Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold201
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: 841227
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 75646 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:137052 original size:30 final size:32
Alignment explanation
Indices: 137001--137075 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 32
136991 AGGCATTTTC
* * *
137001 TTTCTTTCTTC-ATCCTTAAAAGCA-CGACAT
1 TTTCTTTCTTCTGTCCTGAAAAGCATAGACAT
* *
137031 TTTCTTTC-TCTGTCCTGAAAAGGATAGACGT
1 TTTCTTTCTTCTGTCCTGAAAAGCATAGACAT
137062 TTTCTTTCTTCTGT
1 TTTCTTTCTTCTGT
137076 ACTCCTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 2 0.05
30 18 0.49
31 12 0.32
32 5 0.14
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (32 bp):
TTTCTTTCTTCTGTCCTGAAAAGCATAGACAT
Found at i:137150 original size:62 final size:62
Alignment explanation
Indices: 136972--137348 Score: 257
Period size: 62 Copynumber: 6.0 Consensus size: 62
136962 AACCTCTTTA
* ** * *
136972 TCTTTGTCCTCAAAGAGCAAGG-CATTTTCTTTCTTTCTTCATCCTTAAA-AGCACGACATTTTC
1 TCTTTGTCCTCAAAGAAC-AGGACATTTTC-TTC---CTTTGTCCTCAAAGAGCAAGACATTTTC
137035 TT
61 TT
* * * * * *
137037 TCTCTGTCCTGAAAAGGATA-GACGTTTTCTTTCTTCTGTACTCCTCAAAGAGCAAGACATCTTT
1 TCTTTGTCCT-CAAAGAACAGGACATTTTCTTCCTT-TG---TCCTCAAAGAGCAAGACAT-TTT
137101 -TT
60 CTT
* * * * * * *
137103 TCATTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCCTCAAAGAGTAGGATATTTTCTT
1 TCTTTGTCCTCAAAGAACAGGACATTTTCTTCCTTTGTCCTCAAAGAGCAAGACATTTTCTT
* * * * * * * ** **
137165 TCTTTATCCT-AAAAAATTAGGGCATTTTCTTTCTTTTTCCTCAAAGACCAAGATGTCGTCTT
1 TCTTTGTCCTCAAAGAA-CAGGACATTTTCTTCCTTTGTCCTCAAAGAGCAAGACATTTTCTT
* * *
137227 TCTTTGTCCTCAAAGAGCAGGACATTTT-TT--TTTGTCCTTAAAGAGTAAGACATTTTCTT
1 TCTTTGTCCTCAAAGAACAGGACATTTTCTTCCTTTGTCCTCAAAGAGCAAGACATTTTCTT
** * * *
137286 TCTTTGTCCTCAAAGAGTAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTTTCTT
1 TCTTTGTCCTCAAAGAACAGGACATTTTCTTCCTTTGTCCTCAAAGAGCAAGACATTTTCTT
137348 T
1 T
137349 ATTTATTACT
Statistics
Matches: 242, Mismatches: 55, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
59 48 0.20
60 2 0.01
61 13 0.05
62 104 0.43
63 4 0.02
64 3 0.01
65 30 0.12
66 35 0.14
67 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (62 bp):
TCTTTGTCCTCAAAGAACAGGACATTTTCTTCCTTTGTCCTCAAAGAGCAAGACATTTTCTT
Found at i:137362 original size:31 final size:30
Alignment explanation
Indices: 137238--137442 Score: 119
Period size: 31 Copynumber: 6.7 Consensus size: 30
137228 CTTTGTCCTC
* *
137238 AAAGAGCAGGACA-TTT-TTT-TTTGTCCTT
1 AAAGAGCAGGACATTTTCTTTATTTTTAC-T
* * * * *
137266 AAAGAGTAAGACATTTTCTTTCTTTGTCCT
1 AAAGAGCAGGACATTTTCTTTATTTTTACT
* ** *
137296 CAAAGAGTAGGACATTTTCTTCCTTTGTACTT
1 -AAAGAGCAGGACATTTTCTTTATTTTTAC-T
137328 AAAGAGCAGGACATTTTCTTTATTTATTACT
1 AAAGAGCAGGACATTTTCTTTATTT-TTACT
* * * * *
137359 AAAGAGTAGAACGTTTTCTTTATTTGTCACC
1 AAAGAGCAGGACATTTTCTTTATTT-TTACT
* * * *
137390 AATGAGCAGGACGTTTTCCTTTTTTTTTTCCT
1 AAAGAGCAGGACATTTT-C-TTTATTTTTACT
* *
137422 CAAACAGCAGGACGTTTTCTT
1 -AAAGAGCAGGACATTTTCTT
137443 CCTTGGTCCT
Statistics
Matches: 144, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
28 11 0.08
29 3 0.02
30 4 0.03
31 97 0.67
32 8 0.06
33 21 0.15
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (30 bp):
AAAGAGCAGGACATTTTCTTTATTTTTACT
Found at i:137363 original size:62 final size:62
Alignment explanation
Indices: 136966--137446 Score: 208
Period size: 62 Copynumber: 7.6 Consensus size: 62
136956 AAACTCAACC
* * *
136966 TCTTTATCTTTGTCCTCAAAGAGCAAGG-CATTTTCTTTCTTTCTTCATCCTTAAA-AGCACGAC
1 TCTTTAT-TTT-TCCTCAAAGAGC-AGGACATTTTCTTCCTTT-GT-A--CTTAAAGAGCAGGAC
137029 ATTT
59 ATTT
* * * * * * * * *
137033 TCTTTCTCTGTCCTGAAA-AGGATAGACGTTTTCTTTCTTCTGTACTCCTCAAAGAGCAAGACAT
1 TCTTTATTTTTCCTCAAAGAGCA-GGACATTTTCTTCCTT-TGTACT--T-AAAGAGCAGGACAT
137097 CTT
61 -TT
* * * * * * * * *
137100 T-TTTCA-TTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCCTCAAAGAGTAGGATATTT
1 TCTTT-ATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
* * * * ** * * * * * * * ** **
137161 TCTTTCTTTATCCTAAAAAATTAGGGCATTTTCTTTCTTTTTCCTCAAAGACCAAGATGTCG
1 TCTTTATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
* * * * *
137223 TCTTTCTTTGTCCTCAAAGAGCAGGACATTTT-TT--TTTGTCCTTAAAGAGTAAGACATTT
1 TCTTTATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
* * *
137282 TCTTTCTTTGTCCTCAAAGAGTAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
1 TCTTTATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
* * * * ** * * *
137344 TCTTTATTTATTACT-AAAGAGTAGAACGTTTTCTTTATTTGTCAC-CAATGAGCAGGACGTTT
1 TCTTTATTT-TTCCTCAAAGAGCAGGACATTTTCTTCCTTTGT-ACTTAAAGAGCAGGACATTT
* * *
137406 TCCTTTTTTTTTTCCTCAAACAGCAGGACGTTTTCTTCCTT
1 T-C-TTTATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTT
137447 GGTCCTTGTT
Statistics
Matches: 319, Mismatches: 75, Indels: 43
0.73 0.17 0.10
Matches are distributed among these distances:
59 48 0.15
60 2 0.01
61 5 0.02
62 149 0.47
63 11 0.03
64 30 0.09
65 27 0.08
66 36 0.11
67 11 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (62 bp):
TCTTTATTTTTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
Found at i:137363 original size:152 final size:154
Alignment explanation
Indices: 137078--137363 Score: 371
Period size: 152 Copynumber: 1.9 Consensus size: 154
137068 TCTTCTGTAC
137078 TCCTCAAAGAGCAAGACATCTTTTTTCATTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCC
1 TCCTCAAAGAGCAAGACATCTTTTTT-ATTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCC
* * * ** * * *
137143 TCAAAGAGTAGGATATTTTCTTTCTTTATCCTAAAAAATTAGGGCATTTTCTTTCTTTTTCCTCA
65 TCAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGGACATTTTCTTTATTTTTACTCA
137208 AAGACCAAGATGTCGTCTTTCTTTG
130 AAGACCAAGATGTCGTCTTTCTTTG
* * ** * * *
137233 TCCTCAAAGAGCAGGACAT-TTTTTT-TTGTCCTTAAAGAGTAAGACATTTTCTTTCTTTGTCCT
1 TCCTCAAAGAGCAAGACATCTTTTTTATTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCCT
* * *
137296 CAAAGAGTAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTTTCTTTATTTATTACT-A
66 CAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGGACATTTTCTTTATTT-TTACTCA
137360 AAGA
130 AAGA
137364 GTAGAACGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
152 84 0.75
153 4 0.04
154 6 0.05
155 18 0.16
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (154 bp):
TCCTCAAAGAGCAAGACATCTTTTTTATTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCCT
CAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGGACATTTTCTTTATTTTTACTCAA
AGACCAAGATGTCGTCTTTCTTTG
Found at i:137379 original size:152 final size:153
Alignment explanation
Indices: 137056--137406 Score: 359
Period size: 152 Copynumber: 2.3 Consensus size: 153
137046 TGAAAAGGAT
*
137056 AGACGTTTTCTTTCTTCTGTACTCCTCAAAGAGCAAGACATCTTTTTTCATTGTCCTCAAAGAAC
1 AGACGTTTTCTTTCTT-TG---TCCTCAAAGAGCAGGACAT-TTTTTT-ATTGTCCTCAAAGAAC
* * * **
137121 AAGACATTTGCTTCCTTTATCCTCAAAGAGTAGGATATTTTCTTTCTTTATCCTAAAAAATTAGG
60 AAGACATTTGCTTCCTTTATCCTCAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGG
* * *
137186 GCATTTTCTTTCTTTTTCCTCAAAGACCA
125 ACATTTTCTTTATTTTTACTCAAAGACCA
* ** * **
137215 AGATGTCGTCTTTCTTTGTCCTCAAAGAGCAGGACATTTTTTT-TTGTCCTTAAAGAGTAAGACA
1 AGACGTTTTCTTTCTTTGTCCTCAAAGAGCAGGACATTTTTTTATTGTCCTCAAAGAACAAGACA
* * * * * *
137279 TTTTCTTTCTTTGTCCTCAAAGAGTAGGACATTTTCTTCCTTTGTACTTAAAGAGCAGGACATTT
66 TTTGCTTCCTTTATCCTCAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGGACATTT
**
137344 TCTTTATTTATTACT-AAAGA-GT
131 TCTTTATTT-TTACTCAAAGACCA
* * *
137366 AGAACGTTTTCTTTATTTGTCAC-CAATGAGCAGGACGTTTT
1 AG-ACGTTTTCTTTCTTTGTC-CTCAAAGAGCAGGACATTTT
137407 CCTTTTTTTT
Statistics
Matches: 160, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
151 2 0.01
152 114 0.71
153 5 0.03
154 6 0.04
155 18 0.11
158 2 0.01
159 13 0.08
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (153 bp):
AGACGTTTTCTTTCTTTGTCCTCAAAGAGCAGGACATTTTTTTATTGTCCTCAAAGAACAAGACA
TTTGCTTCCTTTATCCTCAAAGAGTAGGACATTTTCTTCCTTTATACTAAAAAAGCAGGACATTT
TCTTTATTTTTACTCAAAGACCA
Found at i:137401 original size:93 final size:90
Alignment explanation
Indices: 137083--137407 Score: 221
Period size: 93 Copynumber: 3.5 Consensus size: 90
137073 TGTACTCCTC
* * * * * *
137083 AAAGAGCAAGACATCTTT-TTTCA-TTGTCCTCAAAGAACAAGACATTTGCTTCCTTTATCCTCA
1 AAAGAGTAAGACAT-TTTCTTT-ATTTGTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTCA
* * *
137146 AAGAGTAGGATATTTTCTTTCTT-TATCCTA
64 AAGAGCAGGACATTTT-TTT-TTGTA--CTT
* * * * * * * * ** ** * *
137176 AAAAATTAGGGCATTTTCTTTCTTTTTCCTCAAAGACCAAGATGTCGTCTTTCTTTGTCCTCAAA
1 AAAGAGTAAGACATTTTCTTTATTTGTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTCAAA
*
137241 GAGCAGGACATTTTTTTTTGTCCTT
66 GAGCAGGACATTTTTTTTTGTACTT
* * *
137266 AAAGAGTAAGACATTTTCTTTCTTTGTCCTCAAAGAGTAGGACATTTTCTTCCTTTGTACTTAAA
1 AAAGAGTAAGACATTTTCTTTATTTGTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTCAAA
*
137331 GAGCAGGACATTTTCTTTATT-TATTACT
66 GAGCAGGACATTTT-TTT-TTGTACT--T
* * *
137359 AAAGAGT-AGAACGTTTTCTTTATTTGTCAC-CAATGAGCAGGACGTTTTC
1 AAAGAGTAAG-ACATTTTCTTTATTTGTC-CTCAAAGAGCAGGACATTTTC
137408 CTTTTTTTTT
Statistics
Matches: 182, Mismatches: 41, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
90 66 0.36
91 7 0.04
92 11 0.06
93 97 0.53
94 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (90 bp):
AAAGAGTAAGACATTTTCTTTATTTGTCCTCAAAGAGCAGGACATTTTCTTCCTTTGTACTCAAA
GAGCAGGACATTTTTTTTTGTACTT
Found at i:138817 original size:148 final size:147
Alignment explanation
Indices: 138510--138841 Score: 441
Period size: 148 Copynumber: 2.2 Consensus size: 147
138500 GACCTACCAT
* *
138510 CGACATAGAAGTGC-CTGGAGATCCTAAAGGACTTAAAAAGATAAAACAAACCTACTCTTAATTC
1 CGACATAGAAGTGCTC-GAAGATCCTAAAGGACTTAAAAAGATAAAACAAACCTACTCCTAATTC
*
138574 GTACCTTCAGCATAGAAGCAGACCTAGTAGCTTTATAGGACTAGGTTTCGGGAGAATACTAAAAT
65 ATACCTTCAGCATAGAAGCAGACCTAGTAGCTTTATAGGACTAGGTTTCGGGAGAATACTAAAAT
* *
138639 ATCCCTAAAGTTTAATAT
130 ATCCCTAAAGTTTAACAC
* * * * *
138657 CGACATAAAAGTGCTCGAAGATCCTAGAGGACTTAAGAAGATAAAAACAATCCTACTCCTAATTT
1 CGACATAGAAGTGCTCGAAGATCCTAAAGGACTTAAAAAGAT-AAAACAAACCTACTCCTAATTC
* * * * *
138722 ATACCTTCAGCATAGGAGCAGACCTAGTAGCTTTATAGGGCTAGTTTTTGGGAGAATGCTAAAAT
65 ATACCTTCAGCATAGAAGCAGACCTAGTAGCTTTATAGGACTAGGTTTCGGGAGAATACTAAAAT
* *
138787 ATCCCTAAGGTTTACCAC
130 ATCCCTAAAGTTTAACAC
* * * *
138805 CGGCTTAGAAGTGCTCGATGATCCTAAGGGACATTAA
1 CGACATAGAAGTGCTCGAAGATCCTAAAGGAC-TTAA
138842 TAAAAATTTT
Statistics
Matches: 159, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
147 36 0.23
148 119 0.75
149 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (147 bp):
CGACATAGAAGTGCTCGAAGATCCTAAAGGACTTAAAAAGATAAAACAAACCTACTCCTAATTCA
TACCTTCAGCATAGAAGCAGACCTAGTAGCTTTATAGGACTAGGTTTCGGGAGAATACTAAAATA
TCCCTAAAGTTTAACAC
