices: 111754956--111755035 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
111754946 CATATCTTCT
* *
111754956 AAGATTGCATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
111754993 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
111755029 AAGATTA
1 AAGATTA
111755036 TATTTCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:111755623 original size:87 final size:86
Alignment explanation
Indices: 111755459--111755623 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 86
111755449 ATAATATAGA
* *
111755459 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCG
1 GATGCCAAATCATCTTAGATCTGCTTCA-CGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
*
111755524 ATTTGCTCCTTGTGAACACAAG
65 ATCTGCTCCTTGTGAACACAAG
* * * *
111755546 GATGCCAAATCATCTTGGATCTGCTTCA-GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTGCTTCACGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCTT
* *
111755609 TAATCTGCTTCTTGT
63 CAATCTGCTCCTTGT
111755624 AAACTTATGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
85 2 0.03
86 3 0.05
87 60 0.91
88 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTGCTTCACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAA
TCTGCTCCTTGTGAACACAAG
Found at i:111755827 original size:261 final size:257
Alignment explanation
Indices: 111755348--111755861 Score: 705
Period size: 261 Copynumber: 2.0 Consensus size: 257
111755338 TGACGGCTTC
*
111755348 AATCTGCTTCACTGCAAACTTAAGACTGTCATGTTAATATCTTCGATCTGCTCTTCGTCGAACAC
1 AATCTGCTTCACTGCAAACTTAAGACTATCATGTTAATATCTTCGATCTGCTCTTCGTCGAACAC
* * * *
111755413 AGAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGATAATATAGAGATGCCAAATCATCTTAGA
66 AGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAAAAATACAGAGATGCCAAATCATCTTAGA
* * *
111755478 TCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACAC
131 TCTGCTTCAGCGTAAACACGCGAAAACCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACAC
*
111755543 AAGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCT
196 AAGGATGCCAAACCATCTTGGATCTGCTTCAGT----T-ATCTGAAGGTCAGATCTGCTATGTCT
111755608 TT
256 TT
* * * * * * *
111755610 AATCTGCTTC-TTGTAAACTTATGACTATCCTGTTGATATCTTCGATCTGCTC-TC-TGCTGGAT
1 AATCTGCTTCACTGCAAACTTAAGACTATCATGTTAATATCTTCGATCTGCTCTTCGT-C-GAAC
* *
111755672 ACAGAGACGCCAAATCTGTTTCTTTGATTTGTTCTCTAAAAATACAGAGATGCCAAATCATCTTA
64 ACAGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAAAAATACAGAGATGCCAAATCATCTTA
* * * *
111755737 GATTTGTTTCAGCGTAAGCACGCGAAAACCAAAT-TAGCTATGTCTTCGATTTGTTCCTTGT-AA
129 GATCTGCTTCAGCGTAAACACGCGAAAACCAAATCT-GCTATGTCTTCGATTTGCTCCTTGTGAA
*
111755800 GCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTTATCTGAAGGTTAGATCTGCTATGT
193 -CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTTATCTGAAGGTCAGATCTGCTATGT
111755862 ATTTGCTCTC
Statistics
Matches: 225, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
256 23 0.10
257 1 0.00
259 1 0.00
260 6 0.03
261 184 0.82
262 10 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (257 bp):
AATCTGCTTCACTGCAAACTTAAGACTATCATGTTAATATCTTCGATCTGCTCTTCGTCGAACAC
AGAGACGCCAAATCTGCTTCTTCGATTTGTTCTCTAAAAATACAGAGATGCCAAATCATCTTAGA
TCTGCTTCAGCGTAAACACGCGAAAACCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACAC
AAGGATGCCAAACCATCTTGGATCTGCTTCAGTTATCTGAAGGTCAGATCTGCTATGTCTTT
Found at i:111756137 original size:205 final size:205
Alignment explanation
Indices: 111755698--111756446 Score: 1134
Period size: 205 Copynumber: 3.7 Consensus size: 205
111755688 TGTTTCTTTG
* *
111755698 ATTTGTTCTCTAAAAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGCGTAAGCACGCGAA
1 ATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAA
*
111755763 AACCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
66 AACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
*
111755828 TGCTTCAGT-T----ATCTGAAGGTTAGATCTGCTATGTATTTGCTCTCCGTCGAAATGGAGATG
131 TGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
*
111755888 CCAGACTTCG
196 CCAGACTTCA
* * * * *
111755898 ATTTGTTCTCTGACAATACAGAGATGCAAAATCATCTTAGATTTGCTTCATCGTAAGTACGTGAA
1 ATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAA
** * *
111755963 AGTCAAATCAGCTATGTCTTTGATTTGTTCCTTCTAAGCACAAGGATTG-CAAACCATCTTGGAT
66 AACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGA-TGCCAAACCATCTTGGAT
* * *
111756027 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCACTTCGTCGAAATAGAGAT
130 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
111756092 GCCAGACTTCA
195 GCCAGACTTCA
* * * * *
111756103 ATTTTTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAA
1 ATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAA
*
111756168 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
66 AACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
*
111756233 TGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTTGAAATGGAGATG
131 TGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
*
111756298 CCAAACTTCA
196 CCAGACTTCA
*
111756308 ATTTGTTCTCTAACAATACAGAGATGCCACATCATCTTAGATTTGCTTCAGCAG-AAGCACGCGA
1 ATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGC-GTAAGCACGCGA
* * * * * *
111756372 AAACCAAATCAGCTATATCTTCAATTTGCTCCTTGTAAGCACAAAGATCCCAGACCATCTTGGAT
65 AAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
111756437 CTTGCTTCAG
130 C-TGCTTCAG
111756447 CCAGATCTGC
Statistics
Matches: 496, Mismatches: 44, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
200 124 0.25
201 3 0.01
204 2 0.00
205 358 0.72
206 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
ATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACGCGAA
AACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
TGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
CCAGACTTCA
Found at i:111757374 original size:7 final size:7
Alignment explanation
Indices: 111757362--111757426 Score: 60
Period size: 7 Copynumber: 8.7 Consensus size: 7
111757352 GGCCTCTCCA
111757362 TTTTTCT
1 TTTTTCT
111757369 TTTTTCT
1 TTTTTCT
*
111757376 TTTTTCA
1 TTTTTCT
111757383 TTTTTCATT
1 TTTTTC--T
*
111757392 TTTTTATT
1 TTTTT-CT
111757400 TTTTTCT
1 TTTTTCT
111757407 CTTTTTCT
1 -TTTTTCT
111757415 TTTCTT-T
1 TTT-TTCT
111757422 TTTTT
1 TTTTT
111757427 TGAAATAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
6 2 0.04
7 27 0.55
8 15 0.31
9 5 0.10
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:111757412 original size:11 final size:10
Alignment explanation
Indices: 111757362--111757427 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
111757352 GGCCTCTCCA
111757362 TTTTTCTTTT
1 TTTTTCTTTT
*
111757372 TTCTTT-TTTCA
1 TT-TTTCTTT-T
*
111757383 TTTTTC-ATT
1 TTTTTCTTTT
*
111757392 TTTTTATTTT
1 TTTTTCTTTT
*
111757402 TTTCTCTTTT
1 TTTTTCTTTT
111757412 TCTTTTCTTTT
1 T-TTTTCTTTT
111757423 TTTTT
1 TTTTT
111757428 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
9 5 0.12
10 24 0.56
11 14 0.33
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:111760431 original size:7 final size:7
Alignment explanation
Indices: 111760419--111760482 Score: 69
Period size: 7 Copynumber: 8.7 Consensus size: 7
111760409 AGCCTCTCAA
111760419 TTTTTCT
1 TTTTTCT
111760426 TTTTTCT
1 TTTTTCT
111760433 TTTTT-T
1 TTTTTCT
111760439 TTTTTCATTT
1 TTTTTC---T
111760449 TTTTTCT
1 TTTTTCT
111760456 TTTTTCT
1 TTTTTCT
111760463 CTTTTTCT
1 -TTTTTCT
111760471 TTTCTT-T
1 TTT-TTCT
111760478 TTTTT
1 TTTTT
111760483 TGAAATAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
6 8 0.16
7 27 0.53
8 9 0.18
10 7 0.14
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:111760455 original size:30 final size:30
Alignment explanation
Indices: 111760419--111760483 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
111760409 AGCCTCTCAA
* *
111760419 TTTTTCTTTTTTCTTTTTTTTTTTTCATTT
1 TTTTTCTTTTTTCTCTTTTTCTTTTCATTT
*
111760449 TTTTTCTTTTTTCTCTTTTTCTTTTCTTTT
1 TTTTTCTTTTTTCTCTTTTTCTTTTCATTT
111760479 TTTTT
1 TTTTT
111760484 GAAATAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (30 bp):
TTTTTCTTTTTTCTCTTTTTCTTTTCATTT
Found at i:111767060 original size:26 final size:26
Alignment explanation
Indices: 111767025--111767186 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
111767015 TGATACAAAT
*
111767025 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATAGGTTAGGTAAATGTTCCA
111767051 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111767077 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111767103 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111767129 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111767155 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111767181 TGATAA
1 TGATAA
111767187 GAATTTCATG
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:111767115 original size:78 final size:78
Alignment explanation
Indices: 111767025--111767186 Score: 297
Period size: 78 Copynumber: 2.1 Consensus size: 78
111767015 TGATACAAAT
*
111767025 TGATAATAGGTTAGGTAAATGTTCCTTGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
111767090 GGTAAATGTTTCA
66 GGTAAATGTTTCA
* *
111767103 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
111767168 GGTAAATGTTTCA
66 GGTAAATGTTTCA
111767181 TGATAA
1 TGATAA
111767187 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:111772864 original size:18 final size:17
Alignment explanation
Indices: 111772841--111772875 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
111772831 ATACAAATTG
111772841 ATAATAGGTTAGGTAAAT
1 ATAATAGGTTAGG-AAAT
111772859 ATAATAGGTTAGGAAAT
1 ATAATAGGTTAGGAAAT
111772876 GTTCCATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (17 bp):
ATAATAGGTTAGGAAAT
Found at i:111772925 original size:26 final size:26
Alignment explanation
Indices: 111772859--111772990 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
111772849 TTAGGTAAAT
*
111772859 ATAATAGGTTAGG-AAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
111772884 ATAAT-GGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
111772909 ATAATAGGTTAGGTAAATGTTCCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
111772935 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
*
111772961 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATAGGTTAGGTAAATGTTTCATG
111772987 ATAA
1 ATAA
111772991 GAATTTCATG
Statistics
Matches: 101, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
24 7 0.07
25 21 0.21
26 73 0.72
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATAGGTTAGGTAAATGTTTCATG
Found at i:111776137 original size:23 final size:22
Alignment explanation
Indices: 111776094--111776151 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
111776084 AAAAGGTATC
* *
111776094 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
111776115 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
111776138 TGCATATCATATCT
1 TACAAATCATATCT
111776152 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:111776154 original size:19 final size:19
Alignment explanation
Indices: 111776130--111776166 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
111776120 AATCATATCT
111776130 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111776149 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111776167 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111776174 original size:17 final size:19
Alignment explanation
Indices: 111776133--111776174 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
111776123 CATATCTTCT
*
111776133 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
111776152 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
111776169 AAGATT
1 AAGATT
111776175 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:111776837 original size:44 final size:43
Alignment explanation
Indices: 111776787--111776869 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
111776777 CCTGTTGATA
**
111776787 TCTTCGATCTGCTCTCTGCCGAATACAGAAACGCCAAATCTGTT
1 TCTTCGATCTGCTCTCTAAC-AATACAGAAACGCCAAATCTGTT
* * * *
111776831 TCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCTCTAACAATACAGAAACGCCAAATC
111776870 ATCTTAGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (43 bp):
TCTTCGATCTGCTCTCTAACAATACAGAAACGCCAAATCTGTT
Found at i:111776966 original size:261 final size:262
Alignment explanation
Indices: 111776500--111776975 Score: 697
Period size: 261 Copynumber: 1.8 Consensus size: 262
111776490 ACTTCACTGC
* * *
111776500 AAACTTAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCC
1 AAACTTAAGACTATCATGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAAACGCCAAATCC
* * *
111776565 GCTTCTTCGATTTGTTTTTTTTGACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCAT
66 GCTTCTTCGATTTG-TTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCAT
* * * ** *
111776630 AAACACGTGAAAGCCAAATCTGCTTTGTCTCTGATTTGCTCCTTGTGAACACAAGGATGCCAAAT
130 AAACACGCGAAAACCAAATCAGCTACGTCTCTGATTTGCTCCTTGTGAACACAAGGATGCCAAAC
*
111776695 CATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCGGCCATGCCTTTAATCTGCTTCT
195 CATCTTGGATCTACTTCAGTAAAATCATCTGAAGGTCAGATCGGCCATGCCTTTAATCTGCTTCT
111776760 TGT
260 TGT
* * * * *
111776763 AAACTTATGACTATCCTGTTGATATCTTCGATCTGCTCTCTGCCGAATACAGAAACGCCAAATCT
1 AAACTTAAGACTATCATGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAAACGCCAAATCC
* * *
111776828 GTTTCTTCGATTTG-TTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTA
66 GCTTCTTCGATTTGTTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATA
* *
111776892 AGCACGCGAAAACCAAATCAGCTACGTCT-TCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAA
131 AACACGCGAAAACCAAATCAGCTACGTCTCT-GATTTGCTCCTTGTGAA-CACAAGGATGCCAAA
111776955 CCATCTTGGATCTACTTCAGT
194 CCATCTTGGATCTACTTCAGT
111776976 CATCTAAAGG
Statistics
Matches: 188, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
260 3 0.02
261 115 0.61
263 70 0.37
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (262 bp):
AAACTTAAGACTATCATGTTGATATCTTCGATCTGCTCTCCGCCGAACACAGAAACGCCAAATCC
GCTTCTTCGATTTGTTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATA
AACACGCGAAAACCAAATCAGCTACGTCTCTGATTTGCTCCTTGTGAACACAAGGATGCCAAACC
ATCTTGGATCTACTTCAGTAAAATCATCTGAAGGTCAGATCGGCCATGCCTTTAATCTGCTTCTT
GT
Found at i:111777286 original size:205 final size:205
Alignment explanation
Indices: 111776832--111777585 Score: 1266
Period size: 205 Copynumber: 3.7 Consensus size: 205
111776822 AAATCTGTTT
*
111776832 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
111776897 GCGAAAACCAAATCAGCTACGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
111776962 GGATCTACTTCAG--T---CATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
111777022 AGATGCCAGA
196 AGATGCCAGA
* *
111777032 CTTCGATTTGTCCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* ** * *
111777097 GTGAAAGTCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCTAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
111777162 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCACTCCGTCAAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
111777227 AGATTCCAGA
196 AGATGCCAGA
* *
111777237 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
111777302 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
111777367 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
*
111777432 AGATGCCAAA
196 AGATGCCAGA
111777442 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
111777507 GCGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
111777572 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
111777586 CCAGATCTGC
Statistics
Matches: 517, Mismatches: 31, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
200 133 0.26
202 1 0.00
205 375 0.73
206 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:111778543 original size:7 final size:7
Alignment explanation
Indices: 111778531--111778594 Score: 76
Period size: 7 Copynumber: 8.7 Consensus size: 7
111778521 GGCCTCTCAA
111778531 TTTTTCT
1 TTTTTCT
111778538 TTTTTCT
1 TTTTTCT
111778545 TTTTTCT
1 TTTTTCT
111778552 TTTTTCAT
1 TTTTTC-T
*
111778560 TTTTTTT
1 TTTTTCT
111778567 CTTTTTCT
1 -TTTTTCT
111778575 CTTTTTCT
1 -TTTTTCT
111778583 TTTCTT-T
1 TTT-TTCT
111778590 TTTTT
1 TTTTT
111778595 GAAATAGAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
6 2 0.04
7 28 0.54
8 22 0.42
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:111778571 original size:23 final size:23
Alignment explanation
Indices: 111778531--111778594 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
111778521 GGCCTCTCAA
*
111778531 TTTTTCTTTTTTCT-TTTTTCT-
1 TTTTTCTTTTTTTTCTTTTTCTC
111778552 TTTTTCATTTTTTTTCTTTTTCTC
1 TTTTTC-TTTTTTTTCTTTTTCTC
*
111778576 TTTTTCTTTTCTTT-TTTTT
1 TTTTTCTTTTTTTTCTTTTT
111778595 GAAATAGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 6 0.16
22 12 0.32
23 14 0.37
24 6 0.16
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTTTTTTCTTTTTCTC
Found at i:111785294 original size:22 final size:21
Alignment explanation
Indices: 111785259--111785334 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
111785249 AAAAGGTATC
* *
111785259 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111785280 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111785303 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111785322 TGC-AATCATATCT
1 TACAAATCATATCT
111785335 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111785351 original size:35 final size:37
Alignment explanation
Indices: 111785288--111785366 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
111785278 ATTACAAAAT
111785288 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
111785324 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
111785359 CATATCAT
1 CATATCAT
111785367 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:111785364 original size:14 final size:15
Alignment explanation
Indices: 111785309--111785364 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
111785299 AGATTGCATA
111785309 TCATATCTAAGATTG
1 TCATATCTAAGATTG
111785324 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
111785342 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
111785359 -CATATC
1 TCATATC
111785365 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:111785374 original size:17 final size:19
Alignment explanation
Indices: 111785295--111785366 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
111785285 AATCATATCT
111785295 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111785314 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111785332 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111785349 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111785367 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111786952 original size:22 final size:21
Alignment explanation
Indices: 111786917--111786992 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
111786907 AAAAGGTATC
* *
111786917 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111786938 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111786961 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111786980 TGC-AATCATATCT
1 TACAAATCATATCT
111786993 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111787009 original size:35 final size:37
Alignment explanation
Indices: 111786946--111787024 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
111786936 ATTACAAAAT
111786946 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
111786982 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
111787017 CATATCAT
1 CATATCAT
111787025 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:111787022 original size:14 final size:15
Alignment explanation
Indices: 111786967--111787022 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
111786957 AGATTGCATA
111786967 TCATATCTAAGATTG
1 TCATATCTAAGATTG
111786982 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
111787000 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
111787017 -CATATC
1 TCATATC
111787023 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:111787032 original size:17 final size:19
Alignment explanation
Indices: 111786953--111787024 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
111786943 AATCATATCT
111786953 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111786972 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111786990 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
111787007 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111787025 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111787183 original size:23 final size:22
Alignment explanation
Indices: 111787142--111787184 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
111787132 CTTGGACTTC
**
111787142 ATTTTTTTTTTGGGTTTATTAT
1 ATTTTTTTTTTGGACTTATTAT
111787164 ATTTTTGTTTTTGGACTTATT
1 ATTTTT-TTTTTGGACTTATT
111787185 TCTGGGCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (22 bp):
ATTTTTTTTTTGGACTTATTAT
Found at i:111787224 original size:2 final size:2
Alignment explanation
Indices: 111787217--111787245 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111787207 TGTCTACAAC
111787217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111787246 ATAGATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111788571 original size:21 final size:20
Alignment explanation
Indices: 111788542--111788596 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
111788532 ATAGAATATG
*
111788542 ATATGTAATAAAATATAAAAT
1 ATATATAATAAAATAT-AAAT
*
111788563 ATATATAATGAAATATAAAT
1 ATATATAATAAAATATAAAT
*
111788583 A-ATATGATAAAATA
1 ATATATAATAAAATA
111788597 ACATATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.37
20 5 0.17
21 14 0.47
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATATAATAAAATATAAAT
Found at i:111790208 original size:44 final size:45
Alignment explanation
Indices: 111790158--111790942 Score: 714
Period size: 44 Copynumber: 17.3 Consensus size: 45
111790148 TGTCAAATTG
*
111790158 GCTATCTTCAATCTGCTTCT-TG-CAA-ACTCAG-GAACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATA--CAGAG-ACGCCAAATCT
* * * *
111790202 GTTATCTCCGATTTGC-TCTCTGACAATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
*
111790246 GCTATCTTCGATCTGCTT-TCTGTCAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
111790290 GCTATCTTCGATCTGC-TCTCTGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * *
111790334 GTTATCTTCAATCTG-TTCTCTGATAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * *
111790378 GCTATCTTTGATCTGC-TCTCTGACAATACATTGATATGCGCTCTGACAATACA
1 GCTATCTTCGATCTGCTTCTCTGACAATACA--GAGA--CGC-C--A-AAT-CT
** ** * ** * ***
111790431 GAGA-CGCCAAATCTGCTATCT-TCGATTTATTCTCTGAC-CATACAGAGATGCCAAAT
1 GCTATCTTC-GATCTGCT-TCTCT-GA-CAATACAGAGACGC---CA-A-AT--C---T
* * *
111790487 CTGCTATCTTCGATCTGC-TCTCTGATAATACAGAGACGCCGAATCT
1 -G-CTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* *
111790533 GTTATCTTCGATCTGC-TCTCTGACAATACAGAGACGCCAAATTT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * * *
111790577 ACTATCTTCAATCTG-TTCTCTGACCATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
*
111790621 GCTATCTTCGATCTGC-TCTCTGACAATACAGAGACGCCAAATCC
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * * * *
111790665 GTTATCTTCGATCTAC-TCTCTGAAAATACAGAGATGCCAAATCC
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* *
111790709 ACTATCTTCGATCTGC-TCTCTGACAATACAGAGATGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* *
111790753 GTTATCTTCAATCTGC-TCTCTGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
*
111790797 GTTATCTTCGATCTGC-TCTCTGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * *
111790841 GCTATCTTCGATCTGC-TCTATGACAATACAGAGATGCCAAATAT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
* * * *
111790885 ACTATCTTTGATCTGCTAC-CAGACAATACAGAGACGCCAAATCT
1 GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
111790929 GCTATCTTCGATCT
1 GCTATCTTCGATCT
111790943 ACATAACCTG
Statistics
Matches: 612, Mismatches: 92, Indels: 74
0.79 0.12 0.10
Matches are distributed among these distances:
43 4 0.01
44 533 0.87
45 6 0.01
46 5 0.01
48 3 0.00
49 2 0.00
51 6 0.01
52 8 0.01
53 12 0.02
54 2 0.00
55 12 0.02
56 9 0.01
57 1 0.00
58 7 0.01
59 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (45 bp):
GCTATCTTCGATCTGCTTCTCTGACAATACAGAGACGCCAAATCT
Found at i:111790391 original size:132 final size:132
Alignment explanation
Indices: 111790193--111790942 Score: 899
Period size: 132 Copynumber: 5.5 Consensus size: 132
111790183 ACTCAGGAAC
* * * *
111790193 GCCAAATCTGTTATCTCCGATTTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
* *
111790258 CTGCTTTCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
66 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
111790323 AC
131 AT
* * * * *
111790325 GCCAAATCTGTTATCTTCAATCTGTTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTTGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
* * *
111790390 CTGCTCTCTGACAATACATTGATATGCGCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
66 CTGCTCTCTGACAATACA--GAGA--CGC-C--A-AAT-C-----TG-C-TATCT-------TCG
* ** *
111790455 ATTTATTCTCTGACCATACAGAGAT
108 ATCTGCTCTCTGACAATACAGAGAT
* * *
111790480 GCCAAATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGACGCCGAATCTGTTATCTTCGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
* * * * *
111790545 CTGCTCTCTGACAATACAGAGACGCCAAATTTACTATCTTCAATCTGTTCTCTGACCATACAGAG
66 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
111790610 AT
131 AT
* *
111790612 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCCGTTATCTTCGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
* * * **
111790677 CTACTCTCTGAAAATACAGAGATGCCAAATCCACTATCTTCGATCTGCTCTCTGACAATACAGAG
66 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
111790742 AT
131 AT
* * *
111790744 GCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTCGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
*
111790809 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTATGACAATACAGAG
66 CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
111790874 AT
131 AT
* * * *
111790876 GCCAAATATACTATCTTTGATCTGCTAC-CAGACAATACAGAGACGCCAAATCTGCTATCTTCGA
1 GCCAAATCTGCTATCTTCGATCTGCT-CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGA
111790940 TCT
65 TCT
111790943 ACATAACCTG
Statistics
Matches: 536, Mismatches: 58, Indels: 48
0.83 0.09 0.07
Matches are distributed among these distances:
132 401 0.75
133 1 0.00
134 3 0.01
136 3 0.01
137 1 0.00
139 5 0.01
140 4 0.01
141 1 0.00
146 1 0.00
147 4 0.01
148 5 0.01
150 1 0.00
151 3 0.01
153 3 0.01
155 100 0.19
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (132 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT
CTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
AT
Found at i:111790411 original size:23 final size:23
Alignment explanation
Indices: 111790385--111790430 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
111790375 TCTGCTATCT
* *
111790385 TTGATCTGCTCTCTGACAATACA
1 TTGATATGCGCTCTGACAATACA
111790408 TTGATATGCGCTCTGACAATACA
1 TTGATATGCGCTCTGACAATACA
111790431 GAGACGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (23 bp):
TTGATATGCGCTCTGACAATACA
Found at i:111790502 original size:111 final size:111
Alignment explanation
Indices: 111790307--111790518 Score: 343
Period size: 111 Copynumber: 1.9 Consensus size: 111
111790297 TCGATCTGCT
* * *
111790307 CTCTGACAATACAGAGACGCCAAATCTGTTATCTTCAATCTGTTCTCTGATAATACAGAGACGCC
1 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTATTCTCTGACAATACAGAGACGCC
*
111790372 AAATCTGCTATCTTTGATCTGCTCTCTGACAATACATTGATATGCG
66 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACATTGATATGCG
* * * *
111790418 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATTTATTCTCTGACCATACAGAGATGCC
1 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTATTCTCTGACAATACAGAGACGCC
*
111790483 AAATCTGCTATCTTCGATCTGCTCTCTGATAATACA
66 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACA
111790519 GAGACGCCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 92 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (111 bp):
CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTATTCTCTGACAATACAGAGACGCC
AAATCTGCTATCTTCGATCTGCTCTCTGACAATACATTGATATGCG
Found at i:111790551 original size:155 final size:155
Alignment explanation
Indices: 111790264--111790562 Score: 490
Period size: 155 Copynumber: 1.9 Consensus size: 155
111790254 CGATCTGCTT
* *
111790264 TCTGTCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCA
1 TCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCA
* * *
111790329 AATCTGTTATCTTCAATCTGTTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTTGATCTGC
66 AATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
111790394 TCTCTGACAATACATTGATATGCGC
131 TCTCTGACAATACATTGATATGCGC
* * * *
111790419 TCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATTTATTCTCTGACCATACAGAGATGCCA
1 TCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCA
* * *
111790484 AATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGACGCCGAATCTGTTATCTTCGATCTGC
66 AATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
111790549 TCTCTGACAATACA
131 TCTCTGACAATACA
111790563 GAGACGCCAA
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
155 132 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (155 bp):
TCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCA
AATCTGCTATCTTCAATCTGCTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTCGATCTGC
TCTCTGACAATACATTGATATGCGC
Found at i:111790563 original size:199 final size:199
Alignment explanation
Indices: 111790219--111790606 Score: 607
Period size: 199 Copynumber: 1.9 Consensus size: 199
111790209 CCGATTTGCT
* * *
111790219 CTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTTTCTGTCAATACAGAGACGCC
1 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGATTTCTGACAATACAGAGACGCC
111790284 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTCAATCTG
66 AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTCAATCTG
* * * **
111790349 TTCTCTGATAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACATTGATA
131 CTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACATTGATA
111790414 TGCG
196 TGCG
* * *
111790418 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGAT-TTATTCTCTGACCATACAGAGATGC
1 CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGATT-TCTGACAATACAGAGACGC
* * *
111790482 CAAATCTGCTATCTTCGATCTGCTCTCTGATAATACAGAGACGCCGAATCTGTTATCTTCGATCT
65 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTCAATCT
* * *
111790547 GCTCTCTGACAATACAGAGACGCCAAATTTACTATCTTCAATCTGTTCTCTGACCATACA
130 GCTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACA
111790607 GAGATGCCAA
Statistics
Matches: 171, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 3 0.02
199 168 0.98
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (199 bp):
CTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGATTTCTGACAATACAGAGACGCC
AAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGTTATCTTCAATCTG
CTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATCTGCTCTCTGACAATACATTGATA
TGCG
Found at i:111795371 original size:18 final size:20
Alignment explanation
Indices: 111795340--111795386 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
111795330 AAAATATTTG
111795340 AAAGAAT-TTAAAT-GT-CA
1 AAAGAATATTAAATGGTACA
* *
111795357 AAAGAATATTGAATGGTATA
1 AAAGAATATTAAATGGTACA
111795377 AAAGAATATT
1 AAAGAATATT
111795387 CACTTGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 5 0.20
19 2 0.08
20 11 0.44
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (20 bp):
AAAGAATATTAAATGGTACA
Found at i:111802985 original size:17 final size:17
Alignment explanation
Indices: 111802965--111803016 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
111802955 ATAGGGAATA
*
111802965 ATATATAATAGAATATG
1 ATATATAATAAAATATG
* *
111802982 ATATGTAATAAAATATAAA
1 ATATATAATAAAATAT--G
*
111803001 ATATATAATGAAATAT
1 ATATATAATAAAATAT
111803017 AAATAATATG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:111803009 original size:19 final size:18
Alignment explanation
Indices: 111802964--111803059 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
111802954 TATAGGGAAT
*
111802964 AATATATAATAGAATAT-
1 AATATATAATAAAATATA
* *
111802981 GATATGTAATAAAATATAA
1 AATATATAATAAAATAT-A
*
111803000 AATATATAATGAAATATA
1 AATATATAATAAAATATA
*
111803018 AATAATATGATAAAATA-A
1 AAT-ATATAATAAAATATA
* * *
111803036 CATATA-ATTAAAAAAT-
1 AATATATAATAAAATATA
111803052 AATATATA
1 AATATATA
111803060 CTATTTTTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.18
17 18 0.30
18 7 0.11
19 25 0.41
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (18 bp):
AATATATAATAAAATATA
Found at i:111806203 original size:46 final size:46
Alignment explanation
Indices: 111806136--111806311 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
111806126 TATTTGGGCA
111806136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
111806182 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
111806229 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
111806275 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111806312 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:111806291 original size:93 final size:93
Alignment explanation
Indices: 111806132--111806304 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
111806122 GGGATATTTG
* *
111806132 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111806197 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
111806225 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111806290 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
111806305 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:111809254 original size:15 final size:15
Alignment explanation
Indices: 111809234--111809302 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
111809224 GTATCTTGGG
111809234 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
111809249 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
111809264 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
111809279 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
111809294 TTTCTTTAT
1 TTTCTTTAT
111809303 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:111809303 original size:30 final size:30
Alignment explanation
Indices: 111809225--111809312 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
111809215 CATAGTATCG
* * * *
111809225 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
111809255 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
111809285 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
111809313 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:111816709 original size:33 final size:31
Alignment explanation
Indices: 111816626--111816711 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
111816616 AACCCTTCAT
* *
111816626 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAATAGCAAATATA
* *
111816657 GCATGAAATCCAACCAAAAATAGCAAATGTA
1 GCATAAAATCCAACCAAAAATAGCAAATATA
*
111816688 GCATTAAAAATACAACCAAAAATA
1 GCA-T-AAAATCCAACCAAAAATA
111816712 TTAAATCTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 31 0.65
32 1 0.02
33 16 0.33
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAATAGCAAATATA
Found at i:111816993 original size:21 final size:22
Alignment explanation
Indices: 111816947--111816995 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
111816937 GCTGCCATCG
*
111816947 CTGCTACTTCTGCCTCCCCCGT
1 CTGCTACTGCTGCCTCCCCCGT
* *
111816969 -TGCTGCTGCTGCCTCCCTC-T
1 CTGCTACTGCTGCCTCCCCCGT
111816989 CTGCTAC
1 CTGCTAC
111816996 CTCCGCTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.04, C:0.47, G:0.16, T:0.33
Consensus pattern (22 bp):
CTGCTACTGCTGCCTCCCCCGT
Found at i:111822446 original size:9 final size:9
Alignment explanation
Indices: 111822432--111822568 Score: 61
Period size: 9 Copynumber: 14.9 Consensus size: 9
111822422 AGATATTATC
111822432 TTATGTAAA
1 TTATGTAAA
111822441 TTATGTAAGA
1 TTATGTAA-A
111822451 -TATGATATATA
1 TTATG-TA-A-A
111822462 TTTATGT--A
1 -TTATGTAAA
*
111822470 TTATGTAAG
1 TTATGTAAA
111822479 TTATGTAAA
1 TTATGTAAA
*
111822488 TTATGTAAG
1 TTATGTAAA
* * **
111822497 TTGTTTATC
1 TTATGTAAA
111822506 TTATGTAAA
1 TTATGTAAA
111822515 TTATG-AAGA
1 TTATGTAA-A
111822524 -TATGATATATA
1 TTATG-TA-A-A
* *
111822535 TT-TATATA
1 TTATGTAAA
*
111822543 TTATGTAAG
1 TTATGTAAA
111822552 TTATGTAAA
1 TTATGTAAA
*
111822561 TTGTGTAA
1 TTATGTAA
111822569 GATATGATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
7 6 0.06
8 10 0.11
9 62 0.65
10 6 0.06
11 5 0.05
12 2 0.02
13 4 0.04
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:111822483 original size:29 final size:30
Alignment explanation
Indices: 111822423--111822483 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 30
111822413 GACAATAAAA
111822423 GATATTATCTTATGTAAATTATGTAAGATAT
1 GATATTATCTTATGT-AATTATGTAAGATAT
*
111822454 GATATATAT-TTATGT-ATTATGTAAGTTAT
1 GATAT-TATCTTATGTAATTATGTAAGATAT
111822483 G
1 G
111822484 TAAATTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 14 0.50
31 11 0.39
32 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.48
Consensus pattern (30 bp):
GATATTATCTTATGTAATTATGTAAGATAT
Found at i:111822538 original size:73 final size:74
Alignment explanation
Indices: 111822427--111822569 Score: 261
Period size: 73 Copynumber: 1.9 Consensus size: 74
111822417 ATAAAAGATA
*
111822427 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATGTATTATGTAAGTTATGTAAATTAT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATATATTATGTAAGTTATGTAAATTAT
111822492 GTAAGTTGT
66 GTAAGTTGT
*
111822501 TTATCTTATGTAAATTATG-AAGATATGATATATATTTATATATTATGTAAGTTATGTAAATTGT
1 TTATCTTATGTAAATTATGTAAGATATGATATATATTTATATATTATGTAAGTTATGTAAATTAT
111822565 GTAAG
66 GTAAG
111822570 ATATGATATA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 48 0.72
74 19 0.28
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (74 bp):
TTATCTTATGTAAATTATGTAAGATATGATATATATTTATATATTATGTAAGTTATGTAAATTAT
GTAAGTTGT
Found at i:111822918 original size:110 final size:110
Alignment explanation
Indices: 111822719--111823074 Score: 652
Period size: 110 Copynumber: 3.3 Consensus size: 110
111822709 AATTATGGTT
* *
111822719 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAC-AAATATTTTTCGTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
111822783 TAAAATAAAAT---AT-TT-AAAATAAAACTTTAAATACAATTTA
66 TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
111822823 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
111822888 TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
66 TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
111822933 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
111822998 TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
66 TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
111823043 ATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAA
111823075 TATTTAAAAT
Statistics
Matches: 244, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
104 38 0.16
105 35 0.14
108 2 0.01
109 2 0.01
110 167 0.68
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (110 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTTATTAAATTAAAA
TAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTA
Found at i:111824534 original size:18 final size:18
Alignment explanation
Indices: 111824507--111824542 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
111824497 ATTTTGCATG
*
111824507 CACATTTATAAATTTATA
1 CACATCTATAAATTTATA
111824525 CACATCTATAAATTTATA
1 CACATCTATAAATTTATA
111824543 TAATAAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (18 bp):
CACATCTATAAATTTATA
Found at i:111825435 original size:39 final size:39
Alignment explanation
Indices: 111825381--111825458 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
111825371 AGAACAAAGA
111825381 AACTTCGAAAATCATTAATCGTTGAACTGTTTTCTTACC
1 AACTTCGAAAATCATTAATCGTTGAACTGTTTTCTTACC
*
111825420 AACTTCGAAAATCATTAATTGTTGAACTGTTTTCTTACC
1 AACTTCGAAAATCATTAATCGTTGAACTGTTTTCTTACC
111825459 TTGAACTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (39 bp):
AACTTCGAAAATCATTAATCGTTGAACTGTTTTCTTACC
Found at i:111826069 original size:16 final size:17
Alignment explanation
Indices: 111826050--111826084 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
111826040 ATTATTTAAT
111826050 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
111826066 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
111826083 AT
1 AT
111826085 CACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:111826429 original size:22 final size:22
Alignment explanation
Indices: 111826403--111826451 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
111826393 CCTTAACCCC
*
111826403 TAAACCCCTAACTCATAAACCT
1 TAAACCCCTAACCCATAAACCT
* * *
111826425 TAAACCCTTAACCCTTAAACTT
1 TAAACCCCTAACCCATAAACCT
111826447 TAAAC
1 TAAAC
111826452 TATAAACCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAACCCCTAACCCATAAACCT
Found at i:111826506 original size:7 final size:7
Alignment explanation
Indices: 111826393--111826539 Score: 91
Period size: 7 Copynumber: 20.3 Consensus size: 7
111826383 CCCCTTAATG
111826393 CCTTAACC
1 CCTTAA-C
*
111826401 CCTAAAC
1 CCTTAAC
*
111826408 CCCTAAC
1 CCTTAAC
* * *
111826415 TCATAAA
1 CCTTAAC
111826422 CCTTAAAC
1 CCTT-AAC
111826430 CCTTAAC
1 CCTTAAC
*
111826437 CCTTAAA
1 CCTTAAC
*
111826444 CTTTAA-
1 CCTTAAC
*
111826450 ACTATAAAC
1 CCT-T-AAC
*
111826459 CCTAAAC
1 CCTTAAC
*
111826466 ACTTAAC
1 CCTTAAC
111826473 CCTTAAC
1 CCTTAAC
111826480 CCTTAAGC
1 CCTTAA-C
**
111826488 CCTCGAC
1 CCTTAAC
111826495 CCTTAAC
1 CCTTAAC
*
111826502 ACTTAAC
1 CCTTAAC
111826509 TCC-TAGAC
1 -CCTTA-AC
111826517 CCTTAAC
1 CCTTAAC
111826524 CCTTAAC
1 CCTTAAC
*
111826531 TCTTAAC
1 CCTTAAC
111826538 CC
1 CC
111826540 CTAAATCATA
Statistics
Matches: 105, Mismatches: 26, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
6 1 0.01
7 79 0.75
8 23 0.22
9 2 0.02
ACGTcount: A:0.34, C:0.38, G:0.02, T:0.26
Consensus pattern (7 bp):
CCTTAAC
Found at i:111826530 original size:29 final size:28
Alignment explanation
Indices: 111826427--111826543 Score: 87
Period size: 29 Copynumber: 4.1 Consensus size: 28
111826417 ATAAACCTTA
*
111826427 AACCCTTAACCCTTAA-ACTTTAAACT-AT
1 AACCCTTAACCCTTAACAC-TT-AACTCCT
* * *
111826455 AAACCCTAAACACTTAACCCTTAAC-CCTT
1 -AACCCTTAACCCTTAACACTTAACTCC-T
**
111826484 AAGCCCTCGACCCTTAACACTTAACTCCT
1 AA-CCCTTAACCCTTAACACTTAACTCCT
* *
111826513 AGACCCTTAACCCTTAACTCTTAACCCCT
1 A-ACCCTTAACCCTTAACACTTAACTCCT
111826542 AA
1 AA
111826544 ATCATAAACC
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
28 6 0.09
29 60 0.86
30 4 0.06
ACGTcount: A:0.34, C:0.37, G:0.03, T:0.26
Consensus pattern (28 bp):
AACCCTTAACCCTTAACACTTAACTCCT
Found at i:111826541 original size:22 final size:21
Alignment explanation
Indices: 111826427--111826539 Score: 95
Period size: 22 Copynumber: 5.2 Consensus size: 21
111826417 ATAAACCTTA
111826427 AACCCTTAACCCTTAAACT-TT
1 AACCCTTAACCCTT-AACTCTT
* * *
111826448 AA-ACTATAAACCCTAAACACTT
1 AACCCT-T-AACCCTTAACTCTT
* *
111826470 AACCCTTAACCCTTAAGCCCTC
1 AACCCTTAACCCTTAA-CTCTT
* * *
111826492 GACCCTTAACACTTAACTCCT
1 AACCCTTAACCCTTAACTCTT
111826513 AGACCCTTAACCCTTAACTCTT
1 A-ACCCTTAACCCTTAACTCTT
111826535 AACCC
1 AACCC
111826540 CTAAATCATA
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
20 2 0.03
21 20 0.28
22 47 0.66
23 2 0.03
ACGTcount: A:0.34, C:0.37, G:0.03, T:0.27
Consensus pattern (21 bp):
AACCCTTAACCCTTAACTCTT
Found at i:111826553 original size:29 final size:29
Alignment explanation
Indices: 111826454--111826555 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 29
111826444 CTTTAAACTA
* * * *
111826454 TAAACCCTAAACACTTAACCCTTAACCCT
1 TAAACCATAAACCCTTAACACTTAACCCC
* * ** *
111826483 TAAGCCCTCGACCCTTAACACTTAACTCC
1 TAAACCATAAACCCTTAACACTTAACCCC
* * * *
111826512 TAGACCCTTAACCCTTAACTCTTAACCCC
1 TAAACCATAAACCCTTAACACTTAACCCC
*
111826541 TAAATCATAAACCCT
1 TAAACCATAAACCCT
111826556 GAATCCCTAA
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.25
Consensus pattern (29 bp):
TAAACCATAAACCCTTAACACTTAACCCC
Found at i:111826647 original size:22 final size:22
Alignment explanation
Indices: 111826622--111826709 Score: 58
Period size: 22 Copynumber: 4.0 Consensus size: 22
111826612 CATAATCCAG
*
111826622 AAACCTTAACATATTAACTCAT
1 AAACCTAAACATATTAACTCAT
*** *
111826644 AAACCATAAACCCCTAAAC-CAT
1 AAACC-TAAACATATTAACTCAT
*
111826666 AAACCCTAAACCTA-TAA-TCCAT
1 AAA-CCTAAACATATTAACT-CAT
111826688 AAACCTTAAA-ATATTAACTCAT
1 AAACC-TAAACATATTAACTCAT
111826710 CATAAAACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
21 6 0.12
22 33 0.66
23 11 0.22
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCTAAACATATTAACTCAT
Done.