Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 215 of 279
Found at i:70221356 original size:10 final size:10
Alignment explanation
Indices: 70221212--70221372 Score: 58
Period size: 10 Copynumber: 17.0 Consensus size: 10
70221202 AGATCATTAT
70221212 TTTTTTATAA
1 TTTTTTATAA
70221222 -TTTTTATAA
1 TTTTTTATAA
** *
70221231 AATTTTACAA
1 TTTTTTATAA
70221241 TTTTTTAT--
1 TTTTTTATAA
70221249 TTTTTTA-AGA
1 TTTTTTATA-A
70221259 -TTTTTATAA
1 TTTTTTATAA
**** *
70221268 AAAATTCTAA
1 TTTTTTATAA
*
70221278 TTTTTAATAA
1 TTTTTTATAA
*
70221288 -ATTTTAT-A
1 TTTTTTATAA
70221296 TTTTTTAT-A
1 TTTTTTATAA
70221305 -TTTTTATTAA
1 TTTTTTA-TAA
** *
70221315 AATTTAATAA
1 TTTTTTATAA
70221325 TTTTTCTA-AA
1 TTTTT-TATAA
**
70221335 --TTTTATTG
1 TTTTTTATAA
70221343 TTTTTTATAA
1 TTTTTTATAA
*
70221353 TTTTTTTTAA
1 TTTTTTATAA
*
70221363 TTTTTAATAA
1 TTTTTTATAA
70221373 GAGCATGGGT
Statistics
Matches: 107, Mismatches: 30, Indels: 28
0.65 0.18 0.17
Matches are distributed among these distances:
7 2 0.02
8 17 0.16
9 29 0.27
10 54 0.50
11 5 0.05
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:70221927 original size:9 final size:10
Alignment explanation
Indices: 70221881--70221942 Score: 61
Period size: 11 Copynumber: 5.8 Consensus size: 10
70221871 CACAAAAGTC
70221881 CTCTCATAATT
1 CTCTCA-AATT
*
70221892 CTTTCTAAATT
1 CTCTC-AAATT
70221903 CTCTCCAAATT
1 CTCT-CAAATT
70221914 CTCTCAAATTT
1 CTCTCAAA-TT
*
70221925 CTCTCATATT
1 CTCTCAAATT
*
70221935 TTCTCAAA
1 CTCTCAAA
70221943 GCTCTCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.28
11 29 0.67
12 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:70221939 original size:21 final size:21
Alignment explanation
Indices: 70221893--70221942 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
70221883 CTCATAATTC
70221893 TTTCT-AAATTCTCTCCAAAT
1 TTTCTCAAATTCTCTCCAAAT
* *
70221913 TCTCTCAAATT-TCTCTCATAT
1 TTTCTCAAATTCTCTC-CAAAT
70221934 TTTCTCAAA
1 TTTCTCAAA
70221943 GCTCTCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTCTCAAATTCTCTCCAAAT
Found at i:70223109 original size:7 final size:7
Alignment explanation
Indices: 70223097--70223122 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70223087 TAAAATAGTC
70223097 GTATTTA
1 GTATTTA
70223104 GTATTTA
1 GTATTTA
70223111 GTATTTA
1 GTATTTA
70223118 GTATT
1 GTATT
70223123 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:70223762 original size:18 final size:18
Alignment explanation
Indices: 70223739--70223776 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
70223729 TGCTAGGTGC
* *
70223739 GTATCCTAGCTCTTATAT
1 GTATCCTAACCCTTATAT
70223757 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
70223775 GT
1 GT
70223777 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:70234990 original size:40 final size:40
Alignment explanation
Indices: 70234933--70235177 Score: 239
Period size: 40 Copynumber: 6.1 Consensus size: 40
70234923 TTGAATGATG
* * * *
70234933 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATA
* *
70234973 TCCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
** * *
70235013 TCCGGGTTAAG-TCCCGAGGGCATTTGTACGAGTTACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATA
* * *
70235053 ACCAGACTAAGATCTGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
*
70235093 ACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
70235133 ACCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTATA
70235173 TCCGG
1 TCCGG
70235178 TTAAATTCCG
Statistics
Matches: 173, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 4 0.02
40 161 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:70235172 original size:120 final size:120
Alignment explanation
Indices: 70234948--70235165 Score: 323
Period size: 120 Copynumber: 1.8 Consensus size: 120
70234938 GCTAAGTCCC
*
70234948 GAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAA
1 GAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAA
* * *
70235013 TCCGGGTTAAGTCCCGAGGGCATTTGTACGAGTTACTATAACCAGACTAAGATCT
66 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAACCAGACTAAGATCT
* * * *
70235068 GAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAT
1 GAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTA-
*
70235132 AA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
70235166 AGCTATATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
120 78 0.90
121 9 0.10
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (120 bp):
GAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAA
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTATAACCAGACTAAGATCT
Found at i:70239176 original size:126 final size:126
Alignment explanation
Indices: 70238851--70239416 Score: 796
Period size: 126 Copynumber: 4.5 Consensus size: 126
70238841 CCAAATAGGA
* * * *
70238851 ACTACTGTATCAAAAAAACATCCACGTGGGAGCTTTTTTCAGTAATTCTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
70238916 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTTTTCTCAAAATTA-TTTTTCAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * * *
70238976 ATTACTGTAGCATAAGAGCATCCACGTGTGAGCTTTTTTCAGTAATTTTGCTGAGAGTGCATCCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * *
70239041 GCTTGAAGCGTTTTGGACTCTATTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
70239102 ACTACTGTAGCAAAAAAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCAT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
*
70239167 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAAT
66 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * * * *
70239228 ACTAATGTAGCAAAAGAGTGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGATAGTACGTCCT
1 ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * * *
70239293 GCTTAAAAGCGTTTAGGATACTATTTGTTCAGAAACGTTTTCTTAAAATTATTTTTT-AGAT
66 GCTT-GAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
70239354 ACTACTGTAGCAAAAGAA-CGTCCACGTGGAAGCTTTTTTCAATAATTTTGCTGACAGTTCATC
1 ACTACTGTAGCAAAA-AAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
70239417 TTAATTTAAT
Statistics
Matches: 391, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 103 0.26
126 240 0.61
127 48 0.12
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:70239669 original size:22 final size:21
Alignment explanation
Indices: 70239638--70239678 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
70239628 AATAGTTAAT
70239638 TTAATTAATTAACCCTAAATC
1 TTAATTAATTAACCCTAAATC
70239659 TTAATTTAATTAACCCTAAA
1 TTAA-TTAATTAACCCTAAA
70239679 ATCCTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAATTAATTAACCCTAAATC
Found at i:70249927 original size:46 final size:45
Alignment explanation
Indices: 70249877--70250052 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
70249867 TGGTTGAGCA
70249877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
70249923 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
70249970 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
70250016 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70250053 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:70250033 original size:93 final size:93
Alignment explanation
Indices: 70249874--70250044 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
70249864 GGATGGTTGA
* *
70249874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70249939 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
70249967 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70250032 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70250045 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:70253996 original size:18 final size:18
Alignment explanation
Indices: 70253970--70254004 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70253960 AAAATTGACG
* *
70253970 CTTCTTCTTCCCTTTCCC
1 CTTCCTCTTCCCCTTCCC
70253988 CTTCCTCTTCCCCTTCC
1 CTTCCTCTTCCCCTTCC
70254005 TCTTGGGTTA
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:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (18 bp):
CTTCCTCTTCCCCTTCCC
Found at i:70253998 original size:12 final size:12
Alignment explanation
Indices: 70253983--70254008 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
70253973 CTTCTTCCCT
70253983 TTCCCCTTCCTC
1 TTCCCCTTCCTC
70253995 TTCCCCTTCCTC
1 TTCCCCTTCCTC
70254007 TT
1 TT
70254009 GGGTTACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCCCCTTCCTC
Found at i:70256861 original size:20 final size:20
Alignment explanation
Indices: 70256836--70256882 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
70256826 ATCCAAAACA
*
70256836 CCAGAAAAGCAAATTATTTT
1 CCAGAAAAGCAAATCATTTT
*
70256856 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGCAAATCATTTT
70256876 CCAGAAA
1 CCAGAAA
70256883 TTATTTTCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGCAAATCATTTT
Found at i:70257594 original size:13 final size:13
Alignment explanation
Indices: 70257576--70257602 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70257566 CAATCCTTCC
70257576 ATATTAGAATGAG
1 ATATTAGAATGAG
70257589 ATATTAGAATGAG
1 ATATTAGAATGAG
70257602 A
1 A
70257603 CAAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
ATATTAGAATGAG
Found at i:70278807 original size:13 final size:13
Alignment explanation
Indices: 70278789--70278815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70278779 GCTCGACAGG
70278789 GACATGCCCGTGT
1 GACATGCCCGTGT
70278802 GACATGCCCGTGT
1 GACATGCCCGTGT
70278815 G
1 G
70278816 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:70287969 original size:43 final size:43
Alignment explanation
Indices: 70287782--70287975 Score: 219
Period size: 43 Copynumber: 4.5 Consensus size: 43
70287772 GATTACTGAG
* * * *
70287782 ATGTGATTACATGTAAGACAATGTCTGGGGCATTGGCATTGTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* * *
70287825 TTGGGATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* ** *
70287868 ATATGATTTTGTGTAAGAACATGTCTGGGACATTGGCATCGTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
** **
70287911 ATACGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG-A
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* *
70287953 TATGTGATAACATGTAAGACCAT
1 -ATGTGATTACGTGTAAGACCAT
70287976 ATCTAGGATA
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
42 1 0.01
43 127 0.99
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
