Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 173 of 259
Found at i:56273471 original size:46 final size:46
Alignment explanation
Indices: 56273421--56273593 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
56273411 TGGTTGAGCA
*
56273421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56273467 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
56273514 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
56273560 CCCGAGCTCGTTGAGTTGAGTCTGAGTTTACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56273594 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.57
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56273577 original size:93 final size:93
Alignment explanation
Indices: 56273418--56273587 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
56273408 GGATGGTTGA
* * * *
56273418 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
56273483 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56273511 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
*
56273576 TGAGTCTGAGTT
66 TGAGTCCGAGTT
56273588 TACTTAGGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56273855 original size:19 final size:20
Alignment explanation
Indices: 56273818--56273855 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56273808 ATAAGGTGGT
56273818 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56273838 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56273856 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56290171 original size:46 final size:46
Alignment explanation
Indices: 56290011--56290183 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
56290001 AACCTGCCCC
* * * *
56290011 TAAGTGAACTAGGACTCAACTCAACGAGCTCGGGCATTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* ** * * * * *
56290057 TAAATGAACTCTTATTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCATCCA
* * * *
56290105 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
56290150 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56290184 TGCTCAATCA
Statistics
Matches: 97, Mismatches: 23, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 2 0.02
46 53 0.55
47 24 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:56297666 original size:46 final size:45
Alignment explanation
Indices: 56297599--56297763 Score: 156
Period size: 46 Copynumber: 3.6 Consensus size: 45
56297589 CGCCCCTAAG
56297599 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATAAA
* * * *
56297645 TGAACTCGTACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCATAAA
* * * * * *
56297692 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCATAAA
56297738 TGAACTCGGACTCAACTCAACGAGCT
1 TGAACTCGGACTCAACTCAACGAGCT
56297764 TGGATGCTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 51 0.53
47 27 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAAA
Found at i:56297759 original size:93 final size:93
Alignment explanation
Indices: 56297600--56297770 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
56297590 GCCCCTAAGT
* * * *
56297600 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGTACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56297665 CGAG-TTCGGATGCCTAGTTACATCTCAC
66 CGAGCTT-GGATGCCTAGTTACATCTCAC
* * *
56297693 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56297758 CGAGCTTGGATGC
66 CGAGCTTGGATGC
56297771 TCAATCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTTGGATGCCTAGTTACATCTCAC
Found at i:56316290 original size:40 final size:40
Alignment explanation
Indices: 56316235--56316314 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
56316225 GGGAATGTAC
56316235 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
56316275 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
56316315 TTAACTCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (40 bp):
AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
Found at i:56316324 original size:40 final size:40
Alignment explanation
Indices: 56316235--56316324 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
56316225 GGGAATGTAC
*
56316235 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
*
56316275 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
**
56316315 TTAACTCTTG
1 AGAACTCTTG
56316325 CTTCCATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (40 bp):
AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
Found at i:56319005 original size:34 final size:34
Alignment explanation
Indices: 56318962--56319030 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56318952 CGAAGATAAT
* *
56318962 GCCAGTAGAACAGTTCATAGAGAGCTAATGGATG
1 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
56318996 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
1 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
56319030 G
1 G
56319031 TTCATCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (34 bp):
GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
Found at i:56325020 original size:17 final size:18
Alignment explanation
Indices: 56324979--56325021 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
56324969 TGTATTTACT
56324979 TATTATATAAGTAAATAG
1 TATTATATAAGTAAATAG
*
56324997 TAATATA-AAGTAAAATA-
1 TATTATATAAGT-AAATAG
56325014 TATTATAT
1 TATTATAT
56325022 TATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
TATTATATAAGTAAATAG
Found at i:56328942 original size:232 final size:232
Alignment explanation
Indices: 56328637--56329096 Score: 830
Period size: 232 Copynumber: 2.0 Consensus size: 232
56328627 TAACATCTAT
*
56328637 ATATCAAGACTTCATTTGCATAATTTCATTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
1 ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
*
56328702 ACTTCAATTCAACCAAAATATAACATCAAAATAAGTCAAATCACATGGCTTAACATATACACAAA
66 ACTTCAATTCAACCAAAATATAACATCAAAATAAGCCAAATCACATGGCTTAACATATACACAAA
*
56328767 AATAAGCTTAAGTCAAGATATCAAGTAGCAAAACTATCATCCCTTAAACTAGCCTATACATGCCA
131 AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCCTTAAACTAGCCTATACATGCCA
*
56328832 TATTTACAAATTCACAAGTTTAAAAGTACCAATCGGA
196 TATTTACAAATTCACAAGTTCAAAAGTACCAATCGGA
*
56328869 ATATCAAGACTTCATTTGCATAATTTCGCTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
1 ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
* *
56328934 ATTTCAATTCAACCAAAATATAACATCAAAATAAGCCAAATCACATGGCTTAACATATACATAAA
66 ACTTCAATTCAACCAAAATATAACATCAAAATAAGCCAAATCACATGGCTTAACATATACACAAA
* * *
56328999 AATATGCTAAAGTCAAGATATCAAGTAGCATAACTATCATCCTTTAAACTAGCCTATACATGCCA
131 AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCCTTAAACTAGCCTATACATGCCA
56329064 TATTTACAAATTCACAAGTTCAAAAGTACCAAT
196 TATTTACAAATTCACAAGTTCAAAAGTACCAAT
56329097 TGAAATTTGA
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
232 218 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (232 bp):
ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
ACTTCAATTCAACCAAAATATAACATCAAAATAAGCCAAATCACATGGCTTAACATATACACAAA
AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCCTTAAACTAGCCTATACATGCCA
TATTTACAAATTCACAAGTTCAAAAGTACCAATCGGA
Found at i:56329618 original size:46 final size:46
Alignment explanation
Indices: 56329563--56329710 Score: 151
Period size: 46 Copynumber: 3.2 Consensus size: 46
56329553 AGCTGATAAA
56329563 CAGTAAGCTCTATTGAGCTGAAAATGGTAAGCCCTATTGAGCTGAA-
1 CAGTAAGCTCTATTGAGCTG-AAATGGTAAGCCCTATTGAGCTGAAT
* * *
56329609 CAGTAAGCTCTATCGAGCT-AAATCGGTAAGCTCC-AATGAGTTGAAT
1 CAGTAAGCTCTATTGAGCTGAAAT-GGTAAGC-CCTATTGAGCTGAAT
* * * * * *
56329655 CGGTAAGCTCCAATGAGCTGAAATAGTAAGCTCT-TACGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAATGGTAAGCCCTAT-TGAGCTGAAT
56329701 CAGTAAGCTC
1 CAGTAAGCTC
56329711 ATACGAGCTA
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
44 4 0.05
45 17 0.20
46 58 0.70
47 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (46 bp):
CAGTAAGCTCTATTGAGCTGAAATGGTAAGCCCTATTGAGCTGAAT
Found at i:56329641 original size:23 final size:23
Alignment explanation
Indices: 56329559--56329720 Score: 97
Period size: 23 Copynumber: 7.1 Consensus size: 23
56329549 CCCGAGCTGA
*
56329559 TAAA-CAGTAAGCTCTATTGAGC
1 TAAATCAGTAAGCTCTATCGAGC
* * *
56329581 TGAAAAT-GGTAAGCCCTATTGAGC
1 T--AAATCAGTAAGCTCTATCGAGC
*
56329605 TGAA-CAGTAAGCTCTATCGAGC
1 TAAATCAGTAAGCTCTATCGAGC
* * *
56329627 TAAATCGGTAAGCTCCAAT-GAGT
1 TAAATCAGTAAGCT-CTATCGAGC
* * *
56329650 TGAATCGGTAAGCTCCAAT-GAGC
1 TAAATCAGTAAGCT-CTATCGAGC
56329673 TGAAAT-AGTAAGCTCT-TACGAGC
1 T-AAATCAGTAAGCTCTAT-CGAGC
*
56329696 TGAATCAGTAAGCTC-ATACGAGC
1 TAAATCAGTAAGCTCTAT-CGAGC
56329719 TA
1 TA
56329721 TGTTGAGTCC
Statistics
Matches: 112, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.01
22 24 0.21
23 62 0.55
24 25 0.22
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (23 bp):
TAAATCAGTAAGCTCTATCGAGC
Found at i:56330638 original size:31 final size:31
Alignment explanation
Indices: 56330603--56330664 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56330593 ATTATTAATA
56330603 ACTTAATTAACTAAATTACCAATATAACCTT
1 ACTTAATTAACTAAATTACCAATATAACCTT
56330634 ACTTAATTAACTAAATTACCAATATAACCTT
1 ACTTAATTAACTAAATTACCAATATAACCTT
56330665 GTTAATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (31 bp):
ACTTAATTAACTAAATTACCAATATAACCTT
Found at i:56332159 original size:16 final size:16
Alignment explanation
Indices: 56332138--56332177 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
