Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 377 of 427
Found at i:109638345 original size:216 final size:216
Alignment explanation
Indices: 109637958--109638432 Score: 905
Period size: 216 Copynumber: 2.2 Consensus size: 216
109637948 TGCTAATACG
* *
109637958 TACTTCATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATATATATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
109638023 TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAAACATGTATCTC
66 TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAAACATGTATCTC
* *
109638088 ATTACAATAATAGTTATTTTCCAAATAACATGTTGTTTTATAATTTTATTTCTTATTTAATATTT
131 ATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATTTTATTTCTTATTTAATATTT
109638153 TAATTTAATTTTAATAATGCA
196 TAATTTAATTTTAATAATGCA
*
109638174 TACTTTATCCGGATGAAGTATGTATTAGCAGATTTAGTAATATGATTATATATATATATATATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
109638239 TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAAACATGTATCTC
66 TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAAACATGTATCTC
109638304 ATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATTTTATTTCTTATTTAATATTT
131 ATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATTTTATTTCTTATTTAATATTT
109638369 TAATTTAATTTTAATAATGCA
196 TAATTTAATTTTAATAATGCA
109638390 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATAT
109638433 CTAGTTGGAC
Statistics
Matches: 253, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
216 253 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.43
Consensus pattern (216 bp):
TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAAACATGTATCTC
ATTACAATAATAGTTATTTTCCAAATAACATATTATTTTATAATTTTATTTCTTATTTAATATTT
TAATTTAATTTTAATAATGCA
Found at i:109641064 original size:28 final size:28
Alignment explanation
Indices: 109641025--109641078 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
109641015 TTATTTAAAA
109641025 TTTATTCCTACCAAACAATATAATTAAT
1 TTTATTCCTACCAAACAATATAATTAAT
* * *
109641053 TTTATTCTTACCAAATAATCTAATTA
1 TTTATTCCTACCAAACAATATAATTA
109641079 TAATCCATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTATTCCTACCAAACAATATAATTAAT
Found at i:109643981 original size:22 final size:21
Alignment explanation
Indices: 109643951--109643997 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
109643941 TACAAATTAA
109643951 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
109643973 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
109643994 ATCT
1 ATCT
109643998 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:109643991 original size:16 final size:16
Alignment explanation
Indices: 109643970--109644020 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
109643960 ATTACAAGAT
109643970 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
109643986 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
109644005 CATATACTTAAAGATT
1 CATAT-CTTCAAGATT
109644021 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:109644003 original size:19 final size:21
Alignment explanation
Indices: 109643968--109644009 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
109643958 AGATTACAAG
109643968 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
109643989 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
109644008 AT
1 AT
109644010 ACTTAAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:109648210 original size:46 final size:46
Alignment explanation
Indices: 109648158--109648385 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
109648148 AGTGTGCTCT
109648158 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
109648204 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
109648250 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
109648296 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
109648342 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
109648386 TCACGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:109648691 original size:23 final size:25
Alignment explanation
Indices: 109648646--109648692 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
109648636 AATAAATATA
*
109648646 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
109648671 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
109648693 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:109650315 original size:16 final size:16
Alignment explanation
Indices: 109650294--109650348 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
109650284 TCTTTTTTCC
109650294 TTTTTCCTTTTCTTTT
1 TTTTTCCTTTTCTTTT
109650310 TTTTTCCTTTTC-TTT
1 TTTTTCCTTTTCTTTT
* * *
109650325 CTTTCCCTTTTATTTT
1 TTTTTCCTTTTCTTTT
109650341 TTCTTTCC
1 TT-TTTCC
109650349 CAAGCTACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 12 0.38
16 16 0.50
17 4 0.12
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTCCTTTTCTTTT
Found at i:109654924 original size:7 final size:7
Alignment explanation
Indices: 109654912--109655084 Score: 77
Period size: 7 Copynumber: 24.7 Consensus size: 7
109654902 TATTTAACTT
109654912 TAAACCC
1 TAAACCC
109654919 TAAACCC
1 TAAACCC
*
109654926 TAAAACTC
1 T-AAACCC
*
109654934 TAAACCA
1 TAAACCC
*
109654941 TAAA-CA
1 TAAACCC
* *
109654947 TAAAACA
1 TAAACCC
109654954 TAAACCC
1 TAAACCC
*
109654961 TAAACCA
1 TAAACCC
*
109654968 TCAA-CC
1 TAAACCC
*
109654974 TAAAACAC
1 T-AAACCC
*
109654982 TAAA-CT
1 TAAACCC
109654988 TAAA-CC
1 TAAACCC
*
109654994 TAAACCA
1 TAAACCC
109655001 TAAACCC
1 TAAACCC
*
109655008 TAAACAC
1 TAAACCC
*
109655015 TAAACCA
1 TAAACCC
***
109655022 TAAAATTA
1 T-AAACCC
**
109655030 TAAAACTA
1 T-AAACCC
* *
109655038 TAAAATCA
1 T-AAACCC
109655046 TAAACCC
1 TAAACCC
109655053 T-AACCC
1 TAAACCC
*
109655059 TAAACCT
1 TAAACCC
*
109655066 TAAACCT
1 TAAACCC
109655073 TAAACCC
1 TAAACCC
109655080 TAAAC
1 TAAAC
109655085 TTAAAATATT
Statistics
Matches: 132, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
6 23 0.17
7 83 0.63
8 26 0.20
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:109654945 original size:14 final size:13
Alignment explanation
Indices: 109654912--109655025 Score: 95
Period size: 14 Copynumber: 8.3 Consensus size: 13
109654902 TATTTAACTT
*
109654912 TAAACCCTAAACCC
1 TAAA-CCTAAACCA
109654926 TAAAACTCTAAACCA
1 T-AAAC-CTAAACCA
* *
109654941 TAAACATAAAACA
1 TAAACCTAAACCA
109654954 TAAACCCTAAACCA
1 TAAA-CCTAAACCA
* *
109654968 TCAACCTAAAACA
1 TAAACCTAAACCA
*
109654981 CTAAACTTAAACC-
1 -TAAACCTAAACCA
*
109654994 TAAACCATAAACCC
1 TAAACC-TAAACCA
109655008 TAAACACTAAACCA
1 TAAAC-CTAAACCA
109655022 TAAA
1 TAAA
109655026 ATTATAAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
12 5 0.06
13 24 0.30
14 40 0.49
15 12 0.15
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAACCTAAACCA
Found at i:109654952 original size:21 final size:20
Alignment explanation
Indices: 109654912--109655084 Score: 98
Period size: 20 Copynumber: 8.2 Consensus size: 20
109654902 TATTTAACTT
* *
109654912 TAAACCCTAAACCCTAAAACTC
1 TAAACCATAAACCAT-AAAC-C
*
109654934 TAAACCATAAA-CATAAAACA
1 TAAACCATAAACCAT-AAACC
* *
109654954 TAAACCCTAAACCATCAACC
1 TAAACCATAAACCATAAACC
* *
109654974 TAAAACACTAAA-CTTAAACC
1 TAAACCA-TAAACCATAAACC
*
109654994 TAAACCATAAACCCTAAACAC
1 TAAACCATAAACCATAAAC-C
** *
109655015 TAAACCATAAAATTATAAAACTA
1 TAAACCAT-AAACCAT-AAAC-C
* * *
109655038 TAAAATCATAAACCCTAACCC
1 T-AAACCATAAACCATAAACC
* *
109655059 TAAACCTTAAACCTTAAACCC
1 TAAACCATAAACCATAAA-CC
109655080 TAAAC
1 TAAAC
109655085 TTAAAATATT
Statistics
Matches: 116, Mismatches: 27, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
19 4 0.03
20 49 0.42
21 31 0.27
22 17 0.15
23 9 0.08
24 6 0.05
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (20 bp):
TAAACCATAAACCATAAACC
Found at i:109654964 original size:27 final size:27
Alignment explanation
Indices: 109654928--109655025 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
109654918 CTAAACCCTA
*
109654928 AAACTCTAAACCATAAACATAAAACAT
1 AAACCCTAAACCATAAACATAAAACAT
* *
109654955 AAACCCTAAACCATCAACCTAAAACACT
1 AAACCCTAAACCATAAACATAAAACA-T
* * *
109654983 AAA-CTTAAACC-TAAACCATAAACCCT
1 AAACCCTAAACCATAAA-CATAAAACAT
*
109655009 AAACACTAAACCATAAA
1 AAACCCTAAACCATAAA
109655026 ATTATAAAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
26 7 0.12
27 42 0.74
28 8 0.14
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (27 bp):
AAACCCTAAACCATAAACATAAAACAT
Found at i:109655001 original size:33 final size:34
Alignment explanation
Indices: 109654919--109655025 Score: 114
Period size: 34 Copynumber: 3.1 Consensus size: 34
109654909 CTTTAAACCC
*
109654919 TAAACCCTAAAACTC-TAAACCATAAACA-TAAAACA
1 TAAACCCT-AAAC-CATAAACCCTAAACACT-AAACA
* *
109654954 TAAACCCTAAACCATCAA-CCTAAAACACTAAACT
1 TAAACCCTAAACCATAAACCCT-AAACACTAAACA
109654988 TAAA-CCTAAACCATAAACCCTAAACACTAAACCA
1 TAAACCCTAAACCATAAACCCTAAACACTAAA-CA
109655022 TAAA
1 TAAA
109655026 ATTATAAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
33 25 0.40
34 28 0.45
35 9 0.15
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (34 bp):
TAAACCCTAAACCATAAACCCTAAACACTAAACA
Found at i:109655040 original size:16 final size:16
Alignment explanation
Indices: 109655016--109655049 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
109655006 CCTAAACACT
*
109655016 AAACCATAAAATTATA
1 AAACCATAAAATCATA
*
109655032 AAACTATAAAATCATA
1 AAACCATAAAATCATA
109655048 AA
1 AA
109655050 CCCTAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACCATAAAATCATA
Found at i:109655071 original size:20 final size:20
Alignment explanation
Indices: 109655046--109655089 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
109655036 TATAAAATCA
109655046 TAAACCCT-AACCCTAAACCT
1 TAAACCCTAAACCCTAAA-CT
*
109655066 TAAACCTTAAACCCTAAACT
1 TAAACCCTAAACCCTAAACT
109655086 TAAA
1 TAAA
109655090 ATATTAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACCCTAAACCCTAAACT
Found at i:109655829 original size:18 final size:18
Alignment explanation
Indices: 109655803--109655837 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
109655793 GAGTTAAACG
*
109655803 AATCAAGTTATTTGAGTT
1 AATCAAGTTATTCGAGTT
*
109655821 AATCGAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
109655838 CAACTAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:109659536 original size:31 final size:31
Alignment explanation
Indices: 109659465--109659525 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
109659455 AACCCGCACG