Found at i:70294391 original size:43 final size:43
Alignment explanation
Indices: 70294330--70294434 Score: 201
Period size: 43 Copynumber: 2.4 Consensus size: 43
70294320 TAAAGACAAA
*
70294330 ATTTAGCCTGTACTAGTAATTCTGATCTTACATTGAAATTAAG
1 ATTTAGCCTGGACTAGTAATTCTGATCTTACATTGAAATTAAG
70294373 ATTTAGCCTGGACTAGTAATTCTGATCTTACATTGAAATTAAG
1 ATTTAGCCTGGACTAGTAATTCTGATCTTACATTGAAATTAAG
70294416 ATTTAGCCTGGACTAGTAA
1 ATTTAGCCTGGACTAGTAA
70294435 CCTTGATTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (43 bp):
ATTTAGCCTGGACTAGTAATTCTGATCTTACATTGAAATTAAG
Found at i:70296644 original size:42 final size:42
Alignment explanation
Indices: 70296528--70296684 Score: 129
Period size: 43 Copynumber: 3.7 Consensus size: 42
70296518 GATGTGATAC
* * *
70296528 CGTGTAAGACCATGTCCGAGACATTGGCATCAATATGAGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-AGATTA
* * ** *
70296571 CGTGTAAGGCCATGTATGGGACATTAACATCG-TATATGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATA-GATTA
* * * *
70296613 CGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATAA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATA-TAGATTA
* * * *
70296656 CATGTAAGAGCATGCCTGGGATA-TGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
70296685 TGTACGAGTT
Statistics
Matches: 89, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 39 0.44
43 48 0.54
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAGATTA
Found at i:70306571 original size:51 final size:51
Alignment explanation
Indices: 70306465--70306572 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
70306455 TTACATAATA
* * * * * ***
70306465 TGTCAATTTGGTCTTGATTTAATAAATTTAGCCCACAACATTTATGTATTG
1 TGTCAACTTGGTCCTAATCTAACAAATTTAGCCCACAACATTTACCCATTG
* *
70306516 TGTCAACTTGGTCCTAATCTAACAAATTTAGCCCATAACATTTACCCATTT
1 TGTCAACTTGGTCCTAATCTAACAAATTTAGCCCACAACATTTACCCATTG
70306567 TGTCAA
1 TGTCAA
70306573 AATTTACACA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (51 bp):
TGTCAACTTGGTCCTAATCTAACAAATTTAGCCCACAACATTTACCCATTG
Found at i:70309446 original size:6 final size:6
Alignment explanation
Indices: 70309435--70309468 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
70309425 CCGAGTAGGC
*
70309435 CAAGCT CAAGCT CAAGCA CAAGCT CAAGCT CAAG
1 CAAGCT CAAGCT CAAGCT CAAGCT CAAGCT CAAG
70309469 GCTAAGGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (6 bp):
CAAGCT
Found at i:70313096 original size:38 final size:38
Alignment explanation
Indices: 70313054--70313130 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
70313044 CTTATGCCTC
70313054 ATGGGTAGAACCATCCTAGTCAGATACTCAGATATAAA
1 ATGGGTAGAACCATCCTAGTCAGATACTCAGATATAAA
70313092 ATGGGTAGAACCATCCTAGTCAGATACTCAGATATAAA
1 ATGGGTAGAACCATCCTAGTCAGATACTCAGATATAAA
70313130 A
1 A
70313131 GCATTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (38 bp):
ATGGGTAGAACCATCCTAGTCAGATACTCAGATATAAA
Found at i:70321064 original size:80 final size:81
Alignment explanation
Indices: 70320961--70321121 Score: 297
Period size: 80 Copynumber: 2.0 Consensus size: 81
70320951 ATCACAAGGA
*
70320961 ATTTCAAATAAAACACACACACACAAAATTCCATGAAGATTTTCGTTTAAAAGAAATAAAATATT
1 ATTTCAAATAAAACAAACACACACAAAATTCCATGAAGATTTTCGTTTAAAAGAAATAAAATATT
70321026 TCAATTTATAATGTTT
66 TCAATTTATAATGTTT
*
70321042 ATTTCAAATAAAA-AAACACACACAAAATTCCATGAAGTTTTTCGTTTAAAAGAAATAAAATATT
1 ATTTCAAATAAAACAAACACACACAAAATTCCATGAAGATTTTCGTTTAAAAGAAATAAAATATT
70321106 TCAATTTATAATGTTT
66 TCAATTTATAATGTTT
70321122 TTAATTAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 65 0.83
81 13 0.17
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (81 bp):
ATTTCAAATAAAACAAACACACACAAAATTCCATGAAGATTTTCGTTTAAAAGAAATAAAATATT
TCAATTTATAATGTTT
Found at i:70322852 original size:29 final size:29
Alignment explanation
Indices: 70322800--70322859 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
70322790 TTTAGTTAAT
**
70322800 TTTTTAAAAATTAAAAATTTTTAAAAATA
1 TTTTTAAAAATTAAAAATCATTAAAAATA
*
70322829 TTTTTAAAAATTAAAAATCATTAAAATTA
1 TTTTTAAAAATTAAAAATCATTAAAAATA
70322858 TT
1 TT
70322860 ATAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTTTTAAAAATTAAAAATCATTAAAAATA
Found at i:70334473 original size:40 final size:40
Alignment explanation
Indices: 70334429--70334692 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
70334419 GCTCCTCGTT
* *
70334429 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
70334469 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
70334509 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
70334549 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
70334589 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
70334628 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
70334669 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70334693 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:70343121 original size:40 final size:40
Alignment explanation
Indices: 70343077--70343338 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
70343067 GCTCCTCGTT
* *
70343077 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
70343117 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70343157 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70343196 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70343235 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
70343274 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
70343315 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70343339 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:70347403 original size:10 final size:10
Alignment explanation
Indices: 70347388--70347412 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
70347378 TAAGGTTTGA
70347388 ATTTTGTTCG
1 ATTTTGTTCG
70347398 ATTTTGTTCG
1 ATTTTGTTCG
70347408 ATTTT
1 ATTTT
70347413 TATGTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGTTCG
Found at i:70351996 original size:13 final size:13
Alignment explanation
Indices: 70351978--70352002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70351968 TAATGGTATA
70351978 TTGAATCCATGAT
1 TTGAATCCATGAT
70351991 TTGAATCCATGA
1 TTGAATCCATGA
70352003 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:70371356 original size:15 final size:15
Alignment explanation
Indices: 70371336--70371366 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
70371326 CTTTGAAGGC
70371336 CCATCTAAAAGACGT
1 CCATCTAAAAGACGT
70371351 CCATCTAAAAGACGT
1 CCATCTAAAAGACGT
70371366 C
1 C
70371367 ATGACATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (15 bp):
CCATCTAAAAGACGT
Found at i:70381320 original size:45 final size:45
Alignment explanation
Indices: 70381265--70381354 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
70381255 AATTATGTGG
70381265 TTTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGACA
1 TTTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGACA
* **
70381310 TTTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGACA
1 TTTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGACA
70381355 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.39
Consensus pattern (45 bp):
TTTGAACTCATTGAGTTGTGCTCTGAGTTCATGACATATGTGACA
Found at i:70390154 original size:57 final size:56
Alignment explanation
Indices: 70390079--70390185 Score: 142
Period size: 57 Copynumber: 1.9 Consensus size: 56
70390069 TCTCATTATT
* * *
70390079 ATTTCCATTTCCATTTTGGACAAAACCATATTGATTTCCAAATGATTTCATCTCTCC
1 ATTTCCATTTCCATTTTGGACAAAAACATAATCATTTCCAAATG-TTTCATCTCTCC
* * * *
70390136 ATTTTCATTTTCATTTTGGAGAAAAACTTAATCATTTCCAAATGTTTCAT
1 ATTTCCATTTCCATTTTGGACAAAAACATAATCATTTCCAAATGTTTCAT
70390186 ATTTTTCCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 6 0.14
57 37 0.86
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (56 bp):
ATTTCCATTTCCATTTTGGACAAAAACATAATCATTTCCAAATGTTTCATCTCTCC
Found at i:70395509 original size:48 final size:48
Alignment explanation
Indices: 70395447--70395563 Score: 216
Period size: 48 Copynumber: 2.4 Consensus size: 48
70395437 TATATATGTG
70395447 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
70395495 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
70395543 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
70395564 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
Found at i:70397773 original size:43 final size:42
Alignment explanation
Indices: 70397725--70397951 Score: 373
Period size: 43 Copynumber: 5.3 Consensus size: 42
70397715 TTATTTGATA
70397725 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTCCAC
* *
70397768 AAACGCCACTAAAGATCATGACCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC
*
70397810 AAAAGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCC-AC
70397853 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCC-AC
* *
70397896 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTTCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTCCAC
70397939 AAACGCCGCTAAA
1 AAACGCCGCTAAA
70397952 CATGCATGCA
Statistics
Matches: 174, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
42 44 0.25
43 125 0.72
44 5 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCAC
Found at i:70397832 original size:85 final size:86
Alignment explanation
Indices: 70397724--70397951 Score: 379
Period size: 85 Copynumber: 2.7 Consensus size: 86
70397714 TTTATTTGAT
*
70397724 AAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGATCATGA
1 AAAA-GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGA
70397789 CCTTTAGCGGCGC-TTTCCCAC
65 CCTTTAGCGGCGCTTTTCCCAC
70397810 AAAAGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTCCTACAAACGCCGCTAAAGATCATGA
1 AAAAGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCC-ACAAACGCCGCTAAAGATCATGA
*
70397874 CCTTTAGCGGCGCTTTTCCTAC
65 CCTTTAGCGGCGCTTTTCCCAC
* * *
70397896 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTTCTACAAACGCCGCTAAA
1 AAAAGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAA
70397952 CATGCATGCA
Statistics
Matches: 134, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
84 6 0.04
85 65 0.49
86 58 0.43
87 5 0.04
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (86 bp):
AAAAGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGAC
CTTTAGCGGCGCTTTTCCCAC
Found at i:70398547 original size:17 final size:16
Alignment explanation
Indices: 70398508--70398547 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