Found at i:141264 original size:19 final size:20
Alignment explanation
Indices: 141232--141274 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
141222 GGAAAAATTC
141232 TAAAATTTATAAAA-TAAAT
1 TAAAATTTATAAAACTAAAT
*
141251 TAAAATTT-TAAAAACTAATT
1 TAAAATTTAT-AAAACTAAAT
141271 TAAA
1 TAAA
141275 TGGAGTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTTATAAAACTAAAT
Found at i:141273 original size:20 final size:19
Alignment explanation
Indices: 141227--141274 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
141217 TAATAGGAAA
141227 AATTCTAAAATTTATAAAAT
1 AATT-TAAAATTTATAAAAT
*
141247 AAATTAAAATTT-TAAAAACT
1 AATTTAAAATTTAT-AAAA-T
141267 AATTTAAA
1 AATTTAAA
141275 TGGAGTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTAAAATTTATAAAAT
Found at i:141487 original size:19 final size:20
Alignment explanation
Indices: 141455--141497 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
141445 GGAAAAATTC
141455 TAAAATTTATAAAA-TAAAT
1 TAAAATTTATAAAACTAAAT
*
141474 TAAAATTT-TAAAAACTAATT
1 TAAAATTTAT-AAAACTAAAT
141494 TAAA
1 TAAA
141498 TGGAGTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTTATAAAACTAAAT
Found at i:141496 original size:20 final size:19
Alignment explanation
Indices: 141450--141497 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
141440 TAATAGGAAA
141450 AATTCTAAAATTTATAAAAT
1 AATT-TAAAATTTATAAAAT
*
141470 AAATTAAAATTT-TAAAAACT
1 AATTTAAAATTTAT-AAAA-T
141490 AATTTAAA
1 AATTTAAA
141498 TGGAGTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTAAAATTTATAAAAT
Found at i:141508 original size:223 final size:223
Alignment explanation
Indices: 141115--141564 Score: 882
Period size: 223 Copynumber: 2.0 Consensus size: 223
141105 TTCAAAATTG
*
141115 AATTGATATGAATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATTTTA
1 AATTAATATGAATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATTTTA
141180 TCGAAAAATTTATAGAAAAGAAAACTCTGTATTTCGATAATAGGAAAAATTCTAAAATTTATAAA
66 TCGAAAAATTTATAGAAAAGAAAACTCTGTATTTCGATAATAGGAAAAATTCTAAAATTTATAAA
*
141245 ATAAATTAAAATTTTAAAAACTAATTTAAATGGAGTCTGATGACAATGTCAGATGAATTTTAAAA
131 ATAAATTAAAATTTTAAAAACTAATTTAAATGGAGTCTGATGACAATATCAGATGAATTTTAAAA
141310 CTTTTAAAAAGAGAAAAATCTCTCCAAA
196 CTTTTAAAAAGAGAAAAATCTCTCCAAA
141338 AATTAATATGAATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATTTTA
1 AATTAATATGAATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATTTTA
141403 TCGAAAAATTTATAGAAAAGAAAACTCTGTATTTCGATAATAGGAAAAATTCTAAAATTTATAAA
66 TCGAAAAATTTATAGAAAAGAAAACTCTGTATTTCGATAATAGGAAAAATTCTAAAATTTATAAA
141468 ATAAATTAAAATTTTAAAAACTAATTTAAATGGAGTCTGATGACAATATCAGATGAATTTTAAAA
131 ATAAATTAAAATTTTAAAAACTAATTTAAATGGAGTCTGATGACAATATCAGATGAATTTTAAAA
141533 CTTTTAAAAAGAGAAAAATCTCTCCAAA
196 CTTTTAAAAAGAGAAAAATCTCTCCAAA
141561 AATT
1 AATT
141565 TTTATGGAAT
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
223 225 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (223 bp):
AATTAATATGAATTAAACAATAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATTTTA
TCGAAAAATTTATAGAAAAGAAAACTCTGTATTTCGATAATAGGAAAAATTCTAAAATTTATAAA
ATAAATTAAAATTTTAAAAACTAATTTAAATGGAGTCTGATGACAATATCAGATGAATTTTAAAA
CTTTTAAAAAGAGAAAAATCTCTCCAAA
Found at i:142911 original size:45 final size:45
Alignment explanation
Indices: 142844--143009 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 45
142834 GAACATTTAT
* * *
142844 GTCAAACAAATAT-AAAAGGAGTTTGACCATGGTTAAACCATTAC
1 GTCAAACAAAGATGAAAAGGAGTTTGACCAGGGTTAAACCATCAC
* *
142888 GTCAAACAAAGATGAAAAGGAGTTTCACCAGGGCTAAACCATCAC
1 GTCAAACAAAGATGAAAAGGAGTTTGACCAGGGTTAAACCATCAC
* * * ** *
142933 GTCAAACAGAGATGAAAGGGAGTTCGACTGGGGTTAAACCATCAT
1 GTCAAACAAAGATGAAAAGGAGTTTGACCAGGGTTAAACCATCAC
*
142978 GTCAAACAAGATATG-AAAGGAGTTTGACCAGG
1 GTCAAACAA-AGATGAAAAGGAGTTTGACCAGG
143010 TCTAACGTTA
Statistics
Matches: 101, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
44 12 0.12
45 85 0.84
46 4 0.04
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (45 bp):
GTCAAACAAAGATGAAAAGGAGTTTGACCAGGGTTAAACCATCAC
Found at i:143233 original size:44 final size:45
Alignment explanation
Indices: 143184--143490 Score: 193
Period size: 45 Copynumber: 6.8 Consensus size: 45
143174 AGGGCACAAG
*
143184 AGTTTGACTAGGACC-AACACCAATA-AAGCCAAACGAAGAAACAT
1 AGTTTGACCAGGACCTAACACCAATACAA-CCAAACGAAGAAACAT
*
143228 AGTTTGACCAGGTCCTAACACCAATACAACCAAACGAAGAAACAT
1 AGTTTGACCAGGACCTAACACCAATACAACCAAACGAAGAAACAT
*** * ** *
143273 AGTTTGACCAGGTTTTAACA-CAATATAGTCAAAC-AATGGTGAAA-AG
1 AGTTTGACCAGGACCTAACACCAATACAACCAAACGAA----GAAACAT
* ** **
143319 AGTTTGACTAGGA-CTAATGCCAATACAACCAAACGAA-AGAAGTT
1 AGTTTGACCAGGACCTAACACCAATACAACCAAACGAAGA-AACAT
* ** * * *
143363 AGTTTGACCAGGTCCTAACACCAATACAGTCAAACGATGGTGGAA-AG
1 AGTTTGACCAGGACCTAACACCAATACAACCAAACGA---AGAAACAT
* * * * * *
143410 AGTTTGACCAGGA-CTAACGCCAATATAGCCAAATGAAGGAAGAT
1 AGTTTGACCAGGACCTAACACCAATACAACCAAACGAAGAAACAT
* * *
143454 AGTTTGACTA-GATCGTAACACCAATACAATCAAACGA
1 AGTTTGACCAGGA-CCTAACACCAATACAACCAAACGA
143491 GGGTGGAAAG
Statistics
Matches: 203, Mismatches: 42, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.00
43 10 0.05
44 45 0.22
45 83 0.41
46 44 0.22
47 18 0.09
48 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (45 bp):
AGTTTGACCAGGACCTAACACCAATACAACCAAACGAAGAAACAT
Found at i:143343 original size:46 final size:46
Alignment explanation
Indices: 143293--143707 Score: 142
Period size: 46 Copynumber: 9.2 Consensus size: 46
143283 GGTTTTAACA
* * * *
143293 CAATATAGTCAAACAATGGTGAAAAGAGTTTGACTAGGACTAATGC
1 CAATACAGCCAAACAATGGTGAAAAGAGTTTGACCAGGACTAACGC
* * *** * *
143339 CAATACAACCAAACGAA---AGAAGTTAGTTTGACCAGGTCCTAACAC
1 CAATACAGCCAAAC-AATGGTGAAAAGAGTTTGACCAGG-ACTAACGC
* * *
143384 CAATACAGTCAAACGATGGTGGAAAGAGTTTGACCAGGACTAACGC
1 CAATACAGCCAAACAATGGTGAAAAGAGTTTGACCAGGACTAACGC
* * * * * *
143430 CAATATAGCCAAATGAA--G-GAAGATAGTTTGACTA-GATCGTAACAC
1 CAATACAGCCAAA-CAATGGTGAAAAGAGTTTGACCAGGA-C-TAACGC
** * * * * * *
143475 CAATACAATCAAACGAGGGTGGAAAGAGTTTGACTAAGACTAACAC
1 CAATACAGCCAAACAATGGTGAAAAGAGTTTGACCAGGACTAACGC
* * * * * * * * *
143521 CAATACAGCTAAATGAA--AT-AAGATAATTTTACTAGGTCCTAACGC
1 CAATACAGCCAAA-CAATGGTGAAAAGAGTTTGACCAGG-ACTAACGC
* ** * * ** *
143566 CAATACAGTC-AATGAGGGTGGAAAGAGTTTGACCAAGTCCTAATGC
1 CAATACAGCCAAACAATGGTGAAAAGAGTTTGACC-AGGACTAACGC
* * **
143612 CAATACAGCCAAATGAA-GGTGAAAAAAGTTTGACCAGG--TTTC-C
1 CAATACAGCCAAA-CAATGGTGAAAAGAGTTTGACCAGGACTAACGC
* * * * *
143655 TAATATAGTCAAACGAGGGT-AGAAAGAGTTTGACCAGGACTAACGC
1 CAATACAGCCAAACAATGGTGA-AAAGAGTTTGACCAGGACTAACGC
143701 CAATACA
1 CAATACA
143708 ATGAAATGAA
Statistics
Matches: 260, Mismatches: 84, Indels: 50
0.66 0.21 0.13
Matches are distributed among these distances:
42 2 0.01
43 32 0.12
44 43 0.17
45 51 0.20
46 77 0.30
47 52 0.20
48 3 0.01
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (46 bp):
CAATACAGCCAAACAATGGTGAAAAGAGTTTGACCAGGACTAACGC
Found at i:143410 original size:91 final size:91
Alignment explanation
Indices: 143228--143717 Score: 472
Period size: 91 Copynumber: 5.4 Consensus size: 91
143218 GAAGAAACAT
* * * * **
143228 AGTTTGACCAGGTCCTAACACCAATACAACCAAACG-AAGAAACATAGTTTGACCAGGTTTTAAC
1 AGTTTGACCAGG-ACTAACGCCAATACAACCAAATGAAAG-AAGATAGTTTGACCAGGTCCTAAC
* * * *
143292 A-CAATATAGTCAAACAATGGTGAAAAG
64 ACCAATACAGTCAAACGAGGGTGGAAAG
* * * *
143319 AGTTTGACTAGGACTAATGCCAATACAACCAAACGAAAGAAGTTAGTTTGACCAGGTCCTAACAC
1 AGTTTGACCAGGACTAACGCCAATACAACCAAATGAAAGAAGATAGTTTGACCAGGTCCTAACAC
*
143384 CAATACAGTCAAACGATGGTGGAAAG
66 CAATACAGTCAAACGAGGGTGGAAAG
* * * * * *
143410 AGTTTGACCAGGACTAACGCCAATATAGCCAAATGAAGGAAGATAGTTTGACTAGATCGTAACAC
1 AGTTTGACCAGGACTAACGCCAATACAACCAAATGAAAGAAGATAGTTTGACCAGGTCCTAACAC
*
143475 CAATACAATCAAACGAGGGTGGAAAG
66 CAATACAGTCAAACGAGGGTGGAAAG
* * * * * * * * * *
143501 AGTTTGACTAAGACTAACACCAATACAGCTAAATGAAATAAGATAATTTTACTAGGTCCTAACGC
1 AGTTTGACCAGGACTAACGCCAATACAACCAAATGAAAGAAGATAGTTTGACCAGGTCCTAACAC
*
143566 CAATACAGTC-AATGAGGGTGGAAAG
66 CAATACAGTCAAACGAGGGTGGAAAG
** * * * * * *
143591 AGTTTGACCAAGTCCTAATGCCAATACAGCCAAATGAAGGTGAAAAAAGTTTGACCAGGT--T-T
1 AGTTTGACC-AGGACTAACGCCAATACAACCAAATGAA--AGAAGATAGTTTGACCAGGTCCTAA
* * *
143653 C-CTAATATAGTCAAACGAGGGTAGAAAG
63 CACCAATACAGTCAAACGAGGGTGGAAAG
**
143681 AGTTTGACCAGGACTAACGCCAATACAATGAAATGAA
1 AGTTTGACCAGGACTAACGCCAATACAACCAAATGAA
143718 GGTAAAAAAA
Statistics
Matches: 331, Mismatches: 62, Indels: 14
0.81 0.15 0.03
Matches are distributed among these distances:
89 31 0.09
90 86 0.26
91 201 0.61
93 13 0.04
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (91 bp):
AGTTTGACCAGGACTAACGCCAATACAACCAAATGAAAGAAGATAGTTTGACCAGGTCCTAACAC
CAATACAGTCAAACGAGGGTGGAAAG
Found at i:143458 original size:135 final size:135
Alignment explanation
Indices: 143181--143490 Score: 321
Period size: 135 Copynumber: 2.3 Consensus size: 135
143171 ATGAGGGCAC
*
143181 AAGAGTTTGACTAGGACCAACACCAATA-AAGCCAAACG-AAGAAACATAGTTTGACCAGGTCCT
1 AAGAGTTTGACTAGGACTAACACCAATACAA-CCAAACGAAAGAAACATAGTTTGACCAGGTCCT
* ** *
143244 AACACCAATACAACCAAACGAAGAAACATAGTTTGACCAGGTTTTAACACAATATAGTCAAACAA
65 AACACCAATACAACCAAACGAAGAAACAGAGTTTGACCAGGTACTAACACAATATAGCCAAACAA
143309 TGGTGAA
130 -GGTGAA
** **
143316 AAGAGTTTGACTAGGACTAATGCCAATACAACCAAACGAAAG-AAGTTAGTTTGACCAGGTCCTA
1 AAGAGTTTGACTAGGACTAACACCAATACAACCAAACGAAAGAAACATAGTTTGACCAGGTCCTA
** * * *
143380 ACACCAATACAGTCAAACGATGGTGGAA-AGAGTTTGACCAGG-ACTAACGCCAATATAGCCAAA
66 ACACCAATACAACCAAACGA---AGAAACAGAGTTTGACCAGGTACTAAC-ACAATATAGCCAAA
*
143443 TGAA-G-GAA
127 -CAAGGTGAA
* * *
143451 GATAGTTTGACTA-GATCGTAACACCAATACAATCAAACGA
1 AAGAGTTTGACTAGGA-C-TAACACCAATACAACCAAACGA
143491 GGGTGGAAAG
Statistics
Matches: 146, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
134 2 0.01
135 85 0.58
136 29 0.20
137 25 0.17
138 5 0.03
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (135 bp):
AAGAGTTTGACTAGGACTAACACCAATACAACCAAACGAAAGAAACATAGTTTGACCAGGTCCTA
ACACCAATACAACCAAACGAAGAAACAGAGTTTGACCAGGTACTAACACAATATAGCCAAACAAG
GTGAA
Found at i:143507 original size:47 final size:44
Alignment explanation
Indices: 143363--143707 Score: 157
Period size: 46 Copynumber: 7.6 Consensus size: 44
143353 GAAAGAAGTT
*
143363 AGTTTGACCAGGTCCTAACACCAATACAGTCAAACGATGGTGGAAAG
1 AGTTTGACCA-G-ACTAACACCAATACAGTCAAACGA-GGTGGAAAG
* * * * * *
143410 AGTTTGACCAGGACTAACGCCAATATAGCCAAATGA--AGGAAGAT
1 AGTTTGACCA-GACTAACACCAATACAGTCAAACGAGGTGGAA-AG
* *
143454 AGTTTGACTAGATCGTAACACCAATACAATCAAACGAGGGTGGAAAG
1 AGTTTGACCAGA-C-TAACACCAATACAGTCAAACGA-GGTGGAAAG
* * ** *
143501 AGTTTGACTAAGACTAACACCAATACAG-CTAAATGAAAT--AAGAT
1 AGTTTGAC-CAGACTAACACCAATACAGTC-AAACGAGGTGGAA-AG
* * * * * *
143545 AATTTTACTAGGTCCTAACGCCAATACAGTC-AATGAGGGTGGAAAG
1 AGTTTGACCA-G-ACTAACACCAATACAGTCAAACGA-GGTGGAAAG
* ** * * * *