56332128 TTGAATATTT
*
56332138 AATTATTCATATAATA
1 AATTATTAATATAATA
56332154 AATTATTAATATAATA
1 AATTATTAATATAATA
56332170 AATTATTA
1 AATTATTA
56332178 TAATAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATTAATATAATA
Found at i:56332161 original size:19 final size:17
Alignment explanation
Indices: 56332146--56332183 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
56332136 TTAATTATTC
56332146 ATATAATAAATTATTA-
1 ATATAATAAATTATTAT
56332162 ATATAATAAATTATTAT
1 ATATAATAAATTATTAT
56332179 A-ATAA
1 ATATAA
56332184 ATCATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAATAAATTATTAT
Found at i:56332183 original size:16 final size:16
Alignment explanation
Indices: 56332138--56332183 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
56332128 TTGAATATTT
56332138 AATTATTCAT-ATAATA
1 AATTATT-ATAATAATA
56332154 AATTATTA-ATATAATA
1 AATTATTATA-ATAATA
56332170 AATTATTATAATAA
1 AATTATTATAATAA
56332184 ATCATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTATTATAATAATA
Found at i:56332221 original size:13 final size:14
Alignment explanation
Indices: 56332205--56332246 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
56332195 TTTCAATTTT
56332205 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
56332218 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
56332233 ATTTTAAATAATAT
1 ATTTT-AATAATAT
56332247 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:56332231 original size:16 final size:16
Alignment explanation
Indices: 56332209--56332245 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
56332199 AATTTTATTT
56332209 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
56332226 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
56332241 TAATA
1 TAATA
56332246 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:56336410 original size:18 final size:18
Alignment explanation
Indices: 56336387--56336424 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
56336377 TATTTCTCAA
*
56336387 TTCTCAATTCTCACACAT
1 TTCTCAATACTCACACAT
*
56336405 TTCTCAATAGTCACACAT
1 TTCTCAATACTCACACAT
56336423 TT
1 TT
56336425 TTTAGAAAAG
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:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (18 bp):
TTCTCAATACTCACACAT
Found at i:56336894 original size:21 final size:22
Alignment explanation
Indices: 56336868--56336923 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
56336858 TTTTGTCTTA
56336868 GGGCAGCTTGTTGA-TGAGTTG
1 GGGCAGCTTGTTGACTGAGTTG
* * *
56336889 GGGCAG-TAGGTAACTGAGTTG
1 GGGCAGCTTGTTGACTGAGTTG
*
56336910 GGGCAGCCTGTTGA
1 GGGCAGCTTGTTGA
56336924 ATTGGGGTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.18, C:0.12, G:0.43, T:0.27
Consensus pattern (22 bp):
GGGCAGCTTGTTGACTGAGTTG
Found at i:56336971 original size:21 final size:21
Alignment explanation
Indices: 56336925--56336964 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56336915 GCCTGTTGAA
*
56336925 TTGGGGTACCCTCTTGCTGGC
1 TTGGGGTACCCTATTGCTGGC
*
56336946 TTGGGGTAGCCTATTGCTG
1 TTGGGGTACCCTATTGCTG
56336965 AGTTGGGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.35, T:0.35
Consensus pattern (21 bp):
TTGGGGTACCCTATTGCTGGC
Found at i:56337730 original size:40 final size:40
Alignment explanation
Indices: 56337675--56337816 Score: 207
Period size: 40 Copynumber: 3.5 Consensus size: 40
56337665 AAAAAAATAC
56337675 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
*
56337715 TCACTGCATGCATATTAAAAAATAGGC-A-ATACCCAAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATA-CC-AACAA
* * *
56337755 TCACTGCATGCATATTAAAAAATAGTCAACACAACAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
*
56337795 TCAATGCATGCATATTAAAAAA
1 TCACTGCATGCATATTAAAAAA
56337817 CATTTACTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 83 0.89
41 2 0.02
42 2 0.02
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.21
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
Found at i:56340021 original size:12 final size:12
Alignment explanation
Indices: 56339940--56340023 Score: 55
Period size: 12 Copynumber: 7.0 Consensus size: 12
56339930 AAATAACCCT
* *
56339940 AAATCGAAATCC
1 AAATCTAAATCA
*
56339952 AAATCGAAATCAA
1 AAATCTAAATC-A
* *
56339965 AAAT-TAATTCT
1 AAATCTAAATCA
*
56339976 AATTCTAAATCA
1 AAATCTAAATCA
* * *
56339988 ATATCAAAATCG
1 AAATCTAAATCA
56340000 AAAT-TGAAATCA
1 AAATCT-AAATCA
56340012 AAATCTAAATCA
1 AAATCTAAATCA
56340024 GAATTGGTGA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 3 0.06
12 46 0.85
13 5 0.09
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (12 bp):
AAATCTAAATCA
Found at i:56340056 original size:12 final size:12
Alignment explanation
Indices: 56340039--56340099 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
56340029 GGTGAGTGTT
*
56340039 TCAAAATTGTAA
1 TCAAAATTGAAA
*
56340051 TCAAAATCGAAA
1 TCAAAATTGAAA
**
56340063 TTGAAATTGAAA
1 TCAAAATTGAAA
**
56340075 TCAAAATCAAAA
1 TCAAAATTGAAA
*
56340087 TCAAAATTAAAA
1 TCAAAATTGAAA
56340099 T
1 T
56340100 TGAAACCGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (12 bp):
TCAAAATTGAAA
Found at i:56340093 original size:24 final size:24
Alignment explanation
Indices: 56340039--56340099 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
56340029 GGTGAGTGTT
* *
56340039 TCAAAATTGTAATCAAAATCGAAA
1 TCAAAATTGAAATCAAAATCAAAA
**
56340063 TTGAAATTGAAATCAAAATCAAAA
1 TCAAAATTGAAATCAAAATCAAAA
*
56340087 TCAAAATTAAAAT
1 TCAAAATTGAAAT
56340100 TGAAACCGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (24 bp):
TCAAAATTGAAATCAAAATCAAAA
Found at i:56340851 original size:27 final size:27
Alignment explanation
Indices: 56340821--56340872 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56340811 TTAATAACTA
*
56340821 TAATTAAAAA-TATAATATTTAAAATTT
1 TAATTAAAAATTA-AATATATAAAATTT
*
56340848 TAATTAAATATTAAATATATAAAAT
1 TAATTAAAAATTAAATATATAAAAT
56340873 CACATGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTAAAAATTAAATATATAAAATTT
Found at i:56342032 original size:12 final size:11
Alignment explanation
Indices: 56341998--56342031 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
56341988 CTACACCCTC
56341998 TCTTTTTTTTT
1 TCTTTTTTTTT
56342009 TCTTTTTTTTT
1 TCTTTTTTTTT
56342020 TCTTTTTTTTT
1 TCTTTTTTTTT
56342031 T
1 T
56342032 TAACAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:56350103 original size:22 final size:21
Alignment explanation
Indices: 56350052--56350104 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
56350042 AAATTATATG
* * *
56350052 AAAATTAAAATTTAAATATAA
1 AAAATGAAAATTAAAAGATAA
*
56350073 AAGAGTGAAAATTAAAAGGATAA
1 AA-AATGAAAATTAAAA-GATAA
56350096 AAAATGAAA
1 AAAATGAAA
56350105 GGGTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAATGAAAATTAAAAGATAA
Found at i:56352333 original size:24 final size:26
Alignment explanation
Indices: 56352306--56352355 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
56352296 TTACATTGTG
*
56352306 TATATTTTGAA-T-TTATATATATAT
1 TATATTTTAAACTATTATATATATAT
*
56352330 TATATTTTAAACTATTATATGTATAT
1 TATATTTTAAACTATTATATATATAT
56352356 ATTGTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 1 0.05
26 11 0.50
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTAAACTATTATATATATAT
Found at i:56352354 original size:26 final size:24
Alignment explanation
Indices: 56352306--56352373 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 24
56352296 TTACATTGTG
*
56352306 TATATTTTGAATTTATATATATAT
1 TATATTTTAAATTTATATATATAT
56352330 TATATTTTAAACTATTATATGTATATATT
1 TATATTTTAAA-T-TTATA--TATATA-T
*
56352359 GTCTATTTTAAATTT
1 -TATATTTTAAATTT
56352374 CATGTGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 10 0.28
25 1 0.03
26 5 0.14
28 8 0.22
29 2 0.06
30 10 0.28
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATTTTAAATTTATATATATAT
Found at i:56352596 original size:20 final size:21
Alignment explanation
Indices: 56352571--56352625 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
56352561 TATTACTTTC
56352571 ATTCTT-TATTCACTATTATT
1 ATTCTTATATTCACTATTATT
* *
56352591 ATTCTTACTAATGCATTATTATT
1 ATTCTTA-T-ATTCACTATTATT
56352614 ATTCTTATATTC
1 ATTCTTATATTC
56352626 TACTTCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 3 0.10
22 2 0.07
23 18 0.62
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTCTTATATTCACTATTATT
Found at i:56352928 original size:3 final size:3
Alignment explanation
Indices: 56352920--56353009 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
56352910 GTATTTACTT
* * *
56352920 TTA TTA TTA CTTA -TA TTA TTA TTA CTA TTA TCA TTA TGA TTTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * *
56352966 CT- TTA TTA TTA TCA TTA TTA CTA CTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
56353010 ATTTTTGCCC
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.07
3 60 0.86
4 5 0.07
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:56352975 original size:27 final size:25
Alignment explanation
Indices: 56352914--56353012 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 25
56352904 CTCTCTGTAT
56352914 TTACTTTTATTATTA-C-TTATATTA
1 TTAC-TTTATTATTATCATTATATTA
*
56352938 TTA--TTACTATTATCATTATGATTTA
1 TTACTTTATTATTATCATTAT-A-TTA
*
56352963 TTACTTTATTATTATCATTATTACTA
1 TTACTTTATTATTATCATTA-TATTA
* *
56352989 CTA-TTATATTATTATTATTATATT
1 TTACTT-TATTATTATCATTATATT