70398498 CCCACATATC
*
70398508 TCACCAAAACACGTAT
1 TCACCAAAACACGGAT
*
70398524 TCGCCAAAACACAGGAT
1 TCACCAAAACAC-GGAT
70398541 TCACCAA
1 TCACCAA
70398548 TTGGTGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.15
Consensus pattern (16 bp):
TCACCAAAACACGGAT
Found at i:70401361 original size:30 final size:30
Alignment explanation
Indices: 70401327--70401386 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
70401317 ATTTTTGAGC
* * *
70401327 CTAGGGGCAAAATGATCATTTTATCAAAGA
1 CTAGGGGAAAAATAATCATTTTACCAAAGA
*
70401357 CTAGGGGAAAAATAATCGTTTTACCAAAGA
1 CTAGGGGAAAAATAATCATTTTACCAAAGA
70401387 TATGAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (30 bp):
CTAGGGGAAAAATAATCATTTTACCAAAGA
Found at i:70401782 original size:46 final size:45
Alignment explanation
Indices: 70401724--70401945 Score: 170
Period size: 46 Copynumber: 4.8 Consensus size: 45
70401714 TCACTTGTGT
*
70401724 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA-GA
*
70401770 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-G--ACATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-AGA
* * * *
70401815 CGAGTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTC--GAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
* * *
70401861 CGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAC--GAGA
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
* * *
70401907 TGTGTCAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
70401946 ACAGATATGC
Statistics
Matches: 146, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
44 10 0.07
45 21 0.14
46 69 0.47
47 28 0.19
48 17 0.12
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
Found at i:70401968 original size:140 final size:140
Alignment explanation
Indices: 70401729--70401987 Score: 317
Period size: 140 Copynumber: 1.8 Consensus size: 140
70401719 TGTGTGAGCT
* * * *
70401729 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGAT-AGAGCCAGTATAAGACCATGTCTGG
** ** *
70401794 GACATGGCATCGACATTGAGACGAGTGCTAGTGTAAGA-CATGTCTGGGACATGCTTCGGCCTCG
65 GACATGGCATCGACACAGAGACGAGAACTAGTGTAAGACCATGTCTGGAACATGCTTCGGCCTCG
70401858 AGACGTAAGCC
130 AGACGTAAGCC
* * *
70401869 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-GTGTCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATAGAGCCAGTATAAGACCATGTCTGG
* * * *
70401932 GACATGGCATCGGCACAGATATGCTAGAACTTGTGTAAGACCATGTCTGGAACATG
65 GACATGGCATCGACACAGAGA--CGAGAACTAGTGTAAGACCATGTCTGGAACATG
70401988 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
138 37 0.37
140 47 0.47
141 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATAGAGCCAGTATAAGACCATGTCTGGG
ACATGGCATCGACACAGAGACGAGAACTAGTGTAAGACCATGTCTGGAACATGCTTCGGCCTCGA
GACGTAAGCC
Found at i:70403641 original size:26 final size:27
Alignment explanation
Indices: 70403582--70403641 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
70403572 GGACATGTTG
* *
70403582 AATTCTAGCATGCATTCGGACACTTAAA
1 AATTC-AGCATACATTCGAACACTTAAA
70403610 AATTCAGCATACATTCGAACA-TTAAA
1 AATTCAGCATACATTCGAACACTTAAA
*
70403636 ATTTCA
1 AATTCA
70403642 CTAGCTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.34
27 14 0.48
28 5 0.17
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTCAGCATACATTCGAACACTTAAA
Found at i:70409818 original size:13 final size:13
Alignment explanation
Indices: 70409802--70409826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70409792 ATTGGAGTGA
70409802 CAAGTTGGCTATT
1 CAAGTTGGCTATT
70409815 CAAGTTGGCTAT
1 CAAGTTGGCTAT
70409827 GTTGCACGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (13 bp):
CAAGTTGGCTATT
Found at i:70412591 original size:123 final size:123
Alignment explanation
Indices: 70412372--70412619 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 123
70412362 ACCTAATTTA
70412372 ATAAACAAATTATAGCTTTAAAATTCTGATCACGCGGTTGCTGACATCATTTTTTAGTCATGCTT
1 ATAAACAAATTATAGCTTTAAAATTCTGATCACGCGGTTGCTGACATCATTTTTTAGTCATGCTT
70412437 ACATCATTACGTTGCGACATCAACCTTGTTCTTAGCCCTTGATGCTTCGAAGTTCAGT
66 ACATCATTACGTTGCGACATCAACCTTGTTCTTAGCCCTTGATGCTTCGAAGTTCAGT
70412495 ATAAACAAATTATAGCTTTAAAATTCTGATCACGCGGTTGCTGACATCATTTTTTAGTCATGCTT
1 ATAAACAAATTATAGCTTTAAAATTCTGATCACGCGGTTGCTGACATCATTTTTTAGTCATGCTT
*
70412560 ACATCATTACGTTGCGACATCAGCCTTGTTCTTAGCCCTTGATGCTTCGAAGTTCAGT
66 ACATCATTACGTTGCGACATCAACCTTGTTCTTAGCCCTTGATGCTTCGAAGTTCAGT
70412618 AT
1 AT
70412620 CACGACGCCG
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (123 bp):
ATAAACAAATTATAGCTTTAAAATTCTGATCACGCGGTTGCTGACATCATTTTTTAGTCATGCTT
ACATCATTACGTTGCGACATCAACCTTGTTCTTAGCCCTTGATGCTTCGAAGTTCAGT
Found at i:70418009 original size:85 final size:85
Alignment explanation
Indices: 70417880--70418058 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
70417870 TATTTTATTG
70417880 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
70417945 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
70417965 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
70418030 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
70418050 CCCATGCTC
1 CCCATGCTC
70418059 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:70430192 original size:48 final size:46
Alignment explanation
Indices: 70429985--70430242 Score: 159
Period size: 49 Copynumber: 5.5 Consensus size: 46
70429975 GTCGATGCTG
* *
70429985 TGTCCCAGACAGGTCTTACACT-GACTTTAATATATCGAGGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAG-CTTTCATA-AT-GAGGCCGATG-CA
* * * * * * *
70430034 CGTCGCAGACAGGTCTTACGCTGGCTTTCATCAATCAGTGTCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCTTTCAT-AATGAG-GCCGATG-CA
* * * * * **
70430083 TGTCTCAGACAGGTCTTACACT-GAC--ACATAA-CAAGTTGATGCCA
1 TGTCCCAGACATGTCTTACACTAG-CTTTCATAATGAGGCCGATG-CA
** * * *
70430127 TGTCTTAGACAGGTCTTACGCTAGCTTAT-ATATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTT-TCATA-AT-GAGGCCGATGCA
*
70430175 TGTCCCAGACATGTCTTACACTAGCTTTCATAATGTGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTTCATAATGAGGCCGATGCA
*
70430221 TGTCCCAGATATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
70430243 GGCTCACATA
Statistics
Matches: 170, Mismatches: 27, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
44 30 0.18
45 3 0.02
46 37 0.22
47 5 0.03
48 31 0.18
49 62 0.36
50 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTAGCTTTCATAATGAGGCCGATGCA
Found at i:70432851 original size:18 final size:18
Alignment explanation
Indices: 70432828--70432863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
70432818 TCCCCGAGTG
70432828 ATAGTCGATTATCAACTC
1 ATAGTCGATTATCAACTC
**
70432846 ATAGTCTTTTATCAACTC
1 ATAGTCGATTATCAACTC
70432864 TGACCGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (18 bp):
ATAGTCGATTATCAACTC
Found at i:70436283 original size:21 final size:21
Alignment explanation
Indices: 70436254--70436314 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
70436244 CTTTTAAAAT
70436254 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
70436274 AGGGTAACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
70436295 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
70436315 CCACTATGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.25, C:0.28, G:0.36, T:0.11
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:70437700 original size:48 final size:49
Alignment explanation
Indices: 70437582--70437707 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
70437572 GCACATTAAA
** * * *
70437582 GTCGATGCCGCGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATACATCGAG
*
70437631 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-CATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATACATCGAG
**
70437678 TGTCGATGCCATGTCTTAGACAGGTCTTAC
1 -GTCGATGCCATGTCCCAGACAGGTCTTAC
70437708 GTTAGCTTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 31 0.46
49 36 0.53
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATACATCGAG
Found at i:70440914 original size:22 final size:23
Alignment explanation
Indices: 70440871--70440915 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
70440861 TTAAAAAATT
70440871 ATTTTATTTTCTATCGTTTTTTA
1 ATTTTATTTTCTATCGTTTTTTA
70440894 ATTTTATTTT-TAAT-GTTTTTTA
1 ATTTTATTTTCT-ATCGTTTTTTA
70440916 TCCTGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (23 bp):
ATTTTATTTTCTATCGTTTTTTA
Found at i:70444767 original size:6 final size:7
Alignment explanation
Indices: 70444750--70444775 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70444740 AGAAACGAAA
70444750 AAAAATT
1 AAAAATT
70444757 AAAAATT
1 AAAAATT
70444764 AAAAATT
1 AAAAATT
70444771 AAAAA
1 AAAAA
70444776 AGCTGGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:70446571 original size:30 final size:31
Alignment explanation
Indices: 70446521--70446581 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
70446511 GGTATGTGTA
70446521 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
1 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
70446552 AGTTTAGGAGAGG-AAAAAAATATTTCTCTG
1 AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
70446582 TATTGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (31 bp):
AGTTTAGGAGAGGAAAAAAAATATTTCTCTG
Found at i:70447983 original size:84 final size:85
Alignment explanation
Indices: 70447834--70448052 Score: 381
Period size: 84 Copynumber: 2.6 Consensus size: 85
70447824 GAACCACACT
* *
70447834 GTTTAGGAAAGCATTCTTTACA-CTCAACTACTGGAGAGAG-CAATCCAAGTGATAGGTCCATAT
1 GTTTAGGAAAGCATTCTTTACATC-CAAATGCTGGAGAG-GCCAATCCAAGTGATAGGTCCATAT
70447897 AAACTTCCTCTAGTAGATTGTA
64 AAACTTCCTCTAGTAGATTGTA
70447919 GTTTAGG-AAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
1 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
70447983 ACTTCCTCTAGTAGATTGTA
66 ACTTCCTCTAGTAGATTGTA
70448003 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGT
1 GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGT
70448053 AAGCTGTAAT
Statistics
Matches: 129, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
83 1 0.01
84 78 0.60
85 50 0.39
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
GTTTAGGAAAGCATTCTTTACATCCAAATGCTGGAGAGGCCAATCCAAGTGATAGGTCCATATAA
ACTTCCTCTAGTAGATTGTA
Found at i:70448296 original size:42 final size:42
Alignment explanation
Indices: 70448237--70448325 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
