Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 346 of 425
Found at i:107098025 original size:35 final size:34
Alignment explanation
Indices: 107097971--107098042 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
107097961 AATTGAAAGA
*
107097971 GAAAAGAAAATAATTCAATTCC-AATGGAAATAG
1 GAAAAGAAAATAATCCAATTCCGAATGGAAATAG
* *
107098004 GAAAAGAGAGAATAATCCAATTCCGAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCGAATGGAAATAG
107098040 GAA
1 GAA
107098043 TACAAAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 1 0.03
35 13 0.39
36 12 0.36
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCGAATGGAAATAG
Found at i:107098943 original size:84 final size:84
Alignment explanation
Indices: 107098595--107099726 Score: 1358
Period size: 84 Copynumber: 13.3 Consensus size: 84
107098585 GATAAGGTTT
* * * * *
107098595 ACTGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCC
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGTATTTTCCAGCCTGTTACCC
* * * *
107098660 TACTACTTAGGAGGATAAGGCTT
62 TACTGCTTAGGGGGTTAAGGCTC
* * * * *
107098683 AC-GTCTCCGATCCGCTCCACTACTGCTTAGAGAGATAAGATCTGTATTCTT-CAGCCTGCTACC
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAG-G-G--GAGATCTGTATT-TTCCAGCCTGTTACC
107098746 CTACTGCTTAGGGGGTTAAGGCTC
61 CTACTGCTTAGGGGGTTAAGGCTC
* * * * *
107098770 ACCGTCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATTTT-TAGCTTGTTACC
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACC
* *
107098834 CTACTGCTTAGGGGGTTAAGCCTT
61 CTACTGCTTAGGGGGTTAAGGCTC
* * * * * *
107098858 GCTGTCTTCAATCTGTTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCTTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* *
107098923 ACTTAGGGGGTTAAGGCTT
66 GCTTAGGGGGTTAAGGCTC
* * *
107098942 GCTATCTTCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
*
107099007 GCTTATGGGGTTAAGGCTC
66 GCTTAGGGGGTTAAGGCTC
* *
107099026 ACTGTCTTCGATCTGCTCCATTACTGTTTA-GGGAGATCTGTATTTTTCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* * *
107099090 ACTTAGGGGTTTAAGACTC
66 GCTTAGGGGGTTAAGGCTC
* * *
107099109 ACTGTCTTCGATCTGCTCCATTACTATTTAGGGGAGACCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* * *
107099174 GTTTAAGAGGTTAAGGCTC
66 GCTTAGGGGGTTAAGGCTC
* *
107099193 ACTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCTTGTTA-CCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* *
107099257 ACTTAGGGGATTAAGGCTC
66 GCTTAGGGGGTTAAGGCTC
* *
107099276 ACTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* *
107099341 GTTTAGGGGTTTAAGGCTC
66 GCTTAGGGGGTTAAGGCTC
107099360 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
*
107099425 GCTTAGGGGGTTAAGACTC
66 GCTTAGGGGGTTAAGGCTC
* ** *
107099444 ACTGTCTTTGATCTGCTCCGTTACTGTTTAGGGGATATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
*
107099509 GCTTAGGGGTTTAAGGCTC
66 GCTTAGGGGGTTAAGGCTC
*
107099528 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTTTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
** *
107099593 GCTTAAAGGGTTAAGGTTC
66 GCTTAGGGGGTTAAGGCTC
* * * * ** *
107099612 ATTGTCTTTGATCTACTCC-CGTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTA
1 ACTGTCTTCGATCTGCTCCAC-TACTGTTTAGGG-G---AGATCTGT-A-TTTTCCAGCCTGTTA
* * *
107099676 CCCTATTGCCTAGGGGGTTAAGGTTC
59 CCCTACTGCTTAGGGGGTTAAGGCTC
* * *
107099702 ACTGTCTTTGATCTACTCCCCTACT
1 ACTGTCTTCGATCTGCTCCACTACT
107099727 TCTTAGGAAA
Statistics
Matches: 914, Mismatches: 110, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
83 159 0.17
84 520 0.57
85 1 0.00
86 1 0.00
87 67 0.07
88 105 0.11
89 5 0.01
90 55 0.06
91 1 0.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (84 bp):
ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGGCTC
Found at i:107099141 original size:167 final size:167
Alignment explanation
Indices: 107098595--107099726 Score: 1340
Period size: 167 Copynumber: 6.6 Consensus size: 167
107098585 GATAAGGTTT
* * * * *
107098595 ACTGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCC
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGTATTTTCCAGCCTGTTACCC
* * * * * * *
107098660 TACTACTTAGGAGGATAAGGCTTAC-GTCTCCGATCCGCTCCACTACTGCTTAGAGAGATAAGAT
62 TACTGCTTAGG-GGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAG-G-G--GAGAT
* *
107098724 CTGTATTCTT-CAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCTC
122 CTGTATT-TTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* * * * *
107098770 ACCGTCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATTTT-TAGCTTGTTACC
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACC
* ** * * * *
107098834 CTACTGCTTAGGGGGTTAAGCCTTGCTGTCTTCAATCTGTTCCACTACTATTTAGGGAAGATCTG
61 CTACTGCTTA-GGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTG
* *
107098899 TATTTTCCAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCTT
125 TATTTTCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* * *
107098942 GCTATCTTCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
*
107099007 GCTTATGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCATTACTGTTTA-GGGAGATCTGTATTT
66 GCTTA-GGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
* * *
107099071 TTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACTC
130 TCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* * *
107099109 ACTGTCTTCGATCTGCTCCATTACTATTTAGGGGAGACCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* * *
107099174 GTTTAAGAGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTT
66 GCTT-AGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
* *
107099239 TCCAGCTTGTTA-CCTACTACTTAGGGGATTAAGGCTC
130 TCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* *
107099276 ACTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
*
107099341 GTTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
66 GCTTAGGGG-TTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
* *
107099406 TCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTC
130 TCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* ** *
107099444 ACTGTCTTTGATCTGCTCCGTTACTGTTTAGGGGATATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
107099509 GCTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
66 GCTTAGGGG-TTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
* * ** *
107099574 TCCAGCCTTTTACCCTACTGCTTAAAGGGTTAAGGTTC
130 TCCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
* * * * ** *
107099612 ATTGTCTTTGATCTACTCC-CGTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTA
1 ACTGTCTTCGATCTGCTCCAC-TACTGTTTAGGG-G---AGATCTGT-A-TTTTCCAGCCTGTTA
* * * * * *
107099676 CCCTATTGCCTAGGGGGTTAAGGTTCACTGTCTTTGATCTACTCCCCTACT
59 CCCTACTGCTTA-GGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACT
107099727 TCTTAGGAAA
Statistics
Matches: 845, Mismatches: 95, Indels: 35
0.87 0.10 0.04
Matches are distributed among these distances:
166 4 0.00
167 306 0.36
168 296 0.35
169 1 0.00
171 3 0.00
172 78 0.09
173 1 0.00
174 53 0.06
175 75 0.09
176 28 0.03
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (167 bp):
ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
GCTTAGGGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTT
CCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTC
Found at i:107099172 original size:251 final size:252
Alignment explanation
Indices: 107098595--107099726 Score: 1335
Period size: 251 Copynumber: 4.4 Consensus size: 252
107098585 GATAAGGTTT
* ** * * *
107098595 ACTGTCCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCC
1 ACTGTCTTCGATCTGCTCCACTACTATTTAGGG-G---AGATCTGTATTTTCCAGCCTGTTACCC
* * * * * *
107098660 TACTACTTAGGAGGATAAGGCTTAC-GTCTCCGATCCGCTCCACTACTGCTTAGAGAGATAAGAT
62 TACTACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAG-G-G--GAGAT
* * *
107098724 CTGTATTCTT-CAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTC
123 CTGTATT-TTCCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCTCACTGTCTTCGATCTGCTC
* * * *
107098788 CACTGCTGCTTAGGGAGATAAGATCTGTAATTTTT-AGCTTGTTACCCTACTGCTTAGGGGGTTA
187 CACTACTGTTTAGGG-G---AGATCTGT-ATTTTTCAGCCTGTTACCCTACTGCTTAGGGGTTTA
* *
107098852 AGCCTT
247 AGACTC
* * * * *
107098858 GCTGTCTTCAATCTGTTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCTTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* ** * *
107098923 ACTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTT
66 ACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
*
107098988 TCCAGCCTGTTACCCTACTGCTTATGGGG-TTAAGGCTCACTGTCTTCGATCTGCTCCATTACTG
131 TCCAGCCTGTTACCCTACTGCTTA-GGGGATTAAGGCTCACTGTCTTCGATCTGCTCCACTACTG
*
107099052 TTTA-GGGAGATCTGTATTTTTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACTC
195 TTTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTC
* *
107099109 ACTGTCTTCGATCTGCTCCATTACTATTTAGGGGAGACCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
** * *
107099174 GTTTAAGAGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTT
66 ACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
* * *
107099239 TCCAGCTTGTTA-CCTACTACTTAGGGGATTAAGGCTCACTGTCTTCGATCTACTCCACTACTGT
131 TCCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGT
* *
107099303 TTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTC
196 TTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTC
*
107099360 ACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
1 ACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
* * * * ** *
107099425 GCTTAGGGGGTTAAGACTCACTGTCTTTGATCTGCTCCGTTACTGTTTAGGGGATATCTGTATTT
66 ACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
*
107099490 TCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGT
131 TCCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGT
* * * **
107099555 TTAGGGGAGATCTGTATTTTCCAGCCTTTTACCCTACTGCTTAAAGGG-TTAAGGTTC
196 TTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTT-AGGGGTTTAAGACTC
* * * ** ** *
107099612 ATTGTCTTTGATCTACTCC-CGTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTA
1 ACTGTCTTCGATCTGCTCCAC-TACTATTTAGGG-G---AGATCTGT-A-TTTTCCAGCCTGTTA
* * * * * * * *
107099676 CCCTATTGCCTAGGGGGTTAAGGTTCACTGTCTTTGATCTACTCCCCTACT
59 CCCTACTACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACT
107099727 TCTTAGGAAA
Statistics
Matches: 766, Mismatches: 88, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
249 4 0.01
250 53 0.07
251 343 0.45
252 123 0.16
253 5 0.01
254 1 0.00
255 4 0.01
256 75 0.10
257 5 0.01
258 57 0.07
259 46 0.06
260 23 0.03
263 27 0.04
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (252 bp):
ACTGTCTTCGATCTGCTCCACTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACT
ACTTAGGAGGTTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTT
TCCAGCCTGTTACCCTACTGCTTAGGGGATTAAGGCTCACTGTCTTCGATCTGCTCCACTACTGT
TTAGGGGAGATCTGTATTTTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTC
Found at i:107099344 original size:40 final size:40
Alignment explanation
Indices: 107099296--107099517 Score: 114
Period size: 40 Copynumber: 5.3 Consensus size: 40
107099286 ATCTACTCCA
107099296 CTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
1 CTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
* * * * *
107099336 CTACTGTTTAGGGGTTTA-AGGCT-CACTGTCTTC-GATCTGCT-CC
1 CTACTGTTTAGGGG---AGA-TCTGTA-T-TTTTCAG-CCTGTTACC
*
107099379 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACC
1 -CTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
* ** * * * * *
107099420 CTACTGCTTAGGGGGTTAAGACTCACTGTCTTTGA-TCTGCT-CC
1 CTACTGTTTA-GGGG---AGA-TCTGTATTTTTCAGCCTGTTACC
* * *
107099463 GTTACTGTTTAGGGGATATCTGTATTTTCCAGCCTGTTACC
1 -CTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
*
107099504 CTACTGCTTAGGGG
1 CTACTGTTTAGGGG
107099518 TTTAAGGCTC
Statistics
Matches: 129, Mismatches: 33, Indels: 40
0.64 0.16 0.20
Matches are distributed among these distances:
39 7 0.05
40 48 0.37
41 13 0.10
42 4 0.03
43 13 0.10
44 37 0.29
45 7 0.05
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (40 bp):
CTACTGTTTAGGGGAGATCTGTATTTTTCAGCCTGTTACC
Found at i:107099389 original size:44 final size:42
Alignment explanation
Indices: 107099167--107099561 Score: 135
Period size: 44 Copynumber: 9.4 Consensus size: 42
107099157 CAGCCTGTTA
* *
107099167 CCCTACTGTTTAAGAGGTTAAGGCTCACTGTCTTCGATCTACT
1 CCCTACTGTTT-AGGGGTTAAGGCTCACTGTCTTCGATCTGCT
* ** * * * * *
107099210 CCACTACTGTTTAGGGG---A-GATCTGTATTTTCCAGCTTGTT
1 CC-CTACTGTTTAGGGGTTAAGGCTCACTGTCTTCGATC-TGCT
* ** *
107099250 ACCTACTACTTAGGGGATTAAGGCTCACTGTCTTCGATCTACT
1 CCCTACTGTTTAGGGG-TTAAGGCTCACTGTCTTCGATCTGCT
* * * * *
107099293 CCACTACTGTTTAGGGG---AGATCTGTA-T-TTTTC-AGCCTGTT
1 CC-CTACTGTTTAGGGGTTAAG-GCT-CACTGTCTTCGA-TCTGCT
107099333 ACCCTACTGTTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCT
1 -CCCTACTGTTTAGGGG-TTAAGGCTCACTGTCTTCGATCTGCT
* ** * * * * *
107099377 CCACTACTGTTTAGGGG---A-GATCTGTATTTTCCAGCCTGTT
1 CC-CTACTGTTTAGGGGTTAAGGCTCACTGTCTTCGA-TCTGCT
* * *
107099417 ACCCTACTGCTTAGGGGGTTAAGACTCACTGTCTTTGATCTGCT
1 -CCCTACTGTTTA-GGGGTTAAGGCTCACTGTCTTCGATCTGCT
* * * * * * *
107099461 CCGTTACTGTTTAGGGGAT-A-TCTGTA-T-T-TTCCAGCCTGTT
1 CC-CTACTGTTTAGGGGTTAAGGCT-CACTGTCTTCGA-TCTGCT
*
107099501 ACCCTACTGCTTAGGGGTTTAAGGCTCACTGTCTTCGATCTGCT
1 -CCCTACTGTTTAGGGG-TTAAGGCTCACTGTCTTCGATCTGCT
107099545 CCACTACTGTTTAGGGG
1 CC-CTACTGTTTAGGGG
107099562 AGATCTGTAT
Statistics
Matches: 241, Mismatches: 73, Indels: 75
0.62 0.19 0.19
Matches are distributed among these distances:
39 35 0.15
40 58 0.24
41 17 0.07
42 6 0.02
43 27 0.11
44 86 0.36
45 12 0.05
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (42 bp):
CCCTACTGTTTAGGGGTTAAGGCTCACTGTCTTCGATCTGCT
Found at i:107099999 original size:179 final size:178
Alignment explanation
Indices: 107099737--107100324 Score: 741
Period size: 178 Copynumber: 3.3 Consensus size: 178
107099727 TCTTAGGAAA
* * * *
107099737 ATAAGATTTATAATTTTTAGCCTACTTTCTTGTTACCTCAGGAAGATAAGACTTGTATCTTCAAC
1 ATAAGATCTATAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAAC
* * * *
107099802 CTGCTCTCCTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAATG
66 CTGTTCTCTTGATACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAATG
* ** * * *
107099867 GAGATAAGATCTCGTTATTTTTTATTTGCTCCGTAGCCGATACATAGAG
131 GAGATAAGA-CTCGTAATTTTCAATCTGCTCCATAGCTGATACATAGAG
* * * * *
107099916 ATAAGATCTGTAATTTTCAGCCTGCTTCCTTGCTACCTTAGGAAGATAAGATTTATATCTTCAAC
1 ATAAGATCTATAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAAC
* * *
107099981 CTGTTCTCTTGATACCTCAGAGAGATAAGGCCGATGGCTAAAATCTGCTCCATAGCCAATATATG
66 CTGTTCTCTTGATACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAATG
* * * * * *
107100046 GAGATAAGACTCGTCATTTTCGATCTGCTCTATAGTTGATACGTGGAG
131 GAGATAAGACTCGTAATTTTCAATCTGCTCCATAGCTGATACATAGAG
* * * *
107100094 ATAAGATCTATAATTTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTTGTATTTTCAAC
1 ATAAGATCTATAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAAC
* * * * *
107100159 CTATTAT-TTTACTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTCGATACAT
66 CTGTTCTCTTGA-TACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAAT
* * *
107100223 GGAAATAATACTCG-AAGTTTTCAATCTGCTCCATAGCTGATACATTGAG
130 GGAGATAAGACTCGTAA-TTTTCAATCTGCTCCATAGCTGATACATAGAG
* * *
107100272 ATAAGATCTGTAATTTTTAGCCTACTTCTTTGCTACCTCAGGAAGATAA-ACTT
1 ATAAGATCTATAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTT
107100325 ATGAATTCAC
Statistics
Matches: 354, Mismatches: 53, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
177 8 0.02
178 223 0.63
179 123 0.35
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (178 bp):
ATAAGATCTATAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAAC
CTGTTCTCTTGATACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAATG
GAGATAAGACTCGTAATTTTCAATCTGCTCCATAGCTGATACATAGAG
Found at i:107100007 original size:44 final size:45
Alignment explanation
Indices: 107099912--107100009 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 45
107099902 GCCGATACAT
* * * *
107099912 AGAGATAAGATCTGTAATTTTCAGCCTGCTTCCTTGCTACCTTAG
1 AGAGATAAGATCTGTAATCTTCAACCTGCTTCCTTGATACCTCAG
107099957 -GAAGATAAGAT-T-TATATCTTCAACCTG-TTCTCTTGATACCTCAG
1 AG-AGATAAGATCTGTA-ATCTTCAACCTGCTTC-CTTGATACCTCAG
107100001 AGAGATAAG
1 AGAGATAAG
107100010 GCCGATGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
43 5 0.11
44 30 0.67
45 10 0.22
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (45 bp):
AGAGATAAGATCTGTAATCTTCAACCTGCTTCCTTGATACCTCAG
Found at i:107107164 original size:21 final size:23
Alignment explanation
Indices: 107107117--107107170 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
107107107 CATTCAAGAT
**
107107117 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
107107140 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
107107161 AAAAT-ATATA
1 AAAATAATATA
107107171 ATGTGTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:107107411 original size:17 final size:15
Alignment explanation
Indices: 107107371--107107423 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
107107361 ATATAAATAG
*
107107371 AAATAAAAATATAAT
1 AAATAGAAATATAAT
107107386 AAATAGAAATATAAT
1 AAATAGAAATATAAT
107107401 AATAGTAGAAATATAAAT
1 AA-A-TAGAAATAT-AAT
107107419 AAATA
1 AAATA
107107424 ATTAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 16 0.47
16 3 0.09
17 10 0.29
18 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:107107413 original size:44 final size:44
Alignment explanation
Indices: 107107365--107107451 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
107107355 ATTACTATAT
107107365 AAATAGAAATAAA-AATATAATAAA-TAGA-AATATAATAATAGTAG
1 AAATAGAAATAAATAAT-TAA-AAATTAGATAA-ATAATAATAGTAG
*
107107409 AAATATAAATAAATAATTAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAAATAATTAAAAATTAGATAAATAATAATAGTA
107107452 TTAGAATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
43 3 0.08
44 31 0.79
45 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (44 bp):
AAATAGAAATAAATAATTAAAAATTAGATAAATAATAATAGTAG
Found at i:107107888 original size:5 final size:5
Alignment explanation
Indices: 107107880--107107911 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
107107870 ATAATTTAAT
*
107107880 AATAA AATAA AATAA AATAA GATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
107107912 ATCAAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:107109051 original size:3 final size:3
Alignment explanation
Indices: 107109043--107109077 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
107109033 CCTCCTTATT
*
107109043 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
107109078 TAGAAAATCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:107128403 original size:19 final size:19
Alignment explanation
Indices: 107128379--107128417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
107128369 TTAAATCGGA
107128379 TTTGTGGTTACGAAACAAC
1 TTTGTGGTTACGAAACAAC
107128398 TTTGTGGTTACGAAACAAC
1 TTTGTGGTTACGAAACAAC
107128417 T
1 T
107128418 GTTCCGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TTTGTGGTTACGAAACAAC
Found at i:107128677 original size:26 final size:26
Alignment explanation
Indices: 107128647--107128697 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
107128637 GTTAGAAAAA
107128647 AATATTAGAAACAGGGGACACACAAG
1 AATATTAGAAACAGGGGACACACAAG
*
107128673 AATATTAGAAATAGGGGACACACAA
1 AATATTAGAAACAGGGGACACACAA
107128698 CCATGTCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (26 bp):
AATATTAGAAACAGGGGACACACAAG
Found at i:107129677 original size:71 final size:71
Alignment explanation
Indices: 107129559--107129940 Score: 318
Period size: 71 Copynumber: 5.4 Consensus size: 71
107129549 TGCTTAGCAT
* * ** * * * *
107129559 TGGTCGGTAAAACTGACAAATAAGTGTTGCCAACACTAGTCGATATAACTGGCAATAAATGCGCC
1 TGGTCGGTAGAACAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
* *
107129624 TTGTGT
66 TTGCGC
* * * * * ** * **
107129630 TGGTCTGTAGAACAAAAAAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAAATGTGTT
1 TGGTCGGTAGAACAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
107129695 TTGCGC
66 TTGCGC
* * * * * * * **
107129701 TGGTCGATAGAATC-GCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGC
1 TGGTCGGTAGAA-CAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGC
*
107129765 CTTGCGT
65 CTTGCGC
* * * * * *
107129772 TGGTCGGTAGAATAGATAAATAAGTGTACCCAGCATTGGTTGGTATAA-TCGACAACAAATGCAC
1 TGGTCGGTAGAACAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACT-GACAATAAATGCGC
107129836 CTTGCGC
65 CTTGCGC
* * * *
107129843 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAGCACTAGTCGGTATAACTGACAATAAATGCACC
1 TGGTCGGTAGAACAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
* **
107129908 CTGTAC
66 TTGCGC
* * *
107129914 TGGTCGGTAGAACTGAAAAATTAGTGT
1 TGGTCGGTAGAACAGACAAATAAGTGT
107129941 TCATTCATTT
Statistics
Matches: 244, Mismatches: 63, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
71 242 0.99
72 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (71 bp):
TGGTCGGTAGAACAGACAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
TTGCGC
Found at i:107129920 original size:35 final size:35
Alignment explanation
Indices: 107129822--107129929 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
107129812 TGGTATAATC
* * * *
107129822 GACAACAAATGCACCTTGCGCTGGTCGGTAGAACC
1 GACAATAAATGCACCCTGCACTGGTCGGTAGAACT
* ** * * *
107129857 GACAAATAAGTGTGCCCAGCACTAGTCGGTATAACT
1 GAC-AATAAATGCACCCTGCACTGGTCGGTAGAACT
*
107129893 GACAATAAATGCACCCTGTACTGGTCGGTAGAACT
1 GACAATAAATGCACCCTGCACTGGTCGGTAGAACT
107129928 GA
1 GA
107129930 AAAATTAGTG
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
35 30 0.55
36 25 0.45
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (35 bp):
GACAATAAATGCACCCTGCACTGGTCGGTAGAACT
Found at i:107129940 original size:142 final size:142
Alignment explanation
Indices: 107129559--107129940 Score: 394
Period size: 142 Copynumber: 2.7 Consensus size: 142
107129549 TGCTTAGCAT
* * * * *
107129559 TGGTCGGTAAAACTGACAAATAAGTGTTG-CCAACACTAGTCGATATAACTGGCAATAAATGCGC
1 TGGTCGGTAGAACCGACAAATAAGTG-TGCCCAACACTAGTCGGTATAACTGACAATAAATGCAC
* * * ** * * *
107129623 CTTGTGTTGGTCTGTAGAACAAAAAAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAA
65 CCTGTGCTGGTCGGTAGAACTGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAA
****
107129688 ATGTGTTTTGCGC
130 ATGCACCTTGCGC
* * * * * * * * *
107129701 TGGTCGATAGAATCGCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAAT-AAGC
1 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCACC
* * * * *
107129765 CT-TGCGTTGGTCGGTAGAA-TAGATAAATAAGTGTACCCAGCATTGGTTGGTATAATCGACAAC
66 CTGTGC--TGGTCGGTAGAACT-GAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAAC
107129828 AAATGCACCTTGCGC
128 AAATGCACCTTGCGC
*
107129843 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAGCACTAGTCGGTATAACTGACAATAAATGCACC
1 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCACC
* *
107129908 CTGTACTGGTCGGTAGAACTGAAAAATTAGTGT
66 CTGTGCTGGTCGGTAGAACTGAAAAATAAGTGT
107129941 TCATTCATTT
Statistics
Matches: 189, Mismatches: 44, Indels: 14
0.77 0.18 0.06
Matches are distributed among these distances:
140 2 0.01
141 4 0.02
142 176 0.93
143 5 0.03
144 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (142 bp):
TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCACC
CTGTGCTGGTCGGTAGAACTGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
TGCACCTTGCGC
Found at i:107130693 original size:10 final size:11
Alignment explanation
Indices: 107130677--107130705 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
107130667 CTTTTATCTT
107130677 TTATTATTTTA
1 TTATTATTTTA
107130688 TT-TTATTTTA
1 TTATTATTTTA
107130698 TTATTATT
1 TTATTATT
107130706 AACATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:107132607 original size:11 final size:11
Alignment explanation
Indices: 107132584--107132618 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
107132574 TTTAGTGTTA
*
107132584 TTTA-TTTTAT
1 TTTATTTTTCT
107132594 TTTATTTTTCT
1 TTTATTTTTCT
107132605 TTTATTTTTCT
1 TTTATTTTTCT
107132616 TTT
1 TTT
107132619 TCTTTTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:107138047 original size:22 final size:22
Alignment explanation
Indices: 107138019--107138062 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
107138009 TTTATGGTTT
107138019 GTGTTTCTATAATTCGAACTAA
1 GTGTTTCTATAATTCGAACTAA
*
107138041 GTGTTTCTATTATTCGAACTAA
1 GTGTTTCTATAATTCGAACTAA
107138063 CTTATAAAAT
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:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
GTGTTTCTATAATTCGAACTAA
Found at i:107139464 original size:3 final size:3
Alignment explanation
Indices: 107139456--107139490 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
107139446 AATGATGTTT
107139456 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
107139491 TATTGACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:107140323 original size:11 final size:11
Alignment explanation
Indices: 107140307--107140336 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
107140297 TGGGTGCACA
107140307 TTTTATTTTAT
1 TTTTATTTTAT
107140318 TTTTATTTTAT
1 TTTTATTTTAT
*
107140329 TTTGATTT
1 TTTTATTT
107140337 GTTTTAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:107141634 original size:4 final size:4
Alignment explanation
Indices: 107141625--107141716 Score: 184
Period size: 4 Copynumber: 23.0 Consensus size: 4
107141615 CATCTGATTG
107141625 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
107141673 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
107141717 TGCATAAACT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:107142604 original size:27 final size:27
Alignment explanation
Indices: 107142559--107142611 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
107142549 TTACTGCTAC
*
107142559 TGTGTCTGAATGGTACATAAGACTGTG
1 TGTGTCTGAATGATACATAAGACTGTG
* * *
107142586 TGTGTCTGATTGATCCATATGACTGT
1 TGTGTCTGAATGATACATAAGACTGT
107142612 AAAGTACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (27 bp):
TGTGTCTGAATGATACATAAGACTGTG
Found at i:107144164 original size:57 final size:57
Alignment explanation
Indices: 107144033--107144164 Score: 138
Period size: 57 Copynumber: 2.3 Consensus size: 57
107144023 CTTTCACACA
* * * * *
107144033 ATTCATCTCAATGTCATATTCGAACATCAATCTATAGGACTATACCAATTTCACATT
1 ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
* * * * ** ** *
107144090 ATTCCTTTCATTTTCATACTCTATTATCAATCTATAAGTTTATACAAAATTCATATT
1 ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
107144147 ATTCATTTCAATGTCATA
1 ATTCATTTCAATGTCATA
107144165 TGAAAAATCG
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.42
Consensus pattern (57 bp):
ATTCATTTCAATGTCATACTCGAACATCAATCTATAAGACTATACAAAATTCACATT
Found at i:107148642 original size:40 final size:40
Alignment explanation
Indices: 107148605--107148773 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
107148595 CATATATGCG
* * *
107148605 CAATCAAGGGTACCAAAGTGCAAATAGGGGCACATATGTT
1 CAATCAGGGGTACCAAAGTACAAATAGGGGCACATATGTA
* * *
107148645 CAATCAGGGGTACTAAAGTACAACTAGGGGCACGTATGTA
1 CAATCAGGGGTACCAAAGTACAAATAGGGGCACATATGTA
* * * * * * *
107148685 CAATCAGGGGTATCGAAGTACAAACAGGGGTACGTATATG
1 CAATCAGGGGTACCAAAGTACAAATAGGGGCACATATGTA
* *** * * *
107148725 CAATTAGGGGTATTGAAGTACAAACAGGGGCACGTATGTG
1 CAATCAGGGGTACCAAAGTACAAATAGGGGCACATATGTA
107148765 CAATTCAGG
1 CAA-TCAGG
107148774 TATAATTAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 105 0.96
41 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (40 bp):
CAATCAGGGGTACCAAAGTACAAATAGGGGCACATATGTA
Found at i:107148693 original size:20 final size:20
Alignment explanation
Indices: 107148639--107148773 Score: 80
Period size: 20 Copynumber: 6.7 Consensus size: 20
107148629 TAGGGGCACA
*
107148639 TATGTTCAATCAGGGGTAC-
1 TATGTACAATCAGGGGTACG
* *
107148658 TAAAGTACAA-CTAGGGGCACG
1 T-ATGTACAATC-AGGGGTACG
107148679 TATGTACAATCAGGGGTATCG
1 TATGTACAATCAGGGGTA-CG
* *
107148700 -AAGTACAAACAGGGGTACG
1 TATGTACAATCAGGGGTACG
* * * *
107148719 TATATGCAATTAGGGGTA-T
1 TATGTACAATCAGGGGTACG
* * *
107148738 TGAAGTACAAACAGGGGCACG
1 T-ATGTACAATCAGGGGTACG
*
107148759 TATGTGCAATTCAGG
1 TATGTACAA-TCAGG
107148774 TATAATTAAA
Statistics
Matches: 84, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
19 5 0.06
20 70 0.83
21 9 0.11
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (20 bp):
TATGTACAATCAGGGGTACG
Found at i:107153368 original size:23 final size:22
Alignment explanation
Indices: 107153297--107153369 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
107153287 CTATTAATCT
*
107153297 GCTTCGGCAGTGTTCTGTCACCC
1 GCTTCGG-AGTGTTCTGTCATCC
* *
107153320 GCTTCAGAGGTGTTTTGTCATCC
1 GCTTCGGA-GTGTTCTGTCATCC
* *
107153343 GCTTCGGTAGTGTTCTGTTATTC
1 GCTTCGG-AGTGTTCTGTCATCC
107153366 GCTT
1 GCTT
107153370 TGGTGATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.02
23 39 0.95
24 1 0.02
ACGTcount: A:0.10, C:0.25, G:0.26, T:0.40
Consensus pattern (22 bp):
GCTTCGGAGTGTTCTGTCATCC
Found at i:107154042 original size:11 final size:11
Alignment explanation
Indices: 107154026--107154050 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107154016 TGATACCCAA
107154026 GATCAGGTATC
1 GATCAGGTATC
107154037 GATCAGGTATC
1 GATCAGGTATC
107154048 GAT
1 GAT
107154051 ACCTTGACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (11 bp):
GATCAGGTATC
Found at i:107154651 original size:36 final size:36
Alignment explanation
Indices: 107154604--107154675 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
107154594 TTTTTGAGAA
107154604 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
1 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
107154640 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
1 AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
107154676 CAATTTCCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (36 bp):
AAAAATTGGAATGGAAAGCAATATATTAGGATTAAT
Found at i:107157508 original size:23 final size:23
Alignment explanation
Indices: 107157469--107157603 Score: 143
Period size: 23 Copynumber: 5.9 Consensus size: 23
107157459 CAGCTCGTAT
107157469 GAGCTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
* * *
107157491 GAGCCTACCGTTTCAGCTC-GTA
1 GAGCTTACTGTTTCAGCTCAATA
*
107157513 TTAGCTTACTG-TTCAGCTCAATA
1 -GAGCTTACTGTTTCAGCTCAATA
* *
107157536 GAGTTTA-TCGTTTCAACTCAATA
1 GAGCTTACT-GTTTCAGCTCAATA
*
107157559 GAGCTTACTGATTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
107157582 GAGCTTACTGTTCATCAGCTCA
1 GAGCTTACTGTT--TCAGCTCA
107157604 GGAGGAGCTT
Statistics
Matches: 91, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
21 1 0.01
22 24 0.26
23 57 0.63
24 1 0.01
25 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:107157513 original size:45 final size:45
Alignment explanation
Indices: 107157458--107157585 Score: 177
Period size: 45 Copynumber: 2.8 Consensus size: 45
107157448 TACCGATATA
107157458 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
1 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
* ** *
107157503 TCAGCTCGTATTAGCTTACTGTTCAGCTCAATAGAGTTTATCGTT
1 TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
* *
107157548 TCAACTC-AATAGAGCTTACTGATTCAGCTCAATAGAGC
1 TCAGCTCGTAT-GAGCTTACTG-TTCAGCTCAATAGAGC
107157586 TTACTGTTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
44 2 0.03
45 56 0.77
46 15 0.21
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (45 bp):
TCAGCTCGTATGAGCTTACTGTTCAGCTCAATAGAGCCTACCGTT
Found at i:107162388 original size:20 final size:20
Alignment explanation
Indices: 107162363--107162403 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
107162353 TTAAGAACCT
107162363 TGAGACAAAATGCACCAATG
1 TGAGACAAAATGCACCAATG
107162383 TGAGACAAAATGCACCAATG
1 TGAGACAAAATGCACCAATG
107162403 T
1 T
107162404 CTTGGCCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (20 bp):
TGAGACAAAATGCACCAATG
Found at i:107165585 original size:21 final size:21
Alignment explanation
Indices: 107165547--107165587 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
107165537 TAGTACAATG
**
107165547 GTAGCAAAACAATGGCAAAAA
1 GTAGCAAAACAACAGCAAAAA
*
107165568 GTAGGAAAACAACAGCAAAA
1 GTAGCAAAACAACAGCAAAA
107165588 TAGCTGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.15, G:0.20, T:0.07
Consensus pattern (21 bp):
GTAGCAAAACAACAGCAAAAA
Found at i:107166866 original size:2 final size:2
Alignment explanation
Indices: 107166859--107166887 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
107166849 AAATTTTTAA
107166859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107166888 AACTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107170075 original size:2 final size:2
Alignment explanation
Indices: 107170068--107170100 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107170058 TCGTAGCTAC
*
107170068 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107170101 ATGTATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107172003 original size:22 final size:24
Alignment explanation
Indices: 107171978--107172034 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
107171968 AAAACAATTT
*
107171978 TTTATATTTTATTAG-TTTTAT-G
1 TTTATATTTTATTAGTTTTTATAA
107172000 TTTATATTTTA-TAGTTTTTATAA
1 TTTATATTTTATTAGTTTTTATAA
107172023 TTT-TATTTTATT
1 TTTATATTTTATT
107172035 TAATAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 24 0.77
23 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (24 bp):
TTTATATTTTATTAGTTTTTATAA
Found at i:107172009 original size:29 final size:29
Alignment explanation
Indices: 107171977--107172033 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
107171967 AAAAACAATT
*
107171977 TTTTATA--TTTTATTAGTTTTATGTTTATA
1 TTTTATAGTTTTTA-TAATTTTAT-TTTATA
107172006 TTTTATAGTTTTTATAATTTTATTTTAT
1 TTTTATAGTTTTTATAATTTTATTTTAT
107172034 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 12 0.48
30 8 0.32
31 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (29 bp):
TTTTATAGTTTTTATAATTTTATTTTATA
Found at i:107172423 original size:15 final size:14
Alignment explanation
Indices: 107172402--107172429 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107172392 TATAAAATAT
107172402 TTTAAAAAATAAAA
1 TTTAAAAAATAAAA
107172416 TTTAAAAAATAAAA
1 TTTAAAAAATAAAA
107172430 CAACTTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TTTAAAAAATAAAA
Found at i:107172648 original size:7 final size:7
Alignment explanation
Indices: 107172633--107172674 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
107172623 TATTAATAAG
*
107172633 TAAATTA
1 TAAAATA
107172640 TAAAATA
1 TAAAATA
107172647 T-AAATA
1 TAAAATA
107172653 TAAAACTAA
1 TAAAA-T-A
107172662 TAAAATA
1 TAAAATA
107172669 TAAAAT
1 TAAAAT
107172675 TTGTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
6 6 0.19
7 17 0.55
8 2 0.06
9 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:107175259 original size:25 final size:25
Alignment explanation
Indices: 107175231--107175280 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
107175221 ATTGAAGATG
107175231 CCAATTTTCAAGTTTGAGAAAATTA
1 CCAATTTTCAAGTTTGAGAAAATTA
107175256 CCAATTTTCAAGTTTGAGAAAATTA
1 CCAATTTTCAAGTTTGAGAAAATTA
107175281 ACAGACTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
CCAATTTTCAAGTTTGAGAAAATTA
Found at i:107175821 original size:19 final size:19
Alignment explanation
Indices: 107175793--107175857 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
107175783 AAATTTCCTT
*
107175793 TTTGAGTTAATAAATTCTC
1 TTTGAGTTAATAAATTCTA
*
107175812 TTTGACTTAATAAATTCTA
1 TTTGAGTTAATAAATTCTA
107175831 TTTGAGTTAATAAATTCTA
1 TTTGAGTTAATAAATTCTA
107175850 TTTGAGTT
1 TTTGAGTT
107175858 TTTCTTTCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTGAGTTAATAAATTCTA
Found at i:107178396 original size:41 final size:41
Alignment explanation
Indices: 107178204--107178400 Score: 180
Period size: 41 Copynumber: 4.8 Consensus size: 41
107178194 ATCGGCACGA
* * * * * *
107178204 AGCCTAATATAAATCACTGGCATGAAGCTTGCTAGGAATAG
1 AGCCTGATATAAATCATTGGCACGAAGCCTGCTAGGCACAG
* * * * * * *
107178245 AGCCTAATATAAATCATCGGAACGAAACTTGATAGGCATAG
1 AGCCTGATATAAATCATTGGCACGAAGCCTGCTAGGCACAG
* * *
107178286 AGCCTGATACAACA-CATGGGCACGGAGCCTGCTAGGCACAG
1 AGCCTGATATAA-ATCATTGGCACGAAGCCTGCTAGGCACAG
* * * * *
107178327 AACCTGATATAAATCACTGTCACAAAGCCTGCGAGGCACAG
1 AGCCTGATATAAATCATTGGCACGAAGCCTGCTAGGCACAG
*
107178368 AGCCTGATATAAATCATTGGCATGAAGCCTGCT
1 AGCCTGATATAAATCATTGGCACGAAGCCTGCT
107178401 GAACTCAAAG
Statistics
Matches: 124, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
40 1 0.01
41 122 0.98
42 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AGCCTGATATAAATCATTGGCACGAAGCCTGCTAGGCACAG
Found at i:107185166 original size:17 final size:18
Alignment explanation
Indices: 107185146--107185185 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
107185136 CTACTTCTTA
107185146 TTTAGGTTAATT-AGAGT
1 TTTAGGTTAATTCAGAGT
* *
107185163 TTTAGTTTACTTCAGAGT
1 TTTAGGTTAATTCAGAGT
107185181 TTTAG
1 TTTAG
107185186 AGTTTTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (18 bp):
TTTAGGTTAATTCAGAGT
Found at i:107198294 original size:25 final size:25
Alignment explanation
Indices: 107198264--107198314 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
107198254 CATGAATTTG
*
107198264 GTCATGTTTTAGTATATATCATGAA
1 GTCATGTTCTAGTATATATCATGAA
107198289 GTCATGTTCTAGTATATATCATGAA
1 GTCATGTTCTAGTATATATCATGAA
107198314 G
1 G
107198315 CATAGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (25 bp):
GTCATGTTCTAGTATATATCATGAA
Found at i:107200805 original size:19 final size:20
Alignment explanation
Indices: 107200767--107200807 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
107200757 ACATAATGAA
* *
107200767 ATATAATATATATTTTTATT
1 ATATAATATACATATTTATT
107200787 ATATAAT-TACATATTTATT
1 ATATAATATACATATTTATT
107200806 AT
1 AT
107200808 TTTATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATAATATACATATTTATT
Found at i:107209661 original size:17 final size:18
Alignment explanation
Indices: 107209625--107209661 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
107209615 TATATTTTTT
*
107209625 ATGTTTTATTTTATTATA
1 ATGTTTTATTTAATTATA
107209643 ATGTTTTATTTAATT-TA
1 ATGTTTTATTTAATTATA
107209660 AT
1 AT
107209662 AAAAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATGTTTTATTTAATTATA
Found at i:107220286 original size:4 final size:4
Alignment explanation
Indices: 107220271--107220305 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
107220261 TAGAAAGAAC
*
107220271 TAAT TAAC TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAA
107220306 GTAGACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (4 bp):
TAAT
Found at i:107220765 original size:27 final size:28
Alignment explanation
Indices: 107220734--107220789 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
107220724 TTGTTTTTTG
107220734 ACATAGA-TTTTCATTATAAGAAAAGAA
1 ACATAGATTTTTCATTATAAGAAAAGAA
107220761 ACATAGATTTTTCATTATAAGAAAAGAA
1 ACATAGATTTTTCATTATAAGAAAAGAA
107220789 A
1 A
107220790 AAAGTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (28 bp):
ACATAGATTTTTCATTATAAGAAAAGAA
Found at i:107228451 original size:26 final size:26
Alignment explanation
Indices: 107228422--107228478 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
107228412 GCAGCATAGT
* *
107228422 TGCCAATAATAATATCGCAACAAAGC
1 TGCCAATAACAATAACGCAACAAAGC
* * *
107228448 TGCCAGTAACAGTAACGCAGCAAAGC
1 TGCCAATAACAATAACGCAACAAAGC
107228474 TGCCA
1 TGCCA
107228479 GTATCAGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (26 bp):
TGCCAATAACAATAACGCAACAAAGC
Found at i:107228479 original size:26 final size:26
Alignment explanation
Indices: 107228437--107228487 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
107228427 ATAATAATAT
107228437 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTGCCAGTAACAGTAA
* *
107228463 CGCAGCAAAGCTGCCAGTATCAGTA
1 CGCAACAAAGCTGCCAGTAACAGTA
107228488 TATGACACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAA
Found at i:107228540 original size:20 final size:20
Alignment explanation
Indices: 107228493--107228645 Score: 189
Period size: 20 Copynumber: 7.7 Consensus size: 20
107228483 CAGTATATGA
* * *
107228493 CACAAAACCATGATTAGTGG
1 CACAAAGCCATCAATAGTGG
* * * *
107228513 CACGAAGCTATCAACAGCGG
1 CACAAAGCCATCAATAGTGG
* *
107228533 CACAAAGCCATCAGTAGTAG
1 CACAAAGCCATCAATAGTGG
**
107228553 CACAAAGTTATCAATAGTGG
1 CACAAAGCCATCAATAGTGG
*
107228573 CACAAAGCCGTCAATAGTGG
1 CACAAAGCCATCAATAGTGG
*
107228593 CACAAAGCCATCAATAGCGG
1 CACAAAGCCATCAATAGTGG
107228613 CACAAAGCCATCAATAGTGG
1 CACAAAGCCATCAATAGTGG
107228633 CACAAAGCCATCA
1 CACAAAGCCATCA
107228646 GTAGGTCCAC
Statistics
Matches: 110, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 110 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.15
Consensus pattern (20 bp):
CACAAAGCCATCAATAGTGG
Found at i:107228701 original size:36 final size:36
Alignment explanation
Indices: 107228647--107228717 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
107228637 AAGCCATCAG
*
107228647 TAGGTCCACAGTCCTCTTGTGCAACCCGTGCAACCT
1 TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACCT
* * * *
107228683 TAGGTCCATAGTCGTCTTGTACGACTCGTGCAACC
1 TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACC
107228718 ATATCAGTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (36 bp):
TAGGTCCACAGTCCTCTTGTACAACCCGTGCAACCT
Found at i:107228888 original size:27 final size:27
Alignment explanation
Indices: 107228858--107228909 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
107228848 TTTACCCTCG
107228858 AGGGGTAAAATAGTCATTTTACCTTAT
1 AGGGGTAAAATAGTCATTTTACCTTAT
*** *
107228885 AGGGGTATTTTGGTCATTTTACCTT
1 AGGGGTAAAATAGTCATTTTACCTT
107228910 CCTTGAGATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (27 bp):
AGGGGTAAAATAGTCATTTTACCTTAT
Found at i:107245573 original size:12 final size:12
Alignment explanation
Indices: 107245552--107245598 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
107245542 GTCTCATACG
107245552 GCCTACCACACA
1 GCCTACCACACA
* *
107245564 GCCTAACACACT
1 GCCTACCACACA
**
107245576 GCCTACCACATG
1 GCCTACCACACA
107245588 GCCTACCACAC
1 GCCTACCACAC
107245599 GGCTGTGTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.30, C:0.47, G:0.11, T:0.13
Consensus pattern (12 bp):
GCCTACCACACA
Found at i:107247972 original size:17 final size:18
Alignment explanation
Indices: 107247930--107247975 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
107247920 TATCCTTTAC
107247930 CATTTATCGAGCATTATT
1 CATTTATCGAGCATTATT
* *
107247948 -ATTAATCGTGCATT-TT
1 CATTTATCGAGCATTATT
107247964 CATTTATCGAGC
1 CATTTATCGAGC
107247976 TATAACGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (18 bp):
CATTTATCGAGCATTATT
Found at i:107255139 original size:27 final size:28
Alignment explanation
Indices: 107255083--107255152 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
107255073 AAATTTGTAC
107255083 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107255111 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107255138 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107255153 GACTCACTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:107263070 original size:27 final size:28
Alignment explanation
Indices: 107263014--107263083 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
107263004 AAATTTGTAC
107263014 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107263042 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107263069 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107263084 GACTCACTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:107275123 original size:56 final size:57
Alignment explanation
Indices: 107274942--107275140 Score: 287
Period size: 56 Copynumber: 3.5 Consensus size: 57
107274932 GAAGTATATG
* *
107274942 TGGCATCGATATGTGACTCGGATATA--TATGTACGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTATGT-CGAGTAAGACCACGTTTAATACGT
* * *
107274998 CGGCATCGATATGTGACTCCGATATATTTATGTGCGAGTAAGACCACGTTTAATACAT
1 TGGCATCGATATGTGACTCCGATATATGTATGT-CGAGTAAGACCACGTTTAATACGT
* *
107275056 TGGCATTGATATGTGACTCCGATATATGTATGT-GAGTAAGACCACGATTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTATGTCGAGTAAGACCACGTTTAATACGT
*
107275112 TGGCATCGATATATGACTCCGATATATGT
1 TGGCATCGATATGTGACTCCGATATATGT
107275141 GTACGAATAA
Statistics
Matches: 129, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
56 72 0.56
58 57 0.44
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (57 bp):
TGGCATCGATATGTGACTCCGATATATGTATGTCGAGTAAGACCACGTTTAATACGT
Found at i:107281362 original size:13 final size:13
Alignment explanation
Indices: 107281344--107281385 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
107281334 GTTTAAAAAC
107281344 TTTTTATTTTTTA
1 TTTTTATTTTTTA
*
107281357 TTTTTA-TTTTCA
1 TTTTTATTTTTTA
*
107281369 CTTTTATCTTTTTA
1 TTTTTAT-TTTTTA
107281383 TTT
1 TTT
107281386 CATTTTCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 10 0.43
13 6 0.26
14 7 0.30
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:107281371 original size:26 final size:25
Alignment explanation
Indices: 107281342--107281419 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 25
107281332 ATGTTTAAAA
107281342 ACTTTTTATTTTTTATTTTTATTTTC
1 ACTTTTTATTTTTTA-TTTTATTTTC
*
107281368 AC-TTTTATCTTTTTATTTCATTTTC
1 ACTTTTTAT-TTTTTATTTTATTTTC
*
107281393 -CTTTAATATTATTTTAATTTTAGTTTT
1 ACTTT-TTATT-TTTT-ATTTTA-TTTT
107281420 TATAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
24 1 0.02
25 18 0.42
26 15 0.35
27 5 0.12
28 4 0.09
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (25 bp):
ACTTTTTATTTTTTATTTTATTTTC
Found at i:107290333 original size:56 final size:56
Alignment explanation
Indices: 107290266--107290532 Score: 340
Period size: 58 Copynumber: 4.7 Consensus size: 56
107290256 GAAGTATATG
*
107290266 TGGCATCGATATGTGACTCCGATATATATGTACGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
*
107290322 TGGCATCGATATATGACTCCGATATACATATGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATAT--ATATGTGCGAGTAAGTCCACGTTTAATACGT
* *
107290380 TGGCATCGATATGTGACTCCGATATATATGTGTGCGAGTAAGACCACATTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATA--TGTGCGAGTAAGTCCACGTTTAATACGT
* * * *
107290438 TGGCATCGATATGTGACTCCAATAT-TGTGCGCGAGTAAGAT-CACGTTTAATACAT
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAG-TCCACGTTTAATACGT
* ** * * * *
107290493 TGGCATCTATATAAGCCTCTGATATATGTGTACGAGTAAG
1 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAG
107290533 ACCCTATCTG
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
55 42 0.23
56 39 0.21
57 1 0.01
58 104 0.56
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:107292049 original size:2 final size:2
Alignment explanation
Indices: 107292042--107292075 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
107292032 ATATAGAATA
107292042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107292076 GTGAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107292533 original size:2 final size:2
Alignment explanation
Indices: 107292522--107292553 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107292512 TGAATAATTA
107292522 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107292554 AAATGATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107294307 original size:26 final size:27
Alignment explanation
Indices: 107294253--107294309 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 27
107294243 ATATGTGCAC
107294253 TTGATATCCATAATTTATGGTACAAATTGA
1 TTGATATCCATAATTTATGGT---AATTGA
107294283 TTGATATCCATAATTTATGGT-ATTGA
1 TTGATATCCATAATTTATGGTAATTGA
107294309 T
1 T
107294310 ATTGATAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 6 0.22
30 21 0.78
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (27 bp):
TTGATATCCATAATTTATGGTAATTGA
Found at i:107294344 original size:26 final size:26
Alignment explanation
Indices: 107294312--107294367 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
107294302 GTATTGATAT
107294312 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
107294338 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107294364 TGAT
1 TGAT
107294368 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107296067 original size:27 final size:26
Alignment explanation
Indices: 107295966--107296077 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
107295956 AGGAAGCGTC
* * *
107295966 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
107295993 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
107296020 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
107296048 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
107296074 CTGG
1 CTGG
107296078 CGGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:107296070 original size:54 final size:54
Alignment explanation
Indices: 107295966--107296086 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
107295956 AGGAAGCGTC
* *
107295966 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
107296020 CTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
* *
107296074 CTGGCGGCCATGC
1 CTGGTGGCTATGC
107296087 TGCAAATTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 41 0.71
55 17 0.29
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:107300958 original size:26 final size:26
Alignment explanation
Indices: 107300929--107300984 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
107300919 TGATAAAAAT
107300929 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107300955 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107300981 TGAT
1 TGAT
107300985 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107302679 original size:27 final size:26
Alignment explanation
Indices: 107302578--107302689 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
107302568 AGGAAGCGTC
* * **
107302578 CTGGTGGCTATGCCACAAATATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
107302605 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
107302632 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
107302660 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
107302686 CTGG
1 CTGG
107302690 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:107302682 original size:54 final size:54
Alignment explanation
Indices: 107302581--107302687 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
107302571 AAGCGTCCTG
*
107302581 GTGGCTATGCCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCTGTTCTA
* * * * *
107302635 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAAATATCT-AATCTGGTGACTCTGCCACATATATCTGTTCT
107302688 GGCAGCCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 28 0.61
55 18 0.39
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
GTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCTGTTCTA
Found at i:107304350 original size:5 final size:5
Alignment explanation
Indices: 107304340--107304368 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
107304330 TAATAATAAT
107304340 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
107304369 GCAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:107308159 original size:26 final size:26
Alignment explanation
Indices: 107308117--107308239 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
107308107 CCTCTTTAAT
107308117 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
107308142 AATTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
107308168 AACTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
107308194 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
107308220 AACTGGGGCAT-AGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
107308240 GCACTTCTTC
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 18 0.20
26 71 0.80
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:107308314 original size:20 final size:20
Alignment explanation
Indices: 107308289--107308363 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
107308279 TTATGAATAC
107308289 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
107308309 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
107308329 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
107308349 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
107308364 TCGCACGTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
18 8 0.15
20 44 0.81
21 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:107308320 original size:11 final size:11
Alignment explanation
Indices: 107308289--107308344 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
107308279 TTATGAATAC
107308289 ATCATGTGCAT
1 ATCATGTGCAT
*
107308300 ATCA--TACAT
1 ATCATGTGCAT
107308309 ATCATGTGCAT
1 ATCATGTGCAT
*
107308320 ATCA--TACAT
1 ATCATGTGCAT
107308329 ATCATGTGCAT
1 ATCATGTGCAT
107308340 ATCAT
1 ATCAT
107308345 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:107308361 original size:9 final size:10
Alignment explanation
Indices: 107308289--107308362 Score: 66
Period size: 9 Copynumber: 7.5 Consensus size: 10
107308279 TTATGAATAC
107308289 ATCATGTGCAT
1 ATCATGT-CAT
*
107308300 ATCAT-ACAT
1 ATCATGTCAT
107308309 ATCATGTGCAT
1 ATCATGT-CAT
*
107308320 ATCAT-ACAT
1 ATCATGTCAT
107308329 ATCATGTGCAT
1 ATCATGT-CAT
*
107308340 ATCATATCA-
1 ATCATGTCAT
107308349 ATCATGT-AT
1 ATCATGTCAT
107308358 ATCAT
1 ATCAT
107308363 ATCGCACGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 27 0.52
10 2 0.04
11 22 0.42
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:107311841 original size:43 final size:42
Alignment explanation
Indices: 107311794--107311895 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
107311784 TGAGATTAAT
* *
107311794 TGTAAGACCATGTCTGGCACATTGGCAT-TGTATTGTGATTACG
1 TGTAAGACCATGTCTGGCACATTGGCATAT-TAAT-CGATTACG
*
107311837 TGTAAGACCATGTCTGGGACATTGGCATCATTAATCGATTACG
1 TGTAAGACCATGTCTGGCACATTGGCAT-ATTAATCGATTACG
*
107311880 TGTAAGACCTTGTCTG
1 TGTAAGACCATGTCTG
107311896 AGACGGTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
43 49 0.92
44 3 0.06
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGCACATTGGCATATTAATCGATTACG
Found at i:107313945 original size:25 final size:25
Alignment explanation
Indices: 107313916--107313963 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107313906 TTATAATATG
* * *
107313916 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
107313941 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
107313964 GTTTAATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:107314030 original size:19 final size:19
Alignment explanation
Indices: 107314006--107314068 Score: 110
Period size: 19 Copynumber: 3.3 Consensus size: 19
107313996 TAAACATGGT
107314006 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
107314025 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
107314044 TATGTATGATATGCACATG-
1 -ATGTATGATATGCACATGA
107314063 ATGTAT
1 ATGTAT
107314069 TCATAAATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 6 0.14
19 19 0.44
20 18 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:107314043 original size:11 final size:11
Alignment explanation
Indices: 107314010--107314064 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
107314000 CATGGTATGT
107314010 ATGATATGCAC
1 ATGATATGCAC
*
107314021 ATGA-ATG--T
1 ATGATATGCAC
107314029 ATGATATGCAC
1 ATGATATGCAC
*
107314040 ATGATATG--T
1 ATGATATGCAC
107314049 ATGATATGCAC
1 ATGATATGCAC
107314060 ATGAT
1 ATGAT
107314065 GTATTCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 3 0.09
11 17 0.49
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:107314050 original size:20 final size:20
Alignment explanation
Indices: 107313999--107314064 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107313989 ATTTTGATAA
*
107313999 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
107314019 ACATGA-ATGTATGATATGC
1 ACATGATATGTATGATATGC
107314038 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
107314058 ACATGAT
1 ACATGAT
107314065 GTATTCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 19 0.43
20 25 0.57
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:107314204 original size:23 final size:24
Alignment explanation
Indices: 107314113--107314257 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
107314103 GGAGGAAGTG
107314113 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107314137 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
107314162 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
107314187 TAAAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107314210 TAAAAGGGCTT-TTCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107314233 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
107314258 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.01
23 36 0.32
24 18 0.16
25 56 0.50
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:107314486 original size:31 final size:31
Alignment explanation
Indices: 107314451--107314514 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
107314441 CGTTTACAGT
107314451 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
107314482 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
107314513 AA
1 AA
107314515 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:107322016 original size:25 final size:25
Alignment explanation
Indices: 107321987--107322034 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107321977 TTATAATATG
* * *
107321987 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
107322012 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
107322035 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:107322118 original size:11 final size:11
Alignment explanation
Indices: 107322082--107322137 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
107322072 CATGGTATGT
107322082 ATGATATGCAC
1 ATGATATGCAC
* *
107322093 ATGACATG--T
1 ATGATATGCAC
107322102 ATGATATGCAC
1 ATGATATGCAC
*
107322113 ATGATATG--T
1 ATGATATGCAC
107322122 ATGATATGCAC
1 ATGATATGCAC
107322133 ATGAT
1 ATGAT
107322138 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:107322137 original size:20 final size:20
Alignment explanation
Indices: 107322071--107322137 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107322061 ATTTTGATAA
*
107322071 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
107322091 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
107322111 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
107322131 ACATGAT
1 ACATGAT
107322138 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:107322277 original size:23 final size:24
Alignment explanation
Indices: 107322186--107322330 Score: 197
Period size: 25 Copynumber: 6.0 Consensus size: 24
107322176 GGAGGAAGTG
*
107322186 TAAAAGGGTTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107322210 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
107322235 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
107322260 TAAAAGGGCTTATG-CCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
107322283 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
107322306 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
107322331 ATGATAAAGC
Statistics
Matches: 112, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.02
23 36 0.32
24 19 0.17
25 55 0.49
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:107322562 original size:31 final size:31
Alignment explanation
Indices: 107322524--107322587 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
107322514 CGTTTACAGT
107322524 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
107322555 AAAGGCTTCGGCCCAGTGTTATGAAATGTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
107322586 AA
1 AA
107322588 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:107325680 original size:2 final size:2
Alignment explanation
Indices: 107325673--107325698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107325663 TGAGCTGTAA
107325673 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
107325699 GTGATACCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107325995 original size:43 final size:43
Alignment explanation
Indices: 107325867--107326026 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 43
107325857 ATATGTGTTA
*
107325867 TCATGTAAGACCATGTCTGGGAC-GTTGGCATTGAT-TTGTGATT
1 TCATGTAAGACCATGTCTGGGACAG-TGGCATCGATATT-TGATT
* * *
107325910 TACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATT
1 T-CATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
* * *
107325953 TCATGTAAGACCCTGTTTGGGATAGTGGCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
*
107325996 AT-ATGTAAGACCATGTCTGGGACATTGGCAT
1 -TCATGTAAGACCATGTCTGGGACAGTGGCAT
107326027 TGTATGAGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
42 26 0.27
43 43 0.44
44 29 0.30
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
Found at i:107326026 original size:85 final size:85
Alignment explanation
Indices: 107325867--107326026 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
107325857 ATATGTGTTA
* *
107325867 TCATGTAAGACCATGTCTGGGACGTTGGCATTGATTTGTGATTTACGTGTAAGACCATGTCTGGG
1 TCATGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGTGATTTAC-TGTAAGACCATGTCTGGG
107325932 ACATTGGCATCATATATGATT
65 ACATTGGCATCATATATGATT
* *
107325953 TCATGTAAGACCCTGTTTGGGATAG-TGGCATCGATATT-TGATTATA-TGTAAGACCATGTCTG
1 TCATGTAAGACCATGTCTGGGA-AGTTGGCATCGAT-TTGTGATT-TACTGTAAGACCATGTCTG
107326015 GGACATTGGCAT
63 GGACATTGGCAT
107326027 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
85 28 0.42
86 34 0.51
87 5 0.07
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (85 bp):
TCATGTAAGACCATGTCTGGGAAGTTGGCATCGATTTGTGATTTACTGTAAGACCATGTCTGGGA
CATTGGCATCATATATGATT
Found at i:107331118 original size:66 final size:66
Alignment explanation
Indices: 107331007--107331134 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
107330997 TGCTCAACTT
* * * * *
107331007 AAAGTGGAGGCAGCATCAAGGGAAGCAAAGGCTCAAAGAAAATATGATGAACTCCAGCTACAATT
1 AAAGCGGAGGCAGCAGCAAGGGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAACTACAATT
107331072 G
66 G
* *
107331073 AAAGCGGAGGCAGCAGCAGGGGAAGCAGAGGCA-ACAAGAAAATATGACGAACTCCAACTACA
1 AAAGCGGAGGCAGCAGCAAGGGAAGCAAAGGCACA-AAGAAAATATGACGAACTCCAACTACA
107331135 GCTTTAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.43, C:0.19, G:0.27, T:0.11
Consensus pattern (66 bp):
AAAGCGGAGGCAGCAGCAAGGGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAACTACAATT
G
Found at i:107332815 original size:21 final size:20
Alignment explanation
Indices: 107332787--107332825 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
107332777 CATGTTTTTT
*
107332787 TGAAGTTTCTTGATAGATTA
1 TGAAGTTTCTTAATAGATTA
*
107332807 TGAATGTTTGTTAATAGAT
1 TGAA-GTTTCTTAATAGAT
107332826 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:107333368 original size:40 final size:40
Alignment explanation
Indices: 107333315--107333458 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
107333305 GACAAATCGA
* *
107333315 CTATTTATGGCACTCAGTGTGCGATTCGACATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGG
* * *
107333355 CTATATATAGCACTTAATGTGCGATTCAACATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGG
* * *
107333395 CTATATATGGCACTTAGTGTGCGATTTGAGATAGTTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGG
* * *
107333435 CTATGTACGGCACTTAGTATGCGA
1 CTATATATGGCACTTAGTGTGCGA
107333459 GATATCAAGT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCGG
Found at i:107338300 original size:2 final size:2
Alignment explanation
Indices: 107338293--107338328 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
107338283 CAAAACTATC
107338293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107338329 TTCAATAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107366407 original size:14 final size:14
Alignment explanation
Indices: 107366390--107366419 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107366380 TTAATGTCTC
107366390 AAAATTAAAGTTTA
1 AAAATTAAAGTTTA
*
107366404 AAAATTAAATTTTA
1 AAAATTAAAGTTTA
107366418 AA
1 AA
107366420 TTTTGAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAAATTAAAGTTTA
Found at i:107366664 original size:23 final size:22
Alignment explanation
Indices: 107366611--107366664 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 22
107366601 TAAAATAGAT
107366611 TTAATATTTATTGTTTAAAAAA
1 TTAATATTTATTGTTTAAAAAA
107366633 TT-ATCATTTATTGTTTAACAAAA
1 TTAAT-ATTTATTGTTTAA-AAAA
107366656 TTAATATTT
1 TTAATATTT
107366665 TTAAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.07
22 15 0.52
23 10 0.34
24 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (22 bp):
TTAATATTTATTGTTTAAAAAA
Found at i:107367374 original size:19 final size:19
Alignment explanation
Indices: 107367350--107367414 Score: 52
Period size: 19 Copynumber: 3.7 Consensus size: 19
107367340 TCATATGAAC
107367350 AAATAATTTAAAATTTATA
1 AAATAATTTAAAATTTATA
**
107367369 AAATAAAATAAAA-TTA-A
1 AAATAATTTAAAATTTATA
*
107367386 AAAT-A-TAAAAATTTCAT-
1 AAATAATTTAAAATTT-ATA
107367403 AAA-AATTTAAAA
1 AAATAATTTAAAA
107367415 AGGAATAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
15 4 0.11
16 3 0.08
17 10 0.28
18 8 0.22
19 11 0.31
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATAATTTAAAATTTATA
Found at i:107374251 original size:3 final size:3
Alignment explanation
Indices: 107374243--107374270 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
107374233 AGATATTTAC
107374243 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
107374271 ATTTTATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:107374515 original size:22 final size:22
Alignment explanation
Indices: 107374409--107374507 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
107374399 TTAGTAAATG
*
107374409 AAAGAAATA-AAATGAAATAA-A
1 AAAGAAATAGAAA-GAAAGAAGA
* * *
107374430 GAATAAATA-AAAGAAAGAAAA
1 AAAGAAATAGAAAGAAAGAAGA
* * *
107374451 ACAAGAAAAAGAAACACAGAAGA
1 A-AAGAAATAGAAAGAAAGAAGA
*
107374474 AACGAAATAGAAAGAAAGAAGA
1 AAAGAAATAGAAAGAAAGAAGA
107374496 AAAGAAA-AGAAA
1 AAAGAAATAGAAA
107374508 AAGGAGAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
20 6 0.10
21 16 0.26
22 29 0.48
23 10 0.16
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.06
Consensus pattern (22 bp):
AAAGAAATAGAAAGAAAGAAGA
Found at i:107377891 original size:13 final size:13
Alignment explanation
Indices: 107377849--107377908 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
107377839 AATTTTTAAC
*
107377849 AATTCAATATAAA
1 AATTTAATATAAA
107377862 AATTTACA-A-AAA
1 AATTTA-ATATAAA
107377874 TAATTTAATATAAA
1 -AATTTAATATAAA
* **
107377888 AATTGAATATTCA
1 AATTTAATATAAA
107377901 AATTTAAT
1 AATTTAAT
107377909 TATATTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 4 0.11
13 30 0.79
14 4 0.11
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
AATTTAATATAAA
Found at i:107381420 original size:13 final size:13
Alignment explanation
Indices: 107381377--107381431 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
107381367 AACAATTGTC
*
107381377 AAAAACTATTCTT-
1 AAAAATTATT-TTA
107381390 AAAAATTATTTTA
1 AAAAATTATTTTA
*
107381403 AAAAATTGTTTTA
1 AAAAATTATTTTA
* *
107381416 AAAAAATATTTCA
1 AAAAATTATTTTA
107381429 AAA
1 AAA
107381432 CTTTTTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 34 0.94
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (13 bp):
AAAAATTATTTTA
Found at i:107382391 original size:29 final size:27
Alignment explanation
Indices: 107382333--107382405 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 27
107382323 AAGACGGTTT
*
107382333 TTAAA-TTTAAAAATTATAATTATCTC
1 TTAAATTTTAAAAATTATAATTATCTA
*
107382359 TTAAATTTTAAAATAGTTATTATTATCTA
1 TTAAATTTTAAAA-A-TTATAATTATCTA
* *
107382388 TTAATTTTTAATAATTAT
1 TTAAATTTTAAAAATTAT
107382406 TATAATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 11 0.28
28 2 0.05
29 22 0.55
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (27 bp):
TTAAATTTTAAAAATTATAATTATCTA
Found at i:107382472 original size:36 final size:36
Alignment explanation
Indices: 107382394--107382472 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
107382384 TCTATTAATT
* *
107382394 TTTAATAATTATTATAATAATAAATTTCATGTAAAA
1 TTTAATAATTATTATAATAAGAAATTTCATATAAAA
** * *
107382430 GATAATAA-TATTTTAATAAGAAATTTCCTATCAAAA
1 TTTAATAATTATTATAATAAGAAATTTCATAT-AAAA
107382466 TTTAATA
1 TTTAATA
107382473 GGAAAATAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (36 bp):
TTTAATAATTATTATAATAAGAAATTTCATATAAAA
Found at i:107387216 original size:60 final size:60
Alignment explanation
Indices: 107387118--107387237 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
107387108 ACAATAGACC
*
107387118 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGTTTGGAGAGCTTATCAACCTCGAATTT
1 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
107387178 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
1 ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
107387238 TATATAGGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (60 bp):
ACCTCTTCCACGAATGTCCTGTATCAGTGTCAGCTTGGAGAGCTTATCAACCTCGAATTT
Found at i:107388463 original size:27 final size:27
Alignment explanation
Indices: 107388432--107388490 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
107388422 GAAAGGATAG
107388432 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAGTTATAAAATATTTT
107388459 TTTAATTAGAAAGTTATAAAATATTTT
1 TTTAATTAGAAAGTTATAAAATATTTT
107388486 TTTAA
1 TTTAA
107388491 GTTATAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (27 bp):
TTTAATTAGAAAGTTATAAAATATTTT
Found at i:107397064 original size:23 final size:23
Alignment explanation
Indices: 107397038--107397092 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
107397028 TGTAAGTCCT
107397038 CTGAAACTATTATTTGTTTCAAA
1 CTGAAACTATTATTTGTTTCAAA
107397061 CTGAAACTATTATTTGTTTCAAA
1 CTGAAACTATTATTTGTTTCAAA
*
107397084 CTGAGACTA
1 CTGAAACTA
107397093 CTGTAGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (23 bp):
CTGAAACTATTATTTGTTTCAAA
Found at i:107404930 original size:23 final size:23
Alignment explanation
Indices: 107404903--107404947 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
107404893 AAACTTAAAT
107404903 TTAAAATCTAAAAAATAAAAAAA
1 TTAAAATCTAAAAAATAAAAAAA
* *
107404926 TTAAATTCTTAAAAATAAAAAA
1 TTAAAATCTAAAAAATAAAAAA
107404948 TATAAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAATCTAAAAAATAAAAAAA
Found at i:107404977 original size:30 final size:29
Alignment explanation
Indices: 107404897--107404977 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
107404887 TTCGTTAAAC
107404897 TTAAATT-TAAAATCTAAAAAATAAAAAAA
1 TTAAATTCTAAAAT-TAAAAAATAAAAAAA
* * *
107404926 TTAAATTCTTAAAAATAAAAAATATAAGAA
1 TTAAATTC-TAAAATTAAAAAATAAAAAAA
*
107404956 TTAAATTCCAAAATTATAAAAA
1 TTAAATTCTAAAATTA-AAAAA
107404978 AATACACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 13 0.30
30 26 0.59
31 5 0.11
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (29 bp):
TTAAATTCTAAAATTAAAAAATAAAAAAA
Found at i:107415188 original size:32 final size:32
Alignment explanation
Indices: 107415152--107415215 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
107415142 CAAAAATAAA
107415152 TTATATGAACTATTCGAGAGGAACTAAAATTC
1 TTATATGAACTATTCGAGAGGAACTAAAATTC
107415184 TTATATGAACTATTCGAGAGGAACTAAAATTC
1 TTATATGAACTATTCGAGAGGAACTAAAATTC
107415216 CTCTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
TTATATGAACTATTCGAGAGGAACTAAAATTC
Found at i:107422781 original size:16 final size:16
Alignment explanation
Indices: 107422756--107422812 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
107422746 CTATTGTCAA
*
107422756 TTTGGGTTTATGATTT
1 TTTGGATTTATGATTT
* **
107422772 TTTGGATTTAGGGAGAT
1 TTTGGATTTA-TGATTT
*
107422789 TTAGG-TTTATGATTT
1 TTTGGATTTATGATTT
107422804 TTTGGATTT
1 TTTGGATTT
107422813 TTTTGTTGAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (16 bp):
TTTGGATTTATGATTT
Found at i:107425053 original size:46 final size:46
Alignment explanation
Indices: 107424986--107425207 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 46
107424976 TGTAACCTGC
* * * *
107424986 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* * *
107425032 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
107425082 -C-TCA-TGAACTCGGATTCAACTCAACGAGTTCGAACATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* * *
107425125 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
107425171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
107425208 TGCTCAACCA
Statistics
Matches: 151, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 2 0.01
45 2 0.01
46 106 0.70
47 25 0.17
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:107430047 original size:20 final size:20
Alignment explanation
Indices: 107430031--107430078 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
107430021 GCCAGTGTTT
107430031 CCCATCACTTGCTAGTGGGG
1 CCCATCACTTGCTAGTGGGG
107430051 CCCATCACTTGCTAGTGGGG
1 CCCATCACTTGCTAGTGGGG
107430071 CCCATCAC
1 CCCATCAC
107430079 ATGCGAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.23
Consensus pattern (20 bp):
CCCATCACTTGCTAGTGGGG
Found at i:107431741 original size:19 final size:20
Alignment explanation
Indices: 107431713--107431753 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
107431703 GATCATGTCA
107431713 ATGCACA-TTTCATAAAACG
1 ATGCACATTTTCATAAAACG
* *
107431732 ATGCAGATTTTTATAAAACG
1 ATGCACATTTTCATAAAACG
107431752 AT
1 AT
107431754 CTTACCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGCACATTTTCATAAAACG
Found at i:107431955 original size:47 final size:47
Alignment explanation
Indices: 107431844--107431947 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
107431834 CACAGTAATG
* *
107431844 CAGATAAACTGTCAATAATCAAAATTGTGGACAAGCTACCAAAATCG
1 CAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATCC
* * *
107431891 TAGATATACTGTCAATAATCAAAATTGTGGAGAAGCCACCAAAATCC
1 CAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATCC
107431938 CAGATAAACT
1 CAGATAAACT
107431948 ACCAATAACT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.22
Consensus pattern (47 bp):
CAGATAAACTGTCAATAATCAAAATTGTGGACAAGCCACCAAAATCC
Found at i:107437342 original size:33 final size:33
Alignment explanation
Indices: 107437300--107437385 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
107437290 ATTTGGGCCA
107437300 GGCCGTGTGATCCACACGGGCAAGGCCAACTAC
1 GGCCGTGTGATCCACACGGGCAAGGCCAACTAC
*
107437333 GGCCGTGTGATCCACACGGGCAAGGCCAACTAT
1 GGCCGTGTGATCCACACGGGCAAGGCCAACTAC
*
107437366 GGCCGTGTGACCCACACGGG
1 GGCCGTGTGATCCACACGGG
107437386 TAGGGCACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.22, C:0.33, G:0.33, T:0.13
Consensus pattern (33 bp):
GGCCGTGTGATCCACACGGGCAAGGCCAACTAC
Found at i:107437945 original size:21 final size:18
Alignment explanation
Indices: 107437908--107437948 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
107437898 AAAGTAAATG
107437908 AAATAAAAGAAATAAAGA
1 AAATAAAAGAAATAAAGA
107437926 AAATAAAAAGAGAATGAAAGA
1 AAAT-AAAAGA-AAT-AAAGA
107437947 AA
1 AA
107437949 CAGAATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
20 3 0.15
21 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (18 bp):
AAATAAAAGAAATAAAGA
Found at i:107438998 original size:6 final size:6
Alignment explanation
Indices: 107438987--107439019 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
107438977 TCTGTACCTG
*
107438987 ACTGTT ACTGTT ACTGCT ACTGTT ACTGTT ACT
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACT
107439020 ATTATGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
ACTGTT
Found at i:107446631 original size:21 final size:21
Alignment explanation
Indices: 107446605--107446649 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
107446595 GCTGCTGAAA
107446605 TTCCCTTTCTCTTTT-TTTTCT
1 TTCCC-TTCTCTTTTCTTTTCT
* *
107446626 TTCCCTTCTTTTTTCTTTTTT
1 TTCCCTTCTCTTTTCTTTTCT
107446647 TTC
1 TTC
107446650 TCGATAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTCCCTTCTCTTTTCTTTTCT
Done.