Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 107 of 208
Found at i:35425759 original size:3 final size:3
Alignment explanation
Indices: 35425751--35425777 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35425741 TTCCAACTTT
35425751 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
35425778 AACAATTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35427353 original size:14 final size:15
Alignment explanation
Indices: 35427322--35427362 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
35427312 TTTAATATAA
*
35427322 AATTTAAA-AATTTC
1 AATTTAAATAAATTC
35427336 AATTTAAATAAATT-
1 AATTTAAATAAATTC
*
35427350 AATTTATATAAAT
1 AATTTAAATAAAT
35427363 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATAAATTC
Found at i:35427599 original size:13 final size:14
Alignment explanation
Indices: 35427574--35427620 Score: 60
Period size: 13 Copynumber: 3.3 Consensus size: 14
35427564 TGGCACAATA
35427574 TTAAACTTTTAAAAT
1 TTAAA-TTTTAAAAT
*
35427589 TTAAA-TTTAAATT
1 TTAAATTTTAAAAT
35427602 TTAAATTTTAAAAGT
1 TTAAATTTTAAAA-T
35427617 TTAA
1 TTAA
35427621 TATTGTGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
14 6 0.21
15 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTAAATTTTAAAAT
Found at i:35427605 original size:20 final size:21
Alignment explanation
Indices: 35427574--35427613 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
35427564 TGGCACAATA
35427574 TTAAACTTTTAAAATTTAAAT
1 TTAAACTTTTAAAATTTAAAT
*
35427595 TTAAA-TTTTAAATTTTAAA
1 TTAAACTTTTAAAATTTAAA
35427614 AGTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAACTTTTAAAATTTAAAT
Found at i:35427963 original size:16 final size:16
Alignment explanation
Indices: 35427942--35427986 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
35427932 CATTTTAATT
35427942 ATTTATATAATA-AGTA
1 ATTTATATAATATA-TA
*
35427958 ATTTATATTATATATA
1 ATTTATATAATATATA
35427974 ATTT-TATAATATA
1 ATTTATATAATATA
35427987 ATATAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 17 0.65
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTATATAATATATA
Found at i:35428249 original size:19 final size:19
Alignment explanation
Indices: 35428222--35428258 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35428212 AGTATATTAA
35428222 AAATGCTTTAATTATAATT
1 AAATGCTTTAATTATAATT
* *
35428241 AAATTCTTTTATTATAAT
1 AAATGCTTTAATTATAAT
35428259 ATTTGAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATGCTTTAATTATAATT
Found at i:35429272 original size:25 final size:25
Alignment explanation
Indices: 35429238--35429285 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35429228 TGAAATAAAA
35429238 ATTACCCATGAGTTCGAGATACAAC
1 ATTACCCATGAGTTCGAGATACAAC
* * *
35429263 ATTACTCATGAGTTTGAGTTACA
1 ATTACCCATGAGTTCGAGATACA
35429286 TGTTGTCAAA
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:0.19, G:0.17, T:0.31
Consensus pattern (25 bp):
ATTACCCATGAGTTCGAGATACAAC
Found at i:35434407 original size:18 final size:18
Alignment explanation
Indices: 35434384--35434419 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35434374 TCTTAGTATC
*
35434384 GAGAATTGAAAATTTGAT
1 GAGAATTGAAAACTTGAT
*
35434402 GAGAATTTAAAACTTGAT
1 GAGAATTGAAAACTTGAT
35434420 CCCACTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (18 bp):
GAGAATTGAAAACTTGAT
Found at i:35436852 original size:44 final size:44
Alignment explanation
Indices: 35436787--35436901 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
35436777 ATTCTAACCT
* *
35436787 ACTGCAACTTCAGAGG-TATAAGATTTGTCCCATCAATATGCTCC
1 ACTGCAACTTCAG-GGAAATAAGATTTGTACCATCAATATGCTCC
* ** * * *
35436831 ACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAATTTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTTGTACCATCAATATGCTCC
*
35436875 ACTGTAACTTCAGGGAAATAAGATTTG
1 ACTGCAACTTCAGGGAAATAAGATTTG
35436902 CAACTTGTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.03
44 57 0.97
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAAATAAGATTTGTACCATCAATATGCTCC
Found at i:35437037 original size:96 final size:96
Alignment explanation
Indices: 35436828--35437046 Score: 237
Period size: 96 Copynumber: 2.3 Consensus size: 96
35436818 ATCAATATGC
* * * *
35436828 TCCACTG-CAACTTCAGGGAGATAAGATTAATAGCTTCAATTTGCTCCACTGTAACTTCAGGGAA
1 TCCACTGACAACTTCAGGGAAATAAGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAA
* * *
35436892 ATAAGATTTGCAACTTGTAACTTTAATCTAT
66 ACAAGATTTGCAACTCGTAACTTTAACCTAT
* * ** *
35436923 TCCATTGTC-ACTTCAGGGAAATAAGACTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGA
1 TCCACTGACAACTTCAGGGAAATAAGA-TTAATAGCTTCAATCTGCTCCACTGCAACTTCAGAGA
* * * * *
35436987 GACACGATTTGTAACTCGTACCTTTAACCTGT
65 AACAAGATTTGCAACTCGTAACTTTAACCTAT
* *
35437019 TCTACT-ACAACTTTAGGGAAATAAGATT
1 TCCACTGACAACTTCAGGGAAATAAGATT
35437047 CACATATTCA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
95 25 0.25
96 76 0.75
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (96 bp):
TCCACTGACAACTTCAGGGAAATAAGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAA
ACAAGATTTGCAACTCGTAACTTTAACCTAT
Found at i:35437150 original size:110 final size:110
Alignment explanation
Indices: 35436957--35437156 Score: 285
Period size: 110 Copynumber: 1.8 Consensus size: 110
35436947 GACTTGCTAT
** *
35436957 CTTCAATCTGCTCCACTGCAACTTCAGAGAGACACGATTTGTAACTCGTACCTTTAACCTGTTCT
1 CTTCAATCTGCTCCACCACAACTTCAGAGAGACAAGATTTGTAACTCGTACCTTTAACCTGTTCT
*
35437022 ACTACAACTTTAGGGAAATAAGATTCACATATTCAATCCAGTCCA
66 ACTACAACTTCAGGGAAATAAGATTCACATATTCAATCCAGTCCA
* * * * *
35437067 CTTCAATCTGCTCCACCATAACTTCA-AGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 CTTCAATCTGCTCCACCACAACTTCAGA-GAGACAAGATTTGTAACTCGTACCTTTAACCTGTTC
**
35437131 TACTGTAACTTCAGGGAAATAAGATT
65 TACTACAACTTCAGGGAAATAAGATT
35437157 TGTTATCTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.01
110 77 0.99
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (110 bp):
CTTCAATCTGCTCCACCACAACTTCAGAGAGACAAGATTTGTAACTCGTACCTTTAACCTGTTCT
ACTACAACTTCAGGGAAATAAGATTCACATATTCAATCCAGTCCA
Found at i:35437153 original size:51 final size:51
Alignment explanation
Indices: 35437086--35437972 Score: 520
Period size: 51 Copynumber: 17.6 Consensus size: 51
35437076 GCTCCACCAT
* * * *
35437086 AACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGT
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * *
35437137 AACTTCAGGGAAATAAGATTTG-----T-TATCTTCAGTCTGCTCCACTAC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * * *
35437182 AACTTCAGGGAAATATGATTTGTAACTCGTAGCTTCAATATGCTCCACTAC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * **
35437233 AACTTCAGGGAGATACGATTTGTAACTCATAGCTTTAATCTGTTCCACTGC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * **
35437284 AACCTCAGGGAAATAATATTCGCATCTTCAATCTACTCCA-CTTTAATCTGTTCCACT--
1 AACTTCAGGGAAATAAGATT----T-GT-AA-CT--TGTAGCTTTAATCTGTTCCACTGC
* * * * *
35437341 AAATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGT
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * *
35437392 AACTTCAGGGACATAAGA-TTG-AA-TAT-T---TTCAATCTGCTCCACTGT
1 AACTTCAGGGAAATAAGATTTGTAACT-TGTAGCTTTAATCTGTTCCACTGC
* * *
35437437 AACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTAC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * * *
35437488 AACTTCAGGGAAATAAGATTTGCACCTTCAATCTACTCCTCTTCAATTTGCTCCACTGC
1 AACTTCAGGGAAATAAGATTTGTAAC-T---TGTA--GCT-TT-AATCTGTTCCACTGC
* *
35437547 AACTTCA-GGAAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCATTGC
1 AACTTCAGGGAA-ATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * * *
35437598 AACTTCAAGGAATTAAGATTCG---C---TATCTTCAATCTACTT-CACTGC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCT-GTTCCACTGC
* *
35437643 AAC-TCTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTTCCACTGC
1 AACTTC-AGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * * * *
35437694 AGCTTCAGGGAAATAAGATTCGTATATTTAATTTACTCTACTTTAATCTGCTCCACTGC
1 AACTTCAGGGAAATAAGATTTGTA-A-CT--TGTA----GCTTTAATCTGTTCCACTGC
* * * * * *
35437753 AACTTCAGGGAGATAAGATTTGTAACTTATAGTTTTAATATATTCCACTAC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
** * * * *
35437804 AACTTCAGGGAAATAAGA--T-T--C-CCTATCTTCAATCTGCTCCACTGT
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * * *
35437849 AACTTCAGGGAGATAAGATTTATAACTGGTAG-TTTAATCTGTTCCATTGC
1 AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
* * *
35437899 AACTTCAGGGAAATAAGA--T-TCACTAT-T---TTCAATCTGCTCCACTGC
1 AACTTCAGGGAAATAAGATTTGTAACT-TGTAGCTTTAATCTGTTCCACTGC
* *
35437944 AACCTCAGGGAGATAAGATTTGTAACTTG
1 AACTTCAGGGAAATAAGATTTGTAACTTG
35437973 ACTGATCTGT
Statistics
Matches: 647, Mismatches: 124, Indels: 133
0.72 0.14 0.15
Matches are distributed among these distances:
44 2 0.00
45 159 0.25
46 7 0.01
47 11 0.02
48 15 0.02
49 19 0.03
50 39 0.06
51 247 0.38
52 11 0.02
53 4 0.01
55 13 0.02
56 1 0.00
57 21 0.03
58 10 0.02
59 87 0.13
60 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (51 bp):
AACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
Found at i:35437205 original size:96 final size:96
Alignment explanation
Indices: 35437067--35437255 Score: 243
Period size: 96 Copynumber: 2.0 Consensus size: 96
35437057 ATCCAGTCCA
* * * * * * *
35437067 CTTCAATCTGCTCCACCATAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCT
1 CTTCAATCTGCTCCACCACAACTTCAAGGAAATAAGATTTGTAACTCGTAGCTTCAATATGCTCC
**
35437132 ACTGTAACTTCAGGGAAATAAGATTTGTTAT
66 ACTACAACTTCAGGGAAATAAGATTTGTTAT
* * * *
35437163 CTTCAGTCTGCTCCACTACAACTTCAGGGAAATATGATTTGTAACTCGTAGCTTCAATATGCTCC
1 CTTCAATCTGCTCCACCACAACTTCAAGGAAATAAGATTTGTAACTCGTAGCTTCAATATGCTCC
* *
35437228 ACTACAACTTCAGGGAGATACGATTTGT
66 ACTACAACTTCAGGGAAATAAGATTTGT
35437256 AACTCATAGC
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (96 bp):
CTTCAATCTGCTCCACCACAACTTCAAGGAAATAAGATTTGTAACTCGTAGCTTCAATATGCTCC
ACTACAACTTCAGGGAAATAAGATTTGTTAT
Found at i:35437234 original size:206 final size:206
Alignment explanation
Indices: 35436861--35437252 Score: 532
Period size: 206 Copynumber: 1.9 Consensus size: 206
35436851 AGATTAATAG
* ** *
35436861 CTTCAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCC
1 CTTCAATCTGCTCCACCATAACTTCAAGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCC
* * * *
35436926 ATTGTCACTTCAGGGAAATAAGACTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGACA
66 ACTGTAACTTCAGGGAAATAAGACTTGCTATCTTCAATCTGCTCCACTACAACTTCAGAGAAACA
* * * * *
35436991 CGATTTGTAACTCGTACCTTTAACCTGTTCTACTACAACTTTAGGGAAATAAGATTCACATATTC
131 CGATTTGTAACTCGTACCTTCAACATGCTCCACTACAACTTCAGGGAAATAAGATTCACATATTC
35437056 AATCCAGTCCA
196 AATCCAGTCCA
* * * * *
35437067 CTTCAATCTGCTCCACCATAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCT
1 CTTCAATCTGCTCCACCATAACTTCAAGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCC
* * * * *
35437132 ACTGTAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTACAACTTCAGGGAAATA
66 ACTGTAACTTCAGGGAAATAAGACTTGCTATCTTCAATCTGCTCCACTACAACTTCAGAGAAACA
* * * * *
35437197 TGATTTGTAACTCGTAGCTTCAATATGCTCCACTACAACTTCAGGGAGATACGATT
131 CGATTTGTAACTCGTACCTTCAACATGCTCCACTACAACTTCAGGGAAATAAGATT
35437253 TGTAACTCAT
Statistics
Matches: 158, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
206 158 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (206 bp):
CTTCAATCTGCTCCACCATAACTTCAAGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCC
ACTGTAACTTCAGGGAAATAAGACTTGCTATCTTCAATCTGCTCCACTACAACTTCAGAGAAACA
CGATTTGTAACTCGTACCTTCAACATGCTCCACTACAACTTCAGGGAAATAAGATTCACATATTC
AATCCAGTCCA
Found at i:35437330 original size:206 final size:201
Alignment explanation
Indices: 35437118--35437941 Score: 825
Period size: 206 Copynumber: 4.0 Consensus size: 201
35437108 TAACTTGTAG
* * * * * * *
35437118 CTTTAATCTGTTCTACTGTAACTTCAGGGAAATAAGATTTG-T-TATCTTCAGTCTGCTCCACTA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATGTAGCTTTAATCTGTTCCACTA
* * * *
35437181 CAACTTCAGGGAAATATGATTTGTAACTCGTAGCTTCAATATGCTCCACTACAACTTCAGGGAGA
66 CAACTTCAGGGAAATAAGA--T-T--C-C-TATCTTCAATCTGCTCCACTGCAACTTCAGGGAGA
* * * *
35437246 TACGATTTGTAACTCATAGCTTTAATCTGTTCCACTGCAACCTCAGGGAAATAATATTCGCATCT
124 TAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCT
35437311 TCAATCTACTCCA
189 TCAATCTACTCCA
* * * * *
35437324 CTTTAATCTGTTCCACT--AAATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG--A--TGTAGCTTTAATCTGTTCC
** * ** * *
35437387 ACTGTAACTTCAGGGACATAAGATTGAATATTTTCAATCTGCTCCACTGTAACTTCAGGGAGATA
62 ACTACAACTTCAGGGAAATAAGATT-CCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
35437452 AGATTTGTAACTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCACCTTC
126 AGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
*
35437517 AATCTACTCCT
191 AATCTACTCCA
* * *
35437528 CTTCAATTTGCTCCACTGCAACTTCA-GGAAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTG--A--TGTAGCTTTAATCTGTTC
* * * * * *
35437592 CATTGCAACTTCAAGGAATTAAGATTCGCTATCTTCAATCTACTTCACTGCAAC-TCTAGGGAGA
61 CACTACAACTTCAGGGAAATAAGATTC-CTATCTTCAATCTGCTCCACTGCAACTTC-AGGGAGA
* * * * *
35437656 TAAGATTTGTAACTTGTAACTTTAATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTCGTATAT
124 TAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCT
* * *
35437721 TTAATTTACTCTA
189 TCAATCTACTCCA
* * * * *
35437734 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTATAGTTTTAATATATTCC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG--A--TGTAGCTTTAATCTGTTCC
*
35437799 ACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATA
62 ACTACAACTTCAGGGAAATAAGATT-CCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
* ** * * *
35437864 AGATTTATAACTGGTAG-TTTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACTATTTT
126 AGATTTGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC-ATCTT
*
35437928 CAATCTGCTCCA
190 CAATCTACTCCA
35437940 CT
1 CT
35437942 GCAACCTCAG
Statistics
Matches: 516, Mismatches: 87, Indels: 30
0.82 0.14 0.05
Matches are distributed among these distances:
204 134 0.26
205 42 0.08
206 301 0.58
207 7 0.01
208 1 0.00
209 1 0.00
210 30 0.06
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (201 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATGTAGCTTTAATCTGTTCCACTA
CAACTTCAGGGAAATAAGATTCCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
TGTAACTTATAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCT
ACTCCA
Found at i:35437430 original size:255 final size:257
Alignment explanation
Indices: 35436957--35437509 Score: 761
Period size: 255 Copynumber: 2.2 Consensus size: 257
35436947 GACTTGCTAT
* * * * *
35436957 CTTCAATCTGCTCCACTGCAACTTCAGAGAGACACGATTTGTAACTCGTACCTTTAACCTGTTCT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCATACCTTTAACCTGTTCC
* * *
35437022 ACTACAACTTTAGGGAAATAAGATTCACATATTCAATCCAGTCCACTTCAATCTGCTCCACCATA
66 ACTACAACCTCAGGGAAATAAGATTCACATATTCAATCCACTCCACTTCAATCTGCTCCACCATA
*
35437087 ACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
131 AATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
* * * *
35437152 AGATTTGTTATCTTCAGTCTGCTCCACTACAACTTCAGGGAAATATGATTTGTAACTCGTAG
196 AGATTTGATATCTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
* * *
35437214 CTTCAATATGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCATAGCTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCATACCTTTAACCTGTTCC
* * * * * * *
35437279 ACTGCAACCTCAGGGAAATAATATTCGCATCTTCAATCTACTCCACTTTAATCTGTTCCA-C-TA
66 ACTACAACCTCAGGGAAATAAGATTCACATATTCAATCCACTCCACTTCAATCTGCTCCACCATA
* * *
35437342 AATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGTAACTTCAGGGACATA
131 AATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
* ** * *
35437407 AGA-TTGAATATTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTATAG
196 AGATTTG-ATATCTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
* * * *
35437469 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTG
35437510 CACCTTCAAT
Statistics
Matches: 259, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
254 3 0.01
255 148 0.57
256 1 0.00
257 107 0.41
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (257 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCATACCTTTAACCTGTTCC
ACTACAACCTCAGGGAAATAAGATTCACATATTCAATCCACTCCACTTCAATCTGCTCCACCATA
AATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
AGATTTGATATCTTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
Found at i:35437492 original size:96 final size:94
Alignment explanation
Indices: 35437328--35437507 Score: 270
Period size: 96 Copynumber: 1.9 Consensus size: 94
35437318 ACTCCACTTT
* * * * **
35437328 AATCTGTTCCACTAAATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGTA
1 AATCTGCTCCACTAAATTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTACA
*
35437393 ACTTCAGGGACATAAGATTGAATATTTTC
66 ACTTCAGGGAAATAAGATTGAATATTTTC
*
35437422 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTA
1 AATCTGCTCCAC--TAAATTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTA
35437487 CAACTTCAGGGAAATAAGATT
64 CAACTTCAGGGAAATAAGATT
35437508 TGCACCTTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
94 11 0.14
96 65 0.86
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (94 bp):
AATCTGCTCCACTAAATTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTACA
ACTTCAGGGAAATAAGATTGAATATTTTC
Found at i:35437615 original size:110 final size:111
Alignment explanation
Indices: 35437419--35437635 Score: 328
Period size: 110 Copynumber: 2.0 Consensus size: 111
35437409 ATTGAATATT
* * *
35437419 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCCA
* *
35437484 CTACAACTTCAGGGAAATAAGATTTGC-ACCTTCAATCTACTCCTC
66 CTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACTCCTC
* *
35437529 TTCAATTTGCTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCA
1 TTCAATCTGCTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCCA
* * * *
35437594 TTGCAACTTCAAGGAATTAAGATTCGCTATCTTCAATCTACT
66 CTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACT
35437636 TCACTGCAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 82 0.86
111 13 0.14
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (111 bp):
TTCAATCTGCTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCCA
CTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACTCCTC
Found at i:35437700 original size:96 final size:96
Alignment explanation
Indices: 35437527--35437972 Score: 315
Period size: 95 Copynumber: 4.5 Consensus size: 96
35437517 AATCTACTCC
* * *
35437527 TCTTCAATTTGCTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 TCTTCAATCTACTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTGTAACTTTAATCTGTTC
* *
35437592 CATTGCAACTTCAAGGAATTAAGATTCGCTA
66 CACTGCAACTTCAAGGAAATAAGATTCGCTA
* * *
35437623 TCTTCAATCTACTTCACTGCAAC-TCTAGGGAGATAAGATTTGTAACTTGTAACTTTAATCTGTT
1 TCTTCAATCTACTCCACTGCAACTTC-AGGAAGAAAAGATTTGTAACTTGTAACTTTAATCTGTT
* *
35437687 CCACTGCAGCTTCAGGGAAATAAGATTCG-TA
65 CCACTGCAACTTCAAGGAAATAAGATTCGCTA
* * * * ** * * ** * *
35437718 TATTTAATTTACTCTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTA
1 TCTTCAATCTACTCCACTGCAA-CT--T-CA--GGAA---GA-AAAGAT----TTGT-AA-CTTG
** * * * * *
35437782 TAGTTTTAATATATTCCACTACAACTTCAGGGAAATAAGATTCCCTA
50 TAACTTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTA
* * * * * * *
35437829 TCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTGGT-AGTTTAATCTGTTC
1 TCTTCAATCTACTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTGTAACTTTAATCTGTTC
* * *
35437893 CATTGCAACTTCAGGGAAATAAGATTCACTA
66 CACTGCAACTTCAAGGAAATAAGATTCGCTA
* * * * *
35437924 TTTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTAACTTG
1 TCTTCAATCTACTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTG
35437973 ACTGATCTGT
Statistics
Matches: 273, Mismatches: 57, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
95 101 0.37
96 84 0.31
97 3 0.01
98 1 0.00
99 2 0.01
100 1 0.00
101 6 0.02
102 1 0.00
104 1 0.00
105 6 0.02
107 2 0.01
108 2 0.01
109 3 0.01
110 42 0.15
111 18 0.07
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (96 bp):
TCTTCAATCTACTCCACTGCAACTTCAGGAAGAAAAGATTTGTAACTTGTAACTTTAATCTGTTC
CACTGCAACTTCAAGGAAATAAGATTCGCTA
Found at i:35437801 original size:461 final size:458
Alignment explanation
Indices: 35436880--35437823 Score: 1067
Period size: 461 Copynumber: 2.0 Consensus size: 458
35436870 GCTCCACTGT
* *
35436880 AACTTCAGGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCCATTGTCACTTCAGGGAAAT
1 AACTTCAGGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCCACTGTAACTTCAGGGAAAT
* * *
35436945 AAGACTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGAGAGACACGATTTGTAACTCGTACCT
66 AAGACTTGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGATTTGTAACTCATACCT
* * * *
35437010 TTAACCTGTTCTACTACAACTTTAGGGAAATAAGATTCACATATTCAATCCAGTCCACTTCAATC
131 TTAACCTGTTCCACTACAACTTCAGGGAAATAAGATTCACACATTCAATCCACTCCACTTCAATC
* * * *
35437075 TGCTCCACCATAACTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAAC
196 TGCTCCACCACAACTTCAAGGAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAAC
* * * * * *
35437140 TTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTACAACTTCAGGGAAATATGATTTGT
261 TTCAAGGAAATAAGATTCGCTATCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTTGT
* * * * * *
35437205 AACTCGTAGCTTCAATATGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCATAGCTTTA
326 AACTCGTAACTTCAATATGCTCCACTACAACTTCAGGGAAATAAGATTCGTAACTAATAACTTTA
* * * * *
35437270 ATCTGTTCCACTGCAACCTCAGGGAAATAATATTCGCATCTTCAATCTACTCCACTTTAATCTGT
391 ATCTGCTCCACTGCAACCTCAGGGAAATAAGATTCGCAACTT-AA-CTACT---CTTTAATATAT
35437335 TCCACTA-
451 TCCACTAC
* * * * * * *
35437342 AA-TTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGTAACTTCAGGGACAT
1 AACTTCAGGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCCACTGTAACTTCAGGGAAAT
* * * * * *
35437406 AAGA-TTGAATATTTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTATAGC
66 AAGACTTG-ATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGATTTGTAACTCATACC
* ** * * *
35437470 TTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCACCTTCAATCTACTCCTCTTCAAT
130 TTTAACCTGTTCCACTACAACTTCAGGGAAATAAGATTCACACATTCAATCCACTCCACTTCAAT
* ** *
35437535 TTGCTCCACTGCAACTTC-AGGAAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCATTGCA
195 CTGCTCCACCACAACTTCAAGG-AGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCA
* * * *
35437599 ACTTCAAGGAATTAAGATTCGCTATCTTCAATCTACTTCACTGCAAC-TCTAGGGAGATAAGATT
259 ACTTCAAGGAAATAAGATTCGCTATCTTCAATCTACTCCACTACAACTTC-AGGGAAATAAGATT
* * * * * * *
35437663 TGTAACTTGTAACTTTAATCTGTTCCACTGCAGCTTCAGGGAAATAAGATTCGTATATTTAATTT
323 TGTAACTCGTAACTTCAATATGCTCCACTACAACTTCAGGGAAATAAGATTCGTA-A-CTAA--T
* * * * *
35437728 ACTCTACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT-A-TAGT-TTTA
384 A----ACTTTAATCTGCTCCACTGCAACCTCAGGGAAATAAGATTCGCAACTTAACTACTCTTTA
35437790 ATATATTCCACTAC
445 ATATATTCCACTAC
35437804 AACTTCAGGGAAATAAGATT
1 AACTTCAGGGAAATAAGATT
35437824 CCCTATCTTC
Statistics
Matches: 399, Mismatches: 70, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
460 8 0.02
461 322 0.81
462 5 0.01
463 18 0.05
465 5 0.01
467 1 0.00
469 40 0.10
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (458 bp):
AACTTCAGGGAAATAAGATTTGCAACTTGTAACTTTAATCTATTCCACTGTAACTTCAGGGAAAT
AAGACTTGATATCTTCAATCTGCTCCACTGCAACTTCAGAGAGACAAGATTTGTAACTCATACCT
TTAACCTGTTCCACTACAACTTCAGGGAAATAAGATTCACACATTCAATCCACTCCACTTCAATC
TGCTCCACCACAACTTCAAGGAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAAC
TTCAAGGAAATAAGATTCGCTATCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTTGT
AACTCGTAACTTCAATATGCTCCACTACAACTTCAGGGAAATAAGATTCGTAACTAATAACTTTA
ATCTGCTCCACTGCAACCTCAGGGAAATAAGATTCGCAACTTAACTACTCTTTAATATATTCCAC
TAC
Found at i:35437865 original size:45 final size:45
Alignment explanation
Indices: 35437796--35437963 Score: 174
Period size: 45 Copynumber: 3.6 Consensus size: 45
35437786 TTTAATATAT
* *
35437796 TCCACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
* * * * * * *
35437841 TCCACTGTAACTTCAGGGAGATAAGATTTATAACTGGTAGTTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGA--T-TCACT-AT-CTTCAATCTGC
* *
35437891 TCCATTGCAACTTCAGGGAAATAAGATTCACTATTTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
* *
35437936 TCCACTGCAACCTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
35437964 TGTAACTTGA
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
45 56 0.57
46 1 0.01
47 5 0.05
48 4 0.04
49 1 0.01
50 31 0.32
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
Found at i:35437938 original size:95 final size:96
Alignment explanation
Indices: 35437738--35437970 Score: 360
Period size: 95 Copynumber: 2.4 Consensus size: 96
35437728 ACTCTACTTT
*
35437738 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTATAGTTTTAATATATTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGATAGTTTTAATATATTCCACTA
*
35437803 CAACTTCAGGGAAATAAGATTCCCTATCTTC
66 CAACTTCAGGGAAATAAGATTCACTATCTTC
* * * * * * *
35437834 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTATAACTGGTAG-TTTAATCTGTTCCATTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGATAGTTTTAATATATTCCACTA
*
35437898 CAACTTCAGGGAAATAAGATTCACTATTTTC
66 CAACTTCAGGGAAATAAGATTCACTATCTTC
*
35437929 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACT
35437971 TGACTGATCT
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 81 0.65
96 43 0.35
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (96 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGATAGTTTTAATATATTCCACTA
CAACTTCAGGGAAATAAGATTCACTATCTTC
Found at i:35442606 original size:25 final size:25
Alignment explanation
Indices: 35442578--35442728 Score: 93
Period size: 25 Copynumber: 6.2 Consensus size: 25
35442568 TGAATCTCCA
*
35442578 GTTAAAGTGCTCTTCGGAGCTTTCT
1 GTTAAAGTGCTCTTCGGAGCTTCCT
* *
35442603 GTT--AGTGCTTGCTT--GAACTTCCC
1 GTTAAAGTGC-T-CTTCGGAGCTTCCT
* * * *
35442626 ATTATA-TGGCTATTCGGTGC-TCTCT
1 GTTAAAGT-GCTCTTCGGAGCTTC-CT
35442651 GTTAAAGTGCTCTTCGGAGCTTCCT
1 GTTAAAGTGCTCTTCGGAGCTTCCT
*
35442676 GTT-AAGTGCTCTTCGGAGCTACCT
1 GTTAAAGTGCTCTTCGGAGCTTCCT
* * * *
35442700 GATATAG-GCTCTTTGTGAGCTTCCC
1 GTTAAAGTGCTCTTCG-GAGCTTCCT
35442725 GTTA
1 GTTA
35442729 TTAAGCCCGG
Statistics
Matches: 95, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
23 15 0.16
24 34 0.36
25 43 0.45
26 3 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
GTTAAAGTGCTCTTCGGAGCTTCCT
Found at i:35445417 original size:235 final size:235
Alignment explanation
Indices: 35445006--35445478 Score: 919
Period size: 235 Copynumber: 2.0 Consensus size: 235
35444996 GATATCAGTA
35445006 CTTAGACCAGGCATGTCTTGATATGACCACGCGAAGACATCTTTGAATTCTTGAAGTAACTTAAT
1 CTTAGACCAGGCATGTCTTGATATGACCACGCGAAGACATCTTTGAATTCTTGAAGTAACTTAAT
35445071 GAGGTCTCGCTTTGTCTCTGCGGTGATACAAGCTCCGATCTTCACTTCTTTCTTCTCTTGCTCGT
66 GAGGTCTCGCTTTGTCTCTGCGGTGATACAAGCTCCGATCTTCACTTCTTTCTTCTCTTGCTCGT
*
35445136 CTTCTAAGCTCACAATTTGTACTGACTCTTTGTGAGGTAGAATATGTTTCTTCTCTTGTTCTATC
131 CTTCTAAGCTCACAATTTGTACTGACTCTTTGTGAGGTAGAATATGTTTCTACTCTTGTTCTATC
35445201 ATCATTAACAAATTAGGAGATAGGTTATAATCTTGATCAC
196 ATCATTAACAAATTAGGAGATAGGTTATAATCTTGATCAC
*
35445241 CTTAGACCAGGCATGTCTTGATATGACCATGCGAAGACATCTTTGAATTCTTGAAGTAACTTAAT
1 CTTAGACCAGGCATGTCTTGATATGACCACGCGAAGACATCTTTGAATTCTTGAAGTAACTTAAT
*
35445306 GAGGTCTCGCTTTGTCTCTGCGGTGATACAAGCTCCGATCTTCACTTCTTTCTTCTCTTGTTCGT
66 GAGGTCTCGCTTTGTCTCTGCGGTGATACAAGCTCCGATCTTCACTTCTTTCTTCTCTTGCTCGT
35445371 CTTCTAAGCTCACAATTTGTACTGACTCTTTGTGAGGTAGAATATGTTTCTACTCTTGTTCTATC
131 CTTCTAAGCTCACAATTTGTACTGACTCTTTGTGAGGTAGAATATGTTTCTACTCTTGTTCTATC
35445436 ATCATTAACAAATTAGGAGATAGGTTATAATCTTGATCAC
196 ATCATTAACAAATTAGGAGATAGGTTATAATCTTGATCAC
35445476 CTT
1 CTT
35445479 CAAAGTCCTG
Statistics
Matches: 235, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
235 235 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (235 bp):
CTTAGACCAGGCATGTCTTGATATGACCACGCGAAGACATCTTTGAATTCTTGAAGTAACTTAAT
GAGGTCTCGCTTTGTCTCTGCGGTGATACAAGCTCCGATCTTCACTTCTTTCTTCTCTTGCTCGT
CTTCTAAGCTCACAATTTGTACTGACTCTTTGTGAGGTAGAATATGTTTCTACTCTTGTTCTATC
ATCATTAACAAATTAGGAGATAGGTTATAATCTTGATCAC
Found at i:35447819 original size:4 final size:4
Alignment explanation
Indices: 35447812--35447875 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
35447802 AAAAAGGAGT
* * *
35447812 AATA AATA AATA AGTA AATA AATA TATA GAT- AATA AA-A TAAT- AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA AATA
*
35447857 AATA GATA AATA AATA AAT
1 AATA AATA AATA AATA AAT
35447876 GCCCGATGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
3 9 0.18
4 40 0.82
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:35449350 original size:22 final size:23
Alignment explanation
Indices: 35449307--35449348 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
35449297 AAAATGACCT
*
35449307 ATTACAATCTAAATATATTTTAG
1 ATTACAATCAAAATATATTTTAG
35449330 ATTA-AATCAAAATA-ATTTT
1 ATTACAATCAAAATATATTTT
35449349 TAAAAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTACAATCAAAATATATTTTAG
Found at i:35453185 original size:175 final size:175
Alignment explanation
Indices: 35452894--35453243 Score: 682
Period size: 175 Copynumber: 2.0 Consensus size: 175
35452884 CGATTACAGG
35452894 TATTCTGTTGTGTTATTGCTACTGTATTGTATTGCATTATTATTGTTACCGACATATTAATACTA
1 TATTCTGTTGTGTTATTGCTACTGTATTGTATTGCATTATTATTGTTACCGACATATTAATACTA
* *
35452959 CATACAGTATTATATTTTTCTTACAACATTTTACTATTTGTTATAGTAATTTTTTTTAAAATCTA
66 CATACAATATTATATTTTTCTTACAACATTTTACTATTTGTTATAGTAATTTTTTTAAAAATCTA
35453024 ATAATTCCAAATCAGCCCTTAAAAAACATAAATTCCATGGGTAGA
131 ATAATTCCAAATCAGCCCTTAAAAAACATAAATTCCATGGGTAGA
35453069 TATTCTGTTGTGTTATTGCTACTGTATTGTATTGCATTATTATTGTTACCGACATATTAATACTA
1 TATTCTGTTGTGTTATTGCTACTGTATTGTATTGCATTATTATTGTTACCGACATATTAATACTA
35453134 CATACAATATTATATTTTTCTTACAACATTTTACTATTTGTTATAGTAATTTTTTTAAAAATCTA
66 CATACAATATTATATTTTTCTTACAACATTTTACTATTTGTTATAGTAATTTTTTTAAAAATCTA
35453199 ATAATTCCAAATCAGCCCTTAAAAAACATAAATTCCATGGGTAGA
131 ATAATTCCAAATCAGCCCTTAAAAAACATAAATTCCATGGGTAGA
35453244 ATAGTAATTT
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
175 173 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (175 bp):
TATTCTGTTGTGTTATTGCTACTGTATTGTATTGCATTATTATTGTTACCGACATATTAATACTA
CATACAATATTATATTTTTCTTACAACATTTTACTATTTGTTATAGTAATTTTTTTAAAAATCTA
ATAATTCCAAATCAGCCCTTAAAAAACATAAATTCCATGGGTAGA
Found at i:35453260 original size:30 final size:30
Alignment explanation
Indices: 35453224--35453283 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
35453214 CCCTTAAAAA
*
35453224 ACATAAATTCCATGGGTAGAATAGTAATTT
1 ACATAAATTCCATGGGTAGAACAGTAATTT
*
35453254 ACATAAATTCCATGGGTAGGACAGTAATTT
1 ACATAAATTCCATGGGTAGAACAGTAATTT
35453284 GTATCGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (30 bp):
ACATAAATTCCATGGGTAGAACAGTAATTT
Found at i:35460774 original size:10 final size:9
Alignment explanation
Indices: 35460754--35460808 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
35460744 AAAGTGATCG
*
35460754 AAAAAATGA
1 AAAAAATAA
35460763 AAAAAATAGA
1 AAAAAATA-A
* *
35460773 AAATAATAT
1 AAAAAATAA
35460782 AAAAAATAA
1 AAAAAATAA
*
35460791 AGAAAAATTA
1 A-AAAAATAA
35460801 AAAAAATA
1 AAAAAATA
35460809 TTTTTTGGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 21 0.57
10 16 0.43
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (9 bp):
AAAAAATAA
Found at i:35460803 original size:28 final size:28
Alignment explanation
Indices: 35460754--35460809 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
35460744 AAAGTGATCG
* *
35460754 AAAAAATGAAAAAAATAGAAAATAATAT
1 AAAAAATAAAAAAAATAGAAAAAAATAT
*
35460782 AAAAAATAAAGAAAAAT-TAAAAAAATAT
1 AAAAAATAAA-AAAAATAGAAAAAAATAT
35460810 TTTTTGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (28 bp):
AAAAAATAAAAAAAATAGAAAAAAATAT
Found at i:35460804 original size:19 final size:18
Alignment explanation
Indices: 35460755--35460808 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
35460745 AAGTGATCGA
*
35460755 AAAAATGAAAAAAAT-AG
1 AAAAATTAAAAAAATAAG
*
35460772 AAAATAATATAAAAAATAAAG
1 AAAA-ATTA-AAAAAAT-AAG
35460793 AAAAATTAAAAAAATA
1 AAAAATTAAAAAAATA
35460809 TTTTTTGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 14 0.47
20 3 0.10
21 6 0.20
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAATTAAAAAAATAAG
Found at i:35469291 original size:17 final size:17
Alignment explanation
Indices: 35469269--35469303 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35469259 TCAATGGTCG
35469269 TCTTTAAAACTTTGAAA
1 TCTTTAAAACTTTGAAA
* *
35469286 TCTTTAGACCTTTGAAA
1 TCTTTAAAACTTTGAAA
35469303 T
1 T
35469304 TTCAAGCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
TCTTTAAAACTTTGAAA
Found at i:35470705 original size:208 final size:206
Alignment explanation
Indices: 35470340--35470725 Score: 485
Period size: 208 Copynumber: 1.9 Consensus size: 206
35470330 GTCTCAGCAA
* *
35470340 CATTGGATAATTTATAAAATTGGTTGGACAATTGTGCAACCCCTTCAATTTACTTTGAGGAATTT
1 CATTGGATAATTTATAAAATTGGCTAGACAATTGTGCAACCCCTTCAATTTACTTTGAGGAATTT
* *
35470405 TTCTTCCAATTTTAAAATATGAAATTCCTACCTCAATTGTATTCCTTTTTTTAAGTAGCTCTTAC
66 TTCTTCCAATTTTAAAATATGAAATTCATACCTCAATTATATTCCTTTTTTTAAGTAGCTCTTAC
* * *
35470470 ACATGTTGTACATATTCAAATTGAAGTTCACAAGTTTTATTATTTCCAGATGTGACTTGACTAGT
131 ACATGTTCTACATATTCAAACTGAAGTTCACAAGTTTGATTATTTCCAGATGTGACTTGACTAGT
35470535 ATTCTTAGTTG
196 ATTCTTAGTTG
* * * * * *
35470546 CATTGGATAATTTATTAATTTGGCTAGACAATTTTGCAGCTCCTTTAATTTTA-TTTGAGG-ATT
1 CATTGGATAATTTATAAAATTGGCTAGACAATTGTGCAACCCCTTCAA-TTTACTTTGAGGAATT
* ** * *
35470609 CCTTTCCTTCCAATTTTAAAATATGAAGTTCATGTCTCAGTTATTTTCC-TTTTTTAATGTAGCT
65 --TTT-CTTCCAATTTTAAAATATGAAATTCATACCTCAATTATATTCCTTTTTTTAA-GTAGCT
* * *
35470673 C-TAGCACGTGTTCTACA-AGTTCATACTGAAGTTCACAAGTTTGATTGTTTCCA
126 CTTA-CACATGTTCTACATA-TTCAAACTGAAGTTCACAAGTTTGATTATTTCCA
35470726 TCAAAGTCAC
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
205 3 0.02
206 47 0.31
207 18 0.12
208 84 0.55
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (206 bp):
CATTGGATAATTTATAAAATTGGCTAGACAATTGTGCAACCCCTTCAATTTACTTTGAGGAATTT
TTCTTCCAATTTTAAAATATGAAATTCATACCTCAATTATATTCCTTTTTTTAAGTAGCTCTTAC
ACATGTTCTACATATTCAAACTGAAGTTCACAAGTTTGATTATTTCCAGATGTGACTTGACTAGT
ATTCTTAGTTG
Found at i:35473722 original size:10 final size:10
Alignment explanation
Indices: 35473707--35473763 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
35473697 GTTAATTTCA
35473707 ATTATTTAAT
1 ATTATTTAAT
35473717 ATTATTTAAT
1 ATTATTTAAT
* *
35473727 ATTTTTTCAT
1 ATTATTTAAT
*
35473737 -TTATATAAT
1 ATTATTTAAT
* *
35473746 TTTAATTAAT
1 ATTATTTAAT
*
35473756 ATTTTTTA
1 ATTATTTA
35473764 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
9 6 0.17
10 30 0.83
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTATTTAAT
Found at i:35473740 original size:29 final size:29
Alignment explanation
Indices: 35473702--35473762 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
35473692 GTATGGTTAA
* *
35473702 TTTCAATTATTTAATATTATTTAATATTT
1 TTTCAATTATATAATATTAATTAATATTT
* *
35473731 TTTCATTTATATAATTTTAATTAATATTT
1 TTTCAATTATATAATATTAATTAATATTT
35473760 TTT
1 TTT
35473763 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTCAATTATATAATATTAATTAATATTT
Found at i:35479214 original size:12 final size:12
Alignment explanation
Indices: 35479199--35479234 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
35479189 AAAAATTTGC
35479199 ATTATTATTTTT
1 ATTATTATTTTT
35479211 ATTATTATTTTTT
1 ATTATTA-TTTTT
*
35479224 ATTTTTATTTT
1 ATTATTATTTT
35479235 CGGGTGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
ATTATTATTTTT
Found at i:35480479 original size:26 final size:26
Alignment explanation
Indices: 35480450--35480510 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
35480440 ATAAGGCTAA
* *
35480450 TTATTTTAAGTT-CTTTATATATTATT
1 TTATTTTAAGTTACTTTACATATTA-C
* *
35480476 TTATTCTAAGTTATTTTACATATTAC
1 TTATTTTAAGTTACTTTACATATTAC
35480502 TTATTTTAA
1 TTATTTTAA
35480511 AATTAACCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTACATATTAC
Found at i:35482200 original size:126 final size:124
Alignment explanation
Indices: 35481917--35482214 Score: 368
Period size: 123 Copynumber: 2.4 Consensus size: 124
35481907 AGGATGTACT
* * * *
35481917 GTACAAAAAGAGCATCCAGCTGGGTGCTTTTTTCAGTAGTTTTG-TAGACAATGCATCCTGCTTA
1 GTACAAAAAGAGCGTCCAGCTGGGAGCTTTTTTCAGTACTTTTGCT-GACAATGCATCCTACTTA
* * *
35481981 AAATGTTTTTCAACCTATTTCTCCAAAACCATCTTCAAATTATTTTTTCAGAATCTACTA
65 AAATGTTTTTCAACCTATTTCTCCAAAACCATCTTCAAATTATTTTTTCAAAAACCACTA
* * * * * *
35482041 -TACGAAAAGAGCGTCAAGCTAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCTTACTTGA
1 GTACAAAAAGAGCGTCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTACTTAA
* * * *
35482105 AGTGTTTTTCAACCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAAAAACCA-TA
66 AATGTTTTTCAACCTATTTCTCCAAAACCATC-T-TC-AAATTATTTTTTCAAAAACCACTA
* *
35482166 GTACAAAAAGAGCGTCCAGCTGGGAGCTTTTTTCAATATTTTTGCTGAC
1 GTACAAAAAGAGCGTCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGAC
35482215 TGTACAAAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
123 80 0.54
124 2 0.01
125 4 0.03
126 61 0.41
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (124 bp):
GTACAAAAAGAGCGTCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCCTACTTAA
AATGTTTTTCAACCTATTTCTCCAAAACCATCTTCAAATTATTTTTTCAAAAACCACTA
Found at i:35484853 original size:9 final size:9
Alignment explanation
Indices: 35484841--35484880 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
35484831 TAAAATTATA
35484841 AAAAATCAT
1 AAAAATCAT
35484850 AAAAATCAT
1 AAAAATCAT
35484859 AAAAATCAT
1 AAAAATCAT
35484868 AAAAATCAT
1 AAAAATCAT
35484877 AAAA
1 AAAA
35484881 TATATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATCAT
Found at i:35484853 original size:18 final size:17
Alignment explanation
Indices: 35484779--35484906 Score: 73
Period size: 18 Copynumber: 7.2 Consensus size: 17
35484769 CATGTGGTAA
*
35484779 AAAATTATAATAAATA-
1 AAAATTATAAAAAATAT
* *
35484795 AAAATTGTAAAAATTAT
1 AAAATTATAAAAAATAT
* *
35484812 TAAATTTTAATAGTAAATAT
1 AAAATTATAA-A--AAATAT
35484832 AAAATTATAAAAAATCAT
1 AAAATTATAAAAAAT-AT
*
35484850 AAAAATCAT-AAAAATCAT
1 -AAAATTATAAAAAAT-AT
* *
35484868 AAAAATCATAAAATATAT
1 -AAAATTATAAAAAATAT
*
35484886 AGAAA-TATAGAAAAAAAT
1 A-AAATTATA-AAAAATAT
35484904 AAA
1 AAA
35484907 TGTTTATAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.14
17 18 0.20
18 33 0.37
19 13 0.14
20 13 0.14
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATTATAAAAAATAT
Found at i:35484860 original size:27 final size:26
Alignment explanation
Indices: 35484826--35484899 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
35484816 TTTTAATAGT
*
35484826 AAATAT-AAAATTATAAAAAATCATAA
1 AAATATAAAAATCAT-AAAAATCATAA
35484852 AAATCATAAAAATCATAAAAATCATAA
1 AAAT-ATAAAAATCATAAAAATCATAA
*
35484879 AATATATAGAAAT-ATAGAAAA
1 AA-ATATAAAAATCATA-AAAA
35484900 AAATAAATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.17
27 26 0.62
28 9 0.21
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (26 bp):
AAATATAAAAATCATAAAAATCATAA
Found at i:35485165 original size:19 final size:19
Alignment explanation
Indices: 35485141--35485179 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35485131 GTTAGAAGGC
35485141 ATTTTTGATGCA-TTTTATA
1 ATTTTTGATG-ATTTTTATA
*
35485160 ATTTTTTATGATTTTTATA
1 ATTTTTGATGATTTTTATA
35485179 A
1 A
35485180 AATTTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTTGATGATTTTTATA
Found at i:35485185 original size:19 final size:19
Alignment explanation
Indices: 35485153--35485224 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
35485143 TTTTGATGCA
** *
35485153 TTTTATAATTTTTTATGAT
1 TTTTATAAAATTTTAAGAT
35485172 TTTTATAAAATTTTACA-ATT
1 TTTTATAAAATTTTA-AGA-T
* *
35485192 TTTTTTACAATTTTAAGAT
1 TTTTATAAAATTTTAAGAT
35485211 TTTTA-AAATATTTT
1 TTTTATAAA-ATTTT
35485225 TCTATTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 2 0.05
19 25 0.60
20 15 0.36
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAAATTTTAAGAT
Found at i:35485194 original size:20 final size:20
Alignment explanation
Indices: 35485171--35485235 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
35485161 TTTTTTATGA
35485171 TTTTTATAAAATTTTACAAT
1 TTTTTATAAAATTTTACAAT
* *
35485191 TTTTTTTACAATTTTA-AGA-
1 TTTTTATAAAATTTTACA-AT
* *
35485210 TTTTTA-AAATATTTTTCTAT
1 TTTTTATAAA-ATTTTACAAT
35485230 TTTTTA
1 TTTTTA
35485236 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 21 0.60
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTATAAAATTTTACAAT
Found at i:35485572 original size:97 final size:99
Alignment explanation
Indices: 35485405--35485582 Score: 247
Period size: 97 Copynumber: 1.8 Consensus size: 99
35485395 TCAAAGGGCC
* * *
35485405 TTTTTTATGCATTTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAATAAAAATAAAGCAGAGA
1 TTTTTTATGCATTTTGAAACTTCAAGTACCCAATTAAGTGCAAAAAAATAAAAATAAAGCAGAGA
35485470 CTTAATTGCTTATTTTAAAAAGTATGAGGGCCTT
66 CTTAATTGCTTATTTTAAAAAGTATGAGGGCCTT
* *
35485504 TTTTTTATGCATTTTTGAAAACTT-AAGTACCCAATTAAGTG-AAAAAAA-AAACA-AAAGCAGG
1 TTTTTTATGCA-TTTTG-AAACTTCAAGTACCCAATTAAGTGCAAAAAAATAAAAATAAAGCAGA
* *
35485565 GGCTTAATTGCTTCTTTT
64 GACTTAATTGCTTATTTT
35485583 TTTTAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
97 23 0.33
98 4 0.06
99 18 0.26
100 21 0.30
101 4 0.06
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (99 bp):
TTTTTTATGCATTTTGAAACTTCAAGTACCCAATTAAGTGCAAAAAAATAAAAATAAAGCAGAGA
CTTAATTGCTTATTTTAAAAAGTATGAGGGCCTT
Found at i:35488187 original size:18 final size:19
Alignment explanation
Indices: 35488152--35488187 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35488142 GAACTGATAC
*
35488152 ATAAAATTTTATAATATAG
1 ATAAAATTTGATAATATAG
35488171 ATAAAATTTGA-AATATA
1 ATAAAATTTGATAATATA
35488188 CGATTCGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
ATAAAATTTGATAATATAG
Found at i:35492445 original size:12 final size:12
Alignment explanation
Indices: 35492428--35492470 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
35492418 GTAGAAGAAG
35492428 AGAAAAAGGAGA
1 AGAAAAAGGAGA
*
35492440 AGAAAAAGAAGA
1 AGAAAAAGGAGA
*
35492452 AGAAGAAAAGGAGG
1 AG-A-AAAAGGAGA
35492466 AGAAA
1 AGAAA
35492471 TGGAGATGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.58
13 2 0.08
14 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAAAAAGGAGA
Found at i:35492452 original size:26 final size:26
Alignment explanation
Indices: 35492420--35492470 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
35492410 GCTAGGCAGT
35492420 AGAAGAAG-AGAAAAAGGAGAAGAAAA
1 AGAAGAAGAAG-AAAAGGAGAAGAAAA
*
35492446 AGAAGAAGAAGAAAAGGAGGAGAAA
1 AGAAGAAGAAGAAAAGGAGAAGAAA
35492471 TGGAGATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (26 bp):
AGAAGAAGAAGAAAAGGAGAAGAAAA
Found at i:35497061 original size:58 final size:58
Alignment explanation
Indices: 35496966--35497080 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
35496956 CTTGGCTCCA
* * *
35496966 ATAGATCCCTTGTTCCTTTCTGAAAGGTTAGCCTTGACAAGTGAAATGGTAAGGCAGG
1 ATAGATCCCTTGTTCCTTTCCGAAAGGTTAGCATTGACAAATGAAATGGTAAGGCAGG
35497024 ATAGATCCCTTGTTCCTTTCCGAAAGGTTAGCATTGACAAATGAAATGGTAAGGCAG
1 ATAGATCCCTTGTTCCTTTCCGAAAGGTTAGCATTGACAAATGAAATGGTAAGGCAG
35497081 AAATTGTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (58 bp):
ATAGATCCCTTGTTCCTTTCCGAAAGGTTAGCATTGACAAATGAAATGGTAAGGCAGG
Found at i:35507901 original size:6 final size:6
Alignment explanation
Indices: 35507885--35507914 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
35507875 GTTGATTCTA
*
35507885 AAAATG GAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
35507915 GAAACTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:35507902 original size:12 final size:12
Alignment explanation
Indices: 35507885--35507918 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
35507875 GTTGATTCTA
35507885 AAAATGGAAATG
1 AAAATGGAAATG
*
35507897 AAAATGAAAATG
1 AAAATGGAAATG
35507909 AAAATGGAAA
1 AAAATGGAAA
35507919 CTTGCAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:35508673 original size:9 final size:9
Alignment explanation
Indices: 35508659--35508686 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
35508649 GGACTTAGTT
35508659 ATAACATAA
1 ATAACATAA
35508668 ATAACATAA
1 ATAACATAA
35508677 ATAACATAA
1 ATAACATAA
35508686 A
1 A
35508687 AATGGATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAACATAA
Found at i:35509124 original size:21 final size:21
Alignment explanation
Indices: 35509085--35509124 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35509075 TTTATATAAA
*
35509085 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
35509106 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
35509125 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:35509165 original size:21 final size:21
Alignment explanation
Indices: 35509132--35509172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
35509122 AATTACTGAT
* *
35509132 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
35509153 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
35509173 TAATCAATCT
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:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:35511494 original size:8 final size:8
Alignment explanation
Indices: 35511476--35511541 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
35511466 CTATACGCAG
35511476 ATACAGA-
1 ATACAGAT
*
35511483 ATACAAAT
1 ATACAGAT
35511491 ATACCA-AT
1 ATA-CAGAT
*
35511499 ATGCAGAT
1 ATACAGAT
* *
35511507 GTATAGAT
1 ATACAGAT
35511515 ATACAGAT
1 ATACAGAT
*
35511523 ATACAAAT
1 ATACAGAT
35511531 ATACAGAT
1 ATACAGAT
35511539 ATA
1 ATA
35511542 ATACATGCTT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
7 8 0.17
8 37 0.79
9 2 0.04
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.26
Consensus pattern (8 bp):
ATACAGAT
Found at i:35515561 original size:15 final size:15
Alignment explanation
Indices: 35515541--35515594 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
35515531 ATACTACAAA
35515541 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
35515556 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
35515573 AGATATTTATTATTAAA
1 --ATATTTATTATTAAT
35515590 ATATT
1 ATATT
35515595 AAATTTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:35516763 original size:16 final size:16
Alignment explanation
Indices: 35516735--35516778 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
35516725 TTCCTCTTCA
35516735 TCCTCTATTTC-TTTTC
1 TCCTCT-TTTCTTTTTC
35516751 TTCCTCTTTTCTTTTTC
1 -TCCTCTTTTCTTTTTC
35516768 TCCTCTTTTCT
1 TCCTCTTTTCT
35516779 CTCATAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (16 bp):
TCCTCTTTTCTTTTTC
Found at i:35517643 original size:38 final size:38
Alignment explanation
Indices: 35517601--35517676 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
35517591 CGCCCTACCA
* * *
35517601 AGTACATGTTAAGTATGTCTATTGCTAATAATGAATTG
1 AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
* * *
35517639 AGTACATATTGAGCATGTCTACTGCTAGTATTGAATTG
1 AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
35517677 TTCTATTACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (38 bp):
AGTACATATTAAGCATGTCTACTGCTAATAATGAATTG
Found at i:35517801 original size:43 final size:43
Alignment explanation
Indices: 35517737--35518011 Score: 258
Period size: 43 Copynumber: 6.5 Consensus size: 43
35517727 ATGGAGGAAG
* *
35517737 AGTGGCAG--TTTATCTGTAAATATGTTGTGCATCCACAGCCC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* * * *
35517778 AGTGGCAGTTTTTATCTACAAATATGTTGTTCACCCACAGCCC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *** * * * *
35517821 AATGATTGTTTTTATCTTCAAATATGTTATGTATCCACAAACC
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* * * * *
35517864 AGCGGCAATTTTTATCTACAAATATGTTATGCATCCACAACCT
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
** *
35517907 AACGGCAG--TTTATCTGCAAATATGTTGTGCATCCACAACCT
1 AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *
35517948 AGTGGTC-G--TTTATCTGTAAATATGTTGTGCATCCACAGCCC
1 AGTGG-CAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
* *
35517989 AGTAGTAGTTTTTATCTGCAAAT
1 AGTGGCAGTTTTTATCTGCAAAT
35518012 TAGTGGTGGT
Statistics
Matches: 191, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
41 78 0.41
42 1 0.01
43 112 0.59
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (43 bp):
AGTGGCAGTTTTTATCTGCAAATATGTTGTGCATCCACAACCC
Found at i:35524118 original size:11 final size:11
Alignment explanation
Indices: 35524102--35524141 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
35524092 CATCATCTAT
35524102 TTCTTTTCTTC
1 TTCTTTTCTTC
35524113 TTCTTTT-TT-
1 TTCTTTTCTTC
*
35524122 TTCTTTTCCTC
1 TTCTTTTCTTC
35524133 TTCTTTTCT
1 TTCTTTTCT
35524142 CTCATCATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 7 0.28
10 3 0.12
11 15 0.60
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:35524124 original size:20 final size:20
Alignment explanation
Indices: 35524101--35524139 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35524091 TCATCATCTA
*
35524101 TTTCTTTTCTTCTTCTTTTT
1 TTTCTTTTCCTCTTCTTTTT
35524121 TTTCTTTTCCTCTTCTTTT
1 TTTCTTTTCCTCTTCTTTT
35524140 CTCTCATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTCCTCTTCTTTTT
Found at i:35525415 original size:18 final size:19
Alignment explanation
Indices: 35525389--35525425 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35525379 TTATTAAATT
35525389 AATTGATTT-TAAATCATTA
1 AATTGATTTATAAAT-ATTA
35525408 AATT-ATTTATAAATATTA
1 AATTGATTTATAAATATTA
35525426 TAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTGATTTATAAATATTA
Found at i:35526010 original size:11 final size:11
Alignment explanation
Indices: 35525989--35526047 Score: 73
Period size: 11 Copynumber: 5.3 Consensus size: 11
35525979 ACTAATCCTA
35525989 TCTCAAATTTCC
1 TCTC-AATTTCC
*
35526001 TCTCAATTTCT
1 TCTCAATTTCC
*
35526012 TCTAAATTTCC
1 TCTCAATTTCC
*
35526023 TCTCAATTTGC
1 TCTCAATTTCC
*
35526034 TCTCAAATTCC
1 TCTCAATTTCC
35526045 TCT
1 TCT
35526048 TAAATTTCTC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 36 0.90
12 4 0.10
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:35526052 original size:34 final size:34
Alignment explanation
Indices: 35525989--35526063 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
35525979 ACTAATCCTA
* *
35525989 TCTCAAATTTCCTCTCAATTTCTTCTAAATTTCC
1 TCTCAAATTTCCTCTCAAATTCCTCTAAATTTCC
*
35526023 TCTC-AATTTGCTCTCAAATTCCTCTTAAATTT-C
1 TCTCAAATTTCCTCTCAAATTCCTC-TAAATTTCC
*
35526056 TCTTAAAT
1 TCTCAAAT
35526064 CCCTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (34 bp):
TCTCAAATTTCCTCTCAAATTCCTCTAAATTTCC
Found at i:35526058 original size:22 final size:22
Alignment explanation
Indices: 35525989--35526063 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
35525979 ACTAATCCTA
35525989 TCTCAAATTTCCTCTCAATTTC
1 TCTCAAATTTCCTCTCAATTTC
35526011 T-TCTAAATTTCCTCTCAATTTGC
1 TCTC-AAATTTCCTCTCAATTT-C
*
35526034 TCTCAAA-TTCCTCTTAAATTTC
1 TCTCAAATTTCCTC-TCAATTTC
*
35526056 TCTTAAAT
1 TCTCAAAT
35526064 CCCTATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
21 2 0.04
22 31 0.67
23 11 0.24
24 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (22 bp):
TCTCAAATTTCCTCTCAATTTC
Found at i:35527218 original size:7 final size:7
Alignment explanation
Indices: 35527206--35527231 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35527196 TAGTCGATTG
35527206 GTATTTA
1 GTATTTA
35527213 GTATTTA
1 GTATTTA
35527220 GTATTTA
1 GTATTTA
35527227 GTATT
1 GTATT
35527232 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:35528462 original size:22 final size:22
Alignment explanation
Indices: 35528437--35529381 Score: 762
Period size: 22 Copynumber: 42.9 Consensus size: 22
35528427 TTTAATTGAC
*
35528437 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACCTAA
35528459 AAACCCT-AACCC-TAACCCTTAAATTA
1 AAACCCTAAACCCTTAA-CC-T--A--A
*
35528485 AAACTCATAAACCCTTAACCT-A
1 AAAC-CCTAAACCCTTAACCTAA
*
35528507 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
**
35528528 AAACCCTAGCCCCTTAACCTAA
1 AAACCCTAAACCCTTAACCTAA
* * *
35528550 AAACTCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
**
35528571 AAACCCTAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35528593 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
*
35528615 AAACCATAAACCCTTAACCT-A
1 AAACCCTAAACCCTTAACCTAA
35528636 AAACCCT-AACCC-TAACCATTAA
1 AAACCCTAAACCCTTAACC--TAA
* * * * * * *
35528658 CTTTAAA-ACAATAAACCCTTAACTTA
1 ----AAACCCTA-AACCCTTAACCTAA
*
35528684 AAACCCCTAAACCCTTAACTTAA
1 AAACCC-TAAACCCTTAACCTAA
* *
35528707 AAACACTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
*
35528729 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
**
35528751 AAACCCTAGCCCCTTAACCT-A
1 AAACCCTAAACCCTTAACCTAA
*
35528772 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
*
35528794 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35528816 AAACCCTAACCCTAACCCTTAACTTTA
1 AAACCCT-A----AACCCTTAACCTAA
* * * *
35528843 AAATCGTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
* * *
35528865 AACCCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
*
35528887 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* **
35528909 AAACTCTAGCCCCTTAACCTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35528931 AAACCCT-AA-CCTTTACCTTTA
1 AAACCCTAAACCCTTAACC-TAA
*
35528952 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* * * *
35528974 AACCCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
* * **
35528995 AAACCTTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35529017 AAACCCAAAACCCTTAA-CTTA
1 AAACCCTAAACCCTTAACCTAA
35529038 AAACCCATAAACCCTTAACCTAA
1 AAACCC-TAAACCCTTAACCTAA
* * *
35529061 AAACCTTAAA-CCTTAACTTGA
1 AAACCCTAAACCCTTAACCTAA
*
35529082 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35529104 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35529125 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
**
35529146 AAACCCTAGCCCCTTAACCTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35529168 AAACCCT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
*
35529189 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* * *
35529211 AAAGCATAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* * *
35529233 AAACCCT-AACCTTTAACTTTA
1 AAACCCTAAACCCTTAACCTAA
** *
35529254 AAACCCTAAATTCTTAA-CTTA
1 AAACCCTAAACCCTTAACCTAA
*
35529275 AAACCCTTAAACCCTTAACTTAA
1 AAACCC-TAAACCCTTAACCTAA
** * *
35529298 AAACATTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
*
35529320 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
* *
35529342 AAACCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACCTAA
**
35529363 AAACCCTAGCCCCTTAACC
1 AAACCCTAAACCCTTAACC
35529382 GGTATGGTAG
Statistics
Matches: 755, Mismatches: 125, Indels: 86
0.78 0.13 0.09
Matches are distributed among these distances:
19 5 0.01
20 26 0.03
21 216 0.29
22 422 0.56
23 35 0.05
24 2 0.00
25 1 0.00
26 11 0.01
27 24 0.03
28 10 0.01
29 3 0.00
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACCTAA
Found at i:35528559 original size:43 final size:43
Alignment explanation
Indices: 35528466--35529380 Score: 959
Period size: 43 Copynumber: 20.9 Consensus size: 43
35528456 TAAAAACCCT
* * *
35528466 AACCCTAACCCTTAAATT-AAAACTCATAAACCCTTAACCT-AA
1 AACCCTAACCCTTAACTTAAAAAC-CCTAAACCCTTAACTTAAA
** *
35528508 AACCCTAACCCTTAACTTAAAAACCCTAGCCCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35528551 AACTCTAACCCTTAACTTTAAAACCCTAAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35528594 AACCCTAAACCTTTAACTTAAAAACCATAAACCCTTAACCTAAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAA-CTTAAA
* * **
35528639 CCCTAACCCTAACCATTAACTTTAAAACAATAAACCCTTAACTTAAA
1 ----AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
35528686 ACCCCTAAACCCTTAACTTAAAAACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
** *
35528730 AACCCTAAACCCTTAACTTAAAAACCCTAGCCCCTTAACCT-AA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
35528773 AACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAA-CT-TAAA
* * * *
35528819 CCCTAACCCTAACCCTTAACTTTAAAATCGTAAACCCTTAACTTTAA
1 ----AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
35528866 ACCCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * * * *
35528910 AACTCTAGCCCCTTAACCTAAAAACCCT-AACCTTTACCTTTAA
1 AACCCTA-ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35528953 AACCCTAAACCCTTAACTTAAAACCCCT-AACTCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
35528996 AACCTTAAACCTTTAAATTAAAAACCCAAAACCCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * *
35529039 AACCCATAAACCCTTAACCTAAAAACCTTAAA-CCTTAACTTGAA
1 AACCC-T-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
35529083 AACCCTAAACCCTTAACTTAAAAATCCT-AACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* ** *
35529126 AACCCTAACCCTTAACTTTAAAACCCTAGCCCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
*
35529169 AACCCTAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* * * *
35529212 AAGCATAAACCCTTAACTTAAAAACCCT-AACCTTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
**
35529255 AACCCTAAATTCTTAACTT-AAAACCCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCC-TAAACCCTTAACTTAAA
**
35529299 AACATTAACCCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* **
35529343 AACCCTAACACTTAACTTAAAAACCCTAGCCCCTTAAC
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAC
35529381 CGGTATGGTA
Statistics
Matches: 742, Mismatches: 102, Indels: 57
0.82 0.11 0.06
Matches are distributed among these distances:
42 58 0.08
43 332 0.45
44 262 0.35
45 11 0.01
46 2 0.00
47 7 0.01
48 30 0.04
49 34 0.05
50 6 0.01
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (43 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
Found at i:35528594 original size:65 final size:66
Alignment explanation
Indices: 35528437--35529380 Score: 1020
Period size: 65 Copynumber: 14.3 Consensus size: 66
35528427 TTTAATTGAC
* * * *
35528437 AAACCTTAAACCCTTAACCTAAAAACCCTAACCCTAACCCTTAAATT-AAAACTCATAAACCCTT
1 AAACCCTAAACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTAAAAAC-CCTAAACCCTT
*
35528501 AACCT-A
60 AACTTAA
** * * *
35528507 AAACCCT-AACCCTTAACTTAAAAACCCTAGCCCCTTAACCTAAAAACTCT-AACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35528570 A
66 A
* * * *
35528571 AAACCCTAAACCCTTAAATTAAAAACCCTAAACCTTTAACTTAAAAACCATAAACCCTTAACCT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35528635 A
66 A
* * ** *
35528636 AAACCCTAACCCTAACCATTAACTTTAAAACAATAAACCCTTAACTTAAAACCCCTAAACCCTTA
1 AAACCCT-A----AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTA
35528701 ACTTAA
61 ACTTAA
* ** *
35528707 AAACACTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAGCCCCTTAACCT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35528771 A
66 A
* *
35528772 AAACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAACCCTAACCCTAACCCTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-A----AACCCTTA
*
35528837 ACTTTA
61 ACTTAA
* * * * *
35528843 AAATCGTAAACCCTTAACTTTAAACCCCTAAACCCTTAACTTTAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35528908 A
66 A
* ** * * * *
35528909 AAACTCTAGCCCCTTAACCTAAAAACCCT-AACCTTTACCTTTAAAACCCTAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35528973 A
66 A
* * * * * * *
35528974 AACCCCT-AACTCTTAACTTTAAAACCTTAAACCTTTAAATTAAAAACCCAAAACCCTTAACTT-
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35529037 A
66 A
* * *
35529038 AAACCCATAAACCCTTAACCTAAAAACCTTAAA-CCTTAACTTGAAAACCCTAAACCCTTAACTT
1 AAACCC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
35529102 AA
65 AA
* * ** *
35529104 AAATCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTTAAAACCCTAGCCCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35529167 A
66 A
* * *
35529168 AAACCCT-AACCCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAAGCATAAACCCTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35529232 A
66 A
* * **
35529233 AAACCCT-AACCTTTAACTTTAAAACCCTAAATTCTTAACTT-AAAACCCTTAAACCCTTAACTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-TAAACCCTTAACTT
35529296 AA
65 AA
** * *
35529298 AAACATTAACCCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
35529362 A
66 A
**
35529363 AAACCCTAGCCCCTTAAC
1 AAACCCTAAACCCTTAAC
35529381 CGGTATGGTA
Statistics
Matches: 739, Mismatches: 110, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
63 13 0.02
64 117 0.16
65 313 0.42
66 152 0.21
67 7 0.01
68 1 0.00
69 20 0.03
70 64 0.09
71 52 0.07
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.25
Consensus pattern (66 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
A
Found at i:35531296 original size:7 final size:6
Alignment explanation
Indices: 35531242--35531294 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
35531232 TTAGTTCATC
** * *
35531242 TTTATT TTTCCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
35531292 TTT
1 TTT
35531295 TAAATTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 32 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:35531328 original size:3 final size:3
Alignment explanation
Indices: 35531320--35531365 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
35531310 TTTTTAATCC
35531320 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35531366 TCTCCTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35532450 original size:15 final size:14
Alignment explanation
Indices: 35532417--35532447 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
35532407 CTACTCCTGC
35532417 AAAA-ACAGAAGCA
1 AAAAGACAGAAGCA
35532430 AAAAGACAGAAGCA
1 AAAAGACAGAAGCA
35532444 AAAA
1 AAAA
35532448 AGAGAGGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.71, C:0.13, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGACAGAAGCA
Found at i:35533612 original size:25 final size:25
Alignment explanation
Indices: 35533568--35533626 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
35533558 TACTATTATA
35533568 ATTATT-TATATATCGTTATATCTT
1 ATTATTATATATATCGTTATATCTT
*
35533592 ATTATTATATATAT-TTATATATCTT
1 ATTATTATATATATCGT-TATATCTT
35533617 A-TA-TATATAT
1 ATTATTATATAT
35533627 GTGTACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 7 0.22
24 9 0.28
25 16 0.50
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTATTATATATATCGTTATATCTT
Found at i:35533681 original size:4 final size:4
Alignment explanation
Indices: 35533674--35533700 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35533664 GCTTATATAT
35533674 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
35533701 TATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:35539267 original size:33 final size:33
Alignment explanation
Indices: 35539225--35539332 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 33
35539215 GAAAGGAGCA
*
35539225 AGAGGACAAGTTGATTGAGAGATATAGAAAGAG
1 AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
***
35539258 AGAGCACAAG-T--TTG-GAG--GCGGAAAGGAG
1 AGAGCACAAGTTGATTGAGAGATATAGAAA-GAG
* *
35539286 CAAGAGGACAAGTTGATTGAGAGATATAGCAAGAG
1 --AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
35539321 AGAGCACAAGTT
1 AGAGCACAAGTT
35539333 TGCTTAGAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 3 0.05
30 12 0.21
31 1 0.02
32 1 0.02
33 23 0.41
34 3 0.05
35 3 0.05
36 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.34, T:0.16
Consensus pattern (33 bp):
AGAGCACAAGTTGATTGAGAGATATAGAAAGAG
Found at i:35539313 original size:63 final size:63
Alignment explanation
Indices: 35539209--35539334 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
35539199 AAAAGGTGGA
*
35539209 GAGGTGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
1 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
*
35539272 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGCAAGAGAGAGCACAAGTTTG
1 GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
35539335 CTTAGAGTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.08, G:0.37, T:0.15
Consensus pattern (63 bp):
GAGGCGGAAAGGAGCAAGAGGACAAGTTGATTGAGAGATATAGAAAGAGAGAGCACAAGTTTG
Found at i:35539319 original size:29 final size:29
Alignment explanation
Indices: 35539221--35539320 Score: 78
Period size: 30 Copynumber: 3.3 Consensus size: 29
35539211 GGTGGAAAGG
35539221 AGCAAGAGGACAAGTTGATTGAGAGATAT
1 AGCAAGAGGACAAGTTGATTGAGAGATAT
* * * * *
35539250 AGAAAGAGAGAGCACAAGTT--TGGAGGCGGAAAGG
1 AG-CA-AGAG-G-ACAAGTTGATTGA-G-AGATA-T
35539284 AGCAAGAGGACAAGTTGATTGAGAGATAT
1 AGCAAGAGGACAAGTTGATTGAGAGATAT
35539313 AGCAAGAG
1 AGCAAGAG
35539321 AGAGCACAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
29 10 0.19
30 11 0.21
31 9 0.17
32 9 0.17
33 11 0.21
34 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.35, T:0.15
Consensus pattern (29 bp):
AGCAAGAGGACAAGTTGATTGAGAGATAT
Found at i:35542221 original size:19 final size:17
Alignment explanation
Indices: 35542197--35542240 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
35542187 TCTTATACAT
*
35542197 TATAAAAAAAATCATATAA
1 TATAAAAAAAAT-ACA-AA
*
35542216 TATAAAAACAATACAAA
1 TATAAAAAAAATACAAA
35542233 TATAAAAA
1 TATAAAAA
35542241 TGATATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
TATAAAAAAAATACAAA
Found at i:35542673 original size:24 final size:24
Alignment explanation
Indices: 35542623--35542675 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
35542613 AACAAGTATT
* *
35542623 TTTAAAAGGAACTGTATGTCAATA
1 TTTAAAAGAAACTGTATGTCAACA
* *
35542647 TTTAAGAGAAACTGTATGTCAGCA
1 TTTAAAAGAAACTGTATGTCAACA
35542671 TTTAA
1 TTTAA
35542676 CAGATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (24 bp):
TTTAAAAGAAACTGTATGTCAACA
Found at i:35544443 original size:25 final size:25
Alignment explanation
Indices: 35544415--35544468 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
35544405 TCCAATATGC
*
35544415 AAAAAAGAATACCTAATATTATACT
1 AAAAAAGAATAACTAATATTATACT
****
35544440 AAAATTTTATAACTAATATTATACT
1 AAAAAAGAATAACTAATATTATACT
35544465 AAAA
1 AAAA
35544469 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAAAGAATAACTAATATTATACT
Found at i:35544486 original size:26 final size:25
Alignment explanation
Indices: 35544432--35544488 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
35544422 AATACCTAAT
* *
35544432 ATTATACTAAAATTTTATAACTAAT
1 ATTATACTAAAATTTTATAAATAAC
*
35544457 ATTATACTAAAATTTTAATAAATACC
1 ATTATACTAAAATTTT-ATAAATAAC
35544483 ATTATA
1 ATTATA
35544489 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTATACTAAAATTTTATAAATAAC
Found at i:35547863 original size:30 final size:30
Alignment explanation
Indices: 35547829--35547894 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
35547819 CTTACAATGA
*
35547829 CGTTCAGGAATTTGAGAAGACCCAATATCT
1 CGTTCAGGAACTTGAGAAGACCCAATATCT
* * *
35547859 CGTTCAGGAGCTTGAGAAGACTCGATATCT
1 CGTTCAGGAACTTGAGAAGACCCAATATCT
*
35547889 CATTCA
1 CGTTCA
35547895 AGGTCTTGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (30 bp):
CGTTCAGGAACTTGAGAAGACCCAATATCT
Found at i:35549539 original size:3 final size:3
Alignment explanation
Indices: 35549531--35549573 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
35549521 AAGTTTTCTT
35549531 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35549574 CTGTGAACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35557416 original size:16 final size:16
Alignment explanation
Indices: 35557395--35557426 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35557385 TGTTTAGTGC
35557395 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
35557411 TATTGTTAAATGATGT
1 TATTGTTAAATGATGT
35557427 ATCTAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TATTGTTAAATGATGT
Found at i:35557922 original size:12 final size:12
Alignment explanation
Indices: 35557905--35557930 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35557895 CCTACACATG
35557905 AGCACTAATTCA
1 AGCACTAATTCA
35557917 AGCACTAATTCA
1 AGCACTAATTCA
35557929 AG
1 AG
35557931 ATTCTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (12 bp):
AGCACTAATTCA
Found at i:35558478 original size:20 final size:21
Alignment explanation
Indices: 35558453--35558491 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35558443 AAACATAAAC
35558453 AACTTTAC-ATTTTTTAAAGT
1 AACTTTACAATTTTTTAAAGT
35558473 AACTTTACAATTTTTTAAA
1 AACTTTACAATTTTTTAAA
35558492 ATTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
AACTTTACAATTTTTTAAAGT
Found at i:35561361 original size:22 final size:24
Alignment explanation
Indices: 35561335--35561378 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
35561325 GAAAAATATT
35561335 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
35561357 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
35561379 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:35561587 original size:16 final size:16
Alignment explanation
Indices: 35561566--35561607 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
35561556 AATAATTTGA
*
35561566 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
35561582 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
35561598 TAGTTTTAAT
1 TAATTTTAAT
35561608 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:35561591 original size:22 final size:23
Alignment explanation
Indices: 35561581--35561642 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
35561571 TTACTAACAA
* * *
35561581 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
35561603 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
35561626 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
35561643 CAGGCTGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:35570278 original size:21 final size:21
Alignment explanation
Indices: 35570227--35570278 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35570217 TTTTTCCTAA
*
35570227 GATG-TAAATTGGATTGAATT
1 GATGTTAAATTGGATTAAATT
* *
35570247 GAATATT-AATTGTATTAAATT
1 G-ATGTTAAATTGGATTAAATT
35570268 GATGTTAAATT
1 GATGTTAAATT
35570279 TTCTCAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (21 bp):
GATGTTAAATTGGATTAAATT
Found at i:35570685 original size:25 final size:25
Alignment explanation
Indices: 35570594--35570771 Score: 79
Period size: 25 Copynumber: 7.2 Consensus size: 25
35570584 ACAAACCACA
* *
35570594 GCTCTTATGAGCGTCCTGATACT-TG
1 GCTCTCATGAGCTTCCTGATA-TATG
* * * *
35570619 GCTCTCACGAGCTTTCC-GTTATTTA
1 GCTCTCATGAGC-TTCCTGATATATG
* * *
35570644 GCTCTTATAAGCATCCTGATATATG
1 GCTCTCATGAGCTTCCTGATATATG
*
35570669 GCTCTCATGAGCTTCCTAAT-TAATG
1 GCTCTCATGAGCTTCCTGATAT-ATG
35570694 GCTCTC-TAGAGCTT-CTCG--ATATG
1 GCTCTCAT-GAGCTTCCT-GATATATG
* * * *
35570717 GCTCGT-TTGAACTTCCCGATATATA
1 GCTC-TCATGAGCTTCCTGATATATG
*
35570742 GCTATC-TAGAGCTTCCTGAT-TAATG
1 GCTCTCAT-GAGCTTCCTGATAT-ATG
35570767 GCTCT
1 GCTCT
35570772 TCGAAGCTAC
Statistics
Matches: 113, Mismatches: 25, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
23 13 0.12
24 15 0.13
25 82 0.73
26 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCTGATATATG
Found at i:35570698 original size:50 final size:50
Alignment explanation
Indices: 35570593--35570689 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
35570583 GACAAACCAC
* * *
35570593 AGCTCTTATGAGCGTCCTGATACTTGGCTCTCACGAGCTTTCCGTTATTT
1 AGCTCTTATAAGCATCCTGATACTTGGCTCTCACGAGCTTTCCGTAATTT
*
35570643 AGCTCTTATAAGCATCCTGATA-TATGGCTCTCATGAGC-TTCC-TAATT
1 AGCTCTTATAAGCATCCTGATACT-TGGCTCTCACGAGCTTTCCGTAATT
35570690 AATGGCTCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 4 0.10
49 5 0.12
50 33 0.79
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (50 bp):
AGCTCTTATAAGCATCCTGATACTTGGCTCTCACGAGCTTTCCGTAATTT
Found at i:35570983 original size:26 final size:25
Alignment explanation
Indices: 35570952--35571027 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 25
35570942 ACAGCTCTTA
35570952 TGAGCTCTCC-ATTATATGGCTCTTCG
1 TGAGCT-TCCGATTA-ATGGCTCTTCG
* *
35570978 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCTT-CCGATTAATGGCTCTTCG
35571004 TGAGCTTCCTGATTAATGGCTCTT
1 TGAGCTTCC-GATTAATGGCTCTT
35571028 TAGAGCTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 3 0.07
26 37 0.84
27 4 0.09
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
TGAGCTTCCGATTAATGGCTCTTCG
Found at i:35571028 original size:26 final size:26
Alignment explanation
Indices: 35570962--35571028 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
35570952 TGAGCTCTCC
*
35570962 ATTATATGGCTCTTCGTGAGCTTCCCG
1 ATTA-ATGGCTCTTTGTGAGCTTCCCG
* *
35570989 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAATGGCTCTTTGTGAGCTTCCCG
35571015 ATTAATGGCTCTTT
1 ATTAATGGCTCTTT
35571029 AGAGCTTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTAATGGCTCTTTGTGAGCTTCCCG
Found at i:35575111 original size:26 final size:26
Alignment explanation
Indices: 35575082--35575143 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
35575072 CCTATAAGTG
35575082 TTCTGAAA-TAGATACATGCTATGATA
1 TTCTGAAACT-GATACATGCTATGATA
* * *
35575108 TTCTAAAACTGATATATGTTATGATA
1 TTCTGAAACTGATACATGCTATGATA
35575134 TTCTGAAACT
1 TTCTGAAACT
35575144 ACTGTAGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (26 bp):
TTCTGAAACTGATACATGCTATGATA
Found at i:35575290 original size:6 final size:6
Alignment explanation
Indices: 35575279--35575305 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35575269 TAGTAAATAT
35575279 TGAAAC TGAAAC TGAAAC TGAAAC TGA
1 TGAAAC TGAAAC TGAAAC TGAAAC TGA
35575306 TGCATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAC
Found at i:35581836 original size:19 final size:19
Alignment explanation
Indices: 35581809--35581847 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35581799 TTATTCCAGC
*
35581809 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35581828 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
35581847 A
1 A
35581848 GTTATTTATT
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:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:35581837 original size:54 final size:54
Alignment explanation
Indices: 35581764--35581866 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
35581754 CAACTAAGTG
* *
35581764 AACTAAGTTAAACTTAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
1 AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
* * *
35581818 AACTAAGATGAACTCAATTAACTAAGATGAGTTATTTATTCCAGCAACT
1 AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACT
35581867 AAATACTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
AACTAAGATAAACTCAATTAACTAAGATAAGTAATTTATTCCAGCAACTTAATT
Found at i:35585599 original size:25 final size:25
Alignment explanation
Indices: 35585539--35585599 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
35585529 CTCCTAACTT
*
35585539 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
35585564 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
35585589 TTAATTAAATT
1 TTAATTAAATT
35585600 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:35603617 original size:31 final size:31
Alignment explanation
Indices: 35603576--35603634 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
35603566 ATTTAATGGA
* *
35603576 GAGTGGCCAAAATAGAAATGATCTAAAATGT
1 GAGTGACCAAAATAAAAATGATCTAAAATGT
*
35603607 GAGTGACCAAAATAAAAATGATTTAAAA
1 GAGTGACCAAAATAAAAATGATCTAAAA
35603635 CATTAATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (31 bp):
GAGTGACCAAAATAAAAATGATCTAAAATGT
Found at i:35604138 original size:39 final size:39
Alignment explanation
Indices: 35604095--35604171 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
35604085 AAAATTTAAA
* *
35604095 AAATTA-GAGAAAATA-AAAATTATTTAAAACTATTTTTTT
1 AAATTATGAAAAAATATAAAATTA-TCAAAA-TATTTTTTT
*
35604134 AAATTATTAAAAAATATAAAATTATCAAAATATTTTTT
1 AAATTATGAAAAAATATAAAATTATCAAAATATTTTTT
35604172 AATATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.42
40 12 0.36
41 7 0.21
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (39 bp):
AAATTATGAAAAAATATAAAATTATCAAAATATTTTTTT
Found at i:35608613 original size:26 final size:24
Alignment explanation
Indices: 35608559--35608614 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
35608549 TTAAATATTT
*
35608559 ATTTTACAATTTTTAATTTTTAATG
1 ATTTTACAATTTTTAATTTTCAA-G
35608584 ATTTTCACAATCTTTTAATTTGTCAA-
1 ATTTT-ACAAT-TTTTAATTT-TCAAG
35608610 ATTTT
1 ATTTT
35608615 TTGATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 9 0.33
28 3 0.11
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTTACAATTTTTAATTTTCAAG
Found at i:35608859 original size:18 final size:18
Alignment explanation
Indices: 35608792--35608859 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
35608782 TTTTTTCTAG
* *
35608792 GTTT-TATATATTTTAAA
1 GTTTATATATATTTTTAT
*
35608809 GTTTTTATATATTTATT-T
1 GTTTATATATATTT-TTAT
*
35608827 CATTTAT-TATAATTTTTAT
1 -GTTTATATAT-ATTTTTAT
35608846 GTTTATATATATTT
1 GTTTATATATATTT
35608860 GATAAAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
17 4 0.10
18 23 0.57
19 13 0.32
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
GTTTATATATATTTTTAT
Found at i:35612869 original size:18 final size:19
Alignment explanation
Indices: 35612846--35612888 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
35612836 TATTTTATAT
35612846 TGAAATGACAAATGAAA-A
1 TGAAATGACAAATGAAATA
**
35612864 TGAAATGTGAAATGAAATA
1 TGAAATGACAAATGAAATA
35612883 TGAAAT
1 TGAAAT
35612889 TGTGGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.19, T:0.23
Consensus pattern (19 bp):
TGAAATGACAAATGAAATA
Found at i:35612876 original size:12 final size:12
Alignment explanation
Indices: 35612846--35612888 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
35612836 TATTTTATAT
35612846 TGAAATGACAA-A
1 TGAAATGA-AATA
*
35612858 TGAAAATGAAATG
1 TG-AAATGAAATA
35612871 TGAAATGAAATA
1 TGAAATGAAATA
35612883 TGAAAT
1 TGAAAT
35612889 TGTGGAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 19 0.70
13 8 0.30
ACGTcount: A:0.56, C:0.02, G:0.19, T:0.23
Consensus pattern (12 bp):
TGAAATGAAATA
Found at i:35620554 original size:13 final size:13
Alignment explanation
Indices: 35620536--35620568 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
35620526 GGTTATGTCA
35620536 TGAATTTGAGTTT
1 TGAATTTGAGTTT
35620549 TGAATTTGAGTTT
1 TGAATTTGAGTTT
35620562 TGAATTT
1 TGAATTT
35620569 TGCTCTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (13 bp):
TGAATTTGAGTTT
Found at i:35625476 original size:21 final size:21
Alignment explanation
Indices: 35625403--35625494 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 21
35625393 ACATAAGTAC
* *
35625403 TAAACAGAAACCCGTAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * * * *
35625424 TGAACGGAAGCTCATAAGAGC
1 TAAACAGAAACCCATAAGAGT
** * *
35625445 TGTACAAAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGAGT
* *
35625466 TAAACAGAAACTCATATGAGT
1 TAAACAGAAACCCATAAGAGT
35625487 T-AACAGAA
1 TAAACAGAA
35625495 GCTTGTGAGA
Statistics
Matches: 51, Mismatches: 20, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
20 7 0.14
21 44 0.86
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGAGT
Found at i:35625601 original size:24 final size:24
Alignment explanation
Indices: 35625566--35625637 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
35625556 TACTTGGGTA
35625566 ATTTTCCATCAATTCATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
*
35625590 ATTTTCCGTCAATTCATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
* *
35625614 ATTTACCATCAATTTATCCTTTGC
1 ATTTTCCATCAATTCATCCTTTGC
35625638 CACAGAACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.06, T:0.46
Consensus pattern (24 bp):
ATTTTCCATCAATTCATCCTTTGC
Found at i:35627662 original size:18 final size:18
Alignment explanation
Indices: 35627621--35627655 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
35627611 AATTTGATGT
35627621 TGTCATAGAAGGGAAAAA
1 TGTCATAGAAGGGAAAAA
35627639 TGTCATAGAAGGGAAAA
1 TGTCATAGAAGGGAAAA
35627656 TGTTCATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (18 bp):
TGTCATAGAAGGGAAAAA
Found at i:35638237 original size:18 final size:17
Alignment explanation
Indices: 35638209--35638242 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35638199 GAACGAGGGA
*
35638209 AAAAGAAAAAGGGAAAG
1 AAAAGAAAAAGAGAAAG
35638226 AAAAGAAGAAAGAGAAA
1 AAAAGAA-AAAGAGAAA
35638243 AGTAGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAGAAAG
Found at i:35638908 original size:36 final size:36
Alignment explanation
Indices: 35638859--35638938 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
35638849 AATATTGACC
* *
35638859 TGAAAATGGAAAAGTAAATTTGAATTGAATTGTGAT
1 TGAAAATGAAAAAGTAAATTTGAATTGAAATGTGAT
* *
35638895 TGAAAGTGAAAAAGTGAATTTGAATTGAAATGTGAATT
1 TGAAAATGAAAAAGTAAATTTGAATTGAAATGTG-A-T
35638933 TGAAAA
1 TGAAAA
35638939 GTATGTGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 30 0.81
37 1 0.03
38 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (36 bp):
TGAAAATGAAAAAGTAAATTTGAATTGAAATGTGAT
Found at i:35638929 original size:18 final size:18
Alignment explanation
Indices: 35638875--35638936 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
35638865 TGGAAAAGTA
*
35638875 AATTTGAATTGAATTGTG
1 AATTTGAATTGAAATGTG
* *
35638893 -A-TTGAAAGTGAAAAAGTG
1 AATTTG-AATTG-AAATGTG
35638911 AATTTGAATTGAAATGTG
1 AATTTGAATTGAAATGTG
35638929 AATTTGAA
1 AATTTGAA
35638937 AAGTATGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 19 0.54
19 5 0.14
20 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (18 bp):
AATTTGAATTGAAATGTG
Found at i:35639169 original size:21 final size:21
Alignment explanation
Indices: 35639119--35639194 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
35639109 GGCCTTACTG
*
35639119 ATCAGGCACTTTATGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
35639140 AACTCAGGCACTTTATGTGTCGT
1 -A-TCAGGCACTTTATGTGTCGT
* **
35639163 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
35639184 ATCAGACACTT
1 ATCAGGCACTT
35639195 CGTGTGTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 26 0.55
22 2 0.04
23 19 0.40
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:35639197 original size:21 final size:21
Alignment explanation
Indices: 35639155--35639202 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
35639145 AGGCACTTTA
*
35639155 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGACACCTCG
*
35639176 TGTGTCGTATCAGACACTTCG
1 TGTGTCGTATCAGACACCTCG
35639197 TGTGTC
1 TGTGTC
35639203 ATATACTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.33
Consensus pattern (21 bp):
TGTGTCGTATCAGACACCTCG
Found at i:35644270 original size:16 final size:16
Alignment explanation
Indices: 35644248--35644287 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
35644238 TTAATAATAA
35644248 TACTTACCTTA-TATT
1 TACTTACCTTATTATT
35644263 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
35644280 TACTTACC
1 TACTTACC
35644288 ATACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:35644706 original size:40 final size:40
Alignment explanation
Indices: 35644645--35644762 Score: 148
Period size: 40 Copynumber: 3.0 Consensus size: 40
35644635 GCGTTTGGAA
* * *
35644645 CAAAAGCGCCACCAAAAATCGAGCATTAGCGGCGTTTTTG
1 CAAAAGCGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTC
* *
35644685 CAAAAGCGCCGCTAAAGATCGAGCATTAGCGGCGTATTTC
1 CAAAAGCGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTC
* * * *
35644725 CAAAATCGCCGCTAAAAATAG-GAATCAGCGGCGTTTTT
1 CAAAAGCGCCGCTAAAAATCGAGCATTAGCGGCGTTTTT
35644763 TATAAAGCGT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 14 0.21
40 53 0.79
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (40 bp):
CAAAAGCGCCGCTAAAAATCGAGCATTAGCGGCGTTTTTC
Found at i:35644885 original size:41 final size:41
Alignment explanation
Indices: 35644810--35645006 Score: 113
Period size: 41 Copynumber: 4.8 Consensus size: 41
35644800 GTTTTTCGAG
* * *
35644810 CCTTTAGCGGCGTTTTTGCAG--ATGCGACGTTAATGATCGGA
1 CCTTTAGCGGCGTTTTT--AGTTAAGCGCCGCTAATGATCGGA
* *
35644851 CCTTTAGCGGCGTTTTTAGTTAAGCGCCGCTAATGCTCGGG
1 CCTTTAGCGGCGTTTTTAGTTAAGCGCCGCTAATGATCGGA
* * * * * * *
35644892 CCTTTAGTGGCGTTTCT-GTCTATGCGCTGCTACTGCTTGG-
1 CCTTTAGCGGCGTTTTTAGT-TAAGCGCCGCTAATGATCGGA
* * * * *
35644932 GCTTTAGTGGCGCTTTT-GTCTAAGCGCCACTAATGAAT-GTA
1 CCTTTAGCGGCGTTTTTAGT-TAAGCGCCGCTAATG-ATCGGA
*
35644973 GCTTTAGCGGCGTTTTTGACG--AAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTT-A-GTTAAGCGCCGCTAAT
35645007 AGTAACAAAA
Statistics
Matches: 125, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
39 2 0.02
40 31 0.25
41 91 0.73
44 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTAGTTAAGCGCCGCTAATGATCGGA
Found at i:35644939 original size:40 final size:40
Alignment explanation
Indices: 35644840--35644966 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 40
35644830 GATGCGACGT
* * *
35644840 TAATGATCGGACCTTTAGCGGCGTTTTTAGT-TAAGCGCCGC
1 TAATGCTCGGGCCTTTAGTGGCG-TTTT-GTCTAAGCGCCGC
* *
35644881 TAATGCTCGGGCCTTTAGTGGCGTTTCTGTCTATGCGCTGC
1 TAATGCTCGGGCCTTTAGTGGCGTTT-TGTCTAAGCGCCGC
* * *
35644922 TACTGCTTGGG-CTTTAGTGGCGCTTTTGTCTAAGCGCCAC
1 TAATGCTCGGGCCTTTAGTGGCG-TTTTGTCTAAGCGCCGC
35644962 TAATG
1 TAATG
35644967 AATGTAGCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 31 0.43
41 41 0.57
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.35
Consensus pattern (40 bp):
TAATGCTCGGGCCTTTAGTGGCGTTTTGTCTAAGCGCCGC
Found at i:35645417 original size:20 final size:20
Alignment explanation
Indices: 35645386--35645432 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
35645376 CAAAATATAT
35645386 TTTAAGTACTATTAATTATTG
1 TTTAA-TACTATTAATTATTG
35645407 TTTAATACTATTAATTATTG
1 TTTAATACTATTAATTATTG
35645427 TTTAAT
1 TTTAAT
35645433 CGATTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTAATACTATTAATTATTG
Found at i:35645752 original size:27 final size:26
Alignment explanation
Indices: 35645714--35645764 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
35645704 AATAAACAAA
* *
35645714 TAAATAAGTAGGTAATTATTTATTTGT
1 TAAATAAATAGGT-ATTAATTATTTGT
35645741 TAAATAAATAGGTATTAATTATTT
1 TAAATAAATAGGTATTAATTATTT
35645765 AAATGTAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (26 bp):
TAAATAAATAGGTATTAATTATTTGT
Done.