70448227 TCCTAATTGG
* *
70448237 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
70448279 GAAAATAATTCCCTTATTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
70448321 TAAAA
1 GAAAA
70448326 ATACTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.30
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:70448372 original size:19 final size:18
Alignment explanation
Indices: 70448350--70448389 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
70448340 TGAATAAAAC
70448350 TTATCTACCTAA-ATAAGAT
1 TTATCTACC-AATATAA-AT
70448369 TTATCTACCAATATAAAT
1 TTATCTACCAATATAAAT
70448387 TTA
1 TTA
70448390 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCAATATAAAT
Found at i:70452261 original size:42 final size:42
Alignment explanation
Indices: 70452214--70452302 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
70452204 TCCTAATTGG
*
70452214 GAAAATAGTTCACTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
*
70452256 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
*
70452298 TAAAA
1 GAAAA
70452303 ATATTCCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCACTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:70452323 original size:43 final size:42
Alignment explanation
Indices: 70452215--70452324 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
70452205 CCTAATTGGG
* * * * * *
70452215 AAAATAGTTCACTTATTCTAATAAACTACTAAAATATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAAA
* * *
70452257 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAA-A
70452300 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
70452325 ACTTATCTAC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 44 0.75
43 12 0.20
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAAGATAAAAA
Found at i:70452349 original size:19 final size:18
Alignment explanation
Indices: 70452327--70452366 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
70452317 TGAATAAAAC
70452327 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
70452346 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
70452364 TTA
1 TTA
70452367 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:70463927 original size:68 final size:67
Alignment explanation
Indices: 70463855--70464004 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
70463845 CATCATGTGT
* * * *
70463855 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
70463917 ATGTAG
62 ATGTAG
** * *
70463923 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
70463988 AG
66 AG
70463990 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
70464005 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:70463960 original size:64 final size:64
Alignment explanation
Indices: 70463879--70464062 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
70463869 AGACATTATG
* *
70463879 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
70463943 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
70464008 AA
63 AA
* * * *
70464010 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
70464063 CGAAGTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:70478123 original size:56 final size:56
Alignment explanation
Indices: 70478023--70478199 Score: 275
Period size: 56 Copynumber: 3.1 Consensus size: 56
70478013 TTTCAAACAA
* *
70478023 GGTCTTACTCGTAAACACATATCGGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATC-GAAATCACATATCGATGCCAACGTATTAAATGT
*
70478080 GGTCTTACTTGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
* * *
70478136 GGTCTTACTCGCACACATATATC-AGAATAACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGA-AATCACATATCGATGCCAACGTATTAAATGT
70478192 GGTCTTAC
1 GGTCTTAC
70478200 ACGAATCAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
55 1 0.01
56 91 0.81
57 20 0.18
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGAAATCACATATCGATGCCAACGTATTAAATGT
Found at i:70478280 original size:43 final size:43
Alignment explanation
Indices: 70478165--70478386 Score: 279
Period size: 43 Copynumber: 5.2 Consensus size: 43
70478155 TATCAGAATA
*** *
70478165 ACATATCGATGCCAACGTATTAAACGTGGTCTTACACG-AATC
1 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
* * ** * *
70478207 AAATA-CAATGCTGATGTCCCAGACATGGTCTTACACGTAATC
1 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
* * *
70478249 ACATATCGATGCCAATGTCCTAGACGTGGTCTTACACGTAACC
1 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
*
70478292 ATATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
1 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
*
70478335 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG-AGAAC
1 ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTA-ATC
70478378 ACATATCGA
1 ACATATCGA
70478387 AAATCCTATG
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
41 23 0.15
42 13 0.08
43 118 0.77
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATC
Found at i:70486170 original size:24 final size:23
Alignment explanation
Indices: 70486124--70486217 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 23
70486114 ATTCCTTTGC
* *
70486124 TATCCTTTTCGACCTTTTCATTGT
1 TATCCTTTTC-AACATTTCATTGT
* *
70486148 CATCATTTTCAACATTTCTATTGT
1 TATCCTTTTCAACATTTC-ATTGT
* * *
70486172 TATCCTTTTTATCATTTCCATTAT
1 TATCCTTTTCAACATTT-CATTGT
*
70486196 TATCCTTTTCAACCTTCTCATT
1 TATCCTTTTCAACATT-TCATT
70486218 TTTTTGGGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
23 6 0.11
24 47 0.85
25 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.03, T:0.53
Consensus pattern (23 bp):
TATCCTTTTCAACATTTCATTGT
Found at i:70486608 original size:31 final size:31
Alignment explanation
Indices: 70486573--70486674 Score: 195
Period size: 31 Copynumber: 3.3 Consensus size: 31
70486563 TTATATACTT
70486573 TCCCTAAACTTTTACATTTCTTTCAATTTAG
1 TCCCTAAACTTTTACATTTCTTTCAATTTAG
*
70486604 TCCCTAAAATTTTACATTTCTTTCAATTTAG
1 TCCCTAAACTTTTACATTTCTTTCAATTTAG
70486635 TCCCTAAACTTTTACATTTCTTTCAATTTAG
1 TCCCTAAACTTTTACATTTCTTTCAATTTAG
70486666 TCCCTAAAC
1 TCCCTAAAC
70486675 CCGAAATTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (31 bp):
TCCCTAAACTTTTACATTTCTTTCAATTTAG
Found at i:70487831 original size:27 final size:26
Alignment explanation
Indices: 70487785--70487836 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
70487775 GGGAGGCTGC
70487785 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
* *
70487811 CAGATATATGTGGCGAGGTCACCAGA
1 CAGATAT-TGTGACGAAGTCACCAGA
70487837 TTGTAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:70488489 original size:27 final size:27
Alignment explanation
Indices: 70488459--70488792 Score: 347
Period size: 27 Copynumber: 12.4 Consensus size: 27
70488449 GAGGCAAAAT
* * *
70488459 GGTAATTTTACCCCACGAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
70488486 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
70488513 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
70488540 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
70488567 GGT-ATTTCTACCCTACAAGGGT-TTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
70488593 GGTAATTCTGCCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
70488620 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
70488647 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
70488674 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
70488701 AGTAATTCTACCCGACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
70488728 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
70488755 GAT-ATTTCTACCTTACAACGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
70488782 GGTAATTTTAC
1 GGTAATTTTAC
70488793 AAATCAGGAG
Statistics
Matches: 265, Mismatches: 35, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
26 26 0.10
27 232 0.88
28 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:70488542 original size:54 final size:54
Alignment explanation
Indices: 70488460--70488788 Score: 419
Period size: 54 Copynumber: 6.1 Consensus size: 54
70488450 AGGCAAAATG
* * * *
70488460 GTAATTTTACCCCAC-GAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* **
70488514 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * * *
70488568 GTATTTCTACCCTACAAGGGT-TTTCGGTAATTCTGCCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* *
70488621 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * *
70488675 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCGACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
* * * * * * *
70488729 GTATTTCTACCCTACAAGGGTATTTCGATATTTCTACCTTACAACGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
70488783 GTAATT
1 GTAATT
70488789 TTACAAATCA
Statistics
Matches: 237, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 45 0.19
54 191 0.81
55 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCA
Found at i:70488723 original size:81 final size:81
Alignment explanation
Indices: 70488460--70488788 Score: 455
Period size: 81 Copynumber: 4.1 Consensus size: 81
70488450 AGGCAAAATG
* * * * * *
70488460 GTAATTTTACCCCACGAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
70488525 CTACAGGGGTATTTCG
66 CTACAGGGGTATTTCA
* * * *
70488541 GTATTTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGT-TTTCGGTAATTCTGCC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
70488605 CTATAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
70488621 GTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
70488686 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* *
70488702 GTAATTCTACCCGACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATATTTCTAC
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG-TAATTCTAC
* ** *
70488766 CTTACAACGGTATTTCG
65 CCTACAGGGGTATTTCA
70488783 GTAATT
1 GTAATT
70488789 TTACAAATCA
Statistics
Matches: 219, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
80 73 0.33
81 146 0.67
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTCA
Found at i:70488805 original size:27 final size:27
Alignment explanation
Indices: 70488774--70488843 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
70488764 ACCTTACAAC
*
70488774 GGTATTTCGGTAATTTTACAAATC-AG
1 GGTATTTTGGTAATTTTACAAATCGAG
* *
70488800 GAGTATTTTGGTAATTTTGCTAATCGAG
1 G-GTATTTTGGTAATTTTACAAATCGAG
70488828 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
70488844 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 35 0.90