143591 AGTTTGACCAAGTCCTAATGCCAATACAGCCAAATGAAGGTGAAAAA
1 AGTTTGACC-AG-ACTAACACCAATACAGTCAAACG-AGGTGGAAAG
* ** * * *
143638 AGTTTGACCAG-GTTTC-CTAATATAGTCAAACGAGGGTAGAAAG
1 AGTTTGACCAGACTAACACCAATACAGTCAAACGA-GGTGGAAAG
*
143681 AGTTTGACCAGGACTAACGCCAATACA
1 AGTTTGACCA-GACTAACACCAATACA
143708 ATGAAATGAA
Statistics
Matches: 224, Mismatches: 52, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
42 1 0.00
43 37 0.17
44 26 0.12
45 36 0.16
46 71 0.32
47 45 0.20
48 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTTTGACCAGACTAACACCAATACAGTCAAACGAGGTGGAAAG
Found at i:143526 original size:182 final size:179
Alignment explanation
Indices: 143228--143708 Score: 529
Period size: 182 Copynumber: 2.7 Consensus size: 179
143218 GAAGAAACAT
* * * *
143228 AGTTTGACCAGGTCCTAACACCAATACAACCAAACGAA-GAAACATAGTTTGACCAGGTTTTAAC
1 AGTTTGACCAGG-CCTAACGCCAATACAGCCAAATGAAGGAAA-ATAGTTTGACCA-G-TGTAAC
* * * *
143292 A-CAATATAGTCAAACAATGGTGAAAAGAGTTTGACTAGGACTAATGCCAATACAACCAAACGAA
62 ACCAATATAGTCAAACGAGGGTGGAAAGAGTTTGACTAGGACTAACGCCAATACAACCAAACGAA
* * *
143356 AGAAGTTAGTTTGACCAGGTCCTAACACCAATACAGTCAAACGATGGTGGAAAG
127 AGAAGATAATTTGACCAGGTCCTAACACCAATACAGTC-AACGAGGGTGGAAAG
* * * *
143410 AGTTTGACCAGGACTAACGCCAATATAGCCAAATGAAGGAAGATAGTTTGACTAGATCGTAACAC
1 AGTTTGACCAGGCCTAACGCCAATACAGCCAAATGAAGGAAAATAGTTTGACCAG-T-GTAACAC
* * * * * * * *
143475 CAATACAATCAAACGAGGGTGGAAAGAGTTTGACTAAGACTAACACCAATACAGCTAAATGAAAT
64 CAATATAGTCAAACGAGGGTGGAAAGAGTTTGACTAGGACTAACGCCAATACAACCAAACGAAAG
* * * *
143540 AAGATAATTTTACTAGGTCCTAACGCCAATACAGTCAATGAGGGTGGAAAG
129 AAGATAATTTGACCAGGTCCTAACACCAATACAGTCAACGAGGGTGGAAAG
* * * **
143591 AGTTTGACCAAGTCCTAATGCCAATACAGCCAAATGAAGGTGAAAAAAGTTTGACCAG-GTTTC-
1 AGTTTGACC-AGGCCTAACGCCAATACAGCCAAATGAA-G-GAAAATAGTTTGACCAGTGTAACA
* * *
143654 CTAATATAGTCAAACGAGGGTAGAAAGAGTTTGACCAGGACTAACGCCAATACAA
63 CCAATATAGTCAAACGAGGGTGGAAAGAGTTTGACTAGGACTAACGCCAATACAA
143709 TGAAATGAAG
Statistics
Matches: 248, Mismatches: 45, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
180 49 0.20
181 61 0.25
182 123 0.50
183 1 0.00
184 14 0.06
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (179 bp):
AGTTTGACCAGGCCTAACGCCAATACAGCCAAATGAAGGAAAATAGTTTGACCAGTGTAACACCA
ATATAGTCAAACGAGGGTGGAAAGAGTTTGACTAGGACTAACGCCAATACAACCAAACGAAAGAA
GATAATTTGACCAGGTCCTAACACCAATACAGTCAACGAGGGTGGAAAG
Found at i:143779 original size:46 final size:48
Alignment explanation
Indices: 143677--143788 Score: 122
Period size: 46 Copynumber: 2.4 Consensus size: 48
143667 ACGAGGGTAG
* * * *
143677 AAAGAGTTTGACCAGGACTAACGCCAATACAATGAAATGAAGGTAAAA
1 AAAGAGTTTGACCAGGGCTAACACCAATACAATCAAATCAAGGTAAAA
** **
143725 AAAG-GTTTGACCAGGGC-AACACTGATACAATCAAA-CAAGGTATGA
1 AAAGAGTTTGACCAGGGCTAACACCAATACAATCAAATCAAGGTAAAA
*
143770 AAAGAGTTTGACTAGGGCT
1 AAAGAGTTTGACCAGGGCT
143789 GAACCATCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
45 11 0.21
46 26 0.49
47 12 0.23
48 4 0.08
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (48 bp):
AAAGAGTTTGACCAGGGCTAACACCAATACAATCAAATCAAGGTAAAA
Found at i:145162 original size:18 final size:16
Alignment explanation
Indices: 145131--145181 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 16
145121 ATATTATTTA
145131 TTTCTTTTTTCTTTCTT
1 TTTCTTTTTTCTTT-TT
145148 TTTCTTTTCTTCTTTTT
1 TTTCTTTT-TTCTTTTT
145165 TTT-TTTGGTTTCTTTTT
1 TTTCTTT--TTTCTTTTT
145182 GGTTTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.10
17 21 0.68
18 7 0.23
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTTCTTTTT
Found at i:145170 original size:15 final size:15
Alignment explanation
Indices: 145135--145169 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
145125 TATTTATTTC
145135 TTTTTTCTTTCTTTT
1 TTTTTTCTTTCTTTT
*
145150 TCTTTTC-TTCTTTT
1 TTTTTTCTTTCTTTT
145164 TTTTTT
1 TTTTTT
145170 TGGTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTCTTTCTTTT
Found at i:145553 original size:13 final size:13
Alignment explanation
Indices: 145537--145579 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
145527 CTTTTCATTC
145537 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
*
145550 TTTTTTTCTTCTGT
1 TTTTTTTTTTCT-T
*
145564 TTTCCTTTTTTCTT
1 TTT-TTTTTTTCTT
145578 TT
1 TT
145580 CACAAAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 7 0.28
15 7 0.28
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:146834 original size:79 final size:79
Alignment explanation
Indices: 146740--147001 Score: 316
Period size: 79 Copynumber: 3.3 Consensus size: 79
146730 TATTTTAGAG
* * *
146740 ATAATAAT-AGGGTTGGAGGATCCCCTCTAAAATAATGAGGTTGGAGTATCCCCAATGATGAAAA
1 ATAA-AATCAGGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCAATGATGAAAA
*
146804 ATCAGTGTTTTAGAA
65 ATCAGTGTTTTGGAA
* * * * *
146819 ATAAAACCAGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAA
1 ATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCAATGATGAAAAA
146884 TC-GATGTTTTGGAA
66 TCAG-TGTTTTGGAA
* * * * * *
146898 ATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAATGGGGTTAGAGTATCCTTGATTG-TGAAAA
1 ATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCC-TCAATGATGAAAA
*
146962 ATCAGAGTTTTGGAA
65 ATCAGTGTTTTGGAA
146977 ATAAAATC-GAGGTTGGAGTATCCCC
1 ATAAAATCAG-GGTTGGAGTATCCCC
147002 GATTGTGAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
78 4 0.03
79 151 0.96
80 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
ATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCTCAATGATGAAAAA
TCAGTGTTTTGGAA
Found at i:147051 original size:53 final size:52
Alignment explanation
Indices: 146926--147053 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 52
146916 TATCCCTTCA
* * ** * *
146926 AAAATAATGGGGTTAGAGTATCCTTGATTGTGAAAAATCAGAGTTTTGGAAAT
1 AAAA-AATGAGGTTGGAGTATCCCCGATTGTGAAAAATCAGAATTTTGAAAAT
146979 --AAAATCGAGGTTGGAGTATCCCCGATTGTGAAAAATC-GATATTTTAGAAAAT
1 AAAAAAT-GAGGTTGGAGTATCCCCGATTGTGAAAAATCAGA-ATTTT-GAAAAT
147031 AAAAAATGAGGTTGGAGTATCCC
1 AAAAAATGAGGTTGGAGTATCCC
147054 TTCGAAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
50 5 0.08
51 33 0.52
52 5 0.08
53 16 0.25
54 5 0.08
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAAATGAGGTTGGAGTATCCCCGATTGTGAAAAATCAGAATTTTGAAAAT
Found at i:147091 original size:132 final size:130
Alignment explanation
Indices: 146854--147095 Score: 326
Period size: 132 Copynumber: 1.8 Consensus size: 130
146844 TCAAAAATAA
* * * *
146854 CGAGGTTGGAGTATCCTCGATTATGAAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAGTAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGAGGTTGGAGTAT
* * ** *
146919 CCCTTCAAAAATAATGGGGTTAGAGTATCCTTGATTGTGAAAAATCAGAGTTTTGGAAATAAAAT
66 CCCTTCAAAAATAATCGGGATAGAGTATCCCCGATGGTGAAAAATCAGAGTTTTGGAAATAAAAT
*
146984 CGAGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAAATAAAAAAT-GAGGTTGGAG
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTT-GAAAAT--AAAATCGAGGTTGGAG
* *
147048 TATCCCTTCGAAAATAA-CGGGATAGGAGTGTCCCCGATGGTGAAAAAT
63 TATCCCTTCAAAAATAATCGGGATA-GAGTATCCCCGATGGTGAAAAAT
147096 TATGTTTTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
130 37 0.39
131 10 0.10
132 44 0.46
133 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (130 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAATCGAGGTTGGAGTAT
CCCTTCAAAAATAATCGGGATAGAGTATCCCCGATGGTGAAAAATCAGAGTTTTGGAAATAAAAT
Found at i:149835 original size:43 final size:42
Alignment explanation
Indices: 149787--149880 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
149777 CCTTGAGGAC
*
149787 AAAGGAAA-AAGAATTACATCCTACTCTTCGAGAATAAAGGAAA
1 AAAGGAAATAA-AA-TACATCCTACTCTTCGAGAACAAAGGAAA
* * * *
149830 AAAGGAAATAAAATGCGTCCTACTCTTTGAGGACAAAGGAAA
1 AAAGGAAATAAAATACATCCTACTCTTCGAGAACAAAGGAAA
149872 AGAAGGAAA
1 A-AAGGAAA
149881 CAAAGTGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 25 0.57
43 17 0.39
44 2 0.05
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (42 bp):
AAAGGAAATAAAATACATCCTACTCTTCGAGAACAAAGGAAA
Found at i:149893 original size:43 final size:42
Alignment explanation
Indices: 149805--149995 Score: 195
Period size: 42 Copynumber: 4.5 Consensus size: 42
149795 AAGAATTACA
* * * *
149805 TCCTACTCTTCGAGAATAAAGGAAAAAAGGAAATAAAATGCG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCG
* *
149847 TCCTACTCTTTGAGGACAAAGGAAAAGAAGGAAACAAAGTGTG
1 TCCTACTCTTTGAGGACAAAGGAAAA-AAGGAAATAAAGTGCG
* * * * *
149890 TCCTGCTCTTTAAGGACAAAGGAGAAAATGAAATAAAGTGTG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCG
* * * * * *
149932 TCCTGCTTTTTTAGGACAAAGG-GAAAAGAAAATAAAGTACG
1 TCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCG
*
149973 TCCTCCTCTTTGAGGACTAAAGG
1 TCCTACTCTTTGAGGAC-AAAGG
149996 GTGCCACTAA
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 29 0.23
42 62 0.49
43 36 0.28
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (42 bp):
TCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCG
Found at i:156452 original size:48 final size:48
Alignment explanation
Indices: 156371--156493 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 48
156361 ATCCCCTCGA
* * *
156371 AAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTTTGG
1 AAATAAAGGGGTTGGACTATCCCCGATTATG-AAAATTAGATGTTTTGG
* * *
156419 AAATAAAGGGGTTGGACTATCTCTGATTATGAAAATTTGATGTTTTGG
1 AAATAAAGGGGTTGGACTATCCCCGATTATGAAAATTAGATGTTTTGG
*
156467 AAATAAAACCGGGGTTGGAGTATCCCC
1 AAAT-AAA--GGGGTTGGACTATCCCC
156494 TCGAAAATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
47 7 0.11
48 38 0.61
49 3 0.05
51 14 0.23
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.32
Consensus pattern (48 bp):
AAATAAAGGGGTTGGACTATCCCCGATTATGAAAATTAGATGTTTTGG
Found at i:156502 original size:79 final size:78
Alignment explanation
Indices: 156419--156677 Score: 249
Period size: 80 Copynumber: 3.3 Consensus size: 78
156409 AGTGTTTTGG
* * **
156419 AAATAAAGGGGTTGGACTATCTCTGATTATGAAAATTTGATGTTTTGGAAATAAAACCGGGGTTG
1 AAATAAAGGGGTTGGAGTATCCCTGATTATGAAAATTTGATGTTTT-GAAATAAAACTAGGGTTG
156484 GAGTATCCCCTCGA
65 GAGTATCCCCTCGA
* * * **
156498 AAATAACGGGGTTAGAGTATCCCTGATTGTGGAAAATAGGTAT-TTTTGAAATAAAAACTAGGGT
1 AAATAAAGGGGTTGGAGTATCCCTGATTAT-GAAAATTTG-ATGTTTTGAAAT-AAAACTAGGGT
*
156562 TGGAGTATCCCTTCGA
63 TGGAGTATCCCCTCGA
* * * * * *
156578 AAATAATGGGGTAGGAGTATCCCCGA-TAGTGAAAAATT-AGTGTTTTTAAAAATAAAGCTAGGG
1 AAATAAAGGGGTTGGAGTATCCCTGATTA-TGAAAATTTGA-TG-TTTT-GAAATAAAACTAGGG
156641 TTGGAGTAT-CCCTCGA
62 TTGGAGTATCCCCTCGA
*
156657 AAATAACA-AGGTTGGAGTATC
1 AAATAA-AGGGGTTGGAGTATC
156678 TCCAATGGTG
Statistics
Matches: 147, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 59 0.40
80 80 0.54
81 6 0.04
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (78 bp):
AAATAAAGGGGTTGGAGTATCCCTGATTATGAAAATTTGATGTTTTGAAATAAAACTAGGGTTGG
AGTATCCCCTCGA
Found at i:156568 original size:80 final size:79