56353013 TTTGCCCATT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
21 8 0.13
22 1 0.02
23 4 0.07
24 4 0.07
25 11 0.18
26 17 0.28
27 15 0.25
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (25 bp):
TTACTTTATTATTATCATTATATTA
Found at i:56356333 original size:12 final size:13
Alignment explanation
Indices: 56356315--56356346 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
56356305 TCGATATCTC
56356315 AATTTCAATTCAT
1 AATTTCAATTCAT
56356328 -ATTTCAATTCAT
1 AATTTCAATTCAT
56356340 AATTTCA
1 AATTTCA
56356347 CTTTCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:56358286 original size:23 final size:24
Alignment explanation
Indices: 56358230--56358288 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
56358220 AAATAAATTA
* *
56358230 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
56358254 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
56358278 TTTTATTACAA
1 TTTTATTACAA
56358289 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:56358502 original size:3 final size:3
Alignment explanation
Indices: 56358494--56358533 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
56358484 GACTTCATTT
*
56358494 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
56358534 TAAATCTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:56359155 original size:13 final size:13
Alignment explanation
Indices: 56359137--56359171 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
56359127 TAATATGTAG
56359137 CTTGCCTATTGAC
1 CTTGCCTATTGAC
56359150 CTTGCCTATTGAC
1 CTTGCCTATTGAC
*
56359163 TTTGCCTAT
1 CTTGCCTAT
56359172 AAGTATCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (13 bp):
CTTGCCTATTGAC
Found at i:56360458 original size:51 final size:51
Alignment explanation
Indices: 56360403--56360538 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
56360393 TGGAAACATG
*
56360403 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
56360454 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
56360505 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
56360539 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:56361468 original size:29 final size:30
Alignment explanation
Indices: 56361435--56361508 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
56361425 TTAAATTAGT
*
56361435 AATAATAAAATTATACTTT-ATCTTTTAAA
1 AATAATAAAATTATAATTTAATCTTTTAAA
*
56361464 AATAATAAAATTTTAATTTAATCTTTTAAA
1 AATAATAAAATTATAATTTAATCTTTTAAA
* * *
56361494 AGTTATAAAAATATA
1 AATAATAAAATTATA
56361509 GATTATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (30 bp):
AATAATAAAATTATAATTTAATCTTTTAAA
Found at i:56369545 original size:14 final size:14
Alignment explanation
Indices: 56369521--56369554 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56369511 TATCATTATT
56369521 TCATGTTTTCATATA
1 TCAT-TTTTCATATA
*
56369536 TCATTTTTCATGTA
1 TCATTTTTCATATA
56369550 TCATT
1 TCATT
56369555 ATTTGCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (14 bp):
TCATTTTTCATATA
Found at i:56377356 original size:26 final size:24
Alignment explanation
Indices: 56377312--56377361 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
56377302 ATTTGTTTTA
*
56377312 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
56377336 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
56377362 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:56382812 original size:27 final size:27
Alignment explanation
Indices: 56382782--56382846 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
56382772 GATCACTGAA
* *
56382782 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
56382809 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
*
56382836 CACTTTTCCAT
1 CACTTTGCCAT
56382847 AGTTCAACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:56382979 original size:31 final size:31
Alignment explanation
Indices: 56382936--56383114 Score: 277
Period size: 31 Copynumber: 5.8 Consensus size: 31
56382926 CTTTTCACTT
* *
56382936 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
56382967 GTAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56382998 GTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56383029 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56383060 GTAGCCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56383091 GTAGCCGAAGCTTCCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
56383115 ATTGTACACA
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56383197 original size:33 final size:33
Alignment explanation
Indices: 56383107--56383219 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 33
56383097 GAAGCTTCCA
* *
56383107 CTTTTCACA-TTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
*
56383140 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* * *
56383172 CTTTTTAAGTTGTATACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
56383205 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
56383220 CTTTTAGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 29 0.43
33 39 0.57
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:56384331 original size:21 final size:21
Alignment explanation
Indices: 56384306--56384348 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56384296 CTTACACCAT
56384306 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
56384327 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
56384348 T
1 T
56384349 CGGTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
TTCTTCTATGAAAAACTAGAC
Found at i:56384938 original size:11 final size:11
Alignment explanation
Indices: 56384922--56384971 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
56384912 TATACTAAAT
56384922 AAATATTAATA
1 AAATATTAATA
56384933 AAATATTAAT-
1 AAATATTAATA
*
56384943 AAATATCTCATTA
1 AAATAT-T-AATA
56384956 AAATATTAATA
1 AAATATTAATA
56384967 AAATA
1 AAATA
56384972 ATATTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.18
11 19 0.56
12 3 0.09
13 6 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATTAATA
Found at i:56384961 original size:23 final size:21
Alignment explanation
Indices: 56384919--56384968 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
56384909 TTATATACTA
56384919 AATAAATATTAATAAAATATT
1 AATAAATATTAATAAAATATT
*
56384940 AATAAATATCTCATTAAAATATT
1 AATAAATAT-T-AATAAAATATT
56384963 AATAAA
1 AATAAA
56384969 ATAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAATATTAATAAAATATT
Found at i:56386359 original size:49 final size:48
Alignment explanation
Indices: 56386305--56386406 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 48
56386295 TTATTTAAAC
* * *
56386305 TATTTTAATTTTGAGTCATATTTGGTTTAGGTCAATTTTGAATGCAAAT
1 TATTTTAATTTTGAGTCATATTTGATTTAGGT-AAATTTGAACGCAAAT
56386354 TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
1 TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
56386402 TATTT
1 TATTT
56386407 AGGGTTTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
48 19 0.38
49 31 0.62
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (48 bp):
TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
Found at i:56389092 original size:301 final size:300
Alignment explanation
Indices: 56388654--56389514 Score: 1356
Period size: 301 Copynumber: 2.9 Consensus size: 300
56388644 CAGTTTTTTT
*
56388654 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTTAAATAATAT---AAA-AAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * *
56388715 ACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATATTAAAAATACAAACAAAAGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAAT-TTAAAAATACAAAGAAAGGGTCAAAA
* * * * *
56388780 TCAGTGTTATTTATTAAATTAATATAAAAAACACTAAATTAATACATGTGAAATATTATGTACTA
130 TCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTA
*
56388845 AAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAATTTTAAAA
195 AAATAATATAAAAAATAAAATATGAAAATAGTATATTTTTAAAAATAAAATCCGAAATTTTAAAA
* *
56388910 ATACAAAGAAAGGGCCAAAATCAGGATTATTTACTAAATTA
260 ATACAAACAAAGGGACAAAATCAGGATTATTTACTAAATTA
*
56388951 ATATAAAAAACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
*
56389016 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAACTTTAAAAATATAAAGAAAGGGTCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAA-TTTAAAAATACAAAGAAAGGGTCAAAA
56389081 TCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTA
130 TCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTA
* * *
56389146 AAATAATATAAAAAATAAAATACGAAAATAATATATTTTTAAAAATAAAATCCGGGAATTTTAAA
195 AAATAATATAAAAAATAAAATATGAAAATAGTATATTTTTAAAAATAAAATCC-GAAATTTTAAA
* * *
56389211 AATACAAACAAAGGGACAAATTTAGGTTTATTTACTAAATTA
259 AATACAAACAAAGGGACAAAATCAGGATTATTTACTAAATTA
*
56389253 ATATAAAAAAACACT--AATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* *
56389316 TATGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAAGGGTCAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAA-TTTAAAAATACAAAG-AAAGGGTCAA
*
56389381 AATCAGGGTTATTTACTAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATATA
128 AATCAGGGTTATTTACTAAATTAATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTA
* * *
56389446 CTAAAATAATAAAAAAAATAAAATATAAAAATAGTATATTTTTAAAAATAAGATCCGAAAATTTT
192 CTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTTAAAAATAAAATCCG-AAATTTT
56389511 AAAA
256 AAAA
56389515 TAGGAAATTT
Statistics