28 3 0.08
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:70515991 original size:40 final size:39
Alignment explanation
Indices: 70515801--70515984 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
70515791 CGAATGATGT
* * * *
70515801 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
70515841 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
70515881 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
70515919 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
70515960 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
70515985 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:70516007 original size:79 final size:79
Alignment explanation
Indices: 70515853--70516017 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
70515843 GGACTAAGAT
* **
70515853 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
70515918 ATCCGAGTTAAGTC
66 ATCCGAGTTAAATC
* * *
70515932 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
70515995 TATATCCG-GTTAAATT
63 TAAATCCGAGTTAAATC
70516011 CCGAAGG
1 CCGAAGG
70516018 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:70521797 original size:13 final size:14
Alignment explanation
Indices: 70521779--70521807 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
70521769 TCAATAGCAT
70521779 TTCAAATCTAA-AA
1 TTCAAATCTAAGAA
70521792 TTCAAATCTAAGAA
1 TTCAAATCTAAGAA
70521806 TT
1 TT
70521808 TTTCAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (14 bp):
TTCAAATCTAAGAA
Found at i:70522090 original size:32 final size:32
Alignment explanation
Indices: 70522049--70522115 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
70522039 TACTCAATTG
* *
70522049 AATTTTCGTACATATCTGTACCATATCGTACC
1 AATTTTCGTACATACCTGCACCATATCGTACC
* *
70522081 AATTTTCGTACATACCTGCATCATCTCGTACC
1 AATTTTCGTACATACCTGCACCATATCGTACC
70522113 AAT
1 AAT
70522116 CTTATACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (32 bp):
AATTTTCGTACATACCTGCACCATATCGTACC
Found at i:70522206 original size:28 final size:28
Alignment explanation
Indices: 70522166--70522344 Score: 89
Period size: 28 Copynumber: 6.4 Consensus size: 28
70522156 CAATGTCTCA
* *
70522166 CACACT-AGATGCCATACCCGATACTTTG
1 CACACTAAG-TGCCATTCCGGATACTTTG
* * *
70522194 CACACTAAGTGCCGTTCTGGAT-GTTTCG
1 CACACTAAGTGCCATTCCGGATACTTT-G
* * * *
70522222 CACACT-AGATGACATACCTGATACCTTG
1 CACACTAAG-TGCCATTCCGGATACTTTG
* * * *
70522250 CACA-TAAGTGTCGTTCTGGATGCTTTG
1 CACACTAAGTGCCATTCCGGATACTTTG
* * *
70522277 CACACTAAGTGCCATTCTGGAT-GTATCG
1 CACACTAAGTGCCATTCCGGATACT-TTG
* * * *
70522305 CACACTAAGCGCCATCCCCGATACTTCG
1 CACACTAAGTGCCATTCCGGATACTTTG
**
70522333 CACGTTAAGTGC
1 CACACTAAGTGC
70522345 TACATATAAA
Statistics
Matches: 112, Mismatches: 31, Indels: 16
0.70 0.19 0.10
Matches are distributed among these distances:
27 23 0.21
28 84 0.75
29 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (28 bp):
CACACTAAGTGCCATTCCGGATACTTTG
Found at i:70522278 original size:27 final size:28
Alignment explanation
Indices: 70522189--70522319 Score: 110
Period size: 28 Copynumber: 4.7 Consensus size: 28
70522179 ATACCCGATA
*
70522189 CTTTGCACACTAAGTGCCGTTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
* * *
70522217 -TTTCGCACACT-AGATGACATACCT-GATA
1 CTTT-GCACACTAAG-TGCCAT-TCTGGATG
* * *
70522245 CCTTGCACA-TAAGTGTCGTTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
70522272 CTTTGCACACTAAGTGCCATTCTGGATG
1 CTTTGCACACTAAGTGCCATTCTGGATG
* *
70522300 -TATCGCACACTAAGCGCCAT
1 CT-TTGCACACTAAGTGCCAT
70522320 CCCCGATACT
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.02
27 22 0.27
28 53 0.65
29 4 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (28 bp):
CTTTGCACACTAAGTGCCATTCTGGATG
Found at i:70522283 original size:55 final size:56
Alignment explanation
Indices: 70522166--70522283 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
70522156 CAATGTCTCA
* *
70522166 CACACTAGATGCCATACCCGATACTTTGCACACTAAGTGCCGTTCTGGATGTTTCG
1 CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATGTTTCG
* *
70522222 CACACTAGATGACATACCTGATACCTTGCACA-TAAGTGTCGTTCTGGATGCTTT-G
1 CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATG-TTTCG
70522277 CACACTA
1 CACACTA
70522284 AGTGCCATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
55 25 0.44
56 32 0.56
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (56 bp):
CACACTAGATGACATACCCGATACCTTGCACACTAAGTGCCGTTCTGGATGTTTCG
Found at i:70528524 original size:32 final size:32
Alignment explanation
Indices: 70528483--70528549 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
70528473 TACTCAATTG
70528483 AATTTTCGTACATACCTGTACCATATCGTACC
1 AATTTTCGTACATACCTGTACCATATCGTACC
* *
70528515 AATTTTCGTACATACCTGTATCATCTCGTACC
1 AATTTTCGTACATACCTGTACCATATCGTACC
70528547 AAT
1 AAT
70528550 ATCATACTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (32 bp):
AATTTTCGTACATACCTGTACCATATCGTACC
Found at i:70528640 original size:28 final size:28
Alignment explanation
Indices: 70528599--70528865 Score: 141
Period size: 28 Copynumber: 9.5 Consensus size: 28
70528589 TCAATGTCTC
*
70528599 GCACACT-AGATGCCATACTCGATACCTT
1 GCACACTAAG-TGCCATTCTCGATACCTT
* * **
70528627 GCACACTAAGTGCCGTTCTGGAT-GTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
* * *
70528654 CACACACT-AGATGACATACTCGATACCTT
1 -GCACACTAAG-TGCCATTCTCGATACCTT
* * ***
70528683 GCACACTAAGTGCCTTTCTGGATGTTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
* *
70528711 GCACACT-AGATGCCATACCCGATACCTT
1 GCACACTAAG-TGCCATTCTCGATACCTT
* * * ***
70528739 GCACACTAAGTGTCGTTCTGGATGTTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
**
70528767 GCACACTAAGTGCCACCCTC-ATTA-CTT
1 GCACACTAAGTGCCATTCTCGA-TACCTT
* *** *
70528794 CGCACACTAAGTGCCATTCTGGATGTATC
1 -GCACACTAAGTGCCATTCTCGATACCTT
* * *
70528823 GCACACTAAGTGCCATCCCCGATACTTT
1 GCACACTAAGTGCCATTCTCGATACCTT
**
70528851 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
70528866 CATATAAATA
Statistics
Matches: 171, Mismatches: 57, Indels: 22
0.68 0.23 0.09
Matches are distributed among these distances:
27 9 0.05
28 152 0.89
29 10 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCGATACCTT
Found at i:70528662 original size:56 final size:56
Alignment explanation
Indices: 70528592--70528864 Score: 329
Period size: 56 Copynumber: 4.9 Consensus size: 56
70528582 TGAATATTCA
*
70528592 ATGTCTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* * *
70528648 ATGTTTCACACACTAGATGACATACTCGATACCTTGCACACTAAGTGCCTTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* * *
70528704 ATGTTTTGCACACTAGATGCCATACCCGATACCTTGCACACTAAGTGTCGTTCTGG
1 ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
* ** *
70528760 ATGTTTTGCACACTA-AGTGCCACCCTC-ATTA-CTTCGCACACTAAGTGCCATTCTGG
1 ATGTTTCGCACACTAGA-TGCCATACTCGA-TACCTT-GCACACTAAGTGCCGTTCTGG
* * * * **
70528816 ATGTATCGCACACTA-AGTGCCATCCCCGATACTTTGCACGTTAAGTGCC
1 ATGTTTCGCACACTAGA-TGCCATACTCGATACCTTGCACACTAAGTGCC
70528865 ACATATAAAT
Statistics
Matches: 190, Mismatches: 22, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
55 5 0.03
56 182 0.96
57 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (56 bp):
ATGTTTCGCACACTAGATGCCATACTCGATACCTTGCACACTAAGTGCCGTTCTGG
Found at i:70531899 original size:27 final size:27
Alignment explanation
Indices: 70531864--70531937 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
70531854 CCCTAGATTT
* *
70531864 TAAAGTTACTGAAATACCCTCGGTTCA
1 TAAAATTACTGAAATACCCTAGGTTCA
**
70531891 TAAAATTACCT-AAATACCCTAGGTTTG
1 TAAAATTA-CTGAAATACCCTAGGTTCA
70531918 TAAAATTA-TCGAAATACCCT
1 TAAAATTACT-GAAATACCCT
70531938 TGTAATGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTAGGTTCA
Found at i:70531974 original size:27 final size:27
Alignment explanation
Indices: 70531917--70531976 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
70531907 CCCTAGGTTT
* * * *
70531917 GTAAAATTATCGAAATACCCTTGTAAT
1 GTAAAATTACCGAAATACCCCTATAAG
70531944 GTAAAATTACCGAAATACCCCTATAAG
1 GTAAAATTACCGAAATACCCCTATAAG
70531971 GTAAAA
1 GTAAAA
70531977 GCACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTATAAG
Found at i:70532465 original size:28 final size:28
Alignment explanation
Indices: 70532425--70532486 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
70532415 ATTACACTGT
* * *
70532425 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
*
70532453 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
70532481 ACTGTT
1 ACTGTT
70532487 TTGCATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTAAGGCCCAC
Found at i:70532905 original size:27 final size:27
Alignment explanation
Indices: 70532873--70533045 Score: 240
Period size: 27 Copynumber: 6.4 Consensus size: 27
70532863 CCCCAAAATA
* *
70532873 GGTAAAATGATCGTAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
70532900 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
70532927 GGTAAAATGACCGTAATA-CCCTCGTAG
1 GGTAAAATGACCGTAATACCCCT-GTAG
*
70532954 GGTAAAATGACTGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
70532981 AGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
70533008 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
70533035 GGTAAAATGAC
1 GGTAAAATGAC
70533046 AATTATGCCA
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 119 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:70539597 original size:751 final size:754
Alignment explanation
Indices: 70538131--70539636 Score: 2831
Period size: 751 Copynumber: 2.0 Consensus size: 754
70538121 TGAGATAGAA
*
70538131 ATAATTATTTTATAATTATTTTGGGGTTTATGATATGATTTCATGATTTCGTTAAAATTTCGTGA
1 ATAATTATTTTATAATTATTTTGGGGTTTATGATATGATTTCATGATTTCGTGAAAATTTCGTGA
70538196 TGAAATTCTATGCATTGAGCACTTAAGTTGAGATTAGGGACTAAACCGAATAAATTGCAAAACTC
66 TGAAATTCTATGCATTGAGCACTTAAGTTGAGATTAGGGACTAAACCGAATAAATTGCAAAACTC
*
70538261 GTGTTTTAGAAGTTTTTAGTATGAAATTGCTTTGGGATTTTAACTAGGAGGTCTTAAATAGAAAT
131 GTGTTTTAGAAGTTTTTAGTATGAAATTGCTTTGGGATATTAACTAGGAGGTCTTAAATAGAAAT
70538326 TTAACCAATTCCTAAGTTATGGACAAAAGTTGGACATGGAGGGAATTTTTGGAAAGTTTAGTAGT
196 TTAACCAATTCCTAAGTTATGGACAAAAGTTGGACATGGAGGGAATTTTTGGAAAGTTTAGTAGT
70538391 AAGGGCATTTTTGGTCATTTGTACATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGGTC
261 AAGGGCATTTTTGGTCATTTGTACATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGGTC
70538456 ATCATCTTCACTAGTTGCTGCCGAAATTTGCTCTCCTCCATAGCTAGGGTTTCTTCAACTTTCAA