109659465 CCCATGTGGCATGCCTGTGTGGGTCCACACT
1 CCCATGTGGCATGCCTGTGTGGGTCCACACT
*
109659496 CCCATGTGGCATGCTTGTGTGGGTCCACAC
1 CCCATGTGGCATGCCTGTGTGGGTCCACAC
109659526 ATCCGTGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.26
Consensus pattern (31 bp):
CCCATGTGGCATGCCTGTGTGGGTCCACACT
Found at i:109665535 original size:3 final size:3
Alignment explanation
Indices: 109665527--109665571 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
109665517 TTTACAGCGC
109665527 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
109665572 TTTGCAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:109667977 original size:39 final size:39
Alignment explanation
Indices: 109667931--109668108 Score: 313
Period size: 39 Copynumber: 4.6 Consensus size: 39
109667921 GCTCTGATGA
*
109667931 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
109667970 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
109668009 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
* *
109668048 GCTTCAATTAGCCTTCGGGCTTCCCTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
*
109668087 GCTT-AGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
109668109 AGATTACAAT
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
38 16 0.12
39 118 0.88
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCCTTTAGCACTTGTGT
Found at i:109668817 original size:4 final size:4
Alignment explanation
Indices: 109668808--109668858 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
109668798 TAATAATAAT
*
109668808 AATA AATA AATA AATA AATA AATA AATA AA-C AA-A AATA AATA AA-A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
109668853 AATA AA
1 AATA AA
109668859 AAAAGTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 7 0.16
4 36 0.84
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:109668823 original size:12 final size:11
Alignment explanation
Indices: 109668794--109668862 Score: 72
Period size: 12 Copynumber: 6.2 Consensus size: 11
109668784 AGTTTTTTTT
109668794 AAAAT-AATAA
1 AAAATAAATAA
109668804 TAATAATAAATAA
1 -AA-AATAAATAA
109668817 ATAAATAAATAA
1 A-AAATAAATAA
*
109668829 ATAAATAAA-CA
1 A-AAATAAATAA
109668840 AAAATAAATAA
1 AAAATAAATAA
109668851 AAAATAAA-AA
1 AAAATAAATAA
109668861 AA
1 AA
109668863 GTAATTATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.21
11 13 0.25
12 22 0.42
13 6 0.12
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:109668844 original size:22 final size:20
Alignment explanation
Indices: 109668805--109668862 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
109668795 AAATAATAAT
* *
109668805 AATAATAAAT-AAATAAATA
1 AATAAAAAATAAAAAAAATA
109668824 AATAAATAAATAAACAAAAATA
1 AATAAA-AAATAAA-AAAAATA
109668846 AATAAAAAATAAAAAAA
1 AATAAAAAATAAAAAAA
109668863 GTAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 9 0.26
22 12 0.35
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAAAATAAAAAAAATA
Found at i:109675666 original size:2 final size:2
Alignment explanation
Indices: 109675659--109675704 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
109675649 ATTGATATTA
109675659 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
109675701 TG TG
1 TG TG
109675705 AACAGATGGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:109679229 original size:6 final size:6
Alignment explanation
Indices: 109679215--109679280 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
109679205 ATTTTATTTG
* * * * *
109679215 TTTTCT TTTTA- TTTTAT GTTTAT GTTTAT GTTTAT TTTTAT TCTTAGTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T
109679264 GTTTTAT TTTTAT TTTT
1 -TTTTAT TTTTAT TTTT
109679281 TTAGACTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 5 0.10
6 40 0.78
7 1 0.02
8 1 0.02
9 4 0.08
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:109680880 original size:148 final size:148
Alignment explanation
Indices: 109680592--109680881 Score: 454
Period size: 148 Copynumber: 2.0 Consensus size: 148
109680582 ACTTTAATGG
* *
109680592 AAGTTATATTTCGAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTAGAAGTATAG
1 AAGTTACATTTCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTAGAAGTATAG
* * *
109680657 TTGTAAATTAATGTGTTTACTATGAGAAATTATTTTATGGACTATTTCCACCACATCATCCATGG
66 TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATGGACTATTTCCACCACATCATCCATAG
*
109680722 TCTTGCCCAATTTCATGA
131 TCCTGCCCAATTTCATGA
* *
109680740 AAGTTACATTTCAAATGTTTTAAAACTGCCATTTTAAGTCTCACTAGTCTTTTTTGGAAGTATAG
1 AAGTTACATTTCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTAGAAGTATAG
* * * * *
109680805 TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATGGACTCTTTCTATCACATTATCTATAG
66 TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATGGACTATTTCCACCACATCATCCATAG
*
109680870 TCCTGGCCAATT
131 TCCTGCCCAATT
109680882 AAAAGAATAC
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
148 128 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (148 bp):
AAGTTACATTTCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTAGAAGTATAG
TTATAAATTAATGTGTTTACCATGAGAAATTATTTTATGGACTATTTCCACCACATCATCCATAG
TCCTGCCCAATTTCATGA
Found at i:109692405 original size:132 final size:132
Alignment explanation
Indices: 109692156--109692422 Score: 329
Period size: 132 Copynumber: 2.0 Consensus size: 132
109692146 ATTATTCATT
* ** *
109692156 TAAAAATTCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCAAAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATATTTGACAATTCGCAAAATCGTACCCTATCGT
* * *
109692221 GCTAGGTTGCAATCTCTCGTTTGCTCAAAATAATCGAATGTCCTTTTAAAATTTTACTCATGTTT
66 GCTAGGTTGCAATCTCCCGTTTGCTCAAAATAATCAAATGTCCTTTTAAAATTTCACTCATGTTT
109692286 TC
131 TC
* * * *** *
109692288 TAAAAACTCTTTAAAACGAAGGAAATGTTTGATGTTTGGCAATTCGGGGAGTCGTACCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATATTTGACAATTCGCAAAATCGTACCCTATCGT
* * ** * * *
109692353 GCTGGGTTGCAATTTCCCGTTTTTTCAAAATAATCAAATATTCC-TTTGAAATTTCACTCGTGTT
66 GCTAGGTTGCAATCTCCCGTTTGCTCAAAATAATCAAAT-GTCCTTTTAAAATTTCACTCATGTT
109692417 TTC
130 TTC
109692420 TAA
1 TAA
109692423 GGCGAGGTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
132 110 0.97
133 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (132 bp):
TAAAAACTCTTTAAAACGAAGGAAATGTTCGATATTTGACAATTCGCAAAATCGTACCCTATCGT
GCTAGGTTGCAATCTCCCGTTTGCTCAAAATAATCAAATGTCCTTTTAAAATTTCACTCATGTTT
TC
Found at i:109700500 original size:2 final size:2
Alignment explanation
Indices: 109700493--109700523 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
109700483 TCTTTTAAAT
109700493 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 T
109700524 TTGATGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109703405 original size:5 final size:5
Alignment explanation
Indices: 109703395--109703420 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
109703385 AAAACTCATA
109703395 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
109703421 GTCATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:109705857 original size:24 final size:24
Alignment explanation
Indices: 109705829--109705876 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
109705819 GTAATTTGTG
109705829 GTTGCATCAGCAAATTAAAATTTT
1 GTTGCATCAGCAAATTAAAATTTT
109705853 GTTGCATCAGCAAATTAAAATTTT
1 GTTGCATCAGCAAATTAAAATTTT
109705877 ACTTCAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
GTTGCATCAGCAAATTAAAATTTT
Found at i:109708469 original size:11 final size:12
Alignment explanation
Indices: 109708453--109708483 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
109708443 AAAAATTACA
109708453 TAATAATTAAAT
1 TAATAATTAAAT
109708465 T-ATAATTAAAT
1 TAATAATTAAAT
109708476 TAATAATT
1 TAATAATT
109708484 TATTCACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATTAAAT
Found at i:109709046 original size:17 final size:18
Alignment explanation
Indices: 109709024--109709062 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
109709014 AAATTACATC
*
109709024 AAATCAAAATTCATGT-T
1 AAATCAAAATTAATGTGT
*
109709041 AAATCAAAGTTAATGTGT
1 AAATCAAAATTAATGTGT
109709059 AAAT
1 AAAT
109709063 TTAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (18 bp):
AAATCAAAATTAATGTGT
Found at i:109709741 original size:31 final size:31
Alignment explanation
Indices: 109709703--109709764 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
109709693 CACCCAATGT
109709703 GTATATACAGTGCATTCATATATGGATTTTA
1 GTATATACAGTGCATTCATATATGGATTTTA
*
109709734 GTATATACAGTGTATTCATATATGGATTTTA
1 GTATATACAGTGCATTCATATATGGATTTTA
109709765 CACCTACCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (31 bp):
GTATATACAGTGCATTCATATATGGATTTTA
Found at i:109727824 original size:16 final size:17
Alignment explanation
Indices: 109727793--109727825 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109727783 TTCATAAGTA
109727793 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
109727810 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
109727826 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:109728171 original size:46 final size:47
Alignment explanation
Indices: 109728111--109728430 Score: 395
Period size: 46 Copynumber: 7.0 Consensus size: 47
109728101 TTTGACATGA
* * * * **
109728111 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* * * *
109728157 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
* *** *
109728203 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
109728249 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
109728295 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
*
109728341 TGCCATGGTATCTTTCAACCTTGGTCTTA--CATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTTCATATCAGGT
* *
109728387 TGCTATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAG
109728431 AGAGCACACT
Statistics
Matches: 249, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 241 0.97
48 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCAGGT
Found at i:109728268 original size:92 final size:92
Alignment explanation
Indices: 109728111--109728423 Score: 448
Period size: 92 Copynumber: 3.4 Consensus size: 92
109728101 TTTGACATGA
* * * * *
109728111 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATATTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* * *
109728176 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATATCAGGT
* *
109728203 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
109728268 CATGGTCTTATTCATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCAGGT
* * * *
109728295 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
109728360 CTTGGTCTTACAT-ATTTCATATCAGGT
66 CATGGTCTTA-TTCATTTCATATCAGGT
* *
109728387 TGCTATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
109728424 ATATCAGAGA
Statistics
Matches: 201, Mismatches: 19, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
92 200 1.00
93 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCAGGT
Found at i:109735387 original size:31 final size:31
Alignment explanation
Indices: 109735347--109735407 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
109735337 TTCCTACATT
*
109735347 AAATTCAACCAAAAACAGCAAATACAGCATG
1 AAATCCAACCAAAAACAGCAAATACAGCATG
* *
109735378 AAATCCAACCAAAAATAGCAAATATAGCAT
1 AAATCCAACCAAAAACAGCAAATACAGCAT
109735408 AAAAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGCAAATACAGCATG
Found at i:109735666 original size:21 final size:21
Alignment explanation
Indices: 109735640--109735680 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109735630 CTGCTCTGTT
*
109735640 CTGCCTCCCTCGCTGTTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
*
109735661 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
109735681 TCCGCTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.51, G:0.20, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:109736560 original size:18 final size:18
Alignment explanation
Indices: 109736521--109736601 Score: 119
Period size: 18 Copynumber: 4.5 Consensus size: 18
109736511 AATGATATGT
109736521 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
109736538 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
*
109736556 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
109736574 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
109736593 AATCTTAGA
1 AATCTTAGA
109736602 AGATATGATT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
17 13 0.22
18 34 0.59
19 11 0.19
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:109737127 original size:15 final size:16
Alignment explanation
Indices: 109737084--109737142 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
109737074 CAATATATTT
*
109737084 TATATCTTTTATATAA
1 TATATTTTTTATATAA
109737100 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
109737116 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
109737134 TTATATTTT
1 -TATATTTT
109737143 AAATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
15 6 0.17
16 10 0.29
17 10 0.29
18 1 0.03
19 8 0.23
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:109737142 original size:18 final size:17
Alignment explanation
Indices: 109737076--109737142 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
109737066 TTCTAAACCA
*
109737076 ATATATTTTATATCTTTT
1 ATATATATTATAT-TTTT
*
109737094 ATATA-ATTATTATTCTT
1 ATATATATTA-TATTTTT
*
109737111 ATAAATA-TAT-TTTTT
1 ATATATATTATATTTTT
109737126 ATTATATATTATATTTT
1 A-TATATATTATATTTT
109737143 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 5 0.13
16 6 0.15
17 15 0.38
18 13 0.33
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATATATTATATTTTT
Found at i:109737167 original size:26 final size:26
Alignment explanation
Indices: 109737119--109737168 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
109737109 TTATAAATAT
* * * *
109737119 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
109737145 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
109737169 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:109743140 original size:9 final size:9
Alignment explanation
Indices: 109743126--109743197 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
109743116 TAAGTATAAT
109743126 TAAGTTATG
1 TAAGTTATG
109743135 TAAGTTATG
1 TAAGTTATG
* * *
109743144 ATATGATATA
1 -TAAGTTATG
*
109743154 T-ATTTATG
1 TAAGTTATG
109743162 T-A-TTATG
1 TAAGTTATG
109743169 TAAGTTATG
1 TAAGTTATG
*
109743178 TAAATTATG
1 TAAGTTATG
109743187 TAAGTTATG
1 TAAGTTATG
109743196 TA
1 TA
109743198 TTATGTACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 33 0.65
10 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:109743168 original size:34 final size:34
Alignment explanation
Indices: 109743130--109743204 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
109743120 TATAATTAAG
* *
109743130 TTATGTAAGTTATG-ATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAATGATATA-AGTTATGTA
* *
109743164 TTATGTAAGTTATGTAAATTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAATGATATAAGTTATGTA
109743198 TTATGTA
1 TTATGTA
109743205 CAACATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAATGATATAAGTTATGTA
Found at i:109743343 original size:9 final size:9
Alignment explanation
Indices: 109743329--109743471 Score: 91
Period size: 9 Copynumber: 15.7 Consensus size: 9
109743319 TGTGTTAATT
109743329 TTATGTAAA
1 TTATGTAAA
*
109743338 TTATGTAAG
1 TTATGTAAA
109743347 TTATG-AAA
1 TTATGTAAA
*
109743355 TTCGATCTTTAAA
1 TT--A--TGTAAA
*
109743368 TTATGTAAG
1 TTATGTAAA
*
109743377 TCATGT--A
1 TTATGTAAA
*
109743384 TTATGTAAG
1 TTATGTAAA
109743393 TTATGTAAA
1 TTATGTAAA
* *
109743402 TTATTTAAG
1 TTATGTAAA
109743411 TTATG-AAA
1 TTATGTAAA
*
109743419 TTCGAACTATAAA
1 TT---A-TGTAAA
*
109743432 TTATGTAAG
1 TTATGTAAA
109743441 TTATGT--A
1 TTATGTAAA
109743448 TTATGTAAA
1 TTATGTAAA
109743457 TTATGTAAA
1 TTATGTAAA
109743466 TTATGT
1 TTATGT
109743472 GAGTTGCTGG
Statistics
Matches: 102, Mismatches: 18, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
7 11 0.11
8 8 0.08
9 67 0.66
10 2 0.02
11 2 0.02
12 2 0.02
13 10 0.10
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (9 bp):
TTATGTAAA
Found at i:109743368 original size:30 final size:30
Alignment explanation
Indices: 109743334--109743445 Score: 107
Period size: 30 Copynumber: 3.6 Consensus size: 30
109743324 TAATTTTATG
*
109743334 TAAATTATGTAAGTTATGAAATTCGATCTT
1 TAAATTATGTAAGTTATGAAATTCGATCTA
* * * * * *
109743364 TAAATTATGTAAGTCATGTATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG-A-AAT-T-CGATCTA
* *
109743398 TAAATTATTTAAGTTATGAAATTCGAACTA
1 TAAATTATGTAAGTTATGAAATTCGATCTA
109743428 TAAATTATGTAAGTTATG
1 TAAATTATGTAAGTTATG
109743446 TATTATGTAA
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
30 36 0.57
31 2 0.03
32 4 0.06
33 2 0.03
34 19 0.30
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.43
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAAATTCGATCTA
Found at i:109743388 original size:16 final size:16
Alignment explanation
Indices: 109743367--109743399 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
109743357 CGATCTTTAA
109743367 ATTATGTAAGTCATGT
1 ATTATGTAAGTCATGT
*
109743383 ATTATGTAAGTTATGT
1 ATTATGTAAGTCATGT
109743399 A
1 A
109743400 AATTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (16 bp):
ATTATGTAAGTCATGT
Found at i:109743405 original size:64 final size:64
Alignment explanation
Indices: 109743329--109743476 Score: 242
Period size: 64 Copynumber: 2.3 Consensus size: 64
109743319 TGTGTTAATT
* * *
109743329 TTATGTAAATTATGTAAGTTATGAAATTCGATCTTTAAATTATGTAAGTCATGTATTATGTAAG
1 TTATGTAAATTATGTAAGTTATGAAATTCGAACTATAAATTATGTAAGTCATGTATTATGTAAA
* *
109743393 TTATGTAAATTATTTAAGTTATGAAATTCGAACTATAAATTATGTAAGTTATGTATTATGTAAA
1 TTATGTAAATTATGTAAGTTATGAAATTCGAACTATAAATTATGTAAGTCATGTATTATGTAAA
*
109743457 TTATGTAAATTATGTGAGTT
1 TTATGTAAATTATGTAAGTT
109743477 GCTGGTGAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (64 bp):
TTATGTAAATTATGTAAGTTATGAAATTCGAACTATAAATTATGTAAGTCATGTATTATGTAAA
Found at i:109743452 original size:16 final size:16
Alignment explanation
Indices: 109743431--109743463 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
109743421 CGAACTATAA
*
109743431 ATTATGTAAGTTATGT
1 ATTATGTAAATTATGT
109743447 ATTATGTAAATTATGT
1 ATTATGTAAATTATGT
109743463 A
1 A
109743464 AATTATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (16 bp):
ATTATGTAAATTATGT
Found at i:109743907 original size:62 final size:60
Alignment explanation
Indices: 109743830--109744018 Score: 169
Period size: 62 Copynumber: 3.2 Consensus size: 60
109743820 TTTTCTGTGA
* *
109743830 TTAAAAAAAA-GAAATATTTAAAATAAAACTTTAAATACGATTTAATTTAATTAGGTAATG
1 TTAAAAAAAATGAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAAGTAATG
* * * ** *
109743890 TTAAAATAAAATGAAATATTTAAAATAAAA---TAAA-ATATTAAAATT-ATT-TTTCATG
1 TTAAAA-AAAATGAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAAGTAATG
* * *
109743945 ATTCAAAAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAAGTAAT-
1 -TTAAAAAAAATGAAATATTTAAAATAAAACTTTAAATA-AATTTAATTTAATTAAGTAATG
109744006 TTGAAAATAAAAT
1 TT-AAAA-AAAAT
109744019 AAAAGAGAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
55 25 0.25
56 8 0.08
57 7 0.07
58 5 0.05
59 5 0.05
60 15 0.15
61 10 0.10
62 26 0.26
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (60 bp):
TTAAAAAAAATGAAATATTTAAAATAAAACTTTAAATAAATTTAATTTAATTAAGTAATG
Found at i:109743932 original size:18 final size:19
Alignment explanation
Indices: 109743890--109743933 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
109743880 TTAGGTAATG
*
109743890 TTAAAATAAAATGAAATAT
1 TTAAAATAAAATAAAATAT
109743909 TTAAAATAAAATAAAATA-
1 TTAAAATAAAATAAAATAT
109743927 TTAAAAT
1 TTAAAAT
109743934 TATTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TTAAAATAAAATAAAATAT
Found at i:109743932 original size:97 final size:98
Alignment explanation
Indices: 109743549--109743909 Score: 654
Period size: 98 Copynumber: 3.7 Consensus size: 98
109743539 AATAAAATAG
109743549 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
109743614 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
109743647 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
**
109743712 ATTGAAATTATTTTTCGTGATTCAATTAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
109743745 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
*
109743810 ATTGAAATTA-TTTTCTGTGATT-AAAAAAAAGA
66 ATTGAAATTATTTTTC-GTGATTCAAAAAAATGA
* *
109743842 AATATTTAAAATAAAACTTTAAATACGATTTAATTTAATTAGGTAATGTTAAAATAAAATGAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
109743907 ATT
66 ATT
109743910 TAAAATAAAA
Statistics
Matches: 255, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
97 78 0.31
98 177 0.69
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (98 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTGAAATTATTTTTCGTGATTCAAAAAAATGA
Found at i:109743935 original size:116 final size:117
Alignment explanation
Indices: 109743793--109744018 Score: 343
Period size: 117 Copynumber: 1.9 Consensus size: 117
109743783 TTAGGTAATG
* *
109743793 TTAAAATAAAATAAAATATTGAAATTA-TTTTCTGTGATT-AAAAAAA-AGAAATATTTAAAATA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTC-ATGATTCAAAAAAATA-AAATATTTAAAATA
* *
109743855 AAACTTTAAATACGATTTAATTTAATTAGGTAATGTT-AAAATAAAATGAAATAT
64 AAACTTTAAATACAATTTAATTTAATTAAGTAAT-TTGAAAATAAAATGAAATAT
*
109743909 TTAAAATAAAATAAAATATTAAAATTATTTTTCATGATTCAAAAAAATAAAATATTTAAAATGAA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCATGATTCAAAAAAATAAAATATTTAAAATAAA
*
109743974 ACTTTAAATATAATTTAATTTAATTAAGTAATTTGAAAATAAAAT
66 ACTTTAAATACAATTTAATTTAATTAAGTAATTTGAAAATAAAAT
109744019 AAAAGAGAAC
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
116 33 0.33
117 66 0.66
118 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (117 bp):
TTAAAATAAAATAAAATATTAAAATTATTTTTCATGATTCAAAAAAATAAAATATTTAAAATAAA
ACTTTAAATACAATTTAATTTAATTAAGTAATTTGAAAATAAAATGAAATAT
Found at i:109747672 original size:46 final size:46
Alignment explanation
Indices: 109747620--109747888 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 46
109747610 TATTTGGGCA
109747620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
109747666 TCCGAACTCGTTGAGTTGAGTCCAAGTTCA--TA-AGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
109747711 CATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * *
109747759 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
*
109747806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
109747852 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109747889 GCGGGTTACA
Statistics
Matches: 183, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
44 2 0.01
45 2 0.01
46 99 0.54
47 62 0.34
48 2 0.01
49 2 0.01
50 4 0.02
51 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:109747881 original size:93 final size:93
Alignment explanation
Indices: 109747616--109747881 Score: 444
Period size: 93 Copynumber: 2.9 Consensus size: 93
109747606 CGGATATTTG
109747616 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
109747681 TTGAGTCCAAGTTCATAAGATGTAACTA
66 TTGAGTCCGAGTTCGTAAGATGTAACTA
* * *
109747709 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
109747774 TTGAGTCCGAGTTCGTGAA-ATGTAACTA
66 TTGAGTCCGAGTTCGT-AAGATGTAACTA
** *
109747802 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
109747867 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
109747882 CTTATGGGCG
Statistics
Matches: 161, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 159 0.99
94 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTAAGATGTAACTA
Found at i:109750829 original size:83 final size:83
Alignment explanation
Indices: 109750723--109751068 Score: 391
Period size: 83 Copynumber: 4.2 Consensus size: 83
109750713 TTTTTTGCGG
* * *
109750723 AAAAACGCCGCTAATCCCCTAAATCTCC-ATATAAAACGACGCCGTTTTCGTTATACTATTTTGC
1 AAAAACGCCGCTAATCCCCTAAATATCCAAT-TAAAACGACGCCGTTTTCGTTA-ACTACTATGC
* * *
109750787 TTTTTAGTGGCGATTTTTCA
64 TTTTTTGCGGCGTTTTTTCA
* * *
109750807 AAAAACGCCGCTACT-CCCTAAATATCCAATTAAAACGACACCGTTTTCGTTGAACTGCTATG-T
1 AAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGCCGTTTTCGTT-AACTACTATGCT
109750870 TTTTTGCGGCGTTTTTTC-
65 TTTTTGCGGCGTTTTTTCA
* ** * * *
109750888 -AAAACGCCGCTAATCCCCTAAATCTCCAATTTTAACGACGTCGTTTCCTTTAAACTACTAT-CT
1 AAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGCCGTTTTCGTT-AACTACTATGCT
*
109750951 TTTTTGCGGCGTTTTTTAA
65 TTTTTGCGGCGTTTTTTCA
* * * * *
109750970 AAAAAGGCCGCTACTCCCCTAAATATCCAATTAAAACGACTCCGTTTTCGTTAAATTGCTATG-T
1 AAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGCCGTTTTCGTT-AACTACTATGCT
*
109751034 TTTTTGCGGCGTTTTTTAA
65 TTTTTGCGGCGTTTTTTCA
*
109751053 AAAAACGCCACTAATC
1 AAAAACGCCGCTAATC
109751069 TCTTAGTTTT
Statistics
Matches: 221, Mismatches: 34, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
80 13 0.06
81 55 0.25
82 16 0.07
83 120 0.54
84 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (83 bp):
AAAAACGCCGCTAATCCCCTAAATATCCAATTAAAACGACGCCGTTTTCGTTAACTACTATGCTT
TTTTGCGGCGTTTTTTCA
Found at i:109750992 original size:164 final size:164
Alignment explanation
Indices: 109750723--109751055 Score: 481
Period size: 164 Copynumber: 2.0 Consensus size: 164
109750713 TTTTTTGCGG
* * * *
109750723 AAAAACGCCGCTAATCCCCTAAATCTCCATATAAAACGACGCCGTTTTCGTTATACTATTTTGCT
1 AAAAACGCCGCTAATCCCCTAAATCTCCATATAAAACGACGCCGTTTCCGTTAAACTACTATGCT
* *
109750788 TTTTAGTGGCGATTTTTCAAAAAACGCCGCTACTCCCTAAATATCCAATTAAAACGACACCGTTT
66 TTTTAGCGGCGATTTTTAAAAAAACGCCGCTACTCCCTAAATATCCAATTAAAACGACACCGTTT
*
109750853 TCGTTGAACTGCTATGTTTTTTGCGGCGTTTTTT
131 TCGTTAAACTGCTATGTTTTTTGCGGCGTTTTTT
* ** * *
109750887 CAAAACGCCGCTAATCCCCTAAATCTCCA-ATTTTAACGACGTCGTTTCCTTTAAACTACTAT-C
1 AAAAACGCCGCTAATCCCCTAAATCTCCATA-TAAAACGACGCCGTTTCCGTTAAACTACTATGC
* * * *
109750950 TTTTTTGCGGCGTTTTTTAAAAAAAGGCCGCTACTCCCCTAAATATCCAATTAAAACGACTCCGT
65 TTTTTAGCGGCGATTTTTAAAAAAACGCCGCTACT-CCCTAAATATCCAATTAAAACGACACCGT
*
109751015 TTTCGTTAAATTGCTATGTTTTTTGCGGCGTTTTTT
129 TTTCGTTAAACTGCTATGTTTTTTGCGGCGTTTTTT
109751051 AAAAA
1 AAAAA
109751056 AACGCCACTA
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
163 32 0.21
164 117 0.79
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (164 bp):
AAAAACGCCGCTAATCCCCTAAATCTCCATATAAAACGACGCCGTTTCCGTTAAACTACTATGCT
TTTTAGCGGCGATTTTTAAAAAAACGCCGCTACTCCCTAAATATCCAATTAAAACGACACCGTTT
TCGTTAAACTGCTATGTTTTTTGCGGCGTTTTTT
Found at i:109752373 original size:40 final size:40
Alignment explanation
Indices: 109752271--109752387 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
109752261 AACTTTTTTT
* **
109752271 GCGGTGCTTTTC-AGAAAACGCTACTAATGCTTGATCTTTA
1 GCGGCGCTTTTCGA-AAAACGCCGCTAATGCTTGATCTTTA
* * * *
109752311 GCGGCGCTTTTGGGAAAACGCCGCTAATGTTTTATCTTTA
1 GCGGCGCTTTTCGAAAAACGCCGCTAATGCTTGATCTTTA
* * *
109752351 GCGGCG-TTTTCTAAAAAGCGCCGCTAATTCTCGATCT
1 GCGGCGCTTTTCGAAAAA-CGCCGCTAATGCTTGATCT
109752388 ATTACGGTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 8 0.13
40 53 0.87
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (40 bp):
GCGGCGCTTTTCGAAAAACGCCGCTAATGCTTGATCTTTA
Found at i:109752387 original size:135 final size:136
Alignment explanation
Indices: 109752119--109752377 Score: 310
Period size: 135 Copynumber: 1.9 Consensus size: 136
109752109 CGATGTCGTT
* * * * * *
109752119 TTGGTCAACTTTTTTTTGCGGCGCTTTTTAGAAAATGCCGCTAATGTTTTATCTTTAGTGGCACT
1 TTGGTCAACTTTTTTTTGCGGCGCTTTTCAGAAAACGCCACTAATGCTTGATCTTTAGCGGCACT
* *
109752184 TTCTAAAAAGTGCCGCTAATACTCGATCTTTAGTGGCGTTTTTCAAAAAGCGCCACTAAAGATCG
66 TTCTAAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTCAAAAAGCGCCACTAAAGATCG
109752249 ATCTTC
131 ATCTTC
* * *
109752255 TTGGTCAAC-TTTTTTTGCGGTGCTTTTCAGAAAACGCTACTAATGCTTGATCTTTAGCGGCGCT
1 TTGGTCAACTTTTTTTTGCGGCGCTTTTCAGAAAACGCCACTAATGCTTGATCTTTAGCGGCACT
* ** ** *
109752319 TT-TGGGAAAA-CGCCGCTAATGTTTTATCTTTAGCGGCG-TTTTCTAAAAAGCGCCGCTAA
66 TTCT--AAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTC-AAAAAGCGCCACTAA
109752378 TTCTCGATCT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
134 6 0.06
135 84 0.82
136 13 0.13
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (136 bp):
TTGGTCAACTTTTTTTTGCGGCGCTTTTCAGAAAACGCCACTAATGCTTGATCTTTAGCGGCACT
TTCTAAAAAGCGCCGCTAATACTCGATCTTTAGCGGCGTTTTTCAAAAAGCGCCACTAAAGATCG
ATCTTC
Found at i:109765678 original size:9 final size:9
Alignment explanation
Indices: 109765666--109765708 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
109765656 TTAATCATTT
109765666 TATTATTAC
1 TATTATTAC
**
109765675 TATTATTTT
1 TATTATTAC
109765684 TATTATTAC
1 TATTATTAC
109765693 TATTATTAC
1 TATTATTAC
*
109765702 TCTTATT
1 TATTATT
109765709 CCTTTATCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTATTAC
Found at i:109765686 original size:18 final size:18
Alignment explanation
Indices: 109765663--109765699 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
109765653 ATTTTAATCA
109765663 TTTTATTATTACTATTAT
1 TTTTATTATTACTATTAT
109765681 TTTTATTATTACTATTAT
1 TTTTATTATTACTATTAT
109765699 T
1 T
109765700 ACTCTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATTATTACTATTAT
Found at i:109772850 original size:96 final size:96
Alignment explanation
Indices: 109772667--109772939 Score: 411
Period size: 96 Copynumber: 2.8 Consensus size: 96
109772657 AGGGTAAGAT
* ***
109772667 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTATATCGGTGCCGATGCCATGTTC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATAAATGCCGATGCCATGTTC
109772732 CAAACATGGTCTTACACTAGCTCACATGTCGAG
64 CAAACATGGTCTTACACTAGCTCACATGTCGAG
* * * * *
109772765 GCTGATGTCATGTCCTAGACATGGTCTTACACTAACTCTCATATAAATACCGATGTCATGTTCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
*
109772830 AACATGGTCTTACACTAGCTCATATGTCGAG
66 AACATGGTCTTACACTAGCTCACATGTCGAG
* * *
109772861 GCTGATGCCATGTCCCAAACATGGTCTTACATTAGGTCTCATATAAATGCCGATGCCATGTTCCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
109772926 AACATGGTCTTACA
66 AACATGGTCTTACA
109772940 TTGGCTCAGA
Statistics
Matches: 157, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 121 0.77
98 36 0.23
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATGTCGAG
Found at i:109772937 original size:144 final size:145
Alignment explanation
Indices: 109772670--109772939 Score: 330
Period size: 144 Copynumber: 1.9 Consensus size: 145
109772660 GTAAGATGCT
* * * *
109772670 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTATATCGGTGCCGATGCCATGTTCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGC-CTCATATATCGGTGCCGATGCCATGTCCCAA
* ** * * *
109772735 ACATGGTCTTACACTAGCTCACATGTCGAGGCTGATGTCATGTCCTAGACATGGTCTTACACTAA
65 ACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCTAAACATGGTCTTACACTAA
109772800 CTCTCATATAAATACC
130 CTCTCATATAAATACC
* * * *
109772816 GATGTCATGTTCCAAACATGGTCTTACACTAG-CTCATATGTCGAG-GCTGATGCCATGTCCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCCTCATATATCG-GTGCCGATGCCATGTCCCAA
* * * *
109772879 ACATGGTCTTACATTAGGTCTCATATAAATGCCGATGCCATGTTCC-AAACATGGTCTTACA
65 ACATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATG-TCCTAAACATGGTCTTACA
109772940 TTGGCTCAGA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
144 72 0.69
145 4 0.04
146 28 0.27
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (145 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCCTCATATATCGGTGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCACATATAAAGGCCGATGCCATGTCCTAAACATGGTCTTACACTAAC
TCTCATATAAATACC
Found at i:109772941 original size:48 final size:48
Alignment explanation
Indices: 109772664--109772939 Score: 263
Period size: 48 Copynumber: 5.7 Consensus size: 48
109772654 AAAAGGGTAA
* * *
109772664 GATGCTGATGCCATGTCCCAGACATGGTCTTACACT-GGCTCTCGTATATC
1 GATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGG-TCTC--ATATC
* * * *
109772714 GGTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTC
1 GATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGGTCTCATATC
* * * * ** *
109772762 GAGGCTGATGTCATG-TCCTAGACATGGTCTTACACTAACTCTCATATA
1 GATGCCGATGCCATGTTCC-AAACATGGTCTTACACTAGGTCTCATATC
* * *
109772810 AATACCGATGTCATGTTCCAAACATGGTCTTACACTA-G-CTCATATGTC
1 GATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGGTCTCATA--TC
* * * * *
109772858 GAGGCTGATGCCATGTCCCAAACATGGTCTTACATTAGGTCTCATATA
1 GATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGGTCTCATATC
*
109772906 AATGCCGATGCCATGTTCCAAACATGGTCTTACA
1 GATGCCGATGCCATGTTCCAAACATGGTCTTACA
109772940 TTGGCTCAGA
Statistics
Matches: 184, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
46 6 0.03
47 3 0.02
48 129 0.70
49 4 0.02
50 41 0.22
51 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGGTCTCATATC
Found at i:109776974 original size:25 final size:25
Alignment explanation
Indices: 109776892--109776964 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
109776882 ACGAATTGTA
* * * *
109776892 AACGGTAAGCTCCTCCAATCTGAAT
1 AACGGGAAGCTCATGCAAGCTGAAT
**
109776917 AACGGGAAGCTCATGTGAGCTGAAT
1 AACGGGAAGCTCATGCAAGCTGAAT
109776942 AACGGGAAGCTCATGCAAGCTGA
1 AACGGGAAGCTCATGCAAGCTGA
109776965 TTATTGGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCATGCAAGCTGAAT
Found at i:109777291 original size:16 final size:17
Alignment explanation
Indices: 109777265--109777297 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109777255 ATAAATTTAA
109777265 CTCATTTCAATATAATT
1 CTCATTTCAATATAATT
*
109777282 CTCA-TTCAATTTAATT
1 CTCATTTCAATATAATT
109777298 TAACATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
CTCATTTCAATATAATT
Found at i:109778300 original size:21 final size:21
Alignment explanation
Indices: 109778258--109778296 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
109778248 TTAAAAACAA
*
109778258 TAAATAAACCAAAAATAAATT
1 TAAAAAAACCAAAAATAAATT
109778279 TAAAAAAACC-AAAATAAA
1 TAAAAAAACCAAAAATAAA
109778297 ATTTTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAAAAACCAAAAATAAATT
Found at i:109782292 original size:50 final size:50
Alignment explanation
Indices: 109782181--109782275 Score: 190
Period size: 50 Copynumber: 1.9 Consensus size: 50
109782171 CAGTTAGTTG
109782181 TTATTTATTCTTGTTTTTATTTTTGGTGGACGTTCATATTTTTCTAACTT
1 TTATTTATTCTTGTTTTTATTTTTGGTGGACGTTCATATTTTTCTAACTT
109782231 TTATTTATTCTTGTTTTTATTTTTGGTGGACGTTCATATTTTTCT
1 TTATTTATTCTTGTTTTTATTTTTGGTGGACGTTCATATTTTTCT
109782276 TTCTTTTTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.15, C:0.09, G:0.13, T:0.63
Consensus pattern (50 bp):
TTATTTATTCTTGTTTTTATTTTTGGTGGACGTTCATATTTTTCTAACTT
Found at i:109784400 original size:12 final size:13
Alignment explanation
Indices: 109784378--109784407 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
109784368 CGAATAATGT
109784378 TCTTGCTTATTTC
1 TCTTGCTTATTTC
109784391 TCTT-CTTATTTC
1 TCTTGCTTATTTC
109784403 TCTTG
1 TCTTG
109784408 AAAATAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.63
Consensus pattern (13 bp):
TCTTGCTTATTTC
Found at i:109787349 original size:15 final size:16
Alignment explanation
Indices: 109787318--109787355 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
109787308 AAGACAAATA
109787318 AATAA-AATAACGAAT
1 AATAATAATAACGAAT
*
109787333 AATAATAATAAC-TAT
1 AATAATAATAACGAAT
109787348 AATAATAA
1 AATAATAA
109787356 GCCAAAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (16 bp):
AATAATAATAACGAAT
Found at i:109787428 original size:18 final size:17
Alignment explanation
Indices: 109787396--109787430 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109787386 TAATGAGAAT
*
109787396 GAAACTAAGAATAATAA
1 GAAACTAAAAATAATAA
109787413 GAAACTTAAAAATAATAA
1 GAAAC-TAAAAATAATAA
109787431 TAATCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.20
Consensus pattern (17 bp):
GAAACTAAAAATAATAA
Found at i:109787513 original size:8 final size:7
Alignment explanation
Indices: 109787422--109787509 Score: 53
Period size: 6 Copynumber: 13.0 Consensus size: 7
109787412 AGAAACTTAA
109787422 AAATAAT
1 AAATAAT
109787429 -AATAAT
1 AAATAAT
*
109787435 -CATAAT
1 AAATAAT
*
109787441 -CATAAT
1 AAATAAT
109787447 AAATAAT
1 AAATAAT
* *
109787454 AACT-AG
1 AAATAAT
109787460 AAA-AAT
1 AAATAAT
109787466 AAAATAA-
1 -AAATAAT
109787473 AAATAAT
1 AAATAAT
109787480 AAATAAT
1 AAATAAT
*
109787487 AAACAAAT
1 AAA-TAAT
*
109787495 AACTAATT
1 AAATAA-T
109787503 AAATAAT
1 AAATAAT
109787510 TAAAACTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
6 27 0.42
7 24 0.38
8 13 0.20
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:109789253 original size:46 final size:47
Alignment explanation
Indices: 109789040--109789351 Score: 227
Period size: 46 Copynumber: 6.6 Consensus size: 47
109789030 TGTGTGAGCT
* * * ** *
109789040 AGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACAAGATG-TAGCC
* * *
109789086 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGA-GTA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC--T-ACAAGATGTAGCC
* ** *
109789134 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACCT-CGGGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCTACAAGATGT-AGCC
* *
109789180 AGTATAAGA-CATGTCTGGGACAT-GCATCAGCTACAAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACAAGATGTAGCC
* * *
109789224 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-AC-GGTTATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACAAG--ATGT---AGCC
*
109789274 AGTTTAAGACCATGTCTGGGACATGGCATCAGCCT-CGAAGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTAC-AAGATG-TAGCC
*
109789323 AGTGTAAGACCATGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
109789352 TGGCACTTTA
Statistics
Matches: 212, Mismatches: 31, Indels: 43
0.74 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 21 0.10
46 58 0.27
47 29 0.14
48 17 0.08
49 31 0.15
50 32 0.15
51 8 0.04
52 1 0.00
53 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACAAGATGTAGCC
Found at i:109789619 original size:305 final size:305
Alignment explanation
Indices: 109789068--109790170 Score: 1972
Period size: 305 Copynumber: 3.6 Consensus size: 305
109789058 GACATGCATC
*
109789068 GGCCACATCATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
1 GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
*
109789133 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGATATAAGCCAGTATAAGACATGTCTGG
66 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTCTGG
* * *
109789198 GACATGCATCAGCTACAAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGTT
131 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGTT
* *
109789263 ATGTGAGAGCTAGTTTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGATAGCCAGTGT
196 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGT
* **
109789328 AAGACCATGTCTAGGACATGGCATTGGCACTTTACCCGTGATTGA
261 AAGACCATGTCTGGGACATGGCATCAGCACTTTACCCGTGATTGA
* *
109789373 GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGTAC
1 GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
*
109789438 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTTTGG
66 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTCTGG
*
109789503 GACATGCATCGGCTGCGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGTT
131 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGTT
*
109789568 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGC
196 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGT
*
109789633 AAGACCATGTCTGGGATATGGCATCAGCACTTTACCCGTGATTGA
261 AAGACCATGTCTGGGACATGGCATCAGCACTTTACCCGTGATTGA
*
109789678 GGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
1 GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
* * *
109789743 TAGTGTAAGACATGTCTGGGACATGCATCAACCTTGGGATATAAGCCACTATAAGACATGTCTGG
66 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTCTGG
*
109789808 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATAGCATCGGTACGGTT
131 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGTT
*
109789873 ATGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGT
196 ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGT
109789938 AAGACCATGTCTGGGACATGGCATCAGCACTTTACCCGTGATTGA
261 AAGACCATGTCTGGGACATGGCATCAGCACTTTACCCGTGATTGA
* *
109789983 GGCCACATTATGAGAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTAC
1 GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
* *
109790048 TAGTGTAAGAAATGTCTGGGACATGCATCAACCCCGGGACATAAGCCAGTATAAGACATGTCTGG
66 TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTCTGG
109790113 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
131 GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
109790171 CCTCAAAGAT
Statistics
Matches: 761, Mismatches: 37, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
305 761 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (305 bp):
GGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGTAC
TAGTGTAAGACATGTCTGGGACATGCATCAACCTCGGGACATAAGCCAGTATAAGACATGTCTGG
GACATGCATCGGCTACGAGATGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGTACGGTT
ATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGT
AAGACCATGTCTGGGACATGGCATCAGCACTTTACCCGTGATTGA
Found at i:109789897 original size:50 final size:48
Alignment explanation
Indices: 109789687--109789962 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 48
109789677 AGGCCATATT
* * *
109789687 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTG-AG
1 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAAG
* * * ** * *
109789735 ACGAGTA-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACCTTG-GG
1 ATGA-AAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAAG
* *
109789781 AT-ATAAGCCACTATAAGA-CATGTCTGGGACAT-GCATCGGCTACG-AG
1 ATGA-AAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAAG
* * * *
109789827 ATG--TGTCAGTGTAAGACCATGTCTGGGACATAGCATCGG-TACGGTTATG
1 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-C-G--AAG
*
109789876 -TGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAAG
1 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAAG
*
109789924 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
109789963 AGCACTTTAC
Statistics
Matches: 185, Mismatches: 27, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.05
45 21 0.11
46 49 0.26
47 16 0.09
48 17 0.09
49 38 0.21
50 33 0.18
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAAG
Found at i:109797285 original size:138 final size:138
Alignment explanation
Indices: 109797037--109797321 Score: 534
Period size: 138 Copynumber: 2.1 Consensus size: 138
109797027 TTTCACTGTC
*
109797037 AAATAACAATGGTCCCGATGGCCTTCTTCTAGTCATAAACCAAAAGAATCTGCCAGAAGTAAATA
1 AAATAAAAATGGTCCCGATGGCCTTCTTCTAGTCATAAACCAAAAGAATCTGCCAGAAGTAAATA
109797102 AAAGAAAAAAATGTAAATGCAAATATTAAACTGAAAACAAAAAGATAATAAAAATAAAAATGGCT
66 AAAGAAAAAAATGTAAATGCAAATATTAAACTGAAAACAAAAAGATAATAAAAATAAAAATGGCT
109797167 AAATTAAT
131 AAATTAAT
109797175 AAATAAAAATGGTCCCGATGGCCTTCTTCTAGTCATAAACCAAAAGAATCTGCCAGAAGTAAATA
1 AAATAAAAATGGTCCCGATGGCCTTCTTCTAGTCATAAACCAAAAGAATCTGCCAGAAGTAAATA
* *
109797240 AAAGAAAAAAATGTAAATGTAAATATTAAACTGAAAACAAAAAGATAATAAAAATAAAAATGGTT
66 AAAGAAAAAAATGTAAATGCAAATATTAAACTGAAAACAAAAAGATAATAAAAATAAAAATGGCT
109797305 AAATTAAT
131 AAATTAAT
*
109797313 AAAAAAAAA
1 AAATAAAAA
109797322 GTGTTCCCAA
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 143 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.22
Consensus pattern (138 bp):
AAATAAAAATGGTCCCGATGGCCTTCTTCTAGTCATAAACCAAAAGAATCTGCCAGAAGTAAATA
AAAGAAAAAAATGTAAATGCAAATATTAAACTGAAAACAAAAAGATAATAAAAATAAAAATGGCT
AAATTAAT
Found at i:109798409 original size:30 final size:30
Alignment explanation
Indices: 109798375--109798441 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
109798365 ACACAAGCTG
* * * *
109798375 ACACATGGGTGTGTGTTCAGCCCGTGTGGC
1 ACACATGGGCGTATGTCCAGCCCGTGTGGA
*
109798405 ACACATGGGCGTATGTCCAGCTCGTGTGGA
1 ACACATGGGCGTATGTCCAGCCCGTGTGGA
109798435 ACACATG
1 ACACATG
109798442 AGATGCGTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (30 bp):
ACACATGGGCGTATGTCCAGCCCGTGTGGA
Found at i:109799646 original size:16 final size:16
Alignment explanation
Indices: 109799625--109799655 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109799615 AGGCTCAGTT
109799625 TGATTTGGACTGAGTC
1 TGATTTGGACTGAGTC
109799641 TGATTTGGACTGAGT
1 TGATTTGGACTGAGT
109799656 TTGTACAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.39
Consensus pattern (16 bp):
TGATTTGGACTGAGTC
Found at i:109807803 original size:123 final size:123
Alignment explanation
Indices: 109807584--109807829 Score: 431
Period size: 123 Copynumber: 2.0 Consensus size: 123
109807574 AATGATATTT
109807584 TTATTTACCTGGACAAAATTTTCCACATCAAAGACACAAGAACTACAAAAGCTAGTAGTCTACTA
1 TTATTTACCTGGACAAAATTTTCCACATCAAAGACACAAGAACTACAAAAGCTAGTAGTCTACTA
109807649 GATCAGATTACACACAAAAATATTTAAAAGAGTAGGATTTATCACTTCTAAAACCCAG
66 GATCAGATTACACACAAAAATATTTAAAAGAGTAGGATTTATCACTTCTAAAACCCAG
* * *
109807707 TTATTTACCTGGACGAAAA-TTTCCACATCAAGGACACGAGAATTACAAAAGCTAGTAGTCTACT
1 TTATTTACCTGGAC-AAAATTTTCCACATCAAAGACACAAGAACTACAAAAGCTAGTAGTCTACT
* *
109807771 AGATCAGATTACATACAAAAATATTTAAAAGAGTAGGATTTATCACTTTTAAAACCCAG
65 AGATCAGATTACACACAAAAATATTTAAAAGAGTAGGATTTATCACTTCTAAAACCCAG
109807830 GAACATGCCT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
123 113 0.97
124 4 0.03
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (123 bp):
TTATTTACCTGGACAAAATTTTCCACATCAAAGACACAAGAACTACAAAAGCTAGTAGTCTACTA
GATCAGATTACACACAAAAATATTTAAAAGAGTAGGATTTATCACTTCTAAAACCCAG
Found at i:109814717 original size:7 final size:7
Alignment explanation
Indices: 109814705--109814729 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
109814695 ATCATTTGTC
109814705 TTCACAA
1 TTCACAA
109814712 TTCACAA
1 TTCACAA
109814719 TTCACAA
1 TTCACAA
109814726 TTCA
1 TTCA
109814730 AAACACCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (7 bp):
TTCACAA
Found at i:109820410 original size:43 final size:43
Alignment explanation
Indices: 109820363--109820521 Score: 250
Period size: 43 Copynumber: 3.7 Consensus size: 43
109820353 CATATTGATA
* * *
109820363 CCAATGTCTCAGACATGGTCTTACACG-AA-ATCATATAATGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCTCA-AT-ATAATG
109820406 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAATATAATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAATATAATG
109820449 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAATATAATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAATATAATG
*
109820492 CCAATGTCCCAGACATGGTCTTACATGTAA
1 CCAATGTCCCAGACATGGTCTTACACGTAA
109820522 ATACATCTCG
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
43 103 0.94
44 4 0.04
45 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCTCAATATAATG
Found at i:109824344 original size:42 final size:42
Alignment explanation
Indices: 109824237--109824399 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
109824227 TACCATACCA
* * ** *
109824237 ATGCCATATCCCAGATATGGTTTTACATAAAATCTCGTATCG
1 ATGCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
109824279 ATGCCAATAGCCTAG-TATAGTCTTACACGAAGTCTCATATCG
1 ATG-CAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
** *
109824321 ATGTTATATCCCAGATATGGTCTTACACGAAATCTCATATAG
1 ATGCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
109824363 ATGCCATATCCCAGATATGGTCTTACAAGTAATCTCA
1 ATGCAATATCCCAGATATGGTCTTACACGAAATCTCA
109824400 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
41 7 0.07
42 84 0.85
43 8 0.08
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:109824399 original size:84 final size:84
Alignment explanation
Indices: 109824242--109824399 Score: 203
Period size: 84 Copynumber: 1.9 Consensus size: 84
109824232 TACCAATGCC
* * * * * *
109824242 ATATCCCAGATATGGTTTTACATAAAATCTCGTATCGATGCCAATAGCCTAGTATAGTCTTACAC
1 ATATCCCAGATATGGTCTTACACAAAATCTCATATAGATGCCAATAGCCCAGTATAGTCTTACAA
109824307 GAAGTCTCATATCGATGTT
66 GAAGTCTCATATCGATGTT
* * *
109824326 ATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCC-ATATCCCAGATATGGTCTTACA
1 ATATCCCAGATATGGTCTTACACAAAATCTCATATAGATGCCAATAGCCCAG-TATAGTCTTACA
109824390 AGTAA-TCTCA
65 AG-AAGTCTCA
109824400 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 7 0.11
84 54 0.86
85 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (84 bp):
ATATCCCAGATATGGTCTTACACAAAATCTCATATAGATGCCAATAGCCCAGTATAGTCTTACAA
GAAGTCTCATATCGATGTT
Found at i:109826268 original size:18 final size:19
Alignment explanation
Indices: 109826247--109826293 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
109826237 AATCGGTTAA
*
109826247 TCAGTAAT-ATTCATTTAT
1 TCAGTAATCAGTCATTTAT
109826265 TCAGT-ATCAGTCATTTAT
1 TCAGTAATCAGTCATTTAT
*
109826283 TCTGTAA-CAGT
1 TCAGTAATCAGT
109826294 TAATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 22 0.88
19 1 0.04
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (19 bp):
TCAGTAATCAGTCATTTAT
Found at i:109827580 original size:18 final size:17
Alignment explanation
Indices: 109827559--109827592 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
109827549 TTTTTCTCTT
109827559 TTTTATTTCTTTCATTTC
1 TTTTATTTCTTT-ATTTC
109827577 TTTTATTTCTTTATTT
1 TTTTATTTCTTTATTT
109827593 TTATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTCTTTATTTC
Found at i:109829345 original size:3 final size:3
Alignment explanation
Indices: 109829337--109829364 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
109829327 TTACAGTCTA
109829337 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
109829365 CTGTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:109829465 original size:21 final size:21
Alignment explanation
Indices: 109829439--109829478 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
109829429 CAACGTGGTA
109829439 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
109829460 AGTTAACTTGCCACATCAG
1 AGTTAACTGGCCACATCAG
109829479 TGGTTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:109832248 original size:6 final size:6
Alignment explanation
Indices: 109832237--109832283 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
109832227 ACCGCCGCTA
* *
109832237 ACAAGG ACAAGG ACAAGG ACAAGG ACAAGG ACAAAG ATAAGG ACAAG
1 ACAAGG ACAAGG ACAAGG ACAAGG ACAAGG ACAAGG ACAAGG ACAAG
109832284 AAGCGCCCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.53, C:0.15, G:0.30, T:0.02
Consensus pattern (6 bp):
ACAAGG
Found at i:109845842 original size:24 final size:25
Alignment explanation
Indices: 109845809--109845860 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
109845799 AACTACCATC
109845809 ATGTTGTAAA-TAAATCA-AAAAAAA
1 ATGTTGTAAACT-AATCATAAAAAAA
*
109845833 ATGTTTTAAACTAATCATAAAAAAA
1 ATGTTGTAAACTAATCATAAAAAAA
109845858 ATG
1 ATG
109845861 AATATCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (25 bp):
ATGTTGTAAACTAATCATAAAAAAA
Found at i:109846332 original size:3 final size:3
Alignment explanation
Indices: 109846324--109846353 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
109846314 TTGAAGGAAA
109846324 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
109846354 TAACGGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:109853350 original size:12 final size:12
Alignment explanation
Indices: 109853333--109853360 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
109853323 TTTGGATTAC
109853333 TTCTCGTTAACT
1 TTCTCGTTAACT
109853345 TTCTCGTTAACT
1 TTCTCGTTAACT
109853357 TTCT
1 TTCT
109853361 TTGTCGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.07, T:0.54
Consensus pattern (12 bp):
TTCTCGTTAACT
Found at i:109859006 original size:51 final size:51
Alignment explanation
Indices: 109858930--109859038 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 51
109858920 AACCAAGTTA
* *
109858930 TCCGGATAAAACATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATAAAACATAAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
* * * *
109858981 TCCGGATAAAATATAAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATAAAACATAAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
109859032 TCCGGAT
1 TCCGGAT
109859039 GAAGTATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (51 bp):
TCCGGATAAAACATAAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAAT
Found at i:109865293 original size:14 final size:15
Alignment explanation
Indices: 109865266--109865294 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
109865256 AATTTTATGA
109865266 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
109865281 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
109865295 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:109865536 original size:31 final size:31
Alignment explanation
Indices: 109865457--109865543 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
109865447 ATCAATGACA
* * * *
109865457 AGTGAAAAGTGGTAGCTCCAGCTATCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
109865488 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
109865519 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
109865544 AAGTTACAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:109876403 original size:49 final size:48
Alignment explanation
Indices: 109876333--109876508 Score: 180
Period size: 42 Copynumber: 3.9 Consensus size: 48
109876323 GCATCAGTGA
109876333 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
* * * *
109876381 GATATGTGATTACGTGTAAGACCACAGCTAGGCTATAGCATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
109876430 GA-A--T-A-T-GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGT
* **
109876472 GA-A---GA-T-GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGA
109876509 GAAAACGAAG
Statistics
Matches: 113, Mismatches: 11, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.01
42 61 0.54
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
48 12 0.11
49 35 0.31
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
Found at i:109881797 original size:16 final size:16
Alignment explanation
Indices: 109881776--109881806 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109881766 TGACAATTAC
109881776 AGTAAAAAACAGCTAT
1 AGTAAAAAACAGCTAT
109881792 AGTAAAAAACAGCTA
1 AGTAAAAAACAGCTA
109881807 AAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (16 bp):
AGTAAAAAACAGCTAT
Found at i:109881999 original size:9 final size:9
Alignment explanation
Indices: 109881987--109882022 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
109881977 GAAGACAAGA
109881987 AAGAAGGAG
1 AAGAAGGAG
109881996 AAG-A--AG
1 AAGAAGGAG
109882002 AAGAAGGAG
1 AAGAAGGAG
109882011 AAGAAGGAG
1 AAGAAGGAG
109882020 AAG
1 AAG
109882023 GATTCGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.21
7 1 0.04
8 1 0.04
9 17 0.71
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (9 bp):
AAGAAGGAG
Found at i:109882005 original size:15 final size:15
Alignment explanation
Indices: 109881987--109882024 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
109881977 GAAGACAAGA
109881987 AAGAAGGAGAAGAAG
1 AAGAAGGAGAAGAAG
109882002 AAGAAGGAGAAGAAG
1 AAGAAGGAGAAGAAG
*
109882017 GAGAAGGA
1 AAGAAGGA
109882025 TTCGGTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
AAGAAGGAGAAGAAG
Found at i:109882734 original size:150 final size:151
Alignment explanation
Indices: 109882547--109883530 Score: 1439
Period size: 151 Copynumber: 6.5 Consensus size: 151
109882537 CTAAAATAAT
* * *
109882547 ATAAAAGTACGAAAATAGTAAATTTAAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAT
1 ATAAAA-TATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAT
*
109882612 GGCCAAAATCACGTTTATTTATTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATT
65 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATT
109882677 ATGTACTAAAATAATAT-AAAA
130 ATGTACTAAAATAATATAAAAA
* * *** *
109882698 ATAAAATACGAAAATAATATATTTTAAAAAATAAAATTTTAAAATTTTAAAAGTACAAACAAATG
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
* * *
109882763 GCCAAAATCACGGTTATTTACTAAA--AATATATAAAACCCCATGAAAATAATACATTTGAAACA
66 GCCAAAATCACGTTTATTTACTAAATTAATATA-AAAA--ACACGAAAATAATACATTTGAAACA
*
109882826 -T-TGTACTAAAATAATATTAAAA
128 TTATGTACTAAAATAATATAAAAA
* * *
109882848 ATTAAATACGAAAATAGTATA-TTTAAAAAATAAAAT-CTAAAATTTTTAAAAATACAAACAAAT
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TTTTAAAAATACAAACAAAT
*
109882911 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTAT-AAATAT
65 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATT-TGAAACAT
109882975 TATGTACTAAAATAATATAAAAA
129 TATGTACTAAAATAATATAAAAA
** *
109882998 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCTAAAAATTTTAAAAATACAAACAAAGG
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
* *
109883063 GCTAAAATCAC-TGTTATTTACTAAATTAATATAAAAAACATGAAAATAATACATTTGAAACATT
66 GCCAAAATCACGT-TTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATT
*
109883127 ATGTACTAAAATAGTATAAAAA
130 ATGTACTAAAATAATATAAAAA
* *
109883149 ATAAAATATGACAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAGG
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
* * * *
109883214 GCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACACAAAAATAATACATTTAAAACATT
66 GCCAAAATCACGTTTATTTACTAAATTAATAT-AAAAAACACGAAAATAATACATTTGAAACATT
109883279 ATGTACTAAAATAATATAAAAAA
130 ATGTACTAAAATAATAT-AAAAA
* *
109883302 ATAAAGTATGAAAATAATATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
* * *
109883367 GCCAAAATCACAG-TTATTTACTAAATTAATATAAAAAATATGAAAATAATACTTTTGAAACATT
66 GCCAAAATCAC-GTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATT
109883431 ATGTACTAAAATAATATAAAAA
130 ATGTACTAAAATAATATAAAAA
* * ** *
109883453 ATAAAATATAAAAATAGTATATTTTAAAAAATAAAAATCCAAAAATTCAAAAAATACAAACAAAG
1 ATAAAATATGAAAATAGTATATTTTAAAAAAT-AAAATCCGAAAATTTTAAAAATACAAACAAAT
109883518 GGCCAAAATCACG
65 GGCCAAAATCACG
109883531 GAATAAAAAA
Statistics
Matches: 758, Mismatches: 56, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
148 31 0.04
149 81 0.11
150 144 0.19
151 273 0.36
152 133 0.18
153 95 0.13
154 1 0.00
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (151 bp):
ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAATG
GCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATTA
TGTACTAAAATAATATAAAAA
Found at i:109882736 original size:15 final size:17
Alignment explanation
Indices: 109882708--109882741 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
109882698 ATAAAATACG
109882708 AAAATAATATATTTTAA
1 AAAATAATATATTTTAA
109882725 AAAATAA-A-ATTTTAA
1 AAAATAATATATTTTAA
109882740 AA
1 AA
109882742 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAATATATTTTAA
Found at i:109883376 original size:304 final size:302
Alignment explanation
Indices: 109882547--109883530 Score: 1507
Period size: 304 Copynumber: 3.3 Consensus size: 302
109882537 CTAAAATAAT
* * * *
109882547 ATAAAAGTACGAAAATAGTAAATTTAAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAT
1 ATAAAA-TATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAG
* *
109882612 GGCCAAAATCACGTTTATTTATTAAATTAATATAAAAAACACGAAAATAATACATTTGAAACATT
65 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTAAAACATT
* * *
109882677 ATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATTTTAAA
130 ATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCTAAAA
* * *
109882741 ATTTTAAAAGTACAAACAAATGGCCAAAATCACGGTTATTTACTAAA--AATATATAAAACCCCA
195 ATTTTAAAAATACAAACAAATGGCCAAAATCACAGTTATTTACTAAATTAATATA-AAAA--ACA
*
109882804 TGAAAATAATACATTTGAAACA-T-TGTACTAAAATAATATTAAAA
257 TGAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
* * * *
109882848 ATTAAATACGAAAATAGTATA-TTTAAAAAATAAAAT-CTAAAATTTTTAAAAATACAAACAAAT
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-TTTTAAAAATACAAACAAAG
*
109882911 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACA-TTATAAATAT
65 GGCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTA-AAACAT
*
109882975 TATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCTAAA
129 TATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCTAAA
* * *
109883040 AATTTTAAAAATACAAACAAAGGGCTAAAATCACTGTTATTTACTAAATTAATATAAAAAACATG
194 AATTTTAAAAATACAAACAAATGGCCAAAATCACAGTTATTTACTAAATTAATATAAAAAACATG
*
109883105 AAAATAATACATTTGAAACATTATGTACTAAAATAGTATAAAAA
259 AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
*
109883149 ATAAAATATGACAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAGG
1 ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAGG
* * *
109883214 GCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACACAAAAATAATACATTTAAAACATT
66 GCCAAAATCACGTTTATTTACTAAATTAATAT-AAAAAACACGAAAATAATACATTTAAAACATT
* **
109883279 ATGTACTAAAATAATATAAAAAAATAAAGTATGAAAATAATATATTTTAAAAAATAAAATCCGAA
130 ATGTACTAAAATAATAT-AAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCTAAA
*
109883344 AATTTTAAAAATACAAACAAATGGCCAAAATCACAGTTATTTACTAAATTAATATAAAAAATATG
194 AATTTTAAAAATACAAACAAATGGCCAAAATCACAGTTATTTACTAAATTAATATAAAAAACATG
*
109883409 AAAATAATACTTTTGAAACATTATGTACTAAAATAATATAAAAA
259 AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
* * **
109883453 ATAAAATATAAAAATAGTATATTTTAAAAAATAAAAATCCAAAAATTCAAAAAATACAAACAAAG
1 ATAAAATATGAAAATAGTATATTTTAAAAAAT-AAAATCCGAAAATTTTAAAAATACAAACAAAG
109883518 GGCCAAAATCACG
65 GGCCAAAATCACG
109883531 GAATAAAAAA
Statistics
Matches: 627, Mismatches: 43, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
298 7 0.01
299 134 0.21
300 101 0.16
301 46 0.07
302 71 0.11
303 48 0.08
304 179 0.29
305 41 0.07
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (302 bp):
ATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAACAAAGG
GCCAAAATCACGTTTATTTACTAAATTAATATAAAAAACACGAAAATAATACATTTAAAACATTA
TGTACTAAAATAATATAAAAAATAAAATATGAAAATAATATATTTTAAAAAATAAAATCTAAAAA
TTTTAAAAATACAAACAAATGGCCAAAATCACAGTTATTTACTAAATTAATATAAAAAACATGAA
AATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
Found at i:109901081 original size:23 final size:23
Alignment explanation
Indices: 109901055--109901103 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
109901045 ATAAGTAACT
109901055 TTTTATATATTCAAAAATTAAAA
1 TTTTATATATTCAAAAATTAAAA
* * *
109901078 TTTTTTATATTTAAAAATTTAAA
1 TTTTATATATTCAAAAATTAAAA
109901101 TTT
1 TTT
109901104 AATTGTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTATATATTCAAAAATTAAAA
Found at i:109901094 original size:24 final size:25
Alignment explanation
Indices: 109901054--109901100 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
109901044 TATAAGTAAC
*
109901054 TTTTTATATATTCAAAAATTAAAAT
1 TTTTTATATATTAAAAAATTAAAAT
*
109901079 TTTTTATAT-TTAAAAATTTAAA
1 TTTTTATATATTAAAAAATTAAA
109901101 TTTAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTTATATATTAAAAAATTAAAAT
Found at i:109901403 original size:2 final size:2
Alignment explanation
Indices: 109901396--109901460 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
109901386 ACAACCAAAG
109901396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109901438 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
109901461 CTAAGTAACC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109913358 original size:38 final size:38
Alignment explanation
Indices: 109913307--109913515 Score: 157
Period size: 38 Copynumber: 5.0 Consensus size: 38
109913297 GGAATGGAAA
*
109913307 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
109913345 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGT
* * * *
109913393 AATGTAGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GT
* *
109913440 AACGTGGTGCTAAGTGGATATACCACGCTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
109913478 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
109913516 TAATTTGAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
38 62 0.46
40 2 0.01
41 1 0.01
42 4 0.03
43 5 0.04
44 1 0.01
45 1 0.01
46 1 0.01
47 27 0.20
48 31 0.23
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:109913466 original size:47 final size:48
Alignment explanation
Indices: 109913337--109913475 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
109913327 TACCACGGTT
* *
109913337 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
* * * * *
109913385 ATACATGTAATGTAGTGCTAAGTGGATATGCCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
* * *
109913433 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGCTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
109913476 GTAACGTGGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 31 0.40
48 46 0.60
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCG
Found at i:109918980 original size:2 final size:2
Alignment explanation
Indices: 109918973--109919000 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109918963 CAAATGCATC
109918973 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
109919001 GAAAAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109927944 original size:53 final size:53
Alignment explanation
Indices: 109927803--109927953 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
109927793 ACAAGTGTGC
* **
109927803 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
109927856 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
109927909 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
109927954 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:109929454 original size:22 final size:22
Alignment explanation
Indices: 109929429--109929470 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
109929419 TACTTGAATT
109929429 TTTAAAATGTATCAAAAAGACC
1 TTTAAAATGTATCAAAAAGACC
* * *
109929451 TTTAAACTTTTTCAAAAAGA
1 TTTAAAATGTATCAAAAAGA
109929471 GTAATTAAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (22 bp):
TTTAAAATGTATCAAAAAGACC
Found at i:109929677 original size:9 final size:9
Alignment explanation
Indices: 109929641--109929737 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
109929631 ACATGCAGTA
109929641 AAAAATTAT
1 AAAAATTAT
109929650 AAAAA--AT
1 AAAAATTAT
*
109929657 AAAAATAAAT
1 AAAAAT-TAT
*
109929667 AAAAGTTAT
1 AAAAATTAT
109929676 AAAAATTATT
1 AAAAATTA-T
**
109929686 AAATTTTAAAT
1 AAAAATT--AT
109929697 AAAAA-TAT
1 AAAAATTAT
*
109929705 AAAATTTTAT
1 AAAA-ATTAT
*
109929715 AAAAATCAT
1 AAAAATTAT
109929724 AAATAATTAT
1 AAA-AATTAT
109929734 AAAA
1 AAAA
109929738 GACATCAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 21 0.31
10 29 0.43
11 4 0.06
12 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:109929932 original size:9 final size:9
Alignment explanation
Indices: 109929918--109930114 Score: 89
Period size: 9 Copynumber: 21.0 Consensus size: 9
109929908 TTTTAGTACG
109929918 ATAATTTTT
1 ATAATTTTT
109929927 ATAATTTTT
1 ATAATTTTT
* *
109929936 TTACGAATTTT
1 ATA--ATTTTT
*
109929947 ATATTTCTTT
1 ATAATT-TTT
* *
109929957 ACATTTTTT
1 ATAATTTTT
109929966 ATAATTTTCT
1 ATAATTTT-T
**
109929976 -TACAACTTT
1 ATA-ATTTTT
*
109929985 ATAAAATTTT
1 AT-AATTTTT
109929995 ATAACTTTTTT
1 ATAA--TTTTT
* *
109930006 CTATATTTGT
1 ATA-ATTTTT
109930016 AT-ATATTTT
1 ATAAT-TTTT
109930025 ATAATTTTT
1 ATAATTTTT
*
109930034 ACAATTTTT
1 ATAATTTTT
109930043 AATAAATTTTT
1 -AT-AATTTTT
*
109930054 ATATTTTTT
1 ATAATTTTT
* *
109930063 A-AAATTTA
1 ATAATTTTT
*
109930071 ATTATTTTT
1 ATAATTTTT
109930080 ATAA-TTTT
1 ATAATTTTT
109930088 -TAATTATTT
1 ATAATT-TTT
*
109930097 TTAATTTTT
1 ATAATTTTT
*
109930106 ATTATTTTT
1 ATAATTTTT
109930115 TCCCACATGT
Statistics
Matches: 142, Mismatches: 28, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
7 3 0.02
8 12 0.08
9 70 0.49
10 35 0.25
11 21 0.15
12 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:109929948 original size:20 final size:19
Alignment explanation
Indices: 109929923--109929988 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
109929913 GTACGATAAT
109929923 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTTTTAC-AA
* *
109929943 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTTTTTACA-A
*
109929962 TTTTATAATTTTCTTACAA
1 TTTTATAATTTTTTTACAA
*
109929981 CTTTATAA
1 TTTTATAA
109929989 AATTTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 22 0.58
20 15 0.39
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTTACAA
Found at i:109930042 original size:38 final size:39
Alignment explanation
Indices: 109929982--109930069 Score: 88
Period size: 38 Copynumber: 2.3 Consensus size: 39
109929972 TTCTTACAAC
* * ** *
109929982 TTTATAAAATTTTATAACTTTTTTCTATATTTGTATATAT
1 TTTAT-AATTTTTACAACTTTTTAATAAATTTGTATATAT
* *
109930022 TTTATAATTTTTACAA-TTTTTAATAAATTTTTATATTT
1 TTTATAATTTTTACAACTTTTTAATAAATTTGTATATAT
*
109930060 TTTAAAATTT
1 TTTATAATTT
109930070 AATTATTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 26 0.65
39 9 0.22
40 5 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (39 bp):
TTTATAATTTTTACAACTTTTTAATAAATTTGTATATAT
Found at i:109930052 original size:20 final size:20
Alignment explanation
Indices: 109930027--109930064 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109930017 TATATTTTAT
109930027 AATTTTTACAATTTTTAATA
1 AATTTTTACAATTTTTAATA
* *
109930047 AATTTTTATATTTTTTAA
1 AATTTTTACAATTTTTAA
109930065 AATTTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTTACAATTTTTAATA
Found at i:109930053 original size:29 final size:27
Alignment explanation
Indices: 109929961--109930114 Score: 102
Period size: 29 Copynumber: 5.5 Consensus size: 27
109929951 TTCTTTACAT
*
109929961 TTTTTATAATTTTCTTACAACTTTATAAA
1 TTTTTATAA-TTT-TTACAATTTTATAAA
* * *
109929990 ATTTTATAACTTTTTTCTATATTTGTATATA
1 TTTTTATAA-TTTTTAC-A-ATTT-TATAAA
109930021 -TTTTATAATTTTTACAATTTTTAATAAA
1 TTTTTATAATTTTTACAA-TTTT-ATAAA
* * * *
109930049 TTTTTATATTTTTTAAAATTTAAT-TA
1 TTTTTATAATTTTTACAATTTTATAAA
109930075 TTTTTATAATTTTTA-ATTATTTT-T-AA
1 TTTTTATAATTTTTACA--ATTTTATAAA
*
109930101 TTTTTATTATTTTT
1 TTTTTATAATTTTT
109930115 TCCCACATGT
Statistics
Matches: 102, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
25 1 0.01
26 30 0.29
27 8 0.08
28 14 0.14
29 33 0.32
30 11 0.11
31 5 0.05
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTTATAATTTTTACAATTTTATAAA
Found at i:109930059 original size:19 final size:18
Alignment explanation
Indices: 109930021--109930114 Score: 88
Period size: 17 Copynumber: 5.2 Consensus size: 18
109930011 TTTGTATATA
**
109930021 TTTTATAATTTTTACAAT
1 TTTTATAATTTTTATTAT
109930039 TTTTAATAAATTTTTA-TAT
1 TTTT-AT-AATTTTTATTAT
* *
109930058 TTTT-TAAAATTTAATTAT
1 TTTTAT-AATTTTTATTAT
109930076 TTTTATAATTTTTAATTA-
1 TTTTATAATTTTT-ATTAT
109930094 TTTT-TAATTTTTATTAT
1 TTTTATAATTTTTATTAT
109930111 TTTT
1 TTTT
109930115 TCCCACATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.06
17 20 0.31
18 20 0.31
19 13 0.20
20 8 0.12
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTATTAT
Found at i:109930080 original size:10 final size:10
Alignment explanation
Indices: 109930067--109930102 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
109930057 TTTTTTAAAA
109930067 TTTAATTATT
1 TTTAATTATT
*
109930077 TTT-ATAATT
1 TTTAATTATT
109930086 TTTAATTATT
1 TTTAATTATT
109930096 TTTAATT
1 TTTAATT
109930103 TTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTAATTATT
Found at i:109930103 original size:26 final size:25
Alignment explanation
Indices: 109930047--109930114 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
109930037 ATTTTTAATA
* **
109930047 AATTTTTATATTTTTTAAAATTTAATT
1 AATTTTTATAATTTTTATTATTT--TT
109930074 -ATTTTTATAATTTTTAATTATTTTT
1 AATTTTTATAATTTTT-ATTATTTTT
*
109930099 AATTTTTATTATTTTT
1 AATTTTTATAATTTTT
109930115 TCCCACATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.06
26 28 0.80
27 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
AATTTTTATAATTTTTATTATTTTT
Found at i:109930115 original size:36 final size:38
Alignment explanation
Indices: 109929991--109930115 Score: 107
Period size: 35 Copynumber: 3.4 Consensus size: 38
109929981 CTTTATAAAA
* * * *
109929991 TTTTATAACTTTTTTCTATATTTGTATA-TATTTTATAAT
1 TTTTATTA-TTTTTTATAAATTTTTATATTATTTT-TAAT
** * * *
109930030 TTTTACAATTTTTAATAAATTTTTATATT-TTTTAAAA
1 TTTTATTATTTTTTATAAATTTTTATATTATTTTTAAT
*
109930067 TTTAATTA-TTTTTAT-AATTTTTA-ATTATTTTTAAT
1 TTTTATTATTTTTTATAAATTTTTATATTATTTTTAAT
109930102 TTTTATTATTTTTT
1 TTTTATTATTTTTT
109930116 CCCACATGTC
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
34 3 0.04
35 21 0.30
36 11 0.16
37 7 0.10
38 19 0.28
39 8 0.12
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (38 bp):
TTTTATTATTTTTTATAAATTTTTATATTATTTTTAAT
Found at i:109930974 original size:18 final size:19
Alignment explanation
Indices: 109930934--109930976 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
109930924 ATTCAACTAT
*
109930934 TTAACATTTTTTTTAACCAC
1 TTAA-ATTTCTTTTAACCAC
109930954 TTAAATTTCTTTTAA-CAC
1 TTAAATTTCTTTTAACCAC
109930972 TTAAA
1 TTAAA
109930977 AACCTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 10 0.45
20 4 0.18
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAATTTCTTTTAACCAC
Found at i:109950067 original size:13 final size:12
Alignment explanation
Indices: 109950045--109950075 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
109950035 GGGAAATACC
109950045 AAAAAAAAAATA
1 AAAAAAAAAATA
109950057 AAAATAAAAAATA
1 AAAA-AAAAAATA
109950070 AAAAAA
1 AAAAAA
109950076 TAAGAGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAAAAATA
Done.