Matches: 520, Mismatches: 34, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
297 51 0.10
300 3 0.01
301 269 0.52
302 90 0.17
303 107 0.21
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (300 bp):
ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTAAAAATACAAAGAAAGGGTCAAAAT
CAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAA
AATAATATAAAAAATAAAATATGAAAATAGTATATTTTTAAAAATAAAATCCGAAATTTTAAAAA
TACAAACAAAGGGACAAAATCAGGATTATTTACTAAATTA
Found at i:56389102 original size:151 final size:151
Alignment explanation
Indices: 56388654--56389514 Score: 1331
Period size: 151 Copynumber: 5.7 Consensus size: 151
56388644 CAGTTTTTTT
*
56388654 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTTAAATAATAT---AAA-AAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * * *
56388715 ACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATATTAAAAATACAAACAAAAGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
* *
56388780 TCAGTGTTATTTATTAAATTA
131 TCAGGGTTATTTACTAAATTA
* * *
56388801 ATATAAAAAACACTAAATTAATACATGTGAAATATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* *
56388866 ATGAAAATAGTATATTTTAAAAAATAAAATCCG-AAATTTTAAAAATACAAAGAAAGGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
*
56388930 TCAGGATTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
*
56388951 ATATAAAAAACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * *
56389016 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAACTTTAAAAATATAAAGAAAGGGTCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
56389081 TCAGGGTTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
56389102 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* ** * * *
56389167 ACGAAAATAATATATTTTTAAAAATAAAATCCGGGAATTTTAAAAATACAAACAAAGGGACAAAT
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
* *
56389232 TTAGGTTTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
*
56389253 ATATAAAAAAACACT--AATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* *
56389316 TATGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAAGGGTCAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAG-AAAGGGCCAA
56389381 AATCAGGGTTATTTACTAAATTA
129 AATCAGGGTTATTTACTAAATTA
* *
56389404 ATATAAAAAAACACTAAAATAATACATTTGAAACATTATATACTAAAATAATAAAAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
** *
56389469 TATAAAAATAGTATATTTTTAAAAATAAGATCCGAAAATTTTAAAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAA
56389515 TAGGAAATTT
Statistics
Matches: 657, Mismatches: 48, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
147 49 0.07
150 238 0.36
151 271 0.41
152 10 0.02
153 89 0.14
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (151 bp):
ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
TCAGGGTTATTTACTAAATTA
Found at i:56389729 original size:15 final size:15
Alignment explanation
Indices: 56389686--56389729 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
56389676 GCTGGGTGTA
*
56389686 TTAAATATATTATATT
1 TTAAAT-TATAATATT
* *
56389702 TTAAACTAAAATATT
1 TTAAATTATAATATT
56389717 TTAAATTATAATA
1 TTAAATTATAATA
56389730 AAAATATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATTATAATATT
Found at i:56390201 original size:20 final size:19
Alignment explanation
Indices: 56390165--56390208 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
56390155 TCATTTTATG
*
56390165 TAAAAAATTTTAAAAATA-
1 TAAAAAAATTTAAAAATAT
56390183 TAAAAAAATTTAAGCAAATAT
1 TAAAAAAATTTAA--AAATAT
56390204 TAAAA
1 TAAAA
56390209 TCAAACTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAAAATTTAAAAATAT
Found at i:56393585 original size:13 final size:13
Alignment explanation
Indices: 56393567--56393592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56393557 AATTTTACTA
56393567 AAATTTTATATTT
1 AAATTTTATATTT
56393580 AAATTTTATATTT
1 AAATTTTATATTT
56393593 CATTTAGATA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAATTTTATATTT
Found at i:56393991 original size:20 final size:20
Alignment explanation
Indices: 56393963--56394008 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56393953 TAATAATTAT
* *
56393963 TTTTA-ATATTTAAAATATA
1 TTTTATATATTCAAAATAAA
*
56393982 TTTTATATATTCAAATTAAA
1 TTTTATATATTCAAAATAAA
56394002 TTTTATA
1 TTTTATA
56394009 AACAATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATATATTCAAAATAAA
Found at i:56394650 original size:23 final size:22
Alignment explanation
Indices: 56394610--56394653 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
56394600 ACATCAAAGA
**
56394610 ATAATTTTAAAATGATATAAAT
1 ATAATTTTAAAAAAATATAAAT
56394632 ATAATTTTAAAAAAAATATAAA
1 ATAATTTT-AAAAAAATATAAA
56394654 AAGTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTTAAAAAAATATAAAT
Found at i:56409280 original size:28 final size:28
Alignment explanation
Indices: 56409221--56409283 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
56409211 AAAGGCCCTT
* * *
56409221 TTTTTAATTAATTAGGTTTTTAGGTATT
1 TTTTAAATTAATTAGGTCTTTAGGTATG
56409249 TTTTAAATTAATTAGGTCTTTAGGT-TGG
1 TTTTAAATTAATTAGGTCTTTAGGTAT-G
56409277 TTTTAAA
1 TTTTAAA
56409284 ATTATTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (28 bp):
TTTTAAATTAATTAGGTCTTTAGGTATG
Found at i:56409280 original size:29 final size:28
Alignment explanation
Indices: 56409219--56409273 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
56409209 GTAAAGGCCC
* *
56409219 TTTTTTTAATTAATTAGGTTTTTAGGTA
1 TTTTTTAAATTAATTAGGTCTTTAGGTA
56409247 TTTTTTAAATTAATTAGGTCTTTAGGT
1 TTTTTTAAATTAATTAGGTCTTTAGGT
56409274 TGGTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (28 bp):
TTTTTTAAATTAATTAGGTCTTTAGGTA
Found at i:56409538 original size:9 final size:9
Alignment explanation
Indices: 56409510--56409566 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
56409500 TTCACATTCA
56409510 TCTCTCAAC
1 TCTCTCAAC
* *
56409519 TCTCGCGAC
1 TCTCTCAAC
56409528 TCTCTCAAC
1 TCTCTCAAC
56409537 TCTCTCAAAC
1 TCTCTC-AAC
* * *
56409547 CCTTTCAAG
1 TCTCTCAAC
56409556 TCTCTCAAC
1 TCTCTCAAC
56409565 TC
1 TC
56409567 ACTCGTTTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.21, C:0.42, G:0.05, T:0.32
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:56410246 original size:30 final size:30
Alignment explanation
Indices: 56410212--56410268 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56410202 AGGCACTTCT
56410212 ACACGGGT-GAGCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
56410242 ACACGGGTAGACCACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
56410269 CATGGCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.32, T:0.14
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:56411480 original size:16 final size:15
Alignment explanation
Indices: 56411440--56411488 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
56411430 TTAGTGAAAG
56411440 ATATTTAT-TAAATAA
1 ATATTTATAT-AATAA
*
56411455 ATAATTATATAATAA
1 ATATTTATATAATAA
*
56411470 TATATTTATATGATAA
1 -ATATTTATATAATAA
56411486 ATA
1 ATA
56411489 AATGTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATATTTATATAATAA
Found at i:56413777 original size:46 final size:46
Alignment explanation
Indices: 56413725--56413861 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
56413715 GTGTGCTCTC
**
56413725 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
56413771 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
56413817 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
56413862 ATGACAGAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:56413867 original size:46 final size:46
Alignment explanation
Indices: 56413739--56413914 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
56413729 ATGAAATGTG
* * *
56413739 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* *
56413785 TAAGACTATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
56413831 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * *
56413880 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
56413915 TTAAAGATAA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
45 5 0.04
46 79 0.68
47 1 0.01
49 1 0.01
50 30 0.26
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:56415565 original size:46 final size:46
Alignment explanation
Indices: 56415508--56415728 Score: 255
Period size: 46 Copynumber: 4.7 Consensus size: 46
56415498 TGATTGAAAC
* * *
56415508 TGTGTATGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATAAAA
* *
56415554 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATAAAA
**
56415600 TGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT-AAAA
** * * *
56415647 -GAATAAGACCATAGTTGAAAGATACCATGGCAACATGACAAAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATAAAA
* * *
56415692 TGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TG--T--GTAAGACCATGGTTGAAAGATACCATGGCA
56415729 TGATGTCAAA
Statistics
Matches: 155, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
45 4 0.03
46 121 0.78
47 3 0.02
50 27 0.17
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATAAAA
Found at i:56429156 original size:12 final size:12
Alignment explanation
Indices: 56429141--56429166 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56429131 AATTACTCCT
56429141 TAAAACTCTAAC
1 TAAAACTCTAAC
56429153 TAAAACTCTAAC
1 TAAAACTCTAAC
56429165 TA
1 TA
56429167 TTCAACAATG
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:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAACTCTAAC
Found at i:56429576 original size:38 final size:38
Alignment explanation
Indices: 56429531--56429606 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56429521 TTAAGGGTAT
56429531 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
56429569 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
56429607 ATTCCTTAAT
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:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (38 bp):
GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
Found at i:56431049 original size:12 final size:13
Alignment explanation
Indices: 56431032--56431061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
56431022 TTTCACTTTG
56431032 TTTTAG-TTTTAA
1 TTTTAGTTTTTAA
56431044 TTTTAGTTTTTAA
1 TTTTAGTTTTTAA
56431057 TTTTA
1 TTTTA
56431062 AACCTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTAGTTTTTAA
Found at i:56431622 original size:43 final size:43
Alignment explanation
Indices: 56431308--56431600 Score: 451
Period size: 43 Copynumber: 6.8 Consensus size: 43
56431298 GTTTATTGAA
*
56431308 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* * *
56431351 AAAAGCGCCGCAAAAGGTCAAGGCTTTTAGCGGCATTTGTTAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* *
56431394 AAAGGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* *
56431437 AAAAGCGCCGCAAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
** *
56431480 AAAAATGCCGCTAAAGATCAAGGCTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* **
56431523 AAAAGCGCCGCTAAAGATCAAGGCTTTTAGCGGCGTTTGCGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
*
56431566 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGTGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
56431601 CTTTTTCTAC
Statistics
Matches: 226, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 226 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
Found at i:56431710 original size:31 final size:31
Alignment explanation
Indices: 56431675--56431741 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
56431665 CTTCCTGCAT
* *
56431675 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
56431706 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
56431737 TAAAA
1 TAAAA
56431742 AATACAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.61, C:0.18, G:0.03, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:56431753 original size:33 final size:31
Alignment explanation
Indices: 56431676--56431753 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
56431666 TTCCTGCATT
* * *
56431676 AAAATCCAACCAAATACAACAAATATAATAT
1 AAAATACAACCAAAAACAACAAATATAATAA
* * *
56431707 AAAATGCAGCCAAAAACAACAAATTTAACATAA
1 AAAATACAACCAAAAACAACAAATAT-A-ATAA
56431740 AAAATACAACCAAA
1 AAAATACAACCAAA
56431754 GTCATTAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 22 0.58
32 1 0.03
33 15 0.39
ACGTcount: A:0.63, C:0.19, G:0.03, T:0.15
Consensus pattern (31 bp):
AAAATACAACCAAAAACAACAAATATAATAA
Found at i:56437617 original size:9 final size:9
Alignment explanation
Indices: 56437603--56437730 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
56437593 ATGTATTAGT
56437603 TAAGTTATG
1 TAAGTTATG
56437612 TAAGTTGTTATG
1 TAA---GTTATG
*
56437624 TACGTTATG
1 TAAGTTATG
* *
56437633 TGACTTATG
1 TAAGTTATG
*
56437642 TAAATTATG
1 TAAGTTATG
56437651 TAAGTTATG
1 TAAGTTATG
*
56437660 TGAGTTATG
1 TAAGTTATG
56437669 TAAGTTGTTATG
1 TAA---GTTATG
*
56437681 TAAATTATG
1 TAAGTTATG
*
56437690 TAAGTTATA
1 TAAGTTATG
*
56437699 TGAGTTATG
1 TAAGTTATG
56437708 TAAGTTATG
1 TAAGTTATG
* *
56437717 TAATTTATT
1 TAAGTTATG
56437726 TAAGT
1 TAAGT
56437731 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 78 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56437680 original size:39 final size:39
Alignment explanation
Indices: 56437637--56437713 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
56437627 GTTATGTGAC
*
56437637 TTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTG
1 TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTG
56437676 TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
56437714 ATGTAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (39 bp):
TTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTG
Found at i:56437730 original size:57 final size:57
Alignment explanation
Indices: 56437603--56437730 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
56437593 ATGTATTAGT
** * *
56437603 TAAGTTATGTAAGTTGTTATGTACGTTATGTGACTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATGTAAGTTATG
* * * *
56437660 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATGTAAGTTATG
* *
56437717 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
56437731 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATGTAAGTTATG
Found at i:56438272 original size:241 final size:241
Alignment explanation
Indices: 56437849--56438555 Score: 1324
Period size: 241 Copynumber: 2.9 Consensus size: 241
56437839 TGAATATAGT
* *
56437849 AATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
56437914 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
* *
56437979 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATGAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
56438044 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
* *
56438090 AATTTTTTAAGATTCATCATACGTGACGTTGCTACACCTAGGGAGGATCCATTATATCTTACAGG
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
56438155 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
56438220 AGGTTGGAGAGAAGGTCAGTTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
*
56438285 ATTCAATAGTAAATGAGCTCGATAAAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
56438331 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGG
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
56438396 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
56438461 AAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
56438526 ATTCAATAGTAAATGAGCTCGATAGAACTT
196 ATTCAATAGTAAATGAGCTCGATAGAACTT
56438556 AAAAAGGTAT
Statistics
Matches: 452, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 452 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:56438664 original size:24 final size:24
Alignment explanation
Indices: 56438597--56438667 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
56438587 TTAACTTAAA
* *
56438597 TGATAAAATGGACGATAATATTTG
1 TGATAAAACGGAAGATAATATTTG
*
56438621 TGATAAAACAGACA-ATAATATTTG
1 TGATAAAACGGA-AGATAATATTTG
*
56438645 TGATAAAACGGAAGAGAATATTT
1 TGATAAAACGGAAGATAATATTT
56438668 ATATAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 39 0.98
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGAAGATAATATTTG
Found at i:56438804 original size:64 final size:64
Alignment explanation
Indices: 56438715--56438848 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
56438705 ATATTTTATT
* *
56438715 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATCAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
* *
56438779 AAATATTTTTATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
56438843 AAATAT
1 AAATAT
56438849 AGAAATATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
Found at i:56442029 original size:18 final size:18
Alignment explanation
Indices: 56442006--56442044 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
56441996 ACCCTAAAAC
56442006 CATATATAATACTATAAA
1 CATATATAATACTATAAA
*
56442024 CATATATAATACTCTAAA
1 CATATATAATACTATAAA
56442042 CAT
1 CAT
56442045 GTACTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (18 bp):
CATATATAATACTATAAA
Found at i:56442630 original size:18 final size:17
Alignment explanation
Indices: 56442607--56442641 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56442597 AAAATCAGTT
*
56442607 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
56442625 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
56442642 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:56442859 original size:41 final size:39
Alignment explanation
Indices: 56442782--56442926 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 39
56442772 GTTTTCTTAG
56442782 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACTA
1 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGAC-A
* *
56442822 AAAACGCCGCTATTTCTAAGTTTTTAGCGGCGTTTGGACCA
1 AAAACGCCGCTATTACTCAG-TTTTAGCGGCGTTTGGA-CA
*
56442863 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTTGAGCA
1 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGA-CA
56442903 AAAACGCCGCTATTACTCAGTTTT
1 AAAACGCCGCTATTACTCAGTTTT
56442927 TTAGCTAATC
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
40 60 0.62
41 36 0.37
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (39 bp):
AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACA
Found at i:56448739 original size:47 final size:47
Alignment explanation
Indices: 56448686--56449027 Score: 495
Period size: 47 Copynumber: 7.2 Consensus size: 47
56448676 AATTCTAAAT
56448686 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56448733 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
56448782 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
** *
56448829 TACGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
56448878 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56448925 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