326 ATCATCTTCACTAGTTGCTGCCGAAATTTGCTCTCCTCCATAGCTAGGGTTTCTTCAACTTTCAA
70538521 GCTTCATAGTAAGTGATTTCAAGCCCCGTTTTTAATATTCTTCACATTTTTGAAATCCTCGTAGC
391 GCTTCATAGTAAGTGATTTCAAGCCCCGTTTTTAATATTCTTCACATTTTTGAAATCCTCGTAGC
70538586 TCGGTTTACCTATTTCTACCATTATTTCGAGTTAGGGTTTATGTTTAAAAATTTACCCATGAATG
456 TCGGTTTACCTATTTCTACCATTATTTCGAGTTAGGGTTTATGTTTAAAAATTTACCCATGAATG
70538651 ATAGGCATGTATTTTGTTGTTTGATGGTAGAATATGAATGTTTTAAGTTAGGAGAACGATCTTTT
521 ATAGGCATGTATTTTGTTGTTTGATGGTAGAATATGAATGTTTTAAGTTAGGAGAACGATCTTTT
*
70538716 CTAAGCGATTTTTTAGCGAAAATGAGCAAAACGGCATAATCGATAAAAATACCTATTGTTCATAA
586 CTAAGCGATTTTTTAGCGAAAATGAGCAAAACGGCATAATCGATAAAAATACCTATTGCTCATAA
70538781 CTATGTGTTAGAGTGAGAATTTGATGTTGCCAAAGAAGAGAAAAATGATCAGTAGGTCATTAAAA
651 CTATGTGTTAGAGTGAGAATTTGATGTTGCCAAAGAAGAGAAAAATGATCAGTAGGTCATTAAAA
70538846 ATAAGAATAAGGGCTGAATTTAAATTTCCGAGCCTTGGG
716 ATAAGAATAAGGGCTGAATTTAAATTTCCGAGCCTTGGG
*
70538885 ATAATTGTTTTATAATTATTTT-GGGTTTATGATATGATTTCATGATTTCGTGAAAATTTCGTGA
1 ATAATTATTTTATAATTATTTTGGGGTTTATGATATGATTTCATGATTTCGTGAAAATTTCGTGA
* * * * *
70538949 TGAAATTCTATGTATTGAGCGCTTAAGTTGAGATTAGGGACTAAATCGAATAAATTGTAAAACTT
66 TGAAATTCTATGCATTGAGCACTTAAGTTGAGATTAGGGACTAAACCGAATAAATTGCAAAACTC
* *
70539014 GTGTTTTAGAAGTTTTTAGTATGAAATTGTTTTGGGATATTAACTAGGAGGTCTTAAATAGCAAT
131 GTGTTTTAGAAGTTTTTAGTATGAAATTGCTTTGGGATATTAACTAGGAGGTCTTAAATAGAAAT
* * *
70539079 TTGACCCATTCCTAAGTTATGGACAAAAGTTGGACATGGAGGGAATTTTTTTGAAAGTTTAGTAG
196 TTAACCAATTCCTAAGTTATGGACAAAAGTTGGACATGGAGGGAA-TTTTTGGAAAGTTTAGTAG
*
70539144 TAAGGGCA-TTTTGGTCA-TT-TATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGGT
260 TAAGGGCATTTTTGGTCATTTGTACATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGGT
70539206 CATCATCTTCACTAGTTGCTGCCGAAATTTGCTCTCCTCCATAGCTAGGGTTTCTTCAACTTTCA
325 CATCATCTTCACTAGTTGCTGCCGAAATTTGCTCTCCTCCATAGCTAGGGTTTCTTCAACTTTCA
70539271 AGCTTCATAGTAAGTGATTTCAAGCCCCGTTTTTAATATTCTTCACATTTTTGAAATCCTCGTAG
390 AGCTTCATAGTAAGTGATTTCAAGCCCCGTTTTTAATATTCTTCACATTTTTGAAATCCTCGTAG
70539336 CTCGGTTTACCTATTTCTACCATTATTTCGAGTTAGGGTTTATGTTTAAAAATTTACCCATGAAT
455 CTCGGTTTACCTATTTCTACCATTATTTCGAGTTAGGGTTTATGTTTAAAAATTTACCCATGAAT
70539401 GATAGGCATGTATTTTGTTGTTTGATGGTAGAATATGAATGTTTTAAGTTAGGAGAACGATCTTT
520 GATAGGCATGTATTTTGTTGTTTGATGGTAGAATATGAATGTTTTAAGTTAGGAGAACGATCTTT
70539466 TCTAAGCGATTTTTTAGCGAAAATGAGCAAAACGGCATAATCGATAAAAATACCTATTGCTCATA
585 TCTAAGCGATTTTTTAGCGAAAATGAGCAAAACGGCATAATCGATAAAAATACCTATTGCTCATA
*
70539531 ACTATGTGTTAGAGTGAGAATTTGATGTTTCCAAAGAAGAGAAAAATGATCAGTAGGTCATTAAA
650 ACTATGTGTTAGAGTGAGAATTTGATGTTGCCAAAGAAGAGAAAAATGATCAGTAGGTCATTAAA
70539596 AATAAGAATAAGGGCTGAATTTAAATTTCCGAGCCTTGGG
715 AATAAGAATAAGGGCTGAATTTAAATTTCCGAGCCTTGGG
70539636 A
1 A
70539637 AAAAATCGTA
Statistics
Matches: 735, Mismatches: 16, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
751 471 0.64
752 2 0.00
753 215 0.29
754 47 0.06
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (754 bp):
ATAATTATTTTATAATTATTTTGGGGTTTATGATATGATTTCATGATTTCGTGAAAATTTCGTGA
TGAAATTCTATGCATTGAGCACTTAAGTTGAGATTAGGGACTAAACCGAATAAATTGCAAAACTC
GTGTTTTAGAAGTTTTTAGTATGAAATTGCTTTGGGATATTAACTAGGAGGTCTTAAATAGAAAT
TTAACCAATTCCTAAGTTATGGACAAAAGTTGGACATGGAGGGAATTTTTGGAAAGTTTAGTAGT
AAGGGCATTTTTGGTCATTTGTACATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGGTC
ATCATCTTCACTAGTTGCTGCCGAAATTTGCTCTCCTCCATAGCTAGGGTTTCTTCAACTTTCAA
GCTTCATAGTAAGTGATTTCAAGCCCCGTTTTTAATATTCTTCACATTTTTGAAATCCTCGTAGC
TCGGTTTACCTATTTCTACCATTATTTCGAGTTAGGGTTTATGTTTAAAAATTTACCCATGAATG
ATAGGCATGTATTTTGTTGTTTGATGGTAGAATATGAATGTTTTAAGTTAGGAGAACGATCTTTT
CTAAGCGATTTTTTAGCGAAAATGAGCAAAACGGCATAATCGATAAAAATACCTATTGCTCATAA
CTATGTGTTAGAGTGAGAATTTGATGTTGCCAAAGAAGAGAAAAATGATCAGTAGGTCATTAAAA
ATAAGAATAAGGGCTGAATTTAAATTTCCGAGCCTTGGG
Found at i:70557138 original size:357 final size:357
Alignment explanation
Indices: 70556483--70557196 Score: 1266
Period size: 357 Copynumber: 2.0 Consensus size: 357
70556473 CACAACTCGA
* *
70556483 AAATCAGTTTCGTGATTTTTCCCTGGAACTAGACTCATATTCCCATCTACATATTTTTTTCTAAA
1 AAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAAA
*
70556548 ATTTTTGGTCAGGCCAATTAGTACAGTTTTTTAGTCAAAGTCTCCCATGTTACAGGGATCGACTA
66 ATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTA
*
70556613 CACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTTT
131 CACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGCACAGAGCTCCAATACTGATGCCGTTT
* *
70556678 GTTTCTATAGAAACTAAACTCAGAGAGGAATCTATCCATATATGGTATGACTCCTAATTGTCTCT
196 ATTTCTATAGAAACTAAACTCAGAGAGGAATCTATCCATATATGGTATGACTCCTAATTATCTCT
*
70556743 GGTTAATTTATAATGAATTTCCAAAGACGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTCTC
261 GGTTAATTTATAATGAATTTCCAAAGACGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTC
*
70556808 ACGAGAACCTGAATGTCTCTTAACATACTGTC
326 ACGAGAACCTGAATATCTCTTAACATACTGTC
*
70556840 AAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGA
1 AAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAAA
*
70556905 ATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTA
66 ATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTA
* * * * *
70556970 CCCTGACCTTTGCGCATTACGACTTGGATATCTCCTTGTACAGGGCTCCAATACTGATGCCGTTT
131 CACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGCACAGAGCTCCAATACTGATGCCGTTT
* *
70557035 ATTTCTATAGAAACTAGACTCAGGGAGGAATCTATCCATATATGGTATGACTCCTAATTATCTCT
196 ATTTCTATAGAAACTAAACTCAGAGAGGAATCTATCCATATATGGTATGACTCCTAATTATCTCT
*
70557100 GGTTAATTTATAATGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTC
261 GGTTAATTTATAATGAATTTCCAAAGACGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTC
70557165 ACGAGAACCTGAATATCTCTTAACATACTGTC
326 ACGAGAACCTGAATATCTCTTAACATACTGTC
70557197 CGTATGATTG
Statistics
Matches: 339, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
357 339 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (357 bp):
AAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAAA
ATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTA
CACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGCACAGAGCTCCAATACTGATGCCGTTT
ATTTCTATAGAAACTAAACTCAGAGAGGAATCTATCCATATATGGTATGACTCCTAATTATCTCT
GGTTAATTTATAATGAATTTCCAAAGACGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTC
ACGAGAACCTGAATATCTCTTAACATACTGTC
Found at i:70558093 original size:40 final size:40
Alignment explanation
Indices: 70558049--70558310 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
70558039 GCTCCTCGTT
* *
70558049 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
70558089 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70558129 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70558168 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
70558207 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
70558246 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
70558287 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70558311 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:70566314 original size:29 final size:29
Alignment explanation
Indices: 70566254--70566321 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
70566244 TAATCAACCG
*
70566254 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
**
70566283 CGCACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
70566312 CGCACACTTA
1 CGCACACTTA
70566322 CCTTTTCCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:70566434 original size:174 final size:174
Alignment explanation
Indices: 70566143--70566470 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
70566133 AACTCAAGGT
* *
70566143 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
70566208 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
70566273 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
70566317 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
70566382 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
70566447 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCGCACACTTAGTGC
70566471 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:70566462 original size:29 final size:30
Alignment explanation
Indices: 70566423--70566501 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
70566413 CTTAATAATC
70566423 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
70566453 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
70566482 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
70566502 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:70571446 original size:18 final size:18
Alignment explanation
Indices: 70571413--70571447 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70571403 AGGATTGCAA
*
70571413 ATTTCCATTTTAATTTTC
1 ATTTCCATTTCAATTTTC
*
70571431 ATTTCCATTTCCATTTT
1 ATTTCCATTTCAATTTT
70571448 TGGAAACCTA
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:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTCCATTTCAATTTTC
Found at i:70579338 original size:36 final size:36
Alignment explanation
Indices: 70579297--70579371 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
70579287 AAACAGTGAA
* * * *
70579297 CTCTTTCCTAGACTCTAGCTGTATCAAGATAGGGGC
1 CTCTTTCCCAAACTCTAGCTATACCAAGATAGGGGC
*
70579333 CTCTTTCCCAAACTCTGGCTATACCAAGATAGGGGC
1 CTCTTTCCCAAACTCTAGCTATACCAAGATAGGGGC
70579369 CTC
1 CTC
70579372 AGTCAAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (36 bp):
CTCTTTCCCAAACTCTAGCTATACCAAGATAGGGGC
Found at i:70584440 original size:37 final size:37
Alignment explanation
Indices: 70584390--70584468 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
70584380 TTATTACGAA
* *
70584390 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTCT-CACACGAAGTCATCGG
*
70584427 GTCTTACCCGGACAAAATTCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
70584464 GTCTT
1 GTCTT
70584469 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCTCACACGAAGTCATCGG
Found at i:70584665 original size:47 final size:47
Alignment explanation
Indices: 70584587--70584984 Score: 598
Period size: 47 Copynumber: 8.5 Consensus size: 47
70584577 CCCTTCGGGA
* * * ** * * *
70584587 CTTATCACATTTATGCACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
70584634 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70584681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
70584728 CTTATTACATATAAACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70584775 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
70584822 CTTATCACACATATACACTTTTACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
70584869 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
70584916 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
70584963 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
70584985 TCGGCTGAAT
Statistics
Matches: 323, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 323 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:70588313 original size:3 final size:3
Alignment explanation
Indices: 70588305--70588330 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70588295 AATTTGGATG
70588305 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
70588331 TCGTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:70589201 original size:45 final size:45
Alignment explanation
Indices: 70589152--70590045 Score: 1680
Period size: 45 Copynumber: 19.9 Consensus size: 45
70589142 TCGGCCATGG
* * * *
70589152 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
70589197 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589242 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589287 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589332 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589377 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589422 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589467 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589512 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589557 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589602 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589647 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589692 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589737 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589782 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589827 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
70589872 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
70589917 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
70589962 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * **
70590007 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
70590046 TCCACCTCTT
Statistics
Matches: 835, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 835 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:70590180 original size:16 final size:16
Alignment explanation
Indices: 70590159--70590190 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
70590149 CATTCTGCAT
70590159 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
70590175 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
70590191 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:70593668 original size:45 final size:45
Alignment explanation
Indices: 70593619--70593729 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
70593609 TCGGCCATGG
* * *
70593619 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
* * *
70593664 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
70593709 TGCTTCCTCAAATTCTTCCAT
1 TGCTTCCTCAAATTCTTCCAT
70593730 TTTAACTGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
Found at i:70594662 original size:48 final size:48
Alignment explanation
Indices: 70594604--70595874 Score: 2137
Period size: 48 Copynumber: 26.3 Consensus size: 48
70594594 ATATACACAC
* * * *
70594604 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
*
70594652 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594700 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594748 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594796 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594844 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594892 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594940 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70594988 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595036 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595084 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595132 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595180 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595228 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595276 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595324 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595372 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
70595420 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* *
70595468 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* * * * *
70595516 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* * * * * * *
70595564 ATCTCATATATTTTTTTTACAGTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACA--TATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* * *
70595614 ATCTCATACTTTTTTCACATTAGCCATTCGGCTTTACCCCCCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTA---CCC-C--ATATACAT
* * *
70595668 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* * * * *
70595716 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* **
70595764 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACGACATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
* * *
70595812 ATCTCATCCATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
*
70595860 ATCTCATATATATTT
1 ATCTCATACATATTT
70595875 ATCTTGTACA
Statistics
Matches: 1179, Mismatches: 36, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
48 1090 0.92
50 43 0.04
51 4 0.00
52 1 0.00
54 41 0.03
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCCCATATACAT
Found at i:70600129 original size:27 final size:26
Alignment explanation
Indices: 70600058--70600173 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 26
70600048 TGGAGGAAGC
70600058 GTTCTGGT-AGCTATGCCACAAATATCT
1 GTTCTGGTGA-CTATGCCAC-AATATCT
*
70600085 GTTTCTGGTGGCTATGCCACGAATATCT
1 G-TTCTGGTGACTATGCCAC-AATATCT
*
70600113 GTTCTGGTGACTCTGCCACAATATCT
1 GTTCTGGTGACTATGCCACAATATCT
* *
70600139 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGACTATGCCACAATATCT
70600166 GTTCTGGT
1 GTTCTGGT
70600174 AGCCATCTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.19
27 42 0.52
28 24 0.30
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGACTATGCCACAATATCT
Found at i:70600148 original size:54 final size:54
Alignment explanation
Indices: 70600058--70600193 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
70600048 TGGAGGAAGC
* *
70600058 GTTCTGGTAGCTATGCCACAAATATCTGTTTCTGGTGGCTATGCCACGAATATCT
1 GTTCTGGTAGCTATGCCACAAATATCTGTATCTGGTGACTATGCCAC-AATATCT
* * *
70600113 GTTCTGGT-GACTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 GTTCTGGTAG-CTATGCCACAAATATCTGTATCTGGTGACTATGCCACAATATCT
* *
70600166 GTTCTGGTAGCCAT-CTACAAAT-TCTGTA
1 GTTCTGGTAGCTATGCCACAAATATCTGTA
70600194 GCGTGTAGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
52 9 0.13
53 20 0.29
54 25 0.36
55 16 0.23
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (54 bp):
GTTCTGGTAGCTATGCCACAAATATCTGTATCTGGTGACTATGCCACAATATCT
Found at i:70607286 original size:43 final size:43
Alignment explanation
Indices: 70607182--70607286 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
70607172 TTCAATGAAC
* * *
70607182 TCGCACACTTAATGCCAACTAATTAGCTGAAACTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
* **
70607225 ACGCACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
70607268 TCGCACACTTAGTGCCAAT
1 TCGCACACTTAGTGCCAAT
70607287 ACATTAAACC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAACTATAATTGTA
Found at i:70614289 original size:13 final size:13
Alignment explanation
Indices: 70614271--70614296 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70614261 GTCTAAAATG
70614271 TGCAGTATCTCTA
1 TGCAGTATCTCTA
70614284 TGCAGTATCTCTA
1 TGCAGTATCTCTA
70614297 CTGAAGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TGCAGTATCTCTA
Found at i:70617545 original size:42 final size:42
Alignment explanation
Indices: 70617466--70617560 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
70617456 ACAAGGTCTT
* ** *
70617466 GTATAAGACCATATCTGGGATATGACGTTGATATGAGATTTC
1 GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
* *
70617508 GTATAAGACCATATCTGGGATATGGCATCAATGTGAGATCTC
1 GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
*
70617550 ATATAAGACCA
1 GTATAAGACCA
70617561 CGTTTGAGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (42 bp):
GTATAAGACCATATCTGGGATATGACATCAATATGAGATCTC
Found at i:70620513 original size:56 final size:56
Alignment explanation
Indices: 70620427--70620546 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
70620417 ACAAGGGATG
70620427 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
70620483 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
70620539 ATGGGCAA
1 ATGGGCAA
70620547 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTAATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:70622473 original size:47 final size:47
Alignment explanation
Indices: 70622419--70623107 Score: 983
Period size: 47 Copynumber: 14.6 Consensus size: 47
70622409 TATTTGAGTA
*
70622419 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622466 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622515 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622562 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
70622609 AATGTGAACGTGTATATATGTGATAAGGCTGAATGACCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
70622656 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622705 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622752 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
70622799 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATATGATT
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
70622846 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622893 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
70622940 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
70622987 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
70623034 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
70623081 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
70623108 TCCCGAAGGG
Statistics
Matches: 585, Mismatches: 48, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 492 0.84
48 3 0.01
49 87 0.15
50 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:70630354 original size:20 final size:21
Alignment explanation
Indices: 70630320--70630359 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
70630310 TCAAAAAAAA
*
70630320 TTAAAACTTTGTTTTAAAATT
1 TTAAAACTTTCTTTTAAAATT
70630341 TTAAAA-TTTCTTTTAAAAT
1 TTAAAACTTTCTTTTAAAAT
70630360 GACTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAAAACTTTCTTTTAAAATT
Found at i:70630358 original size:144 final size:145
Alignment explanation
Indices: 70630149--70630416 Score: 405
Period size: 144 Copynumber: 1.9 Consensus size: 145
70630139 AAAATCAAAA
* * * *
70630149 TTTTATTTTGAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAAATTTAAACTTTCCTCTAAA
1 TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
* *
70630214 ATGACTAAAAAAATAGATTTTTAT-TTTTCAAAATCTAAAGTTTCTCCTTTTAAAAAAAACACTA
66 ATGACTAAAAAAACAGATTTTTATATTTT-AAAATCTAAACTTTCTCCTTTTAAAAAAAACACTA
70630278 TTTTTCTTAATAAAGC
130 TTTTTCTTAATAAAGC
* * * *
70630294 TTTTACTTTGAAATAG-TCAAAAAAAATTAAAACTTTGTTTTAAAATTTTAAAATTTCTTTTAAA
1 TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
* *
70630358 ATGACTAAAAAAACATATTTTTATATTTTAAAATCTAAACTTTCTCTTTTTAAAAAAAA
66 ATGACTAAAAAAACAGATTTTTATATTTTAAAATCTAAACTTTCTCCTTTTAAAAAAAA
70630417 TCAAAATTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
144 91 0.83
145 19 0.17
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (145 bp):
TTTTACTTTGAAATAGTTCAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAATTTCCTCTAAA
ATGACTAAAAAAACAGATTTTTATATTTTAAAATCTAAACTTTCTCCTTTTAAAAAAAACACTAT
TTTTCTTAATAAAGC
Found at i:70633867 original size:40 final size:40
Alignment explanation
Indices: 70633812--70633953 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
70633802 TATTCGAATG
*
70633812 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
70633852 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
70633892 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
70633932 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
70633954 TACTTGGGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:70639607 original size:30 final size:29
Alignment explanation
Indices: 70639522--70639615 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
70639512 TTACTTAAAA
** *
70639522 GTGATGCCTTTGTGATTGAATATGTTATAT
1 GTGA-GCCTTTGTGGCTGAATTTGTTATAT
70639552 GTGAGCCTTTGTGGCTGAATTTGTTATAT
1 GTGAGCCTTTGTGGCTGAATTTGTTATAT
* *
70639581 GTTAGCCTTTGTGGCT-ATTCTTTGTTATAT
1 GTGAGCCTTTGTGGCTGA--ATTTGTTATAT
70639611 GTGAG
1 GTGAG
70639616 GTTTAGTGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.02
29 37 0.66
30 18 0.32
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.47
Consensus pattern (29 bp):
GTGAGCCTTTGTGGCTGAATTTGTTATAT
Found at i:70643144 original size:38 final size:38
Alignment explanation
Indices: 70643093--70643168 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
70643083 TTAAATGAGT
70643093 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
1 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
70643131 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
1 AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
70643169 CCTAACATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (38 bp):
AAAAATGGAGTATATCTCAACTCATCTTGACCCAAAAG
Found at i:70643312 original size:32 final size:32
Alignment explanation
Indices: 70643265--70643331 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
70643255 TACTCAATTG
* *
70643265 AATTTTCGTACATACCTATACCATATTGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
* * *
70643297 AATTTCCGTATATACCTATATCATCTCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
70643329 AAT
1 AAT
70643332 CTCATACTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (32 bp):
AATTTCCGTACATACCTATACCATATCGTACC
Found at i:70643440 original size:28 final size:28
Alignment explanation
Indices: 70643409--70643508 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
70643399 CTGATCCCTT
* *
70643409 GCACACTAAGTGTCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
70643437 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
70643465 GCACACTAAGTGCCATTCTGGATGTCTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
70643493 ACACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
70643509 CCCCGATACT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:70643451 original size:56 final size:56
Alignment explanation
Indices: 70643374--70643535 Score: 161
Period size: 56 Copynumber: 2.9 Consensus size: 56
70643364 TGAATATTCA
* * * *
70643374 ATGTATCGCACA-TTAGATGCCATACCT-GATCCCTT-GCACACTAAGTGTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCAT-CCTCG-TCACTTCGCACACTAAGTGCCATTCTGG
* *
70643430 ATGTTTCGCACACTAAGTGCCATCCTCGTTACTTCGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCCTCGTCACTTCGCACACTAAGTGCCATTCTGG
* * * **
70643486 ATGTCTCACACACTAAGTGCCATCCCCGAT-ACTTCGCACGTTAAGTGCCA
1 ATGTATCGCACACTAAGTGCCATCCTCG-TCACTTCGCACACTAAGTGCCA
70643536 CATATAATTA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
55 7 0.08
56 80 0.88
57 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCTCGTCACTTCGCACACTAAGTGCCATTCTGG
Found at i:70645538 original size:24 final size:23
Alignment explanation
Indices: 70645509--70645556 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
70645499 GCGATGCTAA
70645509 ATTGAAACTGTCTATCTAAAGCAC
1 ATTGAAACTGTCTATC-AAAGCAC
* * *
70645533 ATTGAAATTTTCTATCAAATCAC
1 ATTGAAACTGTCTATCAAAGCAC
70645556 A
1 A
70645557 ATATAGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTGAAACTGTCTATCAAAGCAC
Found at i:70648385 original size:27 final size:27
Alignment explanation
Indices: 70648346--70648403 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
70648336 AGCATGGCTG
* *
70648346 CCAG-TACAGATATTGTGATAGAGACA
1 CCAGATACAAATATTGTGACAGAGACA
* *
70648372 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGATACAAATATTGTGACAGAGACA
70648399 CCAGA
1 CCAGA
70648404 ACGCTTCCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATACAAATATTGTGACAGAGACA
Found at i:70648602 original size:43 final size:43
Alignment explanation
Indices: 70648541--70648626 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
70648531 CACCTAGGGG
* *
70648541 TATAATGGTAATTTTCATATTTAAGGGTATTTTAGTAAATTTA
1 TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
*
70648584 TATAATGGTAATTTTCATACTTAGGGGCATTTTAGTAAATTTA
1 TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
70648627 CTATTTTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.47
Consensus pattern (43 bp):
TATAATGGTAATTTTCATACTTAAGGGCATTTTAGTAAATTTA
Found at i:70650055 original size:40 final size:39
Alignment explanation
Indices: 70649986--70650061 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 39
70649976 ATCACATACC
*
70649986 ATTCCTGCTCATAAAAAAAATAATACCTTTATTTGCATA
1 ATTCCTGCTCATAAAAAAAAAAATACCTTTATTTGCATA
70650025 ATTCCTGCTCATAATAAAAAAAAATACCTTTATTTGC
1 ATTCCTGCTCATAA-AAAAAAAAATACCTTTATTTGC
70650062 TTACCTTGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (39 bp):
ATTCCTGCTCATAAAAAAAAAAATACCTTTATTTGCATA
Found at i:70660750 original size:56 final size:56
Alignment explanation
Indices: 70660654--70660759 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
70660644 CCATGGCATC
* * * **
70660654 GATATATGTGTGCGAGTAAGACCACGTTTTGTACGTTGGCATCGATATGTTACTCT
1 GATATATGTGTGCGAGTAAGACCACGTCTGGGACAATGGCATCGATATGTTACTCT
*
70660710 GATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAATGGCATCGGTATGT
1 GATATATGTGTGCGAGTAAGACCAC-GTCTGGGACAATGGCATCGATATGT
70660760 GATTACATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.02
56 42 0.98
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTCTGGGACAATGGCATCGATATGTTACTCT
Found at i:70663190 original size:23 final size:24
Alignment explanation
Indices: 70663160--70663205 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
70663150 AGAACTTTTA
* *
70663160 ATCAGGAA-GCTCACGAAGAGCCT
1 ATCAGGAATACTCACAAAGAGCCT
70663183 ATCAGGAATACTCACAAAGAGCC
1 ATCAGGAATACTCACAAAGAGCC
70663206 ATGTAACAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (24 bp):
ATCAGGAATACTCACAAAGAGCCT
Found at i:70663437 original size:25 final size:24
Alignment explanation
Indices: 70663409--70663465 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 24
70663399 TACCAATCAA
70663409 GATGCTCGCAAGA-ACTATATAACAG
1 GATGCTC-CAAGAGACT-TATAACAG
*
70663434 GATGCT-CAAGAGGCTTATAACAG
1 GATGCTCCAAGAGACTTATAACAG
70663457 GATTGCTCC
1 GA-TGCTCC
70663466 TCCGATCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 15 0.54
24 6 0.21
25 7 0.25
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (24 bp):
GATGCTCCAAGAGACTTATAACAG
Found at i:70668899 original size:26 final size:27
Alignment explanation
Indices: 70668853--70668913 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
70668843 TAATTATGTT
* * *
70668853 AATATAAT-AATATAATAAAATTAA-A
1 AATAAAATAAATAAAATAAAATAAAGA
* *
70668878 CATAAAATAAATAAAATGAAATAAAGA
1 AATAAAATAAATAAAATAAAATAAAGA
70668905 AATAAAATA
1 AATAAAATA
70668914 GAAAAAGAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
25 6 0.21
26 13 0.46
27 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (27 bp):
AATAAAATAAATAAAATAAAATAAAGA
Found at i:70669811 original size:44 final size:44
Alignment explanation
Indices: 70669762--70669853 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
70669752 TGTTTATGGA
* * *
70669762 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGC
1 TACTTCGA-CTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
** *
70669806 TACTTCGACTTCAAGTCAATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
70669850 TACT
1 TACT
70669854 GTTACTTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.07
44 38 0.93
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (44 bp):
TACTTCGACTTCAAGTCAATGAGGCACCATAAGTGTCGTACTGC
Found at i:70672793 original size:17 final size:18
Alignment explanation
Indices: 70672771--70672811 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
70672761 ATGCGAGTGA
70672771 GAGGAATG-TTGAGAAAT
1 GAGGAATGATTGAGAAAT
*
70672788 GAGGAATGATTTGAGAAGT
1 GAGGAATGA-TTGAGAAAT
70672807 GAGGA
1 GAGGA
70672812 TGGCAAGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (18 bp):
GAGGAATGATTGAGAAAT
Done.