Alignment explanation
Indices: 156461--156713 Score: 268
Period size: 80 Copynumber: 3.2 Consensus size: 79
156451 AAATTTGATG
**
156461 TTTTGGAAAT-AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCTGAT
1 TTTTGGAAATAAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCC-GAT
*
156525 TGTGGAAAA-TAGGTA
65 AGTGGAAAATTA-GTA
* * *
156540 TTTTTGAAATAAAAACTAGGGTTGGAGTATCCCTTCGAAAATAATGGGG-TAGGAGTATCCCCGA
1 TTTTGGAAATAAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTA-GAGTAT-CCCGA
* *
156604 TAGTGAAAAATTAGTG
64 TAGTGGAAAATTAGTA
* ** * *
156620 TTTT-TAAA-AATAAAGCTAGGGTTGGAGTAT-CCCTCGAAAATAACAAGGTTGGAGTATCTCCA
1 TTTTGGAAATAA-AAA-CTAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATC-CCG
*
156682 ATGGTGGAAAATTA-TA
63 ATAGTGGAAAATTAGTA
156698 TTTTGGAAATAAAAAC
1 TTTTGGAAATAAAAAC
156714 ACTGATGAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
78 9 0.06
79 57 0.39
80 74 0.51
81 5 0.03
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCGATA
GTGGAAAATTAGTA
Found at i:158588 original size:20 final size:20
Alignment explanation
Indices: 158563--158637 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
158553 GTATTGGTAC
158563 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
**
158583 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCACA
*
158602 ATTGTATCGATATATGCACA
1 ATTGTATCGATACATGCACA
158622 ATTGTATCGATACATG
1 ATTGTATCGATACATG
158638 AAACTAGCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.33
20 32 0.67
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:158619 original size:39 final size:39
Alignment explanation
Indices: 158562--158637 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
158552 TGTATTGGTA
158562 CATTGTATCGATACATGCACAATTGTATCGATACATGTT
1 CATTGTATCGATACATGCACAATTGTATCGATACATGTT
*
158601 CATTGTATCGATATATGCACAATTGTATCGATACATG
1 CATTGTATCGATACATGCACAATTGTATCGATACATG
158638 AAACTAGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
CATTGTATCGATACATGCACAATTGTATCGATACATGTT
Found at i:164828 original size:20 final size:21
Alignment explanation
Indices: 164803--164841 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
164793 ATTTTCCAGA
164803 ATGTATCGATACAT-TGAAGC
1 ATGTATCGATACATCTGAAGC
164823 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
164842 AAAACCCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATCTGAAGC
Found at i:166801 original size:22 final size:22
Alignment explanation
Indices: 166773--166816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
166763 TTTTAAACGA
*
166773 TTATCAAGTGGGAGAAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
166795 TTATCAAGAGGGAGAAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
166817 AAACGAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (22 bp):
TTATCAAGAGGGAGAAATTTTT
Found at i:166825 original size:21 final size:22
Alignment explanation
Indices: 166777--166825 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
166767 AAACGATTAT
* * *
166777 CAAGTGGGAGAAATTTTTTTAT
1 CAAGAGGGAGAAATTTTTTAAA
166799 CAAGAGGGAGAAA-TTTTTAAA
1 CAAGAGGGAGAAATTTTTTAAA
*
166820 CGAGAG
1 CAAGAG
166826 CCTTAACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.29
Consensus pattern (22 bp):
CAAGAGGGAGAAATTTTTTAAA
Found at i:167058 original size:21 final size:21
Alignment explanation
Indices: 167034--167075 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
167024 ATAGAGAGTA
167034 AAGTCAACCAAATTTATTTTT
1 AAGTCAACCAAATTTATTTTT
167055 AAGTCAACCAAATTTATTTTT
1 AAGTCAACCAAATTTATTTTT
167076 TTAAAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (21 bp):
AAGTCAACCAAATTTATTTTT
Found at i:167427 original size:71 final size:71
Alignment explanation
Indices: 167325--167483 Score: 291
Period size: 71 Copynumber: 2.2 Consensus size: 71
167315 CATAGGTATT
* * *
167325 TGTATCGATACATTATGATTGACTTATGCTACAAAGGTCAAAGCCCTTGTATGTATCGATACACT
1 TGTATCGATACATTATGATTGACTTAAGCTACAAAGGTCAAAACCCTTGTATGTATCAATACACT
167390 CCCAGA
66 CCCAGA
167396 TGTATCGATACATTATGATTGACTTAAGCTACAAAGGTCAAAACCCTTGTATGTATCAATACACT
1 TGTATCGATACATTATGATTGACTTAAGCTACAAAGGTCAAAACCCTTGTATGTATCAATACACT
167461 CCCAGA
66 CCCAGA
167467 TGTATCGATACATTATG
1 TGTATCGATACATTATG
167484 CTTTGTATCG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 85 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (71 bp):
TGTATCGATACATTATGATTGACTTAAGCTACAAAGGTCAAAACCCTTGTATGTATCAATACACT
CCCAGA
Found at i:167510 original size:19 final size:19
Alignment explanation
Indices: 167467--167558 Score: 114
Period size: 19 Copynumber: 4.7 Consensus size: 19
167457 CACTCCCAGA
*
167467 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
167487 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
167506 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
167525 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTTC-AT
*
167545 TGTATCAATACATG
1 TGTATCGATACATG
167559 AAACTGGTAG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
19 36 0.55
20 29 0.44
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:167516 original size:39 final size:39
Alignment explanation
Indices: 167467--167558 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
167457 CACTCCCAGA
* **
167467 TGTATCGATACAT-TATGCTTTGTATCGATACATGTTC-AT
1 TGTATCGATACATGT-T-CATTGTATCGATACATGCACAAT
167506 TGTATCGATACATGTTCATTGTATCGATACATGCACAAT
1 TGTATCGATACATGTTCATTGTATCGATACATGCACAAT
*
167545 TGTATCAATACATG
1 TGTATCGATACATG
167559 AAACTGGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 17 0.36
39 29 0.62
40 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (39 bp):
TGTATCGATACATGTTCATTGTATCGATACATGCACAAT
Found at i:167626 original size:63 final size:63
Alignment explanation
Indices: 167524--167663 Score: 183
Period size: 63 Copynumber: 2.2 Consensus size: 63
167514 TACATGTTCA
* * * *
167524 TTGTATCGATACATGCACAATTGTATCAATACATGAAACTGGTAGTAGCTACCTTACCACTAT
1 TTGTATCAATACATGCACAATTGTATCAATACATAAAACTGGCAGTAGATACCTTACCACTAT
* * * *
167587 TTGTATCAATATATGGCAC-ATTTTATCGATACATAAAACTGGCAGTAGATACCTTACCACTGT
1 TTGTATCAATACAT-GCACAATTGTATCAATACATAAAACTGGCAGTAGATACCTTACCACTAT
*
167650 TTGTATCGATACAT
1 TTGTATCAATACAT
167664 TGCTTCAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
63 62 0.94
64 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (63 bp):
TTGTATCAATACATGCACAATTGTATCAATACATAAAACTGGCAGTAGATACCTTACCACTAT
Found at i:172317 original size:20 final size:19
Alignment explanation
Indices: 172294--172345 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
172284 CACACCCAGA
*
172294 TGTATCGATACATCTTGCTT
1 TGTATCGATACATCTT-CAT
*
172314 TGTATCGATACATGTTCAT
1 TGTATCGATACATCTTCAT
172333 TGTATCGATACAT
1 TGTATCGATACAT
172346 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATCTTCAT
Found at i:172337 original size:19 final size:19
Alignment explanation
Indices: 172294--172366 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
172284 CACACCCAGA
* *
172294 TGTATCGATACATCTTGCTT
1 TGTATCGATACATGTT-CAT
172314 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
172333 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
172353 TGTATTGATACATG
1 TGTATCGATACATG
172367 AAACTGGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 17 0.36
20 30 0.64
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:172356 original size:20 final size:19
Alignment explanation
Indices: 172313--172366 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
172303 ACATCTTGCT
**
172313 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGGACA
172332 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
*
172352 TTGTATTGATACATG
1 TTGTATCGATACATG
172367 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:172432 original size:13 final size:13
Alignment explanation
Indices: 172411--172441 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
172401 CAATACATGG
*
172411 TACAATGTATCGA
1 TACATTGTATCGA
172424 TACATTGTATCGA
1 TACATTGTATCGA
172437 TACAT
1 TACAT
172442 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:178619 original size:20 final size:20
Alignment explanation
Indices: 178594--178658 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
178584 AAAACCCAGA
178594 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
*
178614 TGTATC-A-A-TACA----T
1 TGTATCGATACAACATTCCT
*
178627 TGTATCGATAGAACATTCCT
1 TGTATCGATACAACATTCCT
178647 TGTATCGATACA
1 TGTATCGATACA
178659 TTATATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
13 7 0.20
14 1 0.03
15 1 0.03
16 3 0.09
17 3 0.09
18 1 0.03
19 1 0.03
20 18 0.51
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACATTCCT
Found at i:178636 original size:33 final size:33
Alignment explanation
Indices: 178594--178671 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
178584 AAAACCCAGA
178594 TGTATCGATACAACATTCCTTGTATCAATACAT
1 TGTATCGATACAACATTCCTTGTATCAATACAT
* *
178627 TGTATCGATAGAACATTCCTTGTATCGATACAT
1 TGTATCGATACAACATTCCTTGTATCAATACAT
*
178660 TATATCGATACA
1 TGTATCGATACA
178672 TTGGGTTCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACATTCCTTGTATCAATACAT
Found at i:178667 original size:13 final size:13
Alignment explanation
Indices: 178649--178673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
178639 ACATTCCTTG
178649 TATCGATACATTA
1 TATCGATACATTA
178662 TATCGATACATT
1 TATCGATACATT
178674 GGGTTCTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:178838 original size:20 final size:20
Alignment explanation
Indices: 178794--178860 Score: 100
Period size: 20 Copynumber: 3.2 Consensus size: 20
178784 AATTTTCCAC
178794 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCA-TTTTTCA--TCA
178816 AAATCTTTCATTTTTCATCA
1 AAATCTTTCATTTTTCATCA
178836 AAATCTTTCATTTTTCATCA
1 AAATCTTTCATTTTTCATCA
178856 AAATC
1 AAATC
178861 ATCAACAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 28 0.64
22 11 0.25
23 5 0.11
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATCTTTCATTTTTCATCA
Found at i:181199 original size:13 final size:13
Alignment explanation
Indices: 181181--181207 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
181171 ACATCTTGCT
181181 TTGTATCGATACA
1 TTGTATCGATACA
181194 TTGTATCGATACA
1 TTGTATCGATACA
181207 T
1 T
181208 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:181237 original size:20 final size:19
Alignment explanation
Indices: 181191--181247 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
181181 TTGTATCGAT
*
181191 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
181210 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
181229 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
181248 AAACTGACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:188018 original size:13 final size:13
Alignment explanation
Indices: 188000--188024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
187990 CATAAAGTGT
188000 TGTATCGATACAA
1 TGTATCGATACAA
188013 TGTATCGATACA
1 TGTATCGATACA
188025 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:188089 original size:52 final size:52
Alignment explanation
Indices: 188033--188161 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
188023 CACTGATCTT
*
188033 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
188085 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
188137 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
188162 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:191773 original size:31 final size:31
Alignment explanation
Indices: 191630--191954 Score: 235
Period size: 31 Copynumber: 10.3 Consensus size: 31
191620 AAGAGTAGGA
* * *
191630 CTTTCTTTGTCCTCAAAAAGCAGGATATTTT
1 CTTTCTTTGTCCTCAAAGAGTAGGATGTTTT
* * * * * **
191661 CTTTCCTTGTTCTTAAAGAGCAAGACATTTT
1 CTTTCTTTGTCCTCAAAGAGTAGGATGTTTT
* * **
191692 CTTTCTTTATCCTCAAA-AGTTGGACATTTT
1 CTTTCTTTGTCCTCAAAGAGTAGGATGTTTT
*
191722 ATTTCATTT-TCCTCAAAGAGTAGGATGTTTT
1 CTTTC-TTTGTCCTCAAAGAGTAGGATGTTTT
* * *
191753 C-TTCATTTGTTCTTAAAGAGTAGGACGTTTT
1 CTTTC-TTTGTCCTCAAAGAGTAGGATGTTTT
* * *
191784 CTTTCTTTGTCCTCAAAAAGAATGATGTTTT
1 CTTTCTTTGTCCTCAAAGAGTAGGATGTTTT
* *
191815 CTTTCTTTGTCCTCAAAGAGCAGGACATTTTCTT
1 CTTTCTTTGTCCTCAAAGAGTAGG--ATGTT-TT
* * *
191849 CTTTTCTTTGTCCTCAAAGGGCAAGATGTTTT
1 C-TTTCTTTGTCCTCAAAGAGTAGGATGTTTT
*
191881 -TTTCTTTTGTCCTTAAAGAGTAGGATGTTTTATT
1 CTTTC-TTTGTCCTCAAAGAGTAGGATG--TT-TT
* ** *
191915 CTTTTCATCATCCTCAAAGAGTAAGATGTTTT
1 C-TTTCTTTGTCCTCAAAGAGTAGGATGTTTT
*
191947 CTTCCTTT
1 CTTTCTTT
191955 CATCATCCTC
Statistics
Matches: 234, Mismatches: 46, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
30 33 0.14
31 134 0.57
32 8 0.03
33 12 0.05
34 5 0.02
35 38 0.16
36 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (31 bp):
CTTTCTTTGTCCTCAAAGAGTAGGATGTTTT
Found at i:191797 original size:92 final size:92
Alignment explanation
Indices: 191631--191848 Score: 253
Period size: 92 Copynumber: 2.4 Consensus size: 92
191621 AGAGTAGGAC
191631 TTTCTTTGTCCTCAAAAAGCAGGATATTTTCTTTCCTTGTTCTTAAAGAGCAAGACATTTTCTTT
1 TTTCTTTGTCCTCAAAAAGCAGGATATTTTCTTTCCTTGTTCTTAAAGAGCAAGACATTTTCTTT
191696 CTTTATCCTCAAAAGTTGGACATTTTA
66 CTTTATCCTCAAAAGTTGGACATTTTA
* * * * * * *
191723 TTTCATTT-TCCTCAAAGAGTAGGATGTTTTC-TTCATTTGTTCTTAAAGAGTAGGACGTTTTCT
1 TTTC-TTTGTCCTCAAAAAGCAGGATATTTTCTTTC-CTTGTTCTTAAAGAGCAAGACATTTTCT
* * ** *
191786 TTCTTTGTCCTCAAAAAGAAT-GATGTTTTC
64 TTCTTTATCCTC-AAAAG-TTGGACATTTTA
* *
191816 TTTCTTTGTCCTCAAAGAGCAGGACATTTTCTT
1 TTTCTTTGTCCTCAAAAAGCAGGATATTTTCTT
191849 CTTTTCTTTG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
91 3 0.03
92 62 0.59
93 38 0.36
94 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (92 bp):
TTTCTTTGTCCTCAAAAAGCAGGATATTTTCTTTCCTTGTTCTTAAAGAGCAAGACATTTTCTTT
CTTTATCCTCAAAAGTTGGACATTTTA
Found at i:191820 original size:35 final size:33
Alignment explanation
Indices: 191780--191972 Score: 128
Period size: 35 Copynumber: 5.8 Consensus size: 33
191770 GAGTAGGACG
*
191780 TTTTCTTTCTTTGTCCTCAAAAAGAATGATG---
1 TTTTCTTTCTTTGTCCTCAAAGAGAA-GATGTTT
* **
191811 TTTTCTTTCTTTGTCCTCAAAGAGCAGGACATTT
1 TTTTCTTTCTTTGTCCTCAAAGAG-AAGATGTTT
* *
191845 TCTTCTTTTCTTTGTCCTCAAAGGGCAAGATGTTT
1 TTTTC-TTTCTTTGTCCTCAAAGAG-AAGATGTTT
* *
191880 TTTTC--T-TTTGTCCTTAAAGAGTAGGATGTTT
1 TTTTCTTTCTTTGTCCTCAAAGAG-AAGATGTTT
* * **
191911 TATTCTTTTCATCATCCTCAAAGAGTAAGATGTTT
1 TTTTC-TTTCTTTGTCCTCAAAGAG-AAGATGTTT
* * **
191946 TCTTCCTTTCATCATCCTCAAAGAGAA
1 T-TTTCTTTCTTTGTCCTCAAAGAGAA
191973 AAACATTTTC
Statistics
Matches: 130, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
31 50 0.38
32 2 0.02
34 7 0.05
35 69 0.53
36 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (33 bp):
TTTTCTTTCTTTGTCCTCAAAGAGAAGATGTTT
Found at i:191866 original size:66 final size:65
Alignment explanation
Indices: 191630--191949 Score: 236
Period size: 66 Copynumber: 5.0 Consensus size: 65
191620 AAGAGTAGGA
* * * * * * * **
191630 CTTTC-TTTGTCCTCAAAAAGCAGGA-TATTTTC-TTTCCTTGTTCTTAAAGAGCAAGACATTTT
1 CTTTCATTTGTCCTTAAAGAGTAGGACTTTTTTCTTTTCTTTGTCCTCAAAGAGCAAGATGTTTT
* * * * * * *
191692 CTTTC-TTTATCCTCAAA-AGTTGGAC-ATTTT-ATTTCATTT-TCCTCAAAGAGTAGGATGTTT
1 CTTTCATTTGTCCTTAAAGAGTAGGACTTTTTTCTTTTC-TTTGTCCTCAAAGAGCAAGATGTTT
191752 T
65 T
* * *
191753 C-TTCATTTGTTCTTAAAGAGTAGGAC-GTTTTC-TTTCTTTGTCCTCAAAAAG-AATGATGTTT
1 CTTTCATTTGTCCTTAAAGAGTAGGACTTTTTTCTTTTCTTTGTCCTCAAAGAGCAA-GATGTTT
191814 T
65 T
* * *
191815 CTTTC-TTTGTCCTCAAAGAGCAGGACATTTTCTTCTTTTCTTTGTCCTCAAAGGGCAAGATGTT
1 CTTTCATTTGTCCTTAAAGAGTAGGAC-TTTT-TTCTTTTCTTTGTCCTCAAAGAGCAAGATGTT
191879 TT
64 TT
* * * ** *
191881 -TTTCTTTTGTCCTTAAAGAGTAGGATGTTTTATTCTTTTCATCATCCTCAAAGAGTAAGATGTT
1 CTTTCATTTGTCCTTAAAGAGTAGGA-CTTTT-TTCTTTTCTTTGTCCTCAAAGAGCAAGATGTT
191945 TT
64 TT
191947 CTT
1 CTT
191950 CCTTTCATCA
Statistics
Matches: 209, Mismatches: 32, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
60 3 0.01
61 44 0.21
62 70 0.33
63 3 0.01
64 2 0.01
65 7 0.03
66 76 0.36
67 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (65 bp):
CTTTCATTTGTCCTTAAAGAGTAGGACTTTTTTCTTTTCTTTGTCCTCAAAGAGCAAGATGTTTT
Found at i:191982 original size:35 final size:35
Alignment explanation
Indices: 191908--191984 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
191898 GAGTAGGATG
* * * * **
191908 TTTTATTCTTTTCATCATCCTCAAAGAGTAAGATG
1 TTTTCTTCCTTTCATCATCCTCAAAGAGAAAAACA
191943 TTTTCTTCCTTTCATCATCCTCAAAGAGAAAAACA
1 TTTTCTTCCTTTCATCATCCTCAAAGAGAAAAACA
191978 TTTTCTT
1 TTTTCTT
191985 TTTTTGTCCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.43
Consensus pattern (35 bp):
TTTTCTTCCTTTCATCATCCTCAAAGAGAAAAACA
Found at i:196634 original size:20 final size:20
Alignment explanation
Indices: 196609--196661 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
196599 TCCCGTGTGA
196609 ATGTATCGATACAATTTATG
1 ATGTATCGATACAATTTATG
* *
196629 ATGTATCAATACAATTTGTG
1 ATGTATCGATACAATTTATG
196649 ATGTATCGATACA
1 ATGTATCGATACA
196662 TGCATTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTTATG
Found at i:196741 original size:13 final size:13
Alignment explanation
Indices: 196723--196747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196713 CATTTTATGG
196723 TGTATCGATACAA
1 TGTATCGATACAA
196736 TGTATCGATACA
1 TGTATCGATACA
196748 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:196763 original size:32 final size:33
Alignment explanation
Indices: 196700--196767 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
196690 CGTTACAAGC
**
196700 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
196733 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
196765 CAA
1 CAA
196768 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:196846 original size:20 final size:20
Alignment explanation
Indices: 196799--196851 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
196789 TCCAATGACT
*
196799 TGTATCGATACATGCTTTTCA
1 TGTATCGATACAT-CTTGTCA
*
196820 AGTATCGATACAT-TTAGTCA
1 TGTATCGATACATCTT-GTCA
196840 TGTATCGATACA
1 TGTATCGATACA
196852 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATCTTGTCA
Found at i:196857 original size:13 final size:13
Alignment explanation
Indices: 196839--196863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196829 ACATTTAGTC
196839 ATGTATCGATACA
1 ATGTATCGATACA
196852 ATGTATCGATAC
1 ATGTATCGATAC
196864 TGTCCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:198887 original size:20 final size:21
Alignment explanation
Indices: 198858--198899 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
198848 TGGGGGCTAC
*
198858 CCGGTTGCGACCTGG-GGGTG
1 CCGGTCGCGACCTGGTGGGTG
198878 CCGGTCGCGACCTGGTGGGTG
1 CCGGTCGCGACCTGGTGGGTG
198899 C
1 C
198900 TGCCTAGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.29, G:0.48, T:0.19
Consensus pattern (21 bp):
CCGGTCGCGACCTGGTGGGTG
Found at i:199191 original size:20 final size:21
Alignment explanation
Indices: 199162--199202 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
199152 TGTTTTTGAT
199162 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
199181 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
199203 AAGTAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:199211 original size:22 final size:20
Alignment explanation
Indices: 199166--199212 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
199156 TTTGATGATG
*
199166 ATTTTGATGAAAAACGATGT
1 ATTTTGATGAAAAACGAAGT
199186 ATTTTGAAGTGAAAAAC-AAGT
1 ATTTTG-A-TGAAAAACGAAGT
*
199207 AATTTG
1 ATTTTG
199213 CAAAAGGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:199352 original size:13 final size:13
Alignment explanation
Indices: 199334--199372 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
199324 ATGATCCCCT
199334 TGTATCGATACAG
1 TGTATCGATACAG
* *
199347 TGTATCAATACAA
1 TGTATCGATACAG
199360 TGTATCGATACAG
1 TGTATCGATACAG
199373 AGAATGCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:201466 original size:15 final size:15
Alignment explanation
Indices: 201446--201486 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
201436 GTTCATCAAT
201446 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
201461 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
201476 CTCAATTTGGA
1 TTC-ATTTGGA
201487 CATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:205569 original size:13 final size:13
Alignment explanation
Indices: 205551--205575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
205541 CATTTTATGG
205551 TGTATCGATACAA
1 TGTATCGATACAA
205564 TGTATCGATACA
1 TGTATCGATACA
205576 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:205591 original size:32 final size:33
Alignment explanation
Indices: 205528--205595 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
205518 CGTTACAAGC
**
205528 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
205561 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
205593 CAA
1 CAA
205596 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:205674 original size:20 final size:20
Alignment explanation
Indices: 205627--205679 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
205617 TCCAATGACT
*
205627 TGTATCGATACATGCTTTTCA
1 TGTATCGATACAT-CTTGTCA
*
205648 AGTATCGATACAT-TTAGTCA
1 TGTATCGATACATCTT-GTCA
205668 TGTATCGATACA
1 TGTATCGATACA
205680 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 14 0.50
21 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATCTTGTCA
Found at i:205685 original size:13 final size:13
Alignment explanation
Indices: 205667--205691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
205657 ACATTTAGTC
205667 ATGTATCGATACA
1 ATGTATCGATACA
205680 ATGTATCGATAC
1 ATGTATCGATAC
205692 TGTCCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:206176 original size:28 final size:28
Alignment explanation
Indices: 206079--206329 Score: 200
Period size: 28 Copynumber: 8.5 Consensus size: 28
206069 GTTGCCATCA
*
206079 ACTTGTGTGAGCTTTGAAAA-GATGCCACTG
1 ACTTGTG-G-GCTTT-AAAAGGGTGCCACTG
* * *
206109 ACTTGTGGGC-TTAGAAAAGATGCCACTT
1 ACTTGTGGGCTTTA-AAAGGGTGCCACTG
*
206137 AGTTGTGGGCTTTAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACTG
* * * *
206165 ACTTGCGAGCTTTCAAAAGGATTGAAAGGATGCTACTA
1 ACTTGTGGGCTTT--AAA--A--G---GG-TGCCACTG
*
206203 ACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACTG
* *
206231 ATTTATGGGCTTTTAAAAGGGTGCCACTG
1 ACTTGTGGGC-TTTAAAAGGGTGCCACTG
*
206260 ACTTGTGGGCTTTGAAAGGGTGCCACTG
1 ACTTGTGGGCTTTAAAAGGGTGCCACTG
* * *
206288 ATTTATGGGCTTTTGAAAGGGTGCCACTG
1 ACTTGTGGGC-TTTAAAAGGGTGCCACTG
206317 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
206330 TGAAAGGATT
Statistics
Matches: 181, Mismatches: 25, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.01
27 5 0.03
28 83 0.46
29 57 0.31
30 10 0.06
32 2 0.01
34 2 0.01
36 2 0.01
37 2 0.01
38 17 0.09
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (28 bp):
ACTTGTGGGCTTTAAAAGGGTGCCACTG
Found at i:206253 original size:29 final size:29
Alignment explanation
Indices: 206189--206601 Score: 304
Period size: 28 Copynumber: 14.1 Consensus size: 29
206179 AAAAGGATTG
* * * *
206189 AAAGGATGCTACTAACTTGTGGGC-TTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* *
206217 AAAGGGTGCCACTGATTTATGGGCTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
*
206246 AAAGGGTGCCACTGACTTGTGGGC-TTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* * *
206274 AAAGGGTGCCACTGATTTATGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
206303 AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTT------A
* * * *
206338 TTTAAAGGATACCACTAAC-TGATGGGC-TTTG
1 ---AAAGGGTGCCACTGACTTG-TGGGCTTTTA
* * *
206369 AAAGGGTGTCACTGATTTGTGGGCTTTTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* * * * *
206398 AAAGGGTGTCACTGATTTATCGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
*
206427 AAAGGGTGCCACTGACTTGTGGGCTTTAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* * * * * *
206456 AAAGAGTTACCATTAATTTGTGGGCTTTGA
1 AAAG-GGTGCCACTGACTTGTGGGCTTTTA
* *
206486 AAA-GATGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* * * *
206514 GAA-GGTGCCACTGACTTATAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
* *
206542 GAA-GGTGCCACTGACTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTTA
**
206570 AAA-GAAGCCACTGACTTGTGGG-TTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTT-A
206598 AAAG
1 AAAG
206602 AAGTCATATT
Statistics
Matches: 315, Mismatches: 53, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.01
28 153 0.49
29 114 0.36
30 22 0.07
37 5 0.02
38 18 0.06
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTTA
Found at i:206277 original size:57 final size:57
Alignment explanation
Indices: 206189--206601 Score: 404
Period size: 57 Copynumber: 7.1 Consensus size: 57
206179 AAAAGGATTG
* * * *
206189 AAAGGATGCTACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTTA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTGA
206246 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTTG-
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGC-TTTGA
* * * *
206303 AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAGGATTTAAAGGATACCACTAACTGATGGGCTTT
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGAAA-G-------GG-TGCCACTGATTTATGGGCTTT
206368 G-
56 GA
* * * *
206369 AAAGGGTGTCACTGATTTGTGGGCTTTTGAAAGGGTGTCACTGATTTATCGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTGATTTATGGGCTTTGA
* * * * * *
206427 AAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGAGTTACCATTAATTTGTGGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTT-GAAAG-GGTGCCACTGATTTATGGGCTTTGA
* * *
206486 AAA-GATGCCACTGACTTGTGGGCTTTGAGAA-GGTGCCACTGACTTATAGGCTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTGATTTATGGGCTTTGA
* * ** * * *
206542 GAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGAAGCCACTGACTTGTGGGTTTTGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTGA
206598 AAAG
1 AAAG
206602 AAGTCATATT
Statistics
Matches: 296, Mismatches: 43, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
56 66 0.22
57 93 0.31
58 62 0.21
59 22 0.07
65 1 0.00
66 36 0.12
67 14 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (57 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTGA
Found at i:206278 original size:94 final size:94
Alignment explanation
Indices: 206092--206264 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
206082 TGTGTGAGCT
* * *
206092 TTGAAAAGATGCCACTGACTTGTGGGCTTAGAAAAGATGCCACTTAGTTGTGGGCTTTAAAAGGG
1 TTGAAAAGATGCCACTAACTTGTGGGCTTAGAAAAGATGCCACTGAGTTATGGGCTTTAAAAGGG
206157 TGCCACTGACTTGCGAGCTTTCAAAAGGA
66 TGCCACTGACTTGCGAGCTTTCAAAAGGA
* * * * * *
206186 TTGAAAGGATGCTACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTTTAAAAGG
1 TTGAAAAGATGCCACTAACTTGTGGGCTTAGAAAAGATGCCACTGAGTTATGGGC-TTTAAAAGG
206251 GTGCCACTGACTTG
65 GTGCCACTGACTTG
206265 TGGGCTTTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
94 46 0.67
95 23 0.33
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (94 bp):
TTGAAAAGATGCCACTAACTTGTGGGCTTAGAAAAGATGCCACTGAGTTATGGGCTTTAAAAGGG
TGCCACTGACTTGCGAGCTTTCAAAAGGA
Found at i:206345 original size:95 final size:87
Alignment explanation
Indices: 206186--206597 Score: 356
Period size: 86 Copynumber: 4.7 Consensus size: 87
206176 TTCAAAAGGA
* * * * * * * * *
206186 TTGAAAGGATGCTACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTATGGGCTTT--TAAAA
1 TTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAAAA
206249 GGGTGCCACTGACTTGTGGGCT
66 GGGTGCCACTGACTTGTGGGCT
* * *
206271 TTGAAAGGGTGCCACTGATTTATGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAG
1 TTGAAAGGGTGCCACTGATTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGC-TTTG--A-
* * *
206336 GATTTAAAGGATACCACTAAC-TGATGGGCT
61 GA---AAAGGGTGCCACTGACTTG-TGGGCT
* * * * * * *
206366 TTGAAAGGGTGTCACTGATTTGTGGGCTTTTGAAAGGGTGTCACTGATTTATCGGCTTT--GAAA
1 TTGAAAGGGTGCCACTGATTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAAA
206429 AGGGTGCCACTGACTTGTGGGCT
65 AGGGTGCCACTGACTTGTGGGCT
* * * * *
206452 TTAAAAAGAGTTACCATTAATTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAG--
1 TT-GAAAG-GGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAA
* *
206515 AA-GGTGCCACTGACTTATAGGCT
64 AAGGGTGCCACTGACTTGTGGGCT
* * *
206538 TTGAGAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGAAGCCACTGACTTGTGGGTTTTGA
1 TTGA-AAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGA
206598 AAAGAAGTCA
Statistics
Matches: 268, Mismatches: 42, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
84 46 0.17
85 23 0.09
86 70 0.26
87 36 0.13
88 15 0.06
89 3 0.01
92 1 0.00
94 5 0.02
95 69 0.26
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (87 bp):
TTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAAAA
GGGTGCCACTGACTTGTGGGCT
Found at i:206447 original size:58 final size:56
Alignment explanation
Indices: 206362--206571 Score: 226
Period size: 58 Copynumber: 3.7 Consensus size: 56
206352 CTAACTGATG
* * * *
206362 GGCTTTGAAAGGGTGTCACTGATTTGTGGGCTTTTGAAAGGGTGTCACTGATTTATC
1 GGCTTTGAAAAGGTGCCACTGACTTGTGGGC-TTTGAAAGGGTGTCACTGATTTATA
* * * * * *
206419 GGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGAGT-TACCATTAATTTGTG
1 GGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTT-GAAAGGGTGT--CACTGATTTATA
* * *
206478 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAA-GGTGCCACTGACTTATA
1 GGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGA-AAGGGTGTCACTGATTTATA
*
206534 GGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTGAAA
1 GGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA
206572 AGAAGCCACT
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
55 2 0.02
56 41 0.32
57 17 0.13
58 48 0.38
59 19 0.15
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (56 bp):
GGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGATTTATA
Found at i:209170 original size:80 final size:79
Alignment explanation
Indices: 209055--209253 Score: 193
Period size: 80 Copynumber: 2.5 Consensus size: 79
209045 AATAACGGGG
* * * * * * ** * *
209055 TTGGAGTGTTCCCTTGAAAATAACAGGGCTAGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
209119 AAAAAAAAAATCGAGA
65 -AAAAAAAAACCGAGA
* *
209135 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * * * *
209200 GAATAAAGCCGGGG
66 AAAAAAAACCGAGA
* *
209214 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
209254 TGATGAAATA
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 47 0.48
80 51 0.52
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAACCGAGA
Found at i:209249 original size:28 final size:28
Alignment explanation
Indices: 209209--209282 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
209199 GGAATAAAGC
*
209209 CGGGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
209237 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
209265 CGAGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
209283 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 33 0.80
29 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:211175 original size:10 final size:10
Alignment explanation
Indices: 211146--211174 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
211136 CAATGGAATA
211146 GTGTTTTTTT
1 GTGTTTTTTT
211156 GTGTTTTTTT
1 GTGTTTTTTT
211166 G-GTTTTTTT
1 GTGTTTTTTT
211175 TTTGCTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (10 bp):
GTGTTTTTTT
Found at i:211726 original size:13 final size:13
Alignment explanation
Indices: 211708--211733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
211698 ACAAAGATCC
211708 ATGTATCGATACA
1 ATGTATCGATACA
211721 ATGTATCGATACA
1 ATGTATCGATACA
211734 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:211729 original size:33 final size:33
Alignment explanation
Indices: 211687--211753 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
211677 AAAATTTCCA
***
211687 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
211720 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
211753 A
1 A
211754 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:211797 original size:19 final size:17
Alignment explanation
Indices: 211771--211842 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
211761 GGCAGTAGCT
211771 AATTATGTATCGATACA
1 AATTATGTATCGATACA
211788 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
211806 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
211821 AATTTATGTATCGATACA
1 AA-TTATGTATCGATACA
211839 AATT
1 AATT
211843 GTTGAATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 3 0.06
18 5 0.11
19 25 0.53
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:211813 original size:13 final size:13
Alignment explanation
Indices: 211795--211819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
211785 ACAATACTTA
211795 TGTATCGATACAT
1 TGTATCGATACAT
211808 TGTATCGATACA
1 TGTATCGATACA
211820 AAATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:211817 original size:32 final size:32
Alignment explanation
Indices: 211776--211838 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
211766 TAGCTAATTA
*
211776 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
211808 TGTATCGATACAAAATTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
211839 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:211902 original size:21 final size:21
Alignment explanation
Indices: 211895--211952 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
211885 ACATTTGTAG
*
211895 AATGTATCAATACATTCCACA
1 AATGTATCAATACATTCTACA
211916 AATGTATCAATACATTCTACA
1 AATGTATCAATACATTCTACA
*
211937 AATGTATCGATACATT
1 AATGTATCAATACATT
211953 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
AATGTATCAATACATTCTACA
Found at i:216470 original size:19 final size:19
Alignment explanation
Indices: 216446--216484 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
216436 TATGGTGTGG
*
216446 GTATTCTTGATATGAGACT
1 GTATTCCTGATATGAGACT
216465 GTATTCCTGATATGAGACT
1 GTATTCCTGATATGAGACT
216484 G
1 G
216485 ATCAATAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (19 bp):
GTATTCCTGATATGAGACT
Found at i:226169 original size:40 final size:40
Alignment explanation
Indices: 226022--226183 Score: 143
Period size: 40 Copynumber: 4.1 Consensus size: 40
226012 TTTTGATTCT
* * *
226022 TATTGGCTCCCAAAATGGTTGAAAAGTCTATC-TTAATCTC
1 TATTGGCTCCCAACATGTTTGAAAAGTC-AACATTAATCTC
* * * * *
226062 TATTGGGTCCCAACATGTTTTAAAAGTTAAGATT-ATTTCC
1 TATTGGCTCCCAACATGTTTGAAAAGTCAACATTAATCT-C
* * *
226102 TATTGGTTCGCATA-A-GTTTGAAAAGTCAACATTAATCGC
1 TATTGGCTCCCA-ACATGTTTGAAAAGTCAACATTAATCTC
* * *
226141 TATTGGCTTCCAACATGTTTGAATAGTCAATATTAATCTC
1 TATTGGCTCCCAACATGTTTGAAAAGTCAACATTAATCTC
226181 TAT
1 TAT
226184 AAGTTTGAAA
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.32
40 63 0.66
41 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (40 bp):
TATTGGCTCCCAACATGTTTGAAAAGTCAACATTAATCTC
Found at i:226247 original size:18 final size:19
Alignment explanation
Indices: 226224--226269 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
226214 TTGGTTTTAG
226224 TTAAAATCAAAA-GTCTAA
1 TTAAAATCAAAAGGTCTAA
*
226242 TTAAAATTAAAAGGTCTAA
1 TTAAAATCAAAAGGTCTAA
226261 TTAAGAATC
1 TTAA-AATC
226270 CTATTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.46
19 10 0.42
20 3 0.12
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (19 bp):
TTAAAATCAAAAGGTCTAA
Found at i:226286 original size:35 final size:34
Alignment explanation
Indices: 226246--226348 Score: 91
Period size: 39 Copynumber: 2.8 Consensus size: 34
226236 GTCTAATTAA
*
226246 AATTAAAAGGTCTAATTAAGAATCCTATTTGTTTT
1 AATTAAAAAGTCTAATTAA-AATCCTATTTGTTTT
* *
226281 GATTAAAATAAAAGTCTAATTAAAAGTACTATTTGTTTT
1 AATT---A-AAAAGTCTAATTAAAA-TCCTATTTGTTTT
*
226320 AATTAAAATGT-TAAATTAAAAATCCTATT
1 AATTAAAAAGTCT-AATT-AAAATCCTATT
226349 GGCTCTAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
34 1 0.02
35 18 0.33
36 5 0.09
38 3 0.05
39 28 0.51
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.41
Consensus pattern (34 bp):
AATTAAAAAGTCTAATTAAAATCCTATTTGTTTT
Found at i:226301 original size:39 final size:40
Alignment explanation
Indices: 226239--226328 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 40
226229 ATCAAAAGTC
*
226239 TAATTAAAATTAAAAGGTCTAATTAAGAA-TCCTATTTGTTT
1 TAATTAAAA-TAAAAGGTCTAATTAA-AAGTACTATTTGTTT
*
226280 TGATTAAAATAAAA-GTCTAATTAAAAGTACTATTTGTTT
1 TAATTAAAATAAAAGGTCTAATTAAAAGTACTATTTGTTT
226319 TAATTAAAAT
1 TAATTAAAAT
226329 GTTAAATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 2 0.04
39 30 0.67
40 5 0.11
41 8 0.18
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (40 bp):
TAATTAAAATAAAAGGTCTAATTAAAAGTACTATTTGTTT
Found at i:226302 original size:58 final size:59
Alignment explanation
Indices: 226191--226305 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
226181 TATAAGTTTG
226191 AAAAAGTCTAATTAAAAATCCTATTGGTTTTAGTTAAAATCAAAAGTCTAATTAAAATT
1 AAAAAGTCTAATTAAAAATCCTATTGGTTTTAGTTAAAATCAAAAGTCTAATTAAAATT
* * *
226250 AAAAGGTCTAATTAAGAATCCTATTTGTTTT-GATTAAAAT-AAAAGTCTAATTAAAA
1 AAAAAGTCTAATTAAAAATCCTATTGGTTTTAG-TTAAAATCAAAAGTCTAATTAAAA
226306 GTACTATTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
58 17 0.33
59 35 0.67
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (59 bp):
AAAAAGTCTAATTAAAAATCCTATTGGTTTTAGTTAAAATCAAAAGTCTAATTAAAATT
Found at i:231859 original size:25 final size:25
Alignment explanation
Indices: 231825--231872 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
231815 TTGCTTTGAA
231825 AAAAAAAGAAGAAAAAATT-AAAATT
1 AAAAAAAGAA-AAAAAATTGAAAATT
231850 AAAAAAAGAAAAAAAATTGAAAA
1 AAAAAAAGAAAAAAAATTGAAAA
231873 AAGGTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.12
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAATTGAAAATT
Found at i:231871 original size:11 final size:11
Alignment explanation
Indices: 231820--231896 Score: 50
Period size: 11 Copynumber: 6.9 Consensus size: 11
231810 AATATTTGCT
231820 TTGAAAAAAAA
1 TTGAAAAAAAA
*
231831 -AGAAGAAAAAA
1 TTGAA-AAAAAA
*
231842 TTAAAATTAAAAA
1 TTGAAA--AAAAA
**
231855 AAGAAAAAAAA
1 TTGAAAAAAAA
*
231866 TTG-AAAAAAG
1 TTGAAAAAAAA
*
231876 GTGAAAAAAAA
1 TTGAAAAAAAA
*
231887 GTGAAAAAAA
1 TTGAAAAAAA
231897 TTTATTTAAG
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
10 11 0.22
11 29 0.58
12 2 0.04
13 8 0.16
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (11 bp):
TTGAAAAAAAA
Found at i:231872 original size:10 final size:10
Alignment explanation
Indices: 231850--231896 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
231840 AATTAAAATT
*
231850 AAAAAAAG-A
1 AAAAAAAGTG
*
231859 AAAAAAATTG
1 AAAAAAAGTG
*
231869 AAAAAAGGTG
1 AAAAAAAGTG
231879 AAAAAAAAGTG
1 -AAAAAAAGTG
231890 AAAAAAA
1 AAAAAAA
231897 TTTATTTAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 7 0.23
10 15 0.48
11 9 0.29
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (10 bp):
AAAAAAAGTG
Found at i:231884 original size:12 final size:11
Alignment explanation
Indices: 231857--231896 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
231847 ATTAAAAAAA
*
231857 GAAAAAAAATT
1 GAAAAAAAAGT
*
231868 G-AAAAAAGGT
1 GAAAAAAAAGT
231878 GAAAAAAAAGT
1 GAAAAAAAAGT
231889 GAAAAAAA
1 GAAAAAAA
231897 TTTATTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (11 bp):
GAAAAAAAAGT
Found at i:233833 original size:13 final size:13
Alignment explanation
Indices: 233815--233854 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
233805 TCACTATTCA
*
233815 TGTATCGATACAT
1 TGTATCGATACAC
233828 TGTATCGATACAC
1 TGTATCGATACAC
233841 TGTATCGATACAC
1 TGTATCGATACAC
233854 T
1 T
233855 ATAAATAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:234386 original size:34 final size:35
Alignment explanation
Indices: 234323--234389 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
234313 CTAAGTGATT
234323 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
234359 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
234390 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:235508 original size:21 final size:21
Alignment explanation
Indices: 235482--235523 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
235472 AATCAACCGT
* *
235482 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
235503 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
235524 AGAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:237610 original size:13 final size:13
Alignment explanation
Indices: 237592--237616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237582 TTTTCCAGAT
237592 TGTATCGATACAA
1 TGTATCGATACAA
237605 TGTATCGATACA
1 TGTATCGATACA
237617 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:239389 original size:13 final size:13
Alignment explanation
Indices: 239371--239410 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
239361 TCACTATTCA
*
239371 TGTATCGATACAT
1 TGTATCGATACAC
239384 TGTATCGATACAC
1 TGTATCGATACAC
239397 TGTATCGATACAC
1 TGTATCGATACAC
239410 T
1 T
239411 ATAAATAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:239942 original size:34 final size:35
Alignment explanation
Indices: 239879--239945 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
239869 CTAAGTGATT
239879 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
239915 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
239946 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:241289 original size:167 final size:165
Alignment explanation
Indices: 240965--241499 Score: 561
Period size: 167 Copynumber: 3.3 Consensus size: 165
240955 AATTCTTTAG
* * * * *
240965 ATATTATTATTTAA-TCACCATTAAATCAGTTTTAAAAAATTCATTCTTTTTTATA-AG-TTTTC
1 ATATTATTATTTAATTCA-TATTAAATCAATTTTGAAAAATTCATTCATTTTCA-AGAGTTTTTC
* * * ** * ** *
241027 ATTTTTT--TT-AAATTCTTTTGTTTTCCAAAGGCAGAG-TTTCTACTTTGTAAATGTTTTCA-G
64 ATTTTTTCCTTAAAATCCTATT-ATTTCCAAAAACGGAGTTTTCTACTCCGTAAATGTTTTTAGG
*
241087 AGAGATTTTTCTTGATTTTTAATTTCTAAAATTCATCAA
128 AG-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
* * * *
241126 ATATTATTATTTAATTCATATTAAATCATTTTTCAAAAATTCATTCATTTTCATGGGTTTTTCAT
1 ATATTATTATTTAATTCATATTAAATCAATTTTGAAAAATTCATTCATTTTCAAGAGTTTTTCA-
* *
241191 TTTTTTCCTTAAAATTCC-ATTATTTCCAAAAAACGGAGTTTTTTGCTCCGTAAATGTTTTTAGG
65 TTTTTTCCTTAAAA-TCCTATTATTTCC-AAAAACGGAGTTTTCTACTCCGTAAATGTTTTTAGG
241255 AGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
128 AGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
* *
241293 ATATTATTATTTAATTCATATTAAATCAATTTTGAAAATTTCATTTATTTTCAAGAGTTTTTCAT
1 ATATTATTATTTAATTCATATTAAATCAATTTTGAAAAATTCATTCATTTTCAAGAGTTTTTCAT
* * * * * * *
241358 TTTTTCTTTGAAATCCTCTTATTTTCAAAAACTGAGTTTTCTACTCTGTAAATG-TTTTCGGAGG
66 TTTTTCCTTAAAATCCTATTATTTCCAAAAACGGAGTTTTCTACTCCGTAAATGTTTTTAGGA-G
* * * * *
241422 GATTTTTCTT-AGTTTAAAATTTTAGAATTCATCTA
130 GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
* * * * *
241457 ATATTGTTATTAAATTCAAATTAAATTAGTTTTGAAAAATTCA
1 ATATTATTATTTAATTCATATTAAATCAATTTTGAAAAATTCA
241500 AATTATTTCA
Statistics
Matches: 316, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
161 45 0.14
162 9 0.03
163 6 0.02
164 64 0.20
165 45 0.14
166 31 0.10
167 113 0.36
168 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
ATATTATTATTTAATTCATATTAAATCAATTTTGAAAAATTCATTCATTTTCAAGAGTTTTTCAT
TTTTTCCTTAAAATCCTATTATTTCCAAAAACGGAGTTTTCTACTCCGTAAATGTTTTTAGGAGG
ATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
Found at i:241660 original size:21 final size:21
Alignment explanation
Indices: 241636--241680 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
241626 GAGAATTGAT
* *
241636 TTTTAATTTTAATCTTCTTAA
1 TTTTAAATTTAATCTTATTAA
*
241657 TTTTAAATTTAATTTTATTAA
1 TTTTAAATTTAATCTTATTAA
241678 TTT
1 TTT
241681 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAATTTAATCTTATTAA
Found at i:241867 original size:21 final size:23
Alignment explanation
Indices: 241843--241896 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
241833 GAGGAGAAAT
241843 TAAATGAAAAAGG-A-TAAAAAA
1 TAAATGAAAAAGGCATTAAAAAA
* *
241864 TAAAAGAAAATGGCATTAAAAAA
1 TAAATGAAAAAGGCATTAAAAAA
*
241887 -ACATGAAAAA
1 TAAATGAAAAA
241897 TGGAGATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 11 0.42
22 8 0.31
23 7 0.27
ACGTcount: A:0.69, C:0.04, G:0.13, T:0.15
Consensus pattern (23 bp):
TAAATGAAAAAGGCATTAAAAAA
Found at i:247943 original size:166 final size:166
Alignment explanation
Indices: 247662--247967 Score: 418
Period size: 166 Copynumber: 1.8 Consensus size: 166
247652 AATGAAACCC
* * * * *
247662 AAACTAAAATTAAAATAATTTAAATTTTTTAAGATTCAACATGACCAAATCCAAATCCAACCAAT
1 AAACTAAAATTAAAATAATTTAAATTTTGTAAAATACAAAATGACCAAATCCAAACCCAACCAAT
* *
247727 TAAAATCCAGTACACCATAGGTTGGCCCAACTCAGTCCTCTCATACTAGGGCTGGCTCCTCGTAA
66 CAAAATCCAGTACACCATAGGTTGGCCCAACTCAGTCCTCTCATACTAGGGCTGGCTCCTCGCAA
247792 TTTCAAAAAAAAAAAAAACAATTTAAACCCAAAATA
131 TTTCAAAAAAAAAAAAAACAATTTAAACCCAAAATA
* ** * *
247828 AAACTCAAATTAAAATAATTTAAATTTTGTAAAATACAAAATGACTGAGTCCAAACCCAACGAAT
1 AAACTAAAATTAAAATAATTTAAATTTTGTAAAATACAAAATGACCAAATCCAAACCCAACCAAT
* * * * * *
247893 CATAATCC-GATACACCATAGGTTGGCCCAACTTAGTCTTCTTGA-ACTAGGGTTGGCTCCTTGC
66 CAAAATCCAG-TACACCATAGGTTGGCCCAACTCAGTCCTC-TCATACTAGGGCTGGCTCCTCGC
247956 AATTTCAAAAAA
129 AATTTCAAAAAA
247968 TAGTTTAAAC
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
165 1 0.01
166 117 0.98
167 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.26
Consensus pattern (166 bp):
AAACTAAAATTAAAATAATTTAAATTTTGTAAAATACAAAATGACCAAATCCAAACCCAACCAAT
CAAAATCCAGTACACCATAGGTTGGCCCAACTCAGTCCTCTCATACTAGGGCTGGCTCCTCGCAA
TTTCAAAAAAAAAAAAAACAATTTAAACCCAAAATA
Found at i:249652 original size:21 final size:21
Alignment explanation
Indices: 249628--249667 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
249618 ATTTTAATTT
249628 AATTAATTTTAGTTATTTTTA
1 AATTAATTTTAGTTATTTTTA
*
249649 AATTAATTTTATTTATTTT
1 AATTAATTTTAGTTATTTT
249668 CAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
AATTAATTTTAGTTATTTTTA
Found at i:249680 original size:21 final size:19
Alignment explanation
Indices: 249614--249678 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
249604 TCTTAAAAGT
*
249614 TTTTATTTTAATTTAATTAA
1 TTTTA-TTTATTTTAATTAA
*
249634 TTTTAGTTATTTTTAAATTAA
1 TTTTATTTA-TTTT-AATTAA
*
249655 TTTTATTTATTTTCAATTTA
1 TTTTATTTATTTT-AATTAA
249675 TTTT
1 TTTT
249679 TAAATCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 3 0.08
20 21 0.55
21 14 0.37
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATTTATTTTAATTAA
Found at i:250360 original size:55 final size:55
Alignment explanation
Indices: 250300--250405 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 55
250290 ATTTATTAAG
250300 ATGAA-TTGATTTGCATATT-GAACAAGAATATACAAGCATATCATATGTAATTAGA
1 ATGAATTTGATTTGCATATTAGAA-AAGAATATACAAGCATA-CATATGTAATTAGA
* *
250355 ATGAATTTGATTTGTATATTAGAAAAGAATATACAGGCATACATATGTAAT
1 ATGAATTTGATTTGCATATTAGAAAAGAATATACAAGCATACATATGTAAT
250406 CAAATTAGTG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
55 15 0.32
56 29 0.62
57 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (55 bp):
ATGAATTTGATTTGCATATTAGAAAAGAATATACAAGCATACATATGTAATTAGA
Found at i:250603 original size:3 final size:3
Alignment explanation
Indices: 250597--250663 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
250587 ATTATTTGCT
250597 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
250645 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
250664 GTTTTAAATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:253504 original size:17 final size:17
Alignment explanation
Indices: 253484--253543 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
253474 ATCTTGATTA
253484 GTGTTTCATTTCAATTT
1 GTGTTTCATTTCAATTT
*
253501 GTGTTTTGTTCATCTT-AATTA
1 GTG---T-TTCAT-TTCAATTT
*
253522 GTGTATCATTTCAATTT
1 GTGTTTCATTTCAATTT
253539 GTGTT
1 GTGTT
253544 GTGTTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 15 0.45
18 1 0.03
20 1 0.03
21 12 0.36
22 2 0.06
ACGTcount: A:0.18, C:0.10, G:0.15, T:0.57
Consensus pattern (17 bp):
GTGTTTCATTTCAATTT
Found at i:253512 original size:21 final size:20
Alignment explanation
Indices: 253488--253555 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
253478 TGATTAGTGT
253488 TTCATTTCAATTTGTGTTTTG
1 TTCATTTCAATTTGTG-TTTG
*
253509 TTCATCTT-AATTAGTG--T-
1 TTCAT-TTCAATTTGTGTTTG
*
253526 ATCATTTCAATTTGTGTTGTG
1 TTCATTTCAATTTGTGTT-TG
*
253547 TTCTTTTCA
1 TTCATTTCA
253556 TTTAGTTTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 1 0.03
20 1 0.03
21 19 0.53
22 2 0.06
ACGTcount: A:0.18, C:0.12, G:0.13, T:0.57
Consensus pattern (20 bp):
TTCATTTCAATTTGTGTTTG
Found at i:253561 original size:38 final size:38
Alignment explanation
Indices: 253471--253549 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
253461 TTTGAGTACA
* * *
253471 TTCATCTTGATTAGTGTTTCATTTCAATTTGTGTTTTG
1 TTCATCTTAATTAGTGTATCATTTCAATTTGTGTTGTG
253509 TTCATCTTAATTAGTGTATCATTTCAATTTGTGTTGTG
1 TTCATCTTAATTAGTGTATCATTTCAATTTGTGTTGTG
253547 TTC
1 TTC
253550 TTTTCATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (38 bp):
TTCATCTTAATTAGTGTATCATTTCAATTTGTGTTGTG
Found at i:258306 original size:166 final size:166
Alignment explanation
Indices: 258070--258519 Score: 543
Period size: 166 Copynumber: 2.7 Consensus size: 166
258060 TGTAAGGACT
* * * * *
258070 AAAATGAAATTTTTTAAAAGATTAAGGATTAAATAACAAAATTTAGTTTTTAAAGGTAAAATCAT
1 AAAAT-AAAATTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCAT
258135 CATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTTCCATAGAGGTATAAAAA-TTTC
65 CATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTTCCATAGAGGTATAAAAATTTTC
* * *
258199 AAG-GCTTTTCATATCTTCTCAG-TTTTCTGTTGGGTAC
130 AAGACCTTTT-ATATCCTCT-AGATTTTCTGTCGGGTAC
*
258236 AAAATAAAAATTTTCAAAAGTTTAAGG-TATAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCA
1 AAAAT-AAAATTTTCAAAAGTTTAAGGAT-TAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCA
* * * * *
258300 TCATTTTAGTCATTTTAAAAGATTTTTATTATTCTTATGGCCTTTCGTAGGGGTATAAAAATTTT
64 TCATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTTCCATAGAGGTATAAAAATTTT
* * * *
258365 TAAGACCTTTTGTATCCTCTTGATTTTCTGTCGGGTGC
129 CAAGACCTTTTATATCCTCTAGATTTTCTGTCGGGTAC
* * * * * *
258403 TAAATGAAATTTTCAAAAGTTTAGGGGATTAAATAGAAAATTTTATTTTTTAAAGGT-AAAGCAT
1 AAAATAAAATTTTCAAAAGTTTA-AGGATTAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCAT
* * * *
258467 CATTTTCGTCATTATTAAAGATTTTCTATTATTCTTATAGCCTTCTATA-AGGT
65 CATTTTAGTCATTTTTAAAGA-TTTCTATTATTCTTATGGCCTTCCATAGAGGT
258520 TATAGAAACT
Statistics
Matches: 242, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
165 1 0.00
166 156 0.64
167 79 0.33
168 6 0.02
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (166 bp):
AAAATAAAATTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAAAGGTAAAATCATC
ATTTTAGTCATTTTTAAAGATTTCTATTATTCTTATGGCCTTCCATAGAGGTATAAAAATTTTCA
AGACCTTTTATATCCTCTAGATTTTCTGTCGGGTAC
Found at i:258582 original size:167 final size:161
Alignment explanation
Indices: 258095--258593 Score: 481
Period size: 166 Copynumber: 3.0 Consensus size: 161
258085 AAAAGATTAA
*
258095 GGATTAAATA-ACAAAATTTAGTTTTTAAAGGTAAAATCATCATTTTAGTCATTTTTAAAGA-TT
1 GGATTAAATAGA-AAATTTTAGTTTTTAAAGGTAAAATCATCATTTTAGTCA-TTTTAAAGATTT
* * * * *
258158 TCTATTATTCTTATGGCCTTCCATAGAGGTATAAAAATTTCAAGGCTTTTCATATCTTCTCAGTT
64 TCTATTATTCTTATGGCCTTCTATA-AGGTATAAAAATTTTAAGACTTTTCGTATCCTC-CAGTT
* ** *
258223 TTCTGTTGGGTACAAAATAAAAATTTTCAAAAGTTTAAG
127 TTC--TT-AGTATGAAAT-AAAATTTTCAAAAGTTTAGG
* * *
258262 GTA-TAAATAGCAAATTTTAGTTTTTAGAGGTAAAATCATCATTTTAGTCATTTTAAAAGATTTT
1 GGATTAAATAGAAAATTTTAGTTTTTAAAGGTAAAATCATCATTTTAGTCATTTT-AAAGATTTT
** **
258326 -TATTATTCTTATGGCCTTTCGTA-GGGGTATAAAAATTTTTAAGACCTTTT-GTATCCTCTTGA
65 CTATTATTCTTATGGCC-TTC-TATAAGGTATAAAAA-TTTTAAGA-CTTTTCGTATCCTCCAG-
* ** *
258388 TTTTCTGTCGGGTGCTAAATGAAATTTTCAAAAGTTTAGG
125 TTTTCT-TAGTATG--AAATAAAATTTTCAAAAGTTTAGG
* * *
258428 GGATTAAATAGAAAATTTTATTTTTTAAAGGT-AAAGCATCATTTTCGTCATTATTAAAGATTTT
1 GGATTAAATAGAAAATTTTAGTTTTTAAAGGTAAAATCATCATTTTAGTCATT-TTAAAGATTTT
* * * *
258492 CTATTATTCTTATAGCCTTCTATAAGGTTATAGAAACTTTTGAGACTTTTCGTATCCTCACGGTT
65 CTATTATTCTTATGGCCTTCTATAAGG-TATA-AAAATTTTAAGACTTTTCGTATCCTC-CAG-T
258557 TTTCATTAAGTATGAAATAAAATTTTCAAAAGTTTAG
126 TTTC-TT-AGTATGAAATAAAATTTTCAAAAGTTTAG
258594 AGACTTAATT
Statistics
Matches: 273, Mismatches: 38, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
165 8 0.03
166 133 0.49
167 112 0.41
168 16 0.06
169 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (161 bp):
GGATTAAATAGAAAATTTTAGTTTTTAAAGGTAAAATCATCATTTTAGTCATTTTAAAGATTTTC
TATTATTCTTATGGCCTTCTATAAGGTATAAAAATTTTAAGACTTTTCGTATCCTCCAGTTTTCT
TAGTATGAAATAAAATTTTCAAAAGTTTAGG
Found at i:262532 original size:18 final size:18
Alignment explanation
Indices: 262506--262546 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
262496 ATATTGATCA
*
262506 AAATGTAATCACAACCCT
1 AAATTTAATCACAACCCT
262524 AAATTTAATCACAACCCT
1 AAATTTAATCACAACCCT
262542 AAATT
1 AAATT
262547 AGATATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATTTAATCACAACCCT
Found at i:262804 original size:23 final size:22
Alignment explanation
Indices: 262755--262805 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
262745 AATAATATGT
262755 TTTA-AAATTTAATTATAAAAA
1 TTTATAAATTTAATTATAAAAA
*
262776 TATATAAATATTAA-TATAAAAAA
1 TTTATAAAT-TTAATTAT-AAAAA
262799 TTTATAA
1 TTTATAA
262806 TCAAATTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.12
22 7 0.28
23 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTATAAATTTAATTATAAAAA
Found at i:264648 original size:19 final size:20
Alignment explanation
Indices: 264624--264669 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
264614 ACATACAAAT
*
264624 TTTTTTCTTT-TTTTCAC-TC
1 TTTTTTCTTTCCTTTC-CTTC
264643 TTTTTT-TTTCCTTTCCTTC
1 TTTTTTCTTTCCTTTCCTTC
264662 TTTTTTCT
1 TTTTTTCT
264670 CTTGCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 18 0.78
20 1 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTCTTTCCTTTCCTTC
Done.