56448972 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56449019 TGTGATAAG
1 TGTGATAAG
56449028 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 177 0.67
49 88 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56448850 original size:96 final size:96
Alignment explanation
Indices: 56448686--56449027 Score: 517
Period size: 96 Copynumber: 3.6 Consensus size: 96
56448676 AATTCTAAAT
*
56448686 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
56448751 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* ** *
56448782 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTACGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
56448847 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
56448878 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
56448943 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * * * * **
56448972 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
56449028 TCCCGAAGGG
Statistics
Matches: 225, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 51 0.23
96 174 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:56448930 original size:143 final size:143
Alignment explanation
Indices: 56448689--56449027 Score: 506
Period size: 143 Copynumber: 2.4 Consensus size: 143
56448679 TCTAAATTGT
56448689 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
*
56448753 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 GATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
56448818 AAGTGTATATGTAC
130 AAGTGTATATATAC
* *
56448832 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
56448897 CGATGTGATGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
65 CGATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
**
56448961 AAGTGTATATATGT
130 AAGTGTATATATAC
* * * * * *
56448975 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
56449028 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 122 0.68
145 46 0.26
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATAC
Found at i:56449203 original size:37 final size:37
Alignment explanation
Indices: 56449145--56449223 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56449135 TCGAGCTCTA
* * * *
56449145 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
*
56449182 AAGACCCGATAACTTCATGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
56449219 AAGAC
1 AAGAC
56449224 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:56451135 original size:43 final size:43
Alignment explanation
Indices: 56451087--56451275 Score: 333
Period size: 43 Copynumber: 4.4 Consensus size: 43
56451077 TTGGTTTTCA
* *
56451087 GCACTAAGTGTGCGGGCAATAAGTGTTCAAGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
56451130 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
56451173 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* *
56451216 GCACTAAGTGTGCGGGCAATAAGTATTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
56451259 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
56451276 TTGAAATGCA
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
Found at i:56451290 original size:29 final size:29
Alignment explanation
Indices: 56451257--56451330 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56451247 GTTGTGAGAT
* *
56451257 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56451286 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56451315 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56451331 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56451666 original size:40 final size:40
Alignment explanation
Indices: 56451622--56451889 Score: 224
Period size: 40 Copynumber: 6.7 Consensus size: 40
56451612 CATTTGAATG
*
56451622 ATATCCGGGCTAAGTCCCGAAGGCAATT-GAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGA-T
* * * *
56451662 ATATCCGGGCTAAGACCCGAAGGC-ATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGC-TAGTGAT
* * *
56451702 ATATTCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAG-TGAT
* * * *
56451742 ATATCCGGGCTAAGACCCGAAGGC-ATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGA-T
* * ** *
56451782 AAATCCGGGCTAAATTTCGAAGAGC-ATTCGTGCTAGTGAG
1 ATATCCGGGCTAAGTCCCGAAG-GCAATTCGTGCTAGTGAT
* * * * *
56451822 GTATCCGGACTAAGTTCCGAAGAGC-ATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAG-GCAATTCGTGCTAGTGAT
*
56451862 ATATCCGGGCTAGGTCCCGAAGAGCAAT
1 ATATCCGGGCTAAGTCCCGAAG-GCAAT
56451890 CATGCTGGTG
Statistics
Matches: 190, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.05
40 158 0.83
41 22 0.12
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTCGTGCTAGTGAT
Found at i:56451760 original size:80 final size:80
Alignment explanation
Indices: 56451622--56451794 Score: 251
Period size: 80 Copynumber: 2.2 Consensus size: 80
56451612 CATTTGAATG
* *
56451622 ATATCCGGGCTAAGTCCCGAAGGCAATTGAGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
56451687 TTTGTGCGAATTGAT
66 TTGGTGCGAATTGAT
* *
56451702 ATATTCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGAGCAAG-TGATTATATCCGGGCTAAGACCCGAAGGC
*
56451766 ATTGGTGCGAGTT-ACT
65 ATTGGTGCGAATTGA-T
*
56451782 AAATCCGGGCTAA
1 ATATCCGGGCTAA
56451795 ATTTCGAAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
79 1 0.01
80 79 0.95
81 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTGGTGCGAATTGAT
Found at i:56451896 original size:40 final size:40
Alignment explanation
Indices: 56451823--56451899 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
56451813 GCTAGTGAGG
* * *
56451823 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
* *
56451863 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTG
56451900 ACATGTATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGACTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:56455364 original size:47 final size:47
Alignment explanation
Indices: 56455311--56455650 Score: 518
Period size: 47 Copynumber: 7.2 Consensus size: 47
56455301 AATTCTAAAT
56455311 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56455358 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56455405 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56455452 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
56455501 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56455548 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
56455595 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56455642 TGTGATAAG
1 TGTGATAAG
56455651 TCCCGAAAGG
Statistics
Matches: 267, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 224 0.84
49 43 0.16
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56455570 original size:143 final size:142
Alignment explanation
Indices: 56455314--56455650 Score: 527
Period size: 143 Copynumber: 2.4 Consensus size: 142
56455304 TCTAAATTGT
56455314 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
*
56455378 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
66 GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
*
56455443 GTGTATATGTGC
131 GTGTATATATGC
* *
56455455 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
56455520 CGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
65 CGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
*
56455585 AGTGTATATATGT
130 AGTGTATATATGC
* * * * * *
56455598 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
56455651 TCCCGAAAGG
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
141 47 0.26
142 1 0.01
143 132 0.73
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (142 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGC
Found at i:56455824 original size:37 final size:37
Alignment explanation
Indices: 56455768--56455846 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56455758 TCGAGCTCTA
* * *
56455768 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56455805 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56455842 AAGAC
1 AAGAC
56455847 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56464811 original size:44 final size:45
Alignment explanation
Indices: 56464716--56464849 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 45
56464706 ACAGGACAGA
* *
56464716 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
56464762 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
56464806 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
56464850 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:56481447 original size:12 final size:12
Alignment explanation
Indices: 56481415--56481447 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56481405 TAGTTAGAAA
*
56481415 AAGAAATTATTG
1 AAGAAATTGTTG
56481427 AAGAAATTGTTG
1 AAGAAATTGTTG
56481439 AAGAAATTG
1 AAGAAATTG
56481448 GGTAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (12 bp):
AAGAAATTGTTG
Found at i:56488132 original size:4 final size:4
Alignment explanation
Indices: 56488123--56488164 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
56488113 ATTACTACCA
56488123 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
56488165 TTTTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:56492070 original size:49 final size:49
Alignment explanation
Indices: 56491892--56492085 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
56491882 TCTATTGTGA
* *
56491892 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG---ACTGTT
* * ** ** *
56491943 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
*
56491993 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
56492042 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
56492086 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 41 0.34
50 41 0.34
51 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:56493761 original size:23 final size:21
Alignment explanation
Indices: 56493735--56493802 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 21
56493725 ACTCCAAATC
56493735 AAAATAATAAACATAAATGAAAG
1 AAAATAATAAA-ATAAAT-AAAG
*
56493758 AAAATAAACAAAAATAAATAAAG
1 AAAAT-AA-TAAAATAAATAAAG
*
56493781 AACATAATAGAAATAAACTAAA
1 AAAATAATA-AAATAAA-TAAA
56493803 AAATAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 17 0.45
24 8 0.21
25 3 0.08
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAATAATAAAATAAATAAAG
Found at i:56498581 original size:30 final size:30
Alignment explanation
Indices: 56498538--56498633 Score: 147
Period size: 30 Copynumber: 3.2 Consensus size: 30
56498528 ACGGCCATGA
* * *
56498538 CACACGGGCGTGTGTACTGCCCGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
*
56498568 CACACGAGTGTGTGTACTACTCGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
*
56498598 CACACGAGTGTGTGTACTACCAGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
56498628 CACACG
1 CACACG
56498634 GGCGTGTGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (30 bp):
CACACGAGTGTGTGTACTACCCGTGTGCCT
Found at i:56498608 original size:15 final size:15
Alignment explanation
Indices: 56498560--56498633 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
56498550 TGTACTGCCC
56498560 GTGTGCCTCACACGA
1 GTGTGCCTCACACGA
** **
56498575 GTGTGTGT-ACTACTC
1 GTGTGCCTCAC-ACGA
56498590 GTGTGCCTCACACGA
1 GTGTGCCTCACACGA
** *
56498605 GTGTGTGT-ACTACCA
1 GTGTGCCTCAC-ACGA
56498620 GTGTGCCTCACACG
1 GTGTGCCTCACACG
56498634 GGCGTGTGGT
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
14 4 0.10
15 33 0.80
16 4 0.10
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (15 bp):
GTGTGCCTCACACGA
Found at i:56498654 original size:30 final size:30
Alignment explanation
Indices: 56498538--56498654 Score: 146
Period size: 30 Copynumber: 3.9 Consensus size: 30
56498528 ACGGCCATGA
* *
56498538 CACACGGGCGTGTGTACTGCCCGTGTGCCT
1 CACACGAGCGTGTGTACTACCCGTGTGCCT
* *
56498568 CACACGAGTGTGTGTACTACTCGTGTGCCT
1 CACACGAGCGTGTGTACTACCCGTGTGCCT
* *
56498598 CACACGAGTGTGTGTACTACCAGTGTGCCT
1 CACACGAGCGTGTGTACTACCCGTGTGCCT
* *
56498628 CACACGGGCGTGTGGT-TTACCCGTGTG
1 CACACGAGCGTGT-GTACTACCCGTGTG
56498655 GGAGTGCCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
30 74 0.97
31 2 0.03
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (30 bp):
CACACGAGCGTGTGTACTACCCGTGTGCCT
Found at i:56509399 original size:22 final size:23
Alignment explanation
Indices: 56509374--56509418 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
56509364 ATTTCACCTC
56509374 CCAA-TTTTTTTAGAATTTTTGA
1 CCAATTTTTTTTAGAATTTTTGA
56509396 CCAATTTTTTTTAGAATTTTTGA
1 CCAATTTTTTTTAGAATTTTTGA
56509419 ATTACCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.56
Consensus pattern (23 bp):
CCAATTTTTTTTAGAATTTTTGA
Found at i:56512715 original size:32 final size:31
Alignment explanation
Indices: 56512664--56512723 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
56512654 AAATTTTTTT
*
56512664 AAAATTTTATGAGAATTAA-TAAGAATTTCCC
1 AAAATTTTAGGAGAATTAATTAA-AATTTCCC
*
56512695 AAAATTTTAGGAGAGTTTAATTAAAATTT
1 AAAATTTTAGGAGA-ATTAATTAAAATTT
56512724 TTAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.52
32 9 0.36
33 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (31 bp):
AAAATTTTAGGAGAATTAATTAAAATTTCCC
Found at i:56513385 original size:36 final size:35
Alignment explanation
Indices: 56513323--56513390 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 35
56513313 GTTTTTTAGG
** *
56513323 GTTAGGGTTTTGTATTTAGTTTTTTTTTAAAACAA
1 GTTAGGGTTTTGTATTTAGTAGTTTTTAAAAACAA
56513358 GTTAGGGTTTATAGT-TTTAGTAGTTTTTAAAAA
1 GTTAGGGTTT-T-GTATTTAGTAGTTTTTAAAAA
56513391 TAAATCAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 10 0.36
36 16 0.57
37 2 0.07
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.51
Consensus pattern (35 bp):
GTTAGGGTTTTGTATTTAGTAGTTTTTAAAAACAA
Found at i:56513498 original size:30 final size:30
Alignment explanation
Indices: 56513426--56513722 Score: 162
Period size: 34 Copynumber: 9.8 Consensus size: 30
56513416 TAAAAATGAT
*
56513426 TTAAATTAGGGTTTAT-GATTTTGAAATAGA
1 TTAAATTAGGGTTTATGGATTTT-AAATAAA
56513456 TTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TT----AAATTAGGGTT-TATGGATTTTAAATAAA
*
56513490 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTTAAAT--A--AA
* *
56513524 GTAAATTAGGGTTCTATGG-TTTTAGATAAA
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
56513554 TTAAATTAGGG-TT-T--A----AAATAAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
56513576 TTAAA-TAGGGTTTAT-GATTTTTAAATAGGTTAA
1 TTAAATTAGGGTTTATGGA-TTTTAAATA----AA
* * * *
56513609 GTAAATTAGGGTTT-TGG-GTTAAAATTAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
56513637 TTAAATTAGGGTTTATGG-TTTTAAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTT-AAAT--A--AA
* * * *
56513671 GTAAATTAGAGTTCTATGG-TTTTAGATAAG
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
56513701 TTAAATTAGGGTTT-TGGATTTT
1 TTAAATTAGGGTTTATGGATTTT
56513723 GGGTTAAAAA
Statistics
Matches: 212, Mismatches: 20, Indels: 71
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.02
22 13 0.06
23 1 0.00
24 1 0.00
27 1 0.00
28 19 0.09
29 18 0.08
30 51 0.24
32 9 0.04
33 7 0.03
34 65 0.31
35 22 0.10
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.42
Consensus pattern (30 bp):
TTAAATTAGGGTTTATGGATTTTAAATAAA
Found at i:56513498 original size:64 final size:64
Alignment explanation
Indices: 56513426--56513568 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
56513416 TAAAAATGAT
56513426 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGG-TTTTAAATAAA
* * * *
56513490 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAAA
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
56513554 TTAAATTAGGGTTTA
1 TTAAATTAGGGTTTA
56513569 AAATAAATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
64 72 0.97
65 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (64 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
Found at i:56513584 original size:21 final size:22
Alignment explanation
Indices: 56513549--56513589 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56513539 ATGGTTTTAG
56513549 ATAAATTAAATTAGGGTTTAAA
1 ATAAATTAAATTAGGGTTTAAA
56513571 ATAAATTAAA-TAGGGTTTA
1 ATAAATTAAATTAGGGTTTA
56513590 TGATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (22 bp):
ATAAATTAAATTAGGGTTTAAA
Found at i:56513585 original size:85 final size:84
Alignment explanation
Indices: 56513474--56513651 Score: 259
Period size: 85 Copynumber: 2.1 Consensus size: 84
56513464 ATTAGGGTTC
* * *
56513474 TAGGATTTTAAATAAATTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-T
* * *
56513539 ATGGTTTTAGATAAATTAAAT
65 -TGGGTTAAAATAAATTAAAT
*
56513560 TAGGGTTTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGGTTAAGTAAATTAGGGTTTT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
*
56513624 GGGTTAAAATTAATTAAAT
66 GGGTTAAAATAAATTAAAT
56513643 TAGGGTTTA
1 TAGGGTTTA
56513652 TGGTTTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
83 25 0.30
84 1 0.01
85 39 0.46
86 19 0.23
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (84 bp):
TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
GGGTTAAAATAAATTAAAT
Found at i:56513652 original size:62 final size:64
Alignment explanation
Indices: 56513566--56513722 Score: 189
Period size: 62 Copynumber: 2.5 Consensus size: 64
56513556 AAATTAGGGT
* * * *
56513566 TTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGGTTAAGTAAATTAGGGTT-T-TGGG
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
56513627 TTAAAATTAATTAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGT
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
56513691 TTTAGA-TAAGTTAAATTAGGGTTT-TGGATTTT
1 TTAAAATTAA-TTAAATTAGGGTTTAT-GATTTT
56513723 GGGTTAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
61 14 0.17
62 37 0.45
63 5 0.06
64 26 0.32
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (64 bp):
TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
Found at i:56513657 original size:35 final size:34
Alignment explanation
Indices: 56513618--56513750 Score: 91
Period size: 35 Copynumber: 4.0 Consensus size: 34
56513608 AGTAAATTAG
56513618 GGTTTTGGGTTAAAATTAATTAAATTAGGGTTTAT
1 GGTTTTGGGTT-AAATTAATTAAATTAGGGTTTAT
**** * * *
56513653 GGTTTTAAAATAGATTAAGTAAATTAGAGTTCTAT
1 GGTTTTGGGTTAAATTAATTAAATTAGGGTT-TAT
*
56513688 GG--TT---TTAGA-TAAGTTAAATTAGGGTTT-T
1 GGTTTTGGGTTAAATTAA-TTAAATTAGGGTTTAT
*
56513716 GGATTTTGGGTTAAAAATAATTAAATTAGGGTTTA
1 GG-TTTTGGGTT-AAATTAATTAAATTAGGGTTTA
56513751 GTTTTTTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
28 3 0.04
29 4 0.05
30 15 0.20
31 2 0.03
33 2 0.03
34 19 0.25
35 28 0.37
36 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.43
Consensus pattern (34 bp):
GGTTTTGGGTTAAATTAATTAAATTAGGGTTTAT
Found at i:56513705 original size:147 final size:150
Alignment explanation
Indices: 56513426--56513714 Score: 467
Period size: 147 Copynumber: 1.9 Consensus size: 150
56513416 TAAAAATGAT
* *
56513426 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGATTTTAAATAAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
* *
56513491 TAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAAATT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
56513556 AAATTAGGGTTTAAAATAAA
131 AAATTAGGGTTTAAAATAAA
* * * * *
56513576 TTAAA-TAGGGTTTATGATTTTTAAATAGGTTAAGTAAATTAGGGTT-TTGG-GTTAAAATTAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
*
56513638 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAGTT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
56513703 AAATTAGGGTTT
131 AAATTAGGGTTT
56513715 TGGATTTTGG
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
147 83 0.64
148 3 0.02
149 38 0.29
150 5 0.04
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.42
Consensus pattern (150 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
AAATTAGGGTTTAAAATAAA
Found at i:56514092 original size:127 final size:126
Alignment explanation
Indices: 56513808--56514566 Score: 1151
Period size: 126 Copynumber: 6.0 Consensus size: 126
56513798 CTATTTTTAC
* * * * *
56513808 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTTAAGCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * * * *
56513873 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGCGGACGTTTTTTTGCTATAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56513934 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTAAAAAATGCTTTAATCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* *
56513999 GCACTGTCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATAT-AGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * * *
56514061 CTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
56514126 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
*
56514187 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
*
56514252 GCACTGTCAGCAAAAATATAGAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAG-AAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56514314 CTTGAAAAAATAATTTTAAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
*
56514379 GCACTGTCAGCAAAAATATAGAAAAAAGCTACTACGTGGACGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * * *
56514440 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCAAAAACACTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * * * * * * *
56514505 GCAATATCATC-AAAATTTCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAATAT-AGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
56514566 C
1 C
56514567 ATGCTTGGCC
Statistics
Matches: 580, Mismatches: 50, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
125 6 0.01
126 340 0.59
127 234 0.40
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
Found at i:56514258 original size:253 final size:253
Alignment explanation
Indices: 56513810--56514566 Score: 1219
Period size: 253 Copynumber: 3.0 Consensus size: 253
56513800 ATTTTTACCC
* * * * * *
56513810 TGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTTAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
* * * * *
56513875 ACTGTCAGCAAAAATACAGAAAAAAGCTACCACGCGGACGTTTTTTTGCTATAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
* *
56513940 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTAAAAAATGCTTTAATCAGGATGCACTG
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTG
56514005 TCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
196 TCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
56514063 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
56514128 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
56514193 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTG
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTG
*
56514258 TCAGCAAAAATATAGAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
196 TCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
*
56514316 TGAAAAAATAATTTTAAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
*
56514381 ACTGTCAGCAAAAATATAGAAAAAAGCTACTACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
* * ** * * *
56514446 AAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCAAAAACACTTCAAGCAGGATGCAATA
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTG
* * *** * * * *
56514511 TCATC-AAAATTTCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
196 TCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTC
56514567 ATGCTTGGCC
Statistics
Matches: 472, Mismatches: 32, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
252 43 0.09
253 429 0.91
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (253 bp):
TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTG
TCAGCAAAAATATAAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
Found at i:56518015 original size:18 final size:18
Alignment explanation
Indices: 56517989--56518030 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56517979 GACTAAGAAA
* * *
56517989 AGGAAACATATATGGGTT
1 AGGATACATATAAGGGCT
56518007 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
56518025 AGGATA
1 AGGATA
56518031 TGTAGCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:56518125 original size:30 final size:30
Alignment explanation
Indices: 56518091--56518149 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
56518081 CATTGAGCTC
* **
56518091 GGTGATTGCGTGGGTGCTGTTGATGGGCCA
1 GGTGATTGCGTGGCTAATGTTGATGGGCCA
*
56518121 GGTGATTGTGTGGCTAATGTTGATGGGCC
1 GGTGATTGCGTGGCTAATGTTGATGGGCC
56518150 CGTGCCTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.44, T:0.32
Consensus pattern (30 bp):
GGTGATTGCGTGGCTAATGTTGATGGGCCA
Found at i:56519633 original size:20 final size:19
Alignment explanation
Indices: 56519607--56519692 Score: 56
Period size: 19 Copynumber: 4.6 Consensus size: 19
56519597 AAAATTAATT
*
56519607 AAAATTACATAAATGAAAA
1 AAAATTAAATAAATGAAAA
*
56519626 AAATATTAAAT-AAT-ATTAA
1 AAA-ATTAAATAAATGA-AAA
* **
56519645 AAAATT--A-AAATTAATT
1 AAAATTAAATAAATGAAAA
*
56519661 AAAATTACATAAATGAAAA
1 AAAATTAAATAAATGAAAA
56519680 AAATATTAAATAA
1 AAA-ATTAAATAA
56519693 TATTCAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
16 10 0.20
17 1 0.02
18 5 0.10
19 20 0.40
20 14 0.28
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTAAATAAATGAAAA
Found at i:56519646 original size:18 final size:18
Alignment explanation
Indices: 56519625--56519707 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
56519615 ATAAATGAAA
56519625 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
* *
56519643 AAAAAATTAAA-ATTAATT
1 AAAATATTAAATAAT-ATT
*
56519661 AAAATTACATAAATGAA-A--
1 AAAA-TA-TTAAAT-AATATT
56519679 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
56519697 CAAAAT-TTAAA
1 -AAAATATTAAA
56519708 ATAAACTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
15 2 0.04
16 6 0.12
17 4 0.08
18 26 0.52
19 6 0.12
20 5 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATATTAAATAATATT
Found at i:56519670 original size:54 final size:54
Alignment explanation
Indices: 56519586--56519709 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
56519576 GTTATAAAAA
*
56519586 ATTATAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
56519640 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
* *
56519694 ATTCAAAATTTAAAAT
1 ATTAAAAAATTAAAAT
56519710 AAACTGTTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (54 bp):
ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
Found at i:56523128 original size:36 final size:36
Alignment explanation
Indices: 56523087--56523160 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
56523077 ATACAAATAC
56523087 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
1 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
56523123 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
1 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
56523159 AA
1 AA
56523161 GAGTTGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (36 bp):
AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
Found at i:56526962 original size:27 final size:27
Alignment explanation
Indices: 56526922--56526977 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
56526912 AAAATAAAAT
*
56526922 ACTGGTCTTACCTCTGTCAGAGGCGGC
1 ACTGGTCTTACCTCTGCCAGAGGCGGC
*
56526949 ACTGGTCTTGCCTCTGCCAGAGGCGGC
1 ACTGGTCTTACCTCTGCCAGAGGCGGC
56526976 AC
1 AC
56526978 CAGTTGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.23
Consensus pattern (27 bp):
ACTGGTCTTACCTCTGCCAGAGGCGGC
Found at i:56533208 original size:19 final size:19
Alignment explanation
Indices: 56533174--56533221 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
56533164 AGAATTATCA
*
56533174 AATAATTATA-ACTATTTG
1 AATAATTGTATACTATTTG
56533192 AATAATTGTATACTATTTG
1 AATAATTGTATACTATTTG
56533211 AATAATTGTAT
1 AATAATTGTAT
56533222 CTTTTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (19 bp):
AATAATTGTATACTATTTG
Found at i:56541836 original size:22 final size:22
Alignment explanation
Indices: 56541806--56541849 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56541796 CAAAATAATA
*
56541806 AAAAATAATAAAAATTTATTAT
1 AAAAATAATAAAAATTCATTAT
* *
56541828 AAAATTAATTAAAATTCATTAT
1 AAAAATAATAAAAATTCATTAT
56541850 TTTAATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAATAATAAAAATTCATTAT
Done.