Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 27 of 66
Found at i:9062382 original size:42 final size:43
Alignment explanation
Indices: 9062314--9062396 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
9062304 ACACGTGCAC
* *
9062314 ATAAGCCAATGATGACCCGGCTATGTG-TAAGT-GGGAGTGCGT
1 ATAAGCCAATGATGACCCAGCCATGTGCT-AGTGGGGAGTGCGT
* *
9062356 ATAAGCCGATGATGATCCAGCCATGTGCTAGTGGGGAGTGC
1 ATAAGCCAATGATGACCCAGCCATGTGCTAGTGGGGAGTGC
9062397 ACATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (43 bp):
ATAAGCCAATGATGACCCAGCCATGTGCTAGTGGGGAGTGCGT
Found at i:9062967 original size:19 final size:19
Alignment explanation
Indices: 9062931--9062967 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9062921 AGGTTTGGTG
*
9062931 AGAAACCCTTGGCCAGTTA
1 AGAAACCCTCGGCCAGTTA
*
9062950 AGAAACCCTCGGCTAGTT
1 AGAAACCCTCGGCCAGTT
9062968 GATAATTTAA
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:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
AGAAACCCTCGGCCAGTTA
Found at i:9064944 original size:42 final size:42
Alignment explanation
Indices: 9064885--9065017 Score: 187
Period size: 42 Copynumber: 3.2 Consensus size: 42
9064875 TTGACTCAGT
*
9064885 TATGTGCGAGTAGGAGTGTGAATAAGCAGATGCTGACCTAGC
1 TATGTGCGAGTAGGAGTGTGAATAAGCCGATGCTGACCTAGC
** *
9064927 TATGTGCGAGGGGGAGTGT-ACATAAGCCGATGCTGACCCAGC
1 TATGTGCGAGTAGGAGTGTGA-ATAAGCCGATGCTGACCTAGC
* *
9064969 TATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCTAGC
1 TATGTGCGAGTAGGAGTGTGAATAAGCCGATGCTGACCTAGC
*
9065011 CATGTGC
1 TATGTGC
9065018 TAGCGGGAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 78 0.99
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.22
Consensus pattern (42 bp):
TATGTGCGAGTAGGAGTGTGAATAAGCCGATGCTGACCTAGC
Found at i:9081308 original size:41 final size:41
Alignment explanation
Indices: 9081258--9081336 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
9081248 TGATTTTTTT
* *
9081258 GTAAAGTGGATTGAGTATGTCTCAACTTCCCATGATTTGTG
1 GTAAAGTGGATTGAGTAAGTATCAACTTCCCATGATTTGTG
* *
9081299 GTAAAGTGGATTGAGTAAGTATCCACTTCCTATGATTT
1 GTAAAGTGGATTGAGTAAGTATCAACTTCCCATGATTT
9081337 TATTTGGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (41 bp):
GTAAAGTGGATTGAGTAAGTATCAACTTCCCATGATTTGTG
Found at i:9089530 original size:2 final size:2
Alignment explanation
Indices: 9089514--9089547 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9089504 AGAACTTATG
*
9089514 TA TA TG TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9089548 GTATCCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9091685 original size:20 final size:20
Alignment explanation
Indices: 9091660--9091711 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
9091650 AGAAGAAGAA
9091660 GAAGAAGTTGCTGGAAATTT
1 GAAGAAGTTGCTGGAAATTT
9091680 GAAGAAGTTGCTGGAAATTT
1 GAAGAAGTTGCTGGAAATTT
*
9091700 GAAGAACTTGCT
1 GAAGAAGTTGCT
9091712 AAAAGCTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (20 bp):
GAAGAAGTTGCTGGAAATTT
Found at i:9099316 original size:36 final size:35
Alignment explanation
Indices: 9099267--9099414 Score: 152
Period size: 36 Copynumber: 4.1 Consensus size: 35
9099257 GCAACTTAGC
* * *
9099267 TCATGTGCACTCCCACACTGCGCATAGCTAATACCA
1 TCATGTGCACTCCCACACTGCACAT-GCAAATATCA
* * * *
9099303 TTATGTGCACTCCCACACCGTACATGACAAATATTA
1 TCATGTGCACTCCCACACTGCACATG-CAAATATCA
*
9099339 TCATGTGAACTCCCACACTGCACATGGCAAATATCA
1 TCATGTGCACTCCCACACTGCACAT-GCAAATATCA
** * *
9099375 TCATGTGCACTCCTGCACCGTACATGGCAAATATCA
1 TCATGTGCACTCCCACACTGCACAT-GCAAATATCA
9099411 TCAT
1 TCAT
9099415 CGTGTGAACT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
35 1 0.01
36 91 0.98
37 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (35 bp):
TCATGTGCACTCCCACACTGCACATGCAAATATCA
Found at i:9099384 original size:72 final size:74
Alignment explanation
Indices: 9099267--9099431 Score: 217
Period size: 72 Copynumber: 2.2 Consensus size: 74
9099257 GCAACTTAGC
* * * *
9099267 TCATGTGCACTCCCACACTGCGCATAGCTAATACCATTATGTGCACTCCCACACCGTACATGACA
1 TCATGTGAACTCCCACACTGCACATAGCAAATACCATCATGTGCACTCCCACACCGTACATGACA
9099332 AATAT-T-A
66 AATATATCA
* * ** *
9099339 TCATGTGAACTCCCACACTGCACATGGCAAATATCATCATGTGCACTCCTGCACCGTACATGGCA
1 TCATGTGAACTCCCACACTGCACATAGCAAATACCATCATGTGCACTCCCACACCGTACATGACA
9099404 AATATCATCA
66 AATAT-ATCA
*
9099414 TCGTGTGAACTCCCACAC
1 TCATGTGAACTCCCACAC
9099432 CGTACCCACC
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
72 61 0.76
74 1 0.01
75 18 0.22
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (74 bp):
TCATGTGAACTCCCACACTGCACATAGCAAATACCATCATGTGCACTCCCACACCGTACATGACA
AATATATCA
Found at i:9099426 original size:39 final size:38
Alignment explanation
Indices: 9099306--9099436 Score: 153
Period size: 36 Copynumber: 3.5 Consensus size: 38
9099296 AATACCATTA
* * *
9099306 TGTGCACTCCCACACCGTACATGACAAATATTATCA--
1 TGTGAACTCCCACACCGTACATGGCAAATATCATCATC
* *
9099342 TGTGAACTCCCACACTGCACATGGCAAATATCATCA--
1 TGTGAACTCCCACACCGTACATGGCAAATATCATCATC
* **
9099378 TGTGCACTCCTGCACCGTACATGGCAAATATCATCATC
1 TGTGAACTCCCACACCGTACATGGCAAATATCATCATC
9099416 GTGTGAACTCCCACACCGTAC
1 -TGTGAACTCCCACACCGTAC
9099437 CCACCATCAC
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
36 62 0.78
39 17 0.22
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.24
Consensus pattern (38 bp):
TGTGAACTCCCACACCGTACATGGCAAATATCATCATC
Found at i:9100889 original size:2 final size:2
Alignment explanation
Indices: 9100884--9100987 Score: 91
Period size: 2 Copynumber: 48.0 Consensus size: 2
9100874 CCATATATGA
9100884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
9100927 ACT ACT AGT ACT ACT AC CT CCT AC CT NAT AT AT AT AT AT AT AT AT
1 A-T A-T A-T A-T A-T AT AT -AT AT AT -AT AT AT AT AT AT AT AT AT
9100972 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
9100988 CAATCATCAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
2 71 0.80
3 18 0.20
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9101074 original size:42 final size:42
Alignment explanation
Indices: 9101028--9101152 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
9101018 CATTTCATAT
*
9101028 GCAACGGCTTATGCGCACTCCCACTCGCACATAGCTGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
* * *
9101070 GCAACGGCTTATGTGCACTCTCACTCACACATAG-TCGGGTTA
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCT-GGGTCA
* * *
9101112 GCAATGGCTTATGTGTACTCCTACTCGCACATAGCTGGGTC
1 GCAACGGCTTATGTGCACTCCCACTCGCACATAGCTGGGTC
9101153 CACATCAACA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 69 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTCGCACATAGCTGGGTCA
Found at i:9103023 original size:13 final size:14
Alignment explanation
Indices: 9102995--9103027 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9102985 GTGTATAATG
*
9102995 GAAAATGAAGAAAA
1 GAAAAAGAAGAAAA
9103009 GAAAAAGAA-AAAA
1 GAAAAAGAAGAAAA
9103022 GAAAAA
1 GAAAAA
9103028 CTTTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
GAAAAAGAAGAAAA
Found at i:9105992 original size:15 final size:15
Alignment explanation
Indices: 9105972--9106002 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9105962 GGGTTCTTTG
*
9105972 ACAATCTTTCAGTGT
1 ACAATCTATCAGTGT
9105987 ACAATCTATCAGTGT
1 ACAATCTATCAGTGT
9106002 A
1 A
9106003 ATTCATTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
ACAATCTATCAGTGT
Found at i:9134276 original size:22 final size:22
Alignment explanation
Indices: 9134250--9134292 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9134240 AGTAGAATTG
*
9134250 GTGCAGGAACTAGAGAATAAAA
1 GTGCAAGAACTAGAGAATAAAA
9134272 GTGCAAGAACTAGAGAATAAA
1 GTGCAAGAACTAGAGAATAAA
9134293 CTTAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.26, T:0.14
Consensus pattern (22 bp):
GTGCAAGAACTAGAGAATAAAA
Found at i:9137598 original size:42 final size:42
Alignment explanation
Indices: 9137550--9137713 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 42
9137540 GTGGACCTGG
* * * *
9137550 CTATGTGGGAGTAGGAGTGCACATAGGCCGATGATGACCTAGA
1 CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCCA-A
*
9137593 -TATGTGCGAGTAGGAGTGTGCATAAGCCGATGATGACCCAA
1 CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCCAA
* *
9137634 CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCTGACCCAG
1 CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCCAA
* * * * * *
9137676 CCATGTGCTAGTGGGGAGTGCACATGAGCTGATGATGA
1 CTATGTGCGAGT-AGGAGTGCGCATAAGCCGATGATGA
9137714 TGGGAGATTG
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 83 0.80
43 20 0.19
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.21
Consensus pattern (42 bp):
CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGATGACCCAA
Found at i:9137744 original size:2 final size:2
Alignment explanation
Indices: 9137737--9137767 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9137727 ATGATGATGG
*
9137737 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9137768 GATAAGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9140086 original size:22 final size:22
Alignment explanation
Indices: 9140011--9140087 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
9140001 TATCCTTGGA
*
9140011 ATTCTAATAAACTTGTGAAACT
1 ATTCCAATAAACTTGTGAAACT
* * *
9140033 ATTCTAGAATAAA-TTGTCACAAGTT
1 ATTC--CAATAAACTTGTGA-AA-CT
9140058 AATTCCAATAAACTTGTGAAACT
1 -ATTCCAATAAACTTGTGAAACT
9140081 ATTCCAA
1 ATTCCAA
9140088 AATAAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
22 11 0.26
23 6 0.14
24 16 0.37
25 6 0.14
26 4 0.09
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (22 bp):
ATTCCAATAAACTTGTGAAACT
Found at i:9147937 original size:11 final size:11
Alignment explanation
Indices: 9147921--9147945 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9147911 CATGACAAAG
9147921 TGTCTACCCAT
1 TGTCTACCCAT
9147932 TGTCTACCCAT
1 TGTCTACCCAT
9147943 TGT
1 TGT
9147946 GAGTTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (11 bp):
TGTCTACCCAT
Found at i:9149575 original size:35 final size:36
Alignment explanation
Indices: 9149497--9149592 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
9149487 TCTCATCAAC
** * *
9149497 TCATGTGCACTTGCTCACCGCACATAGTTAGAATCA
1 TCATGTGCACTCCCACACCGCACATAGGTAGAATCA
*
9149533 TCTTGTGCACTCCCACACCGCACA-AGGTA-ATATCA
1 TCATGTGCACTCCCACACCGCACATAGGTAGA-ATCA
*
9149568 TCATGTGCACTCCCACACCACACAT
1 TCATGTGCACTCCCACACCGCACAT
9149593 GGCTTATATG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
34 1 0.02
35 30 0.59
36 20 0.39
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATAGGTAGAATCA
Found at i:9152422 original size:73 final size:73
Alignment explanation
Indices: 9152326--9152462 Score: 211
Period size: 73 Copynumber: 1.9 Consensus size: 73
9152316 TGGGTTGTGA
* * *
9152326 CATATATCATCAGTGTGTGCACTCACACAGAACACCACTATCACCGTCATGTGCAGTCCCACACC
1 CATATATCATCAATATGTGCACTCACACAGAACACCACTATCACCGTCATGTGCACTCCCACACC
9152391 TTACATGG
66 TTACATGG
* * * *
9152399 CATATATCATGAATATGTGCACTCACACAGCACCCCACTATCACCGTCATGTGCACTCCTACAC
1 CATATATCATCAATATGTGCACTCACACAGAACACCACTATCACCGTCATGTGCACTCCCACAC
9152463 TGCACACGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 57 1.00
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.23
Consensus pattern (73 bp):
CATATATCATCAATATGTGCACTCACACAGAACACCACTATCACCGTCATGTGCACTCCCACACC
TTACATGG
Found at i:9154876 original size:24 final size:24
Alignment explanation
Indices: 9154849--9154923 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
9154839 AAAATAAATA
9154849 AAATAATTACATCATGCATTTTAT
1 AAATAATTACATCATGCATTTTAT
* *** *
9154873 AAAT-TTTACAT-A-GCAAATAAGAA
1 AAATAATTACATCATGC--ATTTTAT
9154896 AAATAATTACATCATGCATTTTAT
1 AAATAATTACATCATGCATTTTAT
9154920 AAAT
1 AAAT
9154924 TTTACCTAAC
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 2 0.06
22 1 0.03
23 13 0.36
24 17 0.47
25 1 0.03
26 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (24 bp):
AAATAATTACATCATGCATTTTAT
Found at i:9154882 original size:23 final size:23
Alignment explanation
Indices: 9154855--9154928 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
9154845 AATAAAATAA
9154855 TTACATCATGCATTTTATAAATT
1 TTACATCATGCATTTTATAAATT
*** * *
9154878 TTACAT-A-GCAAATAAGAAAAATAA
1 TTACATCATGC--ATTTTATAAAT-T
9154902 TTACATCATGCATTTTATAAATT
1 TTACATCATGCATTTTATAAATT
9154925 TTAC
1 TTAC
9154929 CTAACAAATA
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 2 0.06
22 1 0.03
23 17 0.47
24 13 0.36
25 1 0.03
26 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.39
Consensus pattern (23 bp):
TTACATCATGCATTTTATAAATT
Found at i:9154891 original size:47 final size:47
Alignment explanation
Indices: 9154827--9154995 Score: 216
Period size: 47 Copynumber: 3.6 Consensus size: 47
9154817 TTTTGCATAC
* *
9154827 AATTTTACTTAAAAAATAAATAAAATAATTACATCATGCATTTTATA
1 AATTTTACATAACAAATAAATAAAATAATTACATCATGCATTTTATA
*
9154874 AATTTTACATAGCAAATAAGA-AAAATAATTACATCATGCATTTTATA
1 AATTTTACATAACAAATAA-ATAAAATAATTACATCATGCATTTTATA
* *
9154921 AATTTTACCTAACAAATAAGTAAAATAA-TACATCATGCATTTTTATA
1 AATTTTACATAACAAATAAATAAAATAATTACATCATGCA-TTTTATA
* * * **
9154968 AATTGTACCTAATAAATAAGCAAAATAA
1 AATTTTACATAACAAATAAATAAAATAA
9154996 CTATAAAATA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
46 11 0.10
47 98 0.89
48 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (47 bp):
AATTTTACATAACAAATAAATAAAATAATTACATCATGCATTTTATA
Found at i:9156194 original size:15 final size:15
Alignment explanation
Indices: 9156174--9156202 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9156164 AATAATATCC
9156174 AATATTAGTTAATTG
1 AATATTAGTTAATTG
9156189 AATATTAGTTAATT
1 AATATTAGTTAATT
9156203 ATCCACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
AATATTAGTTAATTG
Found at i:9161202 original size:62 final size:61
Alignment explanation
Indices: 9161094--9161460 Score: 445
Period size: 60 Copynumber: 6.0 Consensus size: 61
9161084 AAACATCATC
* * * *
9161094 ACCTACTCGTGGGAAACTACCCAC-ACAACCATATATAAGTCGGGGCTTCAGGTCCCCTTTTTT
1 ACCTACTCGTGGG-AACTACCCACGTC-ACCAAATATAAATCGGGGCTTCAGGTCCCC-TCTTT
* * * * * * * * *
9161157 GCCTACCCGTGGGATCTACTCACGCCACCATATATAAATCAGGGCTTCAAGTCCCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGT-CCCCTCTTT
* * * *
9161219 GCCTACTCGTGGGATCTACCCACGTCACCAAATATAAATTGGGGCTTCAAGT-CCCTCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCTCTTT
* *
9161279 ACCTACTCATGGGAACTACCCATGTCACCAAATATAAATCGGGGCTTCAGGT-CCCTCTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCTCTTT
* *
9161339 ACCTATTTGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCC-CTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCTCTTT
* * * *
9161399 ACCTACTCGTGAGAACTACCCATGTCACCAAATATAAATCGAGGCTTCAGGTCCCCTTTTT
1 ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCTCTTT
9161460 A
1 A
9161461 AAATCAAATA
Statistics
Matches: 269, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
60 164 0.61
61 7 0.03
62 82 0.30
63 16 0.06
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (61 bp):
ACCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCTCTTT
Found at i:9162052 original size:18 final size:17
Alignment explanation
Indices: 9161998--9162052 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 17
9161988 AATGCTGCTA
9161998 TTTCTCTCCTTCTTCTTT
1 TTTCT-TCCTTCTTCTTT
* *
9162016 TTT-TT-CTTTTTCTTC
1 TTTCTTCCTTCTTCTTT
9162031 TTTCTTCCTTCTTCCTTT
1 TTTCTTCCTTCTT-CTTT
9162049 TTTC
1 TTTC
9162053 CTCTGTCGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 11 0.37
16 3 0.10
17 6 0.20
18 10 0.33
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTCCTTCTTCTTT
Found at i:9162072 original size:69 final size:69
Alignment explanation
Indices: 9161999--9162198 Score: 244
Period size: 69 Copynumber: 2.9 Consensus size: 69
9161989 ATGCTGCTAT
* * * *
9161999 TTCTCTCCTTCTTCTTTTTTTTCTTTTTCTTCTTTCTTCCTTCTTCCTT-TTTTCCTCTGTCGTT
1 TTCTCTCCTTCTTCTTCTTTTTCTTTCTCTTCTTTCTTCCCTC-TCCTTCTTCTCCTCTGTCGTT
9162063 GCTCC
65 GCTCC
* * * *
9162068 TTCTCTCATTCTTATTCTGTTTCTTTCTCTTCTTTTTTCCCTCTCCTTCTTCTCCTCTGTCGTTG
1 TTCTCTCCTTCTTCTTCTTTTTCTTTCTCTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGTCGTTG
9162133 CTTCC
66 C-TCC
* ** * *
9162138 TT-TCTCTTTCTTCTTCACTTTCTTTCTCTTCTTGCTTCCCTCTCATTCTTCTCCT-TGTCGT
1 TTCTCTCCTTCTTCTTCTTTTTCTTTCTCTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGTCGT
9162199 CGTGCTCCCT
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
68 11 0.10
69 98 0.86
70 5 0.04
ACGTcount: A:0.02, C:0.34, G:0.05, T:0.59
Consensus pattern (69 bp):
TTCTCTCCTTCTTCTTCTTTTTCTTTCTCTTCTTTCTTCCCTCTCCTTCTTCTCCTCTGTCGTTG
CTCC
Found at i:9162160 original size:18 final size:17
Alignment explanation
Indices: 9162133--9162170 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9162123 TCTGTCGTTG
9162133 CTTCCTTTCTCTT-TCTT
1 CTTCCTTTCT-TTCTCTT
9162150 CTTCACTTTCTTTCTCTT
1 CTTC-CTTTCTTTCTCTT
9162168 CTT
1 CTT
9162171 GCTTCCCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTCCTTTCTTTCTCTT
Found at i:9162186 original size:22 final size:22
Alignment explanation
Indices: 9162139--9162186 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9162129 GTTGCTTCCT
* *
9162139 TTCTCTTTCTTCTTCACTTTCT
1 TTCTCTTTCTTCTTCACTCTCA
*
9162161 TTCTC-TTCTTGCTTCCCTCTCA
1 TTCTCTTTCTT-CTTCACTCTCA
9162183 TTCT
1 TTCT
9162187 TCTCCTTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.04, C:0.35, G:0.02, T:0.58
Consensus pattern (22 bp):
TTCTCTTTCTTCTTCACTCTCA
Found at i:9165114 original size:62 final size:62
Alignment explanation
Indices: 9165011--9165272 Score: 285
Period size: 62 Copynumber: 4.2 Consensus size: 62
9165001 TTTTCTCCGT
* * ** * * *
9165011 AGCCAAATTGATTTTCGTCATGGTGAGAAACTTTTTGCCTTAGGAGTTACTGTTCTCGTCGC
1 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGACAC
* * * * *
9165073 AGCCAAATTGATTTTTGCCGCAATGAGAAACTTTCTACCTTAGGAGTTACTGTTCTCGCCAT
1 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGACAC
** * ** * * *
9165135 AGCCAAATTGATTTTCACTATGGTGACAAACTTTCTGCCTTAGGAGTTACTGTTTTC-ACTTC
1 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGAC-AC
* *
9165197 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTGGGAGTCACTGTTCTC-ACTAC
1 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGAC-AC
9165259 AGCCAAATTTGATT
1 AGCCAAA-TTGATT
9165273 CTCACCGTAA
Statistics
Matches: 164, Mismatches: 34, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
61 1 0.01
62 157 0.96
63 6 0.04
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (62 bp):
AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTAGGAGTTACTGTTCTCGACAC
Found at i:9165230 original size:124 final size:125
Alignment explanation
Indices: 9165010--9165277 Score: 362
Period size: 124 Copynumber: 2.2 Consensus size: 125
9165000 ATTTTCTCCG
* * * *
9165010 TAGCCAAATTGATTTTC-GTCATGGTGAGAAACTTTTTGCCTTAGGAGTTACTGTTCTCGTCGCA
1 TAGCCAAATTGATTTTCACTCATGGTGACAAACTTTCTGCCTTAGGAGTTACTGTTCTCCTCGCA
* * *
9165074 GCCAAATTGATTTTTGCCGCAATGAGAAACTTTCTACCTTAGGAGTTACTGTTCTCGCCA
66 GCCAAATTGATTTTTGCCACAATGAGAAACTTTCTACCTTAGGAGTCACTGTTCTCACCA
* *
9165134 TAGCCAAATTGATTTTCACT-ATGGTGACAAACTTTCTGCCTTAGGAGTTACTGTTTTCACT-TC
1 TAGCCAAATTGATTTTCACTCATGGTGACAAACTTTCTGCCTTAGGAGTTACTGTTCTC-CTCGC
* * * *
9165197 AGCCAAATTGATTTTTGCCACAGTGAGAAACTTTCTGCCTTGGGAGTCACTGTTCTCACTA
65 AGCCAAATTGATTTTTGCCACAATGAGAAACTTTCTACCTTAGGAGTCACTGTTCTCACCA
* *
9165258 CAGCCAAATTTGATTCTCAC
1 TAGCCAAA-TTGATTTTCAC
9165278 CGTAACGAGA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
124 114 0.90
125 12 0.10
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (125 bp):
TAGCCAAATTGATTTTCACTCATGGTGACAAACTTTCTGCCTTAGGAGTTACTGTTCTCCTCGCA
GCCAAATTGATTTTTGCCACAATGAGAAACTTTCTACCTTAGGAGTCACTGTTCTCACCA
Found at i:9167335 original size:43 final size:43
Alignment explanation
Indices: 9167286--9167394 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
9167276 TAGCTCATGT
* **
9167286 GCACTCCCTACTCGCACATGGCTGGCTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACATGGCCGGCTCATC-CTCGACTTATGC
* * ** * *
9167329 GTACTCCCTACTCACACATAACCGGGTCATCCTTGACTTATGC
1 GCACTCCCTACTCGCACATGGCCGGCTCATCCTCGACTTATGC
9167372 GCACTCCCTACTCGCACATGGCC
1 GCACTCCCTACTCGCACATGGCC
9167395 AAGCCAATAT
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.19, C:0.39, G:0.18, T:0.24
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATGGCCGGCTCATCCTCGACTTATGC
Found at i:9170536 original size:24 final size:25
Alignment explanation
Indices: 9170504--9170561 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
9170494 GTGGTCGCAA
* *
9170504 CCACCTATATCA-CTTGTGGCCTAG
1 CCACGTATATCATCCTGTGGCCTAG
*
9170528 CCACGTATATCATCCTGTGGCCTTG
1 CCACGTATATCATCCTGTGGCCTAG
9170553 CCACGTATA
1 CCACGTATA
9170562 CATATCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (25 bp):
CCACGTATATCATCCTGTGGCCTAG
Found at i:9171882 original size:15 final size:15
Alignment explanation
Indices: 9171854--9171920 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
9171844 CTCCTCCAAG
*
9171854 CCTTTTTCTTCTTTCT
1 CCTTTTT-TCCTTTCT
9171870 CCTTTTTTCCTTTCT
1 CCTTTTTTCCTTTCT
* *
9171885 CTCTTTCTT-CTTCCT
1 C-CTTTTTTCCTTTCT
* *
9171900 CCTGTCTTCCTTTCT
1 CCTTTTTTCCTTTCT
9171915 -CTTTTT
1 CCTTTTT
9171921 ACTTTCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.24
15 19 0.45
16 13 0.31
ACGTcount: A:0.00, C:0.34, G:0.01, T:0.64
Consensus pattern (15 bp):
CCTTTTTTCCTTTCT
Found at i:9171894 original size:30 final size:30
Alignment explanation
Indices: 9171858--9171916 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
9171848 TCCAAGCCTT
* * *
9171858 TTTCTTCTTTCTCCTTTTTTCCTTTCTCTC
1 TTTCTTCTTCCTCCTGTCTTCCTTTCTCTC
9171888 TTTCTTCTTCCTCCTGTCTTCCTTTCTCT
1 TTTCTTCTTCCTCCTGTCTTCCTTTCTCT
9171917 TTTTACTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTCTTCTTCCTCCTGTCTTCCTTTCTCTC
Found at i:9175251 original size:42 final size:42
Alignment explanation
Indices: 9175155--9175270 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
9175145 AGCTCATGTG
* * * *
9175155 CACTCCCTACTCGCACATG-GCTGGGTCAGCA-CGGCTTATGCG
1 CACT-CCTACTCGCACA-GAGCCGGGTCATCATCGGCGTATGCA
* *
9175197 CACTTCTACTCGCATAGAGCCGGGTCATCATCGGCGTATGCA
1 CACTCCTACTCGCACAGAGCCGGGTCATCATCGGCGTATGCA
* * *
9175239 CACTCCTGCTCGCACATAGCCGAGTCATCATC
1 CACTCCTACTCGCACAGAGCCGGGTCATCATC
9175271 ATTACACAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 20 0.33
42 40 0.66
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.22
Consensus pattern (42 bp):
CACTCCTACTCGCACAGAGCCGGGTCATCATCGGCGTATGCA
Found at i:9182366 original size:42 final size:42
Alignment explanation
Indices: 9182320--9182399 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
9182310 CAGCACGGCT
* *
9182320 TATGCGCACTCTTACTTGCACATAGCCGGGTCATCATCGACA
1 TATGCACACTCTTACTCGCACATAGCCGGGTCATCATCGACA
9182362 TATGCACACTCTTACTCGCACATAGCCGGGTCATCATC
1 TATGCACACTCTTACTCGCACATAGCCGGGTCATCATC
9182400 ATTACACAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (42 bp):
TATGCACACTCTTACTCGCACATAGCCGGGTCATCATCGACA
Found at i:9182437 original size:2 final size:2
Alignment explanation
Indices: 9182430--9182476 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9182420 AATGCACAAC
9182430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9182472 AT AT A
1 AT AT A
9182477 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9182715 original size:42 final size:42
Alignment explanation
Indices: 9182619--9182734 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
9182609 AGCTCATGTG
* * * *
9182619 CACTCCCTACTCGCACATG-GCTGGGTCAGCA-CGGCTTATGCG
1 CACT-CCTACTCGCACA-GAGCCGGGTCATCATCGGCGTATGCA
* *
9182661 CACTTCTACTCGCATAGAGCCGGGTCATCATCGGCGTATGCA
1 CACTCCTACTCGCACAGAGCCGGGTCATCATCGGCGTATGCA
* * *
9182703 CACTCCTGCTCGCACATAGCCGAGTCATCATC
1 CACTCCTACTCGCACAGAGCCGGGTCATCATC
9182735 ATTACACAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 20 0.33
42 40 0.66
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.22
Consensus pattern (42 bp):
CACTCCTACTCGCACAGAGCCGGGTCATCATCGGCGTATGCA
Found at i:9187109 original size:63 final size:63
Alignment explanation
Indices: 9186966--9187121 Score: 188
Period size: 63 Copynumber: 2.5 Consensus size: 63
9186956 CATCATTATC
* * * *
9186966 GGCATGTGCACTGCCCACTCCGCACATGCACAGTTGTAAGTGTCACAACATCGTCATTCGATT
1 GGCATGTGCACTGCCCACTCAGCACATGCACAGTTGTAAGTGTCACAACATCATCATTCAACT
* * * * *
9187029 GGCATATGGACTACCCACTCAGCATATGCACGGTTGT-AGTTGTCACAACATCATCATTCAACT
1 GGCATGTGCACTGCCCACTCAGCACATGCACAGTTGTAAG-TGTCACAACATCATCATTCAACT
* * *
9187092 GGCATGTGCATTGCCCACTCCGCACTTGCA
1 GGCATGTGCACTGCCCACTCAGCACATGCA
9187122 TGGTTACATC
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
62 2 0.03
63 74 0.97
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (63 bp):
GGCATGTGCACTGCCCACTCAGCACATGCACAGTTGTAAGTGTCACAACATCATCATTCAACT
Found at i:9187910 original size:37 final size:36
Alignment explanation
Indices: 9187860--9187932 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 36
9187850 AAAATTCAAG
9187860 TCAAGCTTCCATGGGGGGTGAGAAAACATGGGAGAA
1 TCAAGCTTCCATGGGGGGTGAGAAAACATGGGAGAA
9187896 NTCAAGCTTCCATGGGGGGTGAGAAAACATGGGAGAA
1 -TCAAGCTTCCATGGGGGGTGAGAAAACATGGGAGAA
9187933 GAAGGAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.16
Consensus pattern (36 bp):
TCAAGCTTCCATGGGGGGTGAGAAAACATGGGAGAA
Found at i:9191294 original size:25 final size:26
Alignment explanation
Indices: 9191240--9191342 Score: 70
Period size: 26 Copynumber: 3.9 Consensus size: 26
9191230 AACGATATTT
*
9191240 TTTTTTCAACATGGCGTGTAACAATC
1 TTTTTTCAACATGACGTGTAACAATC
* *
9191266 TTTTTT-AACCATGACGTGTAA-TATG
1 TTTTTTCAA-CATGACGTGTAACAATC
* *
9191291 TTTTTGT--ACATGGCGTGTAACAACAGTA
1 TTTTT-TCAACATGACGTGTAAC-A-A-TC
* *
9191319 TTTTTTTAACATGGCGTGTAACAA
1 TTTTTTCAACATGACGTGTAACAA
9191343 CCTAACCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
24 11 0.17
25 10 0.16
26 18 0.29
27 3 0.05
28 7 0.11
29 14 0.22
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
TTTTTTCAACATGACGTGTAACAATC
Found at i:9191343 original size:29 final size:28
Alignment explanation
Indices: 9191167--9191343 Score: 129
Period size: 29 Copynumber: 6.4 Consensus size: 28
9191157 AGACATTAAA
* * *
9191167 GTGTAACAA-A-ATGTTTTTGAATATGAC
1 GTGTAACAACATAT-TTTTTTAACATGGC
* *
9191194 GTGTAACAATAATATTTTTTCAACATGGC
1 GTGTAACAA-CATATTTTTTTAACATGGC
9191223 GTGTAACAACGATATTTTTTTTTCAACATGGC
1 GTGTAACAAC-ATA--TTTTTTT-AACATGGC
* *
9191255 GTGTAAC-A-AT-CTTTTTTAACCATGAC
1 GTGTAACAACATATTTTTTTAA-CATGGC
* * *
9191281 GTGT---AATATGTTTTTGT-ACATGGC
1 GTGTAACAACATATTTTTTTAACATGGC
9191305 GTGTAACAACAGTATTTTTTTAACATGGC
1 GTGTAACAACA-TATTTTTTTAACATGGC
9191334 GTGTAACAAC
1 GTGTAACAAC
9191344 CTAACCATGG
Statistics
Matches: 121, Mismatches: 13, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
24 10 0.08
25 5 0.04
26 20 0.17
27 12 0.10
28 7 0.06
29 43 0.36
30 2 0.02
31 7 0.06
32 15 0.12
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (28 bp):
GTGTAACAACATATTTTTTTAACATGGC
Found at i:9191376 original size:24 final size:24
Alignment explanation
Indices: 9191349--9191555 Score: 217
Period size: 24 Copynumber: 8.8 Consensus size: 24
9191339 ACAACCTAAC
* *
9191349 CATGGCATGTCACATGTTTTTGTA
1 CATGGCGTGTCACATGTTTCTGTA
*
9191373 CATGGCGTGTCACATGTTTCTATA
1 CATGGCGTGTCACATGTTTCTGTA
*
9191397 CATGGCATGTCACATGTTTCTGTA
1 CATGGCGTGTCACATGTTTCTGTA
* *
9191421 CATTGAGTGTCACATGTTTCTGTA
1 CATGGCGTGTCACATGTTTCTGTA
* * ** *
9191445 CATGGTGTGTAACA---ACCT-AA
1 CATGGCGTGTCACATGTTTCTGTA
* *
9191465 CCATGGCATGTCACATGTTTTTGTA
1 -CATGGCGTGTCACATGTTTCTGTA
* * *
9191490 CATGGTGTGTTACATGTTTCTATA
1 CATGGCGTGTCACATGTTTCTGTA
*
9191514 CGTGGCGT-TCACATGTTTCTGTA
1 CATGGCGTGTCACATGTTTCTGTA
9191537 CATGGCGTGTCACATGTTT
1 CATGGCGTGTCACATGTTT
9191556 TTACATACAG
Statistics
Matches: 146, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
20 1 0.01
21 13 0.09
23 20 0.14
24 111 0.76
25 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (24 bp):
CATGGCGTGTCACATGTTTCTGTA
Found at i:9191376 original size:74 final size:78
Alignment explanation
Indices: 9191216--9191382 Score: 209
Period size: 74 Copynumber: 2.1 Consensus size: 78
9191206 TATTTTTTCA
*
9191216 ACATGGCGTGTAACAACGATATTTTTTTTTCAACATGGCGTGTAACAATCTTTTTTAACCATGAC
1 ACATGGCGTGTAACAACGATA-TTTTTTTTCAACATGGCGTGTAACAATC---TCTAACCATGAC
* *
9191281 GTGTAATATGTTTTTGT
62 ATGTAACATGTTTTTGT
*
9191298 ACATGGCGTGTAACAAC-AGTA-TTTTTTT-AACATGGCGTGTAACAA-C-CTAACCATGGCATG
1 ACATGGCGTGTAACAACGA-TATTTTTTTTCAACATGGCGTGTAACAATCTCTAACCATGACATG
*
9191358 TCACATGTTTTTGT
65 TAACATGTTTTTGT
9191372 ACATGGCGTGT
1 ACATGGCGTGT
9191383 CACATGTTTC
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
74 34 0.43
78 1 0.01
79 17 0.22
80 7 0.09
81 1 0.01
82 19 0.24
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (78 bp):
ACATGGCGTGTAACAACGATATTTTTTTTCAACATGGCGTGTAACAATCTCTAACCATGACATGT
AACATGTTTTTGT
Found at i:9191462 original size:117 final size:114
Alignment explanation
Indices: 9191321--9191619 Score: 402
Period size: 117 Copynumber: 2.6 Consensus size: 114
9191311 CAACAGTATT
*
9191321 TTTTTAACATGGCGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGCGTGTCAC
1 TTTTT-ACATGGCGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGCGTGTAAC
*
9191386 ATGTTTCTATACATGGCATGTCACATGTTTCTGTACATTGAGTGTCACATG
65 ATGTTTCTATACATGGCAT-TCACATGTTTCTGTACATGGAGTGTCACATG
* * *
9191437 TTTCTGTACATGGTGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGTGTGTTA
1 TTT-T-TACATGGCGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGCGTGTAA
* * *
9191502 CATGTTTCTATACGTGGCGTTCACATGTTTCTGTACATGGCGTGTCACATG
64 CATGTTTCTATACATGGCATTCACATGTTTCTGTACATGGAGTGTCACATG
* * * ** * *
9191553 TTTTTACATACAGCGTGTAATAACCTAATCATGGTGTGTAACAT-TTTTTGTACATGACGTGTAA
1 TTTTTACAT--GGCGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGCGTGTAA
9191617 CAT
64 CAT
9191620 CTTAGCGTGT
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
114 5 0.03
115 21 0.13
116 61 0.38
117 74 0.46
118 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (114 bp):
TTTTTACATGGCGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGGCGTGTAACA
TGTTTCTATACATGGCATTCACATGTTTCTGTACATGGAGTGTCACATG
Found at i:9191482 original size:93 final size:92
Alignment explanation
Indices: 9191373--9191546 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 92
9191363 TGTTTTTGTA
* * *
9191373 CATGGCGTGTCACATGTTTCTATACATGGCATGTCACATGTTTCTGTACATTGAGTGTCACATGT
1 CATGGCATGTCACATGTTTCTATACATGGCATGTCACATGTTTCTATACATGGAGT-TCACATGT
*
9191438 TTCTGTACATGGTGTGTAACAACCTAAC
65 TTCTGTACATGGCGTGTAACAACCTAAC
* * ** * * *
9191466 CATGGCATGTCACATGTTTTTGTACATGGTGTGTTACATGTTTCTATACGTGGCGTTCACATGTT
1 CATGGCATGTCACATGTTTCTATACATGGCATGTCACATGTTTCTATACATGGAGTTCACATGTT
9191531 TCTGTACATGGCGTGT
66 TCTGTACATGGCGTGT
9191547 CACATGTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
92 24 0.34
93 46 0.66
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (92 bp):
CATGGCATGTCACATGTTTCTATACATGGCATGTCACATGTTTCTATACATGGAGTTCACATGTT
TCTGTACATGGCGTGTAACAACCTAAC
Found at i:9197239 original size:19 final size:19
Alignment explanation
Indices: 9197215--9197282 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
9197205 ATAGTGCCTG
9197215 TGTACACGATGTGGGGTGA
1 TGTACACGATGTGGGGTGA
* ***
9197234 TGTACATGATG-GCACTGA
1 TGTACACGATGTGGGGTGA
* *
9197252 TTGTGCACGATGTGGGGGGA
1 -TGTACACGATGTGGGGTGA
*
9197272 TGCACACGATG
1 TGTACACGATG
9197283 GTGCCGACTA
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
18 4 0.11
19 28 0.80
20 3 0.09
ACGTcount: A:0.22, C:0.15, G:0.38, T:0.25
Consensus pattern (19 bp):
TGTACACGATGTGGGGTGA
Found at i:9197262 original size:38 final size:40
Alignment explanation
Indices: 9197219--9197320 Score: 136
Period size: 38 Copynumber: 2.6 Consensus size: 40
9197209 TGCCTGTGTA
* *
9197219 CACGATGTGGGGTGATGTACATGATGGCACTGA-T-TGTG
1 CACGATGTGGGGGGATGTACATGATGGCACCGACTATGTG
* * **
9197257 CACGATGTGGGGGGATGCACACGATGGTGCCGACTATGTG
1 CACGATGTGGGGGGATGTACATGATGGCACCGACTATGTG
9197297 CACGATGTGGGGGGATGTACATGA
1 CACGATGTGGGGGGATGTACATGA
9197321 GCCGAGGGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
38 27 0.50
39 1 0.02
40 26 0.48
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.24
Consensus pattern (40 bp):
CACGATGTGGGGGGATGTACATGATGGCACCGACTATGTG
Found at i:9206462 original size:15 final size:15
Alignment explanation
Indices: 9206442--9206487 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
9206432 TTCTTAAAAC
9206442 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
9206457 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
9206472 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
9206487 A
1 A
9206488 TCTCTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.22
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:9210145 original size:28 final size:28
Alignment explanation
Indices: 9210093--9210152 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
9210083 GGACAAATGT
** *
9210093 CCTAGTGGTGGAAAATTACTGTTTTGCC
1 CCTAGTGGTGGAAAATTACCATTTTACC
9210121 CCTAG-GGTGGTAAAATTACCATTTTACC
1 CCTAGTGGTGG-AAAATTACCATTTTACC
9210149 CCTA
1 CCTA
9210153 TGCTCCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (28 bp):
CCTAGTGGTGGAAAATTACCATTTTACC
Found at i:9212595 original size:15 final size:15
Alignment explanation
Indices: 9212575--9212620 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
9212565 TTCTTAAAAC
9212575 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
9212590 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
9212605 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
9212620 A
1 A
9212621 TCTCTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.22
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:9218688 original size:16 final size:15
Alignment explanation
Indices: 9218667--9218696 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
9218657 TTAACTTCAT
9218667 AAAAATAAACTAAATA
1 AAAAAT-AACTAAATA
9218683 AAAAATAACTAAAT
1 AAAAATAACTAAAT
9218697 TCTAACCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATAACTAAATA
Found at i:9223071 original size:12 final size:12
Alignment explanation
Indices: 9223054--9223078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9223044 TAAGAAAATA
9223054 AAATATTTTATT
1 AAATATTTTATT
9223066 AAATATTTTATT
1 AAATATTTTATT
9223078 A
1 A
9223079 TATTCAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATATTTTATT
Found at i:9232202 original size:50 final size:49
Alignment explanation
Indices: 9232145--9232240 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 49
9232135 TTCTATACAC
**
9232145 ATTTAACTAACTAAAACTTTCAATTCAACTAAAAATCAAAACATAAAAA
1 ATTTAACTAACTAAAACGATCAATTCAACTAAAAATCAAAACATAAAAA
*
9232194 NATTTAACTAACTAAAACGATCAATTTAACTAAAAATCAAAACATAA
1 -ATTTAACTAACTAAAACGATCAATTCAACTAAAAATCAAAACATAA
9232241 GAATTTCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.56, C:0.16, G:0.01, T:0.26
Consensus pattern (49 bp):
ATTTAACTAACTAAAACGATCAATTCAACTAAAAATCAAAACATAAAAA
Found at i:9244485 original size:22 final size:21
Alignment explanation
Indices: 9244446--9244486 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9244436 CCTAGGTGGA
**
9244446 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGAAAAAAGTGTG
9244467 AAAATTCAAGAAAACAAGTG
1 AAAATTCAAGAAAA-AAGTG
9244487 AAAAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.17
Consensus pattern (21 bp):
AAAATTCAAGAAAAAAGTGTG
Found at i:9244491 original size:21 final size:20
Alignment explanation
Indices: 9244444--9244491 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9244434 ACCCTAGGTG
**
9244444 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGAAAAAAGT
*
9244464 GTGAAAATTCAAGAAAACAAGT
1 G-AAAAATTCAAGAAAA-AAGT
9244486 GAAAAA
1 GAAAAA
9244492 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGAAAAAAGT
Found at i:9251146 original size:21 final size:22
Alignment explanation
Indices: 9251121--9251161 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9251111 CCTAGGTGGA
*
9251121 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
9251142 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
9251162 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:9251162 original size:20 final size:21
Alignment explanation
Indices: 9251121--9251165 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
9251111 CCTAGGTGGA
*
9251121 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
9251142 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
9251162 AAAA
1 AAAA
9251166 AAAGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:9251166 original size:21 final size:20
Alignment explanation
Indices: 9251119--9251166 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
9251109 ACCCTAGGTG
*
9251119 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
9251139 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
9251161 GAAAAA
1 GAAAAA
9251167 AAGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:9254582 original size:59 final size:59
Alignment explanation
Indices: 9254486--9254620 Score: 225
Period size: 59 Copynumber: 2.3 Consensus size: 59
9254476 GTTGAGAAGC
* *
9254486 CTTAGTTTGACTAATAACTTAAATCCCAACATCGCTGCATTTGACAATAACTTATACAA
1 CTTAGTTCGGCTAATAACTTAAATCCCAACATCGCTGCATTTGACAATAACTTATACAA
* * *
9254545 CTTAGTTCGGCTAATAACTTAAATCCCAACGTTGCTGCATTTGACAATAACTTATATAA
1 CTTAGTTCGGCTAATAACTTAAATCCCAACATCGCTGCATTTGACAATAACTTATACAA
9254604 CTTAGTTCGGCTAATAA
1 CTTAGTTCGGCTAATAA
9254621 TATATATAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 71 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (59 bp):
CTTAGTTCGGCTAATAACTTAAATCCCAACATCGCTGCATTTGACAATAACTTATACAA
Found at i:9272819 original size:28 final size:29
Alignment explanation
Indices: 9272778--9272837 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
9272768 GTCTATGGGC
*
9272778 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
9272806 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
9272836 AA
1 AA
9272838 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:9282409 original size:17 final size:19
Alignment explanation
Indices: 9282368--9282409 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
9282358 ATATATATAT
9282368 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
9282389 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
9282406 ATGA
1 ATGA
9282410 TATTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:9294159 original size:27 final size:27
Alignment explanation
Indices: 9294108--9294159 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
9294098 ATGTGTTGAT
*
9294108 GGTGGAAAATTACAATTTTGCCCCTGG
1 GGTGGAAAATTACAATTTTGACCCTGG
9294135 GGTGAGAAAATTATC-ATTTT-ACCCT
1 GGTG-GAAAATTA-CAATTTTGACCCT
9294160 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 8 0.36
28 13 0.59
29 1 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGG
Found at i:9295178 original size:644 final size:645
Alignment explanation
Indices: 9293942--9295196 Score: 2032
Period size: 644 Copynumber: 1.9 Consensus size: 645
9293932 NNNNNNNNNN
* * *
9293942 ATTTTTTAGTTAAATAATAAAATATCCTAAGCTTGACACGTGGCATTTTCTTATTGGTCCATTTT
1 ATTTTTAAGTTAAATAATAAAATATCCTAAGCTTGACACATGACATTTTCTTATTGGTCCATTTT
* * *
9294007 TAAAATTTTAAAAATTTAAACATTTTATCTCCACCACATGATTAGTCAAGGGTCAAAGATGAAGA
66 TAAAACTTTAAAAATTTAAACATTTTATCTCCACCACATGATTAGTCAAAGGTCAAAAATGAAGA
* * *
9294072 TAAAGGAAGACCATGTGCTAGAAAAAATGTGTTGATGGTGGAAAATTACAATTTTGCCCCTGGGG
131 TAAAGGAAGACCATGTGCTAGAAAAAATGTCTAGATGGTGAAAAATTACAATTTTGCCCCTGGGG
* * * * *
9294137 TGAGAAAATTATCATTTTACCCTTTTACTCCAAATTATACCGAAATTAAAATTTTTCACTTCTAA
196 TGAGAAAATTACCAATTTACCCCTATACTCCAAATTATACCGAAATTAAAATATTTCACTTCTAA
* * *
9294202 ACCTCAAATCATACTCCAATAAGTCAAATGGGGTCAAAAAAATCTTTTCTAAAATTTCCATTTTG
261 ACCTCAAATCATACTCCAATAAGTCAAATGGGGCCAAAAAAATCTTTTCTAAAATTCCCACTTTG
* * *
9294267 TCCCTAGGTGGCAAATGACCATTTTGCCCTTAGATAGTGAAAATTTCGATTCGACTCTAAATTGA
326 TCCCTAGATGGCAAATGACCATTTTGCCCCTAGATAGTGAAAATTTCGATTCGACTCCAAATTGA
* * * * *
9294332 TCCTCAAACTCCGAATTACTATTTTGAGTCATCCTTGGATTGTGATGATCTTAATCTCACCTTAA
391 TACTCAAACTCCGAATTACCATTTTGAGTCATCCATGGACTGTGAAGATCTTAATCTCACCTTAA
* *
9294397 AATTCCTATTTGATCTAGTTCGAGGATTAAATCAACTTTGTTGTACCTCTAGGTACAATACCGAC
456 AATTCCTATTTGATCTAGTTCGAAGATTAAATCAACTTTGTTGTACCTCTAAGTACAATACCGAC
* * *
9294462 TTTTGTAAATTTTTTGAGACTCTCCTAGCATACAATCATGCTATCATCACATGTATGTCATGAAT
521 TTTTGTAAATTTTTCGAGACTCTCCTAGCATACAATCATGCTATCATCACATATATGTCATGAAG
*
9294527 AGTATTTTATAAGGTCGGGCTTTACAGAATATTTGGAGAGTAATGGGCTGATTTATGCTG
586 AGTATTTTATAAGGTCAGGCTTTACAGAATATTTGGAGAGTAATGGGCTGATTTATGCTG
9294587 ATTTTTAAGTTAAATAATAAAATATCCTAAGCTTGACACATGACATTTTCTTATTGGTCCATTTT
1 ATTTTTAAGTTAAATAATAAAATATCCTAAGCTTGACACATGACATTTTCTTATTGGTCCATTTT
* * * *
9294652 TAAAACTTTAAAAATTTATACTTTTTGTCTCCACCACATGATTAGTCAAAGGTCAAAAATGAGGA
66 TAAAACTTTAAAAATTTAAACATTTTATCTCCACCACATGATTAGTCAAAGGTCAAAAATGAAGA
* * *
9294717 TAAAGGAAGACCATGTGCT-GGACAAATGTCCTAG-TGGTGAAAAATTACAATTTTGCCCTTGGG
131 TAAAGGAAGACCATGTGCTAGAAAAAATGT-CTAGATGGTGAAAAATTACAATTTTGCCCCTGGG
*
9294780 GTG-GCAAAATTACCAATTTACCCCTATACTTCAAATTATACCGAAATTAAAATATTTCACTTCT
195 GTGAG-AAAATTACCAATTTACCCCTATACTCCAAATTATACCGAAATTAAAATATTTCACTTCT
9294844 AAACCTCAAATCATACTCCAATAAGTCAAATGGGGCCAAAAAAATCTTTTCTAAAATTCCCACTT
259 AAACCTCAAATCATACTCCAATAAGTCAAATGGGGCCAAAAAAATCTTTTCTAAAATTCCCACTT
* * *
9294909 TGT-CCTCAGATGGCAAATGGCCATTTTGCCCCTAGATAGTGAAAATTTTGATTTGACTCCAAAT
324 TGTCCCT-AGATGGCAAATGACCATTTTGCCCCTAGATAGTGAAAATTTCGATTCGACTCCAAAT
*
9294973 TGATACTCAAACTCCGAATTACCATTTTGAGTCATCCATGGACTGTGAAGCTCTTAATCTCACCT
388 TGATACTCAAACTCCGAATTACCATTTTGAGTCATCCATGGACTGTGAAGATCTTAATCTCACCT
*
9295038 TAAAATTCCTATTTGATCTAGTTTGAAGATTAAATCAACTTTGTTGTACCTCTAAGTACAATACC
453 TAAAATTCCTATTTGATCTAGTTCGAAGATTAAATCAACTTTGTTGTACCTCTAAGTACAATACC
* *
9295103 GACTTTTGTAAATTTTTCGGGACTCTCCTAGCATGCAATCATGCTATCATCACATATATGTCATG
518 GACTTTTGTAAATTTTTCGAGACTCTCCTAGCATACAATCATGCTATCATCACATATATGTCATG
*
9295168 ACGAGTATTTTATAAGGTCAGGCTTTACA
583 AAGAGTATTTTATAAGGTCAGGCTTTACA
9295197 TTATAGAAGT
Statistics
Matches: 560, Mismatches: 47, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
643 4 0.01
644 415 0.74
645 141 0.25
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (645 bp):
ATTTTTAAGTTAAATAATAAAATATCCTAAGCTTGACACATGACATTTTCTTATTGGTCCATTTT
TAAAACTTTAAAAATTTAAACATTTTATCTCCACCACATGATTAGTCAAAGGTCAAAAATGAAGA
TAAAGGAAGACCATGTGCTAGAAAAAATGTCTAGATGGTGAAAAATTACAATTTTGCCCCTGGGG
TGAGAAAATTACCAATTTACCCCTATACTCCAAATTATACCGAAATTAAAATATTTCACTTCTAA
ACCTCAAATCATACTCCAATAAGTCAAATGGGGCCAAAAAAATCTTTTCTAAAATTCCCACTTTG
TCCCTAGATGGCAAATGACCATTTTGCCCCTAGATAGTGAAAATTTCGATTCGACTCCAAATTGA
TACTCAAACTCCGAATTACCATTTTGAGTCATCCATGGACTGTGAAGATCTTAATCTCACCTTAA
AATTCCTATTTGATCTAGTTCGAAGATTAAATCAACTTTGTTGTACCTCTAAGTACAATACCGAC
TTTTGTAAATTTTTCGAGACTCTCCTAGCATACAATCATGCTATCATCACATATATGTCATGAAG
AGTATTTTATAAGGTCAGGCTTTACAGAATATTTGGAGAGTAATGGGCTGATTTATGCTG
Found at i:9298748 original size:45 final size:45
Alignment explanation
Indices: 9298638--9299428 Score: 483
Period size: 45 Copynumber: 17.8 Consensus size: 45
9298628 GCTCATTATA
* ** * * * * *
9298638 TAGAATGAGGCAATGTAATTTTAAAAGAAATGAAAGGCTTCTCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAAT-AAAAGCTCCTCATC
* ** *
9298684 TGGAATGAGGCTATGTAACTTTAAAAGGAATAAAAGCTCCTCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* * * * *
9298729 TGGAATGAGTCTATATAACTTTAAATGGAATGAAAA-CTCCTCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAAT-AAAAGCTCCTCATC
* * * * * * *
9298774 TGGAATAAGACTACATAATTTTAAAATGAGTAAAGGCTCCTCATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* * * ** * * *
9298819 TATAATAAAGCTATGTAACTTT---A-GAATGAAAGCTCTGATCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTC--CTCATC
* * * *
9298862 TAGAATGAGGCTACTTAACTTTAAATGGAATAAATA-CTTCTTATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAA-AGCTCCTCATC
* * * * * *
9298907 TGGGATGAGGTTACATAACTTTAAAAGAAATAAAAGTTCCTTATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* * ** ** *
9298952 TAAAACT-CGGCTACCCAA-TTATAAAAGGAATAAAAG-TTGTCATT
1 TAGAA-TGAGGCTACATAACTT-TAAAAGGAATAAAAGCTCCTCATC
* * *
9298996 TGGAATGAGGCTACATAACTTT-AAA-GAATGAAAA-ATCCTTATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAAT-AAAAGCTCCTCATC
* * * *
9299039 TAAAATGAGGCTACATAACTTTACAAGGAGTAGAAA-CTCCTCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAATA-AAAGCTCCTCATC
** * * * *
9299084 TAGAATGAGGCTATGTATCTTTAACAA-GAATGATAGCTCTTCATC
1 TAGAATGAGGCTACATAACTTTAA-AAGGAATAAAAGCTCCTCATC
* * * * **
9299129 TGGAATAAGGCTGCATAACTTTAAATGGAATAAGTGCTCCTCATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* *
9299174 TAGAATGAGGCTACATAACTTTAAAAGAAATAAAAGCTCCTTATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* * * * * * ** *
9299219 TAGAACGAGGGTACCTAACTATAAAAGGAATAAAGGTTTATCATT
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* *
9299264 TGGAATGAGGCTACATAACTTT-AAA-GAATGAAA---CCTCATC
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* * *
9299304 T-GAAATGAGGCTACATAACTTTAAAAAGAGTCAAAA-CTCCTCATT
1 TAG-AATGAGGCTACATAACTTTAAAAGGAAT-AAAAGCTCCTCATC
* ** * * *
9299349 TACAATGAGGCTATGTAACTTTAAAAGGAATTAAAGCTCTTCATA
1 TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
* *
9299394 T-GAAGTGAGGCTATATAACTTTAAAAAGAATAAAA
1 TAGAA-TGAGGCTACATAACTTTAAAAGGAATAAAA
9299429 AAACCTCTAA
Statistics
Matches: 572, Mismatches: 142, Indels: 63
0.74 0.18 0.08
Matches are distributed among these distances:
39 1 0.00
40 24 0.04
41 12 0.02
42 8 0.01
43 62 0.11
44 36 0.06
45 386 0.67
46 34 0.06
47 8 0.01
48 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (45 bp):
TAGAATGAGGCTACATAACTTTAAAAGGAATAAAAGCTCCTCATC
Found at i:9299416 original size:265 final size:264
Alignment explanation
Indices: 9298690--9299427 Score: 842
Period size: 265 Copynumber: 2.8 Consensus size: 264
9298680 CATTTGGAAT
** * ** * *
9298690 GAGGCTATGTAACTTTAAAAGGAATAAAAGCTCCTCATTTGGAATGAGTCTATATAACTTTAAAT
1 GAGGCTACCTAACTATAAAAGGAATAAAAG-TTATCATTTGGAATGAGGCTACATAACTTTAAA-
* * * * * * * *
9298755 GGAATGAAAACTCCTCATTTGGAATAAGACTACATAATTTTAAAATGAGTAAAGGCTCCTCATCT
64 -GAATGAAAA-TCCTCATCTGAAATGAGGCTACATAACTTTAAAAAGAGTAAA-ACTCCTCATTT
* * * *
9298820 ATAATAAAGCTATGTAACTTT---AGAATGAAAGCTCTGATCATTTAGAATGAGGCTACT-TAAC
126 ACAATGAGGCTATGTAACTTTAAAAGAATGAAAGCTCT--TCATATAGAATGAGGCTA-TATAAC
* * * * * *
9298881 TTTAAATGGAATAAATACTTCTTATCTGGGATGAGGTTACATAACTTTAAAAGAAATAAAAGTTC
188 TTTAAATGGAATAAATACTCCTCATCTAGAATGAGGCTACATAACTTTAAAAGAAATAAAAGCTC
9298946 CTTATCTAAAAC
253 CTTATCTAAAAC
** * * *
9298958 TCGGCTACCCAATTATAAAAGGAATAAAAGTTGTCATTTGGAATGAGGCTACATAACTTTAAAGA
1 GAGGCTACCTAACTATAAAAGGAATAAAAGTTATCATTTGGAATGAGGCTACATAACTTTAAAGA
* * * * *
9299023 ATGAAAAATCCTTATCTAAAATGAGGCTACATAACTTTACAAGGAGTAGAAACTCCTCATTTAGA
66 ATG-AAAATCCTCATCTGAAATGAGGCTACATAACTTTAAAAAGAGTA-AAACTCCTCATTTACA
* * * * * **
9299088 ATGAGGCTATGTATCTTTAACAAGAATGATAGCTCTTCATCTGGAATAAGGCTGCATAACTTTAA
129 ATGAGGCTATGTAACTTTAA-AAGAATGAAAGCTCTTCATATAGAATGAGGCTATATAACTTTAA
* *
9299153 ATGGAATAAGTGCTCCTCATCTAGAATGAGGCTACATAACTTTAAAAGAAATAAAAGCTCCTTAT
193 ATGGAATAAATACTCCTCATCTAGAATGAGGCTACATAACTTTAAAAGAAATAAAAGCTCCTTAT
*
9299218 CTAGAAC
258 CTAAAAC
* *
9299225 GAGGGTACCTAACTATAAAAGGAATAAAGGTTTATCATTTGGAATGAGGCTACATAACTTTAAAG
1 GAGGCTACCTAACTATAAAAGGAATAAAAG-TTATCATTTGGAATGAGGCTACATAACTTTAAAG
9299290 AATG-AAA-CCTCATCTGAAATGAGGCTACATAACTTTAAAAAGAGTCAAAACTCCTCATTTACA
65 AATGAAAATCCTCATCTGAAATGAGGCTACATAACTTTAAAAAGAGT-AAAACTCCTCATTTACA
*
9299353 ATGAGGCTATGTAACTTTAAAAGGAATTAAAGCTCTTCATAT-GAAGTGAGGCTATATAACTTTA
129 ATGAGGCTATGTAACTTTAAAA-GAATGAAAGCTCTTCATATAGAA-TGAGGCTATATAACTTTA
**
9299417 AAAAGAATAAA
192 AATGGAATAAA
9299428 AAAACCTCTA
Statistics
Matches: 396, Mismatches: 63, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
264 5 0.01
265 169 0.43
266 10 0.03
267 139 0.35
268 60 0.15
269 13 0.03
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (264 bp):
GAGGCTACCTAACTATAAAAGGAATAAAAGTTATCATTTGGAATGAGGCTACATAACTTTAAAGA
ATGAAAATCCTCATCTGAAATGAGGCTACATAACTTTAAAAAGAGTAAAACTCCTCATTTACAAT
GAGGCTATGTAACTTTAAAAGAATGAAAGCTCTTCATATAGAATGAGGCTATATAACTTTAAATG
GAATAAATACTCCTCATCTAGAATGAGGCTACATAACTTTAAAAGAAATAAAAGCTCCTTATCTA
AAAC
Found at i:9306474 original size:16 final size:15
Alignment explanation
Indices: 9306455--9306489 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9306445 ATGTCTCGTT
*
9306455 AAAACCTTATAAGAAA
1 AAAACCTCA-AAGAAA
9306471 AAAACCTCAAAGAAA
1 AAAACCTCAAAGAAA
9306486 AAAA
1 AAAA
9306490 TCTAAGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAACCTCAAAGAAA
Found at i:9309864 original size:76 final size:73
Alignment explanation
Indices: 9309775--9309915 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 73
9309765 AATGCCATTG
*
9309775 TGTGCACCCCCACATCGCGCAC-AGGTAATATCATCATCAGTGTGTGCACTCACATAACACACCA
1 TGTGCACCCCCACA-C-CGCACAAGG-AATAT-ATCATCAGTGTGTGCACTCACACAACACACCA
9309839 CTATTACTGTCA
62 CTATTACTGTCA
** * *
9309851 TGTGCACTTCCACACCGCACAAGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTAT
1 TGTGCACCCCCACACCGCACAAGGAATATATCATCAGTGTGTGCACTCACACAACACACCACTAT
9309916 CAACATAATG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 34 0.58
74 9 0.15
75 4 0.07
76 12 0.20
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (73 bp):
TGTGCACCCCCACACCGCACAAGGAATATATCATCAGTGTGTGCACTCACACAACACACCACTAT
TACTGTCA
Found at i:9314736 original size:35 final size:35
Alignment explanation
Indices: 9314696--9314787 Score: 130
Period size: 35 Copynumber: 2.6 Consensus size: 35
9314686 TCTTTCTTTT
*
9314696 TCCCTCTCAAAACTGGTAGCAAGTTCCCTCATTTC
1 TCCCTCTCAAAACTGGCAGCAAGTTCCCTCATTTC
* *
9314731 TCCCTCTCAATACTGGCAGCAAGTTTCCTCATTTC
1 TCCCTCTCAAAACTGGCAGCAAGTTCCCTCATTTC
* * *
9314766 TCCCTTTCAAAATTGACAGCAA
1 TCCCTCTCAAAACTGGCAGCAA
9314788 AACTCTTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.32
Consensus pattern (35 bp):
TCCCTCTCAAAACTGGCAGCAAGTTCCCTCATTTC
Found at i:9316606 original size:25 final size:25
Alignment explanation
Indices: 9316572--9316619 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9316562 GTACTACCAA
*
9316572 ATATTGTATTGACATTGGTTTCTAG
1 ATATTGTATTGACATTAGTTTCTAG
9316597 ATATTGTATTGACATTAGTTTCT
1 ATATTGTATTGACATTAGTTTCT
9316620 TCCTTTGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (25 bp):
ATATTGTATTGACATTAGTTTCTAG
Found at i:9317882 original size:54 final size:54
Alignment explanation
Indices: 9317792--9317950 Score: 196
Period size: 54 Copynumber: 2.9 Consensus size: 54
9317782 ATTAGTATAC
* * *
9317792 CACCACATCTCATCCAGCTCATGTGCATTCCCCCACATCGTGAACATAGCCAGG-
1 CACCCCATCTCACCCAGCTCATGTGCA-TCCCCCACATCGTGCACATAGCCAGGA
* *
9317846 CATCCCATCTCACCCAGCTCATGTGCATCCCTCCACATCGTGCACATAG-CTGGA
1 CACCCCATCTCACCCAGCTCATGTGCATCCC-CCACATCGTGCACATAGCCAGGA
* * * *
9317900 CACCCCATCTCACCTAGCTCGTGTGCATCCCCCCACGTTGTGCACATAGCC
1 CACCCCATCTCACCCAGCTCATGTGCAT-CCCCCACATCGTGCACATAGCC
9317951 TGAGTCATGG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
53 7 0.08
54 80 0.88
55 4 0.04
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (54 bp):
CACCCCATCTCACCCAGCTCATGTGCATCCCCCACATCGTGCACATAGCCAGGA
Found at i:9318142 original size:2 final size:2
Alignment explanation
Indices: 9318135--9318171 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9318125 TATGACATAG
9318135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9318172 CAACATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9321173 original size:20 final size:20
Alignment explanation
Indices: 9321135--9321175 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9321125 TAAAAGAAAT
*
9321135 AGAAAAATAAGAATTTAAAA
1 AGAAAAATAAGAATATAAAA
9321155 AGAAAAATAA-AATGATAAAA
1 AGAAAAATAAGAAT-ATAAAA
9321175 A
1 A
9321176 AATCAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (20 bp):
AGAAAAATAAGAATATAAAA
Found at i:9323068 original size:126 final size:124
Alignment explanation
Indices: 9322842--9323086 Score: 355
Period size: 126 Copynumber: 2.0 Consensus size: 124
9322832 TTATTCTTCT
9322842 TCCCATCCTTCTTGCTCACTAAACGTTTTCCATCTCTATGGAAGCCATCCCTTGAAACCTCCATA
1 TCCCATCCTTCTTGCTCACTAAACGTTTTCCATCTCTATGGAAGCCATCCCTTGAAACCTCCATA
* *
9322907 ATTTTCCCAAAGTAACTTCAATTATCATGCGTTGGTACACTTTTTCATAAGATTTTTTC
66 AGTTTCCCAAAATAACTTCAATTATCATGCGTTGGTACACTTTTTCATAAGATTTTTTC
* * * ** *
9322966 NTCCCATCTTTCTTTCTCACTAAACGTTTTCCATCTTCTATGGAAGTCATCCCTTGATGCCTTCA
1 -TCCCATCCTTCTTGCTCACTAAACGTTTTCCATC-TCTATGGAAGCCATCCCTTGAAACCTCCA
* * * * *
9323031 TAAGTTTCTCAAAATAACTTCAATTCTCATGCTTTGGTACATTTTTTCGTAAGATT
64 TAAGTTTCCCAAAATAACTTCAATTATCATGCGTTGGTACACTTTTTCATAAGATT
9323087 CCTTGTGCTC
Statistics
Matches: 106, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 32 0.30
126 74 0.70
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (124 bp):
TCCCATCCTTCTTGCTCACTAAACGTTTTCCATCTCTATGGAAGCCATCCCTTGAAACCTCCATA
AGTTTCCCAAAATAACTTCAATTATCATGCGTTGGTACACTTTTTCATAAGATTTTTTC
Found at i:9325456 original size:35 final size:36
Alignment explanation
Indices: 9325408--9325508 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 36
9325398 CATAGCTAGA
* * *
9325408 ATCATCCTATGCACTCCTACACCACACAAGGCA-AT
1 ATCATCATGTGCACTCCCACACCACACAAGGCATAT
* * *
9325443 ATCATCATGTGCACTCCCACATCGCACATGGCATAT
1 ATCATCATGTGCACTCCCACACCACACAAGGCATAT
* *
9325479 ATCATCAGTGTGTGCACTCACACAGCACAC
1 ATCATCA---TGTGCACTCCCACACCACAC
9325509 CACTATCACG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 27 0.51
36 9 0.17
39 17 0.32
ACGTcount: A:0.31, C:0.35, G:0.13, T:0.22
Consensus pattern (36 bp):
ATCATCATGTGCACTCCCACACCACACAAGGCATAT
Found at i:9325484 original size:36 final size:36
Alignment explanation
Indices: 9325376--9325490 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 36
9325366 TCTCACCAGC
* * * *
9325376 TCATGGGCACTTCCACACCGCACATAGC-TAGAATCA
1 TCATGTGCACTCCCACACCGCACATGGCATA-TATCA
* * * * *
9325412 TCCTATGCACTCCTACACCACACAAGGCA-ATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
*
9325447 TCATGTGCACTCCCACATCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
9325483 TCAGTGTG
1 TCA-TGTG
9325491 TGCACTCACA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
35 27 0.44
36 30 0.49
37 4 0.07
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.23
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCA
Found at i:9325543 original size:52 final size:52
Alignment explanation
Indices: 9325465--9325569 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
9325455 ACTCCCACAT
*
9325465 CGCACATGGCATATATCATCAGTGTGTGCACTCACACAGCACACCACTATCA
1 CGCACATGGCATATATCATCAATGTGTGCACTCACACAGCACACCACTATCA
9325517 CGCACATGGCATATATCATCAATGTGTGCACTCACACAGCACACCACTATCA
1 CGCACATGGCATATATCATCAATGTGTGCACTCACACAGCACACCACTATCA
9325569 C
1 C
9325570 CGTCATGTGC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.33, G:0.14, T:0.21
Consensus pattern (52 bp):
CGCACATGGCATATATCATCAATGTGTGCACTCACACAGCACACCACTATCA
Found at i:9326403 original size:19 final size:19
Alignment explanation
Indices: 9326368--9326424 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
9326358 AAGTTAGGAG
*
9326368 AAGGAAAGAGTAAGAAAGA-A
1 AAGGAAAGA-AAAGAAA-ACA
9326388 AAGGAAAGAAAAGAAAACA
1 AAGGAAAGAAAAGAAAACA
*
9326407 AGGGAAAGAAAATGAAAA
1 AAGGAAAGAAAA-GAAAA
9326425 ATCTTGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 18 0.55
20 14 0.42
ACGTcount: A:0.68, C:0.02, G:0.26, T:0.04
Consensus pattern (19 bp):
AAGGAAAGAAAAGAAAACA
Found at i:9329281 original size:42 final size:41
Alignment explanation
Indices: 9329221--9329316 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
9329211 TTCTTTATAT
* *
9329221 GTTGATG-TGGACCGACTATGTGCGAGTAAGAGTGTACATAA
1 GTTGATGAT-GACCGACTATATGCGAGTAAGAGTGCACATAA
*
9329262 GTTGATGATGACTCGACTATATGCGAGTAGGAGTGCACATAA
1 GTTGATGATGAC-CGACTATATGCGAGTAAGAGTGCACATAA
*
9329304 GCTGATGATGACC
1 GTTGATGATGACC
9329317 CAGCCATGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 11 0.22
42 38 0.78
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (41 bp):
GTTGATGATGACCGACTATATGCGAGTAAGAGTGCACATAA
Found at i:9333322 original size:23 final size:23
Alignment explanation
Indices: 9333296--9333340 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9333286 GTCACTGCAG
9333296 TGACGGGTTTCCATGGACTGCCA
1 TGACGGGTTTCCATGGACTGCCA
*
9333319 TGACGGGTTTCCGTGGACTGCC
1 TGACGGGTTTCCATGGACTGCC
9333341 TATTAGAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (23 bp):
TGACGGGTTTCCATGGACTGCCA
Found at i:9335907 original size:35 final size:35
Alignment explanation
Indices: 9335862--9335934 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
9335852 GGGGTGCGTG
*
9335862 TGATGATATTGAAATGTGTGTGTAGGGAGTGCACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
*** *
9335897 TGATGATATTGCCTTGTGCGTGTAGGGAGTGTACA
1 TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
9335932 TGA
1 TGA
9335935 GCTGAGTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.33
Consensus pattern (35 bp):
TGATGATATTGAAATGTGCGTGTAGGGAGTGCACA
Found at i:9359650 original size:22 final size:22
Alignment explanation
Indices: 9359625--9359667 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9359615 AGAGTTTCTC
9359625 GCTGCAGCGAGAATCCTTTTTT
1 GCTGCAGCGAGAATCCTTTTTT
*
9359647 GCTGCAGCGAGAATTCTTTTT
1 GCTGCAGCGAGAATCCTTTTT
9359668 CGTTCCACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (22 bp):
GCTGCAGCGAGAATCCTTTTTT
Found at i:9365020 original size:39 final size:38
Alignment explanation
Indices: 9364928--9365030 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 38
9364918 TAACTGTGTG
* *
9364928 TGTGCACGATGTAGGGGGATGTACACGATGGCACTGAT
1 TGTGCACGATGTAGGGGGATGCACACGATGGCACGGAT
* * *
9364966 TGTGCATGATGT-GGGGGATGCACACGATGGCGCCGGCT
1 TGTGCACGATGTAGGGGGATGCACACGATGGC-ACGGAT
*
9365004 ATGTGCACGATGTGGGGGGAATGCACA
1 -TGTGCACGATGTAGGGGG-ATGCACA
9365031 TGAGCCGGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
37 18 0.33
38 14 0.25
39 11 0.20
40 5 0.09
41 7 0.13
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (38 bp):
TGTGCACGATGTAGGGGGATGCACACGATGGCACGGAT
Found at i:9365101 original size:2 final size:2
Alignment explanation
Indices: 9365094--9365127 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9365084 TCTATGCTTN
9365094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9365128 GTCTTCATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9366944 original size:41 final size:40
Alignment explanation
Indices: 9366887--9366994 Score: 171
Period size: 41 Copynumber: 2.6 Consensus size: 40
9366877 CAAAAGTGTG
*
9366887 GATGATGATATTGCTTGTGCAAGATGTGGGGGGATGCACA
1 GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACA
*
9366927 CGATGATGATATCGCTTGTGCACGATGTGGGGGGATGCACA
1 -GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACA
*
9366968 AAGTGATGATATTGCTTGTGCACGATG
1 GA-TGATGATATTGCTTGTGCACGATG
9366995 ATTCGGCTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 61 0.98
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.28
Consensus pattern (40 bp):
GATGATGATATTGCTTGTGCACGATGTGGGGGGATGCACA
Found at i:9367080 original size:54 final size:54
Alignment explanation
Indices: 9366998--9367206 Score: 301
Period size: 54 Copynumber: 3.9 Consensus size: 54
9366988 CACGATGATT
* *
9366998 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTAGGTGAGATAAGGTGTC
1 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTC
* *
9367052 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGTTGGGTGAGATGGGGTGTC
1 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTC
* ** * * *
9367106 TGGCTATGTGCATAATGTGGAGGGATGCACATGAGTTGGGTGAGACGAGGTGTC
1 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTC
* * *
9367160 CGGTTATGTGCGCGATGTGGGGGGATGCACATGCGCTGGGTGAGATG
1 CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATG
9367207 GTGGTGTATG
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.19, C:0.13, G:0.44, T:0.24
Consensus pattern (54 bp):
CGGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGGGTGAGATGAGGTGTC
Found at i:9368959 original size:20 final size:21
Alignment explanation
Indices: 9368911--9368961 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
9368901 GCTATAAATA
*
9368911 TCATTTTCCAATAGCTTTTCT
1 TCATTTTCCAATAGCTTCTCT
9368932 TCAGTTTTCCAATAGCTTCTCT
1 TCA-TTTTCCAATAGCTTCTCT
*
9368954 TCTTTTTC
1 TCATTTTC
9368962 TTCCTCCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.16, C:0.25, G:0.06, T:0.53
Consensus pattern (21 bp):
TCATTTTCCAATAGCTTCTCT
Found at i:9369426 original size:2 final size:2
Alignment explanation
Indices: 9369419--9369460 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9369409 TAGGATGCTG
9369419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9369461 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9369739 original size:2 final size:2
Alignment explanation
Indices: 9369732--9369779 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
9369722 NNNNNNNNNN
9369732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9369774 AT AT AT
1 AT AT AT
9369780 GTTGTGTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9388616 original size:37 final size:37
Alignment explanation
Indices: 9388562--9388682 Score: 199
Period size: 37 Copynumber: 3.3 Consensus size: 37
9388552 TGAGGTTGGG
*
9388562 TGATGAT-ATTGAGGTGTGAGAGTAGGGAGTGCACACA
1 TGATGATGATTGA-GTGTGCGAGTAGGGAGTGCACACA
9388599 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
* *
9388636 TGACGATGATGGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
9388673 TGATGATGAT
1 TGATGATGAT
9388683 GTATGTATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
37 74 0.94
38 5 0.06
ACGTcount: A:0.28, C:0.10, G:0.38, T:0.24
Consensus pattern (37 bp):
TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:9396023 original size:37 final size:37
Alignment explanation
Indices: 9395969--9396163 Score: 293
Period size: 37 Copynumber: 5.3 Consensus size: 37
9395959 TGAGGTTGGG
*
9395969 TGATGAT-ATTGAGGTGTGCGAGTAGGGAGTGCACAGA
1 TGATGATGATTGA-GTGTGCGAGTAGGGAGTGCACACA
*
9396006 TGATGATGATTGAGTGTGCTAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
** * *
9396043 TGACAATGATGGAGTGTACGAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
9396080 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
* * *
9396117 TGACGATGATGGAGTGTGCGAGTAGGGAGTGCATACA
1 TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
9396154 TGATGATGAT
1 TGATGATGAT
9396164 GTATGTATAT
Statistics
Matches: 142, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
37 137 0.96
38 5 0.04
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.24
Consensus pattern (37 bp):
TGATGATGATTGAGTGTGCGAGTAGGGAGTGCACACA
Found at i:9397321 original size:92 final size:92
Alignment explanation
Indices: 9397164--9397349 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
9397154 TTGTTAAGAT
* *
9397164 ACATGTTGTAGACAATGTATATACACTTGTTTAGTATGCCAGTATGAGATGGCAATGTGTAGTAT
1 ACATGTTGTAGACAATGTATATACACTTGTTTAGTATGCCAATATGAGATGGCAATATGTAGTAT
9397229 TATTTTGATTCTAAGTTATGAAATGTG
66 TATTTTGATTCTAAGTTATGAAATGTG
*
9397256 ACATGTTGTAGACAATGTATATACACTTGTTTGGTATGCCAATATGAGATGGCAATATGTAGTAT
1 ACATGTTGTAGACAATGTATATACACTTGTTTAGTATGCCAATATGAGATGGCAATATGTAGTAT
9397321 TATTTTGATTCTAAGTTATGAAATGTG
66 TATTTTGATTCTAAGTTATGAAATGTG
9397348 AC
1 AC
9397350 TTAGCAATTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (92 bp):
ACATGTTGTAGACAATGTATATACACTTGTTTAGTATGCCAATATGAGATGGCAATATGTAGTAT
TATTTTGATTCTAAGTTATGAAATGTG
Found at i:9397916 original size:35 final size:35
Alignment explanation
Indices: 9397877--9398020 Score: 243
Period size: 35 Copynumber: 4.1 Consensus size: 35
9397867 TTCACTCAGC
* *
9397877 TCATGTACACTCCTTACACACACATTTCAATATCA
1 TCATGTGCACTCCCTACACACACATTTCAATATCA
*
9397912 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACACACATTTCAATATCA
9397947 TCATGTGCACTCCCTACACACACATTTCAATATCA
1 TCATGTGCACTCCCTACACACACATTTCAATATCA
* *
9397982 TCATGTGCACTCCCTACTCACACATTTCAGTATCA
1 TCATGTGCACTCCCTACACACACATTTCAATATCA
9398017 TCAT
1 TCAT
9398021 ACACATTCTC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 103 1.00
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.31
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACACACATTTCAATATCA
Found at i:9398955 original size:20 final size:21
Alignment explanation
Indices: 9398930--9398971 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9398920 GAAGAAAAAA
*
9398930 AAGAAGTTGCTGGAAA-TTAG
1 AAGAAGTTGCTAGAAACTTAG
9398950 AAGAAGTTGCTAGAAACTTAG
1 AAGAAGTTGCTAGAAACTTAG
9398971 A
1 A
9398972 TATTTATGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (21 bp):
AAGAAGTTGCTAGAAACTTAG
Found at i:9402682 original size:13 final size:14
Alignment explanation
Indices: 9402664--9402701 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
9402654 ACCCGAGAGG
9402664 AAGAAAAAAGA-AA
1 AAGAAAAAAGAGAA
9402677 AAGAAAAAAGAGAA
1 AAGAAAAAAGAGAA
*
9402691 ACGAAAGAAAG
1 AAGAAA-AAAG
9402702 GCTCGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 7 0.32
15 4 0.18
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGAGAA
Found at i:9404396 original size:11 final size:13
Alignment explanation
Indices: 9404379--9404411 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
9404369 ACGATTGACA
9404379 CTTTTGAAAT-AG
1 CTTTTGAAATGAG
9404391 -TTTTGAAATGAG
1 CTTTTGAAATGAG
9404403 CTTTTGAAA
1 CTTTTGAAA
9404412 ACCCAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.47
12 2 0.11
13 8 0.42
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (13 bp):
CTTTTGAAATGAG
Found at i:9409482 original size:42 final size:43
Alignment explanation
Indices: 9409396--9409486 Score: 132
Period size: 42 Copynumber: 2.1 Consensus size: 43
9409386 TCATCATCAT
*
9409396 CATCGGCTTATGCGCACTCCCTACTCGCACATAGTCCGGTCAA
1 CATCGGCTTATGCGCACTCCCTACTCACACATAGTCCGGTCAA
* *
9409439 CATCGGTTTATGGGCACTCCC-ACTCACACATAG-CCGGGTCAA
1 CATCGGCTTATGCGCACTCCCTACTCACACATAGTCC-GGTCAA
9409481 CATCGG
1 CATCGG
9409487 GTCAGCATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.05
42 23 0.52
43 19 0.43
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (43 bp):
CATCGGCTTATGCGCACTCCCTACTCACACATAGTCCGGTCAA
Found at i:9409530 original size:42 final size:42
Alignment explanation
Indices: 9409483--9409574 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
9409473 CGGGTCAACA
9409483 TCGGGTCAGCAT-TGACTTATGCACACTCCCACTCACACATAG
1 TCGGGTCAGCATCTG-CTTATGCACACTCCCACTCACACATAG
* ** * *
9409525 TCGGGTTAGCATCTGCTTATGTGCACTCCTACTCGCACATAG
1 TCGGGTCAGCATCTGCTTATGCACACTCCCACTCACACATAG
9409567 -CTGGGTCA
1 TC-GGGTCA
9409575 ATATCATTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 39 0.93
43 2 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (42 bp):
TCGGGTCAGCATCTGCTTATGCACACTCCCACTCACACATAG
Found at i:9409545 original size:95 final size:96
Alignment explanation
Indices: 9409402--9409575 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 96
9409392 TCATCATCGG
* * *
9409402 CTTATGCGCACTCCCTACTCGCACATAGTCCGGTCAACATCGGTTTATGGGCACTCCCACTCACA
1 CTTATGCACACTCCCTACTCACACATAGTCCGGTCAACATCGGCTTATGGGCACTCCCACTCACA
9409467 CATAGCCGGGTCAACATCGGGTCAGCATTGA
66 CATAGCCGGGTCAACATCGGGTCAGCATTGA
* * * * * * *
9409498 CTTATGCACACTCCC-ACTCACACATAGTCGGGTTAGCATCTGCTTATGTGCACTCCTACTCGCA
1 CTTATGCACACTCCCTACTCACACATAGTCCGGTCAACATCGGCTTATGGGCACTCCCACTCACA
*
9409562 CATAGCTGGGTCAA
66 CATAGCCGGGTCAA
9409576 TATCATTACA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 53 0.79
96 14 0.21
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (96 bp):
CTTATGCACACTCCCTACTCACACATAGTCCGGTCAACATCGGCTTATGGGCACTCCCACTCACA
CATAGCCGGGTCAACATCGGGTCAGCATTGA
Found at i:9422110 original size:57 final size:55
Alignment explanation
Indices: 9422047--9422156 Score: 166
Period size: 57 Copynumber: 2.0 Consensus size: 55
9422037 CCAAAGTAGA
* * *
9422047 ATGCATGTGATAGATTTATATTATATCATTTAATAAATGCTATGCGATGCAAAGAAT
1 ATGCATGAGATAGATTTATATTATA-CAATTAATAAATACTATGC-ATGCAAAGAAT
*
9422104 ATGCATGAGATAGATTTATTTTATACAATTAATAAATACTATGCATGCAAAGA
1 ATGCATGAGATAGATTTATATTATACAATTAATAAATACTATGCATGCAAAGA
9422157 TGAGACCTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 9 0.18
56 17 0.35
57 23 0.47
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (55 bp):
ATGCATGAGATAGATTTATATTATACAATTAATAAATACTATGCATGCAAAGAAT
Found at i:9435916 original size:44 final size:42
Alignment explanation
Indices: 9435848--9435965 Score: 152
Period size: 39 Copynumber: 2.8 Consensus size: 42
9435838 ATAAGAGACA
* * *
9435848 AAACAGAAAGTTTTTTGCTACAGCGAGATTGAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGC-AGA-TGAATTGTAACCCAG
9435892 AAACAGAAAGTTTCTCGCTGCAGC-GA--AATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCAGATGAATTGTAACCCAG
9435931 AAACAGAAAGTTTCTCGCTGCAGCAAGAATGAATT
1 AAACAGAAAGTTTCTCGCTGCAGC-AG-ATGAATT
9435966 TCACTGCAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
39 37 0.56
41 1 0.02
42 3 0.05
44 25 0.38
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (42 bp):
AAACAGAAAGTTTCTCGCTGCAGCAGATGAATTGTAACCCAG
Found at i:9440545 original size:2 final size:2
Alignment explanation
Indices: 9440499--9440535 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9440489 ACAAGCAAAC
9440499 AT AT AT AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9440536 AACCATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9440589 original size:4 final size:4
Alignment explanation
Indices: 9440580--9440612 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
9440570 AATCACATTC
*
9440580 ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
9440613 GTTCTCTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:9443057 original size:16 final size:16
Alignment explanation
Indices: 9443021--9443059 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9443011 AAGGTGGTGC
* *
9443021 ATGAAAGGAAATGCAT
1 ATGAAATGAAATGCAA
*
9443037 GTGAAATGAAATGCAA
1 ATGAAATGAAATGCAA
9443053 ATGAAAT
1 ATGAAAT
9443060 AAACCAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (16 bp):
ATGAAATGAAATGCAA
Found at i:9443443 original size:14 final size:14
Alignment explanation
Indices: 9443424--9443453 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9443414 GGAGGGAAAG
9443424 AAAGAGAAAGAAGA
1 AAAGAGAAAGAAGA
*
9443438 AAAGAGAAAGGAGA
1 AAAGAGAAAGAAGA
9443452 AA
1 AA
9443454 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAAGAGAAAGAAGA
Found at i:9443453 original size:21 final size:20
Alignment explanation
Indices: 9443422--9443461 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
9443412 AAGGAGGGAA
9443422 AGAAAGAGAAAGAAGAAAAG
1 AGAAAGAGAAAGAAGAAAAG
9443442 AGAAAGGAGAAAGAAGAAAA
1 AGAAA-GAGAAAGAAGAAAA
9443462 AGGCTTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
AGAAAGAGAAAGAAGAAAAG
Found at i:9444271 original size:28 final size:30
Alignment explanation
Indices: 9444230--9444289 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
9444220 ATCTATGGGC
9444230 AATTTTTCAATTTT-T-GGGGTAAAAATGT
1 AATTTTTCAATTTTATGGGGGTAAAAATGT
* * *
9444258 AATTTTTGACTTTTATGGGGGTAAAAGTGT
1 AATTTTTCAATTTTATGGGGGTAAAAATGT
9444288 AA
1 AA
9444290 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 14 0.52
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (30 bp):
AATTTTTCAATTTTATGGGGGTAAAAATGT
Found at i:9473292 original size:30 final size:30
Alignment explanation
Indices: 9473236--9473292 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
9473226 AAGCCCTCAT
* *
9473236 CTTTCTATTTCATTCAATTAAGCCCTTAAA
1 CTTTCTATTTCATTCAAATAAACCCTTAAA
*
9473266 CTTT-TATTTTATATCAAATAAACCCTT
1 CTTTCTATTTCAT-TCAAATAAACCCTT
9473293 CTCACTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.30
30 16 0.70
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.46
Consensus pattern (30 bp):
CTTTCTATTTCATTCAAATAAACCCTTAAA
Found at i:9476470 original size:21 final size:21
Alignment explanation
Indices: 9476444--9476489 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
9476434 ATGGGAACGA
9476444 TACTCTATTTCATCACTATAT
1 TACTCTATTTCATCACTATAT
9476465 TACTCTATTTCATCACTATAT
1 TACTCTATTTCATCACTATAT
9476486 TACT
1 TACT
9476490 TGTTTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (21 bp):
TACTCTATTTCATCACTATAT
Found at i:9481733 original size:67 final size:68
Alignment explanation
Indices: 9481655--9481889 Score: 300
Period size: 67 Copynumber: 3.5 Consensus size: 68
9481645 AAGTTAATTG
*
9481655 TTGGGTTTTGGTTGATCTCAGT-AAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCAGTGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
9481719 ACT
66 ACT
* * * *
9481722 TTGGGTTTTGGTTGATGCC-GTGAAAAACCATTGTTGTAGGCTGTGGTTAAGCCTTTGAGAAACC
1 TTGGGTTTTGGTTGATCCCAGTGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
9481786 ACT
66 ACT
** * * * * *
9481789 TTACGTTTTGGTTGAGCCCA-TGAAAAACTATCG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAAT
1 TTGGGTTTTGGTTGATCCCAGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAAC
9481852 CACT
65 CACT
* *
9481856 TTGGGTTTCGGTTGATCCCGGT-AAAAACCATTGT
1 TTGGGTTTTGGTTGATCCCAGTGAAAAACCATTGT
9481890 GAAAGGTTTT
Statistics
Matches: 140, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
66 4 0.03
67 135 0.96
68 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCAGTGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
ACT
Found at i:9481746 original size:32 final size:34
Alignment explanation
Indices: 9481653--9481757 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 34
9481643 AAAAGTTAAT
*
9481653 TGTTGGGTTTTGGTTGAT-CTCAGT-AAAAACCAT
1 TGTTGGGTTTTGGTTGATGC-CAGTGAAAAACCAC
* **
9481686 TGTTGTAGGTTGTGGTTGA-GCCTTTGAAAAACCAC
1 TGTTG--GGTTTTGGTTGATGCCAGTGAAAAACCAC
*
9481721 T-TTGGGTTTTGGTTGATGCC-GTGAAAAACCAT
1 TGTTGGGTTTTGGTTGATGCCAGTGAAAAACCAC
9481753 TGTTG
1 TGTTG
9481758 TAGGCTGTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
32 22 0.37
33 11 0.19
34 5 0.08
35 21 0.36
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (34 bp):
TGTTGGGTTTTGGTTGATGCCAGTGAAAAACCAC
Found at i:9481785 original size:35 final size:35
Alignment explanation
Indices: 9481677--9481850 Score: 121
Period size: 35 Copynumber: 5.1 Consensus size: 35
9481667 TGATCTCAGT
*
9481677 AAAAACCATTGTTGTAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATTGTTGTAGGTTGTGGTTAAGCCTTTG
* * * *
9481712 AAAAACCACT-TTG--GGTTTTGGTTGATGCC-GTG
1 AAAAACCATTGTTGTAGGTTGTGGTT-AAGCCTTTG
*
9481744 AAAAACCATTGTTGTAGGCTGTGGTTAAGCCTTTG
1 AAAAACCATTGTTGTAGGTTGTGGTTAAGCCTTTG
* * * * * **
9481779 AGAAACCA--CTT-TACGTTTTGGTTGAGCCCATG
1 AAAAACCATTGTTGTAGGTTGTGGTTAAGCCTTTG
* * * *
9481811 AAAAACTATCG-TGAAAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATTGTTG-TAGGTTGTGGTTAAGCCTTTG
9481846 AAAAA
1 AAAAA
9481851 TCACTTTGGG
Statistics
Matches: 104, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
32 41 0.39
33 9 0.09
34 7 0.07
35 47 0.45
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (35 bp):
AAAAACCATTGTTGTAGGTTGTGGTTAAGCCTTTG
Found at i:9486451 original size:13 final size:13
Alignment explanation
Indices: 9486433--9486457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9486423 TTCCAGAAAA
9486433 TTTATAAAATCAT
1 TTTATAAAATCAT
9486446 TTTATAAAATCA
1 TTTATAAAATCA
9486458 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9491849 original size:14 final size:15
Alignment explanation
Indices: 9491819--9491851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9491809 AATATTTAAA
*
9491819 TCTGTTATTGAAGTT
1 TCTGTCATTGAAGTT
9491834 TCTGTCATTG-AGTT
1 TCTGTCATTGAAGTT
9491848 TCTG
1 TCTG
9491852 CTGCTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.52
Consensus pattern (15 bp):
TCTGTCATTGAAGTT
Found at i:9492085 original size:2 final size:2
Alignment explanation
Indices: 9492080--9492119 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9492070 ATATATTTGC
9492080 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9492120 TCTGAATGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9492214 original size:17 final size:17
Alignment explanation
Indices: 9492187--9492239 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
9492177 AAGTAAAATA
9492187 AGCACACACTAAAGGGG
1 AGCACACACTAAAGGGG
* * *
9492204 ATCACATACTAAGGGGG
1 AGCACACACTAAAGGGG
*
9492221 AGCACACACTTAAGGGG
1 AGCACACACTAAAGGGG
9492238 AG
1 AG
9492240 GGAAACCTCC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.11
Consensus pattern (17 bp):
AGCACACACTAAAGGGG
Found at i:9493226 original size:35 final size:34
Alignment explanation
Indices: 9493187--9493380 Score: 137
Period size: 35 Copynumber: 5.7 Consensus size: 34
9493177 TTGGGTTTTA
9493187 GTTGATCCCAAT-AAAAACCATTATTGTAGGTTGTG
1 GTTGATCCC-ATGAAAAACCATT-TTGTAGGTTGTG
* ** * *
9493222 GTTGAGCCTTTGAAAAACCACTTTG--GGTTTTG
1 GTTGATCCCATGAAAAACCATTTTGTAGGTTGTG
*
9493254 GTTAATCCCATGAAAAACCATTGTTGTAGGTTGTG
1 GTTGATCCCATGAAAAACCATT-TTGTAGGTTGTG
* ** ** *
9493289 GTTGAACCTTTGAAAAACCACCTT-T-GGTTTTG
1 GTTGATCCCATGAAAAACCATTTTGTAGGTTGTG
* * * *
9493321 GTTGAGCCTATGAAAAACCATTGTGAAAGGTTGTG
1 GTTGATCCCATGAAAAACCATTTTG-TAGGTTGTG
* ***
9493356 GTTGAGCTTTTGAAAAACCATTTTG
1 GTTGATCCCATGAAAAACCATTTTG
9493381 GGTTTCAGTT
Statistics
Matches: 124, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
32 48 0.39
33 4 0.03
34 6 0.05
35 66 0.53
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (34 bp):
GTTGATCCCATGAAAAACCATTTTGTAGGTTGTG
Found at i:9493262 original size:67 final size:66
Alignment explanation
Indices: 9493177--9493394 Score: 278
Period size: 67 Copynumber: 3.3 Consensus size: 66
9493167 AAGTTAGTTG
*
9493177 TTGGGTTTTAGTTGATCCCAAT-AAAAACCATTATTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCC-ATGAAAAACCATT-TTGTAGGTTGTGGTTGAGCCTTTGAAAAACC
9493241 ACT
64 ACT
* *
9493244 TTGGGTTTTGGTTAATCCCATGAAAAACCATTGTTGTAGGTTGTGGTTGAACCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCATGAAAAACCATT-TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
9493309 CCT
65 -CT
* * * * *
9493312 TT-GGTTTTGGTTGAGCCTATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCTTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCATGAAAAACCATTTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACCA
*
9493376 TT
65 CT
**
9493378 TTGGGTTTCAGTTGATC
1 TTGGGTTTTGGTTGATC
9493395 TCGATAAAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
66 7 0.05
67 121 0.92
68 4 0.03
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (66 bp):
TTGGGTTTTGGTTGATCCCATGAAAAACCATTTTGTAGGTTGTGGTTGAGCCTTTGAAAAACCAC
T
Found at i:9493268 original size:32 final size:31
Alignment explanation
Indices: 9493232--9493340 Score: 103
Period size: 32 Copynumber: 3.3 Consensus size: 31
9493222 GTTGAGCCTT
*
9493232 TGAAAAACCACTTTGGGTTTTGGTTAATCCCA
1 TGAAAAACCACTTTGGGTTTTGGTTAA-CCTA
* * *
9493264 TGAAAAACCATTGTTGTAGGTTGTGGTTGAACCTT
1 TGAAAAACCACT-TTG--GGTTTTGGTT-AACCTA
*
9493299 TGAAAAACCACCTTT-GGTTTTGGTTGAGCCTA
1 TGAAAAACCA-CTTTGGGTTTTGGTT-AACCTA
9493331 TGAAAAACCA
1 TGAAAAACCA
9493341 TTGTGAAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
32 35 0.55
33 3 0.05
35 23 0.36
36 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (31 bp):
TGAAAAACCACTTTGGGTTTTGGTTAACCTA